Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 145 of 189
Found at i:44156563 original size:15 final size:17
Alignment explanation
Indices: 44156545--44156576 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44156535 CAATGACAAT
44156545 ACCAG-CAA-TTGCTCC
1 ACCAGACAACTTGCTCC
44156560 ACCAGACAACTTGCTCC
1 ACCAGACAACTTGCTCC
44156577 CACTACTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.28, C:0.41, G:0.12, T:0.19
Consensus pattern (17 bp):
ACCAGACAACTTGCTCC
Found at i:44157963 original size:22 final size:21
Alignment explanation
Indices: 44157937--44157977 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44157927 AATTTAAAAA
44157937 TTCAAAAAATTATAAAATTATT
1 TTCAAAAAATTA-AAAATTATT
**
44157959 TTCAAACTATTAAAAATTA
1 TTCAAAAAATTAAAAATTA
44157978 CTAAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TTCAAAAAATTAAAAATTATT
Found at i:44158004 original size:30 final size:29
Alignment explanation
Indices: 44157940--44158012 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
44157930 TTAAAAATTC
*
44157940 AAAAAATTATAAAATTATTTTCAAACTAT
1 AAAAAATTATAAAATTATTTTAAAACTAT
* *
44157969 TAAAAATTACTAAAATTA-TTTAAAAGTAT
1 AAAAAATTA-TAAAATTATTTTAAAACTAT
*
44157998 AAAAAAACTATAAAA
1 -AAAAAATTATAAAA
44158013 AATATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAAAATTATAAAATTATTTTAAAACTAT
Found at i:44158253 original size:27 final size:26
Alignment explanation
Indices: 44158222--44158279 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
44158212 AATGTATCAT
44158222 AAAATA-AAAAATATCATGAATATGATA
1 AAAATACAAAAATATCAT-AATAT-ATA
* * *
44158249 CAAATACATAAATATTATAATATATA
1 AAAATACAAAAATATCATAATATATA
44158275 AAAAT
1 AAAAT
44158280 TATTATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.27
27 10 0.38
28 9 0.35
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAATACAAAAATATCATAATATATA
Found at i:44159554 original size:23 final size:23
Alignment explanation
Indices: 44159505--44159555 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
44159495 AATATTTGTT
* *
44159505 TTTAATTTTTATATTTTTTTAAT
1 TTTAATTTTTATATTTTTTAAAA
*
44159528 TTTAGTTTTTATATTTTTTAAAA
1 TTTAATTTTTATATTTTTTAAAA
44159551 TTTAA
1 TTTAA
44159556 AATTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTAATTTTTATATTTTTTAAAA
Found at i:44160196 original size:2 final size:2
Alignment explanation
Indices: 44160191--44160222 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44160181 TTTTATTTTA
44160191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44160223 CTTTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44160657 original size:20 final size:20
Alignment explanation
Indices: 44160629--44160673 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
44160619 TTATATGTAC
*
44160629 ATTAAT-AAATAATTTAAAAA
1 ATTAATAAAAT-ATTCAAAAA
*
44160649 ATTATTAAAATATTCAAAAA
1 ATTAATAAAATATTCAAAAA
44160669 ATTAA
1 ATTAA
44160674 AAATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAATAAAATATTCAAAAA
Found at i:44160690 original size:27 final size:27
Alignment explanation
Indices: 44160645--44160696 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
44160635 AAATAATTTA
44160645 AAAAATTATTAAAATATTCAAAAAATT
1 AAAAATTATTAAAATATTCAAAAAATT
*
44160672 AAAAATT-TTATAATAATTCAAAAAA
1 AAAAATTATTAAAAT-ATTCAAAAAA
44160697 GTTAGCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATTATTAAAATATTCAAAAAATT
Found at i:44161464 original size:31 final size:32
Alignment explanation
Indices: 44161410--44161485 Score: 127
Period size: 31 Copynumber: 2.4 Consensus size: 32
44161400 CTTAGCAGCC
*
44161410 CAGTGACTTAAATAATTTTTTTTTGAATAGTT
1 CAGTGACTTAAATAATTTTTTTTTGAATAGCT
*
44161442 TAGTGACTTAAATAA-TTTTTTTTGAATAGCT
1 CAGTGACTTAAATAATTTTTTTTTGAATAGCT
44161473 CAGTGACTTAAAT
1 CAGTGACTTAAAT
44161486 GAAAACTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 27 0.66
32 14 0.34
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (32 bp):
CAGTGACTTAAATAATTTTTTTTTGAATAGCT
Found at i:44161509 original size:31 final size:31
Alignment explanation
Indices: 44161411--44161509 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
44161401 TTAGCAGCCC
*** *
44161411 AGTGACTTAAATAATTTTTTTTTGAATAGTTT
1 AGTGACTTAAATAA-TAACTTTCGAATAGTTT
*** * * *
44161443 AGTGACTTAAATAATTTTTTTTGAATAGCTC
1 AGTGACTTAAATAATAACTTTCGAATAGTTT
44161474 AGTGACTTAAATGAA-AACTTTCGAATAGTTT
1 AGTGACTTAAAT-AATAACTTTCGAATAGTTT
44161505 AGTGA
1 AGTGA
44161510 TCAAATTGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 42 0.72
32 16 0.28
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (31 bp):
AGTGACTTAAATAATAACTTTCGAATAGTTT
Found at i:44161676 original size:31 final size:29
Alignment explanation
Indices: 44161638--44161705 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
44161628 ATCTCAAAAC
*
44161638 TATACATGAACTATGGTTTAATGTGCAATTT
1 TATACATGAACTATGATTT--TGTGCAATTT
* *
44161669 TATACATG--CTTTGATTTTGTGTAATTT
1 TATACATGAACTATGATTTTGTGCAATTT
44161696 TATACATGAA
1 TATACATGAA
44161706 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 17 0.53
29 7 0.22
31 8 0.25
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTT
Found at i:44167587 original size:68 final size:69
Alignment explanation
Indices: 44167444--44167603 Score: 202
Period size: 68 Copynumber: 2.3 Consensus size: 69
44167434 TTTTTCCAAC
* *
44167444 ATATAACTTTTTGTATGTC-ATAGAGGCTTGTCACTTTATGTATGTGTAAATGGATGTGGTGGTG
1 ATATAACTTTTTGTATG-CAATTGAGGCTTGTCACTTTATGTATGTGTAAACGGATGTGGTGGTG
44167508 AACTA
65 AACTA
* *
44167513 ATATAACCTTTTGTATGCAATTGTAGG-TTGTCACTTT-TGTATGTTTAAAC-GAGTGTGGTGGT
1 ATATAACTTTTTGTATGCAATTG-AGGCTTGTCACTTTATGTATGTGTAAACGGA-TGTGGTGGT
* *
44167575 GGAGTA
64 GAACTA
*
44167581 ATATAACTTTTTGTATGTAATTG
1 ATATAACTTTTTGTATGCAATTG
44167604 CAGGATGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
67 2 0.03
68 46 0.57
69 29 0.36
70 3 0.04
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (69 bp):
ATATAACTTTTTGTATGCAATTGAGGCTTGTCACTTTATGTATGTGTAAACGGATGTGGTGGTGA
ACTA
Found at i:44168125 original size:20 final size:20
Alignment explanation
Indices: 44168072--44168266 Score: 124
Period size: 20 Copynumber: 9.7 Consensus size: 20
44168062 TTTTGAGTCA
44168072 AGTGAAATTTTTTTAAATCG
1 AGTGAAATTTTTTTAAATCG
* *** *
44168092 AGTAAAACCGTTTTAAATTG
1 AGTGAAATTTTTTTAAATCG
* * *
44168112 AGTGAAATTTTTTTGACTCA
1 AGTGAAATTTTTTTAAATCG
****
44168132 AGTGAAAAACAATTTAAATCG
1 AGTG-AAATTTTTTTAAATCG
*** *
44168153 AGTGAAACGATTTTAAATCA
1 AGTGAAATTTTTTTAAATCG
*
44168173 AGTGAAAATTTTTTAAATCG
1 AGTGAAATTTTTTTAAATCG
*** *
44168193 AGTGAAACAATTTTAAAT-T
1 AGTGAAATTTTTTTAAATCG
* **
44168212 AGGTGAAATTTTTTTTACCCG
1 A-GTGAAATTTTTTTAAATCG
*
44168233 AGTGAAAAATTTTTTAAATCG
1 AGTG-AAATTTTTTTAAATCG
44168254 AGTG-AATTTTTTT
1 AGTGAAATTTTTTT
44168267 TGACTCAAGT
Statistics
Matches: 127, Mismatches: 44, Indels: 9
0.71 0.24 0.05
Matches are distributed among these distances:
19 9 0.07
20 88 0.69
21 30 0.24
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (20 bp):
AGTGAAATTTTTTTAAATCG
Found at i:44168185 original size:101 final size:101
Alignment explanation
Indices: 44168069--44168259 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
44168059 CAATTTTGAG
* ** *
44168069 TCAAGTGAAATTTTTTTAAATCGAGTAAAACCGTTTTAAATT-GAGTGAAATTTTTTTGACTCAA
1 TCAAGTGAAAATTTTTTAAATCGAGTAAAACAATTTTAAATTAG-GTGAAATTTTTTTGACCCAA
44168133 GTGAAAAACAATTTAAATCGAGTGAAACGATTTTAAA
65 GTGAAAAACAATTTAAATCGAGTGAAACGATTTTAAA
* * *
44168170 TCAAGTGAAAATTTTTTAAATCGAGTGAAACAATTTTAAATTAGGTGAAATTTTTTTTACCCGAG
1 TCAAGTGAAAATTTTTTAAATCGAGTAAAACAATTTTAAATTAGGTGAAATTTTTTTGACCCAAG
***
44168235 TGAAAAATTTTTTAAATCGAGTGAA
66 TGAAAAACAATTTAAATCGAGTGAA
44168260 TTTTTTTTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 78 0.99
102 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (101 bp):
TCAAGTGAAAATTTTTTAAATCGAGTAAAACAATTTTAAATTAGGTGAAATTTTTTTGACCCAAG
TGAAAAACAATTTAAATCGAGTGAAACGATTTTAAA
Found at i:44168197 original size:61 final size:61
Alignment explanation
Indices: 44168082--44168259 Score: 166
Period size: 61 Copynumber: 2.9 Consensus size: 61
44168072 AGTGAAATTT
* * * * * *
44168082 TTTTAAATCGAGTAAAACCGTTTTAAATTGAGTGAAATTTTTTTGACTCAAGTGAAAAACAA
1 TTTTAAATCGAGTGAAA-CGTTTTAAATCGAGTGAAAATTTTTTAAATCGAGTGAAAAACAA
*
44168144 -TTTAAATCGAGTGAAACGATTTTAAATCAAGTGAAAATTTTTTAAATCGAGTG--AAACAA
1 TTTTAAATCGAGTGAAACG-TTTTAAATCGAGTGAAAATTTTTTAAATCGAGTGAAAAACAA
* ** * **
44168203 TTTTAAAT-TAGGTGAAATTTTTTTTACCCGAGTGAAAAATTTTTTAAATCGAGTGAA
1 TTTTAAATCGA-GTGAAA-CGTTTTAAATCGAGTG-AAAATTTTTTAAATCGAGTGAA
44168260 TTTTTTTTGA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
59 7 0.07
60 25 0.26
61 63 0.66
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (61 bp):
TTTTAAATCGAGTGAAACGTTTTAAATCGAGTGAAAATTTTTTAAATCGAGTGAAAAACAA
Found at i:44168248 original size:41 final size:39
Alignment explanation
Indices: 44168150--44168282 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 39
44168140 ACAATTTAAA
* * * * * *
44168150 TCGAGTGAAACGATTTTAAATCAAGTGAAAATTTTTTAAA
1 TCGAGTGAAA-AATTTTAAATTAGGTGAAATTTTTTTTAC
44168190 TCGAGTGAAACAATTTTAAATTAGGTGAAATTTTTTTTAC
1 TCGAGTGAAA-AATTTTAAATTAGGTGAAATTTTTTTTAC
* *
44168230 CCGAGTGAAAAATTTTTTAAA-TCGAGTG-AATTTTTTTTGAC
1 TCGAGTGAAAAA--TTTTAAATTAG-GTGAAATTTTTTTT-AC
*
44168271 TCAAGTGAAAAA
1 TCGAGTGAAAAA
44168283 CTACTCCCTA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
39 2 0.03
40 55 0.70
41 22 0.28
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (39 bp):
TCGAGTGAAAAATTTTAAATTAGGTGAAATTTTTTTTAC
Found at i:44168412 original size:113 final size:112
Alignment explanation
Indices: 44168295--44168513 Score: 269
Period size: 112 Copynumber: 1.9 Consensus size: 112
44168285 ACTCCCTAAC
**
44168295 AAAAAGAATCGATA-CTTATAAAAGCATCGATACCAAAATGCCATTCTGACTTCAAAGGAATTTG
1 AAAAAGAATCGATACCTT-TAAAAGCATCGATACCAAAATAAC-TTCTGACTTCAAAGGAATTTG
* * *
44168359 ATCAAACAAATTTTTATCGATAGTTTGCAAAAAGTATCGATACCTCAAG
64 AGCAAACAAATTTTTATCGATACTTTGCAAAAAGTATCAATACCTCAAG
** *** * * *
44168408 AAAAATCATCGATACCTTTTTCAGTATCGATACCAAAATAACTTGTGACTTCGAAGGAATTTGAG
1 AAAAAGAATCGATACCTTTAAAAGCATCGATACCAAAATAACTTCTGACTTCAAAGGAATTTGAG
* **
44168473 CAAGCATGTTTTTATCGATACTTTGCAAAAAGTATCAATAC
66 CAAACAAATTTTTATCGATACTTTGCAAAAAGTATCAATAC
44168514 TTACAAAATA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
112 56 0.63
113 30 0.34
114 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (112 bp):
AAAAAGAATCGATACCTTTAAAAGCATCGATACCAAAATAACTTCTGACTTCAAAGGAATTTGAG
CAAACAAATTTTTATCGATACTTTGCAAAAAGTATCAATACCTCAAG
Found at i:44168498 original size:112 final size:112
Alignment explanation
Indices: 44168320--44168564 Score: 305
Period size: 112 Copynumber: 2.2 Consensus size: 112
44168310 TTATAAAAGC
** * *
44168320 ATCGATACCAAAATGCCATTCTGACTTCAAAGGAATTTGATCAAACAAATTTTTATCGATAGTTT
1 ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
* *
44168385 GCAAAAAGTATCGATACCTCA-AGAAAAATCATCGATACCTTTTTCAGT
66 GCAAAAAGTATCAATA-CTCACA-AAAAATCATCGATACATTTTTCAGT
* * * **
44168433 ATCGATACCAAAATAAC-TTGTGACTTCGAAGGAATTTGAGCAAGCATGTTTTTATCGATACTTT
1 ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
