Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 78 of 208
Found at i:22988016 original size:21 final size:20
Alignment explanation
Indices: 22987978--22988028 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
22987968 TGTGTTCTAC
*
22987978 CGATAGAAGTCCAGGTTGTAT
1 CGATAGAA-CCCAGGTTGTAT
*
22987999 CGGTAGAACCCAGAGTTGTAT
1 CGATAGAACCCAG-GTTGTAT
*
22988020 TGATAGAAC
1 CGATAGAAC
22988029 TCCCAGTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
CGATAGAACCCAGGTTGTAT
Found at i:22988703 original size:10 final size:10
Alignment explanation
Indices: 22988688--22988716 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22988678 CAATACTTAA
22988688 ACATTTGAAG
1 ACATTTGAAG
22988698 ACATTTGAAG
1 ACATTTGAAG
22988708 ACATTTGAA
1 ACATTTGAA
22988717 ATAAAAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (10 bp):
ACATTTGAAG
Found at i:22992101 original size:40 final size:40
Alignment explanation
Indices: 22992017--22992222 Score: 288
Period size: 40 Copynumber: 5.1 Consensus size: 40
22992007 CATAAGTGTT
* *
22992017 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGCATATGCA
1 ATTCAGGGGTACCAAAGTAC-AATAGGGGCACGTATGTGCA
* *
22992058 ATTCAGGGGTACCAAAGTACAATAGGGGCACGCATGTGTA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* *
22992098 ATTCAGGGGTACCGAAA-TACAACAAGGGCACGTATGTGCA
1 ATTCAGGGGTACC-AAAGTACAATAGGGGCACGTATGTGCA
* *
22992138 ATTCAGGGGTATCGAAGTACAATAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* * *
22992178 ATTTAGGGGTACCAAAGTACAACAGGGGCATGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
22992218 ATTCA
1 ATTCA
22992223 CGTATAATTA
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
39 2 0.01
40 122 0.83
41 23 0.16
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.20
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
Found at i:22992179 original size:19 final size:20
Alignment explanation
Indices: 22992123--22992219 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 20
22992113 AATACAACAA
22992123 GGGCACGTATGTGCAATTCAG
1 GGGCACGTATGTGCAA-TCAG
* * *
22992144 GGGTATCG-AAGTACAAT-AG
1 GGGCA-CGTATGTGCAATCAG
*
22992163 GGGCACGTATGTGCAATTTAG
1 GGGCACGTATGTGCAA-TCAG
* ** * *
22992184 GGGTACCAAAGTACAA-CAG
1 GGGCACGTATGTGCAATCAG
*
22992203 GGGCATGTATGTGCAAT
1 GGGCACGTATGTGCAAT
22992220 TCACGTATAA
Statistics
Matches: 53, Mismatches: 18, Indels: 11
0.65 0.22 0.13
Matches are distributed among these distances:
18 2 0.04
19 24 0.45
20 2 0.04
21 23 0.43
22 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (20 bp):
GGGCACGTATGTGCAATCAG
Found at i:23008191 original size:38 final size:38
Alignment explanation
Indices: 23008103--23008219 Score: 112
Period size: 38 Copynumber: 3.1 Consensus size: 38
23008093 AACCTTTATT
* * *
23008103 ACACTGGCAATAAGCCTGCTAGGCACTAAGCCTGAATA
1 ACACTGGCACTAATCCTGCTAGGCACAAAGCCTGAATA
* * *
23008141 ACACTAGTACTAATCCTGCTAGACACAAAGCCTGAATA
1 ACACTGGCACTAATCCTGCTAGGCACAAAGCCTGAATA
* * * *
23008179 AC-GTCGGCACTAAGT-CTACTAGGCACAAAGCTTGAAAA
1 ACACT-GGCACTAA-TCCTGCTAGGCACAAAGCCTGAATA
23008217 ACA
1 ACA
23008220 GTATAGCTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
37 1 0.02
38 61 0.97
39 1 0.02
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.19
Consensus pattern (38 bp):
ACACTGGCACTAATCCTGCTAGGCACAAAGCCTGAATA
Found at i:23015063 original size:38 final size:37
Alignment explanation
Indices: 23015005--23015158 Score: 155
Period size: 38 Copynumber: 4.1 Consensus size: 37
23014995 AACCTTTATT
* * * * * *
23015005 ACACCAACAATAAGCTTGCTAGGCACTAAGCTTGAATA
1 ACACCGACACTAAGC-TACTAGGCACAAAGCCTAAATA
*
23015043 ACACCGACACTAAGACTGCTAGGCACAAAGCCTAAATA
1 ACACCGACACTAAG-CTACTAGGCACAAAGCCTAAATA
* * **
23015081 ACACTGACACTAAGCCTATTAGGCACAAAGCCTGGATA
1 ACACCGACACTAAG-CTACTAGGCACAAAGCCTAAATA
* *
23015119 ACACGGGCACTAAGCTTACTAGGCACAAAGCCTAAATA
1 ACACCGACACTAAGC-TACTAGGCACAAAGCCTAAATA
23015157 AC
1 AC
23015159 GGTATAACTC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 96 0.98
39 1 0.01
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (37 bp):
ACACCGACACTAAGCTACTAGGCACAAAGCCTAAATA
Found at i:23018358 original size:10 final size:10
Alignment explanation
Indices: 23018340--23018369 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23018330 AATCTCAATA
*
23018340 TAAACAAAAG
1 TAAAGAAAAG
23018350 TAAAGAAAAG
1 TAAAGAAAAG
23018360 TAAAGAAAAG
1 TAAAGAAAAG
23018370 AAACAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (10 bp):
TAAAGAAAAG
Found at i:23024122 original size:3 final size:3
Alignment explanation
Indices: 23024114--23024167 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
23024104 TGTTAAATTG
* **
23024114 TTA TTA TTA CTGTA TTA TTA TTA GTA TTTA TTA TTA TTA TTA TGG TTA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
23024162 TTA TTA
1 TTA TTA
23024168 CCATTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 36 0.86
4 4 0.10
5 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:23024337 original size:18 final size:18
Alignment explanation
Indices: 23024300--23024333 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23024290 TACATATATT
*
23024300 TACATTTTATAATATTTA
1 TACATTTTACAATATTTA
23024318 TACATTTT-CAATATTT
1 TACATTTTACAATATTT
23024334 TATAATCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
TACATTTTACAATATTTA
Found at i:23032286 original size:22 final size:22
Alignment explanation
Indices: 23032224--23032309 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
23032214 ATTGTTCAAA
* **
23032224 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
23032246 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
23032268 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
23032290 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
23032310 AATCTCAATC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:23035886 original size:13 final size:13
Alignment explanation
Indices: 23035868--23035894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23035858 GGGTGGCAAC
23035868 CCTAGTAGGAAAA
1 CCTAGTAGGAAAA
23035881 CCTAGTAGGAAAA
1 CCTAGTAGGAAAA
23035894 C
1 C
23035895 TAGGGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (13 bp):
CCTAGTAGGAAAA
Found at i:23040009 original size:22 final size:22
Alignment explanation
Indices: 23039960--23040009 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
23039950 AGTTGAACTG
* *
23039960 CCAGTAAATTACAAACAAGCTA
1 CCAGTAAATTACAAACAAACCA
* * *
23039982 CTAGTAAATTGCAAATAAACCA
1 CCAGTAAATTACAAACAAACCA
23040004 CCAGTA
1 CCAGTA
23040010 CTCCACGAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.22, G:0.10, T:0.20
Consensus pattern (22 bp):
CCAGTAAATTACAAACAAACCA
Found at i:23040228 original size:37 final size:38
Alignment explanation
Indices: 23040173--23040246 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
23040163 GATTTCAATA
*
23040173 TAGTGGCATGCTTAGCATGCATTAAGT-AAAATAGTAT
1 TAGTGACATGCTTAGCATGCATTAAGTGAAAATAGTAT
* *
23040210 TAGTGACATG-TTATGCATGCATTCAGTGAGAATAGTA
1 TAGTGACATGCTTA-GCATGCATTAAGTGAAAATAGTA
23040247 ACATTTAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 3 0.09
37 21 0.66
38 8 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (38 bp):
TAGTGACATGCTTAGCATGCATTAAGTGAAAATAGTAT
Found at i:23043177 original size:25 final size:24
Alignment explanation
Indices: 23043116--23043196 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 24
23043106 GACACACCAT
* *
23043116 AGCTCGTATGATCTTACCGATTTT
1 AGCTCGTATGAGCTTACCGATTTC
23043140 AGCTCGTGA-GAGCTTACCGATTCTC
1 AGCTCGT-ATGAGCTTACCGATT-TC
* *
23043165 AGCTCATATGAGCTTACTGATTTCC
1 AGCTCGTATGAGCTTACCGATTT-C
23043190 AGCTCGT
1 AGCTCGT
23043197 GAGAGCATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
24 21 0.44
25 27 0.56
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGATTTC
Found at i:23043218 original size:25 final size:24
Alignment explanation
Indices: 23043115--23043219 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
23043105 CGACACACCA
* * *
23043115 TAGCTCGT-ATGATCTTACCGATTT
1 TAGCTCGTGA-GAGCTTACTGATTC
*
23043139 TAGCTCGTGAGAGCTTACCGATTC
1 TAGCTCGTGAGAGCTTACTGATTC
*
23043163 TCAGCTCAT-ATGAGCTTACTGATTTC
1 T-AGCTCGTGA-GAGCTTACTGA-TTC
* *
23043189 CAGCTCGTGAGAGCATACTGATTC
1 TAGCTCGTGAGAGCTTACTGATTC
23043213 ATAGCTC
1 -TAGCTC
23043220 ATATAAGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
24 25 0.37
25 38 0.57
26 4 0.06
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
TAGCTCGTGAGAGCTTACTGATTC
Found at i:23043219 original size:50 final size:49
Alignment explanation
Indices: 23043113--23043223 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 49
23043103 GCCGACACAC
* * * *
23043113 CATAGCTCGTATGATCTTACCGATTTTAGCTCGTGAGAGCTTACCGATT
1 CATAGCTCATATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCGATT
* *
23043162 C-TCAGCTCATATGAGCTTACTGATTTCCAGCTCGTGAGAGCATACTGATT
1 CAT-AGCTCATATGAGCTTACCGATTT-CAGCTCGTGAGAGCATACCGATT
23043212 CATAGCTCATAT
1 CATAGCTCATAT
23043224 AAGCATACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.02
49 21 0.40
50 30 0.57
51 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
CATAGCTCATATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCGATT
Found at i:23057580 original size:22 final size:23
Alignment explanation
Indices: 23057527--23057582 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
23057517 CCCGTTTTTA
* * *
23057527 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
23057550 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
23057572 ATTAAAATTAA
1 ATTAAAATTAA
23057583 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:23057595 original size:16 final size:16
Alignment explanation
Indices: 23057558--23057597 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23057548 TTAATAAAAT
