Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 152 of 185
Found at i:46898790 original size:24 final size:24
Alignment explanation
Indices: 46898737--46898791 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
46898727 GACATGAGTA
*
46898737 TGTGAGACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
46898761 TGTGATACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
46898785 TGTGATA
1 TGTGATA
46898792 ACTGTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (24 bp):
TGTGATACAATTGATTAAGGACGG
Found at i:46899849 original size:56 final size:55
Alignment explanation
Indices: 46899763--46899871 Score: 191
Period size: 56 Copynumber: 2.0 Consensus size: 55
46899753 TGTATCCATT
* *
46899763 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAATGCTCATGAATAATT-AATTTGTA
46899819 AGATGATAAATCATCACTTTTAATTTGAATAATGCTCATGAATAATTAATTTG
1 AGATGATAAATCATCACTTTTAATTTGAATAATGCTCATGAATAATTAATTTG
46899872 CAATCTATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 6 0.12
56 45 0.88
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTGAATAATGCTCATGAATAATTAATTTGTA
Found at i:46901878 original size:126 final size:125
Alignment explanation
Indices: 46901643--46902204 Score: 650
Period size: 126 Copynumber: 4.5 Consensus size: 125
46901633 AAATCAAAGG
* * * * * * * *
46901643 AGGATGATTTATCAGAA-AGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAAAGTAGG
1 AGGATGCTTTATGAGAAGA-ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
*
46901707 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
65 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
* * *
46901768 AGGATGTTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGT
* * * *
46901833 CCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAGCGCTTCAAGC
66 CCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
* * * *
46901894 AGGGTGCTTTATAAGAAGAATTTGTGAAGTCGCG-CCTATGTGGACGCGCTTTTGCTACA-TTAG
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT-CGTGGACGCGCTTTTGCTACAGTT-G
* ** * * * * *
46901957 GTCCT-AAAAAAGTAATTTTAAGTTTACGTTTCTGAGTAAATAGTATAAAATAACACTGCAAGC
64 GTCCTGGAAAAA-TAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTCAAGC
** *
46902020 AACATGCTATT-TGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
1 AGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
* * * * **
46902084 TCTTGGAAAAATAATTTTGACTTGACGTTTCTGAACAAATAGTAT-AAAATCGCTTTTAGC
65 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
* * * *
46902144 AGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGTTTTTGCTACAGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
46902205 AACATGTTTG
Statistics
Matches: 370, Mismatches: 56, Indels: 23
0.82 0.12 0.05
Matches are distributed among these distances:
123 2 0.01
124 61 0.16
125 102 0.28
126 193 0.52
127 12 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (125 bp):
AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGT
CCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
Found at i:46902111 original size:251 final size:250
Alignment explanation
Indices: 46901662--46902205 Score: 716
Period size: 251 Copynumber: 2.2 Consensus size: 250
46901652 TATCAGAAAG
* * * * *
46901662 ATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAAAGTAGGTCCTGGAAAAATAATTTCGA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAA
* * * ** *
46901727 CTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCAGGATGTTTTGTGAGAAGAATTTG
66 CTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGCAACATGTATTGTGAGAAGAATTTG
*
46901792 TGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTG
131 TGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGACTTG
* * * * *
46901857 ACGTTTTTGAGCAAATAGTTTAAAAAGCGCTTCAAGCAGGGTGCTTTATAAGAAGA
196 ACGTTTCTGAACAAATAGTAT-AAAAGCGCTTCAAGCAGGATACTTTATAAGAAGA
* * * *
46901913 ATTTGTGAAGTCGCGCCTATGTGGACGCGCTTTTGCTACATTAGGTCCT-AAAAAAGTAATTTTA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAA-TAATTTCA
* * * *
46901977 AGTTTACGTTTCTGAGTAAATAGTATAAAATAACACTGCAAGCAACATGCTATT-TGATAAGAAT
65 ACTTGACGTTTCTGAGCAAATAGTATAAAA-AACACTGCAAGCAACATG-TATTGTGAGAAGAAT
* * *
46902041 TTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCTTGGAA-AAATAATTTTGAC
128 TTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAC
* ** *
46902105 TTGACGTTTCTGAACAAATAGTATAAAATCGCTTTTAGCAGGATACTTTATGAGAAGA
193 TTGACGTTTCTGAACAAATAGTATAAAAGCGCTTCAAGCAGGATACTTTATAAGAAGA
* * *
46902163 ATTTGTGAAATCGCGCCCACGTAGACGCGTTTTTGCTACAGTA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
46902206 ACATGTTTGG
Statistics
Matches: 252, Mismatches: 38, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
250 70 0.28
251 107 0.42
252 72 0.29
253 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (250 bp):
ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAA
CTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGCAACATGTATTGTGAGAAGAATTTG
TGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGACTTG
ACGTTTCTGAACAAATAGTATAAAAGCGCTTCAAGCAGGATACTTTATAAGAAGA
Found at i:46905421 original size:22 final size:22
Alignment explanation
Indices: 46905380--46906257 Score: 769
Period size: 21 Copynumber: 40.0 Consensus size: 22
46905370 TCAAATTATA
46905380 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46905401 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905423 TTAAAGTTAAGAGTATAGGGTTT
1 TTTAAGTTAAGGGTTTAGGG-TT
* *
46905446 TAAAGTTAATGGTTTAGGGTTTAGGGGT
1 T----TTAA--GTTAAGGGTTTAGGGTT
* *
46905474 TTTAATTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905495 TTTAAGTTAACGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46905517 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905539 TTAAAGTT-ATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905560 TTTAGGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905581 TTTAGGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905603 TTTAATTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46905624 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905646 TTTAAGTTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905668 CTAAAATTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905689 TTCAGGTTAAGGG-TTAGGGTG
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
46905710 TTTAGGTTAAGTGTTTAAAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905732 TTTAATTTAA-GGATTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46905753 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905775 TTTAAGTTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905797 TTAAAGTTAA-GGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905818 TTTAGGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905839 TTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905861 TTT-ACTTTAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905881 TTTAAGTTAAGGGTTCAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
46905902 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46905924 TTAAAGTTAA-GGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905944 TTTAGGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46905965 TTTAGGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46905987 TTTAATTTAAGGG-CTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46906008 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46906030 TTTAGGTTAAGGGTCTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
46906051 TTTAACGTTAA-GGTTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
* *
46906073 TTCAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46906094 TTAAAGTTAATGG-TTAGGGTTTT
1 TTTAAGTTAAGGGTTTAGGG--TT
*
46906117 TCGGTTAAGAATTTAGGG-TTAGGGTT
1 T---TTAAG--TTAAGGGTTTAGGGTT
* *
46906143 TTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
46906165 TTAAAGTTAAGGG-TTAATGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46906186 TTTAGGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAA-GGGTTTAGGGTT
46906208 TTTAAGTTAAGGGTGAGGATTAGGGTT
1 TTTAAGTTAAGGGT-----TTAGGGTT
* *
46906235 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46906257 T
1 T
46906258 GTGAATTAAA
Statistics
Matches: 690, Mismatches: 124, Indels: 85
0.77 0.14 0.09
Matches are distributed among these distances:
20 25 0.04
21 306 0.44
22 288 0.42
23 13 0.02
24 4 0.01
26 12 0.02
27 17 0.02
28 13 0.02
29 12 0.02
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:46905447 original size:43 final size:42
Alignment explanation
Indices: 46905380--46906221 Score: 741
Period size: 43 Copynumber: 19.3 Consensus size: 42
46905370 TCAAATTATA
46905380 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
* * *
46905423 TTAAAGTTAAGAGTATAGGGTTTTAAAGTTAATGGTTTAGGGTTTAGGGGT
1 TTTAAGTTAAGGGT-TAGGGTTTT-AAGTT-A------AGGGTTTAGGGTT
* * * *
46905474 TTTAATTTAAGAGTTAGGGTTTTTAAGTTAACGATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
*
46905517 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTT-ATGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTT-AAGTTAAGGGTTTAGGGTT
* * * *
46905560 TTTAGGTTAAGGGTTAGTGTTTTTAGGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAG-GGTTTTAAGTTAAGGGTTTAGGGTT
* *
46905603 TTTAATTTAATGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
* * *
46905646 TTTAAGTTAAAGGTCTAGGGTTCTAAAATTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT-TTAAGTTAAGGGTTTAGGGTT
* * * * **
46905689 TTCAGGTTAAGGGTTAGGGTGTTTAGGTTAAGTGTTTAAAGTT
1 TTTAAGTTAAGGGTTAGGGT-TTTAAGTTAAGGGTTTAGGGTT
* * *
46905732 TTTAATTTAAGGATTGGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
* *
46905775 TTTAAGTTAAGGGTCTAAGGTTTTAAAGTTAA-GGTTTTGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTT-AAGTTAAGGGTTTAGGGTT
* * * *
46905818 TTTAGGTTAAGGGTTAGGATTTTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGG-GTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
46905861 TTT-ACTTTAGGGCTAGGGTTTTTAAGTTAAGGGTTCAAGG-T
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
46905902 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAA-GGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTTTT-AAGTTAAGGGTTTAGGGTT
* * * *
46905944 TTTAGGTTAAGTGTTAGGGTTTTTAGGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
* * * *
46905987 TTTAATTTAAGGGCTAGAGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAG-GGTTTTAAGTTAAGGGTTTAGGGTT
*
46906030 TTTAGGTTAAGGGTCTAGGGTTTTAACGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTAA-GTTAAGGGTTTAGGGTT
* * *
46906073 TTCAGGTTAAGGGTTAGGGTTTTAAAGTTAATGG-TTAGGGTTTT
1 TTTAAGTTAAGGGTTAGGGTTTT-AAGTTAAGGGTTTAGGG--TT
* * *
46906117 TCGGTTAAGAATTTAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGTGTT
1 T---TTAAG--TTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
* * * * *
46906165 TTAAAGTTAAGGGTTAATGTTTTTAGGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAAGGGTT-AGGGTTTTAAGTTAA-GGGTTTAGGGTT
46906208 TTTAAGTTAAGGGT
1 TTTAAGTTAAGGGT
46906222 GAGGATTAGG
Statistics
Matches: 651, Mismatches: 101, Indels: 94
0.77 0.12 0.11
Matches are distributed among these distances:
41 16 0.02
42 119 0.18
43 371 0.57
44 66 0.10
45 5 0.01
47 3 0.00
48 3 0.00
49 21 0.03
50 19 0.03
51 28 0.04
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTTAGGGTT
Found at i:46905483 original size:29 final size:29
Alignment explanation
