Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 60 of 85
Found at i:20980115 original size:14 final size:14
Alignment explanation
Indices: 20979975--20980116 Score: 81
Period size: 14 Copynumber: 10.0 Consensus size: 14
20979965 TTACTCCGAT
* *
20979975 GGTTTAGGGATTAT
1 GGTTTAGGGTTTAG
* *
20979989 GGTTTATGGTTTAT
1 GGTTTAGGGTTTAG
* *
20980003 GGTTTATGGTTTAAA
1 GGTTTAGGGTTT-AG
* *
20980018 GG-TTGGGGTTTAA
1 GGTTTAGGGTTTAG
20980031 GGTTTAAGGG-TTAG
1 GGTTT-AGGGTTTAG
* *
20980045 GGGTTAGGGATTTAT
1 GGTTTAGGG-TTTAG
* ***
20980060 GTTTTATAATTTAG
1 GGTTTAGGGTTTAG
**
20980074 GGTTTAGGGGATAGG
1 GGTTTAGGGTTTA-G
20980089 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
*
20980103 GGTTTAGGTTTTAG
1 GGTTTAGGGTTTAG
20980117 ATTAATTAGT
Statistics
Matches: 98, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
13 8 0.08
14 65 0.66
15 25 0.26
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:20982471 original size:49 final size:48
Alignment explanation
Indices: 20982399--20982497 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 48
20982389 ATGATTGAAA
20982399 TGACCTCAATGCCTTGGAGATAGCAAATGATGAAATATAGGATCAATTT
1 TGACCTCAATGCCTTGGAGATAGCAAATGATG-AATATAGGATCAATTT
20982448 TGACCTCAATGCCTTGGAGATAGCAAATGATGAATATAGGATCAATTT
1 TGACCTCAATGCCTTGGAGATAGCAAATGATGAATATAGGATCAATTT
20982496 TG
1 TG
20982498 GAGTCACTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 18 0.36
49 32 0.64
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (48 bp):
TGACCTCAATGCCTTGGAGATAGCAAATGATGAATATAGGATCAATTT
Found at i:20984802 original size:43 final size:43
Alignment explanation
Indices: 20984704--20985052 Score: 368
Period size: 43 Copynumber: 8.1 Consensus size: 43
20984694 TGTTTTTAGT
* * * * * *
20984704 GGCGTTTTTGCGAGAAACGTCGCTAAAGGT-TTGTTCTATAGC
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTCGATCTATAGC
* * *
20984746 GGCGTTTGAGGGAAAAACGCCGCTAAAGGTCTCGAGCTATAGT
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTCGATCTATAGC
* * *
20984789 GGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTCGAGCTATAGC
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTCGATCTATAGC
* *
20984832 GGCGTTTAT-GGAAAAAGCGCCGCTAAAGGTCTCGAGCTATAGC
1 GGCGTTTGTGGGAAAAA-CGCCGCTAAAGGTCTCGATCTATAGC
* * *
20984875 GACGTTTGT-GGAAAAAGCGCCTCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAA-CGCCGCTAAAGGTCTCGATCTATAGC
* *
20984918 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTCGATCTATAGC
* * *
20984961 TGCGTTTGT-GGAGAAAGCGCCGCTAAAGGTC-CTGATCTATAAC
1 GGCGTTTGTGGGA-AAAACGCCGCTAAAGGTCTC-GATCTATAGC
* * * *
20985004 GACGTTTGTAGGAAAAGCGCCGCTAAATGTCAT-GATCTATAGC
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTC-TCGATCTATAGC
*
20985047 AGCGTT
1 GGCGTT
20985053 GATAATAGCG
Statistics
Matches: 266, Mismatches: 33, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
42 34 0.13
43 223 0.84
44 9 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTCGATCTATAGC
Found at i:20984933 original size:129 final size:129
Alignment explanation
Indices: 20984739--20985052 Score: 427
Period size: 129 Copynumber: 2.4 Consensus size: 129
20984729 AAGGTTTGTT
* * * * *
20984739 CTATAGCGGCGTTTGAGGGAAAAA-CGCCGCTAAAGGTCTCGAGCTATAGTGGCGTTTGTGGGAA
1 CTATAGCGACGTTTG-TGGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
*
20984803 AAGCGTCGCTAAAGGTCTCGAGCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGT-CTCGA
65 AAGCGCCGCTAAAGGTCTCGAGCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCT-GA
20984867 G
129 G
*
20984868 CTATAGCGACGTTTGTGGAAAAAGCGCCTCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAA
1 CTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAA
* * * * * *
20984933 AGCGCCGCTAAAGGTCTTGATCTATAGCTGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCCTGAT
66 AGCGCCGCTAAAGGTCTCGAGCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCTGAG
* * * *
20984997 CTATAACGACGTTTGTAGG-AAAAGCGCCGCTAAATGTCATGATCTATAGCAGCGTT
1 CTATAGCGACGTTTGT-GGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTT
20985053 GATAATAGCG
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
128 7 0.04
129 153 0.93
130 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (129 bp):
CTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAA
AGCGCCGCTAAAGGTCTCGAGCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCTGAG
Found at i:20985350 original size:29 final size:29
Alignment explanation
Indices: 20985305--20985364 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
20985295 ATATCACAAT
*
20985305 TATGAATTTTGATTTTG-TATAATTTTATA
1 TATGAATTTTGAATTTGATATAATTTT-TA
*
20985334 TATGAAATTTT-AATTTGATTTAATTTTTA
1 TATG-AATTTTGAATTTGATATAATTTTTA
20985363 TA
1 TA
20985365 AATCATTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (29 bp):
TATGAATTTTGAATTTGATATAATTTTTA
Found at i:20985917 original size:22 final size:22
Alignment explanation
Indices: 20985891--20985936 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20985881 TAATGAATTA
20985891 AATT-ATTATTATTA-TTATAAGT
1 AATTAATTA-TATTATTTA-AAGT
20985913 AATTAATTATATTATTTAAAGT
1 AATTAATTATATTATTTAAAGT
20985935 AA
1 AA
20985937 AAAGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTAATTATATTATTTAAAGT
Found at i:20986034 original size:4 final size:4
Alignment explanation
Indices: 20985988--20986018 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
20985978 AACGTTTATA
20985988 TAAT TAA- TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
20986019 AAAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:20986208 original size:15 final size:15
Alignment explanation
Indices: 20986190--20986219 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20986180 TACACCTAAA
*
20986190 TTTATGTTAATTAGC
1 TTTAGGTTAATTAGC
20986205 TTTAGGTTAATTAGC
1 TTTAGGTTAATTAGC
20986220 GCTAAAACAA
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:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAGGTTAATTAGC
Found at i:20987166 original size:22 final size:22
Alignment explanation
Indices: 20987140--20987185 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20987130 TAATGAATTA
20987140 AATT-ATTATTATTA-TTATAAGT
1 AATTAATTA-TATTATTTA-AAGT
20987162 AATTAATTATATTATTTAAAGT
1 AATTAATTATATTATTTAAAGT
20987184 AA
1 AA
20987186 AAAGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTAATTATATTATTTAAAGT
Found at i:20987283 original size:4 final size:4
Alignment explanation
Indices: 20987237--20987267 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
20987227 AACGTTTATA
20987237 TAAT TAA- TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
20987268 AAAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:20987457 original size:15 final size:15
Alignment explanation
Indices: 20987439--20987468 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20987429 TACACCTAAA
*
20987439 TTTATGTTAATTAGC
1 TTTAGGTTAATTAGC
20987454 TTTAGGTTAATTAGC
1 TTTAGGTTAATTAGC
20987469 GCTAAAACAA
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:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAGGTTAATTAGC
Found at i:20990324 original size:21 final size:22
Alignment explanation
Indices: 20990286--20990329 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20990276 TCCTGTTGTA
20990286 TTTAATATATAATAATATATAT
1 TTTAATATATAATAATATATAT
* *
20990308 TTTATTATATACT-ATATATAT
1 TTTAATATATAATAATATATAT
20990329 T
1 T
20990330 ATATAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATATATAATAATATATAT
Found at i:20991396 original size:39 final size:38
Alignment explanation
Indices: 20991353--20991450 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 38
20991343 GAAATCTCCT
* *
20991353 AGTAACATGTGAAATTTAAAAACTCTACAAAATTAAGAA
1 AGTAACAAGTGAAATTTAAAAA-ACTACAAAATTAAGAA
*
20991392 AGTAACAAGTGAAA-TTAAAAAAGTACAAAATTAAGAA
1 AGTAACAAGTGAAATTTAAAAAACTACAAAATTAAGAA
*
20991429 AGTAACACGTGAAATTTAAAAA
1 AGTAACAAGTGAAATTTAAAAA
20991451 GTACATTGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
37 27 0.50
38 14 0.26
39 13 0.24
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.22
Consensus pattern (38 bp):
AGTAACAAGTGAAATTTAAAAAACTACAAAATTAAGAA
Found at i:20991408 original size:21 final size:21
Alignment explanation
Indices: 20991382--20991453 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