* *
23057558 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
23057574 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
23057590 TAAAATTA
1 TAAAATTA
23057598 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:23057676 original size:59 final size:59
Alignment explanation
Indices: 23057608--23057747 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
23057598 TCAAATTATT
*
23057608 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
23057667 AGTTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
23057726 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
23057748 ATTAATTGTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:23057741 original size:9 final size:9
Alignment explanation
Indices: 23057729--23057756 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23057719 TTTATCAAAT
23057729 TATTAATTG
1 TATTAATTG
23057738 TATTAATTG
1 TATTAATTG
23057747 TATTAATTG
1 TATTAATTG
23057756 T
1 T
23057757 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23057893 original size:22 final size:24
Alignment explanation
Indices: 23057853--23057896 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23057843 AAATAAACTT
23057853 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
23057877 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
23057897 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:23059896 original size:29 final size:30
Alignment explanation
Indices: 23059840--23059897 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
23059830 TTGGTAAATG
* *
23059840 TACTTTCATAAAATGTCTATGTGGTACTTA
1 TACTTTCATAAAATGTCGATGTGATACTTA
23059870 TACTTT-A-AAAATGTTCGATGTGATACTT
1 TACTTTCATAAAATG-TCGATGTGATACTT
23059898 GAACTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (30 bp):
TACTTTCATAAAATGTCGATGTGATACTTA
Found at i:23060591 original size:13 final size:12
Alignment explanation
Indices: 23060573--23060618 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
23060563 AGGTTCAATT
23060573 ATTTAATTTTTAA
1 ATTTAATTTTT-A
23060586 ATTTAA--TTTA
1 ATTTAATTTTTA
* *
23060596 GTTTAATTTTTT
1 ATTTAATTTTTA
23060608 ATTTAATTTTT
1 ATTTAATTTTT
23060619 CACATAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 3 0.11
12 13 0.46
13 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTTAATTTTTA
Found at i:23060611 original size:22 final size:23
Alignment explanation
Indices: 23060574--23060616 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
23060564 GGTTCAATTA
23060574 TTTAATTTTTAAATTTAATTTAG
1 TTTAATTTTTAAATTTAATTTAG
*
23060597 TTTAATTTTT-TATTTAATTT
1 TTTAATTTTTAAATTTAATTT
23060617 TTCACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAATTTTTAAATTTAATTTAG
Found at i:23061698 original size:42 final size:42
Alignment explanation
Indices: 23061575--23061886 Score: 380
Period size: 42 Copynumber: 7.4 Consensus size: 42
23061565 ACGTCGCTAA
* * *
23061575 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATGATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTT
* *
23061618 CTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
*
23061661 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
23061703 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
23061745 CTTTAGCGGCGCTTAGGAAAAAGCGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * * * *
23061787 CTTTAGCGGCGCTTTGGGAGAAACCGCCACTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGGAAAAAACGCCGCTAAAGA-TCATGTT
* **
23061830 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAATAG-T-AGTGTT
1 CTTTAGCGGCGCTTAG-GAAAAAACGCCGCTAA-AGATCA-TGTT
* *
23061872 ATTTAGCAGCGCTTA
1 CTTTAGCGGCGCTTA
23061887 TTTCACAGAC
Statistics
Matches: 237, Mismatches: 24, Indels: 16
0.86 0.09 0.06
Matches are distributed among these distances:
41 2 0.01
42 148 0.62
43 87 0.37
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:23061748 original size:84 final size:84
Alignment explanation
Indices: 23061575--23061886 Score: 380
Period size: 85 Copynumber: 3.7 Consensus size: 84
23061565 ACGTCGCTAA
* * * * *
23061575 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATGATGTTCTTTAGCGGCGCTAAGAAAATA
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA-A
23061640 AACGCCGCTAAAGATCATGTT
64 AACGCCGCTAAAGATCATGTT
*
23061661 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
23061726 CGCCGCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
* * *
23061745 CTTTAGCGGCGCTTAGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGGAGAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGGAAAAA
* * *
23061810 CCGCCACTAAA-AGTAATGTT
65 ACGCCGCTAAAGA-TCATGTT
* ** * *
23061830 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAATAG-T-AGTGTTATTTAGCAGCGCTTA
1 CTTTAGCGGCGCTTAG-GAAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
23061887 TTTCACAGAC
Statistics
Matches: 201, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
84 79 0.39
85 106 0.53
86 16 0.08
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (84 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
CGCCGCTAAAGATCATGTT
Found at i:23061877 original size:127 final size:126
Alignment explanation
Indices: 23061580--23061886 Score: 363
Period size: 127 Copynumber: 2.4 Consensus size: 126
23061570 GCTAACTTTT
* *
23061580 GCGGCGCTTACAGAAAAAACGCCGCTAAAG-ATGATGTTCTTTAGCGGCGCTAAGAAAATAAACG
1 GCGGCGCTTA-GGAAAAAACGCCGCTAAAGTA-G-TGTTCTTTAGCGGCGCTTAGAAAATAAACG
* * *
23061644 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCACGTTCTTTA
63 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATAACGTTCTATA
* *
23061708 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA-TGTTCTTTAGCGGCGCTTAGGAAA-AAGCGC
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAG-T-AGTGTTCTTTAGCGGCGCTTAGAAAATAAACGC
* * * *
23061771 CGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGGAGAAACCGCCACTAAA-AGTAATGTTCTATA
64 CGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGGAAAAAACGCCACTAAAGA-TAACGTTCTATA
** * *
23061835 GCGGCGCTT-GTTCAAAAACGCCGCTAATAGTAGTGTTATTTAGCAGCGCTTA
1 GCGGCGCTTAG-GAAAAAACGCCGCTAA-AGTAGTGTTCTTTAGCGGCGCTTA
23061887 TTTCACAGAC
Statistics
Matches: 156, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
126 36 0.23
127 107 0.69
128 12 0.08
130 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (126 bp):
GCGGCGCTTAGGAAAAAACGCCGCTAAAGTAGTGTTCTTTAGCGGCGCTTAGAAAATAAACGCCG
CTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATAACGTTCTATA
Found at i:23062417 original size:12 final size:12
Alignment explanation
Indices: 23062379--23062417 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
23062369 TTTTGAACCT
*
23062379 CTGCTTCTATCG
1 CTGCTTCTCTCG
*
23062391 CTACTTCTCTCG
1 CTGCTTCTCTCG
23062403 CTGCTTCTCTCG
1 CTGCTTCTCTCG
23062415 CTG
1 CTG
23062418 TGGCCTCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.15, T:0.41
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:23062429 original size:21 final size:21
Alignment explanation
Indices: 23062403--23062459 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
23062393 ACTTCTCTCG
* *
23062403 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCAT
23062424 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGTAGCAT
*
23062445 CTGCTTCCCTCGCTG
1 CTGCTTCTCTCGCTG
23062460 CCACATCTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.04, C:0.39, G:0.21, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCAT
Found at i:23062466 original size:21 final size:21
Alignment explanation
Indices: 23062403--23062471 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
23062393 ACTTCTCTCG
* ** *
23062403 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCCCTCGCTGCAGCAT
* *
23062424 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCCCTCGCTGCAGCAT
23062445 CTGCTTCCCTCGCTGCCA-CAT
1 CTGCTTCCCTCGCTG-CAGCAT
23062466 CTGCTT
1 CTGCTT
23062472 TGAGTTGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCAT
Found at i:23068051 original size:7 final size:7
Alignment explanation
Indices: 23068041--23068086 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
23068031 TGATATATTT
23068041 TTATGTA
1 TTATGTA
23068048 TTATGTAA
1 TTATGT-A
23068056 GTTATGTAA
1 -TTATGT-A
23068065 GTTATGTA
1 -TTATGTA
23068073 TTATGTA
1 TTATGTA
23068080 TTATGTA
1 TTATGTA
23068087 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:23068062 original size:9 final size:9
Alignment explanation
Indices: 23068048--23068178 Score: 111
Period size: 9 Copynumber: 15.4 Consensus size: 9
23068038 TTTTTATGTA
23068048 TTATGTAAG
1 TTATGTAAG
23068057 TTATGTAAG
1 TTATGTAAG
23068066 TTATGT-A-
1 TTATGTAAG
23068073 TTATGT-A-
1 TTATGTAAG
23068080 TTATGTAAG
1 TTATGTAAG
23068089 -TACTGTAAG
1 TTA-TGTAAG
23068098 TTATGTAAG
1 TTATGTAAG
*
23068107 TAATGT-A-
1 TTATGTAAG
*
23068114 TAATGTAAG
1 TTATGTAAG
*
23068123 TTAAG-AAGG
1 TTATGTAA-G
23068132 TTATGT-A-
1 TTATGTAAG
*
23068139 TAATGTAAG
1 TTATGTAAG
*
23068148 TCATGTAAG
1 TTATGTAAG
* *
23068157 TTATTTAAT
1 TTATGTAAG
23068166 TTATGTAAG
1 TTATGTAAG
23068175 TTAT
1 TTAT
23068179 TTATGTAAGT
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
7 24 0.24
8 9 0.09
9 66 0.65
10 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23068120 original size:25 final size:25
Alignment explanation
Indices: 23068092--23068157 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
23068082 ATGTAAGTAC
23068092 TGTAAGTTATGTAAGTAATGTATAA
1 TGTAAGTTATGTAAGTAATGTATAA
* *
23068117 TGTAAGTTAAG-AAGGTTATGTATAA
1 TGTAAGTTATGTAA-GTAATGTATAA
*
23068142 TGTAAGTCATGTAAGT
1 TGTAAGTTATGTAAGT
23068158 TATTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.06
25 31 0.89
26 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (25 bp):
TGTAAGTTATGTAAGTAATGTATAA