Indices: 46905440--46905495 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
46905430 TAAGAGTATA
46905440 GGGTTTTAAAGTTAATG-GTTTAGGGTTTAG
1 GGGTTTTAAAGTTAA-GAG-TTAGGGTTTAG
*
46905470 GGGTTTT-AATTTAAGAGTTAGGGTTT
1 GGGTTTTAAAGTTAAGAGTTAGGGTTT
46905496 TTAAGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.42
29 7 0.29
30 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
GGGTTTTAAAGTTAAGAGTTAGGGTTTAG
Found at i:46905504 original size:72 final size:73
Alignment explanation
Indices: 46905389--46905539 Score: 209
Period size: 72 Copynumber: 2.1 Consensus size: 73
46905379 ATTTAAGTTA
* *
46905389 AGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAA-GAGTATAGGGTTTTAAAGT
1 AGGGTTTAGGGGTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAACGA-TATAGGGTTTTAAAGT
*
46905452 TAATGGTTT
65 TAAGGGTTT
* * * *
46905461 AGGGTTTAGGGGTTTTAATTTAAGAG-TTAGGGTTTTTAAGTTAACGATTTAGGGTTTTTAAGTT
1 AGGGTTTAGGGGTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAACGATATAGGGTTTTAAAGTT
46905525 AAGGGTTT
66 AAGGGTTT
46905533 AGGGTTT
1 AGGGTTT
46905540 TAAAGTTATG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 50 0.71
73 20 0.29
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (73 bp):
AGGGTTTAGGGGTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAACGATATAGGGTTTTAAAGTT
AAGGGTTT
Found at i:46906187 original size:71 final size:70
Alignment explanation
Indices: 46906065--46906196 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 70
46906055 ACGTTAAGGT
* * *
46906065 TTAGGGTTTTCAGGTTAAGGGTTAGGGTTTTAAAGTTAATGGTTAGGGTTTTTCGGTTAAGAATT
1 TTAGGGTTTTCAGGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTAAGGTTTTTAGGTTAAGAATT
46906130 TAGGG
66 TAGGG
* * *
46906135 TTAGGGTTTTTAGGTTAAGGGTTTAGTGTTTTAAAGTTAAGGGTTAATGTTTTTAGGTTAAG
1 TTAGGGTTTTCAGGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTAAGGTTTTTAGGTTAAG
46906197 GGGTTAAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
70 20 0.36
71 35 0.64
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (70 bp):
TTAGGGTTTTCAGGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTAAGGTTTTTAGGTTAAGAATT
TAGGG
Found at i:46907463 original size:7 final size:7
Alignment explanation
Indices: 46907453--46907527 Score: 150
Period size: 7 Copynumber: 10.7 Consensus size: 7
46907443 TTATATACAT
46907453 AATACTA
1 AATACTA
46907460 AATACTA
1 AATACTA
46907467 AATACTA
1 AATACTA
46907474 AATACTA
1 AATACTA
46907481 AATACTA
1 AATACTA
46907488 AATACTA
1 AATACTA
46907495 AATACTA
1 AATACTA
46907502 AATACTA
1 AATACTA
46907509 AATACTA
1 AATACTA
46907516 AATACTA
1 AATACTA
46907523 AATAC
1 AATAC
46907528 CAATCGACTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:46907733 original size:20 final size:20
Alignment explanation
Indices: 46907696--46907733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46907686 TTTATTTTTA
*
46907696 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
46907716 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
46907734 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:46908745 original size:11 final size:11
Alignment explanation
Indices: 46908745--46908806 Score: 90
Period size: 11 Copynumber: 5.6 Consensus size: 11
46908735 GAGAGAAATT
46908745 TTGA-AGGAAA
1 TTGAGAGGAAA
46908755 TTGAGAGGAAA
1 TTGAGAGGAAA
46908766 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
46908777 TTCAGAAGAAA
1 TTGAGAGGAAA
46908788 TTGAGAGGAAA
1 TTGAGAGGAAA
46908799 TTTGAGAG
1 -TTGAGAG
46908807 AGTATTAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.09
11 35 0.76
12 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.21
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:46908753 original size:51 final size:51
Alignment explanation
Indices: 46908672--46908769 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
46908662 AATTATTTAA
* *
46908672 AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTTAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
* * * *
46908723 AAATATGGATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGGAAATTGAGAGCAAATTGA
46908770 GAGGAAATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
Found at i:46908758 original size:22 final size:21
Alignment explanation
Indices: 46908733--46908807 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 21
46908723 AAATATGGAT
46908733 TTGAGAGAAATTTTGA-AGGAAA
1 TTGAGAGAAA--TTGAGAGGAAA
46908755 TTGAGAGGAAATTGAGAGGAAA
1 TTGAGA-GAAATTGAGAGGAAA
*
46908777 TTCAGAAGAAATTGAGAGGAAA
1 TTGAG-AGAAATTGAGAGGAAA
46908799 TTTGAGAGA
1 -TTGAGAGA
46908808 GTATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.09
22 34 0.72
23 9 0.19
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.23
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:46908770 original size:33 final size:33
Alignment explanation
Indices: 46908731--46908807 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
46908721 ATAAATATGG
**
46908731 ATTTGAGAGAAATTTTGAAGGAAATTGAGAGGAA
1 ATTTGAGAGAAATTCAGAA-GAAATTGAGAGGAA
46908765 A-TTGAGAGGAAATTCAGAAGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTCAGAAGAAATTGAGAGGAA
46908798 ATTTGAGAGA
1 ATTTGAGAGA
46908808 GTATTAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 23 0.59
34 16 0.41
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (33 bp):
ATTTGAGAGAAATTCAGAAGAAATTGAGAGGAA
Found at i:46911188 original size:93 final size:93
Alignment explanation
Indices: 46911021--46911257 Score: 298
Period size: 93 Copynumber: 2.5 Consensus size: 93
46911011 TTACTCTAAA
* * * * *
46911021 TACAAGTTGTTCTAAACAATGATTGTTCTAAACATAACTATTCCCGGAACACTATTGTTCTAAAA
1 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
46911086 AAGAGTTGTTTCAAACTTTAATTGTTAT
66 AAGAGTTGTTTCAAACTTTAATTGTTAT
*
46911114 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAT
1 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
* ** *
46911179 AAGATTTGTTTTGAACTTTAGTTGTTAT
66 AAGAGTTGTTTCAAACTTTAATTGTTAT
* * *
46911207 AACTAAAGTCCTGTTCTAAAC-AT-ATCTATTCTAGATATAACTATTCTCGAA
1 TAC-AAA-T--TGTTCTAAACAATGAT-TGTTCTAAATATAACTATTCTCGAA
46911258 CAACAATTGT
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
93 85 0.67
94 3 0.02
95 3 0.02
96 25 0.20
97 10 0.08
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (93 bp):
TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
AAGAGTTGTTTCAAACTTTAATTGTTAT
Found at i:46912969 original size:23 final size:22
Alignment explanation
Indices: 46912942--46913565 Score: 268
Period size: 23 Copynumber: 26.8 Consensus size: 22
46912932 ACTACATATT
46912942 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
46912965 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
*
46912988 ACAAAATTT-GACAGCATTGATTC
1 AC-AAATTTGGACAGCATT-ATAC
* * * *
46913011 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
46913035 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
46913058 ACAAAATAT-AACAGCATGTATGTAC
1 AC-AAATTTGGACAGCAT-TA--TAC
* *
46913083 A-AAATTT-GACAGCATTGCTTC
1 ACAAATTTGGACAGCATT-ATAC
* * *
46913104 ACCAAAATTGGGCAGCATACATAC
1 A-CAAATTTGGACAGCAT-TATAC
46913128 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
46913151 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
* *
46913174 ACAAAATTGGACAGCATTGATTC
1 ACAAATTTGGACAGCATT-ATAC
* * * *
46913197 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
46913221 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
46913244 ACAATATAT-AACAGCATGTATAT
1 ACAA-ATTTGGACAGCAT-TATAC
* *
46913267 ACAAAATTGGACAACATTTATTCAC
1 ACAAATTTGGACAGCA-TTA-T-AC
* * *
46913292 CCAAAATTAGG-CAGCATACATAC
1 AC-AAATTTGGACAGCAT-TATAC
46913315 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
46913338 ACAAAATTT-AACAGCATGTACAT
1 AC-AAATTTGGACAGCAT-TATAC
* *
46913361 ACAAAATTGGACAGCATTGATTC
1 ACAAATTTGGACAGCATT-ATAC
* * * *
46913384 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
*
46913408 ACAAAATTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
46913431 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
46913454 ACAAAATTT-GACAGCATTTATTCAC
1 AC-AAATTTGGACAGCA-TTA-T-AC
* * * *
46913479 CCAAAATTAGG-CAGCATACATAA
1 AC-AAATTTGGACAGCAT-TATAC
46913502 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
46913525 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
46913548 ACAAAATTT-GACAGCATT
1 AC-AAATTTGGACAGCATT
46913566 GATTTATCAA
Statistics
Matches: 456, Mismatches: 93, Indels: 105
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.01
22 38 0.08
23 277 0.61
24 106 0.23
25 25 0.05
26 7 0.02
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (22 bp):
ACAAATTTGGACAGCATTATAC
Found at i:46913045 original size:93 final size:93
Alignment explanation
Indices: 46912934--46913595 Score: 1081
Period size: 93 Copynumber: 7.1 Consensus size: 93
46912924 CTAACTATAC
46912934 TACATATTACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
1 TACATA-TACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
46912999 CAGCATTGATTCACCAAAATTGGGCAGCA
65 CAGCATTGATTCACCAAAATTGGGCAGCA
*
46913028 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATGTACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
*
46913093 AGCATTGCTTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* * *
46913121 TACATACACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
46913186 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* *
46913214 TACATATACAAATTTGGACAGCACTTATACACAATATATAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* * *
46913279 AACATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * * * *
46913308 TACATACACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTACATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
46913373 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
*
46913401 TACATATACAAAATTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
46913466 AGCATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * *
46913495 TACATAAACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
46913560 AGCATTGATTTATCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
*
46913588 TACCTATA
1 TACATATA
46913596 ACAATTGGGC
Statistics
Matches: 527, Mismatches: 39, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
93 350 0.66
94 177 0.34
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (93 bp):
TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
AGCATTGATTCACCAAAATTGGGCAGCA
Found at i:46913384 original size:187 final size:187
Alignment explanation
Indices: 46912942--46913595 Score: 1139
Period size: 187 Copynumber: 3.5 Consensus size: 187
46912932 ACTACATATT
* *
46912942 ACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
46913007 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
* ** *
46913072 CATGTATGTACAAAATTTGACAGCATTGCTTCA-CCAAAATTGGGCAGCATACATAC
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
46913128 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
*
46913193 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAATATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
* *
46913258 CATGTATATACAAAATTGGACAACATTTATTCACCCAAAATTAGGCAGCATACATAC
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
* *
46913315 ACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTACATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
