Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 8 of 141
Found at i:2289045 original size:2 final size:2
Alignment explanation
Indices: 2289003--2289027 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2288993 ATCTCTTCCC
2289003 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2289028 ATGATCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2290727 original size:18 final size:17
Alignment explanation
Indices: 2290696--2290729 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2290686 TAATTTTACC
2290696 ATTTTAATAATTTATAT
1 ATTTTAATAATTTATAT
*
2290713 ATTTTTATAACTTTATA
1 ATTTTAATAA-TTTATA
2290730 GGATTAAATC
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATAATTTATAT
Found at i:2291534 original size:20 final size:20
Alignment explanation
Indices: 2291505--2291542 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2291495 GTTAAAAAAA
*
2291505 TAGAGGGACTAATTTAATAG
1 TAGAGAGACTAATTTAATAG
2291525 TAGAGAGACTAATTTAAT
1 TAGAGAGACTAATTTAAT
2291543 CATGTTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (20 bp):
TAGAGAGACTAATTTAATAG
Found at i:2293237 original size:22 final size:23
Alignment explanation
Indices: 2293194--2293237 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2293184 TTGTCACATT
* * *
2293194 GACATAAAAACAAACACGTTGAA
1 GACAAAAAAAAAAAAACGTTGAA
2293217 GACAAAAAAAAAAAAAC-TTGA
1 GACAAAAAAAAAAAAACGTTGA
2293238 GTTTGAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (23 bp):
GACAAAAAAAAAAAAACGTTGAA
Found at i:2293402 original size:19 final size:20
Alignment explanation
Indices: 2293367--2293408 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
2293357 AAATATAAAA
2293367 TTTGAATTTTTATAAA-TAT
1 TTTGAATTTTTATAAATTAT
2293386 TTTGAATTTTTGA-AAATTAT
1 TTTGAATTTTT-ATAAATTAT
2293406 TTT
1 TTT
2293409 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTGAATTTTTATAAATTAT
Found at i:2294774 original size:6 final size:6
Alignment explanation
Indices: 2294763--2294796 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
2294753 AATATGAAAT
2294763 AAATCC AAATCC AAATCC AAATCC AAATCC AAAT
1 AAATCC AAATCC AAATCC AAATCC AAATCC AAAT
2294797 AGGAATAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCC
Found at i:2294803 original size:6 final size:6
Alignment explanation
Indices: 2294794--2294818 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2294784 TCCAAATCCA
2294794 AATAGG AATAGG AATAGG AATAGG A
1 AATAGG AATAGG AATAGG AATAGG A
2294819 TGATTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AATAGG
Found at i:2294926 original size:6 final size:6
Alignment explanation
Indices: 2294917--2294950 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
2294907 TCCTATTCCT
2294917 ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTT
2294951 ATTTCATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (6 bp):
ATTTGG
Found at i:2299760 original size:30 final size:31
Alignment explanation
Indices: 2299721--2299795 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
2299711 ATTTTTTAAT
2299721 AAATATAAAAAATTTATTTTAAAAAT-TAAAA
1 AAAT-TAAAAAATTTATTTTAAAAATATAAAA
** ***
2299752 AAATTAAAAAAAGTATTTTAAAAATATTTTA
1 AAATTAAAAAATTTATTTTAAAAATATAAAA
2299783 AAATTAAAAAATT
1 AAATTAAAAAATT
2299796 AAAAAAAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 19 0.53
31 17 0.47
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (31 bp):
AAATTAAAAAATTTATTTTAAAAATATAAAA
Found at i:2299803 original size:39 final size:39
Alignment explanation
Indices: 2299735--2299839 Score: 176
Period size: 39 Copynumber: 2.7 Consensus size: 39
2299725 ATAAAAAATT
2299735 TATTTTAAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAAAAATTAAAAAAAGTATTTTAAAAA
*
2299776 TATTTTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAA
2299815 TATTTTAAAATTAAAAAA-TAAAAAA
1 TATTTTAAAATTAAAAAATTAAAAAA
2299840 TAAAAATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
38 7 0.11
39 44 0.70
40 6 0.10
41 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:2299813 original size:11 final size:11
Alignment explanation
Indices: 2299799--2299824 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2299789 AAAAATTAAA
2299799 AAAAGTATTTT
1 AAAAGTATTTT
2299810 AAAAGTATTTT
1 AAAAGTATTTT
2299821 AAAA
1 AAAA
2299825 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:2300613 original size:6 final size:6
Alignment explanation
Indices: 2300604--2300628 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2300594 TCCAAATCCA
2300604 AATAGG AATAGG AATAGG AATAGG A
1 AATAGG AATAGG AATAGG AATAGG A
2300629 TGATTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AATAGG
Found at i:2300736 original size:6 final size:6
Alignment explanation
Indices: 2300727--2300754 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2300717 TCCTATTCCT
2300727 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
2300755 ATTTCATATT
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:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (6 bp):
ATTTGG
Found at i:2302155 original size:17 final size:19
Alignment explanation
Indices: 2302119--2302204 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 19
2302109 AATAATTTTC
2302119 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
2302138 AAAAATTCAAATTTTATATTTTT
1 AAAAATTCAAA----ATATTTAT
* * * *
2302161 AAAAAATCATAAAAAATTCT
1 AAAAATTCA-AAATATTTAT
*
2302181 AAAAATTCTAAAATATATAT
1 AAAAATTC-AAAATATTTAT
2302201 AAAA
1 AAAA
2302205 GTTAAATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
19 11 0.22
20 22 0.43
21 1 0.02
23 15 0.29
24 2 0.04
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:2307094 original size:2 final size:2
Alignment explanation
Indices: 2307087--2307111 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2307077 ATTAATTTAT
2307087 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2307112 TTTAAAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2309122 original size:7 final size:7
Alignment explanation
Indices: 2309110--2309139 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2309100 ACATTTGTGT
*
2309110 TGGCTCG
1 TGGCTCA
2309117 TGGCTCA
1 TGGCTCA
2309124 TGGCTCA
1 TGGCTCA
2309131 TGGCTCA
1 TGGCTCA
2309138 TG
1 TG
2309140 TTGTTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (7 bp):
TGGCTCA
Found at i:2313493 original size:29 final size:30
Alignment explanation
Indices: 2313429--2313493 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
2313419 TAGCCCCCGA
* *
2313429 ATTTTTCAAAAATTACATTTTGACCTCTAGT
1 ATTTTTCAAAAATTACA-TTTGACCCCTAAT
* * *
2313460 TTTTTTCTAAATTTACA-TTGACCCCTAAT
1 ATTTTTCAAAAATTACATTTGACCCCTAAT
2313489 ATTTT
1 ATTTT
2313494 GTAAACTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 14 0.50
31 14 0.50
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (30 bp):
ATTTTTCAAAAATTACATTTGACCCCTAAT
Found at i:2314311 original size:22 final size:22
Alignment explanation
Indices: 2314262--2314312 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2314252 TATTGCATAT
* *
2314262 TTTTAAGTATTTTTTTATTTTG
1 TTTTATGTATTTTTTTATTTTA
2314284 TATTTATGT-TTTTTTTAATTTTA
1 T-TTTATGTATTTTTTT-ATTTTA
2314307 TTTTAT
1 TTTTAT
2314313 TTTATTCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTATGTATTTTTTTATTTTA
Found at i:2314773 original size:19 final size:19
Alignment explanation
Indices: 2314749--2314786 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2314739 TTTCAAGTTT
**
2314749 TCGTGTTTTCAAAAATTTC
1 TCGTGTTTAAAAAAATTTC
2314768 TCGTGTTTAAAAAAATTTC
1 TCGTGTTTAAAAAAATTTC
2314787 GACTTTTCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
TCGTGTTTAAAAAAATTTC
Found at i:2314823 original size:18 final size:18
Alignment explanation
Indices: 2314797--2314845 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
2314787 GACTTTTCGC
*
2314797 TTTTCCAAAATTTTTCATG
1 TTTT-CAAAATTTGTCATG
* *
2314816 TTTTCAAAACTTGTCGTG
1 TTTTCAAAATTTGTCATG
2314834 TTTTCAACAATT
1 TTTTCAA-AATT
2314846 CTCGCATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (18 bp):
TTTTCAAAATTTGTCATG
Found at i:2314927 original size:17 final size:16
Alignment explanation
Indices: 2314900--2315186 Score: 171
Period size: 17 Copynumber: 16.2 Consensus size: 16
2314890 TTGTCTTAAA
*
2314900 AAAAATCTCGTGTTTC
1 AAAAATTTCGTGTTTC
2314916 AAAAATTGTCGTGTTTC
1 AAAAATT-TCGTGTTTC
* *
2314933 AGAAATTTTCGTATTTTC
1 A-AAAATTTCGT-GTTTC
2314951 TAAAAATTTCCGTGTTTC
1 -AAAAATTT-CGTGTTTC
* *
2314969 AAAAATTTTCATGGTTTA
1 AAAAA-TTTCGT-GTTTC
*
2314987 AAAAATTGTCGTGTTTT
1 AAAAATT-TCGTGTTTC
*
2315004 AAAAATTTTCGTATTTC
1 AAAAA-TTTCGTGTTTC
2315021 AAAAAAAAATTTCTGTGTTTC
1 ----AAAAATTTC-GTGTTTC
*
2315042 AAAAATTTCCGTGTTTTTA
1 AAAAATTT-CGTG--TTTC
**
2315061 AAAAATTTCCGTGTTAAA
1 AAAAATTT-CGTGTT-TC
*
2315079 AAAAATCTCGTGTTTTC
1 AAAAATTTCGTG-TTTC
2315096 AAAAACTTTCGTGTTGT-
1 AAAAA-TTTCGTGTT-TC
* *
2315113 AGAAATTTTTGTGTTTC
1 A-AAAATTTCGTGTTTC
* *
2315130 TAAAATTCTCGTATTTC
1 AAAAATT-TCGTGTTTC
2315147 AAAAATTTCCGTGTTCTC
1 AAAAATTT-CGTGTT-TC
*
2315165 AAAAAGTTATTGTGTTTC
1 AAAAA-TT-TCGTGTTTC
2315183 AAAA
1 AAAA
2315187 TTCTCGCGTT
Statistics
Matches: 216, Mismatches: 27, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
16 13 0.06
17 90 0.42
18 70 0.32
19 27 0.12
20 5 0.02
21 11 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:2314965 original size:36 final size:35
Alignment explanation
Indices: 2314907--2315203 Score: 195
Period size: 35 Copynumber: 8.4 Consensus size: 35
2314897 AAAAAAAATC
*
2314907 TCGTG-TTTC-AAAAATTGTCGTGTTTCAGAAATTT
1 TCGTGTTTTCTAAAAATT-TCGTGTTTCAAAAATTT
*
2314941 TCGTATTTTCTAAAAATTTCCGTGTTTCAAAAATTT
1 TCGTGTTTTCTAAAAATTT-CGTGTTTCAAAAATTT
* * * *
2314977 TCATGGTTT-AAAAAATTGTCGTGTTTTAAAAATTT
1 TCGTGTTTTCTAAAAATT-TCGTGTTTCAAAAATTT
* *
2315012 TCGT-ATTTCAAAAAAAAATTTCTGTGTTTCAAAAATTT
1 TCGTGTTTTC---TAAAAATTTC-GTGTTTCAAAAATTT
* ** * *
2315050 CCGTGTTTT-TAAAAAATTTCCGTGTTAAAAAAAATC
1 TCGTGTTTTCT-AAAAATTT-CGTGTTTCAAAAATTT
*
2315086 TCGTGTTTTC-AAAAACTTTCGTGTTGT-AGAAATTT
1 TCGTGTTTTCTAAAAA-TTTCGTGTT-TCAAAAATTT
* *
2315121 TTGTG-TTTCT-AAAATTCTCGTATTTCAAAAATTT
1 TCGTGTTTTCTAAAAATT-TCGTGTTTCAAAAATTT
* * * *
2315155 CCGTGTTCTC-AAAAAGTTATTGTGTTTC-AAAATTC
1 TCGTGTTTTCTAAAAA-TT-TCGTGTTTCAAAAATTT
*
2315190 TCGCGTTTTC-AAAA
1 TCGTGTTTTCTAAAA
2315204 CAAAAATTTC
Statistics
Matches: 207, Mismatches: 35, Indels: 41
0.73 0.12 0.14
Matches are distributed among these distances:
33 3 0.01
34 31 0.15
35 74 0.36
36 68 0.33
37 3 0.01
38 25 0.12
39 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (35 bp):
TCGTGTTTTCTAAAAATTTCGTGTTTCAAAAATTT
Found at i:2315033 original size:20 final size:21