20991372 AAACTCTACA
20991382 AAATTAAGAAAGTAACAAGTG
1 AAATTAAGAAAGTAACAAGTG
*
20991403 AAATTAAAAAAGT-AC-A---
1 AAATTAAGAAAGTAACAAGTG
*
20991419 AAATTAAGAAAGTAACACGTG
1 AAATTAAGAAAGTAACAAGTG
20991440 AAATTTAA-AAAGTA
1 AAA-TTAAGAAAGTA
20991454 CATTGTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
16 12 0.29
17 2 0.05
19 1 0.02
20 2 0.05
21 21 0.50
22 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.21
Consensus pattern (21 bp):
AAATTAAGAAAGTAACAAGTG
Found at i:20992210 original size:23 final size:23
Alignment explanation
Indices: 20992180--20992226 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
20992170 CAAATCATAT
*
20992180 ATAATCATGTAATATTTTAATAA
1 ATAATCATGTAACATTTTAATAA
20992203 ATAATCATGTAACATTTTAATAA
1 ATAATCATGTAACATTTTAATAA
20992226 A
1 A
20992227 AAATTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAATCATGTAACATTTTAATAA
Found at i:20993232 original size:22 final size:23
Alignment explanation
Indices: 20993207--20993255 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
20993197 TAGCGAACAA
*
20993207 ATAT-AAATATAAATAAGT-ATTT
1 ATATAAAATA-AAATAAATAATTT
20993229 ATATAAAATAAAATAAATAATTT
1 ATATAAAATAAAATAAATAATTT
20993252 ATAT
1 ATAT
20993256 TTAAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATAAAATAAAATAAATAATTT
Found at i:20993251 original size:23 final size:22
Alignment explanation
Indices: 20993207--20993255 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
20993197 TAGCGAACAA
*
20993207 ATATAAATATAAATAAGTATTT
1 ATATAAATATAAATAAATATTT
20993229 ATATAAA-ATAAAATAAATAATTT
1 ATATAAATAT-AAATAAAT-ATTT
20993252 ATAT
1 ATAT
20993256 TTAAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATAAATATAAATAAATATTT
Found at i:20993705 original size:20 final size:20
Alignment explanation
Indices: 20993680--20993728 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20993670 AGGAGCAATT
* *
20993680 AAATCAATTTGTTTAAAATC
1 AAATCAAATTGATTAAAATC
*
20993700 AAATCAAATTGATTGAAATC
1 AAATCAAATTGATTAAAATC
*
20993720 AAATAAAAT
1 AAATCAAAT
20993729 CAAGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:21000005 original size:20 final size:20
Alignment explanation
Indices: 20999982--21000023 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20999972 GAAAGAACGA
*
20999982 AAGAAAAAAGACAAGAAAAG
1 AAGAAAAAAGAAAAGAAAAG
* *
21000002 AAGAGAAAAGAAAAGGAAAG
1 AAGAAAAAAGAAAAGAAAAG
21000022 AA
1 AA
21000024 CGTTAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAGAAAAGAAAAG
Found at i:21005476 original size:19 final size:19
Alignment explanation
Indices: 21005454--21005495 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21005444 AAAATTAAAA
21005454 TATTGGATTTTA-ATTTAAT
1 TATT-GATTTTAGATTTAAT
* *
21005473 TATTTATTTTAGATTTACT
1 TATTGATTTTAGATTTAAT
21005492 TATT
1 TATT
21005496 TAATTTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TATTGATTTTAGATTTAAT
Found at i:21005496 original size:19 final size:18
Alignment explanation
Indices: 21005460--21005502 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21005450 AAAATATTGG
21005460 ATTTTAATTTAATTATTT
1 ATTTTAATTTAATTATTT
*
21005478 ATTTTAGATTTACTTATTT
1 ATTTTA-ATTTAATTATTT
*
21005497 AATTTA
1 ATTTTA
21005503 TTCATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAATTTAATTATTT
Found at i:21014429 original size:15 final size:15
Alignment explanation
Indices: 21014402--21014443 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
21014392 ATAATTCATT
21014402 ATATTTA-TTTAATA
1 ATATTTATTTTAATA
21014416 CAT-TTTATTTTAATA
1 -ATATTTATTTTAATA
21014431 ATATTTAATTTTA
1 ATATTT-ATTTTA
21014444 TATAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTATTTTAATA
Found at i:21014432 original size:18 final size:18
Alignment explanation
Indices: 21014381--21014433 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
21014371 TTTTGATCAT
*
21014381 TTTTATTTTAAATAATTCA
1 TTTTATTTT-AATAATACA
* *
21014400 TTATA-TTTATTTAATACA
1 TTTTATTTTA-ATAATACA
21014418 TTTTATTTTAATAATA
1 TTTTATTTTAATAATA
21014434 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 1 0.04
18 18 0.67
19 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATTTTAATAATACA
Found at i:21017853 original size:8 final size:8
Alignment explanation
Indices: 21017825--21017854 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21017815 TTTAAAATTC
21017825 AAAAATAA
1 AAAAATAA
*
21017833 AAATATAA
1 AAAAATAA
21017841 AAAAATAA
1 AAAAATAA
21017849 AAAAAT
1 AAAAAT
21017855 TTCTATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:21018083 original size:7 final size:7
Alignment explanation
Indices: 21018071--21018098 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
21018061 AAAACTTATT
21018071 AAAAATA
1 AAAAATA
21018078 AAAAATA
1 AAAAATA
21018085 AAAAATA
1 AAAAATA
21018092 AAAAATA
1 AAAAATA
21018099 TTAAGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:21021130 original size:28 final size:28
Alignment explanation
Indices: 21021065--21021119 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21021055 ACAATGGAAA
21021065 ATTAAAATTTTTGAAAATTGAGTCGGTC
1 ATTAAAATTTTTGAAAATTGAGTCGGTC
21021093 ATTAAAATTTTTGAAAATTGAGTCGGT
1 ATTAAAATTTTTGAAAATTGAGTCGGT
21021120 TTGTGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.40
Consensus pattern (28 bp):
ATTAAAATTTTTGAAAATTGAGTCGGTC
Found at i:21023906 original size:3 final size:3
Alignment explanation
Indices: 21023898--21023988 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
21023888 GGTTAATGAT
21023898 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
21023946 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
21023989 AAGTAAGTTC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21027055 original size:27 final size:27
Alignment explanation
Indices: 21027017--21027249 Score: 202
Period size: 27 Copynumber: 8.6 Consensus size: 27
21027007 ATTCGTGCGC
21027017 AAATGACCGAAATACCCCCGAAAGATA
1 AAATGACCGAAATACCCCCGAAAGATA
*
21027044 AAATGATCGAAATACCCCCGAAAGATA
1 AAATGACCGAAATACCCCCGAAAGATA
* * ** *
21027071 AAATGATCGAAATACCCCTGAGGGGTA
1 AAATGACCGAAATACCCCCGAAAGATA
* **
21027098 AAATGACCGAAATACCCCTGAGGGATA
1 AAATGACCGAAATACCCCCGAAAGATA
** * * *
21027125 AAATGACTAAAATAGCCCCAAAAGACA
1 AAATGACCGAAATACCCCCGAAAGATA
* * **
21027152 AAATGACCGAAATA-CCACTATTGGATA
1 AAATGACCGAAATACCCCCGA-AAGATA
** *
21027179 AAATGACTAAAATACCCCC-ATAAGGTA
1 AAATGACCGAAATACCCCCGA-AAGATA
* **
21027206 AAATGATCGAAATACCCCCGATGGGA-A
1 AAATGACCGAAATACCCCCGA-AAGATA
21027233 AAATGACCGAAATACCC
1 AAATGACCGAAATACCC
21027250 TTGAGTGGTA
Statistics
Matches: 168, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 4 0.02
27 158 0.94
28 6 0.04
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.15
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCGAAAGATA
Found at i:21027267 original size:81 final size:80
Alignment explanation
Indices: 21027017--21027266 Score: 260
Period size: 81 Copynumber: 3.1 Consensus size: 80
21027007 ATTCGTGCGC
* * *
21027017 AAATGACCGAAATACCCCCGA-AAGATAAAATGATCGAAATACCCCCGAAAGATAAAATGATCGA
1 AAATGACCGAAATACCCCC-ATAAGGTAAAATGATCGAAATACCCCCGAAAGACAAAATGACCGA
*
21027081 AATACCCCTGAGGGGTA
65 AATA-CCCTGAGTGGTA
* * * *
21027098 AAATGACCGAAATA-CCCC-TGAGGGATAAAATGA-CTAAAATAGCCCCAAAAGACAAAATGACC
1 AAATGACCGAAATACCCCCAT-AAGG-TAAAATGATC-GAAATACCCCCGAAAGACAAAATGACC
*
21027160 GAAATACCACT-ATTGGATA
63 GAAATACC-CTGAGTGG-TA
** **
21027179 AAATGACTAAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCGATGGGA-AAAATGACCGA
1 AAATGACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCGA-AAGACAAAATGACCGA
21027243 AATACCCTTGAGTGGTA
65 AATACCC-TGAGTGGTA
21027260 AAATGAC
1 AAATGAC
21027267 TGTTATACCC
Statistics
Matches: 139, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
80 13 0.09
81 111 0.80
82 14 0.10
83 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (80 bp):
AAATGACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCGAAAGACAAAATGACCGAA
ATACCCTGAGTGGTA
Found at i:21027274 original size:27 final size:27
Alignment explanation
Indices: 21027244--21027306 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
21027234 AATGACCGAA
*
21027244 ATACCCTTGAGTGGT-AAAATGACTGTT
1 ATACCCTT-AGGGGTCAAAATGACTGTT
*
21027271 ATACCCCTAGGGGTCAAAATGACTGTT
1 ATACCCTTAGGGGTCAAAATGACTGTT
*
21027298 ATAGCCTTA
1 ATACCCTTA