*
46913380 ATTCACCAAAATTGGGCAGCATACATATACAAAATTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
*
46913445 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAA
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
* *
46913502 ACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
* * *
46913567 ATTTATCAAAATTGGGCAGCATACCTATA
66 ATTCACCAAAATTGGGCAGCATACATATA
46913596 ACAATTGGGC
Statistics
Matches: 446, Mismatches: 21, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
186 155 0.35
187 291 0.65
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (187 bp):
ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
Found at i:46914366 original size:28 final size:28
Alignment explanation
Indices: 46914334--46914488 Score: 193
Period size: 28 Copynumber: 5.5 Consensus size: 28
46914324 ATTTAATAAG
* * *
46914334 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* *
46914362 CTCGCACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* *
46914390 CTCGCACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
46914418 CTCGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* * * *
46914446 CTCACGCACTTAGTGCTTTATAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* *
46914474 TTCACACACTTAGTG
1 CTCGCACACTTAGTG
46914489 TCAAAAATCA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 114 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCTACAATTAAA
Found at i:46914482 original size:84 final size:84
Alignment explanation
Indices: 46914334--46914488 Score: 229
Period size: 84 Copynumber: 1.8 Consensus size: 84
46914324 ATTTAATAAG
* * * *
46914334 CTCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTTACCATTAAACTCGCACAC
1 CTCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTGCTTTACAATTAAACTCACACAC
46914399 TTAGTGCTTTACCATTAAA
66 TTAGTGCTTTACCATTAAA
* * * * *
46914418 CTCGCACACTTAGTGCTCTACAATTAAACTCACGCACTTAGTGCTTTATAATTAAATTCACACAC
1 CTCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTGCTTTACAATTAAACTCACACAC
46914483 TTAGTG
66 TTAGTG
46914489 TCAAAAATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (84 bp):
CTCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTGCTTTACAATTAAACTCACACAC
TTAGTGCTTTACCATTAAA
Found at i:46924789 original size:28 final size:28
Alignment explanation
Indices: 46924749--46924805 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
46924739 ATTTAACCGA
46924749 TAATTTATTTTGGTAAGCTAAAGATCGC
1 TAATTTATTTTGGTAAGCTAAAGATCGC
46924777 TAATTTATTTTGGTAAGCTAAAGATCGC
1 TAATTTATTTTGGTAAGCTAAAGATCGC
46924805 T
1 T
46924806 CACCGCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (28 bp):
TAATTTATTTTGGTAAGCTAAAGATCGC
Found at i:46927344 original size:41 final size:40
Alignment explanation
Indices: 46927273--46927573 Score: 207
Period size: 41 Copynumber: 7.4 Consensus size: 40
46927263 ATTTTTAAAC
* * *
46927273 CTTTAGCGGCGTTTTTATTTTAGTGCCACTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCT-CGAT
* * * * *
46927314 CTTTAGCGGTGTTTTTATCTGAGCGTCACTAATGT-TCTAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAAT-TCTCGA-T
* * *
46927355 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTCG-AT
* * * * * *
46927396 CATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTC-GAT
* *
46927437 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGT-G-T
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACT-AA-TTC-TCGAT
* ** * * **
46927478 TTTTAATGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTC-GAT
* * * *
46927519 CTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCT--AC
1 CTTTAGCGGCGTTTT-TATCTAAGCGCCACTAATTCTCGAT
46927558 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
46927574 CCGAAGCGCC
Statistics
Matches: 204, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
38 2 0.01
39 18 0.09
40 5 0.02
41 152 0.75
42 23 0.11
43 3 0.01
44 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTCGAT
Found at i:46927420 original size:82 final size:80
Alignment explanation
Indices: 46927272--46927555 Score: 300
Period size: 82 Copynumber: 3.5 Consensus size: 80
46927262 GATTTTTAAA
* * * * * * *
46927272 CCTTTAGCGGCGTTTTTATTTTAGTGCCACTAATTCTCCG-ATCTTTAGCGGTGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
*
46927336 GCGTCACTAATGTTCTAG
65 GCGCCACTAAT-TTCT-G
* * * *
46927354 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
46927419 CGCCACTAATTCTCTG
66 CGCCACTAATT-TCTG
* * * * * * *
46927435 TTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAATGGCGTTTTTATCTGA
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGA
*
46927500 GCGCCACTAATACTCTGG
65 GCGCCACTAAT-TTCT-G
*
46927518 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCT
1 CCTTTAGCGGCGTTTT-TATCTAAGCGCCGCTAATGCT
46927556 ACCTTTAGCG
Statistics
Matches: 168, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
81 4 0.02
82 146 0.87
83 18 0.11
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
CGCCACTAATTTCTG
Found at i:46927530 original size:123 final size:123
Alignment explanation
Indices: 46927271--46927573 Score: 267
Period size: 123 Copynumber: 2.5 Consensus size: 123
46927261 CGATTTTTAA
* * * * * *
46927271 ACCTTTAGCGGCGTTTTTATTTTAGTGCCACTAATTCTCCGATCTTTAGCGGTGTTTTTATCTGA
1 ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
* * * * * *
46927336 GCGTCACTAATGTTCTAGCCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGT
66 GCGCCACTAAAGTTCTAGCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * * * * *
46927394 ATCATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTTCTTTAGCGGCGTTTTTTTCTAA
1 ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
* ** * *
46927459 GCGCCGCTAAAGTTCGT-GTTTTTAATGGCGTTTTTATCTGAGCGCCACTAATACTC-T
66 GCGCCACTAAAGTTC-TAGCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * * *
46927516 GGCCTTTAGCGGCGTT-TTATATGTAAGCGCCGCTAATGCT---ACCTTTAGCGGCGTTTTT
1 -ACCTTTAGCGGCGTTATTATCTG--AGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTT
46927574 CCGAAGCGCC
Statistics
Matches: 142, Mismatches: 34, Indels: 10
0.76 0.18 0.05
Matches are distributed among these distances:
121 16 0.11
122 6 0.04
123 106 0.75
124 14 0.10
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (123 bp):
ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
GCGCCACTAAAGTTCTAGCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
Found at i:46929854 original size:8 final size:10
Alignment explanation
Indices: 46929831--46929868 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
46929821 ATATTTTTAC
46929831 ATATATATGG
1 ATATATATGG
*
46929841 ATATATATGA
1 ATATATATGG
46929851 ATATATATGG
1 ATATATATGG
46929861 ATATATAT
1 ATATATAT
46929869 ATAGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (10 bp):
ATATATATGG
Found at i:46929854 original size:20 final size:20
Alignment explanation
Indices: 46929831--46929868 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
46929821 ATATTTTTAC
46929831 ATATATATGGATATATATGA
1 ATATATATGGATATATATGA
46929851 ATATATATGGATATATAT
1 ATATATATGGATATATAT
46929869 ATAGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (20 bp):
ATATATATGGATATATATGA
Found at i:46929977 original size:27 final size:27
Alignment explanation
Indices: 46929936--46929987 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
46929926 AATAAACAAA
* *
46929936 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
46929963 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
46929988 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:46932034 original size:45 final size:45
Alignment explanation
Indices: 46931979--46932069 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
46931969 TTTGTGGTGG
*
46931979 CCTTTTCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
1 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
46932024 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
1 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
46932069 C
1 C
46932070 AAAGGAAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (45 bp):
CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
Found at i:46940459 original size:72 final size:71
Alignment explanation
Indices: 46940342--46940699 Score: 405
Period size: 71 Copynumber: 5.0 Consensus size: 71
46940332 TCATGGAATA
* * * * *
46940342 TCAGCTGAGAGCGTATGCTTGCGCTAACTATTTTTGGAAGTTACGGTATTAAACCTATGAGCCTT
1 TCAGCTGAGAGCGTAGGCTCGCGCTAACTA-TTTTGGAGGCTACGGTATTGAACCTATGAGCCTT
46940407 AAGATAT
65 AAGATAT
* * * * *
46940414 TCAGCTGAGAGCGTAGGCTCGCGCTAATTTTTTTTGGAGGCTACGGTATTAAACTTGTGAGCCTT
1 TCAGCTGAGAGCGTAGGCTCGCGCTAA-CTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTT
*
46940479 AAAATAT
65 AAGATAT
* * * * ** * *
46940486 TCAGCTGAGAGAGTCGGCTCGCGCTAACTATTTTGGAGGTTGCGGGGTTGAGCTCT-TAAGCCTT
1 TCAGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAAC-CTATGAGCCTT
46940550 AAGATAT
65 AAGATAT
* * * *
46940557 TTAGAT-AGAAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAATCTACGAGCCTT
1 TCAGCTGAG-AGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTT
46940621 AAGATAT
65 AAGATAT
*** * * *
46940628 TTTTCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTGCAGTATTGAACCTACGAGCCTTA
1 TCAGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTA
46940693 AGATAT
66 AGATAT
46940699 T
1 T
46940700 TCCAAGTACA
Statistics
Matches: 241, Mismatches: 40, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
70 4 0.02
71 147 0.61
72 89 0.37
73 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (71 bp):
TCAGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTA
AGATAT
Found at i:46942716 original size:16 final size:16
Alignment explanation
Indices: 46942695--46942730 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
46942685 TTTGCTTCGC
46942695 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
46942711 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
46942727 TGTA
1 TGTA
46942731 AAGGAATAGA
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:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:46942740 original size:16 final size:16
Alignment explanation
Indices: 46942705--46942747 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
46942695 TGTATTAGAT
** *
46942705 TAGAGGTGTATTGGAT
1 TAGAGGTGTAAAGGAA
46942721 TAGAGGTGTAAAGGAA
1 TAGAGGTGTAAAGGAA
46942737 TAGAGGTGTAA
1 TAGAGGTGTAA
46942748 TAGCAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28
Consensus pattern (16 bp):
TAGAGGTGTAAAGGAA
Found at i:46942999 original size:16 final size:16
Alignment explanation
Indices: 46942962--46943003 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46942952 TTAATCATAT
*
46942962 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
46942978 TT-AAATATATTATAA
1 TTAAAATATATTATAA
46942993 TTAAAATATAT
1 TTAAAATATAT
46943004 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:46943010 original size:14 final size:15
Alignment explanation
Indices: 46942971--46943012 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46942961 TTTAAACATA
*
46942971 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46942986 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46943000 A-TATAATTTAATA
1 ATTATAATTAAATA
46943013 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:46943121 original size:16 final size:16