Alignment explanation
Indices: 2315004--2315046 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2314994 GTCGTGTTTT
*
2315004 AAAAATTTTC-GTATTTCAAA
1 AAAAAATTTCTGTATTTCAAA
*
2315024 AAAAAATTTCTGTGTTTCAAA
1 AAAAAATTTCTGTATTTCAAA
2315045 AA
1 AA
2315047 TTTCCGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAAAATTTCTGTATTTCAAA
Found at i:2318605 original size:14 final size:16
Alignment explanation
Indices: 2318566--2318605 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
2318556 TAAATTTTAA
*
2318566 AAATATAATATAGAAT
1 AAATTTAATATAGAAT
2318582 AAATTT-ATATA-AAT
1 AAATTTAATATAGAAT
2318596 -AATTTAATAT
1 AAATTTAATAT
2318606 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 5 0.23
16 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATTTAATATAGAAT
Found at i:2320959 original size:24 final size:24
Alignment explanation
Indices: 2320881--2320961 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
2320871 GGCCCACCTA
* * *
2320881 TATATATTTTTTAATTT-TAAAAAA
1 TATATATATTTT-ATTTATTAAAAT
* *
2320905 TATATTTATTTTA-ATATATAATAAT
1 TATATATATTTTATTTAT-TAA-AAT
*
2320930 TTTATATATTTTATTTATTAAAAT
1 TATATATATTTTATTTATTAAAAT
2320954 TATATATA
1 TATATATA
2320962 GTCATCTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
22 1 0.02
23 2 0.05
24 22 0.50
25 16 0.36
26 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATATTTTATTTATTAAAAT
Found at i:2322137 original size:14 final size:14
Alignment explanation
Indices: 2322118--2322145 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2322108 GCAGTCATGC
2322118 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
2322132 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
2322146 TTTGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
CTTGAAGACTCCAT
Found at i:2325152 original size:14 final size:16
Alignment explanation
Indices: 2325113--2325152 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
2325103 TAAATTTTAA
*
2325113 AAATATAATATACAAT
1 AAATTTAATATACAAT
2325129 AAATTT-ATATA-AAT
1 AAATTTAATATACAAT
2325143 -AATTTAATAT
1 AAATTTAATAT
2325153 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 5 0.23
16 5 0.23
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTAATATACAAT
Found at i:2325443 original size:14 final size:16
Alignment explanation
Indices: 2325404--2325443 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
2325394 TAAATTTTAA
*
2325404 AAATATAATATAGAAT
1 AAATTTAATATAGAAT
2325420 AAATTT-ATATA-AAT
1 AAATTTAATATAGAAT
2325434 -AATTTAATAT
1 AAATTTAATAT
2325444 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 5 0.23
16 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATTTAATATAGAAT
Found at i:2325496 original size:291 final size:290
Alignment explanation
Indices: 2324962--2325553 Score: 1053
Period size: 291 Copynumber: 2.0 Consensus size: 290
2324952 AGCTTTTAGC
*
2324962 TTTTAAAACAGAGGCACTCCACATCTATTAATTGTTTTATTTATGGTTGAAATTATTCAATTCGG
1 TTTT-AAATAGAGGCACTCCACATCTATTAATTGTTTTATTTATGGTTGAAATTATTCAATTCGG
*
2325027 TACATAACCCTTTTTTATATTTTTAAGAAGTTACTGCTAGAAATTAACTAAGCACTGTTAAAAAT
65 TA-ATAACCCTTTTTTATATTTTTAAGAAGTTACTGCTAGAAATTAACTAAGCACCGTTAAAAAT
2325092 AATAGAAAATATAAATTTTAAAAATATAATATACAATAAATTTATATAAATAATTTAATATTTTT
129 AATAGAAAATATAAATTTTAAAAATATAATATACAATAAATTTATATAAATAATTTAATATTTTT
*
2325157 AAAAAATAATATTCCACTCTAACTAGCATTAATTTGGTAAATGATTTAACACTGATAACATGAAT
194 AAAAAATAATAAT-CACTCTAACTAGCATTAATTTGGTAAATGATTTAACACTGATAACATGAAT
2325222 CAAGTTACATCAAATTAAAGTAAAGAGGTTAAA
258 CAAGTTACATCAAATTAAAGTAAAGAGGTTAAA
2325255 TTTTAAATAGAGGCACTCCACATCTATTAATTGTTTTATTTATGGTTGAAATTATTCAATTCGGT
1 TTTTAAATAGAGGCACTCCACATCTATTAATTGTTTTATTTATGGTTGAAATTATTCAATTCGGT
*
2325320 -ATAACCCCTTTTTTATATTTTTAAGAAGTTAGTGCTAGAAATTAACTAAGCACCGTTAAAAATA
66 AATAA-CCCTTTTTTATATTTTTAAGAAGTTACTGCTAGAAATTAACTAAGCACCGTTAAAAATA
* *
2325384 ATAGAAAATATAAATTTTAAAAATATAATATAGAATAAATTTATATAAATAATTTAATATTTTTT
130 ATAGAAAATATAAATTTTAAAAATATAATATACAATAAATTTATATAAATAATTTAATATTTTTA
*
2325449 AAAAATAAATAAT-ATTCCTAACTAGCATTAATTTGGTAAATGATTTAACACTGATAACATGAAT
195 AAAAAT-AATAATCACT-CTAACTAGCATTAATTTGGTAAATGATTTAACACTGATAACATGAAT
2325513 CAAGTTACATCAAATTAAAGTAAAGAGGTTAAA
258 CAAGTTACATCAAATTAAAGTAAAGAGGTTAAA
2325546 TTTTAAAT
1 TTTTAAAT
2325554 TTTAACATAG
Statistics
Matches: 289, Mismatches: 7, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
290 6 0.02
291 214 0.74
292 65 0.22
293 4 0.01
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (290 bp):
TTTTAAATAGAGGCACTCCACATCTATTAATTGTTTTATTTATGGTTGAAATTATTCAATTCGGT
AATAACCCTTTTTTATATTTTTAAGAAGTTACTGCTAGAAATTAACTAAGCACCGTTAAAAATAA
TAGAAAATATAAATTTTAAAAATATAATATACAATAAATTTATATAAATAATTTAATATTTTTAA
AAAATAATAATCACTCTAACTAGCATTAATTTGGTAAATGATTTAACACTGATAACATGAATCAA
GTTACATCAAATTAAAGTAAAGAGGTTAAA
Found at i:2327497 original size:16 final size:16
Alignment explanation
Indices: 2327478--2327524 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2327468 TAACAGTCTA
2327478 AATTTAAAATAATTCG
1 AATTTAAAATAATTCG
*
2327494 AATTTAAAACT-ATCCG
1 AATTTAAAA-TAATTCG
**
2327510 AACCTAAAATAATTC
1 AATTTAAAATAATTC
2327525 TAATGATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (16 bp):
AATTTAAAATAATTCG
Found at i:2328958 original size:14 final size:14
Alignment explanation
Indices: 2328939--2328966 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2328929 GCAGTCATGC
2328939 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
2328953 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
2328967 TTTGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
CTTGAAGACTCCAT
Found at i:2329001 original size:27 final size:27
Alignment explanation
Indices: 2328963--2329782 Score: 1640
Period size: 27 Copynumber: 30.4 Consensus size: 27
2328953 CTTGAAGACT
2328963 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2328990 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329017 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329044 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329071 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329098 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329125 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329152 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329179 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329206 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329233 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329260 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329287 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329314 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329341 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329368 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329395 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329422 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329449 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329476 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329503 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329530 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329557 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329584 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329611 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329638 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329665 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329692 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329719 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329746 CCATTTTGCTAAAAACCCCTGCTTCAC
1 CCATTTTGCTAAAAACCCCTGCTTCAC
2329773 CCATTTTGCT
1 CCATTTTGCT
2329783 TACATTCATT
Statistics
Matches: 793, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 793 1.00
ACGTcount: A:0.26, C:0.37, G:0.07, T:0.30
Consensus pattern (27 bp):
CCATTTTGCTAAAAACCCCTGCTTCAC
Found at i:2334012 original size:48 final size:48
Alignment explanation
Indices: 2333955--2334058 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
2333945 TCGGATGGGT
* *
2333955 GAACGAGATCTACGGTGCACAGGTGTAGGTGACCTGCGCCGATAAGGA
1 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
2334003 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
1 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
2334051 GAACGAGA
1 GAACGAGA
2334059 CTGAGATCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.36, T:0.13
Consensus pattern (48 bp):
GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
Found at i:2337839 original size:29 final size:31
Alignment explanation
Indices: 2337800--2337871 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 31
2337790 NNNNNNNNAA
* *
2337800 TTTTTAAATTTTAAAATACTTTTT-TAA-A-T
1 TTTTTTAATTTTAAAATA-TTTTTAAAATACT
2337829 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
2337860 TTTTTTAATTTT
1 TTTTTTAATTTT
2337872 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 5 0.13
29 19 0.50
30 1 0.03
31 13 0.34
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:2337845 original size:17 final size:17
Alignment explanation
Indices: 2337820--2337853 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2337810 TTAAAATACT
* *
2337820 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
2337837 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
2337854 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:2337851 original size:11 final size:11
Alignment explanation
Indices: 2337837--2337879 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2337827 ATTTTTTTAA
2337837 TTTTAAAATAT
1 TTTTAAAATAT
2337848 TTTTAAAATACT
1 TTTTAAAATA-T
** *
2337860 TTTTTTAATTT
1 TTTTAAAATAT
2337871 TTTTAAAAT
1 TTTTAAAAT
2337880 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:2337854 original size:40 final size:41
Alignment explanation
Indices: 2337808--2337888 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 41
2337798 AATTTTTAAA
2337808 TTTTAAAATACTTTTTTAAATTTTTTT-AATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTAAATTTTAAAATAT
*
2337848 TTTTAAAATACTTTTTTTAATTTTTTTAAAATTTTAAAATA
1 TTTTAAAATACTTTTTTAAATTTTTTT-AAATTTTAAAATA
2337889 AAAATGGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 26 0.68
42 12 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAATTTTTTTAAATTTTAAAATAT
Found at i:2343550 original size:209 final size:207
Alignment explanation
Indices: 2343048--2343983 Score: 930
Period size: 209 Copynumber: 4.6 Consensus size: 207
2343038 GTAGTTTTTC
* * * *
2343048 AGCTATGAGAAACTAATGTAGAACCACATTGTGCATTTTGATATTTGACTTTATAGTTTTTGACA
1 AGCTATGAGAAACTAATG-AAAACCACATTGTGCATTTTGACATTTGAATTTATAG-TTTTGACC
* * * *