21027307 TGATATGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
ATACCCTTAGGGGTCAAAATGACTGTT
Found at i:21027290 original size:81 final size:79
Alignment explanation
Indices: 21027042--21027292 Score: 249
Period size: 81 Copynumber: 3.1 Consensus size: 79
21027032 CCCCGAAAGA
* * * *
21027042 TAAAATGATCGAAATACCCCCGAAAGATAAAATGATCGAAATACCCCTGAGGGGTAAAATGACCG
1 TAAAATGATCGAAATACCCCCGAAAGACAAAATGACCGAAATA-CCCTGAGTGGTAAAATGACTG
*
21027107 AAATACCCCTGAGGGA
65 AAATACCCCT-AGGGG
* * * *
21027123 TAAAATGA-CTAAAATAGCCCCAAAAGACAAAATGACCGAAATACCACT-ATTGGATAAAATGAC
1 TAAAATGATC-GAAATACCCCCGAAAGACAAAATGACCGAAATACC-CTGAGTGG-TAAAATGAC
* *
21027186 TAAAATACCCCCATA-AGG
63 TGAAATA-CCCC-TAGGGG
**
21027204 TAAAATGATCGAAATACCCCCGATGGGA-AAAATGACCGAAATACCCTTGAGTGGTAAAATGACT
1 TAAAATGATCGAAATACCCCCGA-AAGACAAAATGACCGAAATACCC-TGAGTGGTAAAATGACT
**
21027268 GTTATACCCCTAGGGG
64 GAAATACCCCTAGGGG
21027284 TCAAAATGA
1 T-AAAATGA
21027293 CTGTTATAGC
Statistics
Matches: 138, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
79 2 0.01
80 14 0.10
81 109 0.79
82 12 0.09
83 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (79 bp):
TAAAATGATCGAAATACCCCCGAAAGACAAAATGACCGAAATACCCTGAGTGGTAAAATGACTGA
AATACCCCTAGGGG
Found at i:21029514 original size:45 final size:44
Alignment explanation
Indices: 21029465--21029579 Score: 169
Period size: 45 Copynumber: 2.5 Consensus size: 44
21029455 GAAGTGGTGT
* *
21029465 CATAGTATCTTAAAACTATGGTCTTGTTTGTTATCG-ATGTAATGC
1 CATAGTATCTT-CAACTATGGTCTTATTTGTT-TCGTATGTAATGC
21029510 CATAGTATCTTTCAACTATGGTCTTATTTGTTTCGTATGTAATGC
1 CATAGTATC-TTCAACTATGGTCTTATTTGTTTCGTATGTAATGC
21029555 CATAGTATCTCTCAACTATGGTCTT
1 CATAGTATCT-TCAACTATGGTCTT
21029580 TCTCGTTTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
44 4 0.06
45 59 0.91
46 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (44 bp):
CATAGTATCTTCAACTATGGTCTTATTTGTTTCGTATGTAATGC
Found at i:21029598 original size:45 final size:45
Alignment explanation
Indices: 21029504--21029666 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
21029494 GTTATCGATG
* * * *
21029504 TAATGCCATAGTATCTTTCAACTATGGTCTTAT-TTGTTTCGTATG
1 TAATGCCATAGTATCTTTCAACTATGGTCTT-TCTCGTTTTGTGTA
* *
21029549 TAATGCCATAGTATCTCTCAACTATGGTCTTTCTCGTTTTGGGTA
1 TAATGCCATAGTATCTTTCAACTATGGTCTTTCTCGTTTTGTGTA
* * *
21029594 TAATGCCATGGTATTTTTTCAACCATGGTCTTTCTCGTTTTGTGTA
1 TAATGCCATAGTA-TCTTTCAACTATGGTCTTTCTCGTTTTGTGTA
* * *
21029640 TAATGCCATGGTATTTTTCAACCATGG
1 TAATGCCATAGTATCTTTCAACTATGG
21029667 CGTTTCCTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 63 0.60
46 41 0.39
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
TAATGCCATAGTATCTTTCAACTATGGTCTTTCTCGTTTTGTGTA
Found at i:21036836 original size:13 final size:13
Alignment explanation
Indices: 21036818--21036844 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21036808 CGTGTTTCCA
21036818 AAAACCATTTGTT
1 AAAACCATTTGTT
21036831 AAAACCATTTGTT
1 AAAACCATTTGTT
21036844 A
1 A
21036845 GCGTAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:21038209 original size:11 final size:11
Alignment explanation
Indices: 21038173--21038202 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21038163 AGGAGAGAGG
21038173 AAAAATAAAAT
1 AAAAATAAAAT
*
21038184 AAAAAGAAAAT
1 AAAAATAAAAT
21038195 AAAAATAA
1 AAAAATAA
21038203 TAAAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:21040756 original size:24 final size:23
Alignment explanation
Indices: 21040706--21040948 Score: 117
Period size: 24 Copynumber: 10.5 Consensus size: 23
21040696 TACGTTGTTT
* *
21040706 TGGACAACATTTATA-CATCAAAT
1 TGGACAACATTAATATC-TCAAAA
*
21040729 TGGAAAACATTAATATGCTCAAAA
1 TGGACAACATTAATAT-CTCAAAA
*
21040753 TGGACAACATT-ATA-CATCAAAT
1 TGGACAACATTAATATC-TCAAAA
* * *
21040775 TAGACAGCATCAATATACTCAAAA
1 TGGACAACATTAATAT-CTCAAAA
*
21040799 TGGACAACATT-ATA-CATCAAAT
1 TGGACAACATTAATATC-TCAAAA
** *
21040821 TGGGTAACATCAATATACTCAAAA
1 TGGACAACATTAATAT-CTCAAAA
* * *
21040845 TGGACAGCATT-ATA-CATTAAAT
1 TGGACAACATTAATATC-TCAAAA
* * * *
21040867 TGGATAGCTTTAATATGCTCAAAT
1 TGGACAACATTAATAT-CTCAAAA
* * *
21040891 TGGATAGCATT-ATA-CATCAAAT
1 TGGACAACATTAATATC-TCAAAA
* *
21040913 TGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTAATAT-CTCAAAA
*
21040937 TGGACAGCATTA
1 TGGACAACATTA
21040949 TAACATATAA
Statistics
Matches: 171, Mismatches: 31, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.02
22 54 0.32
23 37 0.22
24 71 0.42
25 5 0.03
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (23 bp):
TGGACAACATTAATATCTCAAAA
Found at i:21040774 original size:46 final size:46
Alignment explanation
Indices: 21040706--21040950 Score: 319
Period size: 46 Copynumber: 5.3 Consensus size: 46
21040696 TACGTTGTTT
* * *
21040706 TGGACAACATTTATACATCAAATTGGAAAACATTAATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
21040753 TGGACAACATTATACATCAAATTAGACAGCATCAATATACTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
** * *
21040799 TGGACAACATTATACATCAAATTGGGTAACATCAATATACTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * * *
21040845 TGGACAGCATTATACATTAAATTGGATAGCTTTAATATGCTCAAAT
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
21040891 TGGATAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
21040937 TGGACAGCATTATA
1 TGGACAACATTATA
21040951 ACATATAAAA
Statistics
Matches: 174, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 165 0.95
47 9 0.05
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:21040845 original size:25 final size:22
Alignment explanation
Indices: 21040782--21040859 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 22
21040772 AATTAGACAG
21040782 CATCAATATACTCAAAA-TGGA
1 CATCAATATACTCAAAATTGGA
* *
21040803 CAACATTATACATC-AAATTGGGTAA
1 CATCAATATAC-TCAAAATT-GG--A
21040828 CATCAATATACTCAAAA-TGGA
1 CATCAATATACTCAAAATTGGA
* *
21040849 CAGCATTATAC
1 CATCAATATAC
21040860 ATTAAATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 22 0.49
22 3 0.07
23 4 0.09
24 3 0.07
25 13 0.29
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (22 bp):
CATCAATATACTCAAAATTGGA
Found at i:21041684 original size:41 final size:39
Alignment explanation
Indices: 21041637--21041772 Score: 157
Period size: 41 Copynumber: 3.4 Consensus size: 39
21041627 TTGCCATCAT
*
21041637 ATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCTTA
1 ATAGCCGAAGCTATT-CAATCTCGCACACTAAGTGCCTTA
* *
21041677 CATAGCCGAAGCTATCTCAGTCTCGCACACTAAGTGCCATA
1 -ATAGCCGAAGCTAT-TCAATCTCGCACACTAAGTGCCTTA
* *
21041718 TATAGCCGAAGCTATTCCAA-ATCGCACACTAAGTGTCATTA
1 -ATAGCCGAAGCTATT-CAATCTCGCACACTAAGTG-CCTTA
*
21041759 ATAGTCGAAGCTAT
1 ATAGCCGAAGCTAT
21041773 CTCGAATTTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
40 28 0.34
41 54 0.65
42 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (39 bp):
ATAGCCGAAGCTATTCAATCTCGCACACTAAGTGCCTTA
Found at i:21041768 original size:40 final size:42
Alignment explanation
Indices: 21041637--21041793 Score: 134
Period size: 41 Copynumber: 3.9 Consensus size: 42
21041627 TTGCCATCAT
* * *
21041637 ATAGCCGAAGCTATTAT-A-ATCTCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATTCTCAGA-ATCGCACACTAAGTGCATTAC
** *
21041678 ATAGCCGAAGCTA-TCTCAGTCTCGCACACTAAGTGCCA-TAT
1 ATAGCCGAAGCTATTCTCAGAATCGCACACTAAGTG-CATTAC
21041719 ATAGCCGAAGCTATTC-CA-AATCGCACACTAAGTGTCATTA-
1 ATAGCCGAAGCTATTCTCAGAATCGCACACTAAGTG-CATTAC
* ** *
21041759 ATAGTCGAAGCTA-TCTC-GAATTTCAGACTAAGTGC
1 ATAGCCGAAGCTATTCTCAGAATCGCACACTAAGTGC
21041794 TAAATATAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
39 3 0.03
40 44 0.45
41 48 0.49
42 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATAGCCGAAGCTATTCTCAGAATCGCACACTAAGTGCATTAC
Found at i:21041768 original size:81 final size:83
Alignment explanation
Indices: 21041620--21041775 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 83
21041610 AATGTTTCGT
* * * *
21041620 ACACTAATTGCCATCATATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCTTACATAGCCG
1 ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCGCACACTAAGTGCATTACATAGCCG
21041685 AAGCTATCTCAGTCTCGC
66 AAGCTATCTCAGTCTCGC
* *
21041703 ACACTAAGTGCCAT-ATATAGCCGAAGCTATTCCAA-ATCGCACACTAAGTGTCATTA-ATAGTC
1 ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCGCACACTAAGTG-CATTACATAGCC
21041765 GAAGCTATCTC
65 GAAGCTATCTC