Alignment explanation
Indices: 46943096--46943136 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
46943086 AAATAATTAA
46943096 TATT-AAATATAT-TT
1 TATTAAAATATATATT
46943110 TAATTAAAATATATGATT
1 T-ATTAAAATATAT-ATT
46943128 TATTAAAAT
1 TATTAAAAT
46943137 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 3 0.13
16 8 0.35
17 8 0.35
18 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TATTAAAATATATATT
Found at i:46943185 original size:47 final size:46
Alignment explanation
Indices: 46943119--46943393 Score: 202
Period size: 47 Copynumber: 5.9 Consensus size: 46
46943109 TTAATTAAAA
*
46943119 TATATG-ATTTATTAAAATTTAAAATAATTATACTTAATAAATTTTCT
1 TATATGAATTTA-TATAATTTAAAATAATTATA-TTAATAAATTTTCT
* **
46943166 TATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TATT-AATA-AATTTTCT
* *
46943214 TA-AT-AA--TATATAATTTCATAA-AATTCT-TGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATTATAT--TAATAAATTTTCT
**
46943257 TATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATT-ATATT-AATA-AATTTTCT
* *
46943305 TA-ATG-A--TATATAATTTCATAA-AATTCT-TGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATTATAT--TAATAAATTTTCT
46943348 TATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTT
1 TATATGAATTTATATAATTTAAAATAATT-ATATT-AATA-AATTT
46943394 AATAATGATA
Statistics
Matches: 179, Mismatches: 19, Indels: 58
0.70 0.07 0.23
Matches are distributed among these distances:
42 6 0.03
43 20 0.11
44 34 0.19
45 9 0.05
46 9 0.05
47 60 0.34
48 30 0.17
49 11 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATATTAATAAATTTTCT
Found at i:46943248 original size:91 final size:91
Alignment explanation
Indices: 46943153--46943411 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
46943143 TAATTATACT
* *
46943153 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
46943218 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
46943244 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
46943309 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
46943335 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
46943400 GATATATAATTT
66 GATATATAATTT
46943412 ATACATTTAA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:46944430 original size:17 final size:17
Alignment explanation
Indices: 46944408--46944443 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46944398 GCACCTAATA
46944408 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
46944425 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
46944442 TA
1 TA
46944444 CAGCAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TAACTCATATTTCAAAT
Found at i:46951706 original size:18 final size:19
Alignment explanation
Indices: 46951672--46951712 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
46951662 ATCATTTTAG
46951672 ATTTTAAATTAATTTTCAA
1 ATTTTAAATTAATTTTCAA
46951691 ATTTT-AATATAA-TTTCAA
1 ATTTTAAAT-TAATTTTCAA
46951709 ATTT
1 ATTT
46951713 CAGAATCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAAATTAATTTTCAA
Found at i:46953217 original size:16 final size:16
Alignment explanation
Indices: 46953181--46953212 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
46953171 AATATTTTTG
46953181 ATAAATGTTATATATT
1 ATAAATGTTATATATT
46953197 ATAAAT-TT-TATATT
1 ATAAATGTTATATATT
46953211 AT
1 AT
46953213 TTAAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAAATGTTATATATT
Found at i:46959960 original size:20 final size:21
Alignment explanation
Indices: 46959911--46959974 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 21
46959901 GGATATTTGT
* *
46959911 TTAGCACTTTTATGCTCTCTAA
1 TTAGCACTTTTGTGCTCTCT-G
*
46959933 TTAACACTTTTGTGCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
*
46959954 TT-GCACTTTGGTGC-CTCTG
1 TTAGCACTTTTGTGCTCTCTG
46959973 TT
1 TT
46959975 CAGCTATACG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.19
20 10 0.27
21 2 0.05
22 18 0.49
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (21 bp):
TTAGCACTTTTGTGCTCTCTG
Found at i:46959971 original size:19 final size:20
Alignment explanation
Indices: 46959937--46959974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46959927 CTCTAATTAA
*
46959937 CACTTTTGTGCTCTCTGTTG
1 CACTTTGGTGCTCTCTGTTG
46959957 CACTTTGGTGC-CTCTGTT
1 CACTTTGGTGCTCTCTGTT
46959975 CAGCTATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.05, C:0.26, G:0.21, T:0.47
Consensus pattern (20 bp):
CACTTTGGTGCTCTCTGTTG
Found at i:46965292 original size:21 final size:21
Alignment explanation
Indices: 46965268--46965321 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
46965258 AAATTAGATT
*
46965268 TCTGTTTGCACTTTTGTGCTC
1 TCTGTTAGCACTTTTGTGCTC
*
46965289 TCTGTTAGCATTTTTGTGC-C
1 TCTGTTAGCACTTTTGTGCTC
*
46965309 TTTGTTCAGCACT
1 TCTGTT-AGCACT
46965322 GCGATGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (21 bp):
TCTGTTAGCACTTTTGTGCTC
Found at i:46966548 original size:22 final size:22
Alignment explanation
Indices: 46966518--46966566 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
46966508 AAAAAAACAG
*
46966518 AAAAA-AAGCAAAAAGCGCAAA
1 AAAAAGAAGCAAAAAGCACAAA
46966539 AAAAAGAAGCAAAAAGCACAAA
1 AAAAAGAAGCAAAAAGCACAAA
46966561 AAAAAG
1 AAAAAG
46966567 TTGCCTACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.73, C:0.12, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGCAAAAAGCACAAA
Found at i:46975183 original size:11 final size:11
Alignment explanation
Indices: 46975167--46975197 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46975157 ATACCCATAC
46975167 CCCATACCTTG
1 CCCATACCTTG
*
46975178 CCCATACCTTT
1 CCCATACCTTG
46975189 CCCATACCT
1 CCCATACCT
46975198 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:46975770 original size:18 final size:18
Alignment explanation
Indices: 46975743--46975799 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
46975733 TACGACCGTT
46975743 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
46975761 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
46975779 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
46975797 TAC
1 TAC
46975800 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:46979869 original size:11 final size:11
Alignment explanation
Indices: 46979853--46979883 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46979843 ATACCCATAC
46979853 CCCATACCTTG
1 CCCATACCTTG
*
46979864 CCCATACCTTT
1 CCCATACCTTG
46979875 CCCATACCT
1 CCCATACCT
46979884 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:46987790 original size:16 final size:17
Alignment explanation
Indices: 46987762--46987793 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46987752 GAAGATAAGT
46987762 ATTAAATTATATTAAAC
1 ATTAAATTATATTAAAC
46987779 ATTAAA-TATATTAAA
1 ATTAAATTATATTAAA
46987794 ATAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAATTATATTAAAC
Found at i:47014414 original size:19 final size:19
Alignment explanation
Indices: 47014390--47014426 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47014380 GCATACTGGC
*
47014390 GCATGAAGCTCATCCTAGT
1 GCATGAAGCACATCCTAGT
47014409 GCATGAAGCACATCCTAG
1 GCATGAAGCACATCCTAG
47014427 CACACGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
GCATGAAGCACATCCTAGT
Found at i:47015230 original size:15 final size:15
Alignment explanation
Indices: 47015181--47015234 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
47015171 CCTAAAAGTG
47015181 TTAATTAAGCTTAAT
1 TTAATTAAGCTTAAT
*
47015196 ATTAATTAAGCATAGA-
1 -TTAATTAAGCTTA-AT
47015212 TTAATTAAG-TTAAT
1 TTAATTAAGCTTAAT
47015226 CTTAATTAA
1 -TTAATTAA
47015235 TAACTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 17 0.52
16 12 0.36
17 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (15 bp):
TTAATTAAGCTTAAT
Found at i:47020416 original size:25 final size:25
Alignment explanation
Indices: 47020388--47020551 Score: 82
Period size: 25 Copynumber: 6.6 Consensus size: 25
47020378 GAATTCTCTA
47020388 GAAAGTCTTTT-TGGCATATCATTGG
1 GAAAG-CTTTTGTGGCATATCATTGG
* *
47020413 GAAAGCTTTTGTGGTATATCATTTG
1 GAAAGCTTTTGTGGCATATCATTGG
* * * * **
47020438 GAAAGCCTTTGTAGTAAATTTTCTGG
1 GAAAGCTTTTGTGGCATATCAT-TGG
* * * *
47020464 G-AAGCCTTTATGGCGTATCATTTG
1 GAAAGCTTTTGTGGCATATCATTGG
* * * *
47020488 GAAAGCCTTTGTGGTGATTTCACT-G
1 GAAAGCTTTTGTGG-CATATCATTGG
* * * **
47020513 GAAAGCCTCTGTGGCGTATCATTTA
1 GAAAGCTTTTGTGGCATATCATTGG
*
47020538 GAAAGCCTTTGTGG
1 GAAAGCTTTTGTGG
47020552 TGAACTCTCT
Statistics
Matches: 106, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
24 13 0.12
25 85 0.80
26 8 0.08
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (25 bp):
GAAAGCTTTTGTGGCATATCATTGG
Found at i:47020483 original size:50 final size:50
Alignment explanation
Indices: 47020412--47020807 Score: 400
Period size: 50 Copynumber: 7.9 Consensus size: 50
47020402 CATATCATTG
* ** * *
47020412 GGAAAGCTTTTGTGGTATATCATTTGGAAAGCCTTTGTAGTAAATT-TTCT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATT-T
* * * *
47020462 GGGAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGTGATTTCA-CT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATT-ATTT
* * * * *
47020512 GGAAAGCCTCTGTGGCGTATCATTTAGAAAGCCTTTGTGGTGAACTCTCT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* ** * * ** *
47020562 AGAAAGATTTTTTGACGTATCATTTGGAAAGCCTTTGTGGCAAATTCTTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* ** * * * * *
47020612 GGAAAGCCTTTATGAAGAATTATCTGGAAAGCCTTTATGGCGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* * *
47020662 GAAAAACCCTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* * *
47020712 GGAGAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* * * *
47020762 GGAAAGCCCTTGTGGTGTATCATTTAGAAAGCCTTTATGGTGAATT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATT
47020808 CTCTAGAAAT
Statistics
Matches: 287, Mismatches: 56, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
50 287 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (50 bp):
GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
Found at i:47020612 original size:25 final size:25
Alignment explanation
Indices: 47020434--47020809 Score: 208
Period size: 25 Copynumber: 15.0 Consensus size: 25
47020424 TGGTATATCA
* **
47020434 TTTGGAAAGCCTTTGTAGTAAATT-
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020458 TTCTGGGAAGCCTTTATGGCGTA-TC
1 TT-TGGAAAGCCTTTGTGGCGAATTC
* *
47020483 ATTTGGAAAGCCTTTGTGGTGATTTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
** * *
47020509 ACTGGAAAGCCTCTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020533 ATTTAGAAAGCCTTTGTGGTGAACTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * ** * * *
47020559 TCTAGAAAGATTTTTTGACGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
*
47020583 ATTTGGAAAGCCTTTGTGGCAAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* ** *
47020609 TTTGGAAAGCCTTTATGAAGAATTA
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020634 TCTGGAAAGCCTTTATGGCGAATTA
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * * *
47020659 TTTGAAAAACCCTTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* *
47020683 ATTTGGAAAGCCTTTGTGGTGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020709 TTTGGAGAGCCCTTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020733 ATTTGGAAAGCCTTTATGGTGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020759 TTTGGAAAGCCCTTGTGGTGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