* * * *
44168497 GCAAAAAGTATCAATACTTACAAAATATTATCGATACATTTTTCGGT
66 GCAAAAAGTATCAATACTCACAAAAAATCATCGATACATTTTTCAGT
* *
44168544 ATCGATACGAAAATGACATTC
1 ATCGATACCAAAATAACATTC
44168565 AACGTAAAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
111 39 0.35
112 58 0.52
113 15 0.13
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (112 bp):
ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
GCAAAAAGTATCAATACTCACAAAAAATCATCGATACATTTTTCAGT
Found at i:44168818 original size:26 final size:25
Alignment explanation
Indices: 44168770--44168818 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
44168760 AAATATAAAA
* *
44168770 ATAAAATCTTTTTATATAATTTAAT
1 ATAAAATATTTTTAAATAATTTAAT
*
44168795 ATAAAATATTGTTTAAATATTTTA
1 ATAAAATATT-TTTAAATAATTTA
44168819 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATAAAATATTTTTAAATAATTTAAT
Found at i:44168838 original size:21 final size:21
Alignment explanation
Indices: 44168814--44168869 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
44168804 TGTTTAAATA
44168814 TTTTATGTTAAATTATTATTC
1 TTTTATGTTAAATTATTATTC
*
44168835 -TTT-TGATAGAATATATTATTC
1 TTTTATGTTA-AAT-TATTATTC
* *
44168856 TTTAATATTAAATT
1 TTTTATGTTAAATT
44168870 GGTGTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 9 0.33
22 5 0.19
23 3 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTATGTTAAATTATTATTC
Found at i:44172391 original size:43 final size:43
Alignment explanation
Indices: 44172327--44172441 Score: 164
Period size: 43 Copynumber: 2.7 Consensus size: 43
44172317 GAACAACGCT
* *
44172327 AACGTCCCAAACGTGGTCTTACATG-TAATCACAAATCGATGCC
1 AACGTCCCAAACGTGGTCTTACACGAAAAT-ACAAATCGATGCC
44172370 -ACTGTCCCAAACAG-GGTCTTACACGAAAATACAAATCGATGCC
1 AAC-GTCCCAAAC-GTGGTCTTACACGAAAATACAAATCGATGCC
44172413 AACGTCCCAAACGTGGTCTTACACGAAAA
1 AACGTCCCAAACGTGGTCTTACACGAAAA
44172442 CACTTATAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
42 3 0.05
43 56 0.86
44 6 0.09
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (43 bp):
AACGTCCCAAACGTGGTCTTACACGAAAATACAAATCGATGCC
Found at i:44175322 original size:20 final size:20
Alignment explanation
Indices: 44175291--44175340 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
44175281 ACTTCCCCAT
44175291 CTTTTCTATTTTTT-TGTTTT-
1 CTTTTCT-TTTTTTCT-TTTTC
44175311 C-TTTCTTTTTTTCTTTTTC
1 CTTTTCTTTTTTTCTTTTTC
44175330 CTTTTCTTTTT
1 CTTTTCTTTTT
44175341 GTTAATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (20 bp):
CTTTTCTTTTTTTCTTTTTC
Found at i:44175815 original size:36 final size:35
Alignment explanation
Indices: 44175703--44175818 Score: 99
Period size: 36 Copynumber: 3.2 Consensus size: 35
44175693 GTGGGGAGGT
* * * **
44175703 CGTGTGGGGCACACAGCTGTGTGTAATTTTGTAGC
1 CGTGTGGGACACACAGCCGTGTGAAATCATGTAGC
* * * *
44175738 CTGTATGGGACACA-AGGCCGTGTGATATCATGTTGGT
1 C-GTGTGGGACACACA-GCCGTGTGAAATCATG-TAGC
*
44175775 CGTGTGGGACACACAGCCGTGTGAAATCATGCAGAC
1 CGTGTGGGACACACAGCCGTGTGAAATCATGTAG-C
44175811 CGTGTGGG
1 CGTGTGGG
44175819 TAGACCGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
35 3 0.05
36 55 0.89
37 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (35 bp):
CGTGTGGGACACACAGCCGTGTGAAATCATGTAGC
Found at i:44176586 original size:33 final size:32
Alignment explanation
Indices: 44176494--44176587 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 32
44176484 TTCTAGTCTG
*
44176494 ATATGACATTCTGTTCTGATATATGTTTCTGAAA
1 ATATGACATT-TGATCTGATATATG-TTCTGAAA
* ** *
44176528 ATATGATATTTCGATCCAAAATATGTTCTGAAA
1 ATATGACATTT-GATCTGATATATGTTCTGAAA
*
44176561 ATATGACATTATGATCTGATGTATGTT
1 ATATGACATT-TGATCTGATATATGTT
44176588 TCTGGTAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
33 29 0.60
34 19 0.40
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (32 bp):
ATATGACATTTGATCTGATATATGTTCTGAAA
Found at i:44179430 original size:25 final size:24
Alignment explanation
Indices: 44179377--44179438 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
44179367 TTGCTCTCTG
*
44179377 TTTCTTTTCTTCTTTGTTTTGTTTC
1 TTTCTTTTCTT-TTTGTTTTGTTTA
*
44179402 TTTCTTTTC-TTTTGTTTTATTTTTA
1 TTTCTTTTCTTTTTG-TTT-TGTTTA
*
44179427 TTTCTTTACTTT
1 TTTCTTTTCTTT
44179439 ATATTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 21 0.68
26 2 0.06
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTCTTTTCTTTTTGTTTTGTTTA
Found at i:44179475 original size:19 final size:19
Alignment explanation
Indices: 44179440--44179494 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
44179430 CTTTACTTTA
* *
44179440 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
44179458 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
44179477 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
44179495 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:44183160 original size:3 final size:3
Alignment explanation
Indices: 44183121--44183148 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44183111 ATGTCTTTAC
44183121 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44183149 GGCTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:44184509 original size:20 final size:18
Alignment explanation
Indices: 44184471--44184504 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44184461 ATTTTTTCTC
*
44184471 TTCTCCTCCTTTTTCTTT
1 TTCTCCTCCTTCTTCTTT
44184489 TTCTCCT-CTTCTTCTT
1 TTCTCCTCCTTCTTCTT
44184505 CTTTTCTTTT
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCTCCTCCTTCTTCTTT
Found at i:44184524 original size:23 final size:24
Alignment explanation
Indices: 44184462--44184524 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
44184452 GGCATCTCCA
*
44184462 TTTTTTCTCTTCTCCTCCTTTTTC
1 TTTTTTCTCTTCTTCTCCTTTTTC
*
44184486 TTTTTCTCCTCTTCTTCTTC-TTTTC
1 TTTTT-T-CTCTTCTTCTCCTTTTTC
44184511 TTTTTTCTCTTCTT
1 TTTTTTCTCTTCTT
44184525 AAACCTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.23
24 6 0.17
25 11 0.31
26 10 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTCTCTTCTTCTCCTTTTTC
Found at i:44188435 original size:21 final size:21
Alignment explanation
Indices: 44188367--44188436 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
44188357 TTTCAACTTT
*
44188367 TTTATAGTATTATACATTATA
1 TTTATAGTATTATATATTATA
* *
44188388 --AAGTAG-ATTATATATTATT
1 TTTA-TAGTATTATATATTATA
44188407 TTTATAGTATTATATATTATGA
1 TTTATAGTATTATATATTAT-A
44188429 TTT-TAGTA
1 TTTATAGTA
44188437 AATTCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 12 0.31
20 6 0.15
21 18 0.46
22 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTATAGTATTATATATTATA
Found at i:44188478 original size:17 final size:18
Alignment explanation
Indices: 44188453--44188498 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
44188443 TATAAGAATA
*
44188453 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
44188470 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
44188488 ATTAAATTATA
1 ATTAAATTATA
44188499 TTTAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:44188538 original size:59 final size:59
Alignment explanation
Indices: 44188475--44188663 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 59
44188465 ATTTTATTAA
44188475 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTATATTTTATAGT
* * * * *
44188534 ATTATATATTATGATTTTAGTAAATT-CATTTAAGAA-TATTTAATATTA-A-GA-ATTTTATTA
1 A-T-TATA-TAT--TTTTATTAAATTATATTTAATAATTA-TT-ATTTTAGATTATATTTTA-TA
*
44188594 -A
58 GT
*
44188595 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTGTATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTATATTTTATAGT
44188654 ATTATATATT
1 ATTATATATT
44188664 ATGATTTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
56 16 0.16
57 11 0.11
58 7 0.07
59 21 0.20
60 2 0.02
61 11 0.11
62 8 0.08
63 11 0.11
64 16 0.16
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (59 bp):
ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTATATTTTATAGT
Found at i:44188540 original size:41 final size:39
Alignment explanation
Indices: 44188366--44188684 Score: 160
Period size: 41 Copynumber: 8.0 Consensus size: 39
44188356 ATTTCAACTT
* * **
44188366 TTTTATAGTATTATACATT-ATAAAGTAGATTATATATTAT-
1 TTTTATAGTATTATATATTAAT-AATTTTATTA-A-ATTATA
* *
44188406 TTTTATAGTATTATATATT-ATGATTTTAGTAAATTCATA
1 TTTTATAGTATTATATATTAATAATTTTATTAAATT-ATA
* * *
44188445 ---TA-AGAATAATTATATTAAGAATTTTATTAAATTATA
1 TTTTATAGTATTA-TATATTAATAATTTTATTAAATTATA
* * *
44188481 TATTTTTATTAAATTATAT-TTAATAATTATTATTTTAGATTATA
1 T-TTTATAGT--ATTATATATTAATAATT-TTA--TTAAATTATA
* * *
44188525 TTTTATAGTATTATATATT-ATGATTTTAGTAAATT-CA
1 TTTTATAGTATTATATATTAATAATTTTATTAAATTATA
* * * *
44188562 TTTAAGAATATT-TAATATTAAGAATTTTATTAAATTATA
1 TTTTATAGTATTAT-ATATTAATAATTTTATTAAATTATA
* * * *
44188601 TATTTTTATTAAATTATAT-TTAATAATTATTATTTTAGATTGTA
1 T-TTTATAGT--ATTATATATTAATAATT-TTA--TTAAATTATA
*
44188645 TTTTATAGTATTATATATT-ATGATTTTATTAAATTCATA
1 TTTTATAGTATTATATATTAATAATTTTATTAAATT-ATA
44188684 T
1 T
44188685 AAGAATATTT
Statistics
Matches: 210, Mismatches: 42, Indels: 55
0.68 0.14 0.18
Matches are distributed among these distances:
35 5 0.02
36 12 0.06
37 31 0.15
38 27 0.13
39 10 0.05
40 31 0.15
41 41 0.20
42 18 0.09
43 16 0.08
44 19 0.09
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (39 bp):
TTTTATAGTATTATATATTAATAATTTTATTAAATTATA
Found at i:44188615 original size:120 final size:120
Alignment explanation
Indices: 44188401--44188752 Score: 629
Period size: 120 Copynumber: 3.0 Consensus size: 120
44188391 TAGATTATAT
*
44188401 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
44188464 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
*
44188519 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
44188584 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
* *
44188639 ATTGTATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
44188704 AATTCTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATTAT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTAT
44188753 GTTAAAATAT
Statistics
Matches: 225, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
118 5 0.02
119 77 0.34
120 143 0.64
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
Found at i:44188721 original size:59 final size:59
Alignment explanation
Indices: 44188419--44188789 Score: 235
Period size: 55 Copynumber: 6.3 Consensus size: 59
44188409 TATAGTATTA
*
44188419 TATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATTTTATTAAAT
** * * *
44188477 TATA-TAT--TTTTATTAAATT-ATAT-TTAATAATTATTATTTTAGATTATATTT-TATAGTAT
1 TATATTATGATTTTATTAAATTCATATAAGAATAATTAATA-TTAAGA--AT-TTTAT-TA--AA
44188536 T
59 T
* * *
44188537 ATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATTATGATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATTTTATTAAAT
** * * *
44188597 TATA-TAT--TTTTATTAAATT-ATAT-TTAATAATTATTATTTTAGATTGTATTTTA-TAGTAT
1 TATATTATGATTTTATTAAATTCATATAAGAATAATTA--ATATTA-A--GAATTTTATTA--AA
44188656 T
59 T
* *
44188657 ATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTCTATTAAA-
1 -TATATTATGATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATTTTATTAAAT
* * * *
44188716 T-TA-TAT-ATTTTATTAAATT-ATATTTAATAATAATT-ATGTTAA-AATATGATTAAAT