21041776 GAATTTCAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 30 0.45
82 23 0.35
83 13 0.20
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (83 bp):
ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCGCACACTAAGTGCATTACATAGCCG
AAGCTATCTCAGTCTCGC
Found at i:21051090 original size:12 final size:12
Alignment explanation
Indices: 21051068--21051124 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
21051058 CGAGCCTTTG
21051068 TTTATTTATTTAT
1 TTTA-TTATTTAT
*
21051081 TTTATTATTTGT
1 TTTATTATTTAT
21051093 TATTATTATTT-T
1 T-TTATTATTTAT
21051105 GTTTATTCATTTA-
1 -TTTATT-ATTTAT
21051118 TTTATTA
1 TTTATTA
21051125 CTCCCTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 20 0.51
13 18 0.46
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:21056057 original size:5 final size:5
Alignment explanation
Indices: 21056047--21056078 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21056037 AGAGAATAAA
21056047 AAAAG AAAAG -AAAG AAAA- AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
21056079 AAGAAGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21056062 original size:9 final size:9
Alignment explanation
Indices: 21056024--21056077 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
21056014 TGTAGTACAG
21056024 GAAAA-AAA
1 GAAAAGAAA
21056032 TGAAAAGAGAA
1 -GAAAAGA-AA
*
21056043 TAAAA-AAA
1 GAAAAGAAA
21056051 GAAAAGAAA
1 GAAAAGAAA
*
21056060 GAAAAAAAA
1 GAAAAGAAA
21056069 GAAAAGAAA
1 GAAAAGAAA
21056078 AAAGAAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 6 0.16
9 25 0.66
10 5 0.13
11 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:21056555 original size:44 final size:44
Alignment explanation
Indices: 21056489--21056577 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
21056479 CATTATGACA
* *
21056489 AATCTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGTCACT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACT
* *
21056533 AATCTTATTTCCCTAAATTTGTAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACT
21056577 A
1 A
21056578 CCCTGAAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACT
Found at i:21058326 original size:12 final size:12
Alignment explanation
Indices: 21058304--21058360 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
21058294 CGAGCCTTTG
21058304 TTTATTTATTTAT
1 TTTA-TTATTTAT
*
21058317 TTTATTATTTGT
1 TTTATTATTTAT
21058329 TATTATTATTT-T
1 T-TTATTATTTAT
21058341 GTTTATTCATTTA-
1 -TTTATT-ATTTAT
21058354 TTTATTA
1 TTTATTA
21058361 CTCCCTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 20 0.51
13 18 0.46
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:21061555 original size:332 final size:332
Alignment explanation
Indices: 21060944--21061560 Score: 977
Period size: 332 Copynumber: 1.9 Consensus size: 332
21060934 AAAAGTGTAT
* * * * *
21060944 AATATTAGTAAAATAAGTGCTTTTTAACACATTTTATAAGTGTTGTGACCCATTAGGCCGAGATG
1 AATATTAGAAAAATAAGTGATTTTTAACACATTTTATAAGTGTTGTGACCCATTAGACCGACACG
* * *
21061009 AGCCTTAGGTAGTACTAATATGTTTAATTGAGTGTATAGGATAAAGAATTAAAAGCCTAATTGAT
66 AGCCTTAGGTAGTACTAATATGTTTAATTGAGTGTATAGAATAAAAAATTAAAAGCCCAATTGAT
** * *
21061074 GTGGAAGCAAGGAACGAGTGATGTGCAAGTTTCCTAGGATGTCAAAGCACGAAATGAATGACACA
131 GTGGAAGCAAGGAACGAGTGACATGCAAGTTTCCTAGGACGTCAAAGCACAAAATGAATGACACA
*
21061139 AGGAAGAAAATACATGTTGTGTCACACCATAGATATTGTGTGGCGTGACACAAGTTGACATGATG
196 AGGAAGAAAATACATGTTGTGTCACACCATAGATATTGTGTGGCGTGACAAAAGTTGACATGATG
21061204 CCCAAGGATGCTAAGACTATTTTTGATATTGCATTTTATATTACATTTTTCGATATTTAGGCCTT
261 CCCAAGGATGCTAAGACTATTTTTGATATTGCATTTTATATTACATTTTTCGATATTTAGGCCTT
21061269 ATGATTA
326 ATGATTA
* *
21061276 AATATTAGAAAAATAAGTGATTTTTAACATATTTTATAAGTGTTGTGACCCATTATACCGACACG
1 AATATTAGAAAAATAAGTGATTTTTAACACATTTTATAAGTGTTGTGACCCATTAGACCGACACG
* * * *
21061341 AGCTTTTGGTAGTATTAATATGTTTAATTGAGTGTGTAGAATAAAAAATT-AAAGACCCAATTGA
66 AGCCTTAGGTAGTACTAATATGTTTAATTGAGTGTATAGAATAAAAAATTAAAAG-CCCAATTGA
* *
21061405 TGTGGAAGCAAGGAATGAGTGACATGTAA-TCTTCCTAGGACGTCAAAGCACAAAATGAATGACA
130 TGTGGAAGCAAGGAACGAGTGACATGCAAGT-TTCCTAGGACGTCAAAGCACAAAATGAATGACA
* * *
21061469 CAATGAAGAAAATACATGTTGTGTCGCACCATAGATATTGTGTGGCGTGACAAAAGTTGACGTGA
194 CAAGGAAGAAAATACATGTTGTGTCACACCATAGATATTGTGTGGCGTGACAAAAGTTGACATGA
*
21061534 TGCCCAAGGATGCTGAGACTATTTTTG
259 TGCCCAAGGATGCTAAGACTATTTTTG
21061561 TCCAGGCAAT
Statistics
Matches: 258, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
331 5 0.02
332 253 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (332 bp):
AATATTAGAAAAATAAGTGATTTTTAACACATTTTATAAGTGTTGTGACCCATTAGACCGACACG
AGCCTTAGGTAGTACTAATATGTTTAATTGAGTGTATAGAATAAAAAATTAAAAGCCCAATTGAT
GTGGAAGCAAGGAACGAGTGACATGCAAGTTTCCTAGGACGTCAAAGCACAAAATGAATGACACA
AGGAAGAAAATACATGTTGTGTCACACCATAGATATTGTGTGGCGTGACAAAAGTTGACATGATG
CCCAAGGATGCTAAGACTATTTTTGATATTGCATTTTATATTACATTTTTCGATATTTAGGCCTT
ATGATTA
Found at i:21068496 original size:3 final size:3
Alignment explanation
Indices: 21068488--21068512 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21068478 AGAAAAATCT
21068488 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
21068513 AAGCTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21073927 original size:74 final size:74
Alignment explanation
Indices: 21073787--21073950 Score: 186
Period size: 74 Copynumber: 2.2 Consensus size: 74
21073777 AGTGAAAATG
* * * * * * *
21073787 ATAGTGCCTAGTTACCCGTTTAGGTTAAACCTACATGATAGATATCATTTTCTCATCTGAGCTAA
1 ATAGTGCCTGGTTACCCGATTAGGTAAAACCTACACGATAGATATAAATTGCTCATCTGAGCTAA
* *
21073852 TCATGAATA
66 TCATAAACA
* * * *
21073861 ATAGTGCCTGGTTTCCCGATTGGGTAAAACCTACACGATA-AGTATAAATTGCTCGTCTGAGTTA
1 ATAGTGCCTGGTTACCCGATTAGGTAAAACCTACACGATAGA-TATAAATTGCTCATCTGAGCTA
*
21073925 ATCGTAAACA
65 ATCATAAACA
21073935 ATAGTGCCTGGTTACC
1 ATAGTGCCTGGTTACC
21073951 TATCCCAATT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
73 1 0.01
74 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (74 bp):
ATAGTGCCTGGTTACCCGATTAGGTAAAACCTACACGATAGATATAAATTGCTCATCTGAGCTAA
TCATAAACA
Found at i:21085397 original size:26 final size:26
Alignment explanation
Indices: 21085346--21085401 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
21085336 TAAAATTTTG
* *
21085346 ATTTAGACAATTTTACTCTTGATAAA
1 ATTTAGACAATTTTACCCTAGATAAA
*
21085372 ATTTTGACAATTTTACCCCTAG-TAAA
1 ATTTAGACAATTTTA-CCCTAGATAAA
21085398 ATTT
1 ATTT
21085402 CGAGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTTAGACAATTTTACCCTAGATAAA
Found at i:21093494 original size:18 final size:18
Alignment explanation
Indices: 21093473--21093507 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21093463 CAAAAGAGTT
*
21093473 AAATAAATTAAAAAATAC
1 AAATAAAATAAAAAATAC
21093491 AAATAAAATAAAAAATA
1 AAATAAAATAAAAAATA
21093508 AAAACAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAAAAATAC
Found at i:21095886 original size:26 final size:26
Alignment explanation
Indices: 21095857--21095908 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21095847 CATCAATACA
21095857 ACACAATTCAATTTCACATTGAATAT
1 ACACAATTCAATTTCACATTGAATAT
21095883 ACACAATTCAATTTCACATTGAATAT
1 ACACAATTCAATTTCACATTGAATAT
21095909 TTCAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (26 bp):
ACACAATTCAATTTCACATTGAATAT
Found at i:21096357 original size:20 final size:19
Alignment explanation
Indices: 21096334--21096378 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21096324 GCCGTGTGTG
21096334 TTCTTC-CTTTCTCTATTTCT
1 TTCTTCTCTTTCT-T-TTTCT
21096354 TTCTTTCTCTTTCTTTTTCT
1 TTC-TTCTCTTTCTTTTTCT
21096374 TTCTT
1 TTCTT
21096379 AATTTTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 4 0.17
22 6 0.26
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (19 bp):
TTCTTCTCTTTCTTTTTCT
Found at i:21096359 original size:16 final size:15
Alignment explanation
Indices: 21096334--21096377 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
21096324 GCCGTGTGTG
*
21096334 TTCTTCCTTTCTCTAT
1 TTCTTTCTTTCTCT-T
21096350 TTCTTTCTTTCTCTT
1 TTCTTTCTTTCTCTT
*
21096365 TCTTTTTCTTTCT
1 T-TCTTTCTTTCT
21096378 TAATTTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTTCTTTCTCTT
Found at i:21100096 original size:48 final size:48
Alignment explanation
Indices: 21100040--21100136 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
21100030 ACTAGAATCA
21100040 ATAATCCATTCCTTGTTGTAGTTAATAAAAGTATTAACATCTGTAGAC