2343113 TTCATTGCTGGTTAGCTGTG-TACAGGGACTTGGGTGTGAGCGTTGAATAGCCTATATGTC----
64 TTCATTGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCTATG
** * * *
2343173 -C---A-ATATGCAT--TAGATATGGGTACTTAAAGAAAAATGAGGAGTCCAAGCAATATAGCTT
129 TCATTAGATATGGGTGCTAGATATGGATACTTAAAGAAAAATGAGGAGTTCAAGCAATATAGCTA
*
2343231 GTTGGTAATTTCTA
194 GTCGGTAATTTCTA
* * * * *
2343245 ATCTATGAGAATCTAATGGAAAACCACATTGTGTATTTTGACATTTGAATTTATACTTCTTGGCC
1 AGCTATGAGAAACTAAT-GAAAACCACATTGTGCATTTTGACATTTGAATTTATAGTT-TTGACC
* *
2343310 TTCATTGCTAGTTAGCGGTGTTACTGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCTGAT
64 TTCATTGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCT-AT
* *
2343375 GTACATTAGATATGGGTGCTAGATATGGATACTTCAAGAAAAAT-AGGAGTTCAAGCAGTATAGC
128 GT-CATTAGATATGGGTGCTAGATATGGATACTTAAAGAAAAATGAGGAGTTCAAGCAATATAGC
* *
2343439 TAGTCAGTGATTTCTA
192 TAGTCGGTAATTTCTA
* * * * *
2343455 AGCTATGAGAAAGTAATGAAAACCACATTATGCATTTTGATACTTGACTTTATAGGTTTTGACCT
1 AGCTATGAGAAACTAATGAAAACCACATTGTGCATTTTGACATTTGAATTTATA-GTTTTGACCT
* *
2343520 TCAATGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAG-TGTTGCG-TAGCCTACATGTCCAA
65 TCATTGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGCT-TTG-GATAGCCTATATGT-C--
* * * * *
2343583 TATG-CATTAGATATTGGTGTTAG-TAAGGATACGTAAAGAAAAATGAGGAG-TCTGAGCAATAT
125 TATGTCATTAGATATGGGTGCTAGATATGGATACTTAAAGAAAAATGAGGAGTTC-AAGCAATAT
*
2343645 AGCTAGTCGGTAATTTCGA
189 AGCTAGTCGGTAATTTCTA
* * * *
2343664 AGCTATGAGAAACTAATG--AACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAGTCT
1 AGCTATGAGAAACTAATGAAAACCACATTGTGCATTTTGACATTTGAATTTATAGTTTTGA-CCT
* * * * *
2343727 TTAGTGCTAGTTAACTGTGTTTCCGGGACTTGGGTGTGAGCATTGGATAGCC--TA----TATGT
65 TCATTGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCTATGT
** * ***
2343786 C--TA-ATATGCAT-C-AGATATGGGTACTTAAAGAAAAATGAGGAGTTTGCGCAATATAGCTAG
130 CATTAGATATGGGTGCTAGATATGGATACTTAAAGAAAAATGAGGAGTTCAAGCAATATAGCTAG
* *
2343846 TCTGTAATCTCTA
195 TCGGTAATTTCTA
* * *
2343859 AGCTATGAAAAACTAATGAAGAACCACATTGTGCATTTTGGCATTTGAATTTCTAGTTTTTGACC
1 AGCTATGAGAAACTAATGAA-AACCACATTGTGCATTTTGACATTTGAATTTATAG-TTTTGACC
* * * *
2343924 TTCATTGCTATTTAG-TCATGTTACCGGGACTTGGGTGTGA-CGTTGGATAGCCCATATGTC
64 TTCATTGCTAGTTAGCT-GTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTC
2343984 CAATATGCAT
Statistics
Matches: 611, Mismatches: 87, Indels: 76
0.79 0.11 0.10
Matches are distributed among these distances:
194 2 0.00
195 65 0.11
196 8 0.01
197 83 0.14
198 106 0.17
199 8 0.01
205 2 0.00
206 7 0.01
207 76 0.12
208 22 0.04
209 157 0.26
210 48 0.08
211 26 0.04
212 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (207 bp):
AGCTATGAGAAACTAATGAAAACCACATTGTGCATTTTGACATTTGAATTTATAGTTTTGACCTT
CATTGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCTATGTC
ATTAGATATGGGTGCTAGATATGGATACTTAAAGAAAAATGAGGAGTTCAAGCAATATAGCTAGT
CGGTAATTTCTA
Found at i:2343780 original size:207 final size:205
Alignment explanation
Indices: 2343193--2344090 Score: 823
Period size: 209 Copynumber: 4.4 Consensus size: 205
2343183 TAGATATGGG
* * * * *
2343193 TACTTAAAGAAAAATGAGGAGTCCAAGCAATATAGCTTGTTGGTAATTTCTAATCTATGAGAATC
1 TACTTAAAGAAAAATGAGGAGTCTAAGCAATATAGCTAGTCGGTAATTTCTAAGCTATGAGAAAC
* * * *
2343258 TAATGGAAAACCACATTGTGTATTTTGACATTTGAATTTATACTTCTTGGCCTTCATTGCTAGTT
66 TAATAG-AAACCACATTGTGCATTTTGACATTTGAATTTATAGTT-TTAGCCTTCATTGCTAGTT
* * * * ** * *
2343323 AGCGGTGTTACTGGGACTTGGGTGTGAGCTTTGGATAGCCTATATGTCTGATGTACATTAGATAT
129 AACTGTGTTACCGGGACTTGGGTGTGAGCGTTGGATAGCCTATATGTCCAATATGCATTAGATAT
2343388 GGGTGCTAGATATGGA
194 -GGTG-TAG-TA-GGA
* * * *
2343404 TACTTCAAGAAAAAT-AGGAGT-TCAAGCAGTATAGCTAGTCAGTGATTTCTAAGCTATGAGAAA
1 TACTTAAAGAAAAATGAGGAGTCT-AAGCAATATAGCTAGTCGGTAATTTCTAAGCTATGAGAAA
* * * * * *
2343467 GTAAT-GAAAACCACATTATGCATTTTGATACTTGACTTTATAGGTTTT-GACCTTCAATGCTAG
65 CTAATAG-AAACCACATTGTGCATTTTGACATTTGAATTTATA-GTTTTAG-CCTTCATTGCTAG
* * *
2343530 TTAGCTGTGTTACCGGGACTTGGGTGTGAGTGTTGCG-TAGCCTACATGTCCAATATGCATTAGA
127 TTAACTGTGTTACCGGGACTTGGGTGTGAGCGTTG-GATAGCCTATATGTCCAATATGCATTAGA
2343594 TATTGGTGTTAGTAAGGA
191 TA-TGGTG-TAGT-AGGA
* * *
2343612 TACGTAAAGAAAAATGAGGAGTCTGAGCAATATAGCTAGTCGGTAATTTCGAAGCTATGAGAAAC
1 TACTTAAAGAAAAATGAGGAGTCTAAGCAATATAGCTAGTCGGTAATTTCTAAGCTATGAGAAAC
* * * * *
2343677 TAAT-G-AACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAGTCTTTAGTGCTAGTTA
66 TAATAGAAACCACATTGTGCATTTTGACATTTGAATTTATAGTTTT-AGCCTTCATTGCTAGTTA
* * * *
2343740 ACTGTGTTTCCGGGACTTGGGTGTGAGCATTGGATAGCCTATATGTCTAATATGCATCAGATA--
130 ACTGTGTTACCGGGACTTGGGTGTGAGCGTTGGATAGCCTATATGTCCAATATGCATTAGATATG
2343803 ---T-G--GG-
195 GTGTAGTAGGA
* ** * * *
2343807 TACTTAAAGAAAAATGAGGAGTTTGCGCAATATAGCTAGTCTGTAATCTCTAAGCTATGAAAAAC
1 TACTTAAAGAAAAATGAGGAGTCTAAGCAATATAGCTAGTCGGTAATTTCTAAGCTATGAGAAAC
* * *
2343872 TAAT-GAAGAACCACATTGTGCATTTTGGCATTTGAATTTCTAGTTTTTGACCTTCATTGCTA-T
66 TAATAG-A-AACCACATTGTGCATTTTGACATTTGAATTTATAGTTTTAG-CCTTCATTGCTAGT
* * * *
2343935 TTAGTCATGTTACCGGGACTTGGGTGTGA-CGTTGGATAGCCCATATGTCCAATATGCATTAG--
128 TAACT-GTGTTACCGGGACTTGGGTGTGAGCGTTGGATAGCCTATATGTCCAATATGCATTAGAT
2343997 AT-GT-T--T--G-
192 ATGGTGTAGTAGGA
* * * * *
2344004 TACTTCAAGAAAAATGAGGAGTCCAA--ATATAATAGCAAGTTGGTAATTTCTAAGCTATGGGAA
1 TACTTAAAGAAAAATGAGGAGTCTAAGCA-AT-ATAGCTAGTCGGTAATTTCTAAGCTATGAGAA
*
2344067 ACTAAT-GAATAACCACATTTTGCA
64 ACTAATAG-A-AACCACATTGTGCA
2344091 CTCTGCTATT
Statistics
Matches: 580, Mismatches: 85, Indels: 58
0.80 0.12 0.08
Matches are distributed among these distances:
195 65 0.11
196 4 0.01
197 104 0.18
198 66 0.11
199 1 0.00
200 1 0.00
206 6 0.01
207 97 0.17
208 19 0.03
209 155 0.27
210 48 0.08
211 14 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (205 bp):
TACTTAAAGAAAAATGAGGAGTCTAAGCAATATAGCTAGTCGGTAATTTCTAAGCTATGAGAAAC
TAATAGAAACCACATTGTGCATTTTGACATTTGAATTTATAGTTTTAGCCTTCATTGCTAGTTAA
CTGTGTTACCGGGACTTGGGTGTGAGCGTTGGATAGCCTATATGTCCAATATGCATTAGATATGG
TGTAGTAGGA
Found at i:2344023 original size:197 final size:197
Alignment explanation
Indices: 2343395--2344090 Score: 617
Period size: 197 Copynumber: 3.5 Consensus size: 197
2343385 TATGGGTGCT
* * * * *
2343395 AGATATGGATACTTCAAGAAAAAT-AGGAGTT-CAAGCAGTATAGCTAGTCAGTGATTTCTAAGC
1 AGATATGGGTACTTAAAGAAAAATGAGGAGTTGC--GCAATATAGCTAGTCTGTAATTTCTAAGC
* * * * * * *
2343458 TATGAGAAAGTAATGAA-AACCACATTATGCATTTTGATACTTGACTTTATAGGTTTTGA-CCTT
64 TATGAGAAACTAATGAAGAACCACATTGTGCATTTTGACATTTGAATCTATA-GTTTTCAGCCTT
* * * ** * *
2343521 CAATGCTAGTTAGCTGTGTTACCGGGACTTGGGTGTGAGTGTTGCG-TAGCCTACATGTCCAATA
128 CAGTGCTAGTTAACTATGTTACCGGGACTTGGGTGTGAGCATTG-GATAGCCCATATGTCCAATA
*
2343585 TGCATT
192 TGCATC
* * *
2343591 AGATATTGGTGTTAGTAAGGATACGTAAAGAAAAATGAGGAGTCTGAGCAATATAGCTAGTCGGT
1 AGATA-------T-G---GG-TACTTAAAGAAAAATGAGGAGT-TGCGCAATATAGCTAGTCTGT
* *
2343656 AATTTCGAAGCTATGAGAAACTAAT---GAACCACATTGTGCATTTTGATATTTGAATCTATAGT
53 AATTTCTAAGCTATGAGAAACTAATGAAGAACCACATTGTGCATTTTGACATTTGAATCTATAGT
* * * * *
2343718 TTTCAGTCTTTAGTGCTAGTTAACTGTGTTTCCGGGACTTGGGTGTGAGCATTGGATAGCCTATA
118 TTTCAGCCTTCAGTGCTAGTTAACTATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATA
*
2343783 TGTCTAATATGCATC
183 TGTCCAATATGCATC
*
2343798 AGATATGGGTACTTAAAGAAAAATGAGGAGTTTGCGCAATATAGCTAGTCTGTAATCTCTAAGCT
1 AGATATGGGTACTTAAAGAAAAATGAGGAG-TTGCGCAATATAGCTAGTCTGTAATTTCTAAGCT
* * * * *
2343863 ATGAAAAACTAATGAAGAACCACATTGTGCATTTTGGCATTTGAATTTCTAGTTTT-TGACCTTC
65 ATGAGAAACTAATGAAGAACCACATTGTGCATTTTGACATTTGAATCTATAGTTTTCAG-CCTTC
* * * *
2343927 ATTGCTA-TTTAGTCATGTTACCGGGACTTGGGTGTGA-CGTTGGATAGCCCATATGTCCAATAT
129 AGTGCTAGTTAACT-ATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATATGTCCAATAT
*
2343990 GCATT
193 GCATC
* ** * * ** *
2343995 AGATGTTTGTACTTCAAGAAAAATGAGGAG-TCCAAATATAATAGCAAGT-TGGTAATTTCTAAG
1 AGATATGGGTACTTAAAGAAAAATGAGGAGTTGCGCA-AT-ATAGCTAGTCT-GTAATTTCTAAG
* * *
2344058 CTATGGGAAACTAATGAATAACCACATTTTGCA
63 CTATGAGAAACTAATGAAGAACCACATTGTGCA
2344091 CTCTGCTATT
Statistics
Matches: 414, Mismatches: 59, Indels: 53
0.79 0.11 0.10
Matches are distributed among these distances:
195 64 0.15
196 11 0.03
197 106 0.26
198 66 0.16
199 1 0.00
200 1 0.00
203 1 0.00
204 1 0.00
206 7 0.02
207 98 0.24
208 13 0.03
209 44 0.11
210 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (197 bp):
AGATATGGGTACTTAAAGAAAAATGAGGAGTTGCGCAATATAGCTAGTCTGTAATTTCTAAGCTA
TGAGAAACTAATGAAGAACCACATTGTGCATTTTGACATTTGAATCTATAGTTTTCAGCCTTCAG
TGCTAGTTAACTATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATATGTCCAATATGCA
TC
Found at i:2347237 original size:12 final size:12
Alignment explanation
Indices: 2347220--2347244 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2347210 CATTGTTTTG
2347220 TAGCTTTTAAAA
1 TAGCTTTTAAAA
2347232 TAGCTTTTAAAA
1 TAGCTTTTAAAA
2347244 T
1 T
2347245 GAAGTGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAGCTTTTAAAA
Found at i:2347310 original size:71 final size:71
Alignment explanation
Indices: 2347232--2347363 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 71
2347222 GCTTTTAAAA
* * *
2347232 TAGCTTTTAAAATGAAGTGATTAAAATGTAAATTTATTAATAGTTTAGTAATTTTGAGTGTGATT
1 TAGCTTTTAAAATGAAGTGATTAAAATGTAAACTTATTAATAGTTCAGTAACTTTGAGTGTGATT
2347297 GTTTTG
66 GTTTTG
*
2347303 TAGCTTTTAAAATGAAGTGATTAAAATGTAAACTTATTAATAGTTCAGTGACTTTGAGTGT
1 TAGCTTTTAAAATGAAGTGATTAAAATGTAAACTTATTAATAGTTCAGTAACTTTGAGTGT
2347364 AAATTTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (71 bp):
TAGCTTTTAAAATGAAGTGATTAAAATGTAAACTTATTAATAGTTCAGTAACTTTGAGTGTGATT
GTTTTG
Found at i:2355619 original size:30 final size:30
Alignment explanation
Indices: 2355556--2355619 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
2355546 TCCGGATGAA
*
2355556 AAAAGTACAAAGATTAAATTGATCAATTCT
1 AAAAGTACAAAGATTAAATTGATCAAATCT
2355586 AAAAGTA-AAACGATTAAAATTGATCAAAT-T
1 AAAAGTACAAA-GATT-AAATTGATCAAATCT
2355616 AAAA
1 AAAA
2355620 ATATAGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 3 0.10
30 16 0.52
31 12 0.39
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.27
Consensus pattern (30 bp):
AAAAGTACAAAGATTAAATTGATCAAATCT
Found at i:2357553 original size:2 final size:2
Alignment explanation
Indices: 2357546--2357589 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2357536 AATCAACCAA
2357546 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2357588 AC
1 AC
2357590 TACATACATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2360012 original size:20 final size:20
Alignment explanation
Indices: 2359982--2360029 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2359972 TCATTTAAAT
2359982 TTAATTATAAAATATTTTATA
1 TTAA-TATAAAATATTTTATA
* *
2360003 TTAATATAAACTTTTTTATA
1 TTAATATAAAATATTTTATA
*
2360023 TTTATAT
1 TTAATAT
2360030 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATATAAAATATTTTATA
Found at i:2364565 original size:18 final size:20
Alignment explanation
Indices: 2364534--2364575 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2364524 AAGCTTGAAA
2364534 TTTTAAAATAAATT-TATTT
1 TTTTAAAATAAATTGTATTT
*
2364553 TTTTAAAAT-AATTGTCTTT
1 TTTTAAAATAAATTGTATTT
2364572 TTTT
1 TTTT
2364576 TTCAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAAAATAAATTGTATTT
Found at i:2368904 original size:2 final size:2
Alignment explanation
Indices: 2368897--2368921 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2368887 TTCATTAATC
2368897 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2368922 AAACCGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2370076 original size:19 final size:19
Alignment explanation
Indices: 2370041--2370095 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
2370031 TTTTTAAAAA
*
2370041 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAATTTT
2370059 TATAAATATTTTAAA-TTT
1 TATAAATATTTTAAATTTT
* *
2370077 TAAAAATTATTTTGAATTT
1 TATAAA-TATTTTAAATTT
2370096 ATTTTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 15 0.48
19 14 0.45
20 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:2370078 original size:18 final size:18
Alignment explanation
Indices: 2370041--2370095 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
2370031 TTTTTAAAAA
*
2370041 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAA-TTT
2370059 TATAAATATTTTAAATTT
1 TATAAATATTTTAAATTT
* *
2370077 TAAAAATTATTTTGAATTT
1 TATAAA-TATTTTAAATTT
2370096 ATTTTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTAAATTT
Found at i:2370537 original size:2 final size:2
Alignment explanation
Indices: 2370494--2370522 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2370484 AATAATCTTT
2370494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2370523 TAGTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2376979 original size:31 final size:31
Alignment explanation
Indices: 2376913--2377031 Score: 77
Period size: 31 Copynumber: 3.9 Consensus size: 31
2376903 ACAACAAAAA
** * * *
2376913 AAAAATTTT-GAAGAGCCTAATTGAAATTTTT
1 AAAAATTTTAGAAG-GTTTAATTAAAATCTTC
2376944 AAAAATTTTCA-AAGGTTTAA-TAATATAT-TTC
1 AAAAATTTT-AGAAGGTTTAATTAA-A-ATCTTC
* *
2376975 AAAAACTTTAGAGGGTTTAATTAAAATCTTC
1 AAAAATTTTAGAAGGTTTAATTAAAATCTTC
* * *
2377006 AAAAATTTT-GAGGGTATAACTAAAAT
1 AAAAATTTTAGAAGGTTTAATTAAAAT
2377032 TTTTTAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
30 20 0.28
31 44 0.61
32 8 0.11
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (31 bp):
AAAAATTTTAGAAGGTTTAATTAAAATCTTC
Found at i:2377030 original size:30 final size:31
Alignment explanation
Indices: 2376972--2377031 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
2376962 AATAATATAT
* *
2376972 TTCAAAAACTTTAGAGGGTTTAATTAAAATC
1 TTCAAAAACTTTAGAGGGTATAACTAAAATC
*
2377003 TTCAAAAA-TTTTGAGGGTATAACTAAAAT
1 TTCAAAAACTTTAGAGGGTATAACTAAAAT
2377032 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
TTCAAAAACTTTAGAGGGTATAACTAAAATC
Found at i:2378328 original size:31 final size:31
Alignment explanation
Indices: 2378260--2378330 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
2378250 TTAATATAAT
*
2378260 ATTTGGTACTTGAACTTGATATATTTTTCTA
1 ATTTGGTACTTGAACTTGATATATTTTCCTA
* *
2378291 ACTTGGT-CTCTGAACTTGACTCT-TTTTCCTA
1 ATTTGGTACT-TGAACTTGA-TATATTTTCCTA
2378322 ATTTGGTAC
1 ATTTGGTAC
2378331 CTAATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
30 2 0.06
31 28 0.85
32 3 0.09
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTTGGTACTTGAACTTGATATATTTTCCTA
Found at i:2378770 original size:31 final size:32
Alignment explanation
Indices: 2378730--2378865 Score: 126
Period size: 31 Copynumber: 4.4 Consensus size: 32
2378720 AAGAAAAAGC
2378730 TTAGGTACCAAATTAAG-AAAAAATGTCAAGT
1 TTAGGTACCAAATTAAGCAAAAAATGTCAAGT
* *
2378761 TCAGGTACCAAATT-AGAAAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAAGCAAAAAA-TGTCAAGT
* * *
2378793 TGAGGTACCAATTTGAGCCCAAAAAA----AA-T
1 TTAGGTACCAAATTAAG--CAAAAAATGTCAAGT
*
2378822 TTAGGTACCAAATTAAG-AAAAAACGTCAAGT
1 TTAGGTACCAAATTAAGCAAAAAATGTCAAGT
*
2378853 TTAAGTACCAAAT
1 TTAGGTACCAAAT
2378866 ATTATATTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
26 6 0.07
29 15 0.17
30 6 0.07
31 32 0.37
32 20 0.23
33 2 0.02
35 6 0.07
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (32 bp):
TTAGGTACCAAATTAAGCAAAAAATGTCAAGT
Found at i:2381022 original size:29 final size:29
Alignment explanation
Indices: 2380988--2381056 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
2380978 GAATTTTTTT
*
2380988 AAAATTTTAATTAATCTCTCAAAAACTTA
1 AAAATTTTAATTAATCTCACAAAAACTTA
* * *
2381017 AAAATTCTT-ATTAATCTCACAAGAATTTT
1 AAAATT-TTAATTAATCTCACAAAAACTTA
2381046 AAAATTTTAAT
1 AAAATTTTAAT
2381057 CAGACCCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 30 0.88
30 2 0.06
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (29 bp):
AAAATTTTAATTAATCTCACAAAAACTTA
Found at i:2390250 original size:30 final size:32
Alignment explanation
Indices: 2390214--2390286 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
2390204 TCTAATTTGA
*
2390214 TAATTTGGTATCC-AAATTT-AATACTTTTT-T
1 TAATTTGGTATCCTAAATTTGAAT-CTTTTTCC
*
2390244 TAATTTGATA-CCTAAATTTGAATCTTTTTCC
1 TAATTTGGTATCCTAAATTTGAATCTTTTTCC
*
2390275 TAATTTAGTATC
1 TAATTTGGTATC
2390287 TAATCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 21 0.60
31 11 0.31
32 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (32 bp):
TAATTTGGTATCCTAAATTTGAATCTTTTTCC
Found at i:2392265 original size:21 final size:21
Alignment explanation
Indices: 2392232--2392284 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
2392222 TCTTCACTAA
2392232 TATATCAAG-AACATAAGAATT
1 TATAT-AAGAAACATAAGAATT
*
2392253 TATATAAGAAACATAAGACTT
1 TATATAAGAAACATAAGAATT
2392274 TATATAAGAAA
1 TATATAAGAAA
2392285 ACTCTACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (21 bp):
TATATAAGAAACATAAGAATT
Found at i:2395091 original size:90 final size:91
Alignment explanation
Indices: 2394992--2395173 Score: 339
Period size: 90 Copynumber: 2.0 Consensus size: 91
2394982 TCTGAATTAA
* *
2394992 ATTTAATTTACTTAGCCCAACAAATTGAAGATTTAGACTCATTTTGAAGCTCGATTT-TAAAAAA
1 ATTTAATTTACTTAGCCCAACAAATTAAAGATTTAGACTCATTTTGAAGCTCGATTTAAAAAAAA
2395056 ATCAATCGTATTAAATTAATAGGTCG
66 ATCAATCGTATTAAATTAATAGGTCG
2395082 ATTTAATTTACTTAGCCCAACAAATTAAAGATTTAGACTCATTTTGAAGCTCGATTTAAAAAAAA
1 ATTTAATTTACTTAGCCCAACAAATTAAAGATTTAGACTCATTTTGAAGCTCGATTTAAAAAAAA
2395147 ATCAATCGTATTAAATTAATAGGTCG
66 ATCAATCGTATTAAATTAATAGGTCG
2395173 A
1 A
2395174 AACTCGTTGA
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 56 0.63
91 33 0.37
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (91 bp):
ATTTAATTTACTTAGCCCAACAAATTAAAGATTTAGACTCATTTTGAAGCTCGATTTAAAAAAAA
ATCAATCGTATTAAATTAATAGGTCG
Found at i:2398541 original size:205 final size:204
Alignment explanation
Indices: 2398187--2399004 Score: 1086
Period size: 205 Copynumber: 4.0 Consensus size: 204
2398177 TGTTTCATAG
* *
2398187 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACGAAACATTCTCTCGAGTCAAAT
1 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACATTCTCTAGAGTCAAAT
* ** * * *
2398252 CCAATCTTATGGACCAACTTGTACTAAGACATTCATTCACCGGACTGTCGCAATACATCTCGTTT
66 CCAATTTTATGGACCAACTTGTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTT
* * * *
2398317 CCACAATAGAACGAAGATGAAAGCTCGTACATGTGTTTATGCAAACTGAGTTTTAGCTTCTCAAG
131 CCACGATAGAACAAAGATGAAAGCTCGT-CATGTGTTTATGCAAACCGAGTTTTAGCTTCTCAAT
2398382 ATGCAGCAAT
195 ATGCAGCAAT
* * *
2398392 GTTTCTATAACTCTCTAAAGCAAAATACTAGTTGCCGGACTACAAAACATTCTCAAGAGTCAAAT
1 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACATTCTCTAGAGTCAAAT
* ** * * *
2398457 CCAATTTTATGGACCAGCTTCAACTGAGACATTCATACCCCAGACTTTCGCAATGCATCTCGTTT
66 CCAATTTTATGGACCAACTTGTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTT
** * * *
2398522 CCGTGATAGAACAAAGATGAAAGCTCGTACATGTGTTAATGAAAACCAAGTTTTAGCTTCTCAAT
131 CCACGATAGAACAAAGATGAAAGCTCGT-CATGTGTTTATGCAAACCGAGTTTTAGCTTCTCAAT
2398587 ATGCAGCAAT
195 ATGCAGCAAT
* *
2398597 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCAGACAACAAAACATTTTCTCA-AGTC-AA
1 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACATTCTCT-AGAGTCAAA
* * * * *
2398660 TTCGATTTTATGGACCAACTT-TGACCGAGACATTCATTCGCCATACTTTCGCAATGCATCTTGT
65 TCCAATTTTATGGACCAACTTGT-ACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGT
* * * *
2398724 TTCCACGATAGAACAGAGATGAAAGCTAGGTCTTGTGTTTATGCAGACCCGAGTTTTAGCTTCTC
129 TTCCACGATAGAACAAAGATGAAAGCT-CGTCATGTGTTTATGCA-AACCGAGTTTTAGCTTCTC
2398789 AATATGCAGCAAT
192 AATATGCAGCAAT
* *
2398802 GTTTCTACAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACTTTCTCTAGAGTCAAAT
1 GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACATTCTCTAGAGTCAAAT
* * *
2398867 CCGATTTTATGGACCAACTTGTACCGAGACATTCATTCACCGGACTTTCGCAATGCATCTCGTAT
66 CCAATTTTATGGACCAACTTGTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTT
* ** ** * *
2398932 -CAGAGATAGAACGGAGATGAAAGCTCGGTCGCGTGTCTACGCAAACCCGAGTTTTAGCTTCTCA
131 CCA-CGATAGAACAAAGATGAAAGCTC-GTCATGTGTTTATGCAAA-CCGAGTTTTAGCTTCTCA
2398996 ATATGCAGC
193 ATATGCAGC
2399005 CAGGATTAAA
Statistics
Matches: 538, Mismatches: 65, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
204 92 0.17
205 325 0.60
206 120 0.22
207 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (204 bp):
GTTTCTATAACTCTCTAAAGCAAAATACTAGTCGCCGGACAACAAAACATTCTCTAGAGTCAAAT
CCAATTTTATGGACCAACTTGTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTT
CCACGATAGAACAAAGATGAAAGCTCGTCATGTGTTTATGCAAACCGAGTTTTAGCTTCTCAATA
TGCAGCAAT
Found at i:2400373 original size:3 final size:3
Alignment explanation
Indices: 2400365--2400401 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2400355 TTTTGATTTT
*
2400365 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2400402 CAAAGGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2404419 original size:11 final size:11
Alignment explanation
Indices: 2404403--2404428 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2404393 ATTTTTTTAA
2404403 TTTTAAAATAC
1 TTTTAAAATAC
2404414 TTTTAAAATAC
1 TTTTAAAATAC
2404425 TTTT
1 TTTT
2404429 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:2404440 original size:9 final size:9
Alignment explanation
Indices: 2404426--2404454 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2404416 TTAAAATACT
2404426 TTTTTTAAA
1 TTTTTTAAA
2404435 TTTTTTAAA
1 TTTTTTAAA
2404444 -TTTTTAAA
1 TTTTTTAAA
2404452 TTT
1 TTT
2404455 AAAAATCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:2407873 original size:18 final size:18
Alignment explanation
Indices: 2407850--2407885 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2407840 GGTCCGACAT
2407850 CAGCTCCAACGACGGCCA
1 CAGCTCCAACGACGGCCA
* *
2407868 CAGCTCCATCGGCGGCCA
1 CAGCTCCAACGACGGCCA
2407886 TGGCTCCGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.44, G:0.25, T:0.08
Consensus pattern (18 bp):
CAGCTCCAACGACGGCCA
Found at i:2421820 original size:176 final size:174
Alignment explanation
Indices: 2421462--2422144 Score: 772
Period size: 176 Copynumber: 3.9 Consensus size: 174
2421452 CCAAACAGTG
** * * *
2421462 ATTAAACTGAGAGTGAATACATACAATTCCTACAAGATTATCACAACGCTAGGCAAAATCAGATC
1 ATTAAACTGAGAGACAATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATC
* ** * *
2421527 GAAAATCATCAATTCAT-A--CTATATAATAAAACGTCG-ATCTGAAATTTTAATCTATTGTCTT
66 GAAAATCATCAATT-ATGATGTTATATAATAAAAC-AAGAATCTGAAATTTTCATCTATAGTCTT
* * *
2421588 CTTGTTTCATATCTATTCTCAGAAACCAAACAGTAGCTAAACGATCA
129 CTTTTTTC-TATATATTCTCAGGAACCAAACAGTAGCTAAACGATCA
*
2421635 ATTAAACTGAGAGACAATACATACAATT-CTGACAAAAGTATCACAATGCTAAGCAAAATCAGAT
1 ATTAAACTGAGAGACAATACATACAATTCCT-ACAAAATTATCACAATGCTAAGCAAAATCAGAT
* * *** * *
2421699 ACGAAGATCATCGAACTATGATGTTATATAATAAAATGTGAATCTGAAATTTCCATCTATTGTCC
65 -CGAAAATCATC-AATTATGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGT-C
**
2421764 TT-TTTTTTCTATATATTCTCAGGAACCAAACAGTAGCTAAAATATCA
127 TTCTTTTTTCTATATATTCTCAGGAACCAAACAGTAGCTAAACGATCA
* ** * * * * *
2421811 GTTAAACTGACCG--GATACATACAATTCCAACAAAATTATCACAATGCCAAACAAAAGCAGATC
1 ATTAAACTGAGAGACAATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATC
** * *
2421874 GAAAAGAATCAATGTATGTTGTTATATAATAAAACAAGAATCTGAAATTTTCATATATAGTCTTC
66 GAAAATCATCAAT-TATGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTC
* *
2421939 TTTTTTCCAGTATACTCTCAGGAACCAAACAGTAGCTAAACGATCA
130 TTTTTTCTA-TATATTCTCAGGAACCAAACAGTAGCTAAACGATCA
* * * * * *
2421985 ATTAAACTGAGA-ACGGAGACGTACATTTCCTACAAACTTATCGCAATGCTAAGCAAAATCAGAT
1 ATTAAACTGAGAGAC-AATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGAT
* * *
2422049 CAAAAATCATCAATTTATGACGTTATAAAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTT
65 CGAAAATCATCAA-TTATGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTT
*
2422114 CTTTTTTCCAATATATTCTCAGGAACCAAAC
129 CTTTTTT-CTATATATTCTCAGGAACCAAAC
2422145 GATCAATTAA
Statistics
Matches: 429, Mismatches: 64, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
172 7 0.02
173 111 0.26
174 95 0.22
175 5 0.01
176 167 0.39
177 41 0.10
178 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (174 bp):
ATTAAACTGAGAGACAATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATC
GAAAATCATCAATTATGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTCT
TTTTTCTATATATTCTCAGGAACCAAACAGTAGCTAAACGATCA
Found at i:2421964 original size:174 final size:172
Alignment explanation
Indices: 2421478--2422219 Score: 757
Period size: 176 Copynumber: 4.3 Consensus size: 172
2421468 CTGAGAGTGA
* * *
2421478 ATACATACAATTCCTACAAGATTATCACAACGCTAGGCAAAATCAGATCGAAAATCATCAATTCA
1 ATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAATCATCAATT-A
* ** * * *
2421543 T-A--CTATATAATAAAACGTCG-ATCTGAAATTTTAATCTATTGTCTTCTTGTTT-CATATCTA
65 TGATGTTATATAATAAAAC-AAGAATCTGAAATTTTCATCTATAGTCTTCTTTTTTCCATA--TA
* *
2421603 TTCTCAGAAACCAAACAGTAGCTAAACGATCAATTAAACTGAGA-GACA
127 TTCTCAGGAACCAAACAGTAGCTAAACGATCAATTAAACTGA-ACG--G
* * *
2421651 ATACATACAATT-CTGACAAAAGTATCACAATGCTAAGCAAAATCAGATACGAAGATCATCGAAC
1 ATACATACAATTCCT-ACAAAATTATCACAATGCTAAGCAAAATCAGAT-CGAAAATCATC-AAT
*** * * *
2421715 TATGATGTTATATAATAAAATGTGAATCTGAAATTTCCATCTATTGTCCTT-TTTTTTCTATATA
63 TATGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGT-CTTCTTTTTTCCATATA
** * *
2421779 TTCTCAGGAACCAAACAGTAGCTAAAATATCAGTTAAACTGACCGG
127 TTCTCAGGAACCAAACAGTAGCTAAACGATCAATTAAACTGAACGG
* * * * **
2421825 ATACATACAATTCCAACAAAATTATCACAATGCCAAACAAAAGCAGATCGAAAAGAATCAATGTA
1 ATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAATCATCAAT-TA
* * *
2421890 TGTTGTTATATAATAAAACAAGAATCTGAAATTTTCATATATAGTCTTCTTTTTTCCAGTATACT
65 TGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTCTTTTTTCCA-TATATT
2421955 CTCAGGAACCAAACAGTAGCTAAACGATCAATTAAACTGAGAACGG
129 CTCAGGAACCAAACAGTAGCTAAACGATCAATTAAACT--GAACGG
* * * * * *
2422001 AGACGTACATTTCCTACAAACTTATCGCAATGCTAAGCAAAATCAGATCAAAAATCATCAATTTA
1 ATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAATCATCAA-TTA
* *
2422066 TGACGTTATAAAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTCTTTTTTCCAATATATT
65 TGATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTCTTTTTTCC-ATATATT
*
2422131 CTCAGG-----AAC-----C-AAACGATCAATTAAAATGAGAGCGG
129 CTCAGGAACCAAACAGTAGCTAAACGATCAATTAAACTGA-A-CGG
* * * * *
2422166 ATACGTACATTTCCTATAAAATTATCGCAATGCTAAGCAAAATCAGATTGAAAA
1 ATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAA
2422220 AATAAACAGT
Statistics
Matches: 484, Mismatches: 65, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
163 2 0.00
164 1 0.00
165 68 0.14
166 1 0.00
171 3 0.01
172 7 0.01
173 97 0.20
174 93 0.19
175 5 0.01
176 162 0.33
177 39 0.08
178 6 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (172 bp):
ATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAATCATCAATTAT
GATGTTATATAATAAAACAAGAATCTGAAATTTTCATCTATAGTCTTCTTTTTTCCATATATTCT
CAGGAACCAAACAGTAGCTAAACGATCAATTAAACTGAACGG
Found at i:2421974 original size:350 final size:334
Alignment explanation
Indices: 2421292--2422144 Score: 892
Period size: 350 Copynumber: 2.5 Consensus size: 334
2421282 CAACCATTAA
* * * * * * *
2421292 ATCAATTAAACAGATAACGGATACATACAATCCCCTACAAAATTATCACAATGCTTAGCAAAACC
1 ATCAATTAAACTGAGAACGAAGACATACAAT-TCCTACAAAATTATCACAATGCTAAGCAAAATC
* * * * *
2421357 ATATCGAAAACCAACAATTTATGACGTTATATAATAAAAATGGAATATGAAGTTTTCATCTATTG
65 AGATCGAAAATCATCAATTTATGACGTTATATAAT-AAAATGGAATCTGAAATTTTCATCTATTG
* * * * *
2421422 TCATATTTGTTTCTTATATATTCTCAGGAACCAAACAGTGATTAAACTGAGAGTGAATACATACA
129 TCCT-TTTTTTTC-TATATATTCTCAGGAACCAAACAGTGATAAAACTGAAACTGAATACATACA
* * * ** * **
2421487 ATTCCTACAAGATTATCACAACGCTAGGCAAAATCAGATCGAAAATCATCAATTCATACTATATA
192 ATTCCAACAAAATTATCACAACGCCAAACAAAAGCAGATCGAAAAGAATCAATTCATACTATATA
** * * *
2421552 ATAAAACGTCGATCTGAAATTTTAATCTATTGTCTTCTTGTTTCATATCTATTCTCAGAAACCAA
257 ATAAAACGAAGATCTGAAATTTTAATATATAGTCTTCTTGTTTCATA-CTACTCTCAGAAACCAA
2421617 ACAGTAGCTAAACG
321 ACAGTAGCTAAACG
* *
2421631 ATCAATTAAACTGAGAGAC-AATACATACAATT-CTGACAAAAGTATCACAATGCTAAGCAAAAT
1 ATCAATTAAACTGAGA-ACGAAGACATACAATTCCT-ACAAAATTATCACAATGCTAAGCAAAAT
* * * *
2421694 CAGATACGAAGATCATCGAA-CTATGATGTTATATAATAAAATGTGAATCTGAAATTTCCATCTA
64 CAGAT-CGAAAATCATC-AATTTATGACGTTATATAATAAAATG-GAATCTGAAATTTTCATCTA
* *
2421758 TTGTCCTTTTTTTTCTATATATTCTCAGGAACCAAACAGTAGCTAAAATATCAGTTAAACTGACC
126 TTGTCCTTTTTTTTCTATATATTCTCAGGAACCAAACAGT-GAT-AAA-A-C--TGAAACTGA--
*
2421823 GGATACATACAATTCCAACAAAATTATCACAATGCCAAACAAAAGCAGATCGAAAAGAATCAATG
183 --ATACATACAATTCCAACAAAATTATCACAACGCCAAACAAAAGCAGATCGAAAAGAATCAAT-
** * *
2421888 T-ATGTTGTTATATAATAAAAC-AAGAATCTGAAATTTTCATATATAGTCTTCTTTTTTCCAGTA
245 TCA---TACTATATAATAAAACGAAG-ATCTGAAATTTTAATATATAGTCTTCTTGTTT-CA-TA
*
2421951 -TACTCTCAGGAACCAAACAGTAGCTAAACG
304 CTACTCTCAGAAACCAAACAGTAGCTAAACG
* * * * *
2421981 ATCAATTAAACTGAGAACGGAGACGTACATTTCCTACAAACTTATCGCAATGCTAAGCAAAATCA
1 ATCAATTAAACTGAGAACGAAGACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCA
* * ** *
2422046 GATCAAAAATCATCAATTTATGACGTTATAAAATAAAACAAGAATCTGAAATTTTCATCTATAGT
66 GATCGAAAATCATCAATTTATGACGTTATATAATAAAA-TGGAATCTGAAATTTTCATCTATTGT
*
2422111 -CTTCTTTTTTCCAATATATTCTCAGGAACCAAAC
130 CCTT-TTTTTT-CTATATATTCTCAGGAACCAAAC
2422145 GATCAATTAA
Statistics
Matches: 427, Mismatches: 59, Indels: 45
0.80 0.11 0.08
Matches are distributed among these distances:
337 27 0.06
338 44 0.10
339 73 0.17
340 5 0.01
341 1 0.00
343 6 0.01
347 54 0.13
348 6 0.01
349 58 0.14
350 147 0.34
351 4 0.01
352 2 0.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (334 bp):
ATCAATTAAACTGAGAACGAAGACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCA
GATCGAAAATCATCAATTTATGACGTTATATAATAAAATGGAATCTGAAATTTTCATCTATTGTC
CTTTTTTTTCTATATATTCTCAGGAACCAAACAGTGATAAAACTGAAACTGAATACATACAATTC
CAACAAAATTATCACAACGCCAAACAAAAGCAGATCGAAAAGAATCAATTCATACTATATAATAA
AACGAAGATCTGAAATTTTAATATATAGTCTTCTTGTTTCATACTACTCTCAGAAACCAAACAGT
AGCTAAACG
Found at i:2422651 original size:17 final size:17
Alignment explanation
Indices: 2422618--2422649 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2422608 GGGAAAATGA
2422618 AAAAAGAAATTAGAAAG
1 AAAAAGAAATTAGAAAG
2422635 AAAAA-AAATTAGAAA
1 AAAAAGAAATTAGAAA
2422650 AGTTTAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATTAGAAAG
Found at i:2431543 original size:20 final size:20
Alignment explanation
Indices: 2431518--2431560 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2431508 TAATAAACAC
2431518 AAAAAAATATTTTAAAAATA
1 AAAAAAATATTTTAAAAATA
* * *
2431538 AAAAAAATTTTTTTAAATTA
1 AAAAAAATATTTTAAAAATA
2431558 AAA
1 AAA
2431561 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAAATATTTTAAAAATA
Found at i:2432025 original size:19 final size:20
Alignment explanation
Indices: 2431989--2432030 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2431979 AATAAACACC
2431989 AAAAAAATATTTAAAAA-TA
1 AAAAAAATATTTAAAAATTA
**
2432008 AAAAAAATATTTTTAAATTA
1 AAAAAAATATTTAAAAATTA
2432028 AAA
1 AAA
2432031 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAATATTTAAAAATTA
Found at i:2432115 original size:470 final size:470
Alignment explanation
Indices: 2431235--2432174 Score: 1855
Period size: 470 Copynumber: 2.0 Consensus size: 470
2431225 GGATTGATTC
2431235 AATTGGATAAATGATTGTACAATTAATTATACAAATTATTCAATTAGATCAGTACGATTAAGGTC
1 AATTGGATAAATGATTGTACAATTAATTATACAAATTATTCAATTAGATCAGTACGATTAAGGTC
2431300 ACAGTTCATTCTATTTCGCTAGCAATTAGACGAATGTACACAGTAACAACTTTTTTACTAATATG
66 ACAGTTCATTCTATTTCGCTAGCAATTAGACGAATGTACACAGTAACAACTTTTTTACTAATATG
2431365 AGAACTTAAAAAAAAAAATCTAAACTTATTTTTGTAAATCATAATAATTTATTGTTTTTAGTAGA
131 AGAACTTAAAAAAAAAAATCTAAACTTATTTTTGTAAATCATAATAATTTATTGTTTTTAGTAGA
2431430 CCTGTCCATGGGCCGGGCCGGAAAAAAAATTCCGGCCCACCTATTAGGCCCGGGCCCGGCTCGGC
196 CCTGTCCATGGGCCGGGCCGGAAAAAAAATTCCGGCCCACCTATTAGGCCCGGGCCCGGCTCGGC
*
2431495 CTAGCCCGATTTTTAATAAACACAAAAAAATATTTTAAAAATAAAAAAAATTTTTTTAAATTAAA
261 CTAGCCCGATTTTTAATAAACACAAAAAAATATTTTAAAAATAAAAAAAATATTTTTAAATTAAA
2431560 ATTAAAAAATTAAAAGTATATATTTATTATATTCGGGCCGGGCCGGGCCGGGCTTGGGCCAAAAA
326 ATTAAAAAATTAAAAGTATATATTTATTATATTCGGGCCGGGCCGGGCCGGGCTTGGGCCAAAAA
2431625 AGTTGAGCCCGAGCCCGTCCCATTTTTTTAAACGAGCCTCATTTTTTTGCCCAAGCCCATATTTC
391 AGTTGAGCCCGAGCCCGTCCCATTTTTTTAAACGAGCCTCATTTTTTTGCCCAAGCCCATATTTC
2431690 GGGCTTATATTTTTA
456 GGGCTTATATTTTTA
2431705 AATTGGATAAATGATTGTACAATTAATTATACAAATTATTCAATTAGATCAGTACGATTAAGGTC
1 AATTGGATAAATGATTGTACAATTAATTATACAAATTATTCAATTAGATCAGTACGATTAAGGTC
2431770 ACAGTTCATTCTATTTCGCTAGCAATTAGACGAATGTACACAGTAACAACTTTTTTACTAATATG
66 ACAGTTCATTCTATTTCGCTAGCAATTAGACGAATGTACACAGTAACAACTTTTTTACTAATATG
2431835 AGAACTTAAAAAAAAAAATCTAAACTTATTTTTGTAAATCATAATAATTTATTGTTTTTAGTAGA
131 AGAACTTAAAAAAAAAAATCTAAACTTATTTTTGTAAATCATAATAATTTATTGTTTTTAGTAGA
2431900 CCTGTCCATGGGCCGGGCCGGAAAAAAAATTCCGGCCCACCTATTAGGCCCGGGCCCGGCTCGGC
196 CCTGTCCATGGGCCGGGCCGGAAAAAAAATTCCGGCCCACCTATTAGGCCCGGGCCCGGCTCGGC
2431965 CTAGCCCGATTTTTAATAAACACCAAAAAAATA-TTTAAAAATAAAAAAAATATTTTTAAATTAA
261 CTAGCCCGATTTTTAATAAACA-CAAAAAAATATTTTAAAAATAAAAAAAATATTTTTAAATTAA
2432029 AATTAAAAAATTAAAAGTATATATTTATTATATTCGGGCCGGGCCGGGCCGGGCTTGGGCCAAAA
325 AATTAAAAAATTAAAAGTATATATTTATTATATTCGGGCCGGGCCGGGCCGGGCTTGGGCCAAAA
2432094 AAGTTGAGCCCGAGCCCGTCCCATTTTTTTAAACGAGCCTCATTTTTTTGCCCAAGCCCATATTT
390 AAGTTGAGCCCGAGCCCGTCCCATTTTTTTAAACGAGCCTCATTTTTTTGCCCAAGCCCATATTT
2432159 CGGGCTTATATTTTTA
455 CGGGCTTATATTTTTA
2432175 TCCGAACCCT
Statistics
Matches: 468, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
470 458 0.98
471 10 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (470 bp):
AATTGGATAAATGATTGTACAATTAATTATACAAATTATTCAATTAGATCAGTACGATTAAGGTC
ACAGTTCATTCTATTTCGCTAGCAATTAGACGAATGTACACAGTAACAACTTTTTTACTAATATG
AGAACTTAAAAAAAAAAATCTAAACTTATTTTTGTAAATCATAATAATTTATTGTTTTTAGTAGA
CCTGTCCATGGGCCGGGCCGGAAAAAAAATTCCGGCCCACCTATTAGGCCCGGGCCCGGCTCGGC
CTAGCCCGATTTTTAATAAACACAAAAAAATATTTTAAAAATAAAAAAAATATTTTTAAATTAAA
ATTAAAAAATTAAAAGTATATATTTATTATATTCGGGCCGGGCCGGGCCGGGCTTGGGCCAAAAA
AGTTGAGCCCGAGCCCGTCCCATTTTTTTAAACGAGCCTCATTTTTTTGCCCAAGCCCATATTTC
GGGCTTATATTTTTA
Found at i:2437265 original size:28 final size:28
Alignment explanation
Indices: 2437219--2437288 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
2437209 TTTACTTTCT
* *
2437219 CCCAACAACTTTTATTTCCCCCCAAACCC
1 CCCAA-AATTTTTACTTCCCCCCAAACCC
* *
2437248 CCCAAAATTTTTACTTCCCTCCAAATCC
1 CCCAAAATTTTTACTTCCCCCCAAACCC
*
2437276 CTCAAACATTTTT
1 CCCAAA-ATTTTT
2437289 TCTTTTTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (28 bp):
CCCAAAATTTTTACTTCCCCCCAAACCC
Found at i:2440412 original size:18 final size:18
Alignment explanation
Indices: 2440389--2440428 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2440379 TTATTATTTT
*
2440389 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
2440407 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
2440425 TAAA
1 TAAA
2440429 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:2440435 original size:19 final size:19
Alignment explanation
Indices: 2440399--2440449 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
2440389 TAAAATTTAC
*
2440399 TATTAAAATAAAAT-TTAAA
1 TATT-AAATAAATTATTAAA
2440418 TATTAAATAAATTATTAAA
1 TATTAAATAAATTATTAAA
*
2440437 -AAT-AATAAATTAT
1 TATTAAATAAATTAT
2440450 ATTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 10 0.34
19 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATAAATTATTAAA
Found at i:2446996 original size:137 final size:134
Alignment explanation
Indices: 2446678--2447047 Score: 409
Period size: 137 Copynumber: 2.7 Consensus size: 134
2446668 TATTCCCGTC
* * * *
2446678 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTGTAGGAGCAATATGGTAGGGTG
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGA-CCATATGGTAGAGTG
* * *
2446743 ATTGGCTAATAGTTCATTCCCATGTTACTCGGATTTGTAGTCTCAGACACGGGTATATTTCCGGG
65 ATTGGCTAATAGTTCATTCCCATGTTACTCGAATTCGTAGTCTCAGACACGGGTATATTCCCGGG
2446808 TTAAG
130 TTAAG
* * * * * * * * * *
2446813 CTTGGTAGTTTAATCTGGAAGATTGAGTTTTTCTTTCTATGGTTTAAGACCATATGGTAGCGTCA
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCATATGGTAGAGTGA
* * *
2446878 TTGGATAATAGTTCATTCCCATGTTACTCGAATTCGTTCGAGTCTC-GAGCATGGGTATCTTCCC
66 TTGGCTAATAGTTCATTCCCATGTTACTCGAATTCG-T--AGTCTCAGA-CACGGGTATATTCCC
*
2446942 GTGTTAAG
127 GGGTTAAG
* * * * *
2446950 TTTGGTAGTTCAAACTAGAATATTGAGCTTGTATATCTGTAGTTTAAGACCAGTATGATAGAATG
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCA-TATGGTAGAGTG
* * *
2447015 ATTGGCTAAATAGGTCATTCCTATGTTATTCGA
65 ATTGGCT-AATAGTTCATTCCCATGTTACTCGA
2447048 TACAACTACG
Statistics
Matches: 190, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
134 46 0.24
135 40 0.21
136 2 0.01
137 66 0.35
138 14 0.07
139 22 0.12
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (134 bp):
TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCATATGGTAGAGTGA
TTGGCTAATAGTTCATTCCCATGTTACTCGAATTCGTAGTCTCAGACACGGGTATATTCCCGGGT
TAAG
Found at i:2454691 original size:21 final size:20
Alignment explanation
Indices: 2454662--2454705 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2454652 TTTTGAATCC
* *
2454662 TTTTAAAAAATAATTTCTTTT
1 TTTTAAAAAA-AAATACTTTT
*
2454683 TTTTCAAAAAAAATACTTTT
1 TTTTAAAAAAAAATACTTTT
2454703 TTT
1 TTT
2454706 AATTAATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAAAAAAATACTTTT
Found at i:2458237 original size:3 final size:3
Alignment explanation
Indices: 2458229--2458260 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2458219 CCTTTAAATT
2458229 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2458261 CTTTCCTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2472650 original size:15 final size:16
Alignment explanation
Indices: 2472630--2472671 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
2472620 ATTTACATTT
*
2472630 TTAAACTTAAAAAT-C
1 TTAAACTTAAAAATAA
2472645 TTAAAC-TAAAAATAA
1 TTAAACTTAAAAATAA
*
2472660 TTAAATTTAAAA
1 TTAAACTTAAAA
2472672 GGCATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 11 0.48
16 5 0.22
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAACTTAAAAATAA
Found at i:2476107 original size:15 final size:17
Alignment explanation
Indices: 2476087--2476118 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2476077 AAAATTACAT
2476087 AAATTA-ATA-ATATAA
1 AAATTATATATATATAA
2476102 AAATTATATATATATAA
1 AAATTATATATATATAA
2476119 TGAGAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTATATATATATAA
Found at i:2480468 original size:26 final size:28
Alignment explanation
Indices: 2480415--2480477 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
2480405 ATAAAAAATA
*
2480415 ACCAAAATA-TATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
2480442 ACCAAAATATTATAA-ATTTTTTT-TTT
1 ACCAAAATATTATAACATTTTTTTATTT
2480468 ACCAAAATAT
1 ACCAAAATAT
2480478 ACAAAAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 13 0.38
27 16 0.47
28 5 0.15
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:2480870 original size:29 final size:29
Alignment explanation
Indices: 2480833--2480889 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2480823 GAGTAAAAAT
*
2480833 AATAAGTTAAGGGCTTATTTAACTACAAG
1 AATAAGTTAAGGGCTTATTTAAATACAAG
* *
2480862 AATATGTTAAGGGCTTGTTTAAATACAA
1 AATAAGTTAAGGGCTTATTTAAATACAA
2480890 TGAAGTGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (29 bp):
AATAAGTTAAGGGCTTATTTAAATACAAG
Found at i:2481156 original size:27 final size:27
Alignment explanation
Indices: 2481071--2481147 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
2481061 TTTTAGTCCT
*
2481071 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCTTTGGTGCCGCCAATCACA
2481098 TTGGCACCTTTGGTGCCGCCAATCACA
1 TTGGCACCTTTGGTGCCGCCAATCACA
*
2481125 TTGGCACCTTTGGTGTCGCCAAT
1 TTGGCACCTTTGGTGCCGCCAAT
2481148 GTGATTGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.27
Consensus pattern (27 bp):
TTGGCACCTTTGGTGCCGCCAATCACA
Found at i:2481372 original size:107 final size:108
Alignment explanation
Indices: 2481238--2481452 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
2481228 AAAATTATAA
2481238 TATTTTGGTTATTTTTTTTATAATGATTTTGTAAAAAACCCGCTAGAATGCATGGGCTATTACAT
1 TATTTTGGTTATTTTTTTTATAATGATTTTGTAAAAAACCCGCTAGAATGCATGGGCTATTACAT
2481303 CTAACCGAACAAACATGTTTTAGTAATTTAATTTTCATTAAAT
66 CTAACCGAACAAACATGTTTTAGTAATTTAATTTTCATTAAAT
2481346 TATTTTGGTT-TTTTTTTTATAATGATTTTGTAAAAAACCCGCTAGAATGCATGGGCTATTACAT
1 TATTTTGGTTATTTTTTTTATAATGATTTTGTAAAAAACCCGCTAGAATGCATGGGCTATTACAT
2481410 CTAACCGAACAAACATGTTTTAGTAATTTAATTTTCATTAAAT
66 CTAACCGAACAAACATGTTTTAGTAATTTAATTTTCATTAAAT
2481453 CAACTTTAAA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 97 0.91
108 10 0.09
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (108 bp):
TATTTTGGTTATTTTTTTTATAATGATTTTGTAAAAAACCCGCTAGAATGCATGGGCTATTACAT
CTAACCGAACAAACATGTTTTAGTAATTTAATTTTCATTAAAT
Found at i:2482301 original size:19 final size:19
Alignment explanation
Indices: 2482259--2482301 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2482249 TTTAAAATGC
* *
2482259 TTTTAAAATACTTTTTTTA
1 TTTTAAAATACATTTTTAA
2482278 TTTTAAAATA-ATTTTTAA
1 TTTTAAAATACATTTTTAA
2482296 TGTTTA
1 T-TTTA
2482302 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAAAATACATTTTTAA
Found at i:2482864 original size:91 final size:90
Alignment explanation
Indices: 2482754--2482925 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 90
2482744 CTTAAATAGG
2482754 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACCG-GTATATATAAAATAACTTATC
1 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAA-CGTGTATATATAAAATAACTTATC
2482818 AAATCAAACCCTTATATATACATATGT
65 AAATC-AACCCTTATATATACATATGT
* * * *
2482845 GTGGGTCAAGATGTAATAATAAAAATATATAATACAATAATGTGTATATATAAAATAGCTTATCA
1 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACGTGTATATATAAAATAACTTATCA
*
2482910 AATCTACCCTTATATA
66 AATCAACCCTTATATA
2482926 CAGAGAAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 12 0.16
91 63 0.84
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (90 bp):
GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACGTGTATATATAAAATAACTTATCA
AATCAACCCTTATATATACATATGT
Found at i:2491953 original size:40 final size:39
Alignment explanation
Indices: 2491908--2492038 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 39
2491898 ATTTGTATTG
2491908 GCGGCGTTTTTAAGAAAAACGCCGCTAATGTATATTTTTA
1 GCGGCGTTTTTAAG-AAAACGCCGCTAATGTATATTTTTA
2491948 GCGGCGCTTTTGT-AG-AAACGCCGCTAATG-ATCATTTATTA
1 GCGGCG-TTTT-TAAGAAAACGCCGCTAATGTAT-ATTT-TTA
* * * *
2491988 GCGGCGCTTTATCA-CAATCGCCGCTAATTGCT-TATTTTTA
1 GCGGCG-TTTTTAAGAAAACGCCGCTAA-TG-TATATTTTTA
*
2492028 CCGGCGTTTTT
1 GCGGCGTTTTT
2492039 TGTCCAAACG
Statistics
Matches: 78, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
38 2 0.03
39 23 0.29
40 39 0.50
41 12 0.15
42 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (39 bp):
GCGGCGTTTTTAAGAAAACGCCGCTAATGTATATTTTTA
Found at i:2492196 original size:21 final size:22
Alignment explanation
Indices: 2492156--2492197 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2492146 TTTAATATTT
*
2492156 AATTTGGTATCTGAGTTTTTTC
1 AATTTGATATCTGAGTTTTTTC
*
2492178 AATTTGATA-CTGTGTTTTTT
1 AATTTGATATCTGAGTTTTTT
2492198 TTCTCGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (22 bp):
AATTTGATATCTGAGTTTTTTC
Found at i:2503853 original size:19 final size:19
Alignment explanation
Indices: 2503825--2503866 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2503815 TTTAACATTA
2503825 TTTTTATCTCAAAAGTATT
1 TTTTTATCTCAAAAGTATT
* * *
2503844 TTTTTGTCTCAGAAGTGTT
1 TTTTTATCTCAAAAGTATT
2503863 TTTT
1 TTTT
2503867 AGAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTTTATCTCAAAAGTATT
Found at i:2510852 original size:20 final size:21
Alignment explanation
Indices: 2510815--2510857 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2510805 TTTTAAATAT
*
2510815 TATTTAAATAATTCAAAAAAA
1 TATTTAAATAATTAAAAAAAA
* *
2510836 TATTT-AATATTTAAAAATAA
1 TATTTAAATAATTAAAAAAAA
2510856 TA
1 TA
2510858 ATCTTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTTAAATAATTAAAAAAAA
Found at i:2511899 original size:14 final size:15
Alignment explanation
Indices: 2511882--2511910 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2511872 ATTGATGACA
2511882 TTTATGAA-TATAAT
1 TTTATGAATTATAAT
2511896 TTTATGAATTATAAT
1 TTTATGAATTATAAT
2511911 CTAAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TTTATGAATTATAAT
Found at i:2516383 original size:237 final size:235
Alignment explanation
Indices: 2515917--2516396 Score: 703
Period size: 236 Copynumber: 2.0 Consensus size: 235
2515907 ATCAGGGTAG
* *
2515917 AAACTTAAGCCATGTGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTCAAATAA
1 AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
* * *
2515982 GTTCCAATTAACCACCTCTAATGACATATTCCCAGAGGGTGGTAATAGTTACACGTATATACCCA
66 GTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATAAACCCA
* * *
2516047 AACCACATTCATAAAGGAATTGAACAAACCATGAATGCAAACAATAACCATAGCAACCAAAAGAT
131 AACCACATTCATAAAAGAATTAAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAAAGAT
*
2516112 ACAATACTACAAACTATATAACAACTAAGCTAAGAATATA
196 AAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
* * * * * *
2516152 AAACTTAAGCCATGCGACTCCAATACCATTGGAAACACCATTGCCTACGGAAATTACTTAAAATA
1 AAACTTAAGCCATGCGACCCCAATA-CAATGCAAACACCATTCCCTACAGAAATCACTTAAAATA
* * *
2516217 AGTTCCGATTAACCGCCTCTAATGACATATTCGAAGAGGGTGCTAATAGTTAGC-CGTATAAACC
65 AGTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTA-CACGTATAAACC
* * *
2516281 TAAACCA-AGTTCATAAAAGAATTAAAACAAACCATTAATGCAAACAATAACCAGAGCAACCCAA
129 CAAACCACA-TTCATAAAAGAATT-AAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAA
*
2516345 AGATAAAATGCTACAAACTATATAACAACTAAGCTAAGAATATA
192 AGATAAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
*
2516389 AAAGTTAA
1 AAACTTAA
2516397 AACTTCAGTA
Statistics
Matches: 218, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
235 24 0.11
236 108 0.50
237 86 0.39
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (235 bp):
AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
GTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATAAACCCA
AACCACATTCATAAAAGAATTAAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAAAGAT
AAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
Found at i:2517001 original size:102 final size:103
Alignment explanation
Indices: 2516883--2517087 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 103
2516873 CGTAAGTACG
2516883 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGAT-GGTTTT
1 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
2516947 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
66 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
*
2516985 ATATGTGAGTCTCTCTTTCATCATGTATGAGGTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
1 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
2517050 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
66 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
2517088 TGGGCATGTA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 57 0.56
103 44 0.44
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.54
Consensus pattern (103 bp):
ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
Found at i:2518972 original size:21 final size:20
Alignment explanation
Indices: 2518933--2518972 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2518923 ATGTTGGGAA
*
2518933 TTTTGAAGGTGCTTTGAAGG
1 TTTTGAAGGTGATTTGAAGG
*
2518953 TTTTGAATGTGATGTTGAAG
1 TTTTGAAGGTGAT-TTGAAG
2518973 AGTCGGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.42
Consensus pattern (20 bp):
TTTTGAAGGTGATTTGAAGG
Found at i:2528213 original size:18 final size:17
Alignment explanation
Indices: 2528185--2528221 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2528175 TCAGGTATTT
*
2528185 TTCGGTAATTCGATTAA
1 TTCGGTAATTCGAGTAA
2528202 TTCGGATAATTCGAGTAA
1 TTCGG-TAATTCGAGTAA
2528220 TT
1 TT
2528222 TTTAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (17 bp):
TTCGGTAATTCGAGTAA
Found at i:2529450 original size:3 final size:3
Alignment explanation
Indices: 2529444--2529487 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2529434 TTTTAACTTG
2529444 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2529488 CCTCTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2534109 original size:41 final size:41
Alignment explanation
Indices: 2534063--2534233 Score: 333
Period size: 41 Copynumber: 4.1 Consensus size: 41
2534053 ATTAGAAGCT
2534063 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
2534104 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
2534145 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
2534186 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
2534227 ATATATA
1 A-ATATA
2534234 TTCTAAAAAA
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
41 124 0.96
42 5 0.04
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (41 bp):
AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
Found at i:2536420 original size:23 final size:23
Alignment explanation
Indices: 2536374--2536420 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2536364 TCATCCACAA
* * * *
2536374 ATTTTTATTTTTTTATTTTTAAT
1 ATTTTCATTATTTTATCTTGAAT
2536397 ATTTTCATTATTTTATCTTGAAT
1 ATTTTCATTATTTTATCTTGAAT
2536420 A
1 A
2536421 AATTATTAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTCATTATTTTATCTTGAAT
Found at i:2558535 original size:22 final size:22
Alignment explanation
Indices: 2558497--2558559 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
2558487 ACTAATGAAT
* * *
2558497 AGAGAGCACTAAAGTGCTATAC
1 AGAGAGCACTGATGTGCTAAAC
*
2558519 AGAGAGTACATG-TGTGCTAAAC
1 AGAGAGCAC-TGATGTGCTAAAC
*
2558541 ATAGAGCACTGATGTGCTA
1 AGAGAGCACTGATGTGCTA
2558560 GTAATCAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (22 bp):
AGAGAGCACTGATGTGCTAAAC
Found at i:2558582 original size:25 final size:25
Alignment explanation
Indices: 2558554--2558622 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
2558544 GAGCACTGAT
* *
2558554 GTGCTAGTAATCAGATAGCACCAAC
1 GTGCTAATAATCAGAGAGCACCAAC
2558579 GTGCTAATAATCAGAGAGCACCAAC
1 GTGCTAATAATCAGAGAGCACCAAC
*
2558604 GTGCTAATAATTAGAGAGC
1 GTGCTAATAATCAGAGAGC
2558623 GCGCTAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
GTGCTAATAATCAGAGAGCACCAAC
Found at i:2559516 original size:27 final size:23
Alignment explanation
Indices: 2559463--2559511 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2559453 TTAATAAGTA
2559463 TATACATATATTAATTACAAATG
1 TATACATATATTAATTACAAATG
* *
2559486 TATACATATATTTATTACATATG
1 TATACATATATTAATTACAAATG
2559509 TAT
1 TAT
2559512 TTATAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (23 bp):
TATACATATATTAATTACAAATG
Found at i:2566768 original size:23 final size:22
Alignment explanation
Indices: 2566726--2566768 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
2566716 CAATTGAACC
*
2566726 AAAATTTTAATATTTTATTTTT
1 AAAATTTTAATATTTAATTTTT
2566748 AAAATTTTTAAT-TATTAATTT
1 AAAA-TTTTAATAT-TTAATTT
2566769 AATCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAAATTTTAATATTTAATTTTT
Found at i:2566861 original size:99 final size:100
Alignment explanation
Indices: 2566733--2566931 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 100
2566723 ACCAAAATTT
2566733 TAATATTTTATTTTTAAAATTTTTAATTATTAATTTAATCAAATCAAATGAACCGATTAGACCCA
1 TAATATTTTATTTTTAAAATTTTTAATTATTAATTTAATCAAATCAAATGAACCGATTAGACCCA
2566798 CTAACCTAATCAATTTGACCACCAATCCCGATCAA
66 CTAACCTAATCAATTTGACCACCAATCCCGATCAA
2566833 TAATATTTTA-TTTTAAAATTTTTAATTATTAATTTAATCAAATCAAATGAACCGATTAGACCCA
1 TAATATTTTATTTTTAAAATTTTTAATTATTAATTTAATCAAATCAAATGAACCGATTAGACCCA
2566897 CTAACCTAATCAATTTGACCACCAATCCCGATCAA
66 CTAACCTAATCAATTTGACCACCAATCCCGATCAA
2566932 AAAATCTTAT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 89 0.90
100 10 0.10
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (100 bp):
TAATATTTTATTTTTAAAATTTTTAATTATTAATTTAATCAAATCAAATGAACCGATTAGACCCA
CTAACCTAATCAATTTGACCACCAATCCCGATCAA
Found at i:2568149 original size:3 final size:3
Alignment explanation
Indices: 2568141--2568169 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2568131 TACAAACCAG
2568141 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2568170 ACAGTTGAGC
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:2568217 original size:10 final size:10
Alignment explanation
Indices: 2568195--2568229 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
2568185 ATTGAACGGG
2568195 TTTTATAATT
1 TTTTATAATT
*
2568205 TTTTA-AATA
1 TTTTATAATT
2568214 TTTTATAATT
1 TTTTATAATT
2568224 TTTTAT
1 TTTTAT
2568230 GAACAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:2575947 original size:20 final size:21
Alignment explanation
Indices: 2575914--2575952 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2575904 TTATATGTCA
*
2575914 TATATATTTTTAAATTATTTT
1 TATATATTTATAAATTATTTT
2575935 TATA-ATTTATAAATTATT
1 TATATATTTATAAATTATT
2575953 AACTGACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATATTTATAAATTATTTT
Found at i:2598577 original size:21 final size:21
Alignment explanation
Indices: 2598552--2598591 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2598542 TTGAATATTA
2598552 AAATTAATTTTTAAATTTTTT
1 AAATTAATTTTTAAATTTTTT
2598573 AAATTAATTTTTAAATTTT
1 AAATTAATTTTTAAATTTT
2598592 AATATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAATTAATTTTTAAATTTTTT
Found at i:2598583 original size:12 final size:12
Alignment explanation
Indices: 2598552--2598589 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2598542 TTGAATATTA
2598552 AAATTAATTTTT
1 AAATTAATTTTT
2598564 AAA-T--TTTTT
1 AAATTAATTTTT
2598573 AAATTAATTTTT
1 AAATTAATTTTT
2598585 AAATT
1 AAATT
2598590 TTAATATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 1 0.04
12 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AAATTAATTTTT
Found at i:2601315 original size:135 final size:135
Alignment explanation
Indices: 2601139--2601392 Score: 325
Period size: 141 Copynumber: 1.9 Consensus size: 135
2601129 TTTGATATAA
* * *
2601139 AAAAATACTCACATAGTAGCCATGTAACTAAAAAATGATGTTGTAATG-A-ATTTAACAAAATAA
1 AAAAATACTCACATACTAGCCACGTAACTAAAAAAAGATGTTGTAATGAATATTTAACAAAATAA
* * *
2601202 TTTTAATAATATTAACAGTTGGACCTAAATTTTAAAAT-TTAAAAAGTAGAAGGACTAAATTTTA
66 TTTTAATAATATTAACAGTTAGACCGAAA-TTTAAAATCTGAAAAA-TAGAAGGACTAAATTTTA
2601266 AAATTAT
129 AAATTAT
* *
2601273 AAAAATACTCACTTACTAGCCACGTGACTTAAAAAAAGATGTTGTAATGAACTTGTATTTAACAA
1 AAAAATACTCACATACTAGCCACGTAAC-TAAAAAAAGATGTTGTAATGAA----TATTTAACAA
* * *
2601338 AATAATTTTAGTAATATTAATAGTTAGACCGGAATTTAAAATCTGAAAAATAGAA
61 AATAATTTTAATAATATTAACAGTTAGACCGAAATTTAAAATCTGAAAAATAGAA
2601393 AAATTAAATT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
134 24 0.24
135 19 0.19
136 1 0.01
140 13 0.13
141 44 0.44
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (135 bp):
AAAAATACTCACATACTAGCCACGTAACTAAAAAAAGATGTTGTAATGAATATTTAACAAAATAA
TTTTAATAATATTAACAGTTAGACCGAAATTTAAAATCTGAAAAATAGAAGGACTAAATTTTAAA
ATTAT
Found at i:2607155 original size:19 final size:18
Alignment explanation
Indices: 2607126--2607169 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2607116 CAAAATATAA
*
2607126 CTTTT-ATTTTAAATTGGT
1 CTTTTAATTTTAAACT-GT
2607144 CTTTTAATTTTAAACTGT
1 CTTTTAATTTTAAACTGT
2607162 -TTTTAATT
1 CTTTTAATT
2607170 ACATCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (18 bp):
CTTTTAATTTTAAACTGT
Found at i:2607823 original size:19 final size:20
Alignment explanation
Indices: 2607787--2607825 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2607777 GTCATTTTAT
2607787 AAATTTTAGAAATATAATTA
1 AAATTTTAGAAATATAATTA
*
2607807 AAATTTTATAAAT-TAATTA
1 AAATTTTAGAAATATAATTA
2607826 TTTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATTTTAGAAATATAATTA
Found at i:2611584 original size:21 final size:22
Alignment explanation
Indices: 2611540--2611584 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2611530 ATCTGTAACT
*
2611540 GTCTAGTTATTTTGTCATATCA
1 GTCTAGTTATTTTGTCACATCA
2611562 GTCTAGTTATTTT-TCACATCA
1 GTCTAGTTATTTTGTCACATCA
2611583 GT
1 GT
2611585 TTGCTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (22 bp):
GTCTAGTTATTTTGTCACATCA
Found at i:2612055 original size:2 final size:2
Alignment explanation
Indices: 2612048--2612090 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2612038 TGGCACTTTC
* * *
2612048 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2612090 T
1 T
2612091 GCATACTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2612272 original size:2 final size:2
Alignment explanation
Indices: 2612265--2612307 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
2612255 TGGCACTTTC
* *
2612265 TA TA TA TA TA TA TA TA -A TA TA TA TA T- TA TG CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2612305 TA T
1 TA T
2612308 GCATACTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2612286 original size:15 final size:16
Alignment explanation
Indices: 2612266--2612307 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
2612256 GGCACTTTCT
2612266 ATATATATATATAT-A
1 ATATATATATATATGA
*
2612281 ATATATATAT-TATGC
1 ATATATATATATATGA
2612296 ATATATATATAT
1 ATATATATATAT
2612308 GCATACTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.83
16 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATATATATATGA
Found at i:2612319 original size:217 final size:217
Alignment explanation
Indices: 2611944--2612378 Score: 845
Period size: 217 Copynumber: 2.0 Consensus size: 217
2611934 AAACAATTCC
2611944 ACTTGTATATTGCTGTTTGATTTTGTGTCTCATGCTATGCTCCCCATGTGTTTGTTTTTTTGCCT
1 ACTTGTATATTGCTGTTTGATTTTGTGTCTCATGCTATGCTCCCCATGTGTTTGTTTTTTTGCCT
2612009 CAAATTGTGTTTCTTTGTTTTCTTGTTCTTGGCACTTTCTATATATATATATATATATATATATG
66 CAAATTGTGTTTCTTTGTTTTCTTGTTCTTGGCACTTTCTATATATATATATATATATATATATG
2612074 TATGCATATATATATATGCATACTTCTTTTATAGTTTTACCATCTACTGCTTACTTTGTGTTTAG
131 TATGCATATATATATATGCATACTTCTTTTATAGTTTTACCATCTACTGCTTACTTTGTGTTTAG
*
2612139 AGGATTGTTTTGGGGAATTGCT
196 AGGATTGTTTTGGGAAATTGCT
2612161 ACTTGTATATTGCTGTTTGATTTTGTGTCTCATGCTATGCTCCCCATGTGTTTGTTTTTTTGCCT
1 ACTTGTATATTGCTGTTTGATTTTGTGTCTCATGCTATGCTCCCCATGTGTTTGTTTTTTTGCCT
2612226 CAAATTGTGTTTCTTTGTTTTCTTGTTCTTGGCACTTTCTATATATATATATATAATATATATAT
66 CAAATTGTGTTTCTTTGTTTTCTTGTTCTTGGCACTTTCTATATATATATATAT-ATATATATAT
2612291 -TATGCATATATATATATGCATACTTCTTTTATAGTTTTACCATCTACTGCTTACTTTGTGTTTA
130 GTATGCATATATATATATGCATACTTCTTTTATAGTTTTACCATCTACTGCTTACTTTGTGTTTA
2612355 GAGGATTGTTTTGGGAAATTGCT
195 GAGGATTGTTTTGGGAAATTGCT
2612378 A
1 A
2612379 TAACTAAAGA
Statistics
Matches: 216, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
217 206 0.95
218 10 0.05
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (217 bp):
ACTTGTATATTGCTGTTTGATTTTGTGTCTCATGCTATGCTCCCCATGTGTTTGTTTTTTTGCCT
CAAATTGTGTTTCTTTGTTTTCTTGTTCTTGGCACTTTCTATATATATATATATATATATATATG
TATGCATATATATATATGCATACTTCTTTTATAGTTTTACCATCTACTGCTTACTTTGTGTTTAG
AGGATTGTTTTGGGAAATTGCT
Found at i:2618697 original size:19 final size:19
Alignment explanation
Indices: 2618675--2618717 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2618665 GTCCTTGTAA
*
2618675 TTTTA-TTTTCAGAATTTTT
1 TTTTACTTTTCAG-ATTTTC
2618694 TTTTACTTTTCAGATTTTC
1 TTTTACTTTTCAGATTTTC
2618713 TTTTA
1 TTTTA
2618718 AAAAAAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTACTTTTCAGATTTTC
Found at i:2623393 original size:16 final size:15
Alignment explanation
Indices: 2623372--2623410 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
2623362 CTGTATCATA
2623372 ATTTATTTTGTTATTT
1 ATTTATTTTGTTA-TT
*
2623388 ATTTATTATGTTATT
1 ATTTATTTTGTTATT
2623403 A-TTATTTT
1 ATTTATTTT
2623411 CTTTAGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
ATTTATTTTGTTATT
Found at i:2624438 original size:115 final size:111
Alignment explanation
Indices: 2624298--2624516 Score: 314
Period size: 115 Copynumber: 1.9 Consensus size: 111
2624288 TAAATTCATG
* *
2624298 GCTGGATCAATTTGCTGATTAGGATATTTTGCTGGGATT-CTTTATATAAAATTTATTTATTTAT
1 GCTGGATCAATATGCTGATTAGGATATTTTACTGGGATTCCTTT-TATAAAATTTATTT-TTT-T
* * *
2624362 TTATGAATTTTCTGACTCAAGCTCATATATTTTATATAAGGAAGTGCATA
63 TTATAAATTTGCTGACTCAAGCTCATATATTCTATAT-AGGAAGTGCATA
*
2624412 GCTGGATCAATATGTTGAATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTT
1 GCTGGATCAATATGCTG-ATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTT
* *
2624477 GTAAATTTGCTGACTCAAGTTCATATATTCTATATAGGAA
65 ATAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAA
2624517 AATAGCGAGT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
112 5 0.05
113 33 0.35
114 18 0.19
115 35 0.37
116 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (111 bp):
GCTGGATCAATATGCTGATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTTA
TAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAAGTGCATA
Found at i:2625947 original size:207 final size:208
Alignment explanation
Indices: 2625461--2626109 Score: 660
Period size: 207 Copynumber: 3.1 Consensus size: 208
2625451 CATTTTTGTG
* *
2625461 GATACGAGGACAAACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAAGT-T-ATCT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAA-TATGATCT
2625524 ATATCTGTGTCTGACACTCACACTTGAGTCCGAGTCAGAGGTTCACGAACCACC----AGT-T-A
65 ATATCTGTGTCTGACACTCACACTTGAGT-C----C-GAGGTTCACGAACCACCAATTAGTGTAA
* ** *
2625583 TTTTATTGTATATT-GTTGTTCATTACTCACTGTTCATGTTGCTCCAACTTTTCATTTTTCTGGA
124 TTTTATTGT-TGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGA
* *
2625647 TATACCTGTGTTTTTAACAAATG
188 TATACCTATG--TTTAACAAATC
* *
2625670 GATATGAGGACGTACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTTAAAAAAA-ATGATCC
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACC-TTTAAAAAAATATGATCT
* *
2625734 ATATCTGTGTTTGACACTCACACTTGAGTCCGAGGTTCAGGAACCACCAATTAGTGTAATTTTAT
65 ATATCTGTGTCTGACACTCACACTTGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATTTTAT
* * ** * *
2625799 TGTTGTTCGTTACTCATTGATTGTCATTGTCCATGTTGCTCTGACTTTTTATTTTTGTGGATATA
130 TGTTGTTCGTTACTCATT-A--CTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATATA
* *
2625864 -CTATG-TTGA-ATA-C
192 CCTATGTTTAACAAATC
*
2625877 GATATGAGGACATACCTCCAAAGATGCTCCAAATGCATAGAAAACC-TTAAAAAGAATATGATCT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAA-AATATGATCT
* * * * *
2625941 ATATCTGTGTCTGACACTCACTTGAGTCCGAGTCAGAGGTTCATGAACCACCAATTAGTGTATTT
65 ATATCTGTGTCTGACACTCAC---ACT-TGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATT
* * * *
2626006 TTATTGTTGTTCG-------TTACTCACTGTTCATGTTGCTCCGATTTTTCATTTTTGTGGATAT
126 TTATTGTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATAT
* * *
2626064 ACCTGTGTTCAACACATGC
191 ACCTATGTTTAACAAAT-C
2626083 G-TATGAGGACATACCTCCAAAGATGCT
1 GATATGAGGACATACCTCCAAAGATGCT
2626110 ATTGATGGCA
Statistics
Matches: 377, Mismatches: 39, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
201 37 0.10
202 4 0.01
203 3 0.01
204 20 0.05
205 34 0.09
206 4 0.01
207 70 0.19
208 5 0.01
209 52 0.14
210 61 0.16
211 47 0.12
212 4 0.01
213 36 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (208 bp):
GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAATATGATCTA
TATCTGTGTCTGACACTCACACTTGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATTTTATT
GTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATATACCTA
TGTTTAACAAATC
Found at i:2627238 original size:3 final size:3
Alignment explanation
Indices: 2627230--2627254 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2627220 GTGAACATAT
2627230 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
2627255 AGTATTGATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2633564 original size:21 final size:22
Alignment explanation
Indices: 2633528--2633569 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2633518 TGTTCGAGTA
*
2633528 ATTAAAAAATAGAA-TTAAATC
1 ATTAAAAAAAAGAATTTAAATC
*
2633549 ATTAAAAAAAATAATTTAAAT
1 ATTAAAAAAAAGAATTTAAAT
2633570 TAAAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTAAAAAAAAGAATTTAAATC
Done.