Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
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: 5666189
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 144833 characters in sequence are not A, C, G, or T
File 3 of 14
Found at i:860664 original size:29 final size:29
Alignment explanation
Indices: 860631--860691 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
860621 TCTAATGAGT
860631 GAGATCTTTATGTTTTTGTTTAGATAAGA
1 GAGATCTTTATGTTTTTGTTTAGATAAGA
860660 GAGATCTTTATGTTTTTGTTTAGATAAGA
1 GAGATCTTTATGTTTTTGTTTAGATAAGA
860689 GAG
1 GAG
860692 GGAACCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (29 bp):
GAGATCTTTATGTTTTTGTTTAGATAAGA
Found at i:860875 original size:35 final size:35
Alignment explanation
Indices: 860790--860877 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
860780 CATTTATTGT
* * *
860790 ATTCATATATCATTACTGCATATATGAATTAGTAG
1 ATTCATATATCATTATTGCATATATGAATCAATAG
*
860825 ATTCATATATCATTATTGTAT-TCATGAATCAATAG
1 ATTCATATATCATTATTGCATAT-ATGAATCAATAG
*
860860 ATTCATGTATCATTATTG
1 ATTCATATATCATTATTG
860878 ATTACATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (35 bp):
ATTCATATATCATTATTGCATATATGAATCAATAG
Found at i:863812 original size:1 final size:1
Alignment explanation
Indices: 863806--863846 Score: 73
Period size: 1 Copynumber: 41.0 Consensus size: 1
863796 GCTACGGCTC
*
863806 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
863847 GTTTCTCTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:863851 original size:10 final size:9
Alignment explanation
Indices: 863804--863852 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
863794 CTGCTACGGC
863804 TCTTTTTTT
1 TCTTTTTTT
*
863813 TTTTTTTTT
1 TCTTTTTTT
*
863822 TTTTTTTTT
1 TCTTTTTTT
*
863831 TTTTTTTTT
1 TCTTTTTTT
863840 TCTTTTTGTT
1 TCTTTTT-TT
863850 TCT
1 TCT
863853 CTGCTATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
9 32 0.86
10 5 0.14
ACGTcount: A:0.00, C:0.06, G:0.02, T:0.92
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:869192 original size:25 final size:25
Alignment explanation
Indices: 869146--869194 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
869136 GCTAAATAGG
* *
869146 ATTTTTAAAAAATTCTTAAAAAATT
1 ATTTTTAAAAAAATATTAAAAAATT
869171 ATTTTTAAAAATAATATTAAAAAA
1 ATTTTTAAAAA-AATATTAAAAAA
869195 AACCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTTTTAAAAAAATATTAAAAAATT
Found at i:883793 original size:60 final size:60
Alignment explanation
Indices: 883705--883835 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 60
883695 AAAACGTTTA
* *
883705 AGCA-TTTTAAGCATTTTGGAGCAGTTTT-TTATA-CACGAAGAAAACCTTT-AAGCGTTTTG
1 AGCATTTTTAAGCATTTTGAAGCAGTTTTGTTATATCACG-A-AAAACCTTTGAA-CATTTTG
* * *
883764 AGCATTTTTAAGCATTTTGAAGTGATTTTTGTTATATGACGAAAAACCTTTGAACATTTTG
1 AGCATTTTTAAGCATTTTGAAG-CAGTTTTGTTATATCACGAAAAACCTTTGAACATTTTG
883825 AGCATTCTTTA
1 AGCATT-TTTA
883836 TCAAGTAGGC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
59 4 0.07
60 16 0.26
61 26 0.43
62 12 0.20
63 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (60 bp):
AGCATTTTTAAGCATTTTGAAGCAGTTTTGTTATATCACGAAAAACCTTTGAACATTTTG
Found at i:884045 original size:43 final size:43
Alignment explanation
Indices: 883998--884083 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
883988 TACGTGACTG
*
883998 ACTTTGAATATTACGTGACTAGTTTTTAAGTATTATATGATTA
1 ACTTTGAATATGACGTGACTAGTTTTTAAGTATTATATGATTA
** * *
884041 ACTTTGGGTATGACGTGACTAGTTTTTAAGTATTGTGTGATTA
1 ACTTTGAATATGACGTGACTAGTTTTTAAGTATTATATGATTA
884084 GTTGATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (43 bp):
ACTTTGAATATGACGTGACTAGTTTTTAAGTATTATATGATTA
Found at i:884122 original size:22 final size:22
Alignment explanation
Indices: 884067--884125 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
884057 GACTAGTTTT
* *
884067 TAAGTATTGTGTGATTAGTTGA
1 TAAGCATTGCGTGATTAGTTGA
*
884089 TATGACATTGCGTGATTAGTTGA
1 TAAG-CATTGCGTGATTAGTTGA
884112 TAAGCATTGCGTGA
1 TAAGCATTGCGTGA
884126 CTTGTTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (22 bp):
TAAGCATTGCGTGATTAGTTGA
Found at i:884137 original size:22 final size:23
Alignment explanation
Indices: 884094--884174 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
884084 GTTGATATGA
884094 CATTGCGTGA-TTAGTT-GATAA-G
1 CATTGCGTGACTT-GTTAG-TAAGG
884116 CATTGCGTGACTTGTTAGTAAGG
1 CATTGCGTGACTTGTTAGTAAGG
* * *
884139 TATTGCTTGACTAGTTAGTAAGG
1 CATTGCGTGACTTGTTAGTAAGG
*
884162 CATTGTGTGACTT
1 CATTGCGTGACTT
884175 AGTCATTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
22 16 0.33
23 33 0.67
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.38
Consensus pattern (23 bp):
CATTGCGTGACTTGTTAGTAAGG
Found at i:884253 original size:21 final size:21
Alignment explanation
Indices: 884187--884254 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
884177 TCATTGTTTA
* *
884187 AAAATCAATTATGTAATGCCT
1 AAAATCAATCACGTAATGCCT
* ** * **
884208 AAAAACCGGTCACGCAATGTAT
1 -AAAATCAATCACGTAATGCCT
884230 AAAATCAATCACGTAATGCCT
1 AAAATCAATCACGTAATGCCT
884251 AAAA
1 AAAA
884255 ATTAATCTCG
Statistics
Matches: 32, Mismatches: 14, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.24
Consensus pattern (21 bp):
AAAATCAATCACGTAATGCCT
Found at i:885733 original size:20 final size:20
Alignment explanation
Indices: 885708--885746 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
885698 CAATACAATT
*
885708 ATACCATAACAAC-AATTTAA
1 ATACCACAA-AACAAATTTAA
885728 ATACCACAAAACAAATTTA
1 ATACCACAAAACAAATTTA
885747 TTTGATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (20 bp):
ATACCACAAAACAAATTTAA
Found at i:885758 original size:14 final size:14
Alignment explanation
Indices: 885741--885791 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
885731 CCACAAAACA
885741 AATTTATTTGATGT
1 AATTTATTTGATGT
*
885755 AATTTATTTTAT-T
1 AATTTATTTGATGT
*
885768 ATTTATATTTGATGT
1 AATT-TATTTGATGT
885783 AATTTATTT
1 AATTTATTT
885792 ATTTATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (14 bp):
AATTTATTTGATGT
Found at i:885797 original size:28 final size:29
Alignment explanation
Indices: 885745--885806 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
885735 AAAACAAATT
*
885745 TATTTGATGTAATTTATTTTATTAT-TTA
1 TATTTGATGTAATTTATTTTATTATAATA
885773 TATTTGATGTAATTTA-TTTATTTATAATA
1 TATTTGATGTAATTTATTTTA-TTATAATA
885802 TATTT
1 TATTT
885807 TTTATTATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 4 0.13
28 20 0.65
29 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (29 bp):
TATTTGATGTAATTTATTTTATTATAATA
Found at i:886264 original size:33 final size:33
Alignment explanation
Indices: 886207--886291 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
886197 AGCATCACAA
*
886207 ACAAAAATAACAATATTACAACAACACCAAAATATC
1 ACAAAAACAACAATATT---ACAACACCAAAATATC
* *
886243 ACCAAAACAACGATATTACAACACCAAAATATC
1 ACAAAAACAACAATATTACAACACCAAAATATC
886276 ACAAAAACAACAATAT
1 ACAAAAACAACAATAT
886292 ATATTGCAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
33 30 0.68
36 14 0.32
ACGTcount: A:0.60, C:0.24, G:0.01, T:0.15
Consensus pattern (33 bp):
ACAAAAACAACAATATTACAACACCAAAATATC
Found at i:886279 original size:16 final size:16
Alignment explanation
Indices: 886227--886279 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
886217 CAATATTACA
886227 ACAACACCAAAATATC
1 ACAACACCAAAATATC
* * *
886243 ACCAA-AACAACGATATT
1 A-CAACACCAA-AATATC
886260 ACAACACCAAAATATC
1 ACAACACCAAAATATC
886276 ACAA
1 ACAA
886280 AAACAACAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.57, C:0.28, G:0.02, T:0.13
Consensus pattern (16 bp):
ACAACACCAAAATATC
Found at i:886342 original size:23 final size:24
Alignment explanation
Indices: 886316--886362 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
886306 TAATTATTCC
886316 ACAACAAT-AATAC-AAATTAAATA
1 ACAAC-ATCAATACAAAATTAAATA
*
886339 ACAACATCATTACAAAATTAAATA
1 ACAACATCAATACAAAATTAAATA
886363 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 9 0.43
24 10 0.48
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (24 bp):
ACAACATCAATACAAAATTAAATA
Found at i:887069 original size:16 final size:16
Alignment explanation
Indices: 887050--887080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
887040 GAAATAGATA
887050 AATATTTAAATTAATC
1 AATATTTAAATTAATC
*
887066 AATATTTAATTTAAT
1 AATATTTAAATTAAT
887081 AAAAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTTAAATTAATC
Found at i:888886 original size:10 final size:9
Alignment explanation
Indices: 888868--888897 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
888858 TGTAAAAGCT
888868 AAGAAAGAA
1 AAGAAAGAA
888877 AAGAAAAGAA
1 AAG-AAAGAA
888887 AAGAAAGAA
1 AAGAAAGAA
888896 AA
1 AA