1 ATAATCCATTCCTTGTTGTAGTTAATAAAAGTATTAACATCTGTAGAC
21100088 ATAATCCATTCCTTGTTGTAGTTAATAAAAGTATTAACATCTGTAGAC
1 ATAATCCATTCCTTGTTGTAGTTAATAAAAGTATTAACATCTGTAGAC
21100136 A
1 A
21100137 CGTCATCCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (48 bp):
ATAATCCATTCCTTGTTGTAGTTAATAAAAGTATTAACATCTGTAGAC
Found at i:21102237 original size:7 final size:8
Alignment explanation
Indices: 21102215--21102240 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
21102205 TTATTTTAGA
21102215 AAATTTTT
1 AAATTTTT
21102223 AAATTTTT
1 AAATTTTT
21102231 AAATTTTT
1 AAATTTTT
21102239 AA
1 AA
21102241 CTTTCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AAATTTTT
Found at i:21102301 original size:17 final size:17
Alignment explanation
Indices: 21102262--21102303 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
21102252 TATTCTTTAG
*
21102262 AAATTTTTTAAAAATTT
1 AAATTTTTTAAAAATAT
21102279 ATAATTTTTTAAAAATAT
1 A-AATTTTTTAAAAATAT
21102297 AAATTTT
1 AAATTTT
21102304 GGAATTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTTTAAAAATAT
Found at i:21102504 original size:5 final size:6
Alignment explanation
Indices: 21102488--21102516 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21102478 CAAATTACAG
21102488 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
21102517 CAAATCAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:21102510 original size:11 final size:12
Alignment explanation
Indices: 21102488--21102516 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21102478 CAAATTACAG
21102488 ATTTTTATTTTT
1 ATTTTTATTTTT
21102500 ATTTTTA-TTTT
1 ATTTTTATTTTT
21102511 ATTTTT
1 ATTTTT
21102517 CAAATCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:21103251 original size:23 final size:21
Alignment explanation
Indices: 21103216--21103266 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 21
21103206 CTGATAATTT
21103216 TGAAAAATCTAAAATAATATATAA
1 TGAAAAATCT-AAATAA-ATA-AA
21103240 TGAAAAAT-TAAATAAATAAA
1 TGAAAAATCTAAATAAATAAA
*
21103260 TAAAAAA
1 TGAAAAA
21103267 GAAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 6 0.23
23 1 0.04
24 8 0.31
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
TGAAAAATCTAAATAAATAAA
Found at i:21103824 original size:5 final size:6
Alignment explanation
Indices: 21103808--21103836 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21103798 CAAATTACAG
21103808 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
21103837 CAAATCAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:21103830 original size:11 final size:12
Alignment explanation
Indices: 21103808--21103836 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21103798 CAAATTACAG
21103808 ATTTTTATTTTT
1 ATTTTTATTTTT
21103820 ATTTTTA-TTTT
1 ATTTTTATTTTT
21103831 ATTTTT
1 ATTTTT
21103837 CAAATCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:21104571 original size:23 final size:21
Alignment explanation
Indices: 21104536--21104586 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 21
21104526 CTGATAATTT
21104536 TGAAAAATCTAAAATAATATATAA
1 TGAAAAATCT-AAATAA-ATA-AA
21104560 TGAAAAAT-TAAATAAATAAA
1 TGAAAAATCTAAATAAATAAA
*
21104580 TAAAAAA
1 TGAAAAA
21104587 GAAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 6 0.23
23 1 0.04
24 8 0.31
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
TGAAAAATCTAAATAAATAAA
Found at i:21107228 original size:3 final size:3
Alignment explanation
Indices: 21107222--21107255 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21107212 TTTTTATATG
21107222 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21107256 AGGAATTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21107674 original size:22 final size:23
Alignment explanation
Indices: 21107649--21107691 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21107639 TTTTGTTTTA
*
21107649 ACGTTTATGTATTT-TACATTAT
1 ACGTATATGTATTTATACATTAT
21107671 ACGTATATGTATTTATACATT
1 ACGTATATGTATTTATACATT
21107692 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (23 bp):
ACGTATATGTATTTATACATTAT
Found at i:21109317 original size:23 final size:22
Alignment explanation
Indices: 21109272--21109317 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
21109262 ATAAAAATGT
21109272 GCATTAATAAAACTTTTCATTTA
1 GCATTAATAAAACTTTT-ATTTA
21109295 GCATTCAACTAAAACTTTT-TTTA
1 GCATT-AA-TAAAACTTTTATTTA
21109318 TTATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.43
Consensus pattern (22 bp):
GCATTAATAAAACTTTTATTTA
Found at i:21109944 original size:117 final size:117
Alignment explanation
Indices: 21109722--21109948 Score: 314
Period size: 117 Copynumber: 1.9 Consensus size: 117
21109712 TATTTCATCA
* * *
21109722 TTATTATTAATTAGTTTCAAACCATACGTTTCATTATTTATTGTATGTGATTTTAAAGTAAACAT
1 TTATGATTAATTAGTTTCAAACCATACATTTCATTATTTATTGTATGTGATTTTAAAGCAAACAT
* * * *
21109787 TTGTGTTCTAAATTTGTGGTTTCCACACACATATGGGTGTGATAGGATTTCT
66 TTATATTCTAAATTTGTGGTTTCCACACACATACGCGTGTGATAGGATTTCT
* * * *
21109839 TTATGATTAATTAGTTTCAAACCATACATTTCATTGTTTATTGTATGTTATTGTTAAA-CACATA
1 TTATGATTAATTAGTTTCAAACCATACATTTCATTATTTATTGTATGTGATT-TTAAAGCAAACA
*
21109903 TTTATATTCTAAATCTT-TGGTTTCCACACATATACGCGTGTGATAG
65 TTTATATTCTAAAT-TTGTGGTTTCCACACACATACGCGTGTGATAG
21109949 AAATTCTAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
117 89 0.93
118 7 0.07
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (117 bp):
TTATGATTAATTAGTTTCAAACCATACATTTCATTATTTATTGTATGTGATTTTAAAGCAAACAT
TTATATTCTAAATTTGTGGTTTCCACACACATACGCGTGTGATAGGATTTCT
Found at i:21110077 original size:7 final size:7
Alignment explanation
Indices: 21110060--21110096 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
21110050 TAATATTTTT
21110060 AAATTATA
1 AAATTA-A
21110068 AAATTAA
1 AAATTAA
21110075 AAATTAA
1 AAATTAA
21110082 AAATTAA
1 AAATTAA
21110089 AAATTAA
1 AAATTAA
21110096 A
1 A
21110097 GATAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATTAA
Found at i:21115373 original size:34 final size:34
Alignment explanation
Indices: 21115335--21115399 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
21115325 ATTAAACTAA
*
21115335 AATATTCTATTTT-TA-ATATTTTAATATTTTAAAT
1 AATATT-TATTTTATATAT-TTTTAATAATTTAAAT
21115369 AATATTTATTTTATATATTTTTAATAATTTA
1 AATATTTATTTTATATATTTTTAATAATTTA
21115400 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (34 bp):
AATATTTATTTTATATATTTTTAATAATTTAAAT
Found at i:21115710 original size:27 final size:25
Alignment explanation
Indices: 21115680--21115736 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 25
21115670 TAATTTAATA
21115680 AAATTATTAATATAATTATTTTATATT
1 AAATTATTAAT-TAA-TATTTTATATT
*
21115707 -AA--ATTAATTAATGTTTTATATT
1 AAATTATTAATTAATATTTTATATT
21115729 AAATTATT
1 AAATTATT
21115737 TTAAATACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
22 10 0.38
23 5 0.19
24 6 0.23
25 3 0.12
26 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
AAATTATTAATTAATATTTTATATT
Found at i:21121799 original size:17 final size:17
Alignment explanation
Indices: 21121775--21121814 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21121765 TTAATTTTTT
*
21121775 AAAAATTA-TATTTTAA
1 AAAAATTAGTAATTTAA
21121791 AATAAATTAGTAATTTAA
1 AA-AAATTAGTAATTTAA
21121809 AAAAAT
1 AAAAAT
21121815 AATAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAATTAGTAATTTAA
Found at i:21121809 original size:18 final size:16
Alignment explanation
Indices: 21121775--21121819 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
21121765 TTAATTTTTT
*
21121775 AAAAATTATATTTTAA
1 AAAAATTATAATTTAA
21121791 AATAAATTAGTAATTTAA
1 AA-AAATTA-TAATTTAA
*
21121809 AAAAATAATAA
1 AAAAATTATAA
21121820 ATCAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAAATTATAATTTAA
Found at i:21127622 original size:30 final size:31
Alignment explanation
Indices: 21127570--21127633 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
21127560 TAAACATTAA
*
21127570 AAAATTATTTTAAAAATAAAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAAT
*
21127601 AAAAGTATTTT-AAAATTAAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAAT
21127631 AAA
1 AAA
21127634 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAAGTATTTTAAAAATAAAAAAATAAAAAT
Found at i:21129455 original size:40 final size:40
Alignment explanation
Indices: 21129411--21129508 Score: 151