1 TATATTATGATTTTATTAAATTCATA--TAAGAATAATTAATATTAAGAATTTTATTAAAT
*
44188771 TAT-TTATTATTTATATTAA
1 TATATTATGATTT-TATTAA
44188790 TAATCTTATT
Statistics
Matches: 242, Mismatches: 35, Indels: 72
0.69 0.10 0.21
Matches are distributed among these distances:
53 7 0.03
54 25 0.10
55 39 0.16
56 32 0.13
57 13 0.05
58 21 0.09
59 11 0.05
60 7 0.03
61 14 0.06
62 13 0.05
63 4 0.02
64 28 0.12
65 12 0.05
66 16 0.07
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (59 bp):
TATATTATGATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATTTTATTAAAT
Found at i:44188996 original size:16 final size:16
Alignment explanation
Indices: 44188977--44189007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44188967 ACTATTACGT
44188977 CTCTATTCCATTACAC
1 CTCTATTCCATTACAC
*
44188993 CTCTATTCTATTACA
1 CTCTATTCCATTACA
44189008 ACGAACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTACAC
Found at i:44195624 original size:17 final size:17
Alignment explanation
Indices: 44195604--44195638 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44195594 ATAAGAATTC
44195604 AAAAAAG-AGAAGAAAAG
1 AAAAAAGCAG-AGAAAAG
44195621 AAAAAAGCAGAGAAAAG
1 AAAAAAGCAGAGAAAAG
44195638 A
1 A
44195639 TGGAGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAAGCAGAGAAAAG
Found at i:44200944 original size:26 final size:26
Alignment explanation
Indices: 44200871--44200931 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
44200861 ATATTTTCTG
*
44200871 AAAATTTTACCAGAGG-CAAAA-TAGTC
1 AAAATTTTACCAG-GGATAAAATTA-TC
44200897 AAAATTTTACCAGGGATAAAATTATC
1 AAAATTTTACCAGGGATAAAATTATC
44200923 AAAATTTTA
1 AAAATTTTA
44200932 TTGGGGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 28 0.88
27 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAGGGATAAAATTATC
Found at i:44208205 original size:9 final size:9
Alignment explanation
Indices: 44208181--44208217 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44208171 TGAGTTTTCG
*
44208181 AATTCAAAT
1 AATTCGAAT
*
44208190 AACTCGAAT
1 AATTCGAAT
44208199 AATTCGAAT
1 AATTCGAAT
44208208 AATTCGAAT
1 AATTCGAAT
44208217 A
1 A
44208218 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44209065 original size:19 final size:19
Alignment explanation
Indices: 44209041--44209077 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44209031 AGTTAATAAA
44209041 AAATTTGATTAAGATGGGC
1 AAATTTGATTAAGATGGGC
* *
44209060 AAATTTTATTACGATGGG
1 AAATTTGATTAAGATGGG
44209078 TGGCAGTGGT
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:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (19 bp):
AAATTTGATTAAGATGGGC
Found at i:44212321 original size:7 final size:7
Alignment explanation
Indices: 44212311--44212380 Score: 50
Period size: 7 Copynumber: 10.0 Consensus size: 7
44212301 GTTAATTGAT
44212311 GGGTTTA
1 GGGTTTA
44212318 GGGTTTA
1 GGGTTTA
* *
44212325 AGTTTTA
1 GGGTTTA
* *
44212332 TGGTTTG
1 GGGTTTA
*
44212339 GGGTTTG
1 GGGTTTA
*
44212346 GGGTTAA
1 GGGTTTA
44212353 GGGTTTA
1 GGGTTTA
** *
44212360 TAGTTTG
1 GGGTTTA
44212367 GGGTTTA
1 GGGTTTA
*
44212374 GGATTTA
1 GGGTTTA
44212381 CAATTAATTA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:44212343 original size:28 final size:29
Alignment explanation
Indices: 44212311--44212380 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 29
44212301 GTTAATTGAT
* *
44212311 GGGTTTAGGGTTTAA-GTTTTATGGTTTG
1 GGGTTTAGGGTTTAAGGGTTTATAGTTTG
*
44212339 GGGTTT-GGGGTTAAGGGTTTATAGTTTG
1 GGGTTTAGGGTTTAAGGGTTTATAGTTTG
*
44212367 GGGTTTAGGATTTA
1 GGGTTTAGGGTTTA
44212381 CAATTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.20
28 23 0.66
29 5 0.14
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (29 bp):
GGGTTTAGGGTTTAAGGGTTTATAGTTTG
Found at i:44212365 original size:21 final size:21
Alignment explanation
Indices: 44212341--44212380 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44212331 ATGGTTTGGG
*
44212341 GTTTGGGGTTAAGGGTTTATA
1 GTTTGGGGTTAAGGATTTATA
*
44212362 GTTTGGGGTTTAGGATTTA
1 GTTTGGGGTTAAGGATTTA
44212381 CAATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (21 bp):
GTTTGGGGTTAAGGATTTATA
Found at i:44212820 original size:16 final size:16
Alignment explanation
Indices: 44212796--44212854 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
44212786 TTGTCAAAAG
*
44212796 TAATTAAAGATACAAT
1 TAATAAAAGATACAAT
44212812 TAATAAAAGATACAAT
1 TAATAAAAGATACAAT
* *
44212828 TAAGAAATAAATA-AAT
1 TAATAAA-AGATACAAT
*
44212844 AAATAAAAGAT
1 TAATAAAAGAT
44212855 GTGAGATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 3 0.08
16 29 0.81
17 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (16 bp):
TAATAAAAGATACAAT
Found at i:44213204 original size:24 final size:24
Alignment explanation
Indices: 44213171--44213230 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
44213161 CACTTAGCCG
44213171 AAATTCCCCCCAAATTTCT-CCCCA
1 AAATT-CCCCCAAATTTCTCCCCCA
* *
44213195 AAATTGCCCCC-GATTTTTCCCCCA
1 AAATT-CCCCCAAATTTCTCCCCCA
*
44213219 AAAATCCCCCAA
1 AAATTCCCCCAA
44213231 TTCTAGAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.30, C:0.43, G:0.03, T:0.23
Consensus pattern (24 bp):
AAATTCCCCCAAATTTCTCCCCCA
Found at i:44215510 original size:9 final size:9
Alignment explanation
Indices: 44215496--44216191 Score: 200
Period size: 9 Copynumber: 78.2 Consensus size: 9
44215486 ATTAGTATTA
44215496 TACATAACT
1 TACATAACT
44215505 TACATAACT
1 TACATAACT
44215514 TA-ATTAA-T
1 TACA-TAACT
*
44215522 TA-AT-ATT
1 TACATAACT
44215529 ATACATAACT
1 -TACATAACT
44215539 TAC--AACT
1 TACATAACT
44215546 TACATAACT
1 TACATAACT
*
44215555 TACATTAATAT
1 TACA-TAA-CT
*
44215566 TAAACATAAAT
1 T--ACATAACT
44215577 TACATAACT
1 TACATAACT
*
44215586 TACATTAATATT
1 TACA-T-A-ACT
*
44215598 ATACATAAAT
1 -TACATAACT
44215608 TACATAACT
1 TACATAACT
44215617 TA-ATTAA-T
1 TACA-TAACT
*
44215625 TA-AT-ATT
1 TACATAACT
44215632 ATACATAACT
1 -TACATAACT
*
44215642 TACATTAATATT
1 TACA-T-A-ACT
*
44215654 ATACATAAAT
1 -TACATAACT
44215664 TACATAACT
1 TACATAACT
*
44215673 TACATTAATAT
1 TACA-TAA-CT
*
44215684 TAAACATAAAT
1 T--ACATAACT
*
44215695 TATATAACT
1 TACATAACT
*
44215704 TACATTAATATT
1 TACA-T-A-ACT
*
44215716 ATACATAAAT
1 -TACATAACT
44215726 TACATAACT
1 TACATAACT
44215735 TA-ATTAA-T
1 TACA-TAACT
*
44215743 TA-AT-ATT
1 TACATAACT
*
44215750 ATACATAAAT
1 -TACATAACT
44215760 TACATAACT
1 TACATAACT
44215769 TA-ATTAA-T
1 TACA-TAACT
*
44215777 TA-AT-ATT
1 TACATAACT
*
44215784 ATACATAAAT
1 -TACATAACT
44215794 TACATAACT
1 TACATAACT
44215803 TA-ATTAA-T
1 TACA-TAACT
*
44215811 TA-AT-ATT
1 TACATAACT
44215818 ATACATAACT
1 -TACATAACT
44215828 TAC--AACT
1 TACATAACT
44215835 TACATAACT
1 TACATAACT
***
44215844 TACATTTTTT
1 TACA-TAACT
*
44215854 TA-ATTA-T
1 TACATAACT
*
44215861 T-CATAAAT
1 TACATAACT
44215869 TACATAACT
1 TACATAACT
*
44215878 TACATTAATATT
1 TACA-T-A-ACT
*
44215890 ATACATAAAT
1 -TACATAACT
44215900 TACATAACT
1 TACATAACT
44215909 TA-ATTAA-T
1 TACA-TAACT
*
44215917 ATACATAAAT
1 -TACATAACT
44215927 TACATAACT
1 TACATAACT
*
44215936 TACATTAATATT
1 TACA-T-A-ACT
*
44215948 ATACATAAAT
1 -TACATAACT
44215958 TACATAACT
1 TACATAACT
44215967 TA-ATTAA-T
1 TACA-TAACT
*
44215975 TA-AT-ATT
1 TACATAACT
44215982 ATACATAACT
1 -TACATAACT
44215992 TAC--AACT
1 TACATAACT
44215999 TACATAACT
1 TACATAACT
***
44216008 TACATTTTTT
1 TACA-TAACT
*
44216018 TA-ATTA-T
1 TACATAACT
*
44216025 T-CATAAAT
1 TACATAACT
44216033 TACATAACT
1 TACATAACT
* *
44216042 TACTTAATT
1 TACATAACT
*
44216051 TTCATAA--
1 TACATAACT
*
44216058 TAAATAACT
1 TACATAACT
44216067 TACATAACT
1 TACATAACT
44216076 TACATAA--
1 TACATAACT
44216083 TACATAACT
1 TACATAACT
* *
44216092 TATATGACT
1 TACATAACT
44216101 TACATAACT
1 TACATAACT
44216110 TACAT-A--
1 TACATAACT
* *
44216116 -GCATAATT
1 TACATAACT
*
44216124 TTCATAA--
1 TACATAACT
*
44216131 TACACAACT
1 TACATAACT
*
44216140 TACATAATT
1 TACATAACT
*
44216149 TTCATAA--
1 TACATAACT
*
44216156 TAAATAACT
1 TACATAACT
44216165 TACATAA--
1 TACATAACT
44216172 TACATAACT
1 TACATAACT
*
44216181 TACATAGCT
1 TACATAACT
44216190 TA
1 TA
44216192 ATTATACTTA
Statistics
Matches: 533, Mismatches: 64, Indels: 180
0.69 0.08 0.23
Matches are distributed among these distances:
5 3 0.01
6 7 0.01
7 72 0.14
8 53 0.10
9 288 0.54
10 43 0.08
11 20 0.04
12 21 0.04
13 26 0.05
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (9 bp):
TACATAACT
Found at i:44215513 original size:31 final size:31
Alignment explanation
Indices: 44215478--44216003 Score: 495
Period size: 31 Copynumber: 16.3 Consensus size: 31
44215468 AAATAATACG
* *
44215478 TAACTTACATTAGTATTATACATAACTTACA
1 TAACTTACATTAATATTATACATAAATTACA
*
44215509 TAACTTAATTAATTAATATTATACATAACTTACAACTTACA
1 TAACTT-A--CATTAATATTATAC---A--TA-AA-TTACA
*
44215550 TAACTTACATTAATATTAAACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
44215581 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
* *
44215612 TAACTTA-ATT-A-ATTA-ATAT-TA-TACA
1 TAACTTACATTAATATTATACATAAATTACA
44215637 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
* *
44215668 TAACTTACATTAATATTAAACATAAATTATA
1 TAACTTACATTAATATTATACATAAATTACA
44215699 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
*
44215730 TAACTTAATTAATTAATATTATACATAAATTACA
1 TAACTT-A--CATTAATATTATACATAAATTACA
*
44215764 TAACTTAATTAATTAATATTATACATAAATTACA
1 TAACTT-A--CATTAATATTATACATAAATTACA
*
44215798 TAACTTAATTAATTAATATTATACATAACTTACAACTTACA
1 TAACTT-A--CATTAATATTATAC---A--TA-AA-TTACA
* * * *
44215839 TAACTTACATT-TTTTTAATTA-TTCATAAATTACA
1 TAACTTACATTAATATT-A-TACAT-AAA--TTACA
44215873 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
44215904 TAACTTA-ATT-A-A-TATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
44215931 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
* *
44215962 TAACTTAATTAATTAATATTATACATAACTTAC-
1 TAACTT-A--CATTAATATTATACATAAATTACA
44215995 -AACTTACAT
1 TAACTTACAT
44216004 AACTTACATT
Statistics
Matches: 428, Mismatches: 28, Indels: 80
0.80 0.05 0.15
Matches are distributed among these distances:
25 11 0.03
26 4 0.01
27 26 0.06
28 12 0.03
29 8 0.02
30 8 0.02
31 150 0.35
32 10 0.02
33 8 0.02
34 133 0.31
35 4 0.01
37 5 0.01
38 16 0.04
39 6 0.01
40 5 0.01
41 22 0.05
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (31 bp):
TAACTTACATTAATATTATACATAAATTACA
Found at i:44215531 original size:34 final size:34
Alignment explanation
Indices: 44215486--44215940 Score: 276
Period size: 34 Copynumber: 13.7 Consensus size: 34
44215476 CGTAACTTAC
*
44215486 ATTAGTATTATACATAACTTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
* *
44215520 ATTAATATTATACATAACTTACAACTTACATAACTTA
1 ATTAATATTATACATAACTTAC-A-TAACTTAA-TTA
* * *
44215557 CATTAATATTAAACATAAATTACATAACTT-A--C
1 -ATTAATATTATACATAACTTACATAACTTAATTA
*
44215589 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
44215623 ATTAATATTATACATAACTTACATTAA--T-ATT-
1 ATTAATATTATACATAACTTACA-TAACTTAATTA
*
44215654 A-TACATA-AATTACATAACTTACATTAA--T-ATTAA
1 ATTA-ATATTA-TACATAACTTACA-TAACTTAATT-A
*
44215687 ACATAA-ATTAT--ATAACTTACATTAA--T-ATT-
1 A-TTAATATTATACATAACTTACA-TAACTTAATTA
*
44215716 A-TACATA-AATTACATAAC-T---T-A----ATTA
1 ATTA-ATATTA-TACATAACTTACATAACTTAATTA
*
44215741 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