Found at i:23068160 original size:25 final size:25
Alignment explanation
Indices: 23068059--23068125 Score: 54
Period size: 25 Copynumber: 2.8 Consensus size: 25
23068049 TATGTAAGTT
*
23068059 ATGTAAGTTATGT-A-TTATGTATT
1 ATGTAAGTTATGTAAGTTATGTATA
23068082 ATGTAAG-TACTGTAAGTTATGTAAGTA
1 ATGTAAGTTA-TGTAAGTTATGT-A-TA
*
23068109 ATGT-A-TAATGTAAGTTA
1 ATGTAAGTTATGTAAGTTA
23068126 AGAAGGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
22 2 0.06
23 10 0.28
24 1 0.03
25 15 0.42
26 3 0.08
27 5 0.14
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTATGTAAGTTATGTATA
Found at i:23068182 original size:13 final size:13
Alignment explanation
Indices: 23068164--23068189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23068154 AAGTTATTTA
23068164 ATTTATGTAAGTT
1 ATTTATGTAAGTT
23068177 ATTTATGTAAGTT
1 ATTTATGTAAGTT
23068190 GTCTTGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTATGTAAGTT
Found at i:23068444 original size:16 final size:16
Alignment explanation
Indices: 23068425--23068460 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23068415 CTGTAAGTGT
*
23068425 TGTATTATATAAGTTA
1 TGTATTATATAAGATA
*
23068441 TGTATTATGTAAGATA
1 TGTATTATATAAGATA
23068457 TGTA
1 TGTA
23068461 AGTTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (16 bp):
TGTATTATATAAGATA
Found at i:23068462 original size:25 final size:25
Alignment explanation
Indices: 23068434--23068517 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
23068424 TTGTATTATA
23068434 TAAGTTATGTATTATGTAAGATATG
1 TAAGTTATGTATTATGTAAGATATG
* * * *
23068459 TAAGTTGTATTTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGATATG
* * *
23068484 TAAGTAACG-AGTTATGTAAGCTATG
1 TAAGTTATGTA-TTATGTAAGATATG
23068509 TAAGTTATG
1 TAAGTTATG
23068518 CAAGATTATA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGATATG
Found at i:23068482 original size:9 final size:9
Alignment explanation
Indices: 23068395--23068517 Score: 75
Period size: 9 Copynumber: 14.6 Consensus size: 9
23068385 AGGCTATGTT
*
23068395 TTATGCAAG
1 TTATGTAAG
* *
23068404 TTATTTAAT
1 TTATGTAAG
*
23068413 TTCTGTAAG
1 TTATGTAAG
23068422 TGT-TGT-A-
1 T-TATGTAAG
*
23068429 TTATATAAG
1 TTATGTAAG
23068438 TTATGT-A-
1 TTATGTAAG
23068445 TTATGTAAG
1 TTATGTAAG
*
23068454 ATATGTAAG
1 TTATGTAAG
**
23068463 -T-TGTATT
1 TTATGTAAG
23068470 TTATGTAAG
1 TTATGTAAG
23068479 TTATGTAAG
1 TTATGTAAG
* *
23068488 TAACG--AG
1 TTATGTAAG
23068495 TTATGTAAG
1 TTATGTAAG
*
23068504 CTATGTAAG
1 TTATGTAAG
23068513 TTATG
1 TTATG
23068518 CAAGATTATA
Statistics
Matches: 85, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
6 1 0.01
7 18 0.21
8 6 0.07
9 59 0.69
10 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23068553 original size:8 final size:7
Alignment explanation
Indices: 23068535--23068580 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
23068525 ATAATATAAG
23068535 TTATGTA
1 TTATGTA
23068542 TTATGTTA
1 TTATG-TA
23068550 TTATGTA
1 TTATGTA
23068557 TTATGTA
1 TTATGTA
*
23068564 --ATTTA
1 TTATGTA
23068569 TTATGTTA
1 TTATG-TA
23068577 TTAT
1 TTAT
23068581 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:23068553 original size:27 final size:26
Alignment explanation
Indices: 23068522--23068747 Score: 121
Period size: 27 Copynumber: 9.2 Consensus size: 26
23068512 GTTATGCAAG
23068522 ATTATAATATAAGTTATGTATTATGTT
1 ATTAT-ATATAAGTTATGTATTATGTT
* * * *
23068549 ATTATGTATTATGTAATTTATTATGTT
1 ATTATATA-TAAGTTATGTATTATGTT
*
23068576 ATTATATATAAGTTATGGA--A-GTT
1 ATTATATATAAGTTATGTATTATGTT
* *
23068599 A-T-TATGTAAGTTATGCA--A-G--
1 ATTATATATAAGTTATGTATTATGTT
*
23068618 ATTATAAAATAAGTTATGTATTATGTT
1 ATTAT-ATATAAGTTATGTATTATGTT
* * * *
23068645 ATTATGTATTATGTAATTTATTATGTT
1 ATTATATA-TAAGTTATGTATTATGTT
* *
23068672 ATTATATATAAGTTA--TATGGAAGTT
1 ATTATATATAAGTTATGTAT-TATGTT
*
23068697 A-T-TATATAAGTTATGCA--A-GCTT
1 ATTATATATAAGTTATGTATTATG-TT
*
23068719 A-TA-AAATAAGTTATGTATTATGTT
1 ATTATATATAAGTTATGTATTATGTT
23068743 ATTAT
1 ATTAT
23068748 GTATTATGTA
Statistics
Matches: 152, Mismatches: 27, Indels: 41
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 17 0.11
22 29 0.19
23 15 0.10
24 10 0.07
25 10 0.07
26 15 0.10
27 54 0.36
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (26 bp):
ATTATATATAAGTTATGTATTATGTT
Found at i:23068555 original size:15 final size:15
Alignment explanation
Indices: 23068535--23068580 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23068525 ATAATATAAG
23068535 TTATGTATTATGTTA
1 TTATGTATTATGTTA
23068550 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
23068564 --ATTTATTATGTTA
1 TTATGTATTATGTTA
23068577 TTAT
1 TTAT
23068581 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:23068591 original size:19 final size:18
Alignment explanation
Indices: 23068522--23068687 Score: 60
Period size: 19 Copynumber: 8.9 Consensus size: 18
23068512 GTTATGCAAG
23068522 ATTATAATATAAGTTATGT
1 ATTAT-ATATAAGTTATGT
*
23068541 ATTATGT-T-A-TTATGT
1 ATTATATATAAGTTATGT
* *
23068556 ATTATGTAATTTA-TTATGTT
1 ATTATAT-A-TAAGTTATG-T
*
23068576 ATTATATATAAGTTATGGA
1 ATTATATATAAGTTAT-GT
* *
23068595 AGTTATTATGTAAGTTATGCAAG
1 A-TTA-TATATAAGTTATG---T
*
23068618 ATTATAAAATAAGTTATGT
1 ATTAT-ATATAAGTTATGT
*
23068637 ATTATGT-T-A-TTATGT
1 ATTATATATAAGTTATGT
* *
23068652 ATTATGTAATTTA-TTATGTT
1 ATTATAT-A-TAAGTTATG-T
23068672 ATTATATATAAGTTAT
1 ATTATATATAAGTTAT
23068688 ATGGAAGTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
15 26 0.23
16 2 0.02
17 2 0.02
18 7 0.06
19 33 0.29
20 19 0.17
21 12 0.10
22 13 0.11
23 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTATATATAAGTTATGT
Found at i:23068609 original size:96 final size:98
Alignment explanation
Indices: 23068505--23068768 Score: 487
Period size: 96 Copynumber: 2.7 Consensus size: 98
23068495 TTATGTAAGC
*
23068505 TATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
1 TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
23068570 TATGTTATTATATATAAG-T-TATGGAAGTTAT
66 TATGTTATTATATATAAGTTATATGGAAGTTAT
23068601 TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
1 TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
23068666 TATGTTATTATATATAAGTTATATGGAAGTTAT
66 TATGTTATTATATATAAGTTATATGGAAGTTAT
* *
23068699 TATATAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
1 TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
23068764 TATGT
66 TATGT
23068769 GAGTATAGTA
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
96 82 0.50
97 1 0.01
98 80 0.49
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (98 bp):
TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTAT
TATGTTATTATATATAAGTTATATGGAAGTTAT
Found at i:23068630 original size:22 final size:21
Alignment explanation
Indices: 23068583--23068635 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
23068573 GTTATTATAT
* * *
23068583 ATAAGTTATGGAAGTTATTAT
1 ATAAGTTATGCAAGTTATAAA
*
23068604 GTAAGTTATGCAAGATTATAAA
1 ATAAGTTATGCAAG-TTATAAA
23068626 ATAAGTTATG
1 ATAAGTTATG
23068636 TATTATGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.38
Consensus pattern (21 bp):
ATAAGTTATGCAAGTTATAAA
Found at i:23068649 original size:8 final size:7
Alignment explanation
Indices: 23068631--23068676 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
23068621 ATAAAATAAG
23068631 TTATGTA
1 TTATGTA
23068638 TTATGTTA
1 TTATG-TA
23068646 TTATGTA
1 TTATGTA
23068653 TTATGTA
1 TTATGTA
*
23068660 --ATTTA
1 TTATGTA
23068665 TTATGTTA
1 TTATG-TA
23068673 TTAT
1 TTAT
23068677 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:23068651 original size:15 final size:15
Alignment explanation
Indices: 23068631--23068676 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23068621 ATAAAATAAG
23068631 TTATGTATTATGTTA
1 TTATGTATTATGTTA
23068646 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
23068660 --ATTTATTATGTTA
1 TTATGTATTATGTTA
23068673 TTAT
1 TTAT
23068677 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:23068744 original size:98 final size:96
Alignment explanation
Indices: 23068509--23068768 Score: 475
Period size: 98 Copynumber: 2.7 Consensus size: 96
23068499 GTAAGCTATG
*
23068509 TAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
*
23068574 TTATTATATATAAGTTATGGAAGTTATTATG
66 TTATTATATATAAGTTATGGAAGTTATTATA
23068605 TAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
23068670 TTATTATATATAAGTTATATGGAAGTTATTATA
66 TTATTATATATAAG-T-TATGGAAGTTATTATA
*
23068703 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
23068768 T
66 T
23068769 GAGTATAGTA
Statistics
Matches: 159, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
96 78 0.49
97 1 0.01
98 80 0.50
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (96 bp):
TAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
TTATTATATATAAGTTATGGAAGTTATTATA
Found at i:23068913 original size:20 final size:20
Alignment explanation
Indices: 23068890--23068928 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23068880 GTTATTTCTT
*
23068890 TATTTATTTAATTTAATTTA
1 TATTTATTTAATATAATTTA
* *
23068910 TATTTGTTTTATATAATTT
1 TATTTATTTAATATAATTT
23068929 TTTCACGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTTATTTAATATAATTTA
Found at i:23069432 original size:33 final size:33
Alignment explanation
Indices: 23069394--23069497 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 33
23069384 CTCGGGTTAA
23069394 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
* * ** * ** ** *
23069427 TAAA-TTCAATTATATT-TTTCTCTGCAACATAG
1 TAAATTTAAAGTATATTAAATATAAGTTA-ATGG
23069459 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
23069492 TAAATT
1 TAAATT
23069498 CAGGTCTGAT
Statistics
Matches: 48, Mismatches: 20, Indels: 6
0.65 0.27 0.08
Matches are distributed among these distances:
