Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 140 of 185
Found at i:43388955 original size:17 final size:16
Alignment explanation
Indices: 43388931--43388986 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
43388921 TTAGGTTTGC
43388931 TTTTAATTTGTTTTTT
1 TTTTAATTTGTTTTTT
*
43388947 TTTTCAATTTTGTTTTGT
1 TTTT-AA-TTTGTTTTTT
*
43388965 TTATAATTCTGTTTGTTT
1 TTTTAATT-TGTTT-TTT
43388983 TTTT
1 TTTT
43388987 TACTCTCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 6 0.19
17 9 0.28
18 17 0.53
ACGTcount: A:0.12, C:0.04, G:0.09, T:0.75
Consensus pattern (16 bp):
TTTTAATTTGTTTTTT
Found at i:43388956 original size:34 final size:36
Alignment explanation
Indices: 43388918--43388986 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
43388908 CATTTTACTA
43388918 AATTTAGGTTTGCTTT-TAATT-TGTTT-TTTTTTTC
1 AATTTAGGTTTG-TTTATAATTCTGTTTGTTTTTTTC
* *
43388952 AATTTTGTTTTGTTTATAATTCTGTTTGTTTTTTT
1 AATTTAGGTTTGTTTATAATTCTGTTTGTTTTTTT
43388987 TACTCTCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 15 0.50
35 5 0.17
36 7 0.23
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.70
Consensus pattern (36 bp):
AATTTAGGTTTGTTTATAATTCTGTTTGTTTTTTTC
Found at i:43392181 original size:31 final size:29
Alignment explanation
Indices: 43392120--43392182 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
43392110 CCTCTCAATT
***
43392120 TTTTTGAAAATTTTAAATCTCACTTCAAA
1 TTTTTGAAAATTTTAAATCTCACAAAAAA
*
43392149 TTTTTGAAAATCTTATTAATCTCACAAAAAA
1 TTTTTGAAAAT-TT-TAAATCTCACAAAAAA
43392180 TTT
1 TTT
43392183 AAATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 2 0.07
31 15 0.54
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTGAAAATTTTAAATCTCACAAAAAA
Found at i:43392791 original size:11 final size:11
Alignment explanation
Indices: 43392775--43392801 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43392765 CATTAAAACA
43392775 GAAAAGTTTGG
1 GAAAAGTTTGG
43392786 GAAAAGTTTGG
1 GAAAAGTTTGG
43392797 GAAAA
1 GAAAA
43392802 TTCGCTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
GAAAAGTTTGG
Found at i:43393336 original size:7 final size:8
Alignment explanation
Indices: 43393317--43393367 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
43393307 ATGGAGATTT
43393317 TTTTTTAA
1 TTTTTTAA
43393325 TTTTTTAA
1 TTTTTTAA
43393333 TTTTTTATA
1 TTTTTTA-A
43393342 TATTCTTTATA
1 T-TT-TTTA-A
*
43393353 ATTTTT-A
1 TTTTTTAA
43393360 TTTTTTAA
1 TTTTTTAA
43393368 GTTATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 6 0.16
8 16 0.43
9 5 0.14
10 4 0.11
11 6 0.16
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTTAA
Found at i:43400219 original size:29 final size:30
Alignment explanation
Indices: 43400186--43400246 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
43400176 GTAACATGGT
* *
43400186 TGCTTAAATTGTAAACTTTTTAT-TTTGAG
1 TGCTTAAATTGAAAACTTTTTATAGTTGAG
* *
43400215 TGCTTACATTGAAAATTTTTTATAGTTGAG
1 TGCTTAAATTGAAAACTTTTTATAGTTGAG
43400245 TG
1 TG
43400247 ACTATCTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (30 bp):
TGCTTAAATTGAAAACTTTTTATAGTTGAG
Found at i:43406223 original size:11 final size:11
Alignment explanation
Indices: 43406201--43406236 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
43406191 AACTAATCCT
43406201 CTCTCAAATTTC
1 CTCTC-AATTTC
43406213 CTCTCAATTTC
1 CTCTCAATTTC
43406224 CTCTCAATTTC
1 CTCTCAATTTC
43406235 CT
1 CT
43406237 TCCATATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:43406235 original size:22 final size:22
Alignment explanation
Indices: 43406200--43406252 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
43406190 AAACTAATCC
43406200 TCTCTCAAATTTCC-TCTCA-ATT
1 TCTCTC-AATTTCCTTC-CATATT
43406222 TCCTCTCAATTTCCTTCCATATT
1 T-CTCTCAATTTCCTTCCATATT
43406245 TCTCTCAA
1 TCTCTCAA
43406253 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCCATATT
Found at i:43406270 original size:18 final size:17
Alignment explanation
Indices: 43406237--43406270 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43406227 TCAATTTCCT
*
43406237 TCCATATTTCTCTCAAA
1 TCCATATTTATCTCAAA
43406254 TCCATATTTAATCTCAA
1 TCCATATTT-ATCTCAA
43406271 TTTGCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCCATATTTATCTCAAA
Found at i:43408145 original size:18 final size:18
Alignment explanation
Indices: 43408122--43408161 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
43408112 TAGGTGCGTT
*
43408122 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
43408140 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
43408158 TCCT
1 TCCT
43408162 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:43408757 original size:21 final size:21
Alignment explanation
Indices: 43408733--43409707 Score: 1039
Period size: 21 Copynumber: 45.2 Consensus size: 21
43408723 CAAAAACCCT
*
43408733 AACCCTAACCCTTAAAATAAA
1 AACCCTAACCCTTAAATTAAA
*
43408754 AACCCTAACCCTTAAATTAAT
1 AACCCTAACCCTTAAATTAAA
*
43408775 AACCCTAACCCTTAAATTAAT
1 AACCCTAACCCTTAAATTAAA
*
43408796 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
* * *
43408818 AACCATAAACCTTTAACTTAAAAACCA
1 AACCCT-AACCCTTAAATT---AA--A
*
43408845 TAACCCTAACCATTAAATTAAA
1 -AACCCTAACCCTTAAATTAAA
* **
43408867 AACCTTAACCCTTAGCTTAAA
1 AACCCTAACCCTTAAATTAAA
*
43408888 AACCTTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43408908 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
* * *
43408930 AACCATAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
43408952 AACCCTAACCCTAACCATTAAATTAAA
1 AACCCTAA--C---CC-TTAAATTAAA
*
43408979 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409000 AACCCAAACCCTTAAATT-AA
1 AACCCTAACCCTTAAATTAAA
* * *
43409020 AACCCATAAACCTTAACTTAAT
1 AACCC-TAACCCTTAAATTAAA
*
43409042 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
43409063 AACCCTAAACCCTTGACTTAAA
1 AACCCT-AACCCTTAAATTAAA
*
43409085 AATCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409106 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409127 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
43409148 AACCCTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409168 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409189 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409210 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409231 AACCCTAACCTTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
43409252 AACCCTAAACCTTAACTGAAA
1 AACCCTAACCCTTAAATTAAA
* * *
43409273 AACCATAAACCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
43409294 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
43409316 AACCCTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
43409336 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
43409357 AACCCTAAACCCTT-AA-TACAA
1 AACCCT-AACCCTTAAATTA-AA
* *
43409378 CTATACCCTAAACCTTTAACTTAAAAA
1 --A-ACCCT-AACCCTTAAATT--AAA
*
43409405 TCCTAACCCTAACCATTAAATTAAA
1 ----AACCCTAACCCTTAAATTAAA
*
43409430 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
43409451 AACCCTAACCATAAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409472 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* *
43409493 AACCCTAACCTTTAACTT-AA
1 AACCCTAACCCTTAAATTAAA
*
43409513 AACCCTAACCATTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
43409534 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
43409555 AACCCTAACCCTTAACA-TAAA
1 AACCCTAACCCTTAA-ATTAAA
*
43409576 AACCCTAACCCTTAAATTGAA
1 AACCCTAACCCTTAAATTAAA
*
43409597 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
43409618 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAAATTAAA
* *
43409639 AACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
43409660 AACCTTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
*
43409682 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
43409704 AACC
1 AACC
43409708 TTGAGGTTTT
Statistics
Matches: 830, Mismatches: 88, Indels: 71
0.84 0.09 0.07
Matches are distributed among these distances:
20 75 0.09
21 522 0.63
22 154 0.19
23 2 0.00
24 14 0.02
25 7 0.01
26 2 0.00
27 40 0.05
28 11 0.01
29 3 0.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAAATTAAA
Found at i:43408784 original size:27 final size:24
Alignment explanation
Indices: 43408714--43408811 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 24
43408704 ACAAACCTTA
*
43408714 AACCCTTAACAAAAACCCTAACCCT
1 AACCCTTAA-AATAACCCTAACCCT
*
43408739 AACCCTTAAAATAA---AAACCCT
1 AACCCTTAAAATAACCCTAACCCT
*
43408760 AACCCTTAAATTAA---TAACCCT
1 AACCCTTAAAATAACCCTAACCCT
*
43408781 AACCCTTAAATTAA---TAACCCT
1 AACCCTTAAAATAACCCTAACCCT
43408802 AAACCCTTAA
1 -AACCCTTAA
43408812 CTTAAAAACC
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
21 46 0.68
22 9 0.13
24 4 0.06
25 9 0.13
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (24 bp):
AACCCTTAAAATAACCCTAACCCT
Found at i:43408855 original size:27 final size:27
Alignment explanation
Indices: 43408794--43408878 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
43408784 CCTTAAATTA
*
43408794 ATAACCCTAAACCCTTAACTTAAAAACC
1 ATAACCCT-AACCATTAACTTAAAAACC
*
43408822 AT-A----AACCTTTAACTTAAAAACC
1 ATAACCCTAACCATTAACTTAAAAACC
*
43408844 ATAACCCTAACCATTAAATTAAAAACC
1 ATAACCCTAACCATTAACTTAAAAACC
*
43408871 TTAACCCT
1 ATAACCCT
43408879 TAGCTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
22 20 0.42
23 1 0.02
27 25 0.52
28 2 0.04
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (27 bp):
ATAACCCTAACCATTAACTTAAAAACC
Found at i:43408967 original size:27 final size:27
Alignment explanation
Indices: 43408937--43408990 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
43408927 AAAAACCATA
* *
43408937 AACCTTTAACTTAAAAACCCTAACCCT
1 AACCATTAAATTAAAAACCCTAACCCT
43408964 AACCATTAAATTAAAAACCCTAACCCT
1 AACCATTAAATTAAAAACCCTAACCCT
43408991 TAACTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (27 bp):
AACCATTAAATTAAAAACCCTAACCCT
Found at i:43409460 original size:27 final size:28
Alignment explanation
Indices: 43409382--43409441 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
43409372 ATACAACTAT
* * *
43409382 ACCCTAAACCTTTAACTTAAAAATCCTA
1 ACCCTAAACCATTAAATTAAAAACCCTA
43409410 ACCCT-AACCATTAAATTAAAAACCCTA
1 ACCCTAAACCATTAAATTAAAAACCCTA
43409437 ACCCT
1 ACCCT
43409442 TAACTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (28 bp):
ACCCTAAACCATTAAATTAAAAACCCTA
Found at i:43409915 original size:114 final size:114
Alignment explanation
Indices: 43409715--43409983 Score: 484
Period size: 114 Copynumber: 2.4 Consensus size: 114
43409705 ACCTTGAGGT
* *
43409715 TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTAAATTCACATAATGTTAGATTTGGAA
43409780 AAATGTTTGGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTGGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
*
43409829 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTAAATTTACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTAAATTCACATAATGTTAGATTTGGAA
*
43409894 AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTGGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
*
43409943 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTA
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTTTA
43409984 CAAATATAAA
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
114 131 0.88
115 18 0.12
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (114 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTAAATTCACATAATGTTAGATTTGGAA
AAATGTTTGGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
Found at i:43413160 original size:124 final size:125
Alignment explanation
Indices: 43412989--43413501 Score: 805
Period size: 125 Copynumber: 4.1 Consensus size: 125
43412979 CCCAAACATG
*
43412989 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
43413054 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCAAAATTATTT-TTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * *
43413113 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCAATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
43413178 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * *
43413238 CTACTGTAGAAAAAGCGCGTCCACTAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* **
43413303 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * *
43413363 CTACTGTAGCAAAAGCACGTCCACGAAGGCGTGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
43413428 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
43413487 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
43413502 TGCATACACA
Statistics
Matches: 354, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
124 131 0.37
125 223 0.63
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:43413487 original size:249 final size:249
Alignment explanation
Indices: 43412989--43413501 Score: 812
Period size: 249 Copynumber: 2.1 Consensus size: 249
43412979 CCCAAACATG
* * *
43412989 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* **
43413054 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCAAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTTTTCCAAGACCTACTG
* * * * * *
43413119 TAGCAAAAGCGCGTCCATGAGGGCGCAATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAG
131 TAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
* *
43413184 CGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTCTTCCAGGAC
196 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
43413238 CTACTGTAGAAAAAGCGCGTCCACTAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* *
43413303 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCGAAATTATTTCTTCCAGGACCTACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTT-TTCCAAGACCTACT
**
43413368 GTAGCAAAAGCACGTCCACGAAGGCGTGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
130 GTAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
*
43413433 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
195 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
43413487 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
43413502 TGCATACACA
Statistics
Matches: 240, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
249 127 0.53
250 113 0.47
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTTTTCCAAGACCTACTG
TAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:43413580 original size:16 final size:16
Alignment explanation
Indices: 43413542--43413584 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43413532 CTTTTTTTCT
43413542 CAAAAACCCTAAAAATC
1 CAAAAA-CCTAAAAATC
* *
43413559 C-TAAACCTTAAAATC
1 CAAAAACCTAAAAATC
43413574 CAAAAACCTAA
1 CAAAAACCTAA
43413585 CGTGGGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 10 0.48
16 10 0.48
17 1 0.05
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAAACCTAAAAATC
Found at i:43414336 original size:15 final size:16
Alignment explanation
Indices: 43414316--43414346 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
43414306 TAGCTAAATC
43414316 GAAAAGAA-AAAAAAA
1 GAAAAGAATAAAAAAA
43414331 GAAAAGAATAAAAAAA
1 GAAAAGAATAAAAAAA
43414347 TAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
GAAAAGAATAAAAAAA
Found at i:43417834 original size:2 final size:2
Alignment explanation
Indices: 43417827--43417903 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
43417817 TTCAAGACAA
43417827 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
43417869 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43417904 TCCAAGCATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43425569 original size:19 final size:19
Alignment explanation
Indices: 43425522--43425572 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
43425512 TCAAAAACAA
*
43425522 TTAATTAATTTTATGAATTT
1 TTAA-TAATTTTTTGAATTT
*
43425542 TTAAGAATTTTTTGATATTT
1 TTAATAATTTTTTGA-ATTT
43425562 TT-ATAATTTTT
1 TTAATAATTTTT
43425573 AAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTAATAATTTTTTGAATTT
Found at i:43425572 original size:9 final size:10
Alignment explanation
Indices: 43425530--43425573 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
43425520 AATTAATTAA
43425530 TTTTATGAAT
1 TTTTATGAAT
*
43425540 TTTTAAGAAT
1 TTTTATGAAT
43425550 TTTT-TGATAT
1 TTTTATGA-AT
43425560 TTTTAT-AAT
1 TTTTATGAAT
43425569 TTTTA
1 TTTTA
43425574 AAAATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:43432853 original size:26 final size:26
Alignment explanation
Indices: 43432823--43432884 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
43432813 TACCTACAGT
43432823 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
43432849 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
*
43432875 AGTTTTAGAA
1 AGTTTCAGAA
43432885 CACTTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:43436500 original size:17 final size:18
Alignment explanation
Indices: 43436480--43436513 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43436470 TTATTTAGAT
43436480 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
43436497 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
43436514 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:43444574 original size:67 final size:67
Alignment explanation
Indices: 43444495--43444628 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
43444485 TATTATTACG
43444495 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
1 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
43444560 CT
66 CT
43444562 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
1 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
43444627 CT
66 CT
43444629 CTTCTCGAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (67 bp):
AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
CT
Found at i:43455049 original size:19 final size:19
Alignment explanation
Indices: 43455010--43455046 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
43455000 TTATGGATAG
*
43455010 TTAATTAAAGTTTAATTAA
1 TTAATTAAAGCTTAATTAA
43455029 TTAATT-AAGCTTAATTAA
1 TTAATTAAAGCTTAATTAA
43455047 ATTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAAGCTTAATTAA
Found at i:43478247 original size:27 final size:27
Alignment explanation
Indices: 43478217--43478394 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43478207 ATATTGAGTC
* * * *
43478217 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43478244 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43478271 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43478299 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43478326 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43478353 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43478380 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43478395 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43478356 original size:82 final size:81
Alignment explanation
Indices: 43478238--43478393 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43478228 TGCTATATAA
* *
43478238 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43478303 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43478320 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43478384 CACTTAGTGC
65 CACTTAGTGC
43478394 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43480375 original size:35 final size:35
Alignment explanation
Indices: 43480275--43480377 Score: 104
Period size: 35 Copynumber: 3.0 Consensus size: 35
43480265 CTCTAATTGA
* * *
43480275 ATAAACCAAC-AATGCTTGCGCCTAGCGCTAGTCGG
1 ATAAACCAACGAAAG-TTGCGCCCAGCGCTAGTCAG
* * *
43480310 ATAAACCAACGAATG-TGTGCCCAGCACTAGTCAG
1 ATAAACCAACGAAAGTTGCGCCCAGCGCTAGTCAG
*
43480344 ATGAACTC-ACGAAAGTTGCGCCCAGCGCTAGTCA
1 ATAAAC-CAACGAAAGTTGCGCCCAGCGCTAGTCA
43480378 AACAAATCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
34 26 0.46
35 27 0.47
36 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.18
Consensus pattern (35 bp):
ATAAACCAACGAAAGTTGCGCCCAGCGCTAGTCAG
Found at i:43485507 original size:12 final size:12
Alignment explanation
Indices: 43485490--43485515 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43485480 ATAGCCCATA
43485490 TTGATATGCTAT
1 TTGATATGCTAT
43485502 TTGATATGCTAT
1 TTGATATGCTAT
43485514 TT
1 TT
43485516 TTAACAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGATATGCTAT
Found at i:43488268 original size:30 final size:31
Alignment explanation
Indices: 43488228--43488294 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 31
43488218 CTATACTCAT
*
43488228 ATATAGTTA-TTTGTTGTTGCATAGTCATTA
1 ATATAATTATTTTGTTGTTGCATAGTCATTA
43488258 ATATAATTATTTTTTGTTGTTGCATAGTCATTA
1 ATATAATTA--TTTTGTTGTTGCATAGTCATTA
43488291 ATAT
1 ATAT
43488295 GCATTTCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
33 25 0.76
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.52
Consensus pattern (31 bp):
ATATAATTATTTTGTTGTTGCATAGTCATTA
Found at i:43490810 original size:14 final size:14
Alignment explanation
Indices: 43490791--43490821 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43490781 CATAAAATTG
43490791 TAATTCAAGCTATT
1 TAATTCAAGCTATT
*
43490805 TAATTCAAGTTATT
1 TAATTCAAGCTATT
43490819 TAA
1 TAA
43490822 AGAGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (14 bp):
TAATTCAAGCTATT
Found at i:43491290 original size:24 final size:25
Alignment explanation
Indices: 43491233--43491299 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
43491223 TGTGCTTTTC
*
43491233 CCCAATGGT-AATTTTTTGAATGTTG
1 CCCAATGGTAAATTTTTTTAATG-TG
* *
43491258 -GCAACGGTAAATTTTTTTAATG-G
1 CCCAATGGTAAATTTTTTTAATGTG
*
43491281 CCCAATGGTAAGTTTTTTT
1 CCCAATGGTAAATTTTTTT
43491300 TCCTACAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.03
24 21 0.62
25 12 0.35
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (25 bp):
CCCAATGGTAAATTTTTTTAATGTG
Found at i:43491376 original size:27 final size:28
Alignment explanation
Indices: 43491337--43491397 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
43491327 TTTTTTTTCA
*
43491337 CTAAA-CCCCAACCCTCTCAATTGTT-T
1 CTAAATCCCCAACCCTCTCAAGTGTTGT
*
43491363 CTAAATCCTCAACCCTCTCAAGTGTTGGT
1 CTAAATCCCCAACCCTCTCAAGTGTT-GT
43491392 CTAAAT
1 CTAAAT
43491398 TTTCTGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 5 0.17
27 18 0.60
29 7 0.23
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (28 bp):
CTAAATCCCCAACCCTCTCAAGTGTTGT
Found at i:43493616 original size:18 final size:18
Alignment explanation
Indices: 43493590--43493624 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43493580 AGATGAAGAC
*
43493590 GAAGTCGAAGGTAGAGAT
1 GAAGACGAAGGTAGAGAT
43493608 GAAGACGAAGGTAGAGA
1 GAAGACGAAGGTAGAGA
43493625 CGAATATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (18 bp):
GAAGACGAAGGTAGAGAT
Found at i:43499657 original size:24 final size:25
Alignment explanation
Indices: 43499630--43499678 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
43499620 GGTTAATCGG
* * *
43499630 AGTTTAAGTGAGA-AAGTAAATCAA
1 AGTTTAACTAAGAGAAGAAAATCAA
43499654 AGTTTAACTAAGAGAAGAAAATCAA
1 AGTTTAACTAAGAGAAGAAAATCAA
43499679 GAACCTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.22
Consensus pattern (25 bp):
AGTTTAACTAAGAGAAGAAAATCAA
Found at i:43511156 original size:10 final size:10
Alignment explanation
Indices: 43511143--43511173 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
43511133 GCTTAAGGTT
43511143 AGTTTAATTA
1 AGTTTAATTA
43511153 AGTTTAATTA
1 AGTTTAATTA
*
43511163 AGATTAATTA
1 AGTTTAATTA
43511173 A
1 A
43511174 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (10 bp):
AGTTTAATTA
Found at i:43515536 original size:29 final size:27
Alignment explanation
Indices: 43515474--43515537 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
43515464 CATGTGTCAT
43515474 TTTTATAACTACATTAATCAAAAAAAA
1 TTTTATAACTACATTAATCAAAAAAAA
* * *
43515501 TTATATAACTTACTAATTAAT-TAAAAATA
1 TTTTATAAC-TAC--ATTAATCAAAAAAAA
43515530 TTTTATAA
1 TTTTATAA
43515538 ATATAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 8 0.27
28 3 0.10
29 13 0.43
30 6 0.20
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (27 bp):
TTTTATAACTACATTAATCAAAAAAAA
Found at i:43516138 original size:244 final size:245
Alignment explanation
Indices: 43515827--43516288 Score: 657
Period size: 244 Copynumber: 1.9 Consensus size: 245
43515817 ATGGTATTGT
*
43515827 AAAATATTTAAAAAACAGATATTTAAGTACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
1 AAAATATTTAAAAAACAGATATTTAAGCACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
*
43515892 ATAAACTATTGAAAAATAGATA-TTTAAAAAAGTAGAGACAAATGTCATTTTTTTAATGTTGCTT
66 ATAAACTATTG-AAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTGCTT
** *
43515956 ATGAAATG-AAAAAATATATTG-CAAATACTCACCCATATAGGGAAAATATTTGGTACACTGTCA
130 ATGAAATGAAAAAAATATATTGTCAAATACTCACCCATATAGAAAAAATATTTGGTACACTATCA
*
43516019 GTGGAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
195 GTGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
* * **
43516070 AAAATATTTATAAAAAGTAGATATTTAAGCAGGGTT-AGGGATTTTCCAAGTGTGC-T-TAGGGG
1 AAAATATTTA-AAAAA-CAGATATTTAAGCACGGTTAAGGGA-TTGACAAGTGT-CTTATAGGGG
*
43516132 TATGATAAACTATTGAAAATAGATATTTTAAAAAAATTGAGACAAATGTCATTTTTTTAATGTTG
62 TATGATAAACTATTGAAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTG
*
43516197 CTTGTGAAATGAAAAAAATATATTGTCAATTTACCAAATACTCACCCATATAGAAAAAATATTTG
127 CTTATGAAATGAAAAAAATATATTG------T--CAAATACTCACCCATATAGAAAAAATATTTG
43516262 GTACACTATCAGTGAAATTTTTAGACT
184 GTACACTATCAGTGAAATTTTTAGACT
43516289 CTACAAGCAG
Statistics
Matches: 192, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
243 20 0.10
244 78 0.41
245 39 0.20
246 1 0.01
254 54 0.28
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (245 bp):
AAAATATTTAAAAAACAGATATTTAAGCACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
ATAAACTATTGAAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTGCTTA
TGAAATGAAAAAAATATATTGTCAAATACTCACCCATATAGAAAAAATATTTGGTACACTATCAG
TGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
Found at i:43523261 original size:16 final size:16
Alignment explanation
Indices: 43523237--43523267 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43523227 TCGGGCTATA
43523237 ACTAAGCATGTCAAAC
1 ACTAAGCATGTCAAAC
*
43523253 ACTATGCATGTCAAA
1 ACTAAGCATGTCAAA
43523268 AATAGCATAC
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:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (16 bp):
ACTAAGCATGTCAAAC
Found at i:43525583 original size:90 final size:90
Alignment explanation
Indices: 43525472--43525752 Score: 537
Period size: 90 Copynumber: 3.1 Consensus size: 90
43525462 AAAAATAATA
* *
43525472 AAATT-ATAAATTAATTTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
43525536 ATTTCTTCAATAATAATGGAATTTT
66 ATTTCTTCAATAATAATGGAATTTT
43525561 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
43525626 ATTTCTTCAATAATAATGGAATTTT
66 ATTTCTTCAATAATAATGGAATTTT
43525651 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
43525716 ATTTCTTCAATAATAATGGAATTTT
66 ATTTCTTCAATAATAATGGAATTTT
43525741 AAATTAATACAT
1 AAATTAATACAT
43525753 GATAAAATTA
Statistics
Matches: 189, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 5 0.03
90 184 0.97
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (90 bp):
AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
ATTTCTTCAATAATAATGGAATTTT
Found at i:43531873 original size:33 final size:34
Alignment explanation
Indices: 43531815--43531882 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
43531805 TTACAATTCA
* *
43531815 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
*
43531849 AATTAGTTTTTTATTC-TT-TTTTTATATTTAATT
1 AATTAGTTTTTT-TTCATTGTCTTTATATTTAATT
43531882 A
1 A
43531883 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (34 bp):
AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
Found at i:43531879 original size:29 final size:28
Alignment explanation
Indices: 43531834--43531889 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
43531824 TTTTTCATTG
*
43531834 TCTTTATTTTTTATTAATTAGTTTTTTAT
1 TCTTTATTTTATATTAATTA-TTTTTTAT
43531863 TCTTT-TTTTATATTTAATTATTTTTTA
1 TCTTTATTTTATA-TTAATTATTTTTTA
43531890 AAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (28 bp):
TCTTTATTTTATATTAATTATTTTTTAT
Found at i:43531911 original size:27 final size:27
Alignment explanation
Indices: 43531881--43531937 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
43531871 TATATTTAAT
* *
43531881 TATTTTTTAAAAAAATATATGTATATA
1 TATTTTTCAAAAAAATATATGTATACA
* * *
43531908 TATTTTTCATATATATATATGTATACA
1 TATTTTTCAAAAAAATATATGTATACA
43531935 TAT
1 TAT
43531938 AAATATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
TATTTTTCAAAAAAATATATGTATACA
Found at i:43532240 original size:9 final size:8
Alignment explanation
Indices: 43532224--43532262 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
43532214 GGATTATTGT
43532224 TTTTTTTA
1 TTTTTTTA
43532232 TTTTGTTTA
1 TTTT-TTTA
*
43532241 TTTATTTA
1 TTTTTTTA
43532249 TTTTTATTA
1 TTTTT-TTA
43532258 TTTTT
1 TTTTT
43532263 ATGCCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:43532689 original size:98 final size:98
Alignment explanation
Indices: 43532578--43532774 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
43532568 TTAAAAATAA
* * * *
43532578 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTTATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
43532643 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
*
43532676 TAAAGGAAGTATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
43532741 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
43532774 T
1 T
43532775 TTTATCGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
Found at i:43544309 original size:44 final size:44
Alignment explanation
Indices: 43544261--43544401 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
43544251 AAGATTATAG
43544261 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
* * ** ** *
43544305 ATCTTAACTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCGA
* * *
43544348 AGCCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
43544393 ATCTTATCT
1 ATCTTATCT
43544402 TTCCAAGATA
Statistics
Matches: 71, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
42 4 0.06
43 10 0.14
44 43 0.61
45 10 0.14
46 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
Found at i:43544386 original size:132 final size:132
Alignment explanation
Indices: 43544149--43544386 Score: 368
Period size: 132 Copynumber: 1.8 Consensus size: 132
43544139 CTGAAGTTAC
* * *
43544149 AGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
* * * * *
43544214 CAAGCCTTGTCTCCTTGAGTAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGATCGAAGATTATAGATCTTATCTCCCTAAGCA
43544279 GT
131 GT
*
43544281 AGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
* * *
43544346 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGATCGAAGA
43544387 CGGCGAATCT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (132 bp):
AGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGATCGAAGATTATAGATCTTATCTCCCTAAGCA
GT
Found at i:43544416 original size:88 final size:88
Alignment explanation
Indices: 43544267--43544455 Score: 333
Period size: 88 Copynumber: 2.1 Consensus size: 88
43544257 ATAGATCTTA
43544267 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAG
*
43544332 CAGATTTAAGCCACCAAGCCTTG
66 CAGATTTAAGCCACCAAACCTTG
* *
43544355 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAG
43544420 CAGATTTAAGCCACCAAACCTTG
66 CAGATTTAAGCCACCAAACCTTG
* *
43544443 TCTCTCTGAGCAG
1 TCTCCCTAAGCAG
43544456 CAACGGAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (88 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAACCTTG
Found at i:43544422 original size:44 final size:44
Alignment explanation
Indices: 43544286--43544424 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
43544276 GCAGTAGTGG
*
43544286 AGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGA
1 AGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
** ** * * * *
43544330 AGCAGATTTAAG-CCACCAAGCCTTGTC-TCCCTAAGCAGTAGT-GG-
1 AGCAGATCAAAGACGGCGAA-TCTTATCTTTCC-AAG-A-TAGTGGGA
*
43544374 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
1 AGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
43544418 AGCAGAT
1 AGCAGAT
43544425 TTAAGCCACC
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 10 0.14
44 42 0.60
45 10 0.14
46 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (44 bp):
AGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGA
Found at i:43544523 original size:44 final size:44
Alignment explanation
Indices: 43544474--43544658 Score: 128
Period size: 44 Copynumber: 4.2 Consensus size: 44
43544464 AAGGTTATAG
43544474 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** ** *
43544518 ATCTTATCTTTCC-AAG-A-TAGCGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAG-TGG-AGCAGATCGAAGACGGCGA
* * * * * * * * * *
43544561 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATGG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
*
43544605 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
43544650 ATCTTATCT
1 ATCTTATCT
43544659 TTTCAAGATA
Statistics
Matches: 101, Mismatches: 30, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 3 0.03
43 10 0.10
44 78 0.77
45 8 0.08
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
Found at i:43544545 original size:213 final size:216
Alignment explanation
Indices: 43544149--43544580 Score: 701
Period size: 213 Copynumber: 2.0 Consensus size: 216
43544139 CTGAAGTTAC
*
43544149 AGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
* * *
43544214 CAAGCCTTGTCTCCTTGAGTAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAACCTTGTCTCCTTGAGCAGCAACGGAGAA----GAAGATTATAGATCTTATCTCCCTAAGCA
*
43544279 GTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
127 GTAGTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGCGGGAAGCAGATTTAAGCC
43544344 ACCAAGCCTTGTCTCCCTAAGCAGT
192 ACCAAGCCTTGTCTCCCTAAGCAGT
*
43544369 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
*
43544434 CAAACCTTGTCT-CTCTGAGCAGCAAC-G-GAA-AAGGTTATAGATCTTATCTCCCTAAGCAGTA
66 CAAACCTTGTCTCCT-TGAGCAGCAACGGAGAAGAAGATTATAGATCTTATCTCCCTAAGCAGTA
* *
43544495 GTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGCGGGAAGCAGATTTAAGCCACC
130 GTGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGCGGGAAGCAGATTTAAGCCACC
*
43544560 AAGCCTTGTCTCCCTGAGCAG
195 AAGCCTTGTCTCCCTAAGCAG
43544581 CAGCGGAGAA
Statistics
Matches: 201, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
213 112 0.56
218 3 0.01
219 3 0.01
220 83 0.41
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (216 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
CAAACCTTGTCTCCTTGAGCAGCAACGGAGAAGAAGATTATAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGCGAATCTTAACTTTCCAAGATAGCGGGAAGCAGATTTAAGCCACCA
AGCCTTGTCTCCCTAAGCAGT
Found at i:43545952 original size:132 final size:132
Alignment explanation
Indices: 43544355--43545918 Score: 2440
Period size: 132 Copynumber: 11.9 Consensus size: 132
43544345 CCAAGCCTTG
43544355 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * *
43544420 CAGATTTAAGCCACCAAACCTTGTCTCTCTGAGCAGCAACGGA-AA--A-G--G-TTATAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43544478 TA
131 TA
*
43544480 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGCGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43544545 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATGGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43544610 TA
131 TA
* * * *
43544612 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCAAGATAATAGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
*
43544677 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43544742 TA
131 TA
* *
43544744 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* ** *
43544809 CAGATTTAGGCCACCAAGCCTTGTCTCATTGAGCAGCAGCGGAGAAGGAAGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43544874 TA
131 TA
* * * * * * **
43544876 TCTCCCTAAGCAATAGTAGAGGAGATCGAAGACGGTGAATCTTATCTTTCTACGATAGTAAGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* *
43544941 CAGATTTAGGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGACGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545006 TA
131 TA
* *
43545008 TCTCCCTAAGCAGTAGGGGAGCAGATCGAACACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * *
43545073 CAGATTTAGGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGAAGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545138 TA
131 TA
*
43545140 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * **
43545205 CAGATTTAGGCCACCAAGCCTTGTCTCCTTGAGCAACAGCGGAGAAGGAAAAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545270 TA
131 TA
* *
43545272 TCTCCCTAAGCAGTAGGGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * * *
43545337 TAGATTTAAGCCACCAAGTCTTGTCTCTCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545402 TA
131 TA
*
43545404 TCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * *
43545469 CAGATTTAGGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGAAGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545534 TA
131 TA
*
43545536 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * **
43545601 CAGATTTAGGCCACCAAGCCTTGTCTCCTTGAGCAACAGCGGAGAAGGAAAAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545666 TA
131 TA
* * * *
43545668 TCTCCCTAAGCAATAGGGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAATATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * *
43545733 TAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGGGAAGGTTGAAGATTGTAGATCT
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
43545798 TA
131 TA
* * * *
43545800 TCTCCCTAAGTAGTAGTGGAGCAGATAGAAGACGGCGAATTTTATCTTTCTAAGATAGTGGGAAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
* * * *
43545865 CAGATTAAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAACGGAGAAGGTTGAAG
66 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAG
43545919 CTACAAGTCT
Statistics
Matches: 1325, Mismatches: 107, Indels: 7
0.92 0.07 0.00
Matches are distributed among these distances:
125 104 0.08
126 2 0.00
129 1 0.00
131 1 0.00
132 1217 0.92
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAG
CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCT
TA
Found at i:43546219 original size:17 final size:17
Alignment explanation
Indices: 43546178--43546222 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
43546168 GCCGAAACCT
43546178 ATGTGGCCCAAACCCAA
1 ATGTGGCCCAAACCCAA
* *
43546195 CTGAGGCCCAAA-CCAA
1 ATGTGGCCCAAACCCAA
43546211 ATAGTGGCCCAA
1 AT-GTGGCCCAA
43546223 GACTGATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.36, C:0.33, G:0.20, T:0.11
Consensus pattern (17 bp):
ATGTGGCCCAAACCCAA
Found at i:43547385 original size:34 final size:34
Alignment explanation
Indices: 43547326--43547394 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
43547316 TTACAATTCA
* *
43547326 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
*
43547360 AATTAGTTTTTTTATTC-TT-TTTTTATATTTAATT
1 AATTAG-TTTTTT-TTCATTGTCTTTATATTTAATT
43547394 A
1 A
43547395 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 19 0.63
35 8 0.27
36 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (34 bp):
AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
Found at i:43547392 original size:30 final size:33
Alignment explanation
Indices: 43547326--43547399 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 33
43547316 TTACAATTCA
*
43547326 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAG-TTTTTTTCATTGTCTTTATTTTATATT
43547360 AATTAGTTTTTTT-A-T-TCTTT-TTTTATATTT
1 AATTAGTTTTTTTCATTGTCTTTATTTTATA-TT
43547390 AATTA-TTTTT
1 AATTAGTTTTT
43547400 AAAAAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 11 0.29
30 12 0.32
31 1 0.03
32 1 0.03
33 7 0.18
34 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (33 bp):
AATTAGTTTTTTTCATTGTCTTTATTTTATATT
Found at i:43548201 original size:98 final size:98
Alignment explanation
Indices: 43548090--43548286 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
43548080 TTAAAAATAA
* * * *
43548090 TAAAGGAAATATTCAGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGAAATTTC
1 TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
43548155 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
* * **
43548188 TAAAGGAAGTATTCCGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
*
43548253 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
43548286 T
1 T
43548287 TTTATCGCAC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
Found at i:43549633 original size:22 final size:22
Alignment explanation
Indices: 43549606--43549656 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
43549596 CTCTCTAATC
43549606 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
43549628 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
43549650 CTCTCAA
1 CTCTCAA
43549657 ACTCATACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:43549739 original size:29 final size:32
Alignment explanation
Indices: 43549702--43549765 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 32
43549692 CTCAAATCCA
43549702 TTTTTTAAAATAA-TTAT-AA-TTTTTTATAT
1 TTTTTTAAAATAATTTATAAATTTTTTTATAT
*
43549731 TTTTTTAAAATAATTTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTATAAATTTTTTTATAT
43549763 TTT
1 TTT
43549766 CATCAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 13 0.42
30 3 0.10
31 2 0.06
32 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTTTAAAATAATTTATAAATTTTTTTATAT
Found at i:43549754 original size:22 final size:23
Alignment explanation
Indices: 43549717--43549759 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
43549707 TAAAATAATT
*
43549717 ATAATTTTTTATATTTTTTTAAA
1 ATAATTTTTTAAATTTTTTTAAA
43549740 ATAA-TTTTTAAATTTTTTTA
1 ATAATTTTTTAAATTTTTTTA
43549760 TATTTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATAATTTTTTAAATTTTTTTAAA
Found at i:43550857 original size:7 final size:7
Alignment explanation
Indices: 43550845--43550869 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43550835 AGTCGATTGA
43550845 TATTTAG
1 TATTTAG
43550852 TATTTAG
1 TATTTAG
43550859 TATTTAG
1 TATTTAG
43550866 TATT
1 TATT
43550870 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:43551542 original size:18 final size:18
Alignment explanation
Indices: 43551521--43551555 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43551511 AGGTATGTTT
* *
43551521 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
43551539 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
43551556 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:43551850 original size:24 final size:24
Alignment explanation
Indices: 43551814--43551869 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
43551804 ATGCGGAACC
43551814 GGAAGAACCACAACCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
* * *
43551838 GGAAGGACTACAATCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
43551862 GGAAGAAC
1 GGAAGAAC
43551870 AACCGCCGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.30, G:0.21, T:0.04
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:43552138 original size:28 final size:28
Alignment explanation
Indices: 43552106--43553056 Score: 1328
Period size: 28 Copynumber: 33.4 Consensus size: 28
43552096 TAACCTAACC
43552106 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552134 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552162 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552190 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
43552218 CTAACCTAAATTAAATT-AAAACCCTAACT
1 CTAACCTAAATT-AATTAAAAACCCTAA-T
*
43552247 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * * *
43552275 CTAACTTAAATAAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
43552304 CTAACATAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
43552332 CTAACCTAAATTAATTTAAAACCTTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
43552361 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552389 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552417 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * * *
43552445 CTAACCTAAATTAATTTATAACCATAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
43552474 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
43552502 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
43552531 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552559 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
43552587 CTAGCCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * * *
43552615 CTAACCTAAATTAATTTACAACCATAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
43552644 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552672 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
43552700 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
43552729 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552757 CTAACCTAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
43552787 AACCCTAACCTAAATTAATTAAAAACCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
*
43552819 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
43552847 CTAACTTAAATTAATTCAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
43552876 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552904 CTAACCTAAATTAATTAAAAACTCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552932 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552960 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
43552988 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
43553017 CTAACCTAAATTAATTAAAAACCCAAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
43553045 CTAACCTAAATT
1 CTAACCTAAATT
43553057 TTTTTGGCTT
Statistics
Matches: 830, Mismatches: 76, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
28 581 0.70
29 221 0.27
30 1 0.00
32 1 0.00
34 26 0.03
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:43552266 original size:113 final size:112
Alignment explanation
Indices: 43552106--43553056 Score: 1289
Period size: 113 Copynumber: 8.4 Consensus size: 112
43552096 TAACCTAACC
43552106 CTAACCTAAATT-AATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAAATT-AAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* *
43552170 AATTAACTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAAT
65 AATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCTAAT
* * *
43552218 CTAACCTAAATTAAATTAAAACCCTAACTCTAACCTAAATTAATTAAAAAACCTAATCTAACTTA
1 CTAACCTAAATTAAATTAAAACCCTAA-TCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* * *
43552283 AATAAACTAAAAACCCTAAACCTAACATAAATTAACTAAAAACCCTAAT
65 AATTAATTAAAAACCCT-AACCTAACCTAAATTAACTAAAAACCCTAAT
* * *
43552332 CTAACCTAAATTAATTTAAAACCTTAACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAAATTAAAACCCTAA-TCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* * * *
43552397 AATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAAT
65 AATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCTAAT
* * * *
43552445 CTAACCTAAATTAATTTATAACCATAAACCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAAATTAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* *
43552510 AATTAATTTAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAAT
65 AATTAATTAAAAACCCTAA-CCTAACCTAAATTAACTAAAAACCCTAAT
* * * * *
43552559 CTAACCTAAATTAACTAAAAACCCTAATCTAGCCTAAATTAATTTAAAACCCTAATCTAACCTAA
1 CTAACCTAAATTAAATTAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
* * *
43552624 ATTAATTTACAACCATAAACCTAACCTAAATTAACTAAAAACCCTAAT
66 ATTAATTAAAAACCCT-AACCTAACCTAAATTAACTAAAAACCCTAAT
* * * *
43552672 CTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCTAACCTA
1 CTAACCTAAATTAAATTAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAA-TCTAACCTA
* *
43552737 AATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
65 AATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCTAA--T
43552787 AACCCTAACCTAAATT-AATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAA
1 ----CTAACCTAAATTAAATT-AAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAA
* * * *
43552851 CTTAAATTAATTCAAAACCCTAACCCTAACCTAAATTAATTAAAAAACCTAAT
61 CCTAAATTAATTAAAAACCCTAA-CCTAACCTAAATTAACTAAAAACCCTAAT
*
43552904 CTAACCTAAATT-AATTAAAAACTCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAAATT-AAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* * * *
43552968 AATTAATTTAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAAC
65 AATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCT-AAT
* *
43553017 CTAACCTAAATT-AATTAAAAACCCAAAACTAACCTAAATT
1 CTAACCTAAATTAAATT-AAAACCCTAATCTAACCTAAATT
43553057 TTTTTGGCTT
Statistics
Matches: 761, Mismatches: 62, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
112 46 0.06
113 436 0.57
114 177 0.23
115 1 0.00
117 1 0.00
118 27 0.04
119 73 0.10
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (112 bp):
CTAACCTAAATTAAATTAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
ATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCTAAT
Found at i:43552267 original size:85 final size:84
Alignment explanation
Indices: 43552106--43553056 Score: 1362
Period size: 85 Copynumber: 11.1 Consensus size: 84
43552096 TAACCTAACC
43552106 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
*
43552171 ATTAACTAAAAACCCTAAT
66 ATTAATTAAAAACCCTAAT
* * *
43552190 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAACTCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAA-TCTAACCTA
*
43552255 AATTAATTAAAAAACCTAAT
65 AATTAATTAAAAACCCTAAT
* * * * *
43552275 CTAACTTAAATAAACTAAAAACCCTAAACCTAACATAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* * *
43552340 AATTAATTTAAAACCTTAACC
65 AATTAATTAAAAACCCTAA-T
*
43552361 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
*
43552426 ATTAATTTAAAACCCTAAT
66 ATTAATTAAAAACCCTAAT
* * * *
43552445 CTAACCTAAATTAATTTATAACCATAAACCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
* *
43552510 AATTAATTTAAAACCCTAACC
65 AATTAATTAAAAACCCTAA-T
*
43552531 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAGCCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
*
43552596 ATTAATTTAAAACCCTAAT
66 ATTAATTAAAAACCCTAAT
* * * *
43552615 CTAACCTAAATTAATTTACAACCATAAACCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
*
43552680 AATTAATTTAAAACCCTAAT
65 AATTAATTAAAAACCCTAAT
* * * *
43552700 CTAACCTAAATTAATTTAAAACCCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAACTAAAAACCCTAATCTAACCTA
*
43552765 AATTAACTAAAAACCCTAACCT
65 AATTAATTAAAAACCCTAA--T
43552787 AACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAAC
1 ----CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAAC
* * *
43552852 TTAAATTAATTCAAAACCCTAACC
62 CTAAATTAATTAAAAACCCTAA-T
* * *
43552876 CTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAATTAAAAACTCTAATCTAACCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
*
43552941 ATTAACTAAAAACCCTAAT
66 ATTAATTAAAAACCCTAAT
* * *
43552960 CTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTA
* *
43553025 AATTAATTAAAAACCCAAAA
65 AATTAATTAAAAACCCTAAT
43553045 CTAACCTAAATT
1 CTAACCTAAATT
43553057 TTTTTGGCTT
Statistics
Matches: 787, Mismatches: 66, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
84 147 0.19
85 491 0.62
86 71 0.09
87 1 0.00
89 1 0.00
90 50 0.06
91 26 0.03
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (84 bp):
CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
ATTAATTAAAAACCCTAAT
Found at i:43553110 original size:25 final size:26
Alignment explanation
Indices: 43553054--43553110 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
43553044 ACTAACCTAA
*
43553054 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTCTACAT
43553080 ATTTTTTTGGCTTAATAATTCTACAT
1 ATTTTTTTGGCTTAATAATTCTACAT
43553106 ATTTT
1 ATTTT
43553111 GAACACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
ATTTTTTTGGCTTAATAATTCTACAT
Found at i:43553221 original size:10 final size:10
Alignment explanation
Indices: 43553206--43553230 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43553196 TTTTGGCTTA
43553206 ATAATTTTAC
1 ATAATTTTAC
43553216 ATAATTTTAC
1 ATAATTTTAC
43553226 ATAAT
1 ATAAT
43553231 GTTAGATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:43556566 original size:124 final size:126
Alignment explanation
Indices: 43556336--43556682 Score: 619
Period size: 127 Copynumber: 2.8 Consensus size: 126
43556326 CCCAAACTTG
43556336 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
43556401 TAGAAACGATTTTATACTATTTGCTCAGAAACATT-AAAAAAAA-TTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATTAAAAAAAAATTTATTTCTTACATGAC
43556460 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
43556525 TAGAAACGATTTTATACTATTTGCTCAGAAAAATTAGAAAAAAAATTTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATTA-AAAAAAAATTTATTTCTTACATGAC
* *
43556587 CTTCTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
43556652 TAGAAGCGATTTTATACTATTTGAC-CAGAAA
66 TAGAAACGATTTTATACTATTTG-CTCAGAAA
43556683 CGTCAACTCG
Statistics
Matches: 215, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
124 99 0.46
126 8 0.04
127 107 0.50
128 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATTAAAAAAAAATTTATTTCTTACATGAC
Found at i:43557641 original size:12 final size:10
Alignment explanation
Indices: 43557611--43557635 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43557601 AAGTTTTTCA
43557611 TTTTTTTATT
1 TTTTTTTATT
43557621 TTTTTTTATT
1 TTTTTTTATT
43557631 TTTTT
1 TTTTT
43557636 GCTTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:43562133 original size:13 final size:13
Alignment explanation
Indices: 43562115--43562151 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
43562105 CCAACCCAGC
*
43562115 CCAAACTCAATTA
1 CCAAACCCAATTA
43562128 CCAAACCCAATTA
1 CCAAACCCAATTA
*
43562141 CCCAACCCAAT
1 CCAAACCCAAT
43562152 AAAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (13 bp):
CCAAACCCAATTA
Found at i:43562311 original size:9 final size:9
Alignment explanation
Indices: 43562299--43562351 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
43562289 AAAAATTTTA
43562299 GGTAATTCG
1 GGTAATTCG
*
43562308 GGTATTTTTC-
1 GGTA--ATTCG
43562318 GGTAATTCG
1 GGTAATTCG
* *
43562327 GTTAATTCA
1 GGTAATTCG
43562336 GGTAATTCG
1 GGTAATTCG
43562345 GGTAATT
1 GGTAATT
43562352 TTTAAACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 3 0.09
9 25 0.71
10 4 0.11
11 3 0.09
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (9 bp):
GGTAATTCG
Found at i:43570198 original size:28 final size:27
Alignment explanation
Indices: 43570145--43570202 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
43570135 AAGCTCAATC
*
43570145 AATTTTTTTTCATTTTTTTTTATTTTT
1 AATTTTTTTTCATTTTTTTGTATTTTT
*
43570172 AATTTTTTTCTCATTTTTTCTGTTTTTTT
1 AATTTTTTT-TCATTTTTT-TGTATTTTT
43570201 AA
1 AA
43570203 GAGCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 9 0.33
28 9 0.33
29 9 0.33
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (27 bp):
AATTTTTTTTCATTTTTTTGTATTTTT
Found at i:43571626 original size:10 final size:9
Alignment explanation
Indices: 43571611--43571637 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43571601 CTGTGTGGAC
43571611 TTTTTTTAA
1 TTTTTTTAA
43571620 TTTTTTTAA
1 TTTTTTTAA
43571629 TTTTTTTAA
1 TTTTTTTAA
43571638 AGTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:43573069 original size:23 final size:23
Alignment explanation
Indices: 43573031--43573464 Score: 272
Period size: 23 Copynumber: 18.5 Consensus size: 23
43573021 ATCTACTCTG
* *
43573031 TTTGGACAGC-TCTTATACATCAA
1 TTTGGACAGCAT-ATATACAACAA
* * *
43573054 TTTGGACAGCATTTATATACCAA
1 TTTGGACAGCATATATACAACAA
* * * *
43573077 ATTAGACAGCAT-TTTCACACCAAAA
1 TTTGGACAGCATATAT-ACA--ACAA
*
43573102 TTTGGACAGCATAAATACAACAA
1 TTTGGACAGCATATATACAACAA
43573125 TTTCGG-CAGCATATATACAACAA
1 TTT-GGACAGCATATATACAACAA
* * * *
43573148 TTT-GAGCAACATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
43573172 ATTGGACAGCATAAATTCAACAA
1 TTTGGACAGCATATATACAACAA
*
43573195 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
43573218 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
43573242 ATTGGATAGCATATACACAACAAA
1 TTTGGACAGCATATATACAAC-AA
*
43573266 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
43573289 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
43573313 ATTGGACAGCATAAATTCAACAA
1 TTTGGACAGCATATATACAACAA
*
43573336 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
43573359 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
*
43573383 ATTGGACAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * * *
43573406 ATTGGGCAGCATTTA-AGCATCAAA
1 TTTGGACAGCATATATA-CAAC-AA
* *
43573430 ATTGGACAGCATATATAAAACAA
1 TTTGGACAGCATATATACAACAA
* *
43573453 ATTGGGCAGCAT
1 TTTGGACAGCAT
43573465 TTAAGCATCA
Statistics
Matches: 316, Mismatches: 73, Indels: 44
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.00
22 6 0.02
23 187 0.59
24 97 0.31
25 24 0.08
26 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (23 bp):
TTTGGACAGCATATATACAACAA
Found at i:43573203 original size:70 final size:70
Alignment explanation
Indices: 43573045--43573417 Score: 570
Period size: 70 Copynumber: 5.3 Consensus size: 70
43573035 GACAGCTCTT
* * * * *
43573045 ATACATCAATTTGGACAGCATTTATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGA
1 ATACAACAATTTGGGCAGCA--TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGA
43573108 CAGCATAA
63 CAGCATAA
* *
43573116 ATACAACAATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGACAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
43573181 CATAA
66 CATAA
* *
43573186 ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGATAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
*
43573251 CATAT
66 CATAA
*
43573256 ACACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACA
1 ATACAAC-AATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACA
43573321 GCATAA
65 GCATAA
*
43573327 ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
*
43573392 CATAT
66 CATAA
*
43573397 ATACAACAAATTGGGCAGCAT
1 ATACAACAATTTGGGCAGCAT
43573418 TTAAGCATCA
Statistics
Matches: 278, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
69 8 0.03
70 170 0.61
71 100 0.36
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (70 bp):
ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
CATAA
Found at i:43573286 original size:141 final size:141
Alignment explanation
Indices: 43573051--43573417 Score: 598
Period size: 141 Copynumber: 2.6 Consensus size: 141
43573041 TCTTATACAT
* * * *
43573051 CAATTTGGACAGCATTTATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGACAGCAT
1 CAATTTGGGCAGCA--TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGACAGCAT
* *
43573114 AAATACAAC-AATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGA
63 ATATACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGA
43573178 CAGCATAAATTCAA
128 CAGCATAAATTCAA
*
43573192 CAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGATAGCATATA
1 CAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATA
* *
43573257 CACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
66 TACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGACAG
43573322 CATAAATTCAA
131 CATAAATTCAA
43573333 CAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATA
1 CAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATA
43573398 TACAACAAA-TTGGGCAGCAT
66 TACAACAAATTTGGGCAGCAT
43573418 TTAAGCATCA
Statistics
Matches: 212, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
139 8 0.04
140 34 0.16
141 170 0.80
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (141 bp):
CAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATA
TACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGACAG
CATAAATTCAA
Found at i:43573467 original size:47 final size:46
Alignment explanation
Indices: 43573047--43573474 Score: 257
Period size: 47 Copynumber: 9.1 Consensus size: 46
43573037 CAGCTCTTAT
* * * * * * *
43573047 ACATC-AATTTGGACAGCATTTATATACCAAATTAGACAGCATTTTC
1 ACATCAAAATTGGACAGCATATATACAACAAATTGGGCAGCA-TTTA
* * * * *
43573093 ACACCAAAATTTGGACAGCATAAATACAACAATTTCGGCAGCATATA
1 ACATCAAAA-TTGGACAGCATATATACAACAAATTGGGCAGCATTTA
* * * * * * *
43573140 TACA--ACAATTTGAGCAACATTTTTACACCAAAATTGGACAGCA--TA
1 -ACATCAAAATTGGA-CAGCATATATACAAC-AAATTGGGCAGCATTTA
* * * *
43573185 A-ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTT
1 ACA-TCAA-AA-TTGGACAGCATATATACAACAAATTGGGCAGCA-TTTA
* * * *
43573234 ACACCAAAATTGGATAGCATATACACAACAAATTTGGGCAGCATATA
1 ACATCAAAATTGGACAGCATATATACAACAAA-TTGGGCAGCATTTA
* * * * * *
43573281 TACA--ACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCA--TA
1 -ACATCAAAATTGGA-CAGCATATATACAAC-AAATTGGGCAGCATTTA
* * * *
43573326 A-ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTT
1 ACA-TCAA-AA-TTGGACAGCATATATACAACAAATTGGGCAGCA-TTTA
*
43573375 ACACCAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTA
1 ACATCAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTA
*
43573421 AGCATCAAAATTGGACAGCATATATAAAACAAATTGGGCAGCATTTA
1 A-CATCAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTA
43573468 AGCATCA
1 A-CATCA
43573475 CCTATTCGAT
Statistics
Matches: 289, Mismatches: 65, Indels: 55
0.71 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 8 0.03
46 50 0.17
47 161 0.56
48 54 0.19
49 10 0.03
50 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (46 bp):
ACATCAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTA
Found at i:43577699 original size:21 final size:21
Alignment explanation
Indices: 43577673--43577724 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
43577663 AAATGTAAGA
*
43577673 ATTAAATTAAAAACAAAAAAT
1 ATTAAAATAAAAACAAAAAAT
*
43577694 ATTAAAATAAAAA-TAAAAAT
1 ATTAAAATAAAAACAAAAAAT
43577714 A--AAAATAAAAA
1 ATTAAAATAAAAA
43577725 AATTAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.34
20 7 0.24
21 12 0.41
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
ATTAAAATAAAAACAAAAAAT
Found at i:43577724 original size:6 final size:6
Alignment explanation
Indices: 43577697--43577724 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43577687 AAAAAATATT
43577697 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
43577725 AATTAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:43582162 original size:14 final size:15
Alignment explanation
Indices: 43582132--43582164 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
43582122 TTAACTCCTC
43582132 TTTAATCTTTCAAAT
1 TTTAATCTTTCAAAT
*
43582147 TTTAATC-TTCATAT
1 TTTAATCTTTCAAAT
43582161 TTTA
1 TTTA
43582165 CAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATCTTTCAAAT
Found at i:43590693 original size:17 final size:16
Alignment explanation
Indices: 43590667--43590700 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
43590657 TTAAAATTAA
*
43590667 AAAATAAAAATAGAGT
1 AAAATAAAAAAAGAGT
43590683 AAAATAGAAAAAAGAGT
1 AAAATA-AAAAAAGAGT
43590700 A
1 A
43590701 TGAACTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAGAGT
Found at i:43591948 original size:17 final size:18
Alignment explanation
Indices: 43591906--43591949 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
43591896 AAAAGATGTG
*
43591906 TTTTTTTACTGTTTTGTT
1 TTTTTTTTCTGTTTTGTT
* *
43591924 GTTATTTTCT-TTTTGTT
1 TTTTTTTTCTGTTTTGTT
43591941 TTTTTTTTC
1 TTTTTTTTC
43591950 ACTATTTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTTTCTGTTTTGTT
Found at i:43592199 original size:13 final size:13
Alignment explanation
Indices: 43592177--43592214 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
43592167 ATGTATTGTA
*
43592177 TATATTAAAAATT
1 TATATAAAAAATT
43592190 TATATAAAAAA-T
1 TATATAAAAAATT
*
43592202 AATATAAAAAATT
1 TATATAAAAAATT
43592215 AATACTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATAAAAAATT
Found at i:43592217 original size:13 final size:13
Alignment explanation
Indices: 43592178--43592218 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
43592168 TGTATTGTAT
* *
43592178 ATATTAAAAATTT
1 ATATAAAAAATTA
43592191 ATATAAAAAA-TA
1 ATATAAAAAATTA
43592203 ATATAAAAAATTA
1 ATATAAAAAATTA
43592216 ATA
1 ATA
43592219 CTAGAAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:43604205 original size:21 final size:22
Alignment explanation
Indices: 43604181--43604223 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
43604171 TATTTTTAAA
43604181 ATATAATTATATATAA-CACTT
1 ATATAATTATATATAAGCACTT
* *
43604202 ATATACTTATATTTAAGCACTT
1 ATATAATTATATATAAGCACTT
43604224 TACTGAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATAATTATATATAAGCACTT
Found at i:43606280 original size:37 final size:37
Alignment explanation
Indices: 43606208--43606302 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 37
43606198 TTTCAATAGG
* * ***
43606208 ATTATTATTAAAAATAATTTAATCATATTTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAAAAATATA
*
43606245 ATTATTATTAAATATAATTTAATAAAATAAAAATAT-
1 ATTATTATTAAAAATAATTTAATAAAATAAAAATATA
* *
43606281 A-TAAT-TTAATAATAATTTAATA
1 ATTATTATTAAAAATAATTTAATA
43606303 TAATTATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 15 0.31
35 3 0.06
36 1 0.02
37 30 0.61
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTATTATTAAAAATAATTTAATAAAATAAAAATATA
Found at i:43606302 original size:23 final size:23
Alignment explanation
Indices: 43606250--43606304 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
43606240 ATATAATTAT
43606250 TATTAA-ATATAATTTAATAAAA
1 TATTAATATATAATTTAATAAAA
**
43606272 TAAAAATATATAATTTAATAATAA
1 TATTAATATATAATTTAATAA-AA
43606296 T-TTAATATA
1 TATTAATATA
43606305 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATTAATATATAATTTAATAAAA
Found at i:43606303 original size:21 final size:21
Alignment explanation
Indices: 43606214--43606307 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
43606204 TAGGATTATT
* *
43606214 ATTAAAAATAATTTAATCATA
1 ATTAAATATAATTTAATAATA
* *
43606235 TTTTAATATAA-TT-AT--T-
1 ATTAAATATAATTTAATAATA
43606251 ATTAAATATAATTTAATAA-A
1 ATTAAATATAATTTAATAATA
*
43606271 ATAAAAATATATAATTTAATAATA
1 AT--TAA-ATATAATTTAATAATA
*
43606295 ATTTAATATAATT
1 ATTAAATATAATT
43606308 ATTTTTATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
18 2 0.04
19 2 0.04
20 4 0.07
21 16 0.29
22 3 0.05
23 14 0.25
24 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAATATAATTTAATAATA
Found at i:43613797 original size:28 final size:28
Alignment explanation
Indices: 43613766--43613831 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
43613756 GAATTTAATC
*
43613766 AATTTTATTTTA-ATTTTGATATTTTTTT
1 AATTTTATTTTACATTTTAAT-TTTTTTT
*
43613794 AATTTAATTTTTACATTTTAATTTTTTTT
1 AATTTTA-TTTTACATTTTAATTTTTTTT
43613823 AATTCTTAT
1 AATT-TTAT
43613832 AGTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
AATTTTATTTTACATTTTAATTTTTTTT
Found at i:43613811 original size:22 final size:22
Alignment explanation
Indices: 43613768--43613812 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
43613758 ATTTAATCAA
* *
43613768 TTTTATTTTAATTTTGATATTT
1 TTTTAATTTAATTTTGACATTT
*
43613790 TTTTAATTTAATTTTTACATTT
1 TTTTAATTTAATTTTGACATTT
43613812 T
1 T
43613813 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTAATTTAATTTTGACATTT
Found at i:43616481 original size:62 final size:62
Alignment explanation
Indices: 43616367--43616513 Score: 190
Period size: 62 Copynumber: 2.4 Consensus size: 62
43616357 ATAACACACC
* * * *
43616367 ACGTTGTGGCTAAGCCACTAAATTTTGCAGTCAAGCTACATATTGTAGACAAGCCACTCATA
1 ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAGACAAGCCACTCATA
* * * *
43616429 GCGTTGTGGCTAAGCCACTCAATATTACAGTCAGGCTGCACGTTGT-GAACAAGCCACTCATA
1 ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAG-ACAAGCCACTCATA
43616491 ACGTTGTGGGC-AAGCCACTCAAT
1 ACGTTGT-GGCTAAGCCACTCAAT
43616514 TTTTGCAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.01
62 70 0.95
63 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (62 bp):
ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAGACAAGCCACTCATA
Found at i:43616498 original size:23 final size:23
Alignment explanation
Indices: 43616468--43616511 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43616458 GTCAGGCTGC
43616468 ACGTTGTGAACAAGCCACTCATA
1 ACGTTGTGAACAAGCCACTCATA
**
43616491 ACGTTGTGGGCAAGCCACTCA
1 ACGTTGTGAACAAGCCACTCA
43616512 ATTTTTGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (23 bp):
ACGTTGTGAACAAGCCACTCATA
Found at i:43616691 original size:42 final size:41
Alignment explanation
Indices: 43616603--43616758 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 41
43616593 TTTCAACAGG
* * * * * *
43616603 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGG
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCATA-TCGA
*
43616645 CATGCTTAACATGCAAATTAAATCTCAGTTTATCATCATCGA
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCAT-ATCGA
* * *
43616687 CATGCTTAATATGTAAATCAAATATCAGTTTATCATAATCGA
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCAT-ATCGA
*
43616729 CATGCTTAATATGCAAATCAAATCTCAGTT
1 CATGCTTAACATGCAAATCAAATCTCAGTT
43616759 AATAAATCAG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 98 0.99
43 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (41 bp):
CATGCTTAACATGCAAATCAAATCTCAGTTTATCATATCGA
Found at i:43618733 original size:95 final size:94
Alignment explanation
Indices: 43618618--43618790 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 94
43618608 TGGTTTTTAG
* *
43618618 GTTTAAGGTTTTAGAGAAAAAATTAAA-TAAATAAGGGTTTAGGGTTTA-TTAATTAAATTAATT
1 GTTTAAGGTTTTAAAGAAAAAA-TAAATTAAATAAGGGTTTAGGG-TTACTTAAGTAAATTAATT
* *
43618681 ATAAATTTTTCAAAATTGTATTAGGTTTCGT
64 AAAAATTTTTAAAAATTGTATTAGGTTTCGT
* * *
43618712 GTTTATGGCTTTTAAAGAAAAAATAAATTAAATTAGGGTTTAGGGTTACTTAAGTATATTAATTA
1 GTTTAAGG-TTTTAAAGAAAAAATAAATTAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTA
43618777 AAAATTTTTAAAAA
65 AAAATTTTTAAAAA
43618791 AATCAGATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 14 0.20
95 55 0.80
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (94 bp):
GTTTAAGGTTTTAAAGAAAAAATAAATTAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTAA
AAATTTTTAAAAATTGTATTAGGTTTCGT
Found at i:43618971 original size:126 final size:126
Alignment explanation
Indices: 43618822--43619112 Score: 510
Period size: 126 Copynumber: 2.3 Consensus size: 126
43618812 TAATTTTAAA
* *
43618822 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGATGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
*
43618887 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGTTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
43618948 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
* * *
43619013 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
43619074 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
43619113 ATTTGGCCTG
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 157 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:43622096 original size:23 final size:23
Alignment explanation
Indices: 43622051--43622098 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
43622041 AATAAAATAC
*
43622051 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
43622074 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
43622097 CC
1 CC
43622099 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:43623208 original size:3 final size:3
Alignment explanation
Indices: 43623200--43623224 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43623190 ATTTTAATCC
43623200 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
43623225 TCTCCTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:43624811 original size:21 final size:21
Alignment explanation
Indices: 43624787--43624834 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
43624777 GCGGGGGCTG
*
43624787 TGGTTGCTCCGG-CGGGGATTC
1 TGGTTGCTCCGGTAGGGGA-TC
* *
43624808 TGGTTCCTCTGGTAGGGGATC
1 TGGTTGCTCCGGTAGGGGATC
43624829 TGGTTG
1 TGGTTG
43624835 TCTGTGTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.06, C:0.19, G:0.42, T:0.33
Consensus pattern (21 bp):
TGGTTGCTCCGGTAGGGGATC
Found at i:43625041 original size:18 final size:18
Alignment explanation
Indices: 43625015--43625057 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
43625005 GATTAGAAAA
* * *
43625015 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
43625033 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
43625051 AGGATAC
1 AGGATAC
43625058 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:43625682 original size:7 final size:7
Alignment explanation
Indices: 43625670--43625729 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
43625660 TATTAGTTAT
43625670 ATACATA
1 ATACATA
43625677 ATACATA
1 ATACATA
43625684 ATACATA
1 ATACATA
43625691 ATACATA
1 ATACATA
43625698 ATACATA
1 ATACATA
43625705 ATACATA
1 ATACATA
43625712 ATACATA
1 ATACATA
43625719 ATACATA
1 ATACATA
43625726 ATAC
1 ATAC
43625730 TAAATACTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:43625735 original size:7 final size:7
Alignment explanation
Indices: 43625725--43625792 Score: 136
Period size: 7 Copynumber: 9.7 Consensus size: 7
43625715 CATAATACAT
43625725 AATACTA
1 AATACTA
43625732 AATACTA
1 AATACTA
43625739 AATACTA
1 AATACTA
43625746 AATACTA
1 AATACTA
43625753 AATACTA
1 AATACTA
43625760 AATACTA
1 AATACTA
43625767 AATACTA
1 AATACTA
43625774 AATACTA
1 AATACTA
43625781 AATACTA
1 AATACTA
43625788 AATAC
1 AATAC
43625793 CAATCGATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:43625735 original size:21 final size:21
Alignment explanation
Indices: 43625670--43625778 Score: 122
Period size: 21 Copynumber: 5.2 Consensus size: 21
43625660 TATTAGTTAT
43625670 ATACATAATACATAATAC-ATA
1 ATACATAATACATAATACTA-A
43625691 ATACATAATACATAATAC-ATA
1 ATACATAATACATAATACTA-A
43625712 ATACATAATACATAATACTAA
1 ATACATAATACATAATACTAA
43625733 ATAC-TAAATAC-TAAATACTAA
1 ATACAT-AATACAT-AATACTAA
43625754 ATAC-TAAATAC-TAAATACTAA
1 ATACAT-AATACAT-AATACTAA
43625775 ATAC
1 ATAC
43625779 TAAATACTAA
Statistics
Matches: 85, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.02
21 82 0.96
22 1 0.01
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATACATAATACATAATACTAA
Found at i:43626935 original size:11 final size:11
Alignment explanation
Indices: 43626919--43626970 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
43626909 TTAAAGCTTT
43626919 TTTGAGAGGAA
1 TTTGAGAGGAA
43626930 TTTGAGAGGAA
1 TTTGAGAGGAA
43626941 TTTGAGA-GAA
1 TTTGAGAGGAA
43626951 TATTG-GAGAGAA
1 T-TTGAGAG-GAA
*
43626963 ATTGAGAG
1 TTTGAGAG
43626971 AAAGGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 24 0.67
12 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:43627363 original size:33 final size:33
Alignment explanation
Indices: 43627326--43627421 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
43627316 TTTAATCTAC
43627326 TAAATAATTAACTAAATTACATAGTATTTATTA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
* ** *
43627359 TAAATTATT---TTTATTA-A-A--ATGTA-TA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
43627384 CTAAATAATTAACTAAATTACATAGTATTTATTA
1 -TAAATAATTAACTAAATTACATAGTATTTATTA
43627418 TAAA
1 TAAA
43627422 CATCTACTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 2 0.04
26 12 0.26
28 1 0.02
29 6 0.13
30 6 0.13
31 1 0.02
33 16 0.35
34 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATAATTAACTAAATTACATAGTATTTATTA
Found at i:43638714 original size:37 final size:37
Alignment explanation
Indices: 43638647--43638730 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
43638637 TATATCGGTA
* *
43638647 TTTTATTTTTCAATTTAGAAATGTAGTTGTGAGGTCC
1 TTTTATTTTTCAATTTAGAAATGTAATTGTGAGCTCC
**
43638684 TTTTATTTTTCAATTTAGAGGCT-TAATTGTGAGCTCC
1 TTTTATTTTTCAATTTAGA-AATGTAATTGTGAGCTCC
*
43638721 CTTTATTTTT
1 TTTTATTTTT
43638731 TTTGTTCAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.52
Consensus pattern (37 bp):
TTTTATTTTTCAATTTAGAAATGTAATTGTGAGCTCC
Found at i:43639257 original size:18 final size:20
Alignment explanation
Indices: 43639236--43639279 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
43639226 TTTTTAAATA
43639236 AAATTAAGTTTT-ATT-TTT
1 AAATTAAGTTTTGATTATTT
*
43639254 AAATTAATTTTTGATTAATTT
1 AAATTAAGTTTTGATT-ATTT
43639275 AAATT
1 AAATT
43639280 CAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 3 0.14
21 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATTAAGTTTTGATTATTT
Found at i:43640187 original size:3 final size:3
Alignment explanation
Indices: 43640179--43640208 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
43640169 TTGTAACCTT
43640179 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43640209 ACATATCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:43641125 original size:3 final size:3
Alignment explanation
Indices: 43641117--43641145 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43641107 AATATGTTAA
43641117 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43641146 AAGCTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43641938 original size:5 final size:5
Alignment explanation
Indices: 43641924--43641978 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
43641914 GAAATCTGAG
43641924 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
43641973 TATAT T
1 TATAT T
43641979 GAATATTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 46 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:43642018 original size:15 final size:14
Alignment explanation
Indices: 43641998--43642027 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
43641988 TATTTATTTT
43641998 TATTACATATTAATA
1 TATTACATA-TAATA
43642013 TATTACATATAATA
1 TATTACATATAATA
43642027 T
1 T
43642028 TTATACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTACATATAATA
Found at i:43642742 original size:69 final size:69
Alignment explanation
Indices: 43642631--43642770 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 69
43642621 GGACTTTTAA
*
43642631 TAATCACCTTTTGGTGTTCTACGAGCTGTAGGTAGGGGAAGATTC-AGTTAAGGTACCATTAAGG
1 TAATCACCTTTTGGTGTTCTACGAGCTGCAGGTAGGGGAAGATTCGA-TTAAGGTACCATTAAGG
*
43642695 TTCTT
65 TTATT
*
43642700 TAATCACCTTTTGGTGTTCCATA-G-GCTGCAGGTAGGGGAAGATTCGATTAATGTACCATTAAG
1 TAATCACCTTTTGGTGTT-C-TACGAGCTGCAGGTAGGGGAAGATTCGATTAAGGTACCATTAAG
43642763 GTTATT
64 GTTATT
43642769 TA
1 TA
43642771 CTTTTTGGGT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 60 0.92
70 3 0.05
71 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (69 bp):
TAATCACCTTTTGGTGTTCTACGAGCTGCAGGTAGGGGAAGATTCGATTAAGGTACCATTAAGGT
TATT
Found at i:43648006 original size:16 final size:17
Alignment explanation
Indices: 43647984--43648025 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
43647974 ATCTAGTAAA
43647984 ATATTTTTATAAATTTT
1 ATATTTTTATAAATTTT
*
43648001 -TATTTTT-TTAATTTT
1 ATATTTTTATAAATTTT
43648016 ATATATTTTA
1 ATAT-TTTTA
43648026 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTATAAATTTT
Found at i:43663472 original size:18 final size:18
Alignment explanation
Indices: 43663451--43663502 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
43663441 TCGCCAAGTT
43663451 TGGTGAATCCCCTAAGAC
1 TGGTGAATCCCCTAAGAC
* *
43663469 TGGTGAACTCGCC-AAGTC
1 TGGTGAA-TCCCCTAAGAC
*
43663487 TGGCGAATCCCCTAAG
1 TGGTGAATCCCCTAAG
43663503 CTTGGCGAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (18 bp):
TGGTGAATCCCCTAAGAC
Found at i:43663513 original size:36 final size:36
Alignment explanation
Indices: 43663439--43663514 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
43663429 CATTTGGCAG
* * *
43663439 ACTCGCCAAGTTTGGTGAATCCCCTAAGACTGGTGA
1 ACTCGCCAAGTCTGGCGAATCCCCTAAGACTGGCGA
43663475 ACTCGCCAAGTCTGGCGAATCCCCTAAG-CTTGGCGA
1 ACTCGCCAAGTCTGGCGAATCCCCTAAGAC-TGGCGA
43663511 ACTC
1 ACTC
43663515 ATGATAAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (36 bp):
ACTCGCCAAGTCTGGCGAATCCCCTAAGACTGGCGA
Found at i:43663701 original size:24 final size:24
Alignment explanation
Indices: 43663655--43663707 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
43663645 ATAGAATTAG
**
43663655 TATTTACTAGCATAGTATATTTGA
1 TATTTACTAGCATAAAATATTTGA
* * *
43663679 TATTTATTAGCATAAAATCTTTGT
1 TATTTACTAGCATAAAATATTTGA
43663703 TATTT
1 TATTT
43663708 CTTTCTGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTACTAGCATAAAATATTTGA
Found at i:43673698 original size:99 final size:95
Alignment explanation
Indices: 43673511--43673698 Score: 247
Period size: 95 Copynumber: 1.9 Consensus size: 95
43673501 CTGATAATCA
* *
43673511 TCAACAAAAATCCTATCTATATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCGGATC
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
*
43673576 ATCATATCTGTATTAAGAAAATATTACATT
66 ATCATATCTGTATTAACAAAATATTACATT
*
43673606 TCAACATAAATCCTATCTAAATTGTATTTTGTTCA-ACCACA-ACACTGA-TGCCTTACTACTAT
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTT-ATA--ACAGACACTGATTG-CTTA-T--TAT
*
43673668 TCAGATCATCATATTTGTATTAACAAAATAT
59 TCAGATCATCATATCTGTATTAACAAAATAT
43673699 AAGAAATGAC
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
95 34 0.42
96 12 0.15
97 4 0.05
99 31 0.38
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (95 bp):
TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
ATCATATCTGTATTAACAAAATATTACATT
Found at i:43676125 original size:103 final size:103
Alignment explanation
Indices: 43675966--43676168 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
43675956 GGAAAATCTT
43675966 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
1 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
*
43676031 TTTCACTTCAATTTGATTATTCATAACCGAATTTTCTC
66 TTTCACTTCAATTTGATGATTCATAACCGAATTTTCTC
* *
43676069 GTAATCTTGAGTAAACCTGTGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
1 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
*
43676134 TTTCACTTCAATTTGATGGTTCATAACCGAATTTT
66 TTTCACTTCAATTTGATGATTCATAACCGAATTTT
43676169 TAAGAATCAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (103 bp):
GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
TTTCACTTCAATTTGATGATTCATAACCGAATTTTCTC
Found at i:43680889 original size:16 final size:16
Alignment explanation
Indices: 43680868--43680901 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
43680858 ATGTTTTTCC
43680868 TCCCTCTCCTTGTTGA
1 TCCCTCTCCTTGTTGA
43680884 TCCCTCTCCTTGTTGA
1 TCCCTCTCCTTGTTGA
43680900 TC
1 TC
43680902 AAAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.38, G:0.12, T:0.44
Consensus pattern (16 bp):
TCCCTCTCCTTGTTGA
Done.