*
44215775 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
* *
44215809 ATTAATATTATACATAACTTACAACTTACATAACTTA
1 ATTAATATTATACATAACTTAC-A-TAACTTAA-TTA
** * * *
44215846 CATTTTTTTAATTATTCATAAATTACATAACTT-A--C
1 -A--TTAAT-ATTATACATAACTTACATAACTTAATTA
*
44215881 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
*
44215915 ATATACATA-AATTACATAACTTACAT
1 AT-TA-ATATTA-TACATAACTTACAT
44215941 TAATATTATA
Statistics
Matches: 344, Mismatches: 32, Indels: 88
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.01
25 12 0.03
26 5 0.01
27 2 0.01
28 2 0.01
29 4 0.01
30 5 0.01
31 98 0.28
32 8 0.02
33 4 0.01
34 107 0.31
35 11 0.03
36 32 0.09
37 7 0.02
38 22 0.06
39 4 0.01
40 4 0.01
41 14 0.04
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTAATATTATACATAACTTACATAACTTAATTA
Found at i:44215558 original size:25 final size:25
Alignment explanation
Indices: 44215496--44216193 Score: 153
Period size: 25 Copynumber: 26.9 Consensus size: 25
44215486 ATTAGTATTA
44215496 TACATAACTTACATAACTTAATTAAT
1 TACATAACTTACATAACTTAA-TAAT
* *
44215522 TA-AT-ATTATACATAACTTACA-ACT
1 TACATAACT-TACATAACTTA-ATAAT
*
44215546 TACATAACTTACATTAA--TATTAA-
1 TACATAACTTACA-TAACTTAATAAT
*
44215569 -ACATAAATTACATAACTTACATTAATATT
1 TACATAACTTACATAACTTA-A-T-A-A-T
*
44215598 ATACATAAATTACATAACTTAATTAAT
1 -TACATAACTTACATAACTTAA-TAAT
*
44215625 TA-AT-ATTATACATAACTTACATTAATATT
1 TACATAACT-TACATAACTTA-A-T-A-A-T
*
44215654 ATACATAAATTACATAACTTACATTAATAT
1 -TACATAACTTACATAACTTA-A-T-A-AT
* *
44215684 TAAACATAAATTATATAACTTACATTAATATT
1 T--ACATAACTTACATAACTTA-A-T-A-A-T
*
44215716 ATACATAAATTACATAACTTAATTAAT
1 -TACATAACTTACATAACTTAA-TAAT
* *
44215743 TA-AT-ATTATACATAAATTACATAACT
1 TACATAACT-TACATAACTTA-ATAA-T
*
44215769 TA-ATTAA-TTA-AT-ATTATACATAAAT
1 TACA-TAACTTACATAACT-TA-AT-AAT
*
44215794 TACATAACTTA-ATTAA-TTAATATT
1 TACATAACTTACA-TAACTTAATAAT
44215818 ATACATAACTTAC--AACTTACATAACT
1 -TACATAACTTACATAACTTA-ATAA-T
*** * *
44215844 TACATTTTTTTA-ATTA-TTCATAAAT
1 TACA-TAACTTACATAACTTAAT-AAT
*
44215869 TACATAACTTAC---A-TTAATATT
1 TACATAACTTACATAACTTAATAAT
*
44215890 ATACATAAATTACATAACTTAATTAAT
1 -TACATAACTTACATAACTTAA-TAAT
*
44215917 ATACATAAATTACATAACTTACATTAATATT
1 -TACATAACTTACATAACTTA-A-T-A-A-T
*
44215948 ATACATAAATTACATAACTTAATTAAT
1 -TACATAACTTACATAACTTAA-TAAT
* *
44215975 TA-AT-ATTATACATAACTTACA-ACT
1 TACATAACT-TACATAACTTA-ATAAT
*** *
44215999 TACATAACTTACATTTTTTTAATTAT
1 TACATAACTTACA-TAACTTAATAAT
* *
44216025 T-CATAAATTACATAACTTACTTAATT
1 TACATAACTTACATAACTTA-ATAA-T
* *
44216051 TTCATAA--TAAATAACTTACATAACT
1 TACATAACTTACATAACTTA-ATAA-T
*
44216076 TACATAA--TACATAACTTATATGACT
1 TACATAACTTACATAACTTA-AT-AAT
* *
44216101 TACATAACTTACATAGCATAAT--T
1 TACATAACTTACATAACTTAATAAT
* *
44216124 TTCATAA--TACACAACTTACATAATT
1 TACATAACTTACATAACTTA-ATAA-T
* *
44216149 TTCATAA--TAAATAACTTACATAA-
1 TACATAACTTACATAACTTA-ATAAT
*
44216172 TACATAACTTACATAGCTTAAT
1 TACATAACTTACATAACTTAAT
44216194 TATACTTATT
Statistics
Matches: 535, Mismatches: 60, Indels: 156
0.71 0.08 0.21
Matches are distributed among these distances:
21 13 0.02
22 29 0.05
23 17 0.03
24 36 0.07
25 193 0.36
26 61 0.11
27 48 0.09
28 9 0.02
29 6 0.01
30 13 0.02
31 106 0.20
32 3 0.01
33 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (25 bp):
TACATAACTTACATAACTTAATAAT
Found at i:44215648 original size:22 final size:22
Alignment explanation
Indices: 44215618--44215730 Score: 100
Period size: 22 Copynumber: 5.4 Consensus size: 22
44215608 TACATAACTT
44215618 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
44215639 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
44215661 AATTACA-T-A-ACT-TACATTA
1 AATTACATTAATATTATACA-TA
44215680 ATATTAAACA-TAA-ATTAT--ATA
1 A-ATT--ACATTAATATTATACATA
*
44215701 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
44215723 AATTACAT
1 AATTACAT
44215731 AACTTAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 21
0.74 0.06 0.21
Matches are distributed among these distances:
18 7 0.09
19 8 0.11
20 11 0.15
21 8 0.11
22 37 0.49
23 3 0.04
24 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:44216024 original size:41 final size:41
Alignment explanation
Indices: 44215957--44216036 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
44215947 TATACATAAA
*
44215957 TTACATAACTTAATTAATTAATATTATACATAACTTACAAC
1 TTACATAACTTAATTAATTAATATTATACATAAATTACAAC
** * *
44215998 TTACATAACTTACATTTTTTTA-ATTATTCATAAATTACA
1 TTACATAACTTA-ATTAATTAATATTATACATAAATTACA
44216037 TAACTTACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 27 0.82
42 6 0.18
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (41 bp):
TTACATAACTTAATTAATTAATATTATACATAAATTACAAC
Found at i:44216041 original size:34 final size:34
Alignment explanation
Indices: 44215834--44216080 Score: 182
Period size: 34 Copynumber: 7.4 Consensus size: 34
44215824 AACTTACAAC
*
44215834 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
**
44215868 TTACATAACTTACA--TTAAT-ATTATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
44215899 TTACATAACTTA-A-----TTAA-TATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
**
44215926 TTACATAACTTACA--TTAAT-ATTATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
** *
44215957 TTACATAACTTA-ATTAATTAATATTATACATAACTTACAA
1 TTACATAACTTACATTTTTTTA-ATTATAC---A--TA-AA
*
44215997 CTTACATAACTTACATTTTTTTAATTATTCATAAA
1 -TTACATAACTTACATTTTTTTAATTATACATAAA
* * * * *
44216032 TTACATAACTTAC-TTAATTTTCATAATAAATAAC
1 TTACATAACTTACATT-TTTTTAATTATACATAAA
44216066 TTACATAACTTACAT
1 TTACATAACTTACAT
44216081 AATACATAAC
Statistics
Matches: 173, Mismatches: 20, Indels: 39
0.75 0.09 0.17
Matches are distributed among these distances:
27 23 0.13
28 2 0.01
30 3 0.02
31 46 0.27
32 3 0.02
33 2 0.01
34 59 0.34
35 3 0.02
36 2 0.01
37 1 0.01
38 1 0.01
39 2 0.01
40 2 0.01
41 18 0.10
42 6 0.03
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (34 bp):
TTACATAACTTACATTTTTTTAATTATACATAAA
Found at i:44216086 original size:16 final size:16
Alignment explanation
Indices: 44216067--44216186 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
44216057 ATAAATAACT
44216067 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
44216083 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
44216101 TACATAACTTACAT-A
1 TACATAACTTACATAA
* * *
44216116 -GCATAATTTTCATAA
1 TACATAACTTACATAA
*
44216131 TACACAACTTACATAA
1 TACATAACTTACATAA
44216147 T---T---TT-CATAA
1 TACATAACTTACATAA
*
44216156 TAAATAACTTACATAA
1 TACATAACTTACATAA
44216172 TACATAACTTACATA
1 TACATAACTTACATA
44216187 GCTTAATTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.12
15 3 0.04
16 44 0.55
17 1 0.01
18 13 0.16
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:44218092 original size:21 final size:21
Alignment explanation
Indices: 44218066--44218134 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
44218056 CAACAACTTA
* *
44218066 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* **
44218087 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
* *
44218108 AAGCAAAGGCCGTAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
44218129 AAGCAG
1 AAGCAG
44218135 CGATAGAAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:44218636 original size:42 final size:42
Alignment explanation
Indices: 44218580--44218788 Score: 316
Period size: 42 Copynumber: 5.0 Consensus size: 42
44218570 GTTTGTGAAA
* *
44218580 TAAGCGCTGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
*
44218623 -ACGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
44218665 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
44218707 CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
44218749 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
44218789 TCTGTAAGAG
Statistics
Matches: 155, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
41 1 0.01
42 116 0.75
43 38 0.25
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:44218790 original size:85 final size:85
Alignment explanation
Indices: 44218580--44218788 Score: 332
Period size: 85 Copynumber: 2.5 Consensus size: 85
44218570 GTTTGTGAAA
* * * ** *
44218580 TAAGCGCTGCTAAAGAACA-CTACTTTTAGCGGCGTTTTTGACCACGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGTTC-TTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGA
44218644 TCTTTAGCGGCGTTTTCTTCC
65 TCTTTAGCGGCGTTTTCTTCC
*
44218665 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
44218730 CTTTAGCGGCGTTTT-TTCC
66 CTTTAGCGGCGTTTTCTTCC
44218749 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
44218789 TCTGTAAGAG
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
84 43 0.37
85 71 0.62
86 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTCTTCC
Found at i:44219381 original size:6 final size:6
Alignment explanation
Indices: 44219370--44219394 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44219360 ACGTTAGCGA
44219370 ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT A
44219395 AATATTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:44219654 original size:25 final size:25
Alignment explanation
Indices: 44219626--44219677 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
44219616 AGGAGCCTTT
* *
44219626 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATAAAATC
** *
44219651 AAATTGATTGGAATCAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
44219676 AA
1 AA
44219678 GATACATGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:44224201 original size:21 final size:21
Alignment explanation
Indices: 44224175--44224245 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
44224165 TTTTGCTCTA
* *
44224175 CTCTGCTTCTCTCACTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
44224196 CTCTGCTTCCCTCGCTGCA-A
1 CTCTGCTTCCCTCGCTGCAGC
* *
44224216 CTGTTGCTTCCCTCGCTGCCGC
1 CT-CTGCTTCCCTCGCTGCAGC
44224238 CTCTGCTT
1 CTCTGCTT
44224246 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.06, C:0.44, G:0.17, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:44228850 original size:23 final size:23
Alignment explanation
Indices: 44228807--44228850 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44228797 CCTAAATTAT
*
44228807 ACATATTTTAAAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
44228830 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
44228851 AAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:44228945 original size:389 final size:383
Alignment explanation
Indices: 44228120--44229040 Score: 1395
Period size: 389 Copynumber: 2.4 Consensus size: 383
44228110 TTGGTCCTCT
* * *
44228120 CCTAAACCCT-AAATTCCTAAGTCTTGACCACTAACATCTAACCCCTAACCCCTAAATCTTAAAT
1 CCTAAA-CCTAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAAT
44228184 -CTCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGT
65 CCT-GGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGT
44228248 ACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAACCTTAAT
129 ACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAACCTTAAT
* *
44228313 CTTATTAAACTCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTATTCTATCTATTATA
194 CTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTATTATA
* * * *
44228378 TATATCTCTCTCAAGGCATAATTTAAACCCTAATTTATACATCTTTTACAATTACATAAGAACAT
259 TATATATCTCTCAAGGCATAATTTAAACCCTAAATTATACATATTTTAAAATTACATAAGAACAT
*
44228443 ATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATTGTAACCAGACCTCTGAAAC
324 ATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGTAACCAGACCTCTGAAAC
* * *
44228503 CCTAAACCTTAAATCCCTAAATCTTAACAACTAACATCTAACCCCTAAACCCCTCCCCTAAACCT
1 CCTAAACCTAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCT-AA-----CCCCTAAACCT
*
44228568 TAAATCCTGGCCAACCCTTAGTTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATA
60 TAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATA
* * *
44228633 TAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATTTTAGTTAAACTT
125 TAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAACCT
*
44228698 TAATCTTATTAAACCCGCCTAAA-TAATCATTGAAGGGATATAAATATTTAAGTACTCTATCTAT
190 TAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTAT
44228762 TATATATATATCTCTCAAGGCATAATTAATTAAACCCTAAATTATACATATTTTAAAATTACATA
255 TATATATATATCTCTCAAGGCATAA-T--TTAAACCCTAAATTATACATATTTTAAAATTACATA
*
44228827 AGAACATATTTAAAATATAAATAAAAAAATTAATCTAAA-CCAAAATCGTAACCCGATCC-CTGA
317 AGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGTAACCAGA-CCTCTGA
44228890 AAC
381 AAC
* *
44228893 CTTAAACAC-AAAATCCCTAAGTCTTAACCACTAACATATAACCCCTAACCCCTAAACCTTAAAT
1 CCTAAAC-CTAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAAT
* * * * * * **
44228957 CCCGGCCAACCCTTAATTAAGCAAAACCCTTAATCTATAATCCATATATAAATTCATATATATAG
65 CCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCA-T-ATATATATAG
*
44229022 TACTCCCTAAACCTTAAAA
128 TACTCCCTAAACATTAAAA
44229041 TTATATGAAC
Statistics
Matches: 490, Mismatches: 33, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
382 3 0.01
383 38 0.08
384 61 0.12
385 1 0.00
386 28 0.06
388 63 0.13
389 158 0.32
390 63 0.13
391 75 0.15
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (383 bp):
CCTAAACCTAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAATC
CTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGTAC
TCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAACCTTAATCT
TATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTATTATATA
TATATCTCTCAAGGCATAATTTAAACCCTAAATTATACATATTTTAAAATTACATAAGAACATAT
TTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGTAACCAGACCTCTGAAAC
Found at i:44229830 original size:84 final size:84
Alignment explanation
Indices: 44229689--44229856 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
44229679 TGAAAACGCC
*
44229689 GCTAAAAACACAGACCATTAGCGGCGCCAGACCAAAAACGCCACTAAGGCCACCGAAGGACACTA
1 GCTAAAAACACAGACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
*
44229754 AACGACGCCGTTGTATTTT
66 AACGACGACGTTGTATTTT
* * *
44229773 GCTAAAAACACAGACCATTAGCGGCGCTAGAACAAAAATGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
*
44229838 GACGACGACGTTGTATTTT
66 AACGACGACGTTGTATTTT
44229857 ATTTTTTGCG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
AACGACGACGTTGTATTTT
Found at i:44229953 original size:198 final size:198
Alignment explanation
Indices: 44229609--44230024 Score: 654
Period size: 198 Copynumber: 2.1 Consensus size: 198
44229599 GTTTTTCTAG
* * *
44229609 AAAACGCCACTAGGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGTCGTT
1 AAAATGCCACTAAGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGGCGTT
**
44229674 TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGACCAAAAACGCCACTAAGGC
66 TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGGC
44229739 CACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGA
131 CACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGA
44229804 ACA
196 ACA
* *
44229807 AAAATGCCACTAAGGCCACCGAAGGCCACTAGACGACGAC-GTTGTATTTTATTTTTTGCGGCGT
1 AAAATGCCACTAAGGCCACCGAAGGCAACTAAACGACG-CTGTTGTATTTTATTTTTTGCGGCGT
* * * *
44229871 TTTTTCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGAAAAAAAATGCCACTAAGG
65 TTATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGG
* * * *
44229936 CCACCGAAGGCCACTAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTGGCGGGGCTAG
130 CCACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAG
*
44230001 ACCA
195 AACA
*
44230005 AAAATGCCACCGAAGGCCAC
1 AAAATGCCA-CTAAGGCCAC
44230025 TAAAAGACGC
Statistics
Matches: 199, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
198 189 0.95
199 10 0.05
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (198 bp):
AAAATGCCACTAAGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGGCGTT
TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGGC
CACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGA
ACA
Found at i:44230166 original size:84 final size:84
Alignment explanation
Indices: 44230010--44230386 Score: 601
Period size: 84 Copynumber: 4.4 Consensus size: 84
44230000 GACCAAAAAT
* *
44230010 GCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTTATTCCGCTAAAAACACATACCATTAGCGG
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTA--TT-TT--GCTAAAAACACAGACCATTAGCGG
44230075 CGCTAGACCAAAAACGCCACTAAG
61 CGCTAGACCAAAAACGCCACTAAG
* *
44230099 GCCACCGAAGGCCACTAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCAGCGCTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
44230164 GACCAAAAACGCCACTAAG
66 GACCAAAAACGCCACTAAG
*
44230183 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGTGCTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
* *
44230248 GACAAAAAATGCCACTAAG
66 GACCAAAAACGCCACTAAG
* *
44230267 GCCACCGAAGGCCACTAAACGATGCCATTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
*
44230332 GACCAAAAACGCTACTAAG
66 GACCAAAAACGCCACTAAG
* *
44230351 GCCACCGAAGGCCACTAAATGAGGCCGTTGTATTTT
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
44230387 ATTTTTTGCG
Statistics
Matches: 270, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
84 236 0.87
86 2 0.01
87 2 0.01
89 30 0.11
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (84 bp):
GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
GACCAAAAACGCCACTAAG
Found at i:44230309 original size:168 final size:168
Alignment explanation
Indices: 44229886--44230386 Score: 759
Period size: 168 Copynumber: 3.0 Consensus size: 168
44229876 CTGAAAACGC
*
44229886 CGCTAAAAACACAGACCATTAGCGGCGCTAGAAAAAAAATGCCACTAAGGCCACCGAAGGCCACT
1 CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
* *
44229951 AAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTGGCGGGGCTAGACC-AAAA---A-T-
66 AAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCACTA
44230010 --GCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTTATT
131 AGGCCACCGAAGGCCACTAAAAGACGCCGTTGTA--TT-TT
* * *
44230049 CCGCTAAAAACACATACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCAC
1 -CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCAC
*
44230114 TAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCAGCGCTAGACCAAAAACGCCAC
65 TAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACG-CAC
*
44230179 TAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
129 TAAGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
*
44230219 -GCTAAAAACACAGACCATTAGCGGTGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
1 CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
* * *
44230283 AAACGATGCCATTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCTACT
66 AAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGC-ACT
* *
44230348 AAGGCCACCGAAGGCCACTAAATGAGGCCGTTGTATTTT
130 AAGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
44230387 ATTTTTTGCG
Statistics
Matches: 309, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
164 111 0.36
165 4 0.01
167 1 0.00
168 156 0.50
169 1 0.00
170 3 0.01
171 2 0.01
173 31 0.10
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (168 bp):
CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
AAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCACTA
AGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
Found at i:44234615 original size:25 final size:25
Alignment explanation
Indices: 44234587--44234702 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
44234577 AGCTTAATTA
44234587 TATTTTATATATCATTATATTAAAT
1 TATTTTATATATCATTATATTAAAT
* *
44234612 TA-TTTAAATATCATTTATCATTATAT
1 TATTTTATATATCA-TTAT-ATTAAAT
** *
44234638 TAAATTATAT-TAAATTATATTAAA-
1 TATTTTATATAT-CATTATATTAAAT
* * * *
44234662 TATTATTATATTTAATT-TTTTAAAAA
1 TATT-TTATATATCATTATATT-AAAT
44234688 TATTTTATATATCAT
1 TATTTTATATATCAT
44234703 CAATTTTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
24 15 0.21
25 33 0.46
26 18 0.25
27 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTTTATATATCATTATATTAAAT
Found at i:44234668 original size:20 final size:20
Alignment explanation
Indices: 44234604--44234669 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
44234594 TATATCATTA
44234604 TATTAAATTAT-TTAAATAT
1 TATTAAATTATATTAAATAT
* *
44234623 CATTTATCATTATATTAAAT-T
1 TA-TTA-AATTATATTAAATAT
44234644 ATATTAAATTATATTAAATAT
1 -TATTAAATTATATTAAATAT
44234665 TATTA
1 TATTA
44234670 TATTTAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 20 0.53
21 10 0.26
22 7 0.18
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTAAATTATATTAAATAT
Found at i:44234669 original size:10 final size:10
Alignment explanation
Indices: 44234600--44234662 Score: 76
Period size: 10 Copynumber: 6.2 Consensus size: 10
44234590 TTTATATATC
44234600 ATTATATTAA
1 ATTATATTAA
44234610 ATTAT-TTAA
1 ATTATATTAA
*
44234619 A-TATCATTTATC
1 ATTAT-A-TTA-A
44234631 ATTATATTAA
1 ATTATATTAA
44234641 ATTATATTAA
1 ATTATATTAA
44234651 ATTATATTAA
1 ATTATATTAA
44234661 AT
1 AT
44234663 ATTATTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
8 3 0.07
9 5 0.11
10 27 0.59
11 6 0.13
12 2 0.04
13 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTATATTAA
Found at i:44234673 original size:5 final size:5
Alignment explanation
Indices: 44234583--44234673 Score: 53
Period size: 5 Copynumber: 17.6 Consensus size: 5
44234573 AATTAGCTTA
* * *
44234583 ATTAT ATTTT ATATAT CATTAT ATTAA ATTAT -TTA- AATAT CATTTAT
1 ATTAT ATTAT AT-TAT -ATTAT ATTAT ATTAT ATTAT ATTAT -A-TTAT
* * *
44234630 CATTAT ATTAA ATTAT ATTAA ATTAT ATTA- AATATT ATTAT ATT
1 -ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATT
44234674 TAATTTTTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
4 8 0.12
5 38 0.58
6 13 0.20
7 7 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:44237184 original size:10 final size:9
Alignment explanation
Indices: 44237124--44237185 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 9
44237114 TATTTATTAG
44237124 ATTTT-ATT
1 ATTTTAATT
44237132 ATTTT-ATT
1 ATTTTAATT
*
44237140 A-TTTATTT
1 ATTTTAATT
44237148 ATTTTAA-T
1 ATTTTAATT
44237156 -TTTTAATT
1 ATTTTAATT
*
44237164 -TTTTAAGT
1 ATTTTAATT
44237172 ATTTTAAATT
1 ATTTT-AATT
44237182 ATTT
1 ATTT
44237186 AGGAGTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 9 0.20
8 21 0.47
9 8 0.18
10 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTTAATT
Found at i:44241915 original size:29 final size:29
Alignment explanation
Indices: 44241873--44241935 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