47020783 ATTTAGAAAGCCTTTATGGTGAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
47020809 T
1 T
47020810 CTAGAAATTT
Statistics
Matches: 260, Mismatches: 78, Indels: 27
0.71 0.21 0.07
Matches are distributed among these distances:
24 10 0.04
25 238 0.92
26 12 0.05
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (25 bp):
TTTGGAAAGCCTTTGTGGCGAATTC
Found at i:47029143 original size:27 final size:27
Alignment explanation
Indices: 47029113--47029418 Score: 225
Period size: 27 Copynumber: 11.4 Consensus size: 27
47029103 CGGCCTAGAT
47029113 GTCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
47029140 GTCATTTTACCCTTT-GAGGATATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
47029167 GTCATTTCA-CCTTTCAGAGGTATTTCA
1 GTCATTTTACCCTTT-AGGGGTATTTCG
* *
47029194 ATCATTTTACCCTTT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
*
47029221 GTCA-TTTACCC-TTCGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * **
47029246 GTCATTTTATCCTTCAAAGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
** * *
47029273 GTCATTTTACCAATCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
47029300 GTTATTTTACCCATT-GAAGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * * *
47029327 GCCATTTCACCCATT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
47029354 ATCATTTTACCC-ATCGAGGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
47029381 GTCATTTTACCCATCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
47029408 GTTA-TTTACCC
1 GTCATTTTACCC
47029419 ACGAATCGCA
Statistics
Matches: 226, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
25 15 0.07
26 29 0.13
27 176 0.78
28 6 0.03
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:47029199 original size:54 final size:53
Alignment explanation
Indices: 47029113--47029418 Score: 248
Period size: 54 Copynumber: 5.7 Consensus size: 53
47029103 CGGCCTAGAT
* * * * *
47029113 GTCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCCTTTGAGGATATTTCA
1 GTCATTTCACCATTCAGAGGTATTTCGGTCATTTTACCCTTTGAGG-TATTTCG
* ** *
47029167 GTCATTTCACCTTTCAGAGGTATTTCAATCATTTTACCCTTTGAGGGTATTTTG
1 GTCATTTCACCATTCAGAGGTATTTCGGTCATTTTACCCTTTGA-GGTATTTCG
* * * **
47029221 GTCATTT-ACCCTTC-GGGGTATTTCGGTCATTTTATCCTTCAAAGGTATTTCG
1 GTCATTTCACCATTCAGAGGTATTTCGGTCATTTTACCCTT-TGAGGTATTTCG
* * * *
47029273 GTCATTTTACCAATCA-AGGGTATTTCGGTTATTTTACCCATTGAAGGTATTTCG
1 GTCATTTCACCATTCAGA-GGTATTTCGGTCATTTTACCCTTTG-AGGTATTTCG
* * * * * *
47029327 GCCATTTCACCCATTGAG-GGTATTTTGATCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTCA-CCATTCAGAGGTATTTCGGTCATTTTACCCTTTGA-GGTATTTCG
* *
47029381 GTCATTTTACCCA-TCA-AGGGTATTTCGGTTA-TTTACCC
1 GTCATTTCA-CCATTCAGA-GGTATTTCGGTCATTTTACCC
47029419 ACGAATCGCA
Statistics
Matches: 203, Mismatches: 38, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
52 36 0.18
53 22 0.11
54 138 0.68
55 7 0.03
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (53 bp):
GTCATTTCACCATTCAGAGGTATTTCGGTCATTTTACCCTTTGAGGTATTTCG
Found at i:47029350 original size:81 final size:78
Alignment explanation
Indices: 47029130--47029414 Score: 286
Period size: 81 Copynumber: 3.6 Consensus size: 78
47029120 TACCCTTTAG
* * * *
47029130 GGGTATTTCGGTCATTTTACCCTTTGAGGATATTTCAGTCATTTCACCTTTCAGAGGTATTTCAA
1 GGGTATTTCGGTCATTTTACCCATTGAGG-TATTTCGGTCATTTCACC-TTAAG-GGTATTTCGA
* *
47029195 TCATTTTACCCTTTGA
63 TCATTTTACCCATCGA
* * * * *
47029211 GGGTATTTTGGTCA-TTTACCC-TTCGGGGTATTTCGGTCATTTTATCCTTCAAAGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCATT-GAGGTATTTCGGTCATTTCA-CCTT-AAGGGTATTTCGA
* *
47029274 TCATTTTACCAATCAA
63 TCATTTTACCCATCGA
* * * *
47029290 GGGTATTTCGGTTATTTTACCCATTGAAGGTATTTCGGCCATTTCACCCATTGAGGGTATTTTGA
1 GGGTATTTCGGTCATTTTACCCATTG-AGGTATTTCGGTCATTTCA-CC-TTAAGGGTATTTCGA
47029355 TCATTTTACCCATCGA
63 TCATTTTACCCATCGA
** *
47029371 GGGTATTTCGGTCATTTTACCCATCAAGGGTATTTCGGTTATTT
1 GGGTATTTCGGTCATTTTACCCATTGA-GGTATTTCGGTCATTT
47029415 ACCCACGAAT
Statistics
Matches: 167, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
79 50 0.30
80 22 0.13
81 93 0.56
82 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (78 bp):
GGGTATTTCGGTCATTTTACCCATTGAGGTATTTCGGTCATTTCACCTTAAGGGTATTTCGATCA
TTTTACCCATCGA
Found at i:47037992 original size:51 final size:51
Alignment explanation
Indices: 47037937--47038386 Score: 396
Period size: 51 Copynumber: 8.9 Consensus size: 51
47037927 GTGAAAGTGT
*
47037937 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * * * *
47037988 TGGTCACATGTTTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
47038039 TGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTA-TGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * ** * * * * *
47038090 TGATCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
47038141 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * *
47038192 TGGTCACATGAGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * * *
47038243 TAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * *
47038293 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* *
47038342 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
47038387 ATGATAAAAG
Statistics
Matches: 313, Mismatches: 73, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
50 87 0.28
51 222 0.71
52 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:47038112 original size:102 final size:102
Alignment explanation
Indices: 47037936--47038386 Score: 590
Period size: 102 Copynumber: 4.4 Consensus size: 102
47037926 AGTGAAAGTG
* * *
47037936 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTTT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
47038001 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
47038038 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
*
47038103 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * *
47038140 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGAGT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
* *
47038205 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * *
47038242 TTAGTCACATATGTAGTACTA-TGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGT
1 TTGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGATCACATGT
* * ** * * **
47038304 ATAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
64 GTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* *
47038342 TTGATCACGTGTGTAGTACTA-TGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGA
47038387 ATGATAAAAG
Statistics
Matches: 311, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
100 39 0.13
101 41 0.13
102 231 0.74
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:47039747 original size:11 final size:11
Alignment explanation
Indices: 47039727--47039784 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
47039717 ATTAAAATTA
47039727 AAAAAGTATTTT
1 AAAAA-TATTTT
47039739 AAAAATATTTT
1 AAAAATATTTT
*
47039750 --AAA-A-TTA
1 AAAAATATTTT
47039757 AAAAAGTATTTT
1 AAAAA-TATTTT
*
47039769 AAAAAAATTTT
1 AAAAATATTTT
47039780 AAAAA
1 AAAAA
47039785 AATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 6 0.16
11 17 0.45
12 12 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:47039754 original size:30 final size:30
Alignment explanation
Indices: 47039718--47039783 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
47039708 AAAATTAAAA
*
47039718 TTAAAATTAAAAAAGTATTTTAAAAATATT
1 TTAAAATTAAAAAAGTATTTTAAAAAAATT
47039748 TTAAAATTAAAAAAGTATTTTAAAAAAATT
1 TTAAAATTAAAAAAGTATTTTAAAAAAATT
47039778 TTAAAA
1 TTAAAA
47039784 AAATTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAAATTAAAAAAGTATTTTAAAAAAATT
Found at i:47039785 original size:11 final size:11
Alignment explanation
Indices: 47039754--47039788 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
47039744 TATTTTAAAA
47039754 TTAAAAAAGTATT
1 TTAAAAAA--ATT
47039767 TTAAAAAAATT
1 TTAAAAAAATT
47039778 TTAAAAAAATT
1 TTAAAAAAATT
47039789 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.64
13 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:47039798 original size:15 final size:15
Alignment explanation
Indices: 47039778--47039807 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47039768 TAAAAAAATT
47039778 TTAAAAAAATTAAAA
1 TTAAAAAAATTAAAA
47039793 TTAAAAAAATTAAAA
1 TTAAAAAAATTAAAA
47039808 AAAAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAAAAATTAAAA
Found at i:47039822 original size:11 final size:11
Alignment explanation
Indices: 47039808--47039833 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47039798 AAAATTAAAA
47039808 AAAAGTATTTT
1 AAAAGTATTTT
47039819 AAAAGTATTTT
1 AAAAGTATTTT
47039830 AAAA
1 AAAA
47039834 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:47044297 original size:51 final size:46
Alignment explanation
Indices: 47044232--47044336 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 46
47044222 ATAAATAATA
*
47044232 TAAACAAATATTTATATTTATGTAAAAACACCAGATCTAAAGAAAACATAT
1 TAAATAAATATTTATATTTAT-TAAAAACACCAGATCT---GAAAACA-AT
* *
47044283 TAAATAAATATTTATATTTATTTAAAACATCAGATCTGAAAACAAT
1 TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
47044329 TAAATAAA
1 TAAATAAA
47044337 CAAGATCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
46 10 0.20
47 7 0.14
50 14 0.27
51 20 0.39
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (46 bp):
TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
Found at i:47046537 original size:25 final size:23
Alignment explanation
Indices: 47046501--47046565 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 23
47046491 ACATGTTTGA
* *
47046501 GAACATATTCATTTAATATTCGT
1 GAACATGTTCATTTAATATTCAT
* *
47046524 GACCATATGTTCATTTAATGTTCAT
1 GA--ACATGTTCATTTAATATTCAT
47046549 GAACATGTTCATTTAAT
1 GAACATGTTCATTTAAT
47046566 GTTTCCTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 16 0.46
25 19 0.54
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (23 bp):
GAACATGTTCATTTAATATTCAT
Found at i:47046546 original size:11 final size:11
Alignment explanation
Indices: 47046530--47046568 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47046520 TCGTGACCAT
47046530 ATGTTCATTTA
1 ATGTTCATTTA
**
47046541 ATGTTCATGAA
1 ATGTTCATTTA
47046552 CATGTTCATTTA
1 -ATGTTCATTTA
47046564 ATGTT
1 ATGTT
47046569 TCCTATAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (11 bp):
ATGTTCATTTA
Found at i:47046560 original size:23 final size:23
Alignment explanation
Indices: 47046501--47046568 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
47046491 ACATGTTTGA
* * *
47046501 GAACATATTCATTTAATATTCGT
1 GAACATGTTCATTTAATGTTCAT
*
47046524 GACCATATGTTCATTTAATGTTCAT
1 GA--ACATGTTCATTTAATGTTCAT
47046549 GAACATGTTCATTTAATGTT
1 GAACATGTTCATTTAATGTT
47046569 TCCTATAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 19 0.50
25 19 0.50
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (23 bp):
GAACATGTTCATTTAATGTTCAT
Found at i:47051253 original size:43 final size:43
Alignment explanation
Indices: 47051206--47051370 Score: 242
Period size: 43 Copynumber: 3.8 Consensus size: 43
47051196 CACATATTGC
* * * * * *
47051206 TGCCACTGCCCCAGACATGGTCTTATACGAAATCA-TATAACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT-ACAA
47051249 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
47051292 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
* *
47051335 TGCCAATGTCCCAGACATGGTCTTACATGTTATCAC
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCAC
47051371 CACTTAGTAA
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
43 111 0.98
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
Found at i:47055911 original size:28 final size:28
Alignment explanation
Indices: 47055880--47055935 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
47055870 ACAAAGTGAA
* *
47055880 AATAATGATAAGCACCGAACTGCAAATT
1 AATAACGATAAGCACCAAACTGCAAATT
*
47055908 AATAACGATAAGCACCAAAGTGCAAATT
1 AATAACGATAAGCACCAAACTGCAAATT
47055936 TTTACAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (28 bp):
AATAACGATAAGCACCAAACTGCAAATT
Found at i:47071009 original size:3 final size:3
Alignment explanation
Indices: 47071001--47071029 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47070991 CTTTAGCACT
47071001 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
47071030 TGCTGCTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47075047 original size:25 final size:25
Alignment explanation
Indices: 47075013--47075064 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
47075003 AACACAAGTC
* *
47075013 ACTTCAAAGCATTTGAACTTAACCA
1 ACTTCAAAGCATTTGAACATAAACA
47075038 ACTTCAAAGCATTTGAACATAAACA
1 ACTTCAAAGCATTTGAACATAAACA
47075063 AC
1 AC
47075065 AAATGGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (25 bp):
ACTTCAAAGCATTTGAACATAAACA
Found at i:47087720 original size:24 final size:24
Alignment explanation
Indices: 47087693--47087741 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47087683 AACCTGAAAC
47087693 AAGACTATTGTTTAGAACGCACTA
1 AAGACTATTGTTTAGAACGCACTA
47087717 AAGACTATTGTTTAGAACGCACTA
1 AAGACTATTGTTTAGAACGCACTA
47087741 A
1 A
47087742 GTATAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (24 bp):
AAGACTATTGTTTAGAACGCACTA
Found at i:47088562 original size:45 final size:45
Alignment explanation
Indices: 47088442--47088685 Score: 160
Period size: 45 Copynumber: 5.5 Consensus size: 45
47088432 AAGTTATAAG
* * * ** *
47088442 TCTTATCTCCCTAAAGTTGTAGTGCAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* *
47088487 TCTTAT-TCCCTTGAAGCTGTAGTGTG-GCAGACTGAAGATGGCAAA
1 TCTTATCTCCC-TGAAGTTGCAGTG-GAGCAGACTGAAGATGGCAAA
* * * *
47088532 TCTTATCTCCCTGAATTTGCAATGGAGCAGA-TTAA-A-GCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A-AA
* * * * * ** *
47088576 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * ** *
47088620 TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
*
47088665 TTTTATC-CCCATGAAGTTGCA
1 TCTTATCTCCC-TGAAGTTGCA
47088686 ACGGGGCACT
Statistics
Matches: 157, Mismatches: 31, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 72 0.46
45 76 0.48
46 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
Found at i:47088627 original size:44 final size:44
Alignment explanation
Indices: 47088530--47088650 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 44
47088520 GAAGATGGCA
* * *
47088530 AATCTTATCTCCCTGAATTTGCAATGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
* * **
47088574 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCA-AT
* *
47088618 AGTCTTATCTCCCTGAAGTTACAGTGAAGCAGA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
47088651 CTGAAGAAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 64 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
Found at i:47088744 original size:73 final size:73
Alignment explanation
Indices: 47088621--47088758 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
47088611 AGTTACAAGT
* *
47088621 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTTTTATC-CCCATGAAGTTGC
1 CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCC-TGAAGTTGC
47088685 AACGGGGCA
65 AACGGGGCA
* ** **
47088694 CTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA-TCTTATCTCCCTGAAGTTGC
1 CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGC-AAGTCTTATCTCCCTGAAGTTGC
47088758 A
65 A
47088759 GTGGAGCAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
73 51 0.91
74 5 0.09
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (73 bp):
CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCA
ACGGGGCA
Found at i:47088863 original size:44 final size:44
Alignment explanation
Indices: 47088736--47088868 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 44
47088726 GAAGATGGCG
* * * **
47088736 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCA-A
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
* *
47088779 TAATCCTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGTTACA
1 -AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
* * *
47088824 AATCCTATCTCCTTGAAGTTATAGTGGGGCAGATTAAAGTTACA
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
47088868 A
1 A
47088869 GTCTTATTGA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
44 75 0.99
45 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
Found at i:47089304 original size:225 final size:223
Alignment explanation
Indices: 47088902--47089331 Score: 524
Period size: 225 Copynumber: 1.9 Consensus size: 223
47088892 TATCCACCTG
* * * * * *
47088902 AAGTTGTAGTGGGGCAGACTAAAGATAGCGAATCTCATTTTCCTGAAATTGTAGTGGAACAGATT
1 AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTCCTGAAATTGCAATGGAACAGATC
* * ** *
47088967 AAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATGGAAAATCTTAT
66 AAAGCTATAAATCAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACAGAAAACCTTAT
* * * *
47089032 CTCCCTGAAGTTGAAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCT-AAAGTTGTAGTGGA
131 CTCCCTAAAGTTGAAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTGAAA-TTGCAGTGGA
47089096 GCGGATTGAAGTGAGGTCTTATCTCCCCA
195 GCGGATTGAAGTGAGGTCTTATCTCCCCA
* * * *
47089125 AAGTTATAGTGGAGCAGACTGAAGATAGCAAATGTC-GTTTCTCTGAAGATTGCAATGGAATAGA
1 AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTC-CTGAA-ATTGCAATGGAACAGA
* **
47089189 TCAAAGCTATAAATCATAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCT
64 TCAAAGCTATAAATCA-AAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACAGAAAACCT
* * * * * * * *
47089254 TATCTCCTTAAAGTTGTAGTGGAGCAGGTTGAAA-ATACCAATCTTATCTCCCTGACATTGCAGT
128 TATCTCCCTAAAGTTGAAGTGAAGCAGATT-AAAGACAACAATCCTATCTCCCTGAAATTGCAGT
47089318 GGAGCGGATTGAAG
192 GGAGCGGATTGAAG
47089332 CAACTAATCC
Statistics
Matches: 172, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
222 4 0.02
223 36 0.21
224 28 0.16
225 99 0.58
226 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (223 bp):
AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTCCTGAAATTGCAATGGAACAGATC
AAAGCTATAAATCAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACAGAAAACCTTAT
CTCCCTAAAGTTGAAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTGAAATTGCAGTGGAG
CGGATTGAAGTGAGGTCTTATCTCCCCA
Found at i:47089319 original size:44 final size:45
Alignment explanation
Indices: 47089254--47089367 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 45
47089244 CATCAAACCT
* * *
47089254 TATCTCCTTAAAGTTGTAGTGGAGCAGG-TTGAA-AATACCAATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGATTGAAGAA-ACCAATCC
* * *
47089298 TATCTCCCTGACA-TTGCAGTGGAGC-GGATTGAAGCAACTAATCC
1 TATCTCCCT-AAAGTTGCAGTGGAGCAGGATTGAAGAAACCAATCC
47089342 TATCTCCCTAAAGTTGCAGTGGAGCA
1 TATCTCCCTAAAGTTGCAGTGGAGCA
47089368 AATTAAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
43 4 0.07
44 51 0.88
45 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (45 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGGATTGAAGAAACCAATCC
Found at i:47089578 original size:89 final size:88
Alignment explanation
Indices: 47089471--47089706 Score: 271
Period size: 88 Copynumber: 2.7 Consensus size: 88
47089461 GACTGACGAT
* *
47089471 AGCATATCTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAAGACACTAGTCTTGCCTCCCTGAG
1 AGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAAGACAC-AGCCTTGCCTCCCTGAG
*
47089536 TTTGCAGAGGAACAGACT-AAAGAT
65 TTTGCAGAGGAACAGACTGAAA-AC
* *
47089560 AGCAGATAC-TGTCTTCTTGTATTGGCAGCGAAGCAAATCGAAGGAC-CAGCCTTGCCTCCCTGA
1 AGCAGAT-CTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAA-GACACAGCCTTGCCTCCCTGA
* **
47089623 GTTTGCAGCGGAGTAGACTGAAAAC
64 GTTTGCAGAGGAACAGACTGAAAAC
* * * ** * *
47089648 AGCAGATCTTCTCTTCCTGTACTGAAAGTGAAGTAGATCGAAAACACCAGCCTTGCCTC
1 AGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAAGACA-CAGCCTTGCCTC
47089707 TCTTAGTTGG
Statistics
Matches: 124, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
87 3 0.02
88 64 0.52
89 53 0.43
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (88 bp):
AGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAAGACACAGCCTTGCCTCCCTGAGT
TTGCAGAGGAACAGACTGAAAAC
Found at i:47089663 original size:88 final size:89
Alignment explanation
Indices: 47089448--47089706 Score: 274
Period size: 89 Copynumber: 2.9 Consensus size: 89
47089438 CTCCCTAAAG
* ** * * *
47089448 TTGCAACGGAGCAGACTGACGATAGCATATCTTGTCTTCTTGTATTGGCAGTGAAGCAGATCGAA
1 TTGCAGCGGAGCAGACTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGCAAATCGAA
*
47089513 GACACTAGTCTTGCCTCCCTGAGT
66 GACACTAGCCTTGCCTCCCTGAGT
* *
47089537 TTGCAGAGGAACAGACT-AAAGATAGCAGATAC-TGTCTTCTTGTATTGGCAGCGAAGCAAATCG
1 TTGCAGCGGAGCAGACTGAAA-ATAGCAGAT-CTTGTCTTCTTGTATTGGCAGCGAAGCAAATCG
47089600 AAGGAC-C-AGCCTTGCCTCCCTGAGT
64 AA-GACACTAGCCTTGCCTCCCTGAGT
* * * * * ** * * *
47089625 TTGCAGCGGAGTAGACTGAAAACAGCAGATCTTCTCTTCCTGTACTGAAAGTGAAGTAGATCGAA
1 TTGCAGCGGAGCAGACTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGCAAATCGAA
* *
47089690 AACACCAGCCTTGCCTC
66 GACACTAGCCTTGCCTC
47089707 TCTTAGTTGG
Statistics
Matches: 141, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
87 3 0.02
88 66 0.47
89 68 0.48
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (89 bp):
TTGCAGCGGAGCAGACTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGCAAATCGAA
GACACTAGCCTTGCCTCCCTGAGT
Found at i:47090009 original size:131 final size:130
Alignment explanation
Indices: 47089716--47090129 Score: 549
Period size: 131 Copynumber: 3.1 Consensus size: 130
47089706 CTCTTAGTTG
* *
47089716 GCAGTGGTGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
** *
47089781 GGCAAATCTTATCTTCCCAAGGTAGCAGAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
66 GGTGAATCTTATCTTCCCAAGGTAGTAGA-AAGCAGATTTAAGCCACCA-TCCTATCTCCCTGAG
*
47089846 TA
129 CA
* * ** * *
47089848 GCAATAGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTATAGCAAATCGAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* *
47089913 GGTGAATCTTATCTTCCCAAGATAGTAGAAAGCAGATTTTAGCCACCATTCCTATCTCCCTGAGC
66 GGTGAATCTTATCTTCCCAAGGTAGTAGAAAGCAGATTTAAGCCACCA-TCCTATCTCCCTGAGC
47089978 A
130 A
* *
47089979 GTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * * *
47090044 GGTGACTCTTATCTTACCGAGGTAGTAGGGAAGCATATTTAAGCCACCAACCTTATCTCCCTGAA
66 GGTGAATCTTATCTTCCCAAGGTAGTA-GAAAGCAGATTTAAGCCACCATCC-TATCTCCCTG-A
**
47090109 GTT
128 GCA
*
47090112 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
47090130 ATTACCAATT
Statistics
Matches: 244, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
131 116 0.48
132 110 0.45
133 18 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (130 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCAAGGTAGTAGAAAGCAGATTTAAGCCACCATCCTATCTCCCTGAGCA
Found at i:47090432 original size:14 final size:14
Alignment explanation
Indices: 47090413--47090443 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47090403 AGCTCAAATA
*
47090413 AAAATAATAAACCC
1 AAAATAATAAACAC
47090427 AAAATAATAAACAC
1 AAAATAATAAACAC
47090441 AAA
1 AAA
47090444 GTCTAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAATAAACAC
Found at i:47090616 original size:22 final size:22
Alignment explanation
Indices: 47090556--47090613 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
47090546 AATCTTCAAG
47090556 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
47090575 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
47090597 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
47090614 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:47094351 original size:89 final size:90
Alignment explanation
Indices: 47094166--47094351 Score: 213
Period size: 88 Copynumber: 2.1 Consensus size: 90
47094156 ATTAAGGGTG
* ** *
47094166 CAAAAA-GCCCTCAAATTTTTTTAAAAAAAGCAATCAAGTTCCTGCTTTTTTTTTGTACTCAATT
1 CAAAAAGGCCCTCAAATCTTTTTAAAAAAAGCAATCAAGCCCCTGCTTTTTTTTTGCACTCAATT
47094230 AGGTACTCGAACTTTCAAAATGCAT
66 AGGTACTCGAACTTTCAAAATGCAT
** *
47094255 -AAAAAGGCCCTCAAA-CTTTTTCGAAAAAGCAATTAAGCCCCTGCTTTTTTTCTT-CACTCAA-
1 CAAAAAGGCCCTCAAATCTTTTTAAAAAAAGCAATCAAGCCCCTGCTTTTTTT-TTGCACTCAAT
* * *
47094316 TCGGATACTTGAA-TTGTTAAAATGCAT
65 TAGG-TACTCGAACTT-TCAAAATGCAT
47094343 CAAAAAGGC
1 CAAAAAGGC
47094352 TATTTGACTG
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
87 5 0.06
88 58 0.71
89 19 0.23
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (90 bp):
CAAAAAGGCCCTCAAATCTTTTTAAAAAAAGCAATCAAGCCCCTGCTTTTTTTTTGCACTCAATT
AGGTACTCGAACTTTCAAAATGCAT
Found at i:47094539 original size:20 final size:21
Alignment explanation
Indices: 47094514--47094561 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
47094504 TTAATAAAAA
*
47094514 TATAAAAAA-CACTAAAA-ATT
1 TATAAAAAATCA-TAAAATAAT
47094534 TATAAAAAATCATAAAATAAT
1 TATAAAAAATCATAAAATAAT
47094555 TATAAAA
1 TATAAAA
47094562 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
TATAAAAAATCATAAAATAAT
Found at i:47094541 original size:11 final size:11
Alignment explanation
Indices: 47094533--47094566 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
47094523 CACTAAAAAT
47094533 TTATAAAA-AA
1 TTATAAAATAA
*
47094543 TCATAAAATAA
1 TTATAAAATAA
47094554 TTATAAAATAA
1 TTATAAAATAA
47094565 TT
1 TT
47094567 TTTTTGGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TTATAAAATAA
Found at i:47094713 original size:30 final size:30
Alignment explanation
Indices: 47094642--47094744 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
47094632 TTCTTACGAC
* *
47094642 TTTAT-AAAATTTTACAATTTTTT-CTATA
1 TTTATAAAAATTTTACAATTTTTTACGATT
* * * *
47094670 TTTCTATATATTTTATAATTTTTTACGATT
1 TTTATAAAAATTTTACAATTTTTTACGATT
*
47094700 TTTATAAAAATTTTACAATTTTTATAC-TTT
1 TTTATAAAAATTTTACAATTTTT-TACGATT
*
47094730 TTTAAAAACAATTTT
1 TTTATAAA-AATTTT
47094745 TTTCTAAGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
28 4 0.07
29 15 0.25
30 31 0.53
31 9 0.15
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTATAAAAATTTTACAATTTTTTACGATT
Found at i:47094803 original size:19 final size:19
Alignment explanation
Indices: 47094755--47094795 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
47094745 TTTCTAAGTT
47094755 TTAATATTTTAATATTTTTA
1 TTAA-ATTTTAATATTTTTA
*
47094775 TTAAAATTTAATAATTTTTA
1 TTAAATTTTAAT-ATTTTTA
47094795 T
1 T
47094796 AACTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAAATTTTAATATTTTTA
Found at i:47095858 original size:22 final size:21
Alignment explanation
Indices: 47095833--47095879 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
47095823 ATATAATAGT
*
47095833 AAAATAGCAGAAAAATAGTGAG
1 AAAATAGAAGAAAAATAGTG-G
*
47095855 AAAATAGAAGCAAAATAGTGG
1 AAAATAGAAGAAAAATAGTGG
47095876 AAAA
1 AAAA
47095880 CAATAGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.62, C:0.04, G:0.21, T:0.13
Consensus pattern (21 bp):
AAAATAGAAGAAAAATAGTGG
Found at i:47100780 original size:21 final size:22
Alignment explanation
Indices: 47100754--47100800 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
47100744 TCCCTTTCTT
47100754 TTTTTATGTG-TTTTTTCTCTC
1 TTTTTATGTGTTTTTTTCTCTC
47100775 TTTTTATGTGTTTTTTTCTCTC
1 TTTTTATGTGTTTTTTTCTCTC
47100797 TTTT
1 TTTT
47100801 ATTTCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.04, C:0.13, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTTATGTGTTTTTTTCTCTC
Found at i:47100813 original size:20 final size:21
Alignment explanation
Indices: 47100755--47100817 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
47100745 CCCTTTCTTT
47100755 TTTTATGTGTTTT-TTCTCTC
1 TTTTATGTGTTTTGTTCTCTC
*
47100775 TTTTTATGTGTTTTTTTCTCTC
1 -TTTTATGTGTTTTGTTCTCTC
47100797 TTTTAT-T-TCTTTGTTCT-TC
1 TTTTATGTGT-TTTGTTCTCTC
47100816 TT
1 TT
47100818 CTTCTCATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 5 0.13
20 8 0.21
21 19 0.49
22 7 0.18
ACGTcount: A:0.05, C:0.14, G:0.08, T:0.73
Consensus pattern (21 bp):
TTTTATGTGTTTTGTTCTCTC
Found at i:47102130 original size:48 final size:49
Alignment explanation
Indices: 47102077--47102205 Score: 215
Period size: 48 Copynumber: 2.7 Consensus size: 49
47102067 TAAAGTTAAC
* *
47102077 AAATTGCACTGAAGTGTCACTATCACTAGCACCGAAGTGCAAAA-CACT
1 AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
* *
47102125 AAATTGTACAAAAGTGTCACTATCACTAACACCGAAGTGCAAAATCACT
1 AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
47102174 AAATTGTACAGAAGTGTCACTATCACTAGCAC
1 AAATTGTACAGAAGTGTCACTATCACTAGCAC
47102206 GCTTGAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
48 40 0.54
49 34 0.46
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (49 bp):
AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
Found at i:47102151 original size:27 final size:27
Alignment explanation
Indices: 47102121--47102201 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
47102111 AAGTGCAAAA
*
47102121 CACTAAATTGTACAAAAGTGTCACTAT
1 CACTAAATTGTACAGAAGTGTCACTAT
* * **
47102148 CACT-AA---CACCGAAGTG-CAAAAT
1 CACTAAATTGTACAGAAGTGTCACTAT
47102170 CACTAAATTGTACAGAAGTGTCACTAT
1 CACTAAATTGTACAGAAGTGTCACTAT
47102197 CACTA
1 CACTA
47102202 GCACGCTTGA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
26 10 0.25
27 13 0.32
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (27 bp):
CACTAAATTGTACAGAAGTGTCACTAT
Found at i:47104984 original size:25 final size:25
Alignment explanation
Indices: 47104935--47105022 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
47104925 GTACATGTCT
47104935 GCTCATACGAGC-G-ATAAATGGTAA
1 GCTCATACGAGCTGAAT-AATGGTAA
* *
47104959 GCTCTTCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
*
47104984 GCTCATACGAGCTGAGT-ATCGGTAA
1 GCTCATACGAGCTGAATAAT-GGTAA
*
47105009 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
47105023 GAATTGGTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
24 12 0.22
25 41 0.75
26 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAATGGTAA
Found at i:47106886 original size:30 final size:30
Alignment explanation
Indices: 47106852--47106909 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47106842 AAACCTTTTA
*
47106852 TTTTCCCCCAAAATTTTTACTCCATTCCAC
1 TTTTCCCCCAAAACTTTTACTCCATTCCAC
* * *
47106882 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCATTCC
47106910 CATCTCACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCATTCCAC
Found at i:47107564 original size:5 final size:5
Alignment explanation
Indices: 47107554--47107579 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47107544 GAACAAATAT
47107554 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
47107580 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:47113811 original size:29 final size:28
Alignment explanation
Indices: 47113779--47113836 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
47113769 GTGTCCTTCT
47113779 TTTTCCATTTTTTAATAAATGGCCCAATA
1 TTTT-CATTTTTTAATAAATGGCCCAATA
* *
47113808 TTTTTATTTTTTACTAAATGGCCCAATA
1 TTTTCATTTTTTAATAAATGGCCCAATA
47113836 T
1 T
47113837 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (28 bp):
TTTTCATTTTTTAATAAATGGCCCAATA
Found at i:47113816 original size:28 final size:28
Alignment explanation
Indices: 47113785--47113842 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
47113775 TTCTTTTTCC
*
47113785 ATTTTTTAATAAATGGCCCAATATTTTT
1 ATTTTTTAATAAATGGCCCAATATGTTT
*
47113813 ATTTTTTACTAAATGGCCCAATATGTTT
1 ATTTTTTAATAAATGGCCCAATATGTTT
47113841 AT
1 AT
47113843 GCTTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (28 bp):
ATTTTTTAATAAATGGCCCAATATGTTT
Found at i:47114502 original size:3 final size:3
Alignment explanation
Indices: 47114494--47114588 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
47114484 AATCATTTTC
* *
47114494 CTT CTT CTT CTT CTT CTT CTT ATT CTT CTT CTT CTT CTT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
47114542 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
47114589 GCTGCTGCTG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:47118942 original size:143 final size:144
Alignment explanation
Indices: 47118736--47119092 Score: 537
Period size: 143 Copynumber: 2.5 Consensus size: 144
47118726 TAAAATAATG
* * *
47118736 TAAAATAA--TAAAATTAAAAAATAATATATTTTTTAAAAGTAACAAAATTTGGGAAAAAAATAC
1 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGAAAAAAAATAC
* * *
47118799 GAACAAAGGGTTGAAATAAG-GATTTTTTT-AATTTATTTAAAAAATATAATAAATTAATATATT
66 GAACAAAGGGTTGAAATAAGAGATTTTTTTAAATTTATTT-AAAAACACAATAAATTAATACATT
*
47118862 TCAAATATAATGTAC
130 TCAAATATAATGCAC
47118877 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGAAAAAAAATAC
1 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGAAAAAAAATAC
* * *
47118942 GAACATAGGGTTGAAATAAGAGTTTTTTTTAAAATTTATTTAAAAACACAGTAAATTAATACATT
66 GAACAAAGGGTTGAAATAAGAGATTTTTTT-AAATTTATTTAAAAACACAATAAATTAATACATT
*
47119007 TCAAATATAATGCAT
130 TCAAATATAATGCAC
*
47119022 TAAAATAATGTAAAA-TAAAAAATAGTATATTTTTTAAAAATAATAAAATTT-GAGAAAAAAATA
1 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGA-AAAAAAATA
47119085 CGAACAAA
65 CGAACAAA
47119093 TAGTTAAAAT
Statistics
Matches: 197, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
141 8 0.04
143 73 0.37
144 59 0.30
145 48 0.24
146 9 0.05
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (144 bp):
TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGAAAAAAAATAC
GAACAAAGGGTTGAAATAAGAGATTTTTTTAAATTTATTTAAAAACACAATAAATTAATACATTT
CAAATATAATGCAC
Found at i:47121172 original size:47 final size:47
Alignment explanation
Indices: 47121100--47121194 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
47121090 CACTTCTATG
*
47121100 GTGAGTTGTAAGTTGTGTTACAAGGTTTTGCACTGCTGGGAAAGAGA
1 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
47121147 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
1 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
47121194 G
1 G
47121195 CATAACAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.32
Consensus pattern (47 bp):
GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