888898 ATGCCATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:891349 original size:14 final size:14
Alignment explanation
Indices: 891312--891338 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
891302 CCAAAATTAT
891312 AACTTATAAAAAAG
1 AACTTATAAAAAAG
891326 AACTTATAAAAAA
1 AACTTATAAAAAA
891339 AATTTACTAA
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:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AACTTATAAAAAAG
Found at i:892865 original size:22 final size:22
Alignment explanation
Indices: 892839--892881 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
892829 AATTATAGGA
* *
892839 ATTGCATGATTGGTTTTTAAGC
1 ATTGCATGAATGATTTTTAAGC
892861 ATTGCATGAATGATTTTTAAG
1 ATTGCATGAATGATTTTTAAG
892882 AAATGCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (22 bp):
ATTGCATGAATGATTTTTAAGC
Found at i:892946 original size:23 final size:22
Alignment explanation
Indices: 892891--892963 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 22
892881 GAAATGCCTA
* *
892891 AGTCACAAATGCCTTA-AAAAT
1 AGTCACAAATGCCTTACTAACT
*
892912 AGTCACGCAATGCCTTACTAACT
1 AGTCAC-AAATGCCTTACTAACT
*
892935 AGTCACATAATGCCTTACTAACA
1 AGTCACA-AATGCCTTACTAACT
892958 AGTCAC
1 AGTCAC
892964 GCAATACCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 6 0.14
22 9 0.20
23 29 0.66
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (22 bp):
AGTCACAAATGCCTTACTAACT
Found at i:893091 original size:21 final size:21
Alignment explanation
Indices: 893062--893127 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
893052 ATAATACCTA
* *
893062 AAAATTAGTCACGTAATGTTT
1 AAAACTAGTCATGTAATGTTT
*
893083 AAAACTAGTCATGTAATGTTC
1 AAAACTAGTCATGTAATGTTT
** *
893104 AAAGGTAGTCATGTAATGTCT
1 AAAACTAGTCATGTAATGTTT
893125 AAA
1 AAA
893128 GTCAATTACG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAACTAGTCATGTAATGTTT
Found at i:900027 original size:3 final size:3
Alignment explanation
Indices: 900019--900043 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
900009 CCCAACCACC
900019 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
900044 TAGATGACAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:907624 original size:13 final size:13
Alignment explanation
Indices: 907606--907630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
907596 CAGAACATAG
907606 AAAATACATAAAT
1 AAAATACATAAAT
907619 AAAATACATAAA
1 AAAATACATAAA
907631 AGCTTGCTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATACATAAAT
Found at i:911653 original size:2 final size:2
Alignment explanation
Indices: 911648--911676 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
911638 TAAAAAAAAT
911648 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
911677 GTTGGGAGGA
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:913129 original size:15 final size:14
Alignment explanation
Indices: 913109--913142 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
913099 AACCACAATC
*
913109 AAAAAAATCATAATA
1 AAAAAAAGCATAA-A
913124 AAAAAAAGCATAAA
1 AAAAAAAGCATAAA
913138 AAAAA
1 AAAAA
913143 GAGAGAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAAGCATAAA
Found at i:913300 original size:27 final size:27
Alignment explanation
Indices: 913270--913379 Score: 75
Period size: 27 Copynumber: 4.0 Consensus size: 27
913260 GTCGGTGAGG
913270 AAGAAAGAGAGAGGGAAGGGAAAAAAA
1 AAGAAAGAGAGAGGGAAGGGAAAAAAA
* ***
913297 AAGAAAGA-AG-GGAAGAAAGG-AAAGCC
1 AAGAAAGAGAGAGG--GAAGGGAAAAAAA
* *
913323 AAGAAGAGGGAGAAGGAA-GGAAAAGAAA
1 AAGAA-AGAGAGAGGGAAGGGAAAA-AAA
* *
913351 AAGAGAGAGAGAGGGAAAGAGAAAAAAA
1 AAGAAAGAGAGAGGG-AAGGGAAAAAAA
913379 A
1 A
913380 GGACGAGGGA
Statistics
Matches: 61, Mismatches: 13, Indels: 17
0.67 0.14 0.19
Matches are distributed among these distances:
25 2 0.03
26 12 0.20
27 29 0.48
28 12 0.20
29 6 0.10
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (27 bp):
AAGAAAGAGAGAGGGAAGGGAAAAAAA
Found at i:913380 original size:27 final size:27
Alignment explanation
Indices: 913270--913417 Score: 74
Period size: 27 Copynumber: 5.4 Consensus size: 27
913260 GTCGGTGAGG
* *
913270 AAGAAAGAGAGAGGG-AAGGGAAAAAA
1 AAGAGAGAGAGAGGGAAAGAGAAAAAA
* * ***
913296 AA-AGAAAGA-AGGGAAGAAAGGAAAGCC
1 AAGAGAGAGAGAGGGAA-AGA-GAAAAAA
* * *
913323 AAGAAGAGGGAGAAGGAAGGA-AAAGAAA
1 AAG-AGAGAGAGAGGGAAAGAGAAA-AAA
913351 AAGAGAGAGAGAGGGAAAGAGAAAAAA
1 AAGAGAGAGAGAGGGAAAGAGAAAAAA
* *
913378 AAG-GACGAGGGAGAGAAAG-GAAAGAAGA
1 AAGAGA-GAGAGAGGGAAAGAGAAA-AA-A
*
913406 AAAAGAGAGAGA
1 AAGAGAGAGAGA
913418 CAGAGAGATG
Statistics
Matches: 88, Mismatches: 22, Indels: 22
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.05
25 6 0.07
26 9 0.10
27 42 0.48
28 14 0.16
29 8 0.09
30 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (27 bp):
AAGAGAGAGAGAGGGAAAGAGAAAAAA
Found at i:913470 original size:20 final size:19
Alignment explanation
Indices: 913445--913484 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
913435 AACGCCGGCC
*
913445 AAAAGGAGCGGAAGAGAAAG
1 AAAAGGA-CGCAAGAGAAAG
*
913465 AAAAGGACGCTAGAGAAAG
1 AAAAGGACGCAAGAGAAAG
913484 A
1 A
913485 GAAATGAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.55, C:0.07, G:0.35, T:0.03
Consensus pattern (19 bp):
AAAAGGACGCAAGAGAAAG
Found at i:920160 original size:36 final size:36
Alignment explanation
Indices: 920107--920177 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
920097 CCTCATAAAT
*
920107 GGATGCTGATTGTTACAGGAGTATGAGAATATTGAC
1 GGATGCTGATTGTTACAGGAGCATGAGAATATTGAC
* *
920143 GGATGCTTATTCG-TACAGGAGCATGAGAATGTTGA
1 GGATGCTGATT-GTTACAGGAGCATGAGAATATTGA
920178 TAGGCATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.30
Consensus pattern (36 bp):
GGATGCTGATTGTTACAGGAGCATGAGAATATTGAC
Found at i:923184 original size:248 final size:247
Alignment explanation
Indices: 922688--923195 Score: 838
Period size: 246 Copynumber: 2.0 Consensus size: 247
922678 GCCTAGGATT
* * **
922688 ATTTAGTTTTTTATAAATCTATTGTGAAGTAATAGAGAAGATTGATCGTAACAATTGTTGGACAT
1 ATTTAATTTATTATAAATCTATTGTGAAGTAATAGAGAAGATTGATCACAACAATTGTTGGACA-
**
922753 ATTATAAAGCTGACTATATCTGACATAATTGAAGAATTAATTAATTTTTTGTATGAAATGTCTCC
65 ATTATAAAGCCAACTATATCTGACATAATTGAAGAATTAATTAATTTTTTGTATGAAATGTCTCC
*
922818 TCATCTCTACCAGCATTTACCTTAACGATAACATCTTAAGATAAACTTAATTTATTGTCTATTTT
130 TCATCTCTACCAGCATTTACCTTAACGATAACATCTTAAGATAAACTTAATTTATCGTCTATTTT
*
922883 TACTCGTTCTTTATATTACTTTAAATCTCATAATTAGAATTTAATCTGATACG
195 TACTCGTTCTTTATATTACTTTAAATCACATAATTAGAATTTAATCTGATACG
*
922936 ATTTAATTTATTATAAATCTATTGTGAAGTAATAGAGAAGATTGATCACAACAATTTTTGGAC-A
1 ATTTAATTTATTATAAATCTATTGTGAAGTAATAGAGAAGATTGATCACAACAATTGTTGGACAA
* * *
923000 TTATAAAGCCAATTATATTTGACATAATTTAAGAATTAATTAATTTTTTGTATGAAATGTCTCCT
66 TTATAAAGCCAACTATATCTGACATAATTGAAGAATTAATTAATTTTTTGTATGAAATGTCTCCT
* *
923065 CATCTCTACCAGCATTTATCTTAACGATAACATGTTAAGATAAAACTTAATTTATCGTCTATTTT
131 CATCTCTACCAGCATTTACCTTAACGATAACATCTTAAGAT-AAACTTAATTTATCGTCTATTTT
* *
923130 TACTCGTTTTTTATATTACTTTAAATCACAATAATTATAATTTAATCTGATACG
195 TACTCGTTCTTTATATTACTTTAAATCAC-ATAATTAGAATTTAATCTGATACG
923184 ATTTAATTTATT
1 ATTTAATTTATT
923196 TTAATCCCAG
Statistics
Matches: 242, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
246 100 0.41
247 49 0.20
248 93 0.38
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (247 bp):
ATTTAATTTATTATAAATCTATTGTGAAGTAATAGAGAAGATTGATCACAACAATTGTTGGACAA
TTATAAAGCCAACTATATCTGACATAATTGAAGAATTAATTAATTTTTTGTATGAAATGTCTCCT
CATCTCTACCAGCATTTACCTTAACGATAACATCTTAAGATAAACTTAATTTATCGTCTATTTTT
ACTCGTTCTTTATATTACTTTAAATCACATAATTAGAATTTAATCTGATACG
Found at i:925813 original size:20 final size:19
Alignment explanation
Indices: 925774--925813 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
925764 AATCTATTTC
* *
925774 ATATATTATCAAATAATCA
1 ATATATTATAAAAAAATCA
925793 ATATATTAATAAAAAAATCA
1 ATATATT-ATAAAAAAATCA
925813 A
1 A
925814 CATACAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATATTATAAAAAAATCA
Found at i:931404 original size:35 final size:35
Alignment explanation
Indices: 931365--931443 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
931355 GAAATAATGC
* *
931365 TTCACTTATTCTAGTTGTTCTATGTGAAATAGTAA
1 TTCACTTATTCTAATTGTTCTACGTGAAATAGTAA
* * * *
931400 TTCACTTTTTTTAATTGTTTTGCGTGAAATAGTAA
1 TTCACTTATTCTAATTGTTCTACGTGAAATAGTAA
*
931435 TTTACTTAT
1 TTCACTTAT
931444 AATGGTTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (35 bp):
TTCACTTATTCTAATTGTTCTACGTGAAATAGTAA
Found at i:936626 original size:12 final size:12
Alignment explanation
Indices: 936605--936633 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
936595 ATAGTAAAAG
936605 AATA-TTTGTAA
1 AATATTTTGTAA
936616 AATATTTTGTAA
1 AATATTTTGTAA
936628 AATATT
1 AATATT
936634 CTTTTACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATATTTTGTAA
Found at i:948152 original size:27 final size:27