31 4 0.08
32 17 0.35
33 23 0.48
34 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (33 bp):
TAAATTTAAAGTATATTAAATATAAGTTAATGG
Found at i:23071635 original size:7 final size:7
Alignment explanation
Indices: 23071623--23071700 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
23071613 ACTAAAGTAG
23071623 CCTAAAC
1 CCTAAAC
23071630 CCTAAAC
1 CCTAAAC
**
23071637 TGTAAAC
1 CCTAAAC
*
23071644 TCTAAAC
1 CCTAAAC
*
23071651 TTCTAAAC
1 -CCTAAAC
23071659 CCTAAAC
1 CCTAAAC
*
23071666 CCAAAAC
1 CCTAAAC
*
23071673 ACC-AAAA
1 -CCTAAAC
* *
23071680 CCTACAT
1 CCTAAAC
*
23071687 CATAAAC
1 CCTAAAC
23071694 CCTAAAC
1 CCTAAAC
23071701 TCAAAACTCT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 2 0.04
7 45 0.80
8 9 0.16
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:23071648 original size:14 final size:15
Alignment explanation
Indices: 23071624--23071665 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
23071614 CTAAAGTAGC
23071624 CTAAACCCTAAAC-T
1 CTAAACCCTAAACTT
* *
23071638 GTAAACTCTAAACTT
1 CTAAACCCTAAACTT
23071653 CTAAACCCTAAAC
1 CTAAACCCTAAAC
23071666 CCAAAACACC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (15 bp):
CTAAACCCTAAACTT
Found at i:23071938 original size:17 final size:17
Alignment explanation
Indices: 23071916--23071965 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
23071906 TATCCTATTT
23071916 CCTACATTATATAATAA
1 CCTACATTATATAATAA
23071933 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
23071950 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
23071966 TCTAGCGGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:23072359 original size:113 final size:112
Alignment explanation
Indices: 23071987--23072660 Score: 782
Period size: 113 Copynumber: 5.9 Consensus size: 112
23071977 TTCCCACAAC
* * * *
23071987 GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCAC-AACTGC-AAGTATACATC
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAA-TATACATC
*
23072050 AAGACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
63 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
* * * *
23072100 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCACCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * * *
23072165 GACCAAA-CTCTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTAC
65 GACCAAAGCGCTGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAATAA
* * * * *
23072214 TCGCCGCTAATACTATACTTTAGCAGCATTTTAATATAAGCGCCACTAAGGCTAATATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
23072279 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
65 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
* * * *
23072327 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
*
23072391 AGACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
64 AGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
* * * *
23072440 GCGCCGCTAATACTATGCTTTACCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
** * * * * *
23072505 GACCAAA-CTATGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTAC
65 GACCAAAGCGCTGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAATAA
* ** * * *
23072554 TCGCTACTAATACTATACTTTAGCGGCGTTTTAATATAAACGCCACTAAGGCTAATATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
* *
23072619 GACCAAAGCGTTGCGTTTTGGTTAAGAGCTTTTGCGGCGCTT
65 GACCAAAGCGCTGCGTTTTGGTTAATA--TTTTGCGGCGCTT
23072661 GGTAGTAAAC
Statistics
Matches: 474, Mismatches: 70, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
112 29 0.06
113 239 0.50
114 167 0.35
115 39 0.08
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (112 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
Found at i:23072394 original size:227 final size:226
Alignment explanation
Indices: 23071987--23072660 Score: 781
Period size: 227 Copynumber: 3.0 Consensus size: 226
23071977 TTCCCACAAC
* * *
23071987 GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCAC-AACTGC-AAGTATACATC
1 GCGCCGCTAATACTATGCTTTAGCAGCGTTTTA-AATAAGCGCCACTAA-TGCTAA-TATACATC
*
23072050 AAGACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTA
63 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTA
* * * *
23072115 TGCTTTAGCGGCGTTTT-CAAATAAGCACCACTAATCCTAATGTACCTCAAGACCAAACTCTGCG
128 TGCTTTAGCGGCGTTTTAC-AATAAGCGCCACTAATGCTAATATACATCAAGACCAAACTCTGCG
* * * *
23072179 TTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTAC
192 TTTTGGTTAAGAAATTTTGCGGCGCTTTACAATAA
* * * *
23072214 TCGCCGCTAATACTATACTTTAGCAGCATTTTAATATAAGCGCCACTAAGGCTAATATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCAGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
*
23072279 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATAATATG
65 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
* * * * *
23072344 TTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCAAGACCAATGCGCTGCGT
130 CTTTAGCGGCGTTTTACAATAAGCGCCACTAA-TGCTAATATACATCAAGACCAA-ACTCTGCGT
*
23072408 TTTGGTT-A-ATATTTTGCGGCGCTTTACAATAA
193 TTTGGTTAAGAAATTTTGCGGCGCTTTACAATAA
* * * * *
23072440 GCGCCGCTAATACTATGCTTTACCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCAGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
** * * * * ** **
23072505 GACCAAA-CTATGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCTACTAATACTA
65 GACCAAAGCGCTGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTA
* * *
23072569 TACTTTAGCGGCGTTTTA-ATATAAACGCCACTAAGGCTAATATACATCAAGACCAAAGCGT-TG
128 TGCTTTAGCGGCGTTTTACA-ATAAGCGCCACTAATGCTAATATACATCAAGACCAAA-C-TCTG
**
23072632 CGTTTTGGTTAAGAGCTTTTGCGGCGCTT
190 CGTTTTGGTTAAGAAATTTTGCGGCGCTT
23072661 GGTAGTAAAC
Statistics
Matches: 379, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
225 13 0.03
226 82 0.22
227 248 0.65
228 22 0.06
229 14 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (226 bp):
GCGCCGCTAATACTATGCTTTAGCAGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATGC
TTTAGCGGCGTTTTACAATAAGCGCCACTAATGCTAATATACATCAAGACCAAACTCTGCGTTTT
GGTTAAGAAATTTTGCGGCGCTTTACAATAA
Found at i:23072607 original size:340 final size:341
Alignment explanation
Indices: 23071987--23072660 Score: 1224
Period size: 340 Copynumber: 2.0 Consensus size: 341
23071977 TTCCCACAAC
23071987 GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCACAACTGCAAGTATACATCAA
1 GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCACAACTGCAAGTATACATCAA
23072052 GACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
66 GACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
* *
23072117 CTTTAGCGGCGTTTTCAAATAAGCACCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTT
131 CTTTACCGGCGTTTTCAAATAAGCACCACTAATCCTAATGTACCTCAAGACCAAACTATGCGTTT
*
23072182 TGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCAGCATTTTA
196 TGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCCACTAATACTATACTTTAGCAGCATTTTA
* *
23072247 ATATAAGCGCCACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATA-TTTTG
261 ATATAAACGCCACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGACTTTTG
23072311 CGGCGCTTTACAATAA
326 CGGCGCTTTACAATAA
* *
23072327 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAACTGCTAGTATACATCAA
1 GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCACAACTGCAAGTATACATCAA
23072392 GACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
66 GACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
*
23072457 CTTTACCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTATGCGTTT
131 CTTTACCGGCGTTTTCAAATAAGCACCACTAATCCTAATGTACCTCAAGACCAAACTATGCGTTT
* * *
23072522 TGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCTACTAATACTATACTTTAGCGGCGTTTTA
196 TGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCCACTAATACTATACTTTAGCAGCATTTTA
*
23072587 ATATAAACGCCACTAAGGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAAGAGCTTTT
261 ATATAAACGCCACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGA-CTTTT
23072652 GCGGCGCTT
325 GCGGCGCTT
23072661 GGTAGTAAAC
Statistics
Matches: 320, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
340 307 0.96
342 13 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (341 bp):
GCGCCGCTAATAATATGTTTTAGCAGCGTTTTACCATAAGCGCCACAACTGCAAGTATACATCAA
GACCAATGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
CTTTACCGGCGTTTTCAAATAAGCACCACTAATCCTAATGTACCTCAAGACCAAACTATGCGTTT
TGGTTAAGAAATATTGCGGCGCTTTTCAGTACTCGCCACTAATACTATACTTTAGCAGCATTTTA
ATATAAACGCCACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGACTTTTG
CGGCGCTTTACAATAA
Found at i:23082791 original size:19 final size:20
Alignment explanation
Indices: 23082769--23082807 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23082759 TAATTTGGTC
23082769 ATTTC-CTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
*
23082788 ATTTCTGTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
23082808 TTAGCCCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTCTCTTTTAATCCCAAA
Found at i:23082864 original size:19 final size:20
Alignment explanation
Indices: 23082837--23082876 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
23082827 ATTAGTTTAA
23082837 TATTAATTTATTATTATTAT
1 TATTAATTTATTATTATTAT
* *
23082857 TATT-ATTTGTTATTGTTAT
1 TATTAATTTATTATTATTAT
23082876 T
1 T
23082877 GACATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TATTAATTTATTATTATTAT
Found at i:23087812 original size:8 final size:8
Alignment explanation
Indices: 23087795--23087855 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
23087785 GTTCAGATTC
23087795 AATAAAAA
1 AATAAAAA
*
23087803 AATAAGAA
1 AATAAAAA
23087811 AATAAAAA
1 AATAAAAA
23087819 AATAAAAAA
1 AAT-AAAAA
23087828 AATCAAAAGA
1 AAT-AAAA-A
23087838 AA-AAATCAA
1 AATAAA--AA
23087847 AATAAAAA
1 AATAAAAA
23087855 A
1 A
23087856 TCAAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 23 0.51