44241863 AAAAATGAGC
*
44241873 GCACACGCCTGTGTGGCCCACATGGTCTA
1 GCACACGCCTGTGTGGCCCACACGGTCTA
** *
44241902 GCACACGGTTGTGTGGCTCACACGGTCTA
1 GCACACGCCTGTGTGGCCCACACGGTCTA
44241931 GCACA
1 GCACA
44241936 TGATCGTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.21
Consensus pattern (29 bp):
GCACACGCCTGTGTGGCCCACACGGTCTA
Found at i:44241944 original size:29 final size:29
Alignment explanation
Indices: 44241883--44241945 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
44241873 GCACACGCCT
* * *
44241883 GTGTGGCCCACATGGTCTAGCACACGGTT
1 GTGTGGCCCACACGGTCTAGCACACGATC
* *
44241912 GTGTGGCTCACACGGTCTAGCACATGATC
1 GTGTGGCCCACACGGTCTAGCACACGATC
44241941 GTGTG
1 GTGTG
44241946 ATGTTGACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.25
Consensus pattern (29 bp):
GTGTGGCCCACACGGTCTAGCACACGATC
Found at i:44242454 original size:18 final size:18
Alignment explanation
Indices: 44242415--44242450 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
44242405 CAAGAAGTTA
*
44242415 GCCCGTGTGGGCCCATAT
1 GCCCGTGTGGGCCCACAT
44242433 GCCCGTGT-GGCCCACAT
1 GCCCGTGTGGGCCCACAT
44242450 G
1 G
44242451 GCCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.36, G:0.33, T:0.19
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAT
Found at i:44243964 original size:25 final size:25
Alignment explanation
Indices: 44243909--44243978 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
44243899 TACCACAGTA
* * *
44243909 TCAGTGTATACTA-ATATGAGTGTTT
1 TCAGTATATACTATCTAT-AGTGGTT
*
44243934 TTAGTATAGT-CTATCTATAGTGGTT
1 TCAGTATA-TACTATCTATAGTGGTT
44243959 TCAGTATATACTATCTATAG
1 TCAGTATATACTATCTATAG
44243979 CACTTTCAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 32 0.86
26 4 0.11
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (25 bp):
TCAGTATATACTATCTATAGTGGTT
Found at i:44254521 original size:50 final size:49
Alignment explanation
Indices: 44254455--44254638 Score: 217
Period size: 51 Copynumber: 3.7 Consensus size: 49
44254445 GTCACGTGCT
*
44254455 TAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-GATCACATGTG
* * * *
44254505 TAGTACTATGTACAGGCTACTATGCGTACC-GAATAGCTTCGATCACATGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-AT-GATCACATGTG
*
44254556 TAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGATCACATGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATGATCACATGTG
* * * *
44254607 TAGTACTATGTGTAGTCTACTATGTGAACCGG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGG
44254639 TATCATTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
49 4 0.04
50 28 0.25
51 75 0.66
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATGATCACATGTG
Found at i:44254779 original size:84 final size:84
Alignment explanation
Indices: 44254638--44254848 Score: 368
Period size: 84 Copynumber: 2.5 Consensus size: 84
44254628 ATGTGAACCG
* *
44254638 GTATCATTAATTATAAGGTGGTTGCTAAGTGCTGATTTCACCGTATCCCTAATTGTGAAAGGGGT
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCCTAATTGTGAAAGGGGT
44254703 TGCTATGTGCTGATTCCCC
66 TGCTATGTGCTGATTCCCC
* *
44254722 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGT
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCCTAATTGTGAAAGGGGT
44254787 TGCTATGTGCTGATTCCCC
66 TGCTATGTGCTGATTCCCC
* *
44254806 GTATCATTGATTATAAGGTGATTGCTAAGTGTTGATTCCACCG
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
44254849 GGATCCTTTG
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 121 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (84 bp):
GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCCTAATTGTGAAAGGGGT
TGCTATGTGCTGATTCCCC
Found at i:44254875 original size:44 final size:42
Alignment explanation
Indices: 44254638--44254889 Score: 242
Period size: 42 Copynumber: 6.0 Consensus size: 42
44254628 ATGTGAACCG
* * * *
44254638 GTATCATTAATTATAAGGTGGTTGCTAAGTGCTGATTTCACC
1 GTATCCTTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACC
* * * *
44254680 GTATCCCTAATTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CC
1 GTATCCTTGATTATG--AGGTGGTTGCTAAGTGCTGATTCCACC
* *
44254722 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GTATCCTTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACC
* *
44254764 GTATCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CC
1 GTATCCTTGATTATG--AGGTGGTTGCTAAGTGCTGATTCCACC
* * * *
44254806 GTATCATTGATTATAAGGTGATTGCTAAGTGTTGATTCCACC
1 GTATCCTTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACC
* ** *
44254848 GGGATCCTTTGAACATGAGGTGGTTGCTAAGTGTTGATTCCA
1 -GTATCC-TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCA
44254890 TCGTGTAACG
Statistics
Matches: 172, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
40 6 0.03
41 36 0.21
42 53 0.31
43 41 0.24
44 36 0.21
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GTATCCTTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACC
Found at i:44258682 original size:56 final size:50
Alignment explanation
Indices: 44258611--44258806 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 50
44258601 ATTTGGGTAA
* * *
44258611 AGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C--CGAG---ATG
* * * *
44258667 AGAGGTCCCATGTAAGACCATTTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * *
44258717 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTG-GCACCGAGATG
** * * *
44258767 AGAACTCCCATGTAAGACCATTTCTGGGATATGGCATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGG
44258807 AAGTACAAGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 75 0.63
51 2 0.02
53 3 0.03
55 1 0.01
56 36 0.30
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:44265067 original size:50 final size:50
Alignment explanation
Indices: 44264956--44265202 Score: 241
Period size: 50 Copynumber: 4.8 Consensus size: 50
44264946 ATTTGGGTAA
*
44264956 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
44265012 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
44265062 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATG
* * * * *
44265112 AGA-ACTCCCATGTAAGACCATTTCTGGGATATGACATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
44265161 AAACATCCCATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44265203 TGTTATTATT
Statistics
Matches: 165, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 79 0.48
51 2 0.01
53 3 0.02
55 1 0.01
56 40 0.24
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:44275497 original size:11 final size:11
Alignment explanation
Indices: 44275481--44275512 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
44275471 TTAGTCACAA
44275481 TTTCACATAGT
1 TTTCACATAGT
*
44275492 TTTCACATTGT
1 TTTCACATAGT
44275503 TTTCACATAG
1 TTTCACATAG
44275513 GTTCCTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (11 bp):
TTTCACATAGT
Found at i:44277727 original size:17 final size:17
Alignment explanation
Indices: 44277693--44277735 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44277683 CGTAACCTTT
*
44277693 GAGGATATGCAATATTA
1 GAGGATTTGCAATATTA
* *
44277710 GAGGATTTGTAATCTTA
1 GAGGATTTGCAATATTA
*
44277727 GAAGATTTG
1 GAGGATTTG
44277736 ATTTTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (17 bp):
GAGGATTTGCAATATTA
Found at i:44277775 original size:26 final size:24
Alignment explanation
Indices: 44277715--44277763 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
44277705 TATTAGAGGA
44277715 TTTGT-AATCTTAGAAGATTTGAT
1 TTTGTAAATCTTAGAAGATTTGAT
44277738 TTTGTAAATCTTAG-AGATTTGAT
1 TTTGTAAATCTTAGAAGATTTGAT
44277761 TTT
1 TTT
44277764 TTTAGATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTGTAAATCTTAGAAGATTTGAT
Found at i:44280593 original size:13 final size:14
Alignment explanation
Indices: 44280577--44280618 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
44280567 TTTCAATTTT
44280577 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
44280590 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
44280605 ATTTTAAATAATAT
1 ATTTT-AATAATAT
44280619 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:44280603 original size:16 final size:16
Alignment explanation
Indices: 44280581--44280617 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44280571 AATTTTATTT
44280581 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
44280598 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
44280613 TAATA
1 TAATA
44280618 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:44281957 original size:15 final size:13
Alignment explanation
Indices: 44281935--44281978 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
44281925 CAAACAAGCT
44281935 AATAAAAAAATAA
1 AATAAAAAAATAA
44281948 TAAGTAAAAAAACTAA
1 -AA-TAAAAAAA-TAA
*
44281964 AATATAAAAATAA
1 AATAAAAAAATAA
44281977 AA
1 AA
44281979 AAACTAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 9 0.33
15 10 0.37
16 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:44281970 original size:23 final size:22
Alignment explanation
Indices: 44281939--44281985 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
44281929 CAAGCTAATA
*
44281939 AAAAAATAATAAGTAAAAAAACT
1 AAAAAATAA-AAATAAAAAAACT
*
44281962 AAAATATAAAAATAAAAAAACT
1 AAAAAATAAAAATAAAAAAACT
44281984 AA
1 AA
44281986 TAGTGAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAAAATAAAAATAAAAAAACT
Found at i:44282136 original size:15 final size:15
Alignment explanation
Indices: 44282093--44282140 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
44282083 TTGAAAATAT
*
44282093 ATAAAAGGATAT-AA
1 ATAAATGGATATAAA
44282107 ATAAATGGATGATAAA
1 ATAAATGGAT-ATAAA
*
44282123 ATAAATGTATATAAA
1 ATAAATGGATATAAA
44282138 ATA
1 ATA
44282141 TTTAAGTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 10 0.33
16 11 0.37
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (15 bp):
ATAAATGGATATAAA
Found at i:44283926 original size:45 final size:43
Alignment explanation
Indices: 44283840--44284115 Score: 149
Period size: 44 Copynumber: 6.0 Consensus size: 43
44283830 TTGTCATAAT
* * * ** *
44283840 TTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGA
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * **
44283883 TTCGCTGTCTTCAGTTTGCTCTGCTGCAACTTCAGGGAGATAAGA
1 TT-G-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
44283928 CTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCCACCATAA
1 -TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----------A
* * ** * * *
44283982 TTTGTAGCTTTAATCTATTCCACTGTAA-TTCAGGAAAATAAGA
1 -TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * * *
44284025 TTTGATGTCTTTAGTCTGCTCCATTACAACTTCAGAGAGATAAGA
1 -TTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
*
44284070 CTTGTAACTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGA
1 -TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
44284114 TT
1 TT
44284116 CACCATGATG
Statistics
Matches: 175, Mismatches: 43, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
43 9 0.05
44 84 0.48
45 45 0.26
46 2 0.01
53 12 0.07
54 23 0.13
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:44283954 original size:44 final size:44
Alignment explanation
Indices: 44283906--44284113 Score: 166
Period size: 44 Copynumber: 4.5 Consensus size: 44