Alignment explanation
Indices: 948114--948169 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
948104 GTAATTAATA
948114 ATGATATATGAATCTACTGATTCATAT
1 ATGATATATGAATCTACTGATTCATAT
948141 ATGATATATGAATCTACTGATTCATAT
1 ATGATATATGAATCTACTGATTCATAT
948168 AT
1 AT
948170 ACAATAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (27 bp):
ATGATATATGAATCTACTGATTCATAT
Found at i:948845 original size:38 final size:37
Alignment explanation
Indices: 948799--948977 Score: 119
Period size: 38 Copynumber: 4.9 Consensus size: 37
948789 ATGAGAATAT
948799 TAATAATTAAATTATAAATAAAATATTAATATTTGAA
1 TAATAATTAAATTATAAATAAAATATTAATATTTGAA
* * * *
948836 TAATCAATTATTAATATTTTAAA-AAATTATAAATCTTTTGAA
1 TAAT--A--ATTAA-ATTATAAATAAAATATTAAT-ATTTGAA
*
948878 -AA-AA-TAAA--AT--A-AAAATA--AATAATTGTAA
1 TAATAATTAAATTATAAATAAAATATTAATATTTG-AA
* *
948906 TAATATTTAAATTATAAATAAAATATTAATATTTTATA
1 TAATAATTAAATTATAAATAAAATATTAATATTTGA-A
* * *
948944 AAATGATTAAATTATTAATAAAATATTAATATTT
1 TAATAATTAAATTATAAATAAAATATTAATATTT
948978 AAGTGATCTA
Statistics
Matches: 109, Mismatches: 15, Indels: 35
0.69 0.09 0.22
Matches are distributed among these distances:
27 3 0.03
28 5 0.05
29 2 0.02
30 7 0.06
31 4 0.04
32 1 0.01
33 2 0.02
34 1 0.01
35 4 0.04
36 7 0.06
37 5 0.05
38 38 0.35
39 1 0.01
41 16 0.15
42 13 0.12
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (37 bp):
TAATAATTAAATTATAAATAAAATATTAATATTTGAA
Found at i:948881 original size:20 final size:19
Alignment explanation
Indices: 948841--948882 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
948831 TTGAATAATC
*
948841 AATTATTAATATTTTAAAA
1 AATTATAAATATTTTAAAA
*
948860 AATTATAAATCTTTTGAAAA
1 AATTATAAATATTTT-AAAA
948880 AAT
1 AAT
948883 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTATAAATATTTTAAAA
Found at i:948930 original size:20 final size:18
Alignment explanation
Indices: 948898--948972 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
948888 AAAAATAAAT
* *
948898 AATTGTAATAATAT-TTA
1 AATTATAATAAAATATTA
948915 AATTATAAATAAAATATTA
1 AATTAT-AATAAAATATTA
*
948934 ATATT-TTATAAAATGATTA
1 A-ATTATAATAAAAT-ATTA
948953 AATTATTAATAAAATATTA
1 AATTA-TAATAAAATATTA
948972 A
1 A
948973 TATTTAAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.10
18 17 0.35
19 15 0.31
20 11 0.23
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTATAATAAAATATTA
Found at i:948955 original size:145 final size:145
Alignment explanation
Indices: 948804--949152 Score: 404
Period size: 148 Copynumber: 2.4 Consensus size: 145
948794 AATATTAATA
948804 ATTAAATTATAAATAAAATATTAATATTTGAATAATCAATTATTAATATTTTAAAAAATTAT-AA
1 ATTAAATTATAAATAAAATATTAATATTT-AATAATCAATTATTAATATTTTAAAAAATTATCAA
*** ** *
948868 ATCTT-TTGAA-AAAATAAAATAAAAATAAATAATTGTAATAATATTTAAATTATAAATAAAATA
65 AT-TTAAACAATAAAATAAAAT-AAAATAAATAATCATAATAACATTTAAATTATAAATAAAATA
* *
948931 TTAATATTTTATAAA-AT
128 TGAATACTTTATAAACAT
* * * *
948948 GATTAAATTATTAATAAAATATTAATATTTAAGTGATCTATTATTAATATTTTAAATAAAATTTT
1 -ATTAAATTATAAATAAAATATTAATATTTAA-TAATCAATTATTAATATTTT-AA-AAAATTAT
* *
949013 CACATTTAAACAATAAAATAAAATAAAATAAATAATCATAATAACATTTAAATTATATATAAAAT
62 CAAATTTAAACAATAAAATAAAATAAAATAAATAATCATAATAACATTTAAATTATAAATAAAAT
949078 ATGAATACTTTATAAACAT
127 ATGAATACTTTATAAACAT
* * * *
949097 -TTAAATTATAAATTATTAATATT-ATAAATAAATTATCAATTATTAATATTTTAAAA
1 ATTAAATTATAAA-TA-AAATATTAAT-ATTTAATAATCAATTATTAATATTTTAAAA
949153 TAAAATAATT
Statistics
Matches: 174, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
144 2 0.01
145 46 0.26
146 4 0.02
147 22 0.13
148 78 0.45
149 22 0.13
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (145 bp):
ATTAAATTATAAATAAAATATTAATATTTAATAATCAATTATTAATATTTTAAAAAATTATCAAA
TTTAAACAATAAAATAAAATAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATGA
ATACTTTATAAACAT
Found at i:949112 original size:121 final size:115
Alignment explanation
Indices: 948987--949204 Score: 265
Period size: 117 Copynumber: 1.8 Consensus size: 115
948977 TAAGTGATCT
* *
948987 ATTATTAATATTTTAAATAAAATTTTCACATTTAAACAATAAAATAAAATAAAATAAATAATCAT
1 ATTATTAATATTATAAAT-AAATTATCA-A-TT-AACAATAAAATAAAATAAAATAAATAATCAT
*
949052 AATAACATTTAAATTATATATAAAATATGAATACTTTATAAACATTTAAATTATAA
62 AATAACATCTAAATTA-A-ATAAAATATGAATACTTTATAAACATTTAAATTATAA
** *** * *
949108 ATTATTAATATTATAAATAAATTATCAATTATTAATATTTTAAAATAAAATAATTTATCATAATA
1 ATTATTAATATTATAAATAAATTATCAATTAACAATAAAATAAAATAAAATAAATAATCATAATA
* * *
949173 ATATCTAAATTAAATAAAATATTAATATTTTA
66 ACATCTAAATTAAATAAAATATGAATACTTTA
949205 CAATATTAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
115 17 0.20
116 1 0.01
117 38 0.45
118 2 0.02
119 1 0.01
120 8 0.10
121 17 0.20
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (115 bp):
ATTATTAATATTATAAATAAATTATCAATTAACAATAAAATAAAATAAAATAAATAATCATAATA
ACATCTAAATTAAATAAAATATGAATACTTTATAAACATTTAAATTATAA
Found at i:949137 original size:27 final size:28
Alignment explanation
Indices: 949098--949156 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
949088 TATAAACATT
949098 TAAATTATAAATTATTAATATTAT-AAA
1 TAAATTATAAATTATTAATATTATAAAA
* *
949125 TAAATTATCAATTATTAATATTTTAAAA
1 TAAATTATAAATTATTAATATTATAAAA
949153 TAAA
1 TAAA
949157 ATAATTTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAATTATAAATTATTAATATTATAAAA
Found at i:949231 original size:42 final size:42
Alignment explanation
Indices: 949183--949279 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
949173 ATATCTAAAT
*
949183 TAAATAAAATAT-TAATATTTTACAAT-ATTAATGATTAA-ATTA
1 TAAATAAAATATCT-ATA-TTTA-AATGATCAATGATTAATATTA
* *
949225 TAAATAAAATATCTATATTTAAATGATCAATTATTAATATTT
1 TAAATAAAATATCTATATTTAAATGATCAATGATTAATATTA
*
949267 TAAATAAATTATC
1 TAAATAAAATATC
949280 ATTATTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 3 0.06
41 14 0.29
42 30 0.62
43 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (42 bp):
TAAATAAAATATCTATATTTAAATGATCAATGATTAATATTA
Found at i:949265 original size:22 final size:22
Alignment explanation
Indices: 949239--949335 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 22
949229 TAAAATATCT
*
949239 ATATTTAAATGATCAATTATTA
1 ATATTTAAATAATCAATTATTA
*
949261 ATATTTTAAATAAATTATCATTATTA
1 ATA-TTTAAAT-AATCA--ATTATTA
* * *
949287 ATATTTAAAAAATAAATCATTA
1 ATATTTAAATAATCAATTATTA
* **
949309 ACATTTAAATTTTCAATTATTA
1 ATATTTAAATAATCAATTATTA
949331 ATATT
1 ATATT
949336 CAAAAAATAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
22 29 0.49
23 7 0.12
24 7 0.12
25 6 0.10
26 10 0.17
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (22 bp):
ATATTTAAATAATCAATTATTA
Found at i:949305 original size:25 final size:26
Alignment explanation
Indices: 949244--949308 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
949234 TATCTATATT
*
949244 TAAATGATCAATTATTAATATTTTAAA
1 TAAATAATC-ATTATTAATATTTTAAA
*
949271 TAAATTATCATTATTAATA-TTTAAA
1 TAAATAATCATTATTAATATTTTAAA
949296 -AAATAAATCATTA
1 TAAAT-AATCATTA
949309 ACATTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 4 0.11
25 13 0.37
26 10 0.29
27 8 0.23
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATAATCATTATTAATATTTTAAA
Found at i:949445 original size:27 final size:27
Alignment explanation
Indices: 949379--949433 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
949369 TAATAATATT
* * *
949379 TAAATTAAATAATTATTAATATTTTAAT
1 TAAATTATA-AATTATTAATATTTAAAA
949407 TAAATTATAAATTATTAATATTTAAAA
1 TAAATTATAAATTATTAATATTTAAAA
949434 ATAGAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATTATAAATTATTAATATTTAAAA
Found at i:957131 original size:14 final size:14
Alignment explanation
Indices: 957097--957137 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
957087 TGCAAGTCTT
*
957097 TGAAAAAATAA-AA
1 TGAATAAATAATAA
*
957110 TAAATAAATAATAA
1 TGAATAAATAATAA
957124 TGAATAAATAATAA
1 TGAATAAATAATAA
957138 AAAATGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
TGAATAAATAATAA
Found at i:971179 original size:24 final size:24
Alignment explanation
Indices: 971152--971198 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
971142 AATTTGGATG
**
971152 AACATGGTGTGCAATAATTTTTTC
1 AACATGGCATGCAATAATTTTTTC
*
971176 AACATGGCATGTAATAATTTTTT
1 AACATGGCATGCAATAATTTTTT
971199 TCGATATGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (24 bp):
AACATGGCATGCAATAATTTTTTC
Found at i:971213 original size:25 final size:24
Alignment explanation
Indices: 971152--971214 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
971142 AATTTGGATG
* *
971152 AACATGGTGTGCAATAATTTTTTC
1 AACATGGCGTGTAATAATTTTTTC
*
971176 AACATGGCATGTAATAATTTTTTTC
1 AACATGGCGTGTAATAA-TTTTTTC
* *
971201 GATATGGCGTGTAA
1 AACATGGCGTGTAA
971215 CAAAATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (24 bp):
AACATGGCGTGTAATAATTTTTTC
Found at i:975420 original size:20 final size:22