9 15 0.33
10 7 0.16
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.11
Consensus pattern (8 bp):
AATAAAAA
Found at i:23087816 original size:16 final size:15
Alignment explanation
Indices: 23087795--23087869 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 15
23087785 GTTCAGATTC
23087795 AATAAAAAAATAAGAA
1 AATAAAAAAATAA-AA
23087811 AATAAAAAAATAAAA
1 AATAAAAAAATAAAA
* *
23087826 AA-AATCAAAAGAAAA
1 AATAA-AAAAATAAAA
*
23087841 AAT--CAAAATAAAA
1 AATAAAAAAATAAAA
*
23087854 AAT--CAAAATAAAA
1 AATAAAAAAATAAAA
23087867 AAT
1 AAT
23087870 CAATCAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
13 25 0.46
14 2 0.04
15 14 0.26
16 13 0.24
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.13
Consensus pattern (15 bp):
AATAAAAAAATAAAA
Found at i:23087825 original size:13 final size:14
Alignment explanation
Indices: 23087817--23087872 Score: 73
Period size: 13 Copynumber: 4.1 Consensus size: 14
23087807 AGAAAATAAA
23087817 AAAATAAAAAAAATC
1 AAAAT-AAAAAAATC
*
23087832 AAAA-GAAAAAATC
1 AAAATAAAAAAATC
23087845 AAAAT-AAAAAATC
1 AAAATAAAAAAATC
23087858 AAAAT-AAAAAATC
1 AAAATAAAAAAATC
23087871 AA
1 AA
23087873 TCAAAATCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
13 35 0.90
15 4 0.10
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATC
Found at i:23087913 original size:6 final size:6
Alignment explanation
Indices: 23087904--23087944 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
23087894 GAGAATGATG
*
23087904 AAAAGAA AAAAGA AAAGGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
23087945 AAAGGAGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:23088093 original size:16 final size:16
Alignment explanation
Indices: 23088072--23088107 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23088062 ATCATCGAAG
23088072 GCTTCTAATGAGTATT
1 GCTTCTAATGAGTATT
*
23088088 GCTTCTAATGGGTATT
1 GCTTCTAATGAGTATT
23088104 GCTT
1 GCTT
23088108 ACTTTTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (16 bp):
GCTTCTAATGAGTATT
Found at i:23090527 original size:44 final size:44
Alignment explanation
Indices: 23090110--23090514 Score: 641
Period size: 44 Copynumber: 9.2 Consensus size: 44
23090100 CACAAAGCCT
* *
23090110 TATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
23090154 TATCTCCCTGACCAGCAGTGAAATAGGTTGAAGACTGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
23090198 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
23090242 TATCTCCCTGACCAGCAGTGGAATAGGTTAAAGATTGCAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
23090286 TTTCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
23090330 TATCTCCCCGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
23090374 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
23090418 TATCTCCCCGACCAGCAGTGGAATAGGTGGAGGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
23090462 TATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGTATA-TCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTA-AGTCC
*
23090506 TGTCTCCCT
1 TATCTCCCT
23090515 AAGCAGTAGT
Statistics
Matches: 331, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 330 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:23091993 original size:19 final size:20
Alignment explanation
Indices: 23091971--23092009 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23091961 TAATTTGGTC
23091971 ATTTC-CTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
*
23091990 ATTTCTGTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
23092010 TTAGCCCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTCTCTTTTAATCCCAAA
Found at i:23092203 original size:20 final size:18
Alignment explanation
Indices: 23092157--23092212 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 18
23092147 TATTTCAAAT
23092157 TCTTTATATATATATATATA
1 TCTTTAT-TATATAT-TATA
23092177 T-TATTATGTATATATTATCA
1 TCT-TTAT-TATATATTAT-A
23092197 TCTTTATTAT-TATTAT
1 TCTTTATTATATATTAT
23092213 TATTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 18 0.56
21 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
TCTTTATTATATATTATA
Found at i:23100223 original size:19 final size:21
Alignment explanation
Indices: 23100194--23100235 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
23100184 AATAGTTTGA
23100194 TTTGTTAAAAAAC-TTTTAAC
1 TTTGTTAAAAAACATTTTAAC
*
23100214 TTTGTT-AAAATCATTTTAAC
1 TTTGTTAAAAAACATTTTAAC
23100234 TT
1 TT
23100236 GATTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTGTTAAAAAACATTTTAAC
Found at i:23110071 original size:26 final size:26
Alignment explanation
Indices: 23110041--23110102 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
23110031 CTACCTAAGT
23110041 AGTTTCAGAATACCATAAG-ATATATC
1 AGTTTCAGAATACCAT-AGCATATATC
* * * *
23110067 AGTTTCAGATTATCATAGCATGTATT
1 AGTTTCAGAATACCATAGCATATATC
23110093 AGTTTCAGAA
1 AGTTTCAGAA
23110103 CACTTACAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATACCATAGCATATATC
Found at i:23125788 original size:14 final size:14
Alignment explanation
Indices: 23125771--23125798 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23125761 AAGATTTAAA
23125771 TATCTAAACTATAT
1 TATCTAAACTATAT
23125785 TATCTAAACTATAT
1 TATCTAAACTATAT
23125799 AAATAAATAT
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:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TATCTAAACTATAT
Found at i:23127839 original size:17 final size:18
Alignment explanation
Indices: 23127805--23127839 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23127795 TTATTATTAA
*
23127805 ATATACTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
23127823 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
23127840 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:23127976 original size:156 final size:157
Alignment explanation
Indices: 23127692--23128007 Score: 555
Period size: 156 Copynumber: 2.0 Consensus size: 157
23127682 TAGAATACCC
*
23127692 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
23127757 TTATCAGTAATAAATATTTTAGTCATATTTAAACATAATTATTATTAAATATACTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATACTTTAATTAAAA
23127822 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
23127848 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
23127913 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA-TTATAATTAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATACTT-TAATTAAA
23127977 ATATATAATTTAATAAAATTCTTAATAA
130 ATATATAATTTAATAAAATTCTTAATAA
23128005 TTA
1 TTA
23128008 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
155 2 0.01
156 143 0.94
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATACTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:23127978 original size:16 final size:16
Alignment explanation
Indices: 23127941--23127982 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23127931 TTAATCATAT
*
23127941 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23127957 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23127972 TTAAAATATAT
1 TTAAAATATAT
23127983 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23127989 original size:14 final size:15
Alignment explanation
Indices: 23127950--23127991 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23127940 TTTAAACATA
*
23127950 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23127965 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23127979 A-TATAATTTAATA
1 ATTATAATTAAATA
23127992 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23128078 original size:120 final size:121
Alignment explanation
Indices: 23127939--23128229 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
23127929 ATTTAATCAT
*
23127939 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
23128004 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
23128061 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
23128124 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
23128180 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
23128230 AATAATTTAA
Statistics
Matches: 162, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
119 7 0.04
120 150 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:23128109 original size:14 final size:15
Alignment explanation
Indices: 23128060--23128111 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23128050 GTAAAATATA
23128060 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23128075 TATTAAATATATTAT
1 AATTAAATATATTAT
23128090 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23128103 AATTTAATA
1 AATTAAATA
23128112 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23131663 original size:33 final size:33
Alignment explanation
Indices: 23131624--23131733 Score: 168
Period size: 33 Copynumber: 3.3 Consensus size: 33
23131614 ATTATAAAGC
23131624 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
*
23131657 ATGTATAATTGACCTAAAATTAATTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
23131690 AT-TTTTATTTACCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGA-CCTAAAATTAATTGTTGGTGT
23131723 ATGTATAATTG
1 ATGTATAATTG
23131734 TTGGTGTATG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
32 6 0.09
33 56 0.84
34 5 0.07
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:23131733 original size:18 final size:18
Alignment explanation
Indices: 23131710--23131751 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
23131700 ACCCTAAAAT
23131710 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
23131728 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
23131746 TAATTG
1 TAATTG
23131752 ACCTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TAATTGTTGGTGTATGTA
Found at i:23131881 original size:37 final size:37
Alignment explanation