44283896 GTTTGCTCTG
44283906 CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCA
* * **
44283950 CTGCAACTTCAGGGAGATAAGATCCACCATAATTTGTAGCTTTAATCTATTCCA
1 CTGCAACTTCAGGGAGATAAG----A-C-----TTGTAACTTCAATCTGCTCCA
* * * * ** * *
44284004 CTGTAA-TTCAGGAAAATAAGATTTGATGTCTTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCTGCTCCA
* * *
44284048 TTACAACTTCAGAGAGATAAGACTTGTAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCA
*
44284092 TTGCAACTTCAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAAGA
44284114 TTCACCATGA
Statistics
Matches: 126, Mismatches: 26, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
43 3 0.02
44 71 0.56
45 15 0.12
48 1 0.01
49 2 0.02
53 12 0.10
54 22 0.17
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCA
Found at i:44284097 original size:142 final size:143
Alignment explanation
Indices: 44283749--44284121 Score: 480
Period size: 142 Copynumber: 2.6 Consensus size: 143
44283739 GACTTGTGGT
* * * ** *
44283749 TTTAGTCTGCTTCACTGCAACTTCA-AGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAA
1 TTTAGTCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAA
** *** * *
44283813 CTTCAGCAAGATAAGATTTGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAA
65 CTTCAGGGAGATAAGATTCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAA
*
44283878 TAAGATTCGCTGTC
130 TAAGATTCGATGTC
* * ** *
44283892 TTCAGTTTGCTCTGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAAC
1 TTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAAC
* * **
44283957 TTCAGGGAGATAAGATCCACCATAATTTGTAGCTTTAATCTATTCCACTGTAA-TTCAGGAAAAT
66 TTCAGGGAGATAAGATTCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAAT
*
44284021 AAGATTTGATGTC
131 AAGATTCGATGTC
* * *
44284034 TTTAGTCTGCTCCATTACAACTTCAGAGAGATAAGACTTGTAACTTCAATCTGCTCCATTGCAAC
1 TTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAAC
44284099 TTCAGGGAGATAAGATTCACCAT
66 TTCAGGGAGATAAGATTCACCAT
44284122 GATGACTTCA
Statistics
Matches: 196, Mismatches: 33, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
142 98 0.50
143 98 0.50
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (143 bp):
TTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAAT
AAGATTCGATGTC
Found at i:44296804 original size:105 final size:104
Alignment explanation
Indices: 44296639--44296833 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 104
44296629 TACTGTTTAT
* * *
44296639 GATTTAGGACCACACGGCCAGGGAGATGGGCATGTGCCCATGCCGTGTGAACCACACAGGCAAGG
1 GATTTAGAACCACACGGCCAGGGACATGGGCATATGCCCATGCCGTGTGAACCACACAGGCAAGG
* *
44296704 ACATGGGCATGTGTCTAGGTCGTGTAACTCACTTTTTGC
66 ACATAGGCATGTGTCTAGGCCGTGTAACTCACTTTTTGC
* * * * *
44296743 GATTTAGAACCACATGGGCAGAGGACATGGGCATATGTCC-TGGTCGTGTGAGCCACACAGGCAA
1 GATTTAGAACCACACGGCCAG-GGACATGGGCATATGCCCAT-GCCGTGTGAACCACACAGGCAA
44296807 GGACATAGGCATGTGTCTAGGCCGTGT
64 GGACATAGGCATGTGTCTAGGCCGTGT
44296834 GACATATAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
104 19 0.24
105 60 0.76
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.22
Consensus pattern (104 bp):
GATTTAGAACCACACGGCCAGGGACATGGGCATATGCCCATGCCGTGTGAACCACACAGGCAAGG
ACATAGGCATGTGTCTAGGCCGTGTAACTCACTTTTTGC
Found at i:44308668 original size:21 final size:21
Alignment explanation
Indices: 44308606--44308669 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
44308596 TTATTTAACC
*
44308606 ATAAATTTTGAAAATATTTTATTT
1 ATAAATTTT-AAAATA--CTATTT
* *
44308630 ATAAACTCTAAGAA-ACTATTT
1 ATAAATTTTAA-AATACTATTT
44308651 ATAAATTTTAAAATACTAT
1 ATAAATTTTAAAATACTAT
44308670 CAAATGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.06
21 19 0.58
23 3 0.09
24 9 0.27
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (21 bp):
ATAAATTTTAAAATACTATTT
Found at i:44314255 original size:19 final size:19
Alignment explanation
Indices: 44314231--44314277 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
44314221 TCTCTTTCTT
44314231 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
44314250 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
44314269 TATGCATTA
1 TTTGCATTA
44314278 GATTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:44329871 original size:41 final size:41
Alignment explanation
Indices: 44329801--44329989 Score: 263
Period size: 41 Copynumber: 4.6 Consensus size: 41
44329791 CATTGAATGT
* * *
44329801 AAGGGATTGCTAAGTGCATATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
* *
44329842 AAGGTGTTGTTAAGTGCAGATT-CCTCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCT-GAATCACTGATCAAA
** *
44329883 AAGGGGTTGCTAAGTATAGATTCCCTAAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
* *
44329924 GAGGGGTTGCTAAATGCAGATTCCCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
*
44329965 TAGGGGTTGCTAAGTGCAGATTCCC
1 AAGGGGTTGCTAAGTGCAGATTCCC
44329990 CGAGGGGTTG
Statistics
Matches: 129, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.02
41 124 0.96
42 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
Found at i:44330002 original size:26 final size:26
Alignment explanation
Indices: 44329966--44330015 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
44329956 CTGATCAAAT
44329966 AGGGGTTGCTAAGTGCAGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
*
44329992 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTGCAGATTCCC
44330016 TAAATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:44330084 original size:43 final size:42
Alignment explanation
Indices: 44329995--44330140 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
44329985 TTCCCCGAGG
*** ** *
44329995 GGTTGCTAAGTGCTGATTCCCTAAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCCTTGATTATAAAGGT
*
44330037 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCCTTGATTAT-AAAGGT
* * *
44330080 GGTTGCTATGTGCCGATTCCCCGTATCAC-TGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATC-CTTGATTATAAAGGT
*
44330121 GGTTGCTAAGTACTGATTCC
1 GGTTGCTAAGTGCTGATTCC
44330141 ACCGAGAAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.05
41 17 0.20
42 32 0.37
43 29 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCCTTGATTATAAAGGT
Found at i:44333709 original size:25 final size:24
Alignment explanation
Indices: 44333676--44333723 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
44333666 GTAAGGGATT
44333676 TTATTTTATCTAAT-ATTAATATAA
1 TTATTTTAT-TAATCATTAATATAA
*
44333700 TTATATTTATTTATCATTAATATA
1 TTAT-TTTATTAATCATTAATATA
44333724 CATATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TTATTTTATTAATCATTAATATAA
Found at i:44336425 original size:19 final size:20
Alignment explanation
Indices: 44336384--44336425 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
44336374 ATTTCTATGC
* *
44336384 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
44336404 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
44336423 CAT
1 CAT
44336426 CACATCATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:44348663 original size:44 final size:44
Alignment explanation
Indices: 44348483--44348667 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
44348473 AATATTATAG
* *
44348483 ATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* ** * **
44348527 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCATC-A
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCGA
* * * * * * * ** ** *
44348570 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
44348614 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
44348659 ATCTTATCT
1 ATCTTATCT
44348668 TTCCAAGATA
Statistics
Matches: 98, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
42 3 0.03
43 8 0.08
44 77 0.79
45 8 0.08
46 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
Found at i:44348798 original size:132 final size:132
Alignment explanation
Indices: 44348107--44348758 Score: 1106
Period size: 132 Copynumber: 4.9 Consensus size: 132
44348097 CTGAAGTTAC
*
44348107 AGTGGAGCAGATCTAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
44348172 CAAGCTTTGTCTCCCTGAGCAGTAGCGGAGAATGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
44348237 GT
131 GT
* *
44348239 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAACCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
44348304 CAAGCCTTGTCTCCCTGAACAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGTA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
44348369 GT
131 GT
*
44348371 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
44348436 CAAGCCTTGTCTCCCTGAGCAGCAACGAAGAAGGTTAAATATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
44348501 GT
131 GT
* * *
44348503 ACTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
44348568 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
44348633 GT
131 GT
*
44348635 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
44348700 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTACAAATCTTATCTCCC
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCC
44348759 CGAAGTCGCA
Statistics
Matches: 486, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 486 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
GT
Found at i:44350431 original size:26 final size:26
Alignment explanation
Indices: 44350374--44350428 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
44350364 TTTTTGCATA
44350374 TTTATTTTTTTATATAAGGTAATTATT
1 TTTATTTTTTTATATAA-GTAATTATT
44350401 TTTATTTTATTTATAT-A-TAATTATT
1 TTTATTTT-TTTATATAAGTAATTATT
44350426 TTT
1 TTT
44350429 TATAATCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 11 0.41
27 9 0.33
28 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTATTTTTTTATATAAGTAATTATT
Found at i:44350897 original size:19 final size:20
Alignment explanation
Indices: 44350856--44350897 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44350846 ATTTCTATGT
* *
44350856 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
44350876 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
44350895 CAT
1 CAT
44350898 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:44354094 original size:11 final size:12
Alignment explanation
Indices: 44354068--44354094 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44354058 TTTGAATTAC
44354068 AAAAATAAGGTA
1 AAAAATAAGGTA
44354080 AAAAATAAGGTA
1 AAAAATAAGGTA
44354092 AAA
1 AAA
44354095 TCCAAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAAATAAGGTA
Found at i:44355474 original size:3 final size:3
Alignment explanation
Indices: 44355466--44355547 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
44355456 ATATTAATAT
44355466 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
44355514 AGA AGA AGA AGA AGA AGA ATA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
44355548 ATTTAAAAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:44372179 original size:14 final size:14
Alignment explanation
Indices: 44372160--44372186 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44372150 ATTGGTTAAC
44372160 ATTAATAAAATTTT
1 ATTAATAAAATTTT
44372174 ATTAATAAAATTT
1 ATTAATAAAATTT
44372187 ATGATAAGAC
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:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATAAAATTTT
Found at i:44372286 original size:13 final size:13
Alignment explanation
Indices: 44372265--44372318 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
44372255 AACATTTTAT
*
44372265 TAATAATTATAAA
1 TAATTATTATAAA
44372278 TAATTATTAT-AA
1 TAATTATTATAAA
* *
44372290 TTATTATAATAAA
1 TAATTATTATAAA
*
44372303 TTATTATTAATAAA
1 TAATTATT-ATAAA
44372317 TA
1 TA
44372319 TTCAGGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 10 0.29
13 18 0.53
14 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTATTATAAA
Found at i:44372290 original size:22 final size:23
Alignment explanation
Indices: 44372261--44372315 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
44372251 AATAAACATT
44372261 TTATTAATAATTATAA-ATAATTA
1 TTATTAATAATTATAATA-AATTA
*
44372284 TTA-TAATTATTATAATAAATTA
1 TTATTAATAATTATAATAAATTA
44372306 TTATTAATAA
1 TTATTAATAA
44372316 ATATTCAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTAATAATTATAATAAATTA
Found at i:44372291 original size:9 final size:9
Alignment explanation
Indices: 44372261--44372299 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
44372251 AATAAACATT
44372261 TTATTAATAA
1 TTATT-ATAA
*
44372271 TTATAAATAA
1 TTAT-TATAA
44372281 TTATTATAA
1 TTATTATAA
44372290 TTATTATAA
1 TTATTATAA
44372299 T
1 T
44372300 AAATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTATTATAA
Found at i:44373436 original size:7 final size:7
Alignment explanation
Indices: 44373424--44373457 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
44373414 ATAAAGACTA
44373424 AATAATT
1 AATAATT
*
44373431 ATTAATT
1 AATAATT
44373438 -ATAATT
1 AATAATT
44373444 AATAATT
1 AATAATT
44373451 AATAATT
1 AATAATT
44373458 TATTTTAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AATAATT
Found at i:44373443 original size:13 final size:14
Alignment explanation
Indices: 44373424--44373457 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
44373414 ATAAAGACTA
*
44373424 AATAATTATTAATT
1 AATAATTAATAATT
44373438 -ATAATTAATAATT
1 AATAATTAATAATT
44373451 AATAATT
1 AATAATT
44373458 TATTTTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAATTAATAATT
Found at i:44378832 original size:21 final size:22
Alignment explanation
Indices: 44378799--44378840 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44378789 ATTTTCAAGT
*
44378799 TTATGATAATTTATTTTATATA
1 TTATGATAATTTATATTATATA
44378821 TTATGA-AATTTATATTATAT
1 TTATGATAATTTATATTATAT
44378841 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATGATAATTTATATTATATA
Found at i:44386058 original size:9 final size:9
Alignment explanation
Indices: 44386044--44386470 Score: 138
Period size: 9 Copynumber: 48.3 Consensus size: 9
44386034 ACTATAAATG
44386044 AGTTATGTA
1 AGTTATGTA
44386053 AGTTATGATA
1 AGTTATG-TA
* * *
44386063 TGATATAT-
1 AGTTATGTA
*
44386071 ATTTATGT-
1 AGTTATGTA
*
44386079 A-TTAGGTA
1 AGTTATGTA
*
44386087 AATTATGTA
1 AGTTATGTA
44386096 AGTTATGT-
1 AGTTATGTA
*
44386104 A-TTATATA
1 AGTTATGTA
44386112 AGTTATGTA
1 AGTTATGTA
44386121 AGTTATGTA
1 AGTTATGTA
44386130 AGTTATGT-
1 AGTTATGTA
44386138 A-TTATGTA
1 AGTTATGTA
*
44386146 AGCTATGTA
1 AGTTATGTA
*
44386155 AGTTATTTA
1 AGTTATGTA
*
44386164 AGTTACGTA
1 AGTTATGTA
*
44386173 AGTTGTGT-
1 AGTTATGTA
*
44386181 A-TTATGTT
1 AGTTATGTA
44386189 AGTTATGT-
1 AGTTATGTA
*
44386197 A-CTATGTA
1 AGTTATGTA
*
44386205 AGTTATGTGT
1 AGTTATGT-A
44386215 A-TTATGTATA
1 AGTTATG--TA
*
44386225 ATATTAAT-TA
1 A-GTT-ATGTA
*
44386235 AGTTGTGT-
1 AGTTATGTA
44386243 A-TTATGT-
1 AGTTATGTA
*
44386250 A-TTATTTA
1 AGTTATGTA
*
44386258 TGTTATGTATA
1 AGTTATG--TA
*
44386269 ATATTAAT-TA
1 A-GTT-ATGTA
*
44386279 AGTTGTGTA
1 AGTTATGTA
*
44386288 TTA-TGTATTTA
1 --AGT-TATGTA
*
44386299 AGTTGTGT-
1 AGTTATGTA
44386307 A-TTATGTA
1 AGTTATGTA
44386315 AGTTATGT-
1 AGTTATGTA
*
44386323 ATTTAAGTGTA
1 AGTT-A-TGTA
*
44386334 TGTTATGTA
1 AGTTATGTA
*
44386343 AGTTGTGT-
1 AGTTATGTA
* *
44386351 A-TAATGTT
1 AGTTATGTA
**
44386359 AGTTATCAA
1 AGTTATGTA
44386368 AGTTATGT-
1 AGTTATGTA
*
44386376 A-CTATGTA
1 AGTTATGTA
*
44386384 AGTTATTTA
1 AGTTATGTA
*
44386393 AATTATGTA
1 AGTTATGTA
*
44386402 AGTTGTGT-
1 AGTTATGTA
44386410 A-TTATGTA
1 AGTTATGTA
44386418 AGTTAT-TA
1 AGTTATGTA
*
44386426 TGTTATTATGTA
1 AG---TTATGTA
*
44386438 AGTTATGCA
1 AGTTATGTA
*
44386447 AGTTTATATATA
1 AG--T-TATGTA
44386459 AGTTATGTA
1 AGTTATGTA
44386468 AGT
1 AGT
44386471 ATATCACTTT
Statistics
Matches: 305, Mismatches: 66, Indels: 94
0.66 0.14 0.20
Matches are distributed among these distances:
7 56 0.18
8 31 0.10
9 165 0.54
10 21 0.07
11 15 0.05
12 13 0.04
13 4 0.01
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:44386104 original size:25 final size:25
Alignment explanation
Indices: 44386073--44386197 Score: 110
Period size: 25 Copynumber: 4.9 Consensus size: 25
44386063 TGATATATAT
*
44386073 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAATTATGTAAG
* *
44386098 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAATTATGTAAG
44386123 TTATGTAAGTTATGT--ATTATGTAAG
1 TTATGT-A-TTATGTAAATTATGTAAG
* * * *
44386148 CTATGTAAGTTATTTAAGTTACGTAAG
1 TTATGT-A-TTATGTAAATTATGTAAG
* * *
44386175 TTGTGTATTATGTTAGTTATGTA
1 TTATGTATTATGTAAATTATGTA
44386198 CTATGTAAGT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
25 63 0.77
26 2 0.02
27 17 0.21
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAATTATGTAAG
Found at i:44386107 original size:16 final size:16
Alignment explanation
Indices: 44386088--44386444 Score: 149
Period size: 16 Copynumber: 21.9 Consensus size: 16
44386078 TATTAGGTAA
44386088 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
44386104 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
44386120 AAGTTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
*
44386138 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
* * *
44386154 A--A-GTTATTTAAG-
1 ATTATGTAAGTTATGT
* *
44386166 -TTACGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
44386181 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
*
44386197 ACTATGTAAGTTATGTGT
1 ATTATGTAAGTTA--TGT
*
44386215 ATTATGT-A--TA-AT
1 ATTATGTAAGTTATGT
*
44386227 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
44386243 ATTATGT-A-TTA--T
1 ATTATGTAAGTTATGT
* *
44386255 -TTATGTTA-TGTATAAT
1 ATTATGTAAGT-TAT-GT
*
44386271 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
*
44386287 ATTATGTATTTAAGTTGTGT
1 ATTATG----TAAGTTATGT
44386307 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
44386323 ATTTAAGTGTATGTTATGT
1 A-TT-A-TGTAAGTTATGT
* *
44386342 AAGTTGTGT-A-TAATGTT
1 -A-TTATGTAAGTTATG-T
**
44386359 AGTTATCAAAGTTATGT
1 A-TTATGTAAGTTATGT
* *
44386376 ACTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
44386392 AAATTATGTAAGTTGTGT
1 --ATTATGTAAGTTATGT
44386410 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
44386430 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
44386445 CAAGTTTATA
Statistics
Matches: 258, Mismatches: 42, Indels: 81
0.68 0.11 0.21
Matches are distributed among these distances:
11 6 0.02
12 8 0.03
13 12 0.05
14 9 0.03
15 8 0.03
16 103 0.40
17 20 0.08
18 47 0.18
19 15 0.06
20 30 0.12
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.49
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:44386127 original size:34 final size:34
Alignment explanation
Indices: 44386044--44386168 Score: 137
Period size: 34 Copynumber: 3.7 Consensus size: 34
44386034 ACTATAAATG
* * * *
44386044 AGTTATGTAAGTTATGATATGATATATATT-TATGT
1 AGTTATGTAAGTTATG-TAAGTTATGTATTATAT-A
* *
44386079 A-TTAGGTAAATTATGTAAGTTATGTATTATATA
1 AGTTATGTAAGTTATGTAAGTTATGTATTATATA
*
44386112 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTATTATATA
* *
44386146 AGCTATGTAAGTTATTTAAGTTA
1 AGTTATGTAAGTTATGTAAGTTA
44386169 CGTAAGTTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
33 11 0.14
34 65 0.84
35 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (34 bp):
AGTTATGTAAGTTATGTAAGTTATGTATTATATA
Found at i:44386187 original size:34 final size:34
Alignment explanation
Indices: 44386044--44386197 Score: 127
Period size: 34 Copynumber: 4.5 Consensus size: 34
44386034 ACTATAAATG
* * **
44386044 AGTTATGTAAGTTATGATATGATATATATTTATGT-
1 AGTTATGTAAGTTATG-TAAGTTACGTA-TTATGTA
* * * *
44386079 A-TTAGGTAAATTATGTAAGTTATGTATTATATA
1 AGTTATGTAAGTTATGTAAGTTACGTATTATGTA
*
44386112 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
1 AGTTATGTAAGTTATGTAAGTTACGTATTATGTA
* * *
44386146 AGCTATGTAAGTTATTTAAGTTACGTAAGTTGTGT-
1 AGTTATGTAAGTTATGTAAGTTACGT-A-TTATGTA
*
44386181 A-TTATGTTAGTTATGTA
1 AGTTATGTAAGTTATGTA
44386198 CTATGTAAGT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
32 5 0.05
33 9 0.09
34 77 0.78
35 3 0.03
36 5 0.05
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (34 bp):
AGTTATGTAAGTTATGTAAGTTACGTATTATGTA
Found at i:44386301 original size:20 final size:20
Alignment explanation
Indices: 44386232--44386314 Score: 87
Period size: 20 Copynumber: 4.0 Consensus size: 20
44386222 ATAATATTAA
44386232 TTAAGTTGTGTATTATGTATTAT
1 TTAAGTTGTGTATTATG---TAT
* * *
44386255 TTATGTTATGTATAATAT-TAA
1 TTAAGTTGTGTAT--TATGTAT
44386276 TTAAGTTGTGTATTATGTAT
1 TTAAGTTGTGTATTATGTAT
44386296 TTAAGTTGTGTATTATGTA
1 TTAAGTTGTGTATTATGTA
44386315 AGTTATGTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.06
20 21 0.41
21 13 0.25
23 11 0.22
25 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (20 bp):
TTAAGTTGTGTATTATGTAT
Found at i:44386351 original size:28 final size:29
Alignment explanation
Indices: 44386288--44386352 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
44386278 AAGTTGTGTA
*
44386288 TTATGTATTTAAGTTGTGTATTATGTAAG
1 TTATGTATTTAAGTTGTATATTATGTAAG
*
44386317 TTATGTATTTAAG-TGTATGTTATGTAAG
1 TTATGTATTTAAGTTGTATATTATGTAAG
*
44386345 TTGTGTAT
1 TTATGTAT
44386353 AATGTTAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (29 bp):
TTATGTATTTAAGTTGTATATTATGTAAG
Found at i:44386405 original size:34 final size:36
Alignment explanation
Indices: 44386367--44386444 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 36
44386357 TTAGTTATCA
44386367 AAGTTATGTACTATGTAAGTTATT-T-AAATTATGT
1 AAGTTATGTACTATGTAAGTTATTATGAAATTATGT
* * **
44386401 AAGTTGTGTATTATGTAAGTTATTATGTTATTATGT
1 AAGTTATGTACTATGTAAGTTATTATGAAATTATGT
44386437 AAGTTATG
1 AAGTTATG
44386445 CAAGTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 22 0.59
35 1 0.03
36 14 0.38
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.49
Consensus pattern (36 bp):
AAGTTATGTACTATGTAAGTTATTATGAAATTATGT
Found at i:44386616 original size:18 final size:18
Alignment explanation
Indices: 44386593--44386681 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
44386583 ATATAAAAAT
44386593 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
44386611 TTTAAGTAATGTAAATTATAAA
1 TTTAAGTAATGT-AA-TAT--A
*
44386633 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
*
44386650 TTTAAGTAATGTAACATA
1 TTTAAGTAATGTAATATA
*
44386668 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
44386682 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 27 0.44
19 5 0.08
20 5 0.08
21 2 0.03
22 9 0.15
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Done.