Period size: 40 Copynumber: 2.5 Consensus size: 40
21129401 TTGTATGAGA
* *
21129411 TTGCACTTCGGTGTCTCTGATTTCACTTTGGTTTCTCTGT
1 TTGCACTTCGGTGTCTCTGATTTCACTTCGGTGTCTCTGT
21129451 TTGCACTTCGGTGTCTCTGATTTCACTTCGGTGTCTCTGT
1 TTGCACTTCGGTGTCTCTGATTTCACTTCGGTGTCTCTGT
* * *
21129491 TTGTACTACGGTGCCTCT
1 TTGCACTTCGGTGTCTCT
21129509 ATATAGCATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.08, C:0.24, G:0.21, T:0.46
Consensus pattern (40 bp):
TTGCACTTCGGTGTCTCTGATTTCACTTCGGTGTCTCTGT
Found at i:21129502 original size:20 final size:20
Alignment explanation
Indices: 21129411--21129508 Score: 119
Period size: 20 Copynumber: 4.9 Consensus size: 20
21129401 TTGTATGAGA
21129411 TTGCACTTCGGTGTCTCTGAT
1 TTGCACTTCGGTGTCTCTG-T
* *
21129432 TT-CACTTTGGTTTCTCTGT
1 TTGCACTTCGGTGTCTCTGT
21129451 TTGCACTTCGGTGTCTCTGAT
1 TTGCACTTCGGTGTCTCTG-T
21129472 TT-CACTTCGGTGTCTCTGT
1 TTGCACTTCGGTGTCTCTGT
* * *
21129491 TTGTACTACGGTGCCTCT
1 TTGCACTTCGGTGTCTCT
21129509 ATATAGCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.09
20 56 0.84
21 5 0.07
ACGTcount: A:0.08, C:0.24, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGCACTTCGGTGTCTCTGT
Found at i:21132921 original size:49 final size:48
Alignment explanation
Indices: 21132849--21132944 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 48
21132839 CGTGTGATTC
21132849 AATTTTGAGTGTATATGTTTTGTATTGATATATACATGAATAGTGAATA
1 AATTTTGAGTGTATATGTTTTGTATTGATATATACATGAATA-TGAATA
*
21132898 AATTTTGAGTGTATATGTTTTGTATTGATATATACATGATTATGAAT
1 AATTTTGAGTGTATATGTTTTGTATTGATATATACATGAATATGAAT
21132945 TTCCATATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 5 0.11
49 41 0.89
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (48 bp):
AATTTTGAGTGTATATGTTTTGTATTGATATATACATGAATATGAATA
Found at i:21141351 original size:26 final size:26
Alignment explanation
Indices: 21141322--21141460 Score: 170
Period size: 26 Copynumber: 5.3 Consensus size: 26
21141312 CTTACCTTTA
*
21141322 GTAAATTTTTGACAATTTTACCCCTG
1 GTAAAATTTTGACAATTTTACCCCTG
* * *
21141348 GTAAAATTCTGACAATTTTACCACTA
1 GTAAAATTTTGACAATTTTACCCCTG
*
21141374 GTAAAATTTTGATAATTTTACCCCTG
1 GTAAAATTTTGACAATTTTACCCCTG
* * **
21141400 GTAAAATTTTCACGATTTTACCCCCA
1 GTAAAATTTTGACAATTTTACCCCTG
* * *
21141426 ATAAAATTTTGACGATTTTACCCTTG
1 GTAAAATTTTGACAATTTTACCCCTG
21141452 GTAAAATTT
1 GTAAAATTT
21141461 CAAGAAAATA
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (26 bp):
GTAAAATTTTGACAATTTTACCCCTG
Found at i:21141391 original size:52 final size:52
Alignment explanation
Indices: 21141320--21141459 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
21141310 ATCTTACCTT
* *
21141320 TAGTAAATTTTTGACAATTTTACCCCTGGTAAAATTCTGACAATTTTACCAC
1 TAGTAAAATTTTGACAATTTTACCCCTGGTAAAATTCTCACAATTTTACCAC
* * * *
21141372 TAGTAAAATTTTGATAATTTTACCCCTGGTAAAATTTTCACGATTTTACCCC
1 TAGTAAAATTTTGACAATTTTACCCCTGGTAAAATTCTCACAATTTTACCAC
* * * *
21141424 CAATAAAATTTTGACGATTTTACCCTTGGTAAAATT
1 TAGTAAAATTTTGACAATTTTACCCCTGGTAAAATT
21141460 TCAAGAAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (52 bp):
TAGTAAAATTTTGACAATTTTACCCCTGGTAAAATTCTCACAATTTTACCAC
Found at i:21143887 original size:3 final size:3
Alignment explanation
Indices: 21143813--21143872 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
21143803 TAGTTTACCT
21143813 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21143861 TAA TAA TAA TAA
1 TAA TAA TAA TAA
21143873 AGTTTTCAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21144600 original size:10 final size:10
Alignment explanation
Indices: 21144583--21144628 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
21144573 AATTTAATTC
21144583 TTTTCTTTTA
1 TTTTCTTTTA
*
21144593 TGTTCTTTTAA
1 TTTTCTTTT-A
*
21144604 TTTTCTTTTT
1 TTTTCTTTTA
21144614 TTTTCTTTTA
1 TTTTCTTTTA
21144624 TTTTC
1 TTTTC
21144629 CATTCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:21144609 original size:21 final size:20
Alignment explanation
Indices: 21144583--21144628 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
21144573 AATTTAATTC
21144583 TTTTCTTTTATGTTCTTTTAA
1 TTTTCTTTTATGTTCTTTT-A
* *
21144604 TTTTCTTTTTTTTTCTTTTA
1 TTTTCTTTTATGTTCTTTTA
21144624 TTTTC
1 TTTTC
21144629 CATTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTATGTTCTTTTA
Found at i:21144637 original size:21 final size:21
Alignment explanation
Indices: 21144595--21144637 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21144585 TTCTTTTATG
* *
21144595 TTCTTTTAATTTTCTTTTTTT
1 TTCTTTTAATTTTCATTCTTT
21144616 TTCTTTT-ATTTTCCATTCTTT
1 TTCTTTTAATTTT-CATTCTTT
21144637 T
1 T
21144638 CTACTTCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (21 bp):
TTCTTTTAATTTTCATTCTTT
Found at i:21145472 original size:21 final size:21
Alignment explanation
Indices: 21145448--21145491 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21145438 CTTCAACGAA
21145448 AACCCAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
*
21145469 AACCTAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
21145490 AA
1 AA
21145492 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (21 bp):
AACCCAGAATAAAGATTTTTT
Found at i:21151425 original size:67 final size:67
Alignment explanation
Indices: 21151186--21151446 Score: 283
Period size: 67 Copynumber: 3.9 Consensus size: 67
21151176 AAAGAGGTTA
* * *
21151186 TAAGGTGTAAGACCATAGCTC-GACTATGACAATCAGTGCAGTCTACCAGGACGTTAAACATGGG
1 TAAGGTGTAAGACCATAGCTCAGA-TATGACAACCAGTGTAGTCTACCAGGACATTAAACATGGG
21151250 GAT
65 GAT
* * * * * ** *
21151253 TAAGGGGTAAG-CCATAGCTCGGCTATGGCAACCAGTGTAGTCTACTAGGACCCTAAACATTGAG
1 TAAGGTGTAAGACCATAGCTCAGATATGACAACCAGTGTAGTCTACCAGGACATTAAACA-TGGG
21151317 GAT
65 GAT
** * * * *
21151320 TAAGGTGTAAGACCCCAACTCAGCTATGACAACCAGTGTAGTCTACCAGGATATTAAATATGGGG
1 TAAGGTGTAAGACCATAGCTCAGATATGACAACCAGTGTAGTCTACCAGGACATTAAACATGGGG
21151385 AT
66 AT
* * * * * *
21151387 TACGGTGTAAGACCATAGCTCAGATTTGGCAACTAGTGTAGTCTGCCAGGACAGTAAACA
1 TAAGGTGTAAGACCATAGCTCAGATATGACAACCAGTGTAGTCTACCAGGACATTAAACA
21151447 CGGGATAGTC
Statistics
Matches: 158, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
66 39 0.25
67 81 0.51
68 38 0.24
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (67 bp):
TAAGGTGTAAGACCATAGCTCAGATATGACAACCAGTGTAGTCTACCAGGACATTAAACATGGGG
AT
Found at i:21152961 original size:19 final size:19
Alignment explanation
Indices: 21152933--21152969 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21152923 TGATTGGTAA
*
21152933 TTGAACTCGAAAATTGGAC
1 TTGAAATCGAAAATTGGAC
21152952 TTGAAATCGAAAATTGGA
1 TTGAAATCGAAAATTGGA
21152970 GAAATTTCAA
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:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (19 bp):
TTGAAATCGAAAATTGGAC
Found at i:21159261 original size:30 final size:30
Alignment explanation
Indices: 21159225--21159287 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
21159215 NNNNNNNNNN
21159225 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
21159255 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
21159285 TTG
1 TTG
21159288 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:21159433 original size:14 final size:13
Alignment explanation
Indices: 21159406--21159446 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
21159396 TATTATATTT
*
21159406 TAAAAAAATTATA
1 TAAAAAAATAATA
21159419 TAAAAATAATAATA
1 TAAAAA-AATAATA
*
21159433 TAAAAAATTAATA
1 TAAAAAAATAATA
21159446 T
1 T
21159447 GGGTGGGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAAATAATA
Found at i:21159861 original size:22 final size:22
Alignment explanation
Indices: 21159810--21159862 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
21159800 TTGGGTTTGT
*
21159810 TCAGGCTCAAATTTTTTTAAAA
1 TCAGGCTCAAATTTTTTCAAAA
*
21159832 TC-GAGCTCAAATTTTTTCAAAG
1 TCAG-GCTCAAATTTTTTCAAAA
21159854 TCAGGCTCA
1 TCAGGCTCA
21159863 GATCAAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (22 bp):
TCAGGCTCAAATTTTTTCAAAA
Found at i:21161108 original size:21 final size:19
Alignment explanation
Indices: 21161083--21161138 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
21161073 TATATCTTTT
*
21161083 ATTATAATCTATAATATAATA
1 ATTATAATATAT-AT-TAATA
*
21161104 ATTATTATATATATTAATA
1 ATTATAATATATATTAATA
* *
21161123 CTTATAAAATATATTA
1 ATTATAATATATATTA