Alignment explanation
Indices: 975392--975436 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
975382 TTTTTTTACA
*
975392 TTTCTATATT-TGATTTTAGAT
1 TTTCTATATTGTAATTTTAGAT
*
975413 TTTC-ATATTGTAATTTTAGGT
1 TTTCTATATTGTAATTTTAGAT
975434 TTT
1 TTT
975437 AGGCATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTCTATATTGTAATTTTAGAT
Found at i:980404 original size:28 final size:28
Alignment explanation
Indices: 980368--980426 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
980358 AACATGTTAC
*
980368 AAACAAATAAATTACACCAAACATAAAT
1 AAACAAATAAATTACACAAAACATAAAT
**
980396 AAACAAATAAATTACGTAAAACATAAAT
1 AAACAAATAAATTACACAAAACATAAAT
980424 AAA
1 AAA
980427 ATTTCAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACAAATAAATTACACAAAACATAAAT
Found at i:987114 original size:36 final size:35
Alignment explanation
Indices: 986959--987115 Score: 181
Period size: 36 Copynumber: 4.4 Consensus size: 35
986949 AAGTTGCACC
* * * *
986959 TAATTAATTAAATTCTTTAGTTAAGTTATTGGGCT
1 TAATTGATTAAATTATTTAATTAAGTTATTGAGCT
* *
986994 TAATTGATTAAAATTGTTTAATTAAGTCATT-AGGCT
1 TAATTGATT-AAATTATTTAATTAAGTTATTGA-GCT
* *
987030 TAATTGACTAAAATTATTTAATTAAATTATTGAGCT
1 TAATTGA-TTAAATTATTTAATTAAGTTATTGAGCT
* *
987066 TAATTAATTAAATTATTTAATTAAAGTTATTGAGCC
1 TAATTGATTAAATTATTTAATT-AAGTTATTGAGCT
987102 TAATTGATTAAATT
1 TAATTGATTAAATT
987116 TAACAATTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
35 22 0.21
36 79 0.77
37 2 0.02
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (35 bp):
TAATTGATTAAATTATTTAATTAAGTTATTGAGCT
Found at i:987124 original size:36 final size:36
Alignment explanation
Indices: 987040--987129 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 36
987030 TAATTGACTA
** *
987040 AAATTATTTAATTAAA-TTATTGAGCTTAATTAATT
1 AAATTATACAATTAAAGTTATTGAGCCTAATTAATT
** *
987075 AAATTATTTAATTAAAGTTATTGAGCCTAATTGATT
1 AAATTATACAATTAAAGTTATTGAGCCTAATTAATT
987111 AAATT-TAACAATT-AAGTTA
1 AAATTAT-ACAATTAAAGTTA
987130 GCTGGGCTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 23 0.47
36 26 0.53
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
AAATTATACAATTAAAGTTATTGAGCCTAATTAATT
Found at i:992496 original size:8 final size:9
Alignment explanation
Indices: 992462--992494 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
992452 TTCTCTTTCC
992462 ATTTATATT
1 ATTTATATT
992471 ATTTATAGTT
1 ATTTATA-TT
992481 ATTTAT-TT
1 ATTTATATT
992489 ATTTAT
1 ATTTAT
992495 TTCTATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
ATTTATATT
Found at i:993497 original size:12 final size:13
Alignment explanation
Indices: 993479--993509 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
993469 ACATATAGGC
993479 CTTTATTTTATAT
1 CTTTATTTTATAT
993492 -TTTATTTTATAT
1 CTTTATTTTATAT
993504 CTTTAT
1 CTTTAT
993510 ATTTTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTTATAT
Found at i:993532 original size:20 final size:18
Alignment explanation
Indices: 993480--993533 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
993470 CATATAGGCC
993480 TTTATTTTATATTTTATT
1 TTTATTTTATATTTTATT
*
993498 TTATATCTTTATATTTTGTT
1 TT-TAT-TTTATATTTTATT
993518 TATTATTTTATTATTT
1 T-TTATTTTA-TATTT
993534 AAATCAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 21 0.68
21 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTATTTTATATTTTATT
Found at i:997003 original size:28 final size:28
Alignment explanation
Indices: 996946--997109 Score: 96
Period size: 28 Copynumber: 5.6 Consensus size: 28
996936 TGATAACTTT
* * *
996946 AACATGTTTATCTTAATTTAGACTAGAA
1 AACATGTTTGTCTTAATTTAGACAAAAA
996974 AACATGTTTGGTCTTAATTTAGACAAAAA
1 AACATGTTT-GTCTTAATTTAGACAAAAA
* * *
997003 AATATGTTTGCCTTAA-TTAAACACAAGATA
1 AACATGTTTGTCTTAATTTAGACA-AA-A-A
* * * * * *
997033 AATATATTTTATCTTAATCTAGATAAGAA
1 AACAT-GTTTGTCTTAATTTAGACAAAAA
* * *
997062 AACATATTTGTTTTAATTTACACAAGATAA
1 AACATGTTTGTCTTAATTTAGACAA-A-AA
* * *
997092 AATATTTTTATCTTAATT
1 AACATGTTTGTCTTAATT
997110 AAACACAAGA
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
27 6 0.06
28 31 0.30
29 30 0.29
30 23 0.22
31 9 0.09
32 4 0.04
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAAAA
Found at i:997050 original size:31 final size:29
Alignment explanation
Indices: 997014--997119 Score: 94
Period size: 29 Copynumber: 3.6 Consensus size: 29
997004 ATATGTTTGC
997014 CTTAATTAAACACAAGATAAATATATTTTAT
1 CTTAATT-AACACAAGATAAA-ATATTTTAT
* *
997045 CTTAATCT-AGATAAGA-AAACATATTTGT-T
1 CTTAAT-TAACACAAGATAAA-ATATTT-TAT
*
997074 -TTAATTTACACAAGATAAAATATTTTTAT
1 CTTAATTAACACAAGATAAAATA-TTTTAT
997103 CTTAATTAAACACAAGA
1 CTTAATT-AACACAAGA
997120 GTTATCTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
27 1 0.02
28 15 0.25
29 17 0.28
30 13 0.21
31 14 0.23
32 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (29 bp):
CTTAATTAACACAAGATAAAATATTTTAT
Found at i:1004195 original size:20 final size:20
Alignment explanation
Indices: 1004151--1004211 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
1004141 TTTTTACTGA
*
1004151 AAAAAATAAATAGAGAT-TAAT
1 AAAAAATAAATA-A-ATAAAAT
1004172 -AAAAATAAATAAATAAAAT
1 AAAAAATAAATAAATAAAAT
*
1004191 AAAAAATAACTAAA-AAAAT
1 AAAAAATAAATAAATAAAAT
1004210 AA
1 AA
1004212 GAGTTTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 23 0.64
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAAAATAAATAAATAAAAT
Found at i:1004722 original size:21 final size:21
Alignment explanation
Indices: 1004693--1004739 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1004683 TTAACTTTGA
* *
1004693 ATGATGGCATTAGTTTTTATC
1 ATGAAGGCATTAGTCTTTATC
* *
1004714 ATGAAGGCATTTGTCTTTGTC
1 ATGAAGGCATTAGTCTTTATC
1004735 ATGAA
1 ATGAA
1004740 TTGCATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (21 bp):
ATGAAGGCATTAGTCTTTATC
Found at i:1009722 original size:22 final size:22
Alignment explanation
Indices: 1009694--1009735 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1009684 AAATTAAATT
1009694 AAAATTG-TAATTATAAATTTAA
1 AAAATTGATAATTA-AAATTTAA
*
1009716 AAAATTGATATTTAAAATTT
1 AAAATTGATAATTAAAATTT
1009736 TATTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAAATTGATAATTAAAATTTAA
Found at i:1010955 original size:27 final size:26
Alignment explanation
Indices: 1010911--1010974 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
1010901 AAAAAGTTAA
1010911 AAAAATTTATT--TAAAATAAAAATAT
1 AAAAATTTATTAATAAAATAAAAA-AT
*
1010936 AAAAATTTATTAATATAATAAAAAAT
1 AAAAATTTATTAATAAAATAAAAAAT
* *
1010962 TAAAATTTTTTAA
1 AAAAATTTATTAA
1010975 AATATTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.32
26 13 0.38
27 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAATTTATTAATAAAATAAAAAAT
Found at i:1017705 original size:154 final size:154
Alignment explanation
Indices: 1017425--1017717 Score: 399
Period size: 154 Copynumber: 1.9 Consensus size: 154
1017415 GCCTTTATTA
* * *
1017425 TTAATAATTGATTAATTTTCATTAGTAAAAATATCATTTGTCATTTTATATCTACATGACACTAA
1 TTAATAATTGACTAATTTTCATTAGTAAAAATATCACTAGTCATTTTATATCTACATGACACTAA
* * *
1017490 TATAGCATTGATGTAGAAAGAGCAAAATGTCACATGATCATGTTATTATATCAAATTAACATATC
66 TATAACATTGATGTAGAAAGAGAAAAATGTCACATGATCATATTATTATATCAAATTAACATATC
1017555 ATATCATCATTAATTATGAGATAT
131 ATATCATCATTAATTATGAGATAT
* * * * *
1017579 TTAATTATTGACTAATTTTTATTAGTAAAAATATTACTAGTCATTTTATATTTACATGACACTGA
1 TTAATAATTGACTAATTTTCATTAGTAAAAATATCACTAGTCATTTTATATCTACATGACACTAA
* ** * * * * *
1017644 TATAACATTGATGTGGATGGTA-AAAAATGTTATATGATCATATTATTATGTTAAATTAACATGT
66 TATAACATTGATGTAGAAAG-AGAAAAATGTCACATGATCATATTATTATATCAAATTAACATAT
1017708 CATATCATCA
130 CATATCATCA
1017718 ATAGTATGTC
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
154 118 0.99
155 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (154 bp):
TTAATAATTGACTAATTTTCATTAGTAAAAATATCACTAGTCATTTTATATCTACATGACACTAA
TATAACATTGATGTAGAAAGAGAAAAATGTCACATGATCATATTATTATATCAAATTAACATATC
ATATCATCATTAATTATGAGATAT
Found at i:1017882 original size:30 final size:31
Alignment explanation
Indices: 1017820--1017891 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
1017810 AATCATTAGT
**
1017820 TATAAAAACTTATTTGACTCAAAATAAAAAA
1 TATAAAAGTTTATTTGACTCAAAATAAAAAA
*
1017851 TATAAAAGTTTATTTGGCTCAAAAT-AAAAA
1 TATAAAAGTTTATTTGACTCAAAATAAAAAA
*
1017881 TATAAGAGTTT
1 TATAAAAGTTT
1017892 GATCGAATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.33
Consensus pattern (31 bp):
TATAAAAGTTTATTTGACTCAAAATAAAAAA
Found at i:1018569 original size:14 final size:14
Alignment explanation
Indices: 1018532--1018587 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
1018522 TTAAAGTTTT
*
1018532 TTTATTTTTTTCA-A
1 TTTATTTATTT-ATA
1018546 TTTATATTATTTATA
1 TTTAT-TTATTTATA
*
1018561 TTTATTTATTTATT
1 TTTATTTATTTATA
1018575 TTTATTCTATTTA