Found at i:47125201 original size:12 final size:12
Alignment explanation
Indices: 47125184--47125208 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47125174 AGCACCAAAA
47125184 TAGTTTTTTTTT
1 TAGTTTTTTTTT
47125196 TAGTTTTTTTTT
1 TAGTTTTTTTTT
47125208 T
1 T
47125209 CCTTTTCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TAGTTTTTTTTT
Found at i:47125652 original size:3 final size:3
Alignment explanation
Indices: 47125644--47125700 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
47125634 ATTTGACATT
* ** *
47125644 TTA TTA TTA TTA TTA TTA CTA CCA TTA TTAA TCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
47125689 TTA CTTA TTA TT
1 TTA -TTA TTA TT
47125701 CTTGTTATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47129627 original size:20 final size:20
Alignment explanation
Indices: 47129598--47129637 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47129588 TTCACCTCAT
*
47129598 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
47129618 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
47129638 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:47137765 original size:46 final size:46
Alignment explanation
Indices: 47137696--47137861 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
47137686 AAAAGTAAAG
47137696 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACA
* * * * * * * * * * *
47137742 GATTGAAGCTACGACGGCGGATCTGGTTTCCCT-GATATTACAATTGAAAA
1 GATTGAAGCCACAACGGCAGATC----TTACTTAG-CAGTGCAGTGGAACA
47137792 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACA
* * *
47137838 GATTGAAGCTACGACGGCGGATCT
1 GATTGAAGCCACAACGGCAGATCT
47137862 GGTTTCCCTG
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
46 54 0.61
47 1 0.01
49 1 0.01
50 33 0.37
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACA
Found at i:47137860 original size:96 final size:96
Alignment explanation
Indices: 47137696--47137969 Score: 467
Period size: 96 Copynumber: 2.8 Consensus size: 96
47137686 AAAAGTAAAG
47137696 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
1 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
47137761 GATCTGGTTTCCCTGATATTACAATTGAAAA
66 GATCTGGTTTCCCTGATATTACAATTGAAAA
47137792 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
1 GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
47137857 GATCTGGTTTCCCTGATATTACAATTGAAAA
66 GATCTGGTTTCCCTGATATTACAATTGAAAA
* ** * *
47137888 GATTGAAGCCACAACGGCAGATCTTATTTCCCTAACGATGCGGTGGAACAGATTTAAGCTACGAC
1 GATTGAAGCCACAACGGCAGATCTTACTTAGC--A-G-TGCAGTGGAACAGATTGAAGCTACGAC
47137953 GGCGGATCTGGTTTCCC
62 GGCGGATCTGGTTTCCC
47137970 CAACATGGCA
Statistics
Matches: 169, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
96 125 0.74
98 1 0.01
99 1 0.01
100 42 0.25
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (96 bp):
GATTGAAGCCACAACGGCAGATCTTACTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
GATCTGGTTTCCCTGATATTACAATTGAAAA
Found at i:47137987 original size:50 final size:49
Alignment explanation
Indices: 47137730--47137995 Score: 207
Period size: 50 Copynumber: 5.4 Consensus size: 49
47137720 TACTTAGCAG
* *
47137730 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAACA
* * * * * * * * * *
47137779 TTACAATTGAAAAGATTGAAGCCACAACGGCAGATC----TTACTTAGCA
1 -TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAACA
* *
47137825 GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
1 -TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAACA
* * * * * * * **
47137875 TTACAATTGAAAAGATTGAAGCCACAACGGCAGATCTTATTTCCCTAACGA
1 -TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAAC-A
* * *
47137926 TGCGGTGGAACAGATTTAAGCTACGACGGCGGATCTGGTTTCCCCAACA
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAACA
* *
47137975 TGGCAGTTGAACAAATTGAAG
1 T-GCAGTGGAACAGATTGAAG
47137996 ATTACAGATC
Statistics
Matches: 157, Mismatches: 53, Indels: 12
0.71 0.24 0.05
Matches are distributed among these distances:
46 33 0.21
49 2 0.01
50 121 0.77
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAACA
Found at i:47139780 original size:3 final size:3
Alignment explanation
Indices: 47139772--47139828 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
47139762 ATTTGACATT
* ** *
47139772 TTA TTA TTA TTA TTA TTA CTA CCA TTA TTAA TCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
47139817 TTA CTTA TTA TT
1 TTA -TTA TTA TT
47139829 CTTGTTATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47142084 original size:52 final size:48
Alignment explanation
Indices: 47142006--47142104 Score: 117
Period size: 52 Copynumber: 2.0 Consensus size: 48
47141996 ATTGTCACCT
* *
47142006 TTGATTGATGTAGATAGGATTTTCCTTCCTTCTTAAGATGACTTTGAAATCC
1 TTGATTGATGAAGATAGGATATTCCTT-C-TC--AAGATGACTTTGAAATCC
* * *
47142058 TTGATTGATGAATATGGGATATTCCTTCTCAAGATGACTTTTAAATC
1 TTGATTGATGAAGATAGGATATTCCTTCTCAAGATGACTTTGAAATC
47142105 GTGTTCTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 16 0.38
50 2 0.05
51 1 0.02
52 23 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (48 bp):
TTGATTGATGAAGATAGGATATTCCTTCTCAAGATGACTTTGAAATCC
Found at i:47150682 original size:5 final size:5
Alignment explanation
Indices: 47150672--47150699 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
47150662 ATTCAAAAAG
47150672 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
47150700 CAATCACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:47153290 original size:113 final size:113
Alignment explanation
Indices: 47153082--47153394 Score: 425
Period size: 113 Copynumber: 2.8 Consensus size: 113
47153072 TAAGCGCCGT
* *
47153082 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGG-ATGTTAGAATTGGTGGCGCTTAA-GA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGC-TAACGA
* * * * * **
47153145 AAAACGCCGCTATAGCATATTATCAGCGGCGTTTTGCACGAAACGCTGC
65 AAAAAGCCGCTATAGGATAATATTAGCGGCGTTTTGCACAAAACGCCAC
* *
47153194 AAAAAATGTTAACCAAAATGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGTGCTAACGAA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTAACGAA
* *
47153259 AAAAGCCGCTATAGGATAGTATTAGCGGCGTTTTGTACAAAACGCCAC
66 AAAAGCCGCTATAGGATAATATTAGCGGCGTTTTGCACAAAACGCCAC
* * * * *
47153307 AAAATATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACT-TCCAA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTAACGAA
47153371 AAAATGCCGCTATAGGATAATATT
66 AAAA-GCCGCTATAGGATAATATT
47153395 TACTTGAAAT
Statistics
Matches: 178, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
112 47 0.26
113 131 0.74
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (113 bp):
AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTAACGAA
AAAAGCCGCTATAGGATAATATTAGCGGCGTTTTGCACAAAACGCCAC
Found at i:47154600 original size:21 final size:21
Alignment explanation
Indices: 47154574--47154666 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
47154564 CTACAACTTA
* *
47154574 AAGCAGAGGCCGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
**
47154595 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
47154616 AAGCAGAGGCGGCAGTGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
47154637 AAGCAGAGGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCGAGAG
47154658 AAGCAGAGG
1 AAGCAGAGG
47154667 TTCAAAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:47155225 original size:85 final size:84
Alignment explanation
Indices: 47155096--47155258 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 84
47155086 TTTGTGAATC
* * *
47155096 AAGCGCCGCTAAAGAACGTGATTTTTAGCAGCGTTTTTCATTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTCATTAAGCGCCGCTAAAGAACATGACC
47155161 TTTAGCGGCGTTTCTCTTT
66 TTTAGCGGCGTTTCTCTTT
* ** * *
47155180 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTTAAGCGTCGTTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGT-TTTTCATTAAGCGCCGCTAAAGAACATGAC
47155245 CTTTAGCGGCGTTT
65 CTTTAGCGGCGTTT
47155259 TTTTCGGTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 31 0.44
85 39 0.56
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTCATTAAGCGCCGCTAAAGAACATGACC
TTTAGCGGCGTTTCTCTTT
Found at i:47155262 original size:43 final size:42
Alignment explanation
Indices: 47155096--47155260 Score: 240
Period size: 42 Copynumber: 3.9 Consensus size: 42
47155086 TTTGTGAATC
* * * *
47155096 AAGCGCCGCTAAAGAACGTGATTTTTAGCAGCGTTTTTCATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTT
*
47155138 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTCTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTT
*
47155180 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTCTTT
* * *
47155223 AAGCGTCGTTAAAGAACATGACCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
47155261 TTCGGTAAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 75 0.67
43 37 0.33
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTT
Found at i:47157320 original size:27 final size:27
Alignment explanation
Indices: 47157282--47157338 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
47157272 AAATTTTTTT
*
47157282 AAATTGAGTTAAGT-GAAATAAAATTTA
1 AAATTGAGTTAAATCG-AATAAAATTTA
* *
47157309 AAATTGATTTAAATCGAGTAAAATTTA
1 AAATTGAGTTAAATCGAATAAAATTTA
47157336 AAA
1 AAA
47157339 ATTAAACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (27 bp):
AAATTGAGTTAAATCGAATAAAATTTA
Found at i:47157505 original size:19 final size:19
Alignment explanation
Indices: 47157481--47157530 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
47157471 TTTTTAAAAA
47157481 TATAAATTTTGGAATTTTT
1 TATAAATTTTGGAATTTTT
* *
47157500 TATAAATATTTTGATTTTTT
1 TATAAAT-TTTGGAATTTTT
* *
47157520 TGTAATTTTTG
1 TATAAATTTTG
47157531 TTGAGGGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TATAAATTTTGGAATTTTT
Found at i:47159638 original size:12 final size:12
Alignment explanation
Indices: 47159621--47159645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47159611 AGACCTGATA
47159621 AAATAAGAAAAC
1 AAATAAGAAAAC
47159633 AAATAAGAAAAC
1 AAATAAGAAAAC
47159645 A
1 A
47159646 TCTCCTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAGAAAAC
Found at i:47162295 original size:15 final size:15
Alignment explanation
Indices: 47162271--47162300 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47162261 ATCTAGATTT
47162271 GTAATCAAATTTTAA
1 GTAATCAAATTTTAA
*
47162286 GTAATTAAATTTTAA
1 GTAATCAAATTTTAA
47162301 AATCAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATCAAATTTTAA
Found at i:47165500 original size:23 final size:24
Alignment explanation
Indices: 47165469--47165523 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
47165459 ATTATTTGTG
* * *
47165469 AAAATAATATTT-ATCATTATTAT
1 AAAAAAATATTTAATCATAACTAT
*
47165492 AAAAAAATATTTAATTATAACTAT
1 AAAAAAATATTTAATCATAACTAT
47165516 AAAAAAAT
1 AAAAAAAT
47165524 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAAATATTTAATCATAACTAT
Found at i:47165798 original size:21 final size:21
Alignment explanation
Indices: 47165774--47165826 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
47165764 CATTGTTTCT
47165774 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
47165795 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
47165816 AATCTCACCGC
1 AATCTCACCGC
47165827 CACCTCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.43, G:0.09, T:0.19
Consensus pattern (21 bp):
AATCTCACCGCTACAGTACCC
Done.