Indices: 23131826--23131912 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
23131816 GTATAAATAT
* * *
23131826 ATTGATTAGTTCATTAAAGCATGTTCAAAGTCCT-CAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGT-CTGAAC
*
23131863 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTCTGAAC
23131900 ATTGATTAGTTTA
1 ATTGATTAGTTTA
23131913 TTTATTTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.02
37 44 0.98
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (37 bp):
ATTGATTAGTTTAATAAAGCATGTTCAAAGTCTGAAC
Found at i:23141596 original size:42 final size:44
Alignment explanation
Indices: 23141480--23141648 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 44
23141470 AGGACTCCGA
* **
23141480 TATG-TGATTTCGTATAAGACCATGTCTGGGATGTTGGCATCGC
1 TATGATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGC
* *
23141523 TTTGA-GATTTACGAGTAAGACCATGTCTGGGACATTGGCATCG-
1 TATGATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGC
* * * *
23141566 TAT-ATGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TATGATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGC
* * * * * *
23141609 TA-GTTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TATGATGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
23141649 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
42 29 0.28
43 45 0.44
44 28 0.27
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TATGATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGC
Found at i:23149226 original size:21 final size:19
Alignment explanation
Indices: 23149197--23149241 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
23149187 TAAGTTGTTA
*
23149197 GATTATTATGTTTAATTAAG
1 GATTATTATGTGT-ATTAAG
*
23149217 TGATTTTTATGTGTATTAAG
1 -GATTATTATGTGTATTAAG
23149237 GATTA
1 GATTA
23149242 AATTGTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 6 0.29
21 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
GATTATTATGTGTATTAAG
Found at i:23149560 original size:457 final size:460
Alignment explanation
Indices: 23148692--23149605 Score: 1627
Period size: 457 Copynumber: 2.0 Consensus size: 460
23148682 AGAAATTGTT
23148692 GTTTTTATTGTTTGATGATGGAAAATAAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGAT
1 GTTTTTATTGTTTGATGATGGAAAATAAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGAT
23148757 TTTTAGTAAAAATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAA
66 TTTTA-T---AATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAA
* *
23148822 AAGAAATGAAATAAATTGGCTGCTATGAACCTTAGTAAAATTTGGCTATATTTGAGTTTGGTGAA
127 AAGAAATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAA
* *
23148887 ATTTTGAATATTTTCTATTTTGTGAAATAATGACTAAATTGTGAAAAATGTAAAATGTTAGGGGA
192 ATTTTGAATATTTTCTATTTTGTGAAATAAGGACTAAATTGTGAAAAACGTAAAATGTTAGGGGA
*
23148952 TAAAGTGCTAATTTCCCTTTTACGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGT
257 TAAAGTGCTAATTGCCCTTTTACGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGT
23149017 TAAATTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATCGGGGGAAATCAAAAGT
322 TAAATTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATCGGGGGAAATCAAAAGT
* * *
23149082 TGTTGATTAGTCGTTCCGGTTCGTTCGTCTCTGCACGAGGTAAGTTCATAAGTGAATAAATGATG
387 TGTCGATTAGTCGTTCCGGTTCATTCGTCTCCGCACGAGGTAAGTTCATAAGTGAATAAATGATG
23149147 TTTAATTAA
452 TTTAATTAA
*
23149156 GTTTTTGTTGTTTGATGATGGAAAATAAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGA-
1 GTTTTTATTGTTTGATGATGGAAAATAAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGAT
*
23149220 TTTT-T-ATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAATA
66 TTTTATAATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAAGA
*
23149283 AATGAAATAAATGGGCTGTTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTT
131 AATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTT
* *
23149348 TGAATATTTTTTGTTTTGTGAAATAAGGACTAAATTGTGAAAAACGTAAAATGTTAGGGGATAAA
196 TGAATATTTTCTATTTTGTGAAATAAGGACTAAATTGTGAAAAACGTAAAATGTTAGGGGATAAA
*
23149413 GTGCTAATTGCCCTTTTATGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAA
261 GTGCTAATTGCCCTTTTACGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAA
23149478 TTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATCGGGGGAAATCAAAAGTTGTC
326 TTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATCGGGGGAAATCAAAAGTTGTC
* *
23149543 GATTAGTCGTTCCGGTTCATTCGTCTCCGCATGAGGTAAGTTCCTAAGTGAATAAATGATGTT
391 GATTAGTCGTTCCGGTTCATTCGTCTCCGCACGAGGTAAGTTCATAAGTGAATAAATGATGTT
23149606 AAACTGAATA
Statistics
Matches: 434, Mismatches: 16, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
457 366 0.84
461 1 0.00
463 4 0.01
464 63 0.15
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (460 bp):
GTTTTTATTGTTTGATGATGGAAAATAAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGAT
TTTTATAATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAAGA
AATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTT
TGAATATTTTCTATTTTGTGAAATAAGGACTAAATTGTGAAAAACGTAAAATGTTAGGGGATAAA
GTGCTAATTGCCCTTTTACGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAA
TTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATCGGGGGAAATCAAAAGTTGTC
GATTAGTCGTTCCGGTTCATTCGTCTCCGCACGAGGTAAGTTCATAAGTGAATAAATGATGTTTA
ATTAA
Found at i:23156563 original size:7 final size:6
Alignment explanation
Indices: 23156527--23156562 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
23156517 AAGTTTCTCA
*
23156527 AAATGG AAATCG AAATGG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
23156563 ATACATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.53, C:0.03, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:23163606 original size:52 final size:53
Alignment explanation
Indices: 23163542--23163679 Score: 188
Period size: 52 Copynumber: 2.6 Consensus size: 53
23163532 CGGAGTTTGG
* * * *
23163542 CACAAAGTCTTTCCTTCATATTACGCCACAAAGGC-TTTCTTTCATTTTATGT
1 CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGC
*
23163594 CACAAAGGCTTTCTTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGC
1 CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGC
* * *
23163647 CATAAAGGCATTCCTTTCATTTTATGCCACAAA
1 CACAAAGGCTTTCC-TTCATTTTACGCCACAAA
23163680 AGCATTCATT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
52 32 0.43
53 26 0.35
54 17 0.23
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (53 bp):
CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGC
Found at i:23163686 original size:27 final size:26
Alignment explanation
Indices: 23163542--23163679 Score: 170
Period size: 26 Copynumber: 5.2 Consensus size: 26
23163532 CGGAGTTTGG
* * *
23163542 CACAAAGTCTTTCC-TTCATATTACGC
1 CACAAAGGC-TTCCTTTCATTTTATGC
* *
23163568 CACAAAGGCTTTCTTTCATTTTATGT
1 CACAAAGGCTTCCTTTCATTTTATGC
* *
23163594 CACAAAGGCTTTCTTTCATTTTACGC
1 CACAAAGGCTTCCTTTCATTTTATGC
23163620 CACAAAGGCGTTCCTTTCATTTTATGC
1 CACAAAGGC-TTCCTTTCATTTTATGC
*
23163647 CATAAAGGCATTCCTTTCATTTTATGC
1 CACAAAGGC-TTCCTTTCATTTTATGC
23163674 CACAAA
1 CACAAA
23163680 AGCATTCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
25 3 0.03
26 50 0.51
27 45 0.46
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (26 bp):
CACAAAGGCTTCCTTTCATTTTATGC
Found at i:23178148 original size:18 final size:19
Alignment explanation
Indices: 23178117--23178153 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
23178107 AAATCAAAAT
23178117 ATTAATTAAACT-AATTAA
1 ATTAATTAAACTAAATTAA
23178135 ATTAA-TAAACCTAAATTAA
1 ATTAATTAAA-CTAAATTAA
23178154 CCTAATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAATTAAACTAAATTAA
Found at i:23178994 original size:20 final size:20
Alignment explanation
Indices: 23178969--23179042 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
23178959 ACATCCAAGA
23178969 TATGGCTCAACATAGGTTGC
1 TATGGCTCAACATAGGTTGC
* *
23178989 TATGGCTCAACACAGGGGTTTC
1 TATGGCTCAACATA--GGTTGC
* *
23179011 TATTGCTCAACATAGGTTGT
1 TATGGCTCAACATAGGTTGC
23179031 TATGGCTCAACA
1 TATGGCTCAACA
23179043 CAAGGTGCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 28 0.62
22 17 0.38
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (20 bp):
TATGGCTCAACATAGGTTGC
Found at i:23179806 original size:49 final size:50
Alignment explanation
Indices: 23179749--23179848 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
23179739 TTATAGAGAC
* *
23179749 CATATGGAAAACATT-AAACATATTATAGTCTTTCCAAAAAGAATTCTAA
1 CATATGGAAAACATTAAAAAATATTATAGTCTTTCCAAAAAGAATTATAA
** * *
23179798 CATATGGAAAGTATTAAAAAATGTTATATTCTTTCCAAAAAGAATTATAA
1 CATATGGAAAACATTAAAAAATATTATAGTCTTTCCAAAAAGAATTATAA
23179848 C
1 C
23179849 TACCATGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 13 0.30
50 31 0.70
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (50 bp):
CATATGGAAAACATTAAAAAATATTATAGTCTTTCCAAAAAGAATTATAA
Found at i:23183514 original size:19 final size:19
Alignment explanation
Indices: 23183473--23183520 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
23183463 ATCTAGTCAT
*
23183473 TTTTTATTTTAATATTTTTA
1 TTTTTA-TTTAATATTTTCA
23183493 TTTTTATTTAAT-TTTTACA
1 TTTTTATTTAATATTTT-CA
*
23183512 TTTTAATTT
1 TTTTTATTT
23183521 TTCGTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTAATATTTTCA
Found at i:23185561 original size:14 final size:14
Alignment explanation
Indices: 23185544--23185570 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23185534 TGTACTTTTA
23185544 TTTTTGTTTTGTTT
1 TTTTTGTTTTGTTT
23185558 TTTTTGTTTTGTT
1 TTTTTGTTTTGTT
23185571 AGTTATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTGTTT
Found at i:23188441 original size:18 final size:19
Alignment explanation
Indices: 23188420--23188455 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23188410 ACTCGTTTAG
*
23188420 TTTTCTTTTTCCA-TTTTT
1 TTTTCGTTTTCCACTTTTT
23188438 TTTTCGTTTTCCACTTTT
1 TTTTCGTTTTCCACTTTT
23188456 AAACAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTCGTTTTCCACTTTTT
Found at i:23193038 original size:51 final size:50
Alignment explanation
Indices: 23192869--23193055 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 50
23192859 AGTGAAAGTG
* * *
23192869 ATGGTCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGT
** * * * * * *
23192920 A-GGTTGCATGTGTAGTACTATGTGCAAGCTACTATGCGTACTGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGT
* * ** * *
23192969 TTCGATCATGTGTATAGTACTATGTGCAGGCTACTACATGTATC-GAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGT
23193020 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
23193056 TGTGAACCGA
Statistics
Matches: 103, Mismatches: 29, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
49 5 0.05
50 32 0.31
51 64 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGT
Found at i:23193117 original size:45 final size:45
Alignment explanation
Indices: 23193061--23193155 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
23193051 TACTATGTGA
* * *
23193061 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCC
*
23193106 ACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCC
23193151 ACCGA
1 ACCGA
23193156 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCC
Found at i:23200586 original size:50 final size:50
Alignment explanation
Indices: 23200526--23200621 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
23200516 AGGTGCTAAT
*
23200526 ATTTTATTATATGTGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
1 ATTTTATTATATGTGGTATGACATGTATGCTTTATAAATGGAGTTTGCAA
* **
23200576 ATTTTGTTATATGTGGTATGAGGTGTATGCTTTATAAATGGAGTTT
1 ATTTTATTATATGTGGTATGACATGTATGCTTTATAAATGGAGTTT
23200622 TAGCTTTGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (50 bp):
ATTTTATTATATGTGGTATGACATGTATGCTTTATAAATGGAGTTTGCAA
Found at i:23209824 original size:32 final size:32
Alignment explanation
Indices: 23209788--23209848 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
23209778 CTCGAAATTT
*
23209788 CGGACACAGGGACACTGTCCACATGTTGGACA
1 CGGACACAGGGACACTGTCCAAATGTTGGACA
** *
23209820 CGGACACTTGGACACTTTCCAAATGTTGG
1 CGGACACAGGGACACTGTCCAAATGTTGG
23209849 GTACGGCAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (32 bp):
CGGACACAGGGACACTGTCCAAATGTTGGACA
Found at i:23211434 original size:105 final size:105
Alignment explanation
Indices: 23211299--23211511 Score: 390
Period size: 105 Copynumber: 2.0 Consensus size: 105
23211289 AAAACCCTAC
* *
23211299 ACATCACAGTAATGACAACTGACAACACAAAACTAAAGAACCGATAACTGCTAGCAGTGAAGTGT
1 ACATCACAGTAATGACAACTGACAAAACAAAACTAAAGAACCGATAACTGCTAGCAGTAAAGTGT
*
23211364 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCATAGGCAT
66 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
*
23211404 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCGATAACTGCTAGCAGTAAAGTGT
1 ACATCACAGTAATGACAACTGACAAAACAAAACTAAAGAACCGATAACTGCTAGCAGTAAAGTGT
23211469 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
66 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
23211509 ACA
1 ACA
23211512 CCAATGCATG
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (105 bp):
ACATCACAGTAATGACAACTGACAAAACAAAACTAAAGAACCGATAACTGCTAGCAGTAAAGTGT
ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
Found at i:23224591 original size:11 final size:12
Alignment explanation
Indices: 23224575--23224603 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
23224565 TTCATCCTAC
23224575 ATAAAATAAAA-
1 ATAAAATAAAAT
23224586 ATAAAATAAAAT
1 ATAAAATAAAAT
23224598 ATAAAA
1 ATAAAA
23224604 AAACACGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:23227063 original size:46 final size:46
Alignment explanation
Indices: 23226995--23227084 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
23226985 TTTATTGCAA
* * *
23226995 TAAGAGTTTTAGTTTTATTTATTTTCTTTATTATGTCAGGTTTTAT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
*
23227041 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
23227085 TATTTCCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (46 bp):
TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
Found at i:23235049 original size:24 final size:24
Alignment explanation
Indices: 23235020--23235108 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
23235010 CTTATGAGCG
23235020 TCCCAA-TATATGGCTCTTCGAAGC
1 TCCCAATTA-ATGGCTCTTCGAAGC
* * *
23235044 TCCCAATTAAAGGCTCTTTGTGAGC
1 TCCCAATTAATGGCTCTTCG-AAGC
* *
23235069 TACCTAATTAATGGCTCTCCGAAGC
1 T-CCCAATTAATGGCTCTTCGAAGC
23235094 TTCCCAA-T-ATGGCTC
1 -TCCCAATTAATGGCTC
23235109 GCTTGAACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 7 0.13
24 16 0.31
25 13 0.25
26 16 0.31
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (24 bp):
TCCCAATTAATGGCTCTTCGAAGC
Found at i:23235144 original size:25 final size:24
Alignment explanation
Indices: 23235091--23235144 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
23235081 GGCTCTCCGA
* *
23235091 AGCTT-CCCAATATGGCTCGCTTG
1 AGCTTCCCCAATATGGCTAGCTAG
* *
23235114 AACTTCCCCATATATGGCTATCTAG
1 AGCTTCCCCA-ATATGGCTAGCTAG
23235139 AGCTTC
1 AGCTTC
23235145 TTGATTAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 16 0.67
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (24 bp):
AGCTTCCCCAATATGGCTAGCTAG
Found at i:23235266 original size:25 final size:25
Alignment explanation
Indices: 23235210--23235284 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
23235200 TATGGTTATT
** *
23235210 ATGAGCTTCCCGTTATACAGCCCGA
1 ATGAGCTTCCCGTTATATGGCTCGA
*
23235235 ATAAGCTTCCCGTTATATGGCTC-A
1 ATGAGCTTCCCGTTATATGGCTCGA
*
23235259 CATGAGCTTCCTGTTATATGGCTCGA
1 -ATGAGCTTCCCGTTATATGGCTCGA
23235285 GAAAGAGCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCGA
Found at i:23235300 original size:27 final size:25
Alignment explanation
Indices: 23235238--23235310 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
23235228 AGCCCGAATA
* * *
23235238 AGCTTCCCGTTATATGGCTCACATG
1 AGCTTCCTGTTATATGGCTCAAAAG
23235263 AGCTTCCTGTTATATGGCTCGAGAAAG
1 AGCTTCCTGTTATATGGCTC-A-AAAG
23235290 AGCTTCCTGTTTATAT-GCTCA
1 AGCTTCCTG-TTATATGGCTCA
23235311 TATGAGTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 19 0.45
26 2 0.05
27 15 0.36
28 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCTTCCTGTTATATGGCTCAAAAG
Found at i:23237300 original size:43 final size:43
Alignment explanation
Indices: 23237232--23237361 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
23237222 AAAACTTGTA
* *
23237232 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAAACGTGGTCTTACATGTAAACACATAT
23237275 CAATGCC-ACTGTCCCAAACAG-GGTCTTACATGTAAACACA-AGT
1 CAATGCCAAC-GTCCCAAAC-GTGGTCTTACATGTAAACACATA-T
* ** * ***
23237318 CGATGCTGACGTCCCAGACGTGGTCTTACACAAAAACACATAT
1 CAATGCCAACGTCCCAAACGTGGTCTTACATGTAAACACATAT
23237361 C
1 C
23237362 GAAGGTCCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.05
43 65 0.89
44 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAAACGTGGTCTTACATGTAAACACATAT
Found at i:23240536 original size:41 final size:41
Alignment explanation
Indices: 23240447--23240802 Score: 283
Period size: 41 Copynumber: 8.7 Consensus size: 41
23240437 TAGGCTTTTT
* * *
23240447 GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCTCT-ACCTTTA
1 GCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTCTGGCCTTTA
* *
23240487 GTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCGGCCTTTA
1 GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
* * *
23240528 GCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGCCTTTA
1 GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
* **
23240569 GCGGCGCTTTTGAGTAAGCGCCGCTAATGCTCTGGCCTTTA
1 GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
** ** * * *
23240610 GCGGC-ACTTTGTACTAAGCGCCGCTAAAGGC-CAGAG-CATTA
1 GCGGCGTTTTTG-AAAAAGCGCCGCT-AATGCTCTG-GCCTTTA
* ** * * * **
23240651 GCGGCGCTTCTT-AAAAAATGACACTAATGCTGTATCCTTTA
1 GCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
* * * *
23240692 GCGACGTTTTTGAAGAAGCGCCGGTAATGCTCTGACCTTTA
1 GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
* * * ** **
23240733 GCGGCATTTTTTGAATAAGCGCCGCTAATGTTAAGATCTTTA
1 GCGGC-GTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
23240775 GCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GCGGCGTTTTTGAAAAAGCGCCGCTAAT
23240803 ATTTTTTTAT
Statistics
Matches: 248, Mismatches: 57, Indels: 21
0.76 0.17 0.06
Matches are distributed among these distances:
39 4 0.02
40 36 0.15
41 167 0.67
42 39 0.16
43 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTA
Found at i:23240654 original size:123 final size:124
Alignment explanation
Indices: 23240465--23240802 Score: 328
Period size: 123 Copynumber: 2.8 Consensus size: 124
23240455 TTTCAGAAAA
* * * * * ** *
23240465 CGCCGCTAATGCTCT-ACCTTTAGTGGC-GTTTTTGAAAAAGCGCCGCT-AATGCTCCG-GCCTT
1 CGCCGCTAATGCTCTGACCTTTAGCGGCACTTTGTGAATAAGCGCCGCTAAAGGC-AAGAG-CAT
* *
23240526 TAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGCTTTTG-AGTAAG
64 TAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGACGCTTTTGAAG-AAG
* * *
23240587 CGCCGCTAATGCTCTGGCCTTTAGCGGCACTTTGT-ACTAAGCGCCGCTAAAGGCCAGAGCATTA
1 CGCCGCTAATGCTCTGACCTTTAGCGGCACTTTGTGAATAAGCGCCGCTAAAGGCAAGAGCATTA
* * ** * * * * *
23240651 GCGGCGCTTCTTAAAAAATGACACTAATGCTGTATCCTTTAGCGACGTTTTTGAAGAAG
66 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGACGCTTTTGAAGAAG
* * * * ** * *
23240710 CGCCGGTAATGCTCTGACCTTTAGCGGCATTTTTTGAATAAGCGCCGCTAATGTTAAGATCTTTA
1 CGCCGCTAATGCTCTGACCTTTAGCGGCACTTTGTGAATAAGCGCCGCTAAAGGCAAGAGCATTA
*
23240775 GCGGCGTTTTTGAAAAAGCGCCGCTAAT
66 GCGGCGTTTTTTAAAAAGCGCCGCTAAT
23240803 ATTTTTTTAT
Statistics
Matches: 172, Mismatches: 38, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
122 15 0.09
123 103 0.60
124 54 0.31
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (124 bp):
CGCCGCTAATGCTCTGACCTTTAGCGGCACTTTGTGAATAAGCGCCGCTAAAGGCAAGAGCATTA
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGACGCTTTTGAAGAAG
Found at i:23241110 original size:15 final size:16
Alignment explanation
Indices: 23241090--23241123 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
23241080 CAAATATGGT
23241090 GTTTATGGATTT-AGG
1 GTTTATGGATTTAAGG
23241105 GTTTATGGATTTAAGG
1 GTTTATGGATTTAAGG
23241121 GTT
1 GTT
23241124 AGAGGTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (16 bp):
GTTTATGGATTTAAGG
Found at i:23241982 original size:19 final size:18
Alignment explanation
Indices: 23241958--23241996 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
23241948 AATTATAAGA
23241958 AAAAATAAAATACAAAAAT
1 AAAAATAAAATA-AAAAAT
*
23241977 AAAAATGAAATAAAAAAT
1 AAAAATAAAATAAAAAAT
23241995 AA
1 AA
23241997 TTCTTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATAAAATAAAAAAT
Found at i:23242018 original size:83 final size:83
Alignment explanation
Indices: 23241922--23242075 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 83
23241912 GGATAGATAG
23241922 GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
1 GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
23241987 TAAAAAATAATTCTTTAT
66 TAAAAAATAATTCTTTAT
* *
23242005 GTAATT-TTATAATTTGGATAGGACCAAATTATAAGAAAAAATGAAATACAAAAATAAAATTGAA
1 GTAATTATT-TAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAA
23242069 ATAAAAA
65 ATAAAAA
23242076 TTTTTCTAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
82 2 0.03
83 66 0.97
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (83 bp):
GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
TAAAAAATAATTCTTTAT
Found at i:23242444 original size:22 final size:23
Alignment explanation
Indices: 23242405--23242447 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
23242395 CAAATGTGGA
23242405 AGAAAATAAAAGATAATTAAAGT
1 AGAAAATAAAAGATAATTAAAGT
23242428 AGAAAA-AAAATGA-AATTAAA
1 AGAAAATAAAA-GATAATTAAA
23242448 ACACTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (23 bp):
AGAAAATAAAAGATAATTAAAGT
Found at i:23243052 original size:14 final size:14
Alignment explanation
Indices: 23243033--23243070 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
23243023 TTATTTCCCA
23243033 ATCCACCTCCACCG
1 ATCCACCTCCACCG
23243047 ATCCACCTCCACCG
1 ATCCACCTCCACCG
23243061 ATCCACCTCC
1 ATCCACCTCC
23243071 GGTCCTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.58, G:0.05, T:0.16
Consensus pattern (14 bp):
ATCCACCTCCACCG
Found at i:23246164 original size:12 final size:12
Alignment explanation
Indices: 23246149--23246182 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23246139 TAACCTACAT
23246149 AACTTACATAGA
1 AACTTACATAGA
*
23246161 AACTTATATAGA
1 AACTTACATAGA
*
23246173 AACTTGCATA
1 AACTTACATA
23246183 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:23246241 original size:16 final size:16
Alignment explanation
Indices: 23246222--23246334 Score: 58
Period size: 16 Copynumber: 7.2 Consensus size: 16
23246212 ATACATAGCG
23246222 TACATAACTTACATAA
1 TACATAACTTACATAA
**
23246238 TACACCACTTACAT-A
1 TACATAACTTACATAA
*
23246253 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
** *
23246267 TACACCACTAACAT-A
1 TACATAACTTACATAA
*
23246282 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
* * *
23246296 TACATAGCCTACCGTAA
1 TACATAACTTA-CATAA
*
23246313 CTTACTTAACTTACATAA
1 --TACATAACTTACATAA
23246331 TACA
1 TACA
23246335 CCACTTACGT
Statistics
Matches: 66, Mismatches: 22, Indels: 18
0.62 0.21 0.17
Matches are distributed among these distances:
13 15 0.23
14 4 0.06
15 4 0.06
16 27 0.41
17 4 0.06
18 4 0.06
19 8 0.12
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:23246267 original size:29 final size:29
Alignment explanation
Indices: 23246225--23246299 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
23246215 CATAGCGTAC
* *
23246225 ATAACTTACATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTAACATAA
23246254 ATAACTTGCATAATACACCACTAACATAA
1 ATAACTTGCATAATACACCACTAACATAA
23246283 ATAACTTGCATAATACA
1 ATAACTTGCATAATACA
23246300 TAGCCTACCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAACTTGCATAATACACCACTAACATAA
Found at i:23246503 original size:12 final size:12
Alignment explanation
Indices: 23246486--23246530 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
23246476 TACATAACCA
*
23246486 ACATAATGACTT
1 ACATAATAACTT
*
23246498 ACATAATAACCT
1 ACATAATAACTT
*
23246510 AAATAATAACTT
1 ACATAATAACTT
23246522 ACATAATAA
1 ACATAATAA
23246531 TACATAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:23246515 original size:24 final size:24
Alignment explanation
Indices: 23246479--23246530 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23246469 CACAACTTAC
*
23246479 ATAACCAACATAATGACTTACATA
1 ATAACCAACATAATAACTTACATA
23246503 ATAACCTAA-ATAATAACTTACATA
1 ATAACC-AACATAATAACTTACATA
23246527 ATAA
1 ATAA
23246531 TACATAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAACCAACATAATAACTTACATA
Found at i:23246593 original size:9 final size:9
Alignment explanation
Indices: 23246579--23246698 Score: 112
Period size: 9 Copynumber: 14.2 Consensus size: 9
23246569 CAAAAACAAA
23246579 AACTTACAT
1 AACTTACAT
23246588 AACTTACAT
1 AACTTACAT
*
23246597 AA--GACAT
1 AACTTACAT
*
23246604 AAATTACAT
1 AACTTACAT
* * *
23246613 AGCCTACTT
1 AACTTACAT
23246622 AA--TACAT
1 AACTTACAT
23246629 AACTTACAT
1 AACTTACAT
*
23246638 AATTTACAT
1 AACTTACAT
23246647 AA--TACAT
1 AACTTACAT
23246654 AACTTACAT
1 AACTTACAT
* *
23246663 AATTTACTT
1 AACTTACAT
23246672 AA--TACAT
1 AACTTACAT
23246679 AACTTACAT
1 AACTTACAT
23246688 AACTTACAT
1 AACTTACAT
23246697 AA
1 AA
23246699 ATATCCCTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
7 25 0.27
9 66 0.73
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:23246610 original size:25 final size:25
Alignment explanation
Indices: 23246579--23246698 Score: 168
Period size: 25 Copynumber: 4.8 Consensus size: 25
23246569 CAAAAACAAA
*
23246579 AACTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * * *
23246604 AAATTACATAGCCTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
*
23246629 AACTTACATAATTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
23246654 AACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
23246679 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
23246699 ATATCCCTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:23246633 original size:50 final size:50
Alignment explanation
Indices: 23246579--23246698 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 50
23246569 CAAAAACAAA
*
23246579 AACTTACATAACTTACATAAGACATAAATTACATAGCCTACTTAATACAT
1 AACTTACATAACTTACATAAGACATAAATTACATAACCTACTTAATACAT
* * * **
23246629 AACTTACATAATTTACATAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAAGACATAAATTACATAACCTACTTAATACAT
23246679 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
23246699 ATATCCCTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (50 bp):
AACTTACATAACTTACATAAGACATAAATTACATAACCTACTTAATACAT
Found at i:23246640 original size:16 final size:17
Alignment explanation
Indices: 23246579--23246698 Score: 99
Period size: 16 Copynumber: 7.1 Consensus size: 17
23246569 CAAAAACAAA
23246579 AACTTACATAACTTACAT
1 AACTTACATAA-TTACAT
*
23246597 AA--GACATAAATTACAT
1 AACTTACAT-AATTACAT
* * *
23246613 AGCCTACTTAA-TACAT
1 AACTTACATAATTACAT
23246629 AACTTACATAATTTACAT
1 AACTTACATAA-TTACAT
23246647 AA--TACATAACTTACAT
1 AACTTACATAA-TTACAT
* *
23246663 AATTTACTTAA-TACAT
1 AACTTACATAATTACAT
23246679 AACTTACATAACTTACAT
1 AACTTACATAA-TTACAT
23246697 AA
1 AA
23246699 ATATCCCTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
16 53 0.65
17 4 0.05
18 25 0.30
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (17 bp):
AACTTACATAATTACAT
Found at i:23252302 original size:66 final size:66
Alignment explanation
Indices: 23252195--23252323 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 66
23252185 GACCACAGTT
* * * * *
23252195 GAGGTTCAAAGGAAATATGAAGAACTCTAGCTACAATTTAAAGCAGAGGCGGCAGCGAGAGAAAC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAAAC
23252260 A
66 A
* * *
23252261 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCTGATGCGGCATCCAGAGAA
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAA
23252324 GCAAAGGCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.16
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAAAC
A
Found at i:23252804 original size:42 final size:43
Alignment explanation
Indices: 23252679--23252810 Score: 185
Period size: 43 Copynumber: 3.1 Consensus size: 43
23252669 AACAAATAGT
* *
23252679 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAGCTTTAGT
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGC
* * *
23252722 GGCATTTGTGTAAAAATCACCGCTAAAGAACATGAACTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGC
* **
23252765 GGCGTTTGTAT-AAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGC
23252807 GGCG
1 GGCG
23252811 CTTTTATTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 31 0.40
43 47 0.60
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGC
Found at i:23252930 original size:21 final size:22
Alignment explanation
Indices: 23252901--23252943 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
23252891 TACTTTTTGT
*
23252901 GGCTCTAAAAAGCGCCGCTAAA
1 GGCTCTAAAAAACGCCGCTAAA
23252923 GGCT-TAAAAAACGCCGCTAAA
1 GGCTCTAAAAAACGCCGCTAAA
23252944 AACCTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.14
Consensus pattern (22 bp):
GGCTCTAAAAAACGCCGCTAAA
Done.