21161139 TATTTTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 18 0.60
20 2 0.07
21 10 0.33
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATAATATATATTAATA
Found at i:21162475 original size:21 final size:21
Alignment explanation
Indices: 21162449--21162496 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21162439 AGTTTATATA
21162449 GAAAAACTTACGTCTTTACAT
1 GAAAAACTTACGTCTTTACAT
* ** *
21162470 TAAAAACTTGTGTTTTTACAT
1 GAAAAACTTACGTCTTTACAT
21162491 GAAAAA
1 GAAAAA
21162497 TTAAATTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
GAAAAACTTACGTCTTTACAT
Found at i:21165855 original size:114 final size:116
Alignment explanation
Indices: 21165714--21166065 Score: 568
Period size: 115 Copynumber: 3.1 Consensus size: 116
21165704 ATTGATTCTG
*
21165714 GAAGTTTATTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
21165779 TTTTTTCATATCC-GACTGGGTCTGGTTTAGATTATCA-AATTTTTTATTT
66 TTTTTTCATATCCAGACTGGGTCTGGTTTAGATTATCATAATTTTTTATTT
21165828 GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
* * *
21165893 TTATTTCATATCCGGACTGGGTCTGGTTTA-AGTTATCATAA-TATTTATTT
66 TTTTTTCATATCCAGACTGGGTCTGGTTTAGA-TTATCATAATTTTTTATTT
* * *
21165943 GAAGTTTCTTGGATTTGGATTTGTTATGCTTAGGCGCTTCCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
* * * *
21166008 TATTTTCATATCCAGATTGGTTCTGGTTTAGATTATCATACTTTTTTATTT
66 TTTTTTCATATCCAGACTGGGTCTGGTTTAGATTATCATAATTTTTTATTT
21166059 GAAGTTT
1 GAAGTTT
21166066 TCTGAATGTG
Statistics
Matches: 220, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
114 77 0.35
115 125 0.57
116 18 0.08
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (116 bp):
GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
TTTTTTCATATCCAGACTGGGTCTGGTTTAGATTATCATAATTTTTTATTT
Found at i:21166106 original size:115 final size:110
Alignment explanation
Indices: 21165714--21166113 Score: 489
Period size: 115 Copynumber: 3.5 Consensus size: 110
21165704 ATTGATTCTG
*
21165714 GAAGTTTATTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTAA-CTTAGGT-C-TTCGTGTTTAGAATTTTTGGGATTTAA
*
21165779 TTTTTTCATATCCGACTGGGTCTGGTTTAGATTATCAAATTTTTTATTT
63 -TTTTTCATATCCGACTGGGTCTGGTTTAGATTATCATATTTTTTATTT
21165828 GAAGTTTCTTGGATTTGGATTTGTTAAGCTTAGGTGCTTTCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTAA-CTTAGGT-C-TTCGTGTTTAGAATTTTTGGGATTTAA
* *
21165893 TTATTTCATATCCGGACTGGGTCTGGTTTA-AGTTATCATAATATTTATTT
63 TT-TTTCATATCC-GACTGGGTCTGGTTTAGA-TTATCATATTTTTTATTT
* *
21165943 GAAGTTTCTTGGATTTGGATTTGTTATGCTTAGGCGCTTCCGTGTTTAGAATTTTTGGGATTTAA
1 GAAGTTTCTTGGATTTGGATTTGTTA-ACTTAGG-TCTT-CGTGTTTAGAATTTTTGGGATTTAA
* *
21166008 TATTTTCATATCCAGATTGGTTCTGGTTTAGATTATCATACTTTTTTATTT
63 T-TTTTCATATCC-GACTGGGTCTGGTTTAGATTATCATA-TTTTTTATTT
* * * * * *
21166059 GAAGTTT-TCTGAATGTGGACTTTTTTAACTCAGGATCTTCATATTTAGAATTTTT
1 GAAGTTTCT-TGGATTTGGA-TTTGTTAACTTAGG-TCTTCGTGTTTAGAATTTTT
21166114 AAGTTTGAAT
Statistics
Matches: 255, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
113 2 0.01
114 77 0.30
115 137 0.54
116 33 0.13
117 6 0.02
ACGTcount: A:0.21, C:0.09, G:0.20, T:0.49
Consensus pattern (110 bp):
GAAGTTTCTTGGATTTGGATTTGTTAACTTAGGTCTTCGTGTTTAGAATTTTTGGGATTTAATTT
TTCATATCCGACTGGGTCTGGTTTAGATTATCATATTTTTTATTT
Found at i:21166218 original size:104 final size:104
Alignment explanation
Indices: 21166026--21166218 Score: 234
Period size: 101 Copynumber: 1.8 Consensus size: 104
21166016 TATCCAGATT
*
21166026 GGTTCTGGTTTAGATTATCATACTTTTTTATTTGAAGTTTTCTGAATGTGGACTTTTTTAACTCA
1 GGTTCTGGTTTAGATTATCATA-TTTTTTATTTGAAGTTTTCTGAATGTGGACTTTTTTAACTAA
*
21166091 GGATCTTCATATTTAGAATTTTTAAGTTTGAATTTCCTTG
65 GGATCTTCATATTTAGAAATTTTAAGTTTGAATTTCCTTG
* * *
21166131 GGTT-TGGTTTAGCTTATC--ATTTTTT-TTTGTAAGTTTTTTGAATTTGGACTTTTTTAAACTT
1 GGTTCTGGTTTAGATTATCATATTTTTTATTTG-AAGTTTTCTGAATGTGGACTTTTTT-AAC-T
* *
21166192 AAGTGCT-TTCATGTTTTAGAAATTTTA
63 AAG-GATCTTCAT-ATTTAGAAATTTTA
21166219 TGATCGAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
100 4 0.05
101 29 0.38
102 4 0.05
103 8 0.11
104 27 0.36
105 4 0.05
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (104 bp):
GGTTCTGGTTTAGATTATCATATTTTTTATTTGAAGTTTTCTGAATGTGGACTTTTTTAACTAAG
GATCTTCATATTTAGAAATTTTAAGTTTGAATTTCCTTG
Found at i:21167125 original size:19 final size:18
Alignment explanation
Indices: 21167101--21167137 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
21167091 AATTGTTATA
21167101 AATATTGAGTTTTAAAATT
1 AATATT-AGTTTTAAAATT
*
21167120 AATATTATTTTTAAAATT
1 AATATTAGTTTTAAAATT
21167138 TTAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATATTAGTTTTAAAATT
Found at i:21167158 original size:19 final size:20
Alignment explanation
Indices: 21167110--21167150 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21167100 AAATATTGAG
*
21167110 TTTTAAAA--TTAATATTAT
1 TTTTAAAATTTTAAAATTAT
21167128 TTTTAAAATTTTAAAATTAT
1 TTTTAAAATTTTAAAATTAT
21167148 TTT
1 TTT
21167151 GAAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTTTAAAATTAT
Found at i:21167159 original size:20 final size:20
Alignment explanation
Indices: 21167118--21167158 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21167108 AGTTTTAAAA
* *
21167118 TTAATATTATTTTTAAAATT
1 TTAAAATTATTTTGAAAATT
21167138 TTAAAATTATTTTG-AAATT
1 TTAAAATTATTTTGAAAATT
21167157 TT
1 TT
21167159 TTGTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTAAAATTATTTTGAAAATT
Found at i:21169946 original size:22 final size:22
Alignment explanation
Indices: 21169917--21169966 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
21169907 GTGCTTATGG
*
21169917 ATATGAAAGCCCTTTACAGGTA
1 ATATGAAAGCCCTTTAAAGGTA
*
21169939 GTATGAAAGCCCTTTAAAGGTA
1 ATATGAAAGCCCTTTAAAGGTA
21169961 ATATGA
1 ATATGA
21169967 GATTTTGCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (22 bp):
ATATGAAAGCCCTTTAAAGGTA
Found at i:21172125 original size:36 final size:38
Alignment explanation
Indices: 21172050--21172128 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
21172040 TTTGTTTTCT
21172050 AGAATATTTTCGGTTGAGGAAAATCCTCTGACTGTTGC
1 AGAATATTTTCGGTTGAGGAAAATCCTCTGACTGTTGC
*
21172088 AGAATATTTTTGGTTGAGGAAAAT-CT-TGACTGTTGC
1 AGAATATTTTCGGTTGAGGAAAATCCTCTGACTGTTGC
21172124 AGAAT
1 AGAAT
21172129 TTTAATCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 15 0.38
37 2 0.05
38 23 0.57
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (38 bp):
AGAATATTTTCGGTTGAGGAAAATCCTCTGACTGTTGC
Found at i:21185152 original size:14 final size:14
Alignment explanation
Indices: 21185133--21185168 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
21185123 ATAGCGGTGA
21185133 TAATAATAATAAAT
1 TAATAATAATAAAT
*
21185147 TAATAATAATAGAT
1 TAATAATAATAAAT
21185161 TAATAATA
1 TAATAATA
21185169 TTACTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:21197529 original size:9 final size:9
Alignment explanation
Indices: 21197512--21197548 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21197502 TGAGTTTTCG
21197512 AATTCGAAT
1 AATTCGAAT
*
21197521 AACTCGAAT
1 AATTCGAAT
21197530 AATTCGAAT
1 AATTCGAAT
21197539 AATTCGAAT
1 AATTCGAAT
21197548 A
1 A
21197549 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21198385 original size:30 final size:31
Alignment explanation
Indices: 21198326--21198393 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
21198316 ATTGTAGTTA
21198326 TACACATAAAACTTTAATTTCATTTTAAATG
1 TACACATAAAACTTTAATTTCATTTTAAATG
* * * *
21198357 TATACATGAAACTTTAGTTTGA-TTTAAATG
1 TACACATAAAACTTTAATTTCATTTTAAATG
21198387 TACACAT
1 TACACAT
21198394 TTAAAGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (31 bp):
TACACATAAAACTTTAATTTCATTTTAAATG
Found at i:21199130 original size:28 final size:28
Alignment explanation
Indices: 21199077--21199130 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
21199067 TCGAAACCGT
* *
21199077 TTTTTGAAAACAAAAATTTAGTGTCGAC
1 TTTTTGAAAACAAAAAATTAGAGTCGAC
*
21199105 TTTTT-AAAACACAAAAATTGGAGTCG
1 TTTTTGAAAACA-AAAAATTAGAGTCG
21199131 CCACCGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (28 bp):
TTTTTGAAAACAAAAAATTAGAGTCGAC
Found at i:21200287 original size:3 final size:3
Alignment explanation
Indices: 21200275--21200365 Score: 118
Period size: 3 Copynumber: 31.3 Consensus size: 3
21200265 CATGCATGTT
21200275 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