1 TTTATT-TATTTA
1018588 CTTATACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
14 20 0.54
15 17 0.46
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:1018592 original size:19 final size:19
Alignment explanation
Indices: 1018533--1018592 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
1018523 TAAAGTTTTT
*
1018533 TTATTTTT-TTCAATTTATA
1 TTATTTTTATTCTATTTA-A
* *
1018552 TTATTTATATT-TATTTAT
1 TTATTTTTATTCTATTTAA
*
1018570 TTATTTTTATTCTATTTAC
1 TTATTTTTATTCTATTTAA
1018589 TTAT
1 TTAT
1018593 ACATTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.29
19 22 0.65
20 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTTATTCTATTTAA
Found at i:1021600 original size:8 final size:8
Alignment explanation
Indices: 1021587--1021616 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1021577 CATACATTCT
*
1021587 TATATATA
1 TATATATC
1021595 TATATATC
1 TATATATC
1021603 TATATATC
1 TATATATC
1021611 TATATA
1 TATATA
1021617 CACTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (8 bp):
TATATATC
Found at i:1039525 original size:19 final size:20
Alignment explanation
Indices: 1039488--1039526 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1039478 AACCAGCAAG
*
1039488 AAAAATTAAGAAAAGAAATT
1 AAAAATTAAGAAAACAAATT
*
1039508 AAAAA-TAAGAAACCAAATT
1 AAAAATTAAGAAAACAAATT
1039527 CATTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAAATTAAGAAAACAAATT
Found at i:1043392 original size:28 final size:30
Alignment explanation
Indices: 1043347--1043406 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
1043337 ATAAAAACTA
*
1043347 TTTTATAGTTTAATATTT-TTCAAATATAT
1 TTTTATAGTTTAATATTTATTAAAATATAT
1043376 TTTTATA-TTTCAA-ATTTAATTAAAATATAT
1 TTTTATAGTTT-AATATTT-ATTAAAATATAT
1043406 T
1 T
1043407 AATATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 7 0.26
29 9 0.33
30 11 0.41
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTTATAGTTTAATATTTATTAAAATATAT
Found at i:1046127 original size:2 final size:2
Alignment explanation
Indices: 1046120--1046162 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1046110 GTTTTTCTTT
1046120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
1046162 T
1 T
1046163 TCATTTAGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1053042 original size:45 final size:45
Alignment explanation
Indices: 1052992--1053154 Score: 122
Period size: 45 Copynumber: 3.7 Consensus size: 45
1052982 TGGTTGATAG
*
1052992 GGCATTGCATGATTGAG-TTTTAGATATTGCGTAATTGATTAACA
1 GGCATTGCATGATTGAGTTTTTAGACATTGCGTAATTGATTAACA
* * * * *
1053036 GAGCATTACGTGATT-AGTTTTTA-AGCATTGCGTAACTGGTTGATC-
1 G-GCATTGCATGATTGAGTTTTTAGA-CATTGCGTAATTGATT-AACA
* * * * * **
1053081 GGTATTGTATGACT-AATTTTTAGACATTGCGTGATTGATTAGTA
1 GGCATTGCATGATTGAGTTTTTAGACATTGCGTAATTGATTAACA
*
1053125 GGGCATTGCATGATTG-GTTTTTAGATATTG
1 -GGCATTGCATGATTGAGTTTTTAGACATTG
1053155 TGTGACTTAG
Statistics
Matches: 89, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 32 0.36
45 54 0.61
46 2 0.02
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (45 bp):
GGCATTGCATGATTGAGTTTTTAGACATTGCGTAATTGATTAACA
Found at i:1053244 original size:22 final size:22
Alignment explanation
Indices: 1053214--1053264 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1053204 ATCACATAAC
*
1053214 GCCTAAAAATTAGAGACTT-AAT
1 GCCTAAAAATCAGAGA-TTGAAT
*
1053236 GCCTCAAAATCAGAGATTGAAT
1 GCCTAAAAATCAGAGATTGAAT
*
1053258 GCTTAAA
1 GCCTAAA
1053265 TTAAAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (22 bp):
GCCTAAAAATCAGAGATTGAAT
Found at i:1055994 original size:45 final size:45
Alignment explanation
Indices: 1055880--1055982 Score: 197
Period size: 45 Copynumber: 2.3 Consensus size: 45
1055870 ATAAGATTTG
*
1055880 TTTATTTGAATCTAGTTTCCGCAATATGTAAAGAATAAGAAAATA
1 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAATAAGAAAATA
1055925 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAATAAGAAAATA
1 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAATAAGAAAATA
1055970 TTTATTTGAATCT
1 TTTATTTGAATCT
1055983 TATTTTCTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (45 bp):
TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAATAAGAAAATA
Found at i:1056010 original size:45 final size:45
Alignment explanation
Indices: 1055880--1056012 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
1055870 ATAAGATTTG
* *
1055880 TTTATTTGAATCTAGTTTCCGCAATATGTAAAGAATAAGAAAATA
1 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAAGAAGAAAATA
*
1055925 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAATAAGAAAATA
1 TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAAGAAGAAAATA
*
1055970 TTTATTTGAATCTTA-TTTTCTCAATCTAT-TAAA-AAGAAGAAAA
1 TTTATTTGAATC-TAGTTTCCTCAA--TATGTAAAGAAGAAGAAAA
1056013 GAATCTAAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
45 73 0.89
46 6 0.07
47 3 0.04
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (45 bp):
TTTATTTGAATCTAGTTTCCTCAATATGTAAAGAAGAAGAAAATA
Found at i:1057409 original size:32 final size:33
Alignment explanation
Indices: 1057373--1057439 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
1057363 TAAGATCTCA
* *
1057373 TGTTGAG-ATTTATTTTGTTTTATTTTTTTAAT
1 TGTTGAGCATTTATTTTATTTTATTTGTTTAAT
* * *
1057405 TGTTGAGCTTTTCTTTTATTTTGTTTGTTTAAT
1 TGTTGAGCATTTATTTTATTTTATTTGTTTAAT
1057438 TG
1 TG
1057440 AATAATAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (33 bp):
TGTTGAGCATTTATTTTATTTTATTTGTTTAAT
Found at i:1059247 original size:19 final size:19
Alignment explanation
Indices: 1059223--1059266 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1059213 ATTAATAAAA
* *
1059223 TAAATATATTATTTATATT
1 TAAATAGATTAGTTATATT
*
1059242 TAAATAGATTAGTTATGTT
1 TAAATAGATTAGTTATATT
1059261 TAAATA
1 TAAATA
1059267 AAGCAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TAAATAGATTAGTTATATT
Found at i:1076737 original size:21 final size:22
Alignment explanation
Indices: 1076708--1076754 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1076698 GTCATAATGC
*
1076708 TTTACAAAACATTTAAAT-TATT
1 TTTACAAAA-ATTTAAATAAATT
1076730 TTTA-AAAAATTTAAATAAATT
1 TTTACAAAAATTTAAATAAATT
1076751 TTTA
1 TTTA
1076755 TTCTACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTACAAAAATTTAAATAAATT
Found at i:1076752 original size:20 final size:22
Alignment explanation
Indices: 1076708--1076752 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1076698 GTCATAATGC
* *
1076708 TTTACAAAACATTTAAATTATT
1 TTTACAAAACATTTAAATAAAT
1076730 TTTA-AAAA-ATTTAAATAAAT
1 TTTACAAAACATTTAAATAAAT
1076750 TTT
1 TTT
1076753 TATTCTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 4 0.19
22 4 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTACAAAACATTTAAATAAAT
Found at i:1077253 original size:42 final size:41
Alignment explanation
Indices: 1077188--1077312 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 41
1077178 TAGAAAGGTT
* * *
1077188 AAAAGGTGAACAGTAATCAAAATACTTAAATTAATCACATTG
1 AAAAGGTGAATAGTAA-CCAAATACTTAAATTAATCGCATTG
* * * *
1077230 AAAAGGTGAATAGTAACCTAAATAGTTAAATTTATGGCATTT
1 AAAAGGTGAATAGTAACC-AAATACTTAAATTAATCGCATTG
* * **
1077272 AAAGGGTGAATAGCAATCCAACCACTTAAATTAATCGCATT
1 AAAAGGTGAATAGTAA-CCAAATACTTAAATTAATCGCATT
1077313 CATTCAATTA
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 64 0.96
43 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (41 bp):
AAAAGGTGAATAGTAACCAAATACTTAAATTAATCGCATTG
Found at i:1082855 original size:15 final size:15
Alignment explanation
Indices: 1082825--1082892 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
1082815 CGTTTGGTAC
*
1082825 ATTACAATGCAATGTG
1 ATTACAA-GTAATGTG
*
1082841 ATTACAGGTAATGTG
1 ATTACAAGTAATGTG
*
1082856 ATTGCAAGTAAATGTG
1 ATTACAAGT-AATGTG
* *
1082872 ATTGCAAGCAATGTG
1 ATTACAAGTAATGTG
1082887 ATTACA
1 ATTACA
1082893 GGGAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
15 25 0.56
16 20 0.44
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (15 bp):
ATTACAAGTAATGTG
Found at i:1083084 original size:16 final size:15
Alignment explanation
Indices: 1083040--1083316 Score: 96
Period size: 16 Copynumber: 19.1 Consensus size: 15
1083030 AATAAGTTTA
*
1083040 ATATATTATATTTTT
1 ATATAATATATTTTT
*
1083055 -TATTAT-TAATTTTT
1 ATATAATAT-ATTTTT
1083069 ATATAATATCATTTTT
1 ATATAATAT-ATTTTT
1083085 -TA-AATATATTTTT
1 ATATAATATATTTTT
*
1083098 AATATCATATATTTATT
1 -ATATAATATATTT-TT
1083115 AT-T--T-TATTTATT
1 ATATAATATATTT-TT
*
1083127 TTAT-A-ATA-TTTT
1 ATATAATATATTTTT
* *
1083139 ATAT--TTTATTTTA
1 ATATAATATATTTTT
*
1083152 ATATATTATATTTTT
1 ATATAATATATTTTT
1083167 -TAT--TA-ATTTTT
1 ATATAATATATTTTT
*
1083178 ATATAATATCATTTCT
1 ATATAATAT-ATTTTT
1083194 -TA-AATATATTTTAAT
1 ATATAATATATTTT--T
*
1083209 ATCATATATTTATTTTT
1 AT-ATA-ATATATTTTT
* * *
1083226 AT-TTAT-TATTATA
1 ATATAATATATTTTT
**
1083239 ATATTTTTATATTTTAT
1 ATA-TAATATATTTT-T
* * *
1083256 TTTTAATATATTTAT
1 ATATAATATATTTTT
*
1083271 ATTTATATATATTTTT
1 ATATA-ATATATTTTT
*
1083287 ATATAATATCATTTCT
1 ATATAATAT-ATTTTT
1083303 -TA-AATATATTTTT
1 ATATAATATATTTTT
1083316 A
1 A
1083317 ATGTCATATA
Statistics
Matches: 200, Mismatches: 30, Indels: 65
0.68 0.10 0.22
Matches are distributed among these distances:
11 6 0.03
12 21 0.10
13 34 0.17
14 34 0.17
15 35 0.17
16 54 0.27
17 7 0.04
18 1 0.00
19 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATAATATATTTTT
Found at i:1083136 original size:22 final size:22
Alignment explanation
Indices: 1083111--1083170 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
1083101 ATCATATATT
1083111 TATTATTTTATTTATTTT-ATAA
1 TATTATTTTATTTATTTTAAT-A
*
1083133 TATT-TTATATTTTATTTTAATA
1 TATTATTTTA-TTTATTTTAATA
1083155 TATTATATTT-TTTATT
1 TATTAT-TTTATTTATT
1083171 AATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 4 0.12
22 23 0.72
23 3 0.09
24 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTATTTTATTTATTTTAATA
Found at i:1083177 original size:11 final size:12
Alignment explanation
Indices: 1083043--1083177 Score: 65
Period size: 12 Copynumber: 10.0 Consensus size: 12
1083033 AAGTTTAATA
1083043 TATTATATTTTT
1 TATTATATTTTT
1083055 TATTATTAATTTTT
1 TATTA-T-ATTTTT
1083069 ATATAATATCATTTTT
1 -TAT--TAT-ATTTTT
*
1083085 TAAATATATTTTT
1 T-ATTATATTTTT
*
1083098 AATATCATATATTTAT
1 --TAT--TATATTTTT
*
1083114 TATTTTATTTATTT
1 TATTATA-TT-TTT
* *
1083128 TATAATATTTTA
1 TATTATATTTTT
*
1083140 TATTTTATTTTAAT
1 TATTATATTTT--T
1083154 ATATTATATTTTT
1 -TATTATATTTTT
1083167 TATTA-ATTTTT
1 TATTATATTTTT
1083178 ATATAATATC
Statistics
Matches: 95, Mismatches: 13, Indels: 31
0.68 0.09 0.22
Matches are distributed among these distances:
11 6 0.06
12 24 0.25
13 12 0.13
14 20 0.21
15 15 0.16
16 16 0.17
17 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTATATTTTT
Found at i:1083246 original size:22 final size:21
Alignment explanation
Indices: 1083219--1083276 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
1083209 ATCATATATT
1083219 TATTTTTATTTATTATTATAATA
1 TATTTTTATTTATT-TT-TAATA
1083242 T-TTTTATATTTTATTTTTAATA
1 TATTTT-TA-TTTATTTTTAATA
*
1083264 TATTTATATTTAT
1 TATTTTTATTTAT
1083277 ATATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.16
22 12 0.39
23 8 0.26
24 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTTTATTTATTTTTAATA
Found at i:1083310 original size:45 final size:39
Alignment explanation
Indices: 1083225--1083313 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 39
1083215 TATTTATTTT
*
1083225 TATTTATTATTATAATATTTTTATATTTTATTTTTAATA
1 TATTTATTATTATAATATTTTTATATTTCATTTTTAATA
1083264 TATTTA-TATTTATATATATTTTTATATAATATCATTTCTTAAATA
1 TATTTATTA-TTATA-ATATTTTTATAT--T-TCATTT-TT-AATA
1083309 TATTT
1 TATTT
1083314 TTAATGTCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
38 2 0.05
39 11 0.26
40 12 0.29
42 1 0.02
43 5 0.12
44 2 0.05
45 9 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TATTTATTATTATAATATTTTTATATTTCATTTTTAATA
Found at i:1083326 original size:61 final size:60
Alignment explanation
Indices: 1083176--1083457 Score: 206
Period size: 57 Copynumber: 5.1 Consensus size: 60
1083166 TTATTAATTT
* *
1083176 TTATATAATATCATTTCTTAAATATA-TTTTAATATCATATATTTAT-TTT-TATTTATTA
1 TTATATAATATCATTT-TTAAATATATTTTTAATGTCATATATTTATATTTATATATATTA
* * *
1083234 -T-TAT-A-AT-ATTTTT--ATAT-TTTATT--TTTAATATATTTATATTTATATATATTT
1 TTATATAATATCATTTTTAAATATATTT-TTAATGTCATATATTTATATTTATATATATTA
*
1083285 TTATATAATATCATTTCTTAAATATATTTTTAATGTCATATATTTAT-TTT-TATTTATTA
1 TTATATAATATCATTT-TTAAATATATTTTTAATGTCATATATTTATATTTATATATATTA
* * * * *
1083344 -T-TATAA-AT--TTTAT-ATTTTA-TTTTAATAT-ATTTATATTTATA-TTAT-TA-ATTT
1 TTATATAATATCATTTTTAAATATATTTTTAATGTCA--TATATTTATATTTATATATATTA
* *
1083395 TTATATAATATCATATTTAAATATATTTTTAATGTCATATATTT-TATTTTTAT-TATTA
1 TTATATAATATCATTTTTAAATATATTTTTAATGTCATATATTTATATTTATATATATTA
1083453 TTATA
1 TTATA
1083458 ATTTTCTATA
Statistics
Matches: 173, Mismatches: 21, Indels: 60
0.68 0.08 0.24
Matches are distributed among these distances:
49 12 0.07
50 10 0.06
51 20 0.12
52 20 0.12
53 14 0.08
54 8 0.05
55 3 0.02
56 14 0.08
57 22 0.13
58 18 0.10
59 14 0.08
60 6 0.03
61 12 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (60 bp):
TTATATAATATCATTTTTAAATATATTTTTAATGTCATATATTTATATTTATATATATTA
Found at i:1083329 original size:29 final size:27
Alignment explanation
Indices: 1083036--1083439 Score: 141
Period size: 28 Copynumber: 14.6 Consensus size: 27
1083026 TTAAAATAAG
* *
1083036 TTTAATATATTATATTTTTTATTATTAATT
1 TTTAATATA-TATATTTTTAAATA-T-ATT
1083066 TTT-ATATAATATCATTTTTTAAATATATT
1 TTTAATAT-ATAT-A-TTTTTAAATATATT
* *
1083095 TTTAATATCATATATTTATT-ATTTTATT
1 TTTAATAT-ATATATTT-TTAAATATATT
* * *
1083123 TATT-TTATA-ATA-TTTTATAT-TTTAT
1 T-TTAATATATATATTTTTAAATATAT-T
* *
1083148 TTTAATATATTATATTTTTTATTA-ATT
1 TTTAATATA-TATATTTTTAAATATATT
1083175 TTT-ATATAATATCATTTCTTAAATATA-T
1 TTTAATAT-ATAT-ATTT-TTAAATATATT
*
1083203 TTTAATATCATATATTTATT---TTTATT
1 TTTAATAT-ATATATTT-TTAAATATATT
* * *
1083229 TATTATTATA-ATATTTTTATATTTTATT
1 T-TTAATATATATATTTTTA-AATATATT
* * *
1083257 TTTAATATATTTATATTTATATATATT
1 TTTAATATATATATTTTTAAATATATT
1083284 TTT-ATATAATATCATTTCTTAAATATATT
1 TTTAATAT-ATAT-ATTT-TTAAATATATT
* *
1083313 TTTAATGTCATATATTTATT---TTTATT
1 TTTAATAT-ATATATTT-TTAAATATATT
* * *
1083339 TATT-AT-TATA-AATTTTATAT-TTTAT
1 T-TTAATATATATATTTTTAAATATAT-T
* * *
1083364 TTTAATATATTTATATTTATATTATTAATT
1 TTTAATATATATATTTTTA-AATA-T-ATT
*
1083394 TTT-ATATAATATCATATTTAAATATATT
1 TTTAATAT-ATAT-ATTTTTAAATATATT
*
1083422 TTTAATGTCATATATTTT
1 TTTAATAT-ATATATTTT
1083440 ATTTTTATTA
Statistics
Matches: 284, Mismatches: 46, Indels: 90
0.68 0.11 0.21
Matches are distributed among these distances:
22 2 0.01
23 3 0.01
24 15 0.05
25 24 0.08
26 28 0.10
27 44 0.15
28 62 0.22
29 58 0.20
30 32 0.11
31 16 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTAATATATATATTTTTAAATATATT
Found at i:1083382 original size:27 final size:27
Alignment explanation
Indices: 1083104--1083603 Score: 113
Period size: 27 Copynumber: 18.1 Consensus size: 27
1083094 TTTTAATATC
1083104 ATATATTTATTATTT-TA-TTTATTTT-
1 ATATATTTA-TATTTATATTTTATTTTA
1083129 ATA-A--TAT-TTTATATTTTATTTTA
1 ATATATTTATATTTATATTTTATTTTA
*
1083152 ATATA-TTATATTT-T-TTATTAATTTTT
1 ATATATTTATATTTATATT-TT-ATTTTA
* * * *
1083178 ATATA-ATATCATTTCTTAAATATATTTTA
1 ATATATTTAT-ATTT-AT-ATTTTATTTTA
1083207 ATATCA--TATATTTAT-TTTTA-TTTA
1 ATAT-ATTTATATTTATATTTTATTTTA
* * *
1083231 TTATTATAATATTTTTATATTTTATTTTTA
1 ATA-TAT-TTATATTTATATTTTA-TTTTA
* *
1083261 ATATATTTATATTTATA-TATATTTTT
1 ATATATTTATATTTATATTTTATTTTA
* * * *
1083287 ATATA-ATATCATTTCTTAAATATATTTTTA
1 ATATATTTAT-ATTT-AT-ATTTTA-TTTTA
*
1083317 ATGTCA--TATATTTAT-TTTTA-TTTA
1 ATAT-ATTTATATTTATATTTTATTTTA
* * *
1083341 TTAT-TATAAATTTTATATTTTATTTTA
1 ATATATTTATA-TTTATATTTTATTTTA
*
1083368 ATATATTTATATTTATATTATTAATTTTT
1 ATATATTTATATTTATATT-TT-ATTTTA
* * *
1083397 ATATAATATCATATTTA-AATATATTTTTA
1 ATAT-AT-TTATATTTATATTTTA-TTTTA
* *
1083426 ATGTCATATAT-TTTAT-TTTTATTATTA
1 ATAT-ATTTATATTTATATTTTATT-TTA
* * * *
1083453 TTATAATTT-TCTATATTTTTTCATTTCTTTA
1 ATAT-ATTTATATTTATATTTT-A--T-TTTA
1083484 ATATATTTTTTATATTATATATTTTATTTTA
1 ATATA---TTTATATT-TATATTTTATTTTA
* * * *
1083515 ATTTGTTT-TATCTATATTATATAAATATTA
1 ATATATTTATATTTATATT-T-T--ATTTTA
* *
1083545 ATTTTTTTATATTT-TATTTTATTTTA
1 ATATATTTATATTTATATTTTATTTTA
*
1083571 ATTTTTATTCT-TATATTATATATTTATTTTA
1 A--TATATT-TATAT-TTATAT-TTTATTTTA
1083602 AT
1 AT
1083604 TATAATATAT
Statistics
Matches: 357, Mismatches: 56, Indels: 120
0.67 0.11 0.23
Matches are distributed among these distances:
20 3 0.01
21 3 0.01
22 10 0.03
23 3 0.01
24 20 0.06
25 21 0.06
26 52 0.15
27 55 0.15
28 46 0.13
29 49 0.14
30 42 0.12
31 38 0.11
32 2 0.01
33 3 0.01
34 3 0.01
35 7 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
ATATATTTATATTTATATTTTATTTTA
Found at i:1083395 original size:110 final size:110
Alignment explanation
Indices: 1083036--1083471 Score: 669
Period size: 109 Copynumber: 4.0 Consensus size: 110
1083026 TTAAAATAAG
* *
1083036 TTTAATATATTATATTTTTTATTATTAATTTTTATATAATATCATTTTTTAAATATATTTTTAAT
1 TTTAATATATTATA-TTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1083101 ATCATATATTTATTATTTTATTTATT-TTATAATATTTTATATTTTAT
65 ATCATATATTTA-T-TTTTATTTATTATTATAATATTTTATATTTTAT
1083148 TTTAATATATTATATTT-T-TTATTAATTTTTATATAATATCATTTCTTAAATATA-TTTTAATA
1 TTTAATATATTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATA
1083210 TCATATATTTATTTTTATTTATTATTATAATATTTTTATATTTTATT
66 TCATATATTTATTTTTATTTATTATTATAATA-TTTTATATTTTA-T
1083257 TTTAATATATTTATATTTATA-TA-T-ATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATA-TTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
1083319 GTCATATATTTATTTTTATTTATTATTATAA-ATTTTATATTTTAT
65 ATCATATATTTATTTTTATTTATTATTATAATATTTTATATTTTAT
*
1083364 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATAT-TTAAATATATTTTTAAT
1 TTTAATATA-TTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
1083428 GTCATATATTTTATTTTTA-TTATTATTATAAT-TTTCTATATTTT
65 ATCATATA-TTTATTTTTATTTATTATTATAATATTT-TATATTTT
1083472 TTCATTTCTT
Statistics
Matches: 308, Mismatches: 3, Indels: 28
0.91 0.01 0.08
Matches are distributed among these distances:
106 11 0.04
107 31 0.10
108 45 0.15
109 117 0.38
110 84 0.27
111 6 0.02
112 14 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (110 bp):
TTTAATATATTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATA
TCATATATTTATTTTTATTTATTATTATAATATTTTATATTTTAT
Found at i:1083399 original size:21 final size:20
Alignment explanation
Indices: 1083109--1083400 Score: 83
Period size: 19 Copynumber: 13.8 Consensus size: 20
1083099 ATATCATATA
*
1083109 TTTATTATTTTAT-TTATT-T
1 TTTAATATTTTATATT-TTAT
*
1083128 TATAATATTTTATATTTTAT
1 TTTAATATTTTATATTTTAT
*
1083148 TTTAATATATTATATTTT-T
1 TTTAATATTTTATATTTTAT
*
1083167 TATTAAT-TTTTATATAATATCATT
1 T-TTAATATTTTATAT--T-TTA-T
**
1083191 TCTTAAATATATTTTAATATCATAT
1 T-TT--A-ATATTTT-ATATTTTAT
1083216 ATTT-AT-TTTTAT-TTATTAT
1 -TTTAATATTTTATATT-TTAT
*
1083235 TATAATATTTTTATATTTTATT
1 TTTAATA-TTTTATATTTTA-T
1083257 TTTAATATATTTATA-TTTA-
1 TTTAATAT-TTTATATTTTAT
* *
1083276 TAT-ATATTTTTATATAATATCATT
1 TTTAATA-TTTTATAT--T-TTA-T
* *
1083300 TCTTAAATATATTTTTAATGTCATAT
1 T-TT-AATAT-TTTAT-AT-T-TTAT
1083326 ATTT-AT-TTTTAT-TTATTAT
1 -TTTAATATTTTATATT-TTAT
*
1083345 TATAA-ATTTTATATTTTAT
1 TTTAATATTTTATATTTTAT
1083364 TTTAATATATTTATATTTATAT
1 TTTAATAT-TTTATATTT-TAT
1083386 TATTAAT-TTTTATAT
1 T-TTAATATTTTATAT
1083401 AATATCATAT
Statistics
Matches: 205, Mismatches: 27, Indels: 80
0.66 0.09 0.26
Matches are distributed among these distances:
18 14 0.07
19 51 0.25
20 33 0.16
21 34 0.17
22 27 0.13
23 6 0.03
24 7 0.03
25 4 0.02
26 7 0.03
27 12 0.06
28 6 0.03
29 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATATTTTATATTTTAT
Found at i:1092462 original size:26 final size:27
Alignment explanation
Indices: 1092433--1092487 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
1092423 GAAACTATAA
1092433 TTATTTTTTATGAATTT-AAAAAATAT
1 TTATTTTTTATGAATTTAAAAAAATAT
*
1092459 TTATTTTTTATTAATTTAAAAAAATAT
1 TTATTTTTTATGAATTTAAAAAAATAT
1092486 TT
1 TT
1092488 TCTTACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTATTTTTTATGAATTTAAAAAAATAT
Found at i:1106559 original size:30 final size:30
Alignment explanation
Indices: 1106505--1106561 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1106495 ATAATTTTAA
*
1106505 TGAGATTGTGATAATTGCCCATTATTTGAT
1 TGAGATTGTGATAATTACCCATTATTTGAT
* *
1106535 TGAGATTGTGATAATTATCTATTATTT
1 TGAGATTGTGATAATTACCCATTATTT
1106562 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (30 bp):
TGAGATTGTGATAATTACCCATTATTTGAT
Found at i:1107068 original size:14 final size:14
Alignment explanation
Indices: 1107032--1107069 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
1107022 ATCTTCTATA
1107032 TATTTCTAAAATAT
1 TATTTCTAAAATAT
1107046 TA-TTCTAAAATAT
1 TATTTCTAAAATAT
*
1107059 TATTTTTAAAA
1 TATTTCTAAAA
1107070 AGTTATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTCTAAAATAT
Found at i:1120909 original size:16 final size:16
Alignment explanation
Indices: 1120888--1120918 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1120878 TTGAACATGG
1120888 TTTTTGAGGCATTTGA
1 TTTTTGAGGCATTTGA
1120904 TTTTTGAGGCATTTG
1 TTTTTGAGGCATTTG
1120919 TTGCTGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTTTGAGGCATTTGA
Found at i:1122384 original size:13 final size:13
Alignment explanation
Indices: 1122366--1122394 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1122356 ATTCTAGCAG
1122366 TGTTTAAGTATGC
1 TGTTTAAGTATGC
1122379 TGTTTAAGTATGC
1 TGTTTAAGTATGC
1122392 TGT
1 TGT
1122395 CTGCAAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (13 bp):
TGTTTAAGTATGC
Found at i:1125119 original size:48 final size:48
Alignment explanation
Indices: 1125048--1125140 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
1125038 TACAAGATAG
1125048 ATCCTATTGCTGAAGCATATGAGATCTTACCCATGCGATCTCTCTCTT
1 ATCCTATTGCTGAAGCATATGAGATCTTACCCATGCGATCTCTCTCTT
*
1125096 ATCCTATTGCTGAAGCATATGAGATCTTACCCATGTGATCTCTCT
1 ATCCTATTGCTGAAGCATATGAGATCTTACCCATGCGATCTCTCT
1125141 TCTCTTGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (48 bp):
ATCCTATTGCTGAAGCATATGAGATCTTACCCATGCGATCTCTCTCTT
Found at i:1131381 original size:19 final size:18
Alignment explanation
Indices: 1131339--1131381 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1131329 ATTTAAAATC
*
1131339 AATAATTAAAAAAATAAT
1 AATAACTAAAAAAATAAT
**
1131357 TTTAACTAAATAAAATAAT
1 AATAACTAAA-AAAATAAT
1131376 AATAAC
1 AATAAC
1131382 ATCAAATATA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAACTAAAAAAATAAT
Found at i:1131607 original size:10 final size:10
Alignment explanation
Indices: 1131592--1131622 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1131582 ACGCAGTTAA
1131592 TTAAACATGT
1 TTAAACATGT
1131602 TTAAACATGT
1 TTAAACATGT
*
1131612 TTAAACGTGT
1 TTAAACATGT
1131622 T
1 T
1131623 ACTCATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (10 bp):
TTAAACATGT
Found at i:1131921 original size:43 final size:43
Alignment explanation
Indices: 1131873--1131958 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
1131863 CAATCAAAAG
*
1131873 TGAAATTATCTTTTTACCTTTGCCACATCATCAACCTAATGAA
1 TGAAATTATCTTTTTACCCTTGCCACATCATCAACCTAATGAA
1131916 TGAAATTATCTTTTTACCCTTGCCACATCATCAACCTAATGAA
1 TGAAATTATCTTTTTACCCTTGCCACATCATCAACCTAATGAA
1131959 AATATTAACG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (43 bp):
TGAAATTATCTTTTTACCCTTGCCACATCATCAACCTAATGAA
Found at i:1132710 original size:7 final size:7
Alignment explanation
Indices: 1132700--1132728 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1132690 AGGTCCAAAC
1132700 TCCAACG
1 TCCAACG
1132707 TCCAACG
1 TCCAACG
1132714 TCCAACG
1 TCCAACG
1132721 TCCAACG
1 TCCAACG
1132728 T
1 T
1132729 AGATATTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.41, G:0.14, T:0.17
Consensus pattern (7 bp):
TCCAACG
Found at i:1132711 original size:14 final size:15
Alignment explanation
Indices: 1132692--1132725 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1132682 GGAAAGAAAG
1132692 GTCCAAAC-TCCAAC
1 GTCCAAACGTCCAAC
1132706 GTCC-AACGTCCAAC
1 GTCCAAACGTCCAAC
1132720 GTCCAA
1 GTCCAA
1132726 CGTAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 14 0.78
15 1 0.06
ACGTcount: A:0.32, C:0.41, G:0.12, T:0.15
Consensus pattern (15 bp):
GTCCAAACGTCCAAC
Found at i:1137194 original size:14 final size:14
Alignment explanation
Indices: 1137175--1137203 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1137165 CACGCATGCT
1137175 TCTAAAAATTGGCC
1 TCTAAAAATTGGCC
1137189 TCTAAAAATTGGCC
1 TCTAAAAATTGGCC
1137203 T
1 T
1137204 ATGGAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (14 bp):
TCTAAAAATTGGCC
Found at i:1158534 original size:19 final size:17
Alignment explanation
Indices: 1158510--1158554 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1158500 AGTCCACCTT
1158510 TTTTTTTTTCTCCTACC
1 TTTTTTTTTCTCCTACC
* *
1158527 TCTCTTTTCTTCTCCTTCC
1 T-T-TTTTTTTCTCCTACC
1158546 TTTTTTTTT
1 TTTTTTTTT
1158555 TTTCTTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 14 0.61
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTTTCTCCTACC
Found at i:1159042 original size:20 final size:20
Alignment explanation
Indices: 1159017--1159062 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1159007 TATAATACAT
*
1159017 ATTTAAGTAATATTTTTAAA
1 ATTTAAGTAATATTTATAAA
*
1159037 ATTTAATTAATATTTATAAA
1 ATTTAAGTAATATTTATAAA
1159057 ATTTAA
1 ATTTAA
1159063 ATATCTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTAAGTAATATTTATAAA
Found at i:1159816 original size:18 final size:18
Alignment explanation
Indices: 1159793--1159873 Score: 90
Period size: 18 Copynumber: 4.3 Consensus size: 18
1159783 TGGTGGCAGC
1159793 GGTGGCCCTGGCGGTATT
1 GGTGGCCCTGGCGGTATT
1159811 GGTGGCCCTGGCGGTAGTT
1 GGTGGCCCTGGCGGTA-TT
* * *
1159830 GGTGGTCCTGGTGGCAATGGT
1 GGTGGCCCTGGCGG-TAT--T
*
1159851 GGTGGCCCTGGCGGTAAT
1 GGTGGCCCTGGCGGTATT
1159869 GGTGG
1 GGTGG
1159874 TGGTGGCCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 22 0.42
19 15 0.29
20 2 0.04
21 13 0.25
ACGTcount: A:0.07, C:0.19, G:0.48, T:0.26
Consensus pattern (18 bp):
GGTGGCCCTGGCGGTATT
Found at i:1159855 original size:21 final size:21
Alignment explanation
Indices: 1159829--1159877 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1159819 TGGCGGTAGT
*
1159829 TGGTGGTCCTGGTGGCAATGG
1 TGGTGGTCCTGGCGGCAATGG
* *
1159850 TGGTGGCCCTGGCGGTAATGG
1 TGGTGGTCCTGGCGGCAATGG
1159871 TGGTGGT
1 TGGTGGT
1159878 GGCCAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.08, C:0.14, G:0.49, T:0.29
Consensus pattern (21 bp):
TGGTGGTCCTGGCGGCAATGG
Found at i:1169514 original size:2 final size:2
Alignment explanation
Indices: 1169507--1169537 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1169497 AGTCCATGGG
1169507 AT AT AT 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 AT AT AT A
1169538 ATTAACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1170848 original size:16 final size:15
Alignment explanation
Indices: 1170827--1170872 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
1170817 GTTTTTAGTA
1170827 TTTTTTTATCTTCTA-T
1 TTTTTTTAT-TTC-ACT
1170843 TTTTTTTATTTCAC-
1 TTTTTTTATTTCACT
1170857 TTTTTTT-TTTCACT
1 TTTTTTTATTTCACT
1170871 TT
1 TT
1170873 CTATATTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.21
14 10 0.36
15 3 0.11
16 9 0.32
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTATTTCACT
Found at i:1170909 original size:14 final size:13
Alignment explanation
Indices: 1170843--1170909 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
1170833 TATCTTCTAT
*
1170843 TTTTTTTATTTCAC
1 TTTTTTT-TTTCTC
*
1170857 TTTTTTTTTTCAC
1 TTTTTTTTTTCTC
* * *
1170870 TTTCTATATTCTC
1 TTTTTTTTTTCTC
1170883 TTTCTTTTTTTCTC
1 TTT-TTTTTTTCTC
1170897 TTTTTTTCTTTCT
1 TTTTTTT-TTTCT
1170910 TTTCTTCCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 22 0.50
14 22 0.50
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:1170909 original size:22 final size:21
Alignment explanation
Indices: 1170881--1170921 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1170871 TTCTATATTC
*
1170881 TCTTTCTTTTTTTCTCTTTTTT
1 TCTTTCTTTTCTTC-CTTTTTT
1170903 TCTTTCTTTTCTTCCTTTT
1 TCTTTCTTTTCTTCCTTTT
1170922 CTATCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTTCTTTTCTTCCTTTTTT
Found at i:1174738 original size:33 final size:33
Alignment explanation
Indices: 1174701--1174770 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1174691 ATCACACCAT
* *
1174701 TATCAATTATGATATATCAACATGTCATGTCAC
1 TATCAATTATGACATATCAACATATCATGTCAC
* * *
1174734 TATCAATTATGACATTTCAATATATCATGTCAG
1 TATCAATTATGACATATCAACATATCATGTCAC
1174767 TATC
1 TATC
1174771 TAAGATATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.39
Consensus pattern (33 bp):
TATCAATTATGACATATCAACATATCATGTCAC
Found at i:1175349 original size:55 final size:55
Alignment explanation
Indices: 1175288--1175396 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
1175278 AGTAAATTAT
*
1175288 GCATTTTGATGCTTGAATGATTGTGAAATATACAAATTGGTATATTATAAATAAC
1 GCATTTTGATGCTTGAATGATTGTGAAATATACAAATTGGTACATTATAAATAAC
* *
1175343 GCATTTTGTTGCTTGAATTATTGTGAAATATACAAATTGGTACATTATAAATAA
1 GCATTTTGATGCTTGAATGATTGTGAAATATACAAATTGGTACATTATAAATAA
1175397 TGTACAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (55 bp):
GCATTTTGATGCTTGAATGATTGTGAAATATACAAATTGGTACATTATAAATAAC
Found at i:1179314 original size:2 final size:2
Alignment explanation
Indices: 1179307--1179339 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1179297 CAAACATTAG
*
1179307 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1179340 TATTACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1181890 original size:13 final size:14
Alignment explanation
Indices: 1181872--1181902 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1181862 TTTTGAGATG
1181872 TAAAATTTT-TAAT
1 TAAAATTTTGTAAT
1181885 TAAAATTTTGTAAT
1 TAAAATTTTGTAAT
1181899 TAAA
1 TAAA
1181903 TTCTTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAAATTTTGTAAT
Found at i:1181912 original size:14 final size:14
Alignment explanation
Indices: 1181872--1181912 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
1181862 TTTTGAGATG
1181872 TAAAATTTT-TAAT
1 TAAAATTTTCTAAT
*
1181885 TAAAATTTTGTAAT
1 TAAAATTTTCTAAT
1181899 T-AAATTCTTCTAAT
1 TAAAATT-TTCTAAT
1181913 ATTTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (14 bp):
TAAAATTTTCTAAT
Found at i:1189589 original size:190 final size:188
Alignment explanation
Indices: 1189292--1189639 Score: 509
Period size: 190 Copynumber: 1.8 Consensus size: 188
1189282 AATAATTTTT
* * * * *
1189292 AACTGTTGTGATTTTGAAAAGAATGACTAAATTTTATAATAATTTTAAAAAAACGATGAGGATAA
1 AACTATTGTGATTTTGAAAAGAA-GACTAAATTTCACAATAATTTTAAAAAAACAATCAGGATAA
* ** *
1189357 ATTTGAAATAATTTATAAAATCAAGAGATTAAACTGTTACGATTTTGAATAAAAAAAATAAATCA
65 AATTGAAATAATCCATAAAATAAAGAGATTAAACTGTTACGATTTTGAATAAAAAAAATAAATCA
1189422 ACAGACTAAACTGTTACGATTTTGAATAAAGTGATTGAAGAAAACAAATCAAGGGATTA
130 ACAGACTAAACTGTTACGATTTTGAATAAAGTGATTGAAGAAAACAAATCAAGGGATTA
* *
1189481 AACTATTGTGATTTTGAATAGAGAA-ACTAAATTTCACAATAATTTTGGAGAAAACAATCAGGAT
1 AACTATTGTGATTTTGAA-A-AGAAGACTAAATTTCACAATAATTTT-AAAAAAACAATCAGGAT
* * *
1189545 AAAATTGAAATAATCCCTAAAATAAAGAGATTAAACTGTTACGATTTTGAATAAATATAATAAAT
63 AAAATTGAAATAATCCATAAAATAAAGAGATTAAACTGTTACGATTTTGAATAAAAAAAATAAAT
* *
1189610 CAAGAGATTAAACTGTTACGATTTTGAATA
128 CAACAGACTAAACTGTTACGATTTTGAATA
1189640 GAATGACTAA
Statistics
Matches: 140, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
189 36 0.26
190 100 0.71
191 4 0.03
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (188 bp):
AACTATTGTGATTTTGAAAAGAAGACTAAATTTCACAATAATTTTAAAAAAACAATCAGGATAAA
ATTGAAATAATCCATAAAATAAAGAGATTAAACTGTTACGATTTTGAATAAAAAAAATAAATCAA
CAGACTAAACTGTTACGATTTTGAATAAAGTGATTGAAGAAAACAAATCAAGGGATTA
Found at i:1189681 original size:68 final size:68
Alignment explanation
Indices: 1189606--1189775 Score: 322
Period size: 68 Copynumber: 2.5 Consensus size: 68
1189596 TAAATATAAT
1189606 AAATCAAGAGATTAAACTGTTACGATTTTGAATAGAATGACTAAAAAACAAAATTGATCTAATTT
1 AAATCAAGAGATTAAACTGTTACGATTTTGAATAGAATGACTAAAAAACAAAATTGATCTAATTT
1189671 ATA
66 ATA
* *
1189674 AAATCAAGAGATTAAACTGTTACGATTTTGAATAGAATGACTAAAGAACAAAATTGATGTAATTT
1 AAATCAAGAGATTAAACTGTTACGATTTTGAATAGAATGACTAAAAAACAAAATTGATCTAATTT
1189739 ATA
66 ATA
1189742 AAATCAAGAGATTAAACTGTTACGATTTTGAATA
1 AAATCAAGAGATTAAACTGTTACGATTTTGAATA
1189776 AAGAGATTAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 100 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (68 bp):
AAATCAAGAGATTAAACTGTTACGATTTTGAATAGAATGACTAAAAAACAAAATTGATCTAATTT
ATA
Found at i:1192700 original size:98 final size:98
Alignment explanation
Indices: 1192531--1192814 Score: 514
Period size: 98 Copynumber: 2.9 Consensus size: 98
1192521 GATTCACGTC
1192531 GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
1 GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
1192596 GGACGTAGCAAGCAAATTGGTGTTGTCCAGTGT
66 GGACGTAGCAAGCAAATTGGTGTTGTCCAGTGT
1192629 GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
1 GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
1192694 GGACGTAGCAAGCAAATTGGTGTTGTCCAGTGT
66 GGACGTAGCAAGCAAATTGGTGTTGTCCAGTGT
* * *
1192727 GTGATTCTTAGCTTATAGCTGGCTTGCATCATTCCATTAAATATGAACGCAACATGCATTGAATT
1 GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
* * *
1192792 GGACATAGTAAGCAAGTTGGTGT
66 GGACGTAGCAAGCAAATTGGTGT
1192815 CGTCGAGTCT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 180 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (98 bp):
GTGATTCTTAGCTTATAGTTGGCTTGAATCATTCCATTAAATTTGAACGCAACATGCATTGAATT
GGACGTAGCAAGCAAATTGGTGTTGTCCAGTGT
Found at i:1199477 original size:5 final size:5
Alignment explanation
Indices: 1199464--1199493 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1199454 TTAAAAATAG
*
1199464 ATAAT ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1199494 TAGTGTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:1200164 original size:22 final size:25
Alignment explanation
Indices: 1200139--1200190 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 25
1200129 CCGTACAAAT
*
1200139 TTTCCTTTGT-ATCTAAATA-CT-A
1 TTTCCTTTGTAAGCTAAATACCTCA
*
1200161 TTT-CTTTTTAAGCTAAATACCTCA
1 TTTCCTTTGTAAGCTAAATACCTCA
1200185 TTTCCT
1 TTTCCT
1200191 AATTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 5 0.21
22 11 0.46
23 2 0.08
24 4 0.17
25 2 0.08
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTCCTTTGTAAGCTAAATACCTCA
Found at i:1201777 original size:20 final size:19
Alignment explanation
Indices: 1201744--1201785 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1201734 CAGGCGTCTC
*
1201744 ATTTTTTTTATTATGATTT
1 ATTTATTTTATTATGATTT
*
1201763 ATTTATTTTATTTATTATTT
1 ATTTATTTTA-TTATGATTT
1201783 ATT
1 ATT
1201786 ATTATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTATTTTATTATGATTT
Done.