21200322 ATA ATA ATA AT- AGA ATA GT- ATA A-C ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
21200365 A
1 A
21200366 AACAGTGTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
2 5 0.06
3 69 0.90
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:21203955 original size:27 final size:27
Alignment explanation
Indices: 21203925--21203979 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
21203915 ATACATTGTG
21203925 TTAGTTCGATTTCGTACTCAATTATTA
1 TTAGTTCGATTTCGTACTCAATTATTA
**
21203952 TTAGTTCGATTTCGTACTCGGTTATTA
1 TTAGTTCGATTTCGTACTCAATTATTA
21203979 T
1 T
21203980 GAATGGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (27 bp):
TTAGTTCGATTTCGTACTCAATTATTA
Found at i:21207672 original size:2 final size:2
Alignment explanation
Indices: 21207667--21207691 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21207657 TATAGCTTAT
21207667 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21207692 TAATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21212626 original size:2 final size:2
Alignment explanation
Indices: 21212619--21212647 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21212609 TGATTGGTAT
21212619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21212648 TCTATTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21222417 original size:4 final size:4
Alignment explanation
Indices: 21222408--21222432 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21222398 TGATTTTTGT
21222408 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
21222433 TCTTCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:21225035 original size:15 final size:15
Alignment explanation
Indices: 21225002--21225034 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
21224992 CCAGAAAATA
21225002 TTTTCAGTAAATCAT
1 TTTTCAGTAAATCAT
21225017 TTTTCAG-AAATCAT
1 TTTTCAGTAAATCAT
21225031 TTTT
1 TTTT
21225035 TGAAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTTCAGTAAATCAT
Found at i:21232744 original size:15 final size:13
Alignment explanation
Indices: 21232710--21232764 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
21232700 GTTCACACCT
21232710 AAGGGTTCGCACA
1 AAGGGTTCGCACA
*
21232723 AAGGGTTTGCACA
1 AAGGGTTCGCACA
*
21232736 AGTAGGGTTCGCACTT
1 A--AGGGTTCGCAC-A
*
21232752 AGGGGTTCGCACA
1 AAGGGTTCGCACA
21232765 TACAAAGTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 13 0.38
14 10 0.29
15 10 0.29
16 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (13 bp):
AAGGGTTCGCACA
Found at i:21233205 original size:26 final size:26
Alignment explanation
Indices: 21233152--21233207 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
21233142 GCCTTGCTCT
* ***
21233152 TAGGTTTACACACAAGGGCTCGTGCA
1 TAGGCTTACACACAAGGGCTCACACA
21233178 TAGGCTTACACACAAGGGCTCACACA
1 TAGGCTTACACACAAGGGCTCACACA
21233204 TAGG
1 TAGG
21233208 TACGTACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (26 bp):
TAGGCTTACACACAAGGGCTCACACA
Found at i:21236403 original size:9 final size:9
Alignment explanation
Indices: 21236389--21236419 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21236379 GTTAAACGAA
21236389 TCGAGTTAT
1 TCGAGTTAT
*
21236398 TCGAGTTAA
1 TCGAGTTAT
21236407 TCGAGTTAT
1 TCGAGTTAT
21236416 TCGA
1 TCGA
21236420 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21236489 original size:9 final size:9
Alignment explanation
Indices: 21236472--21236508 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21236462 TGAGTTTTCG
21236472 AATTCGAAT
1 AATTCGAAT
*
21236481 AACTCGAAT
1 AATTCGAAT
21236490 AATTCGAAT
1 AATTCGAAT
21236499 AATTCGAAT
1 AATTCGAAT
21236508 A
1 A
21236509 TCTAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21236868 original size:17 final size:17
Alignment explanation
Indices: 21236846--21236902 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
21236836 TTTTAATTTT
21236846 TCCCTCCAAAATTATAC
1 TCCCTCCAAAATTATAC
*
21236863 TCCCTCC--TATT-TAC
1 TCCCTCCAAAATTATAC
21236877 TTTCCCTCCAAAATTATAC
1 --TCCCTCCAAAATTATAC
21236896 TCCCTCC
1 TCCCTCC
21236903 TATTTACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 7 0.21
17 14 0.42
18 3 0.09
19 3 0.09
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (17 bp):
TCCCTCCAAAATTATAC
Found at i:21236881 original size:33 final size:33
Alignment explanation
Indices: 21236844--21236917 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
21236834 TTTTTTAATT
21236844 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
1 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
21236877 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
1 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
21236910 TTTCCCTC
1 TTTCCCTC
21236918 AAACTTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
Found at i:21236884 original size:16 final size:16
Alignment explanation
Indices: 21236863--21236917 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
21236853 AAAATTATAC
21236863 TCCCTCCTATTTACTT
1 TCCCTCCTATTTACTT
*
21236879 TCCCTCCAAAATTATAC--
1 TCCCTCC--TATT-TACTT
21236896 TCCCTCCTATTTACTT
1 TCCCTCCTATTTACTT
21236912 TCCCTC
1 TCCCTC
21236918 AAACTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 13 0.41
17 7 0.22
18 3 0.09
19 3 0.09
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (16 bp):
TCCCTCCTATTTACTT
Found at i:21241091 original size:75 final size:75
Alignment explanation
Indices: 21240983--21241228 Score: 262
Period size: 75 Copynumber: 3.3 Consensus size: 75
21240973 ACCAGTGCTA
* * * * * * *
21240983 GGCACACCCTCTATATCTGTCGGTTTATCCGACTAGTGCTGGGCTCAA-TCTTCGTTAGTTTATC
1 GGCACACCAT-TATATTTGTCGGTTTATTCGACTAGCGCTGGGCGCAACT-TTCGTCAATTTATC
* *
21241047 TGGCTAGTGTAG
64 TGACTAGTGCAG
*
21241059 GGCACACCATTATATTTGTCGGTTTATTCGACTAGCGCTTGGCGCAACTTTCGTCAATTTATCTG
1 GGCACACCATTATATTTGTCGGTTTATTCGACTAGCGCTGGGCGCAACTTTCGTCAATTTATCTG
21241124 ACTAGTGCAG
66 ACTAGTGCAG
* * ** * * *
21241134 GGCACACCATTATATTTGTCGGTTTA-TCTGACTAGCACTAGGCATAACTTTCATCAGTTTATGT
1 GGCACACCATTATATTTGTCGGTTTATTC-GACTAGCGCTGGGCGCAACTTTCGTCAATTTATCT
**
21241198 GACTAGTGTTG
65 GACTAGTGCAG
* *
21241209 GGCACATCATTATAATTGTC
1 GGCACACCATTATATTTGTC
21241229 TGTTATCTAA
Statistics
Matches: 147, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.01
75 135 0.92
76 10 0.07
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (75 bp):
GGCACACCATTATATTTGTCGGTTTATTCGACTAGCGCTGGGCGCAACTTTCGTCAATTTATCTG
ACTAGTGCAG
Found at i:21243000 original size:16 final size:16
Alignment explanation
Indices: 21242979--21243012 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
21242969 CAGTTTTCTC
21242979 TATTTTTA-AATATTTT
1 TATTTTTATAA-ATTTT
21242995 TATTTTTATAAATTTT
1 TATTTTTATAAATTTT
21243011 TA
1 TA
21243013 GTAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTATAAATTTT
Found at i:21244641 original size:31 final size:31
Alignment explanation
Indices: 21244605--21244677 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
21244595 TTTAACAGTA
*
21244605 GAGTGACTAAAATTGACAACTTATCT-AATG
1 GAGTGACTAAAATTAACAACTTATCTAAATG
* *
21244635 GAAGTGACTAAAA-TAACAATTTTTCTAAATG
1 G-AGTGACTAAAATTAACAACTTATCTAAATG
21244666 G-GTGACTAAAAT
1 GAGTGACTAAAAT
21244678 AGGAACGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 16 0.43
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (31 bp):
GAGTGACTAAAATTAACAACTTATCTAAATG
Found at i:21245021 original size:61 final size:63
Alignment explanation
Indices: 21244909--21245039 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 63
21244899 ACATTCTATC
* * *
21244909 AATTTGATCTTAAATATAAAAAAGAAATCAACAAATTTAACTCTTAATATTTACAAAATTTATT
1 AATTTAAT-TTAAATATAAAAAAGAAATCAACAAATTTAACCCTCAATATTTACAAAATTTATT
* * * * * *
21244973 ATTTTAATTTAAAT-TATAAAA-AAATTAATAAATTTAACCCTCGATATTTATAAAATTTATT
1 AATTTAATTTAAATATAAAAAAGAAATCAACAAATTTAACCCTCAATATTTACAAAATTTATT
21245034 AATTTA
1 AATTTA
21245040 GTTCTCATTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
61 39 0.68
62 6 0.11
63 6 0.11
64 6 0.11
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (63 bp):
AATTTAATTTAAATATAAAAAAGAAATCAACAAATTTAACCCTCAATATTTACAAAATTTATT
Found at i:21246459 original size:6 final size:6
Alignment explanation
Indices: 21246444--21246472 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21246434 ATAGCAATGA
21246444 ATAA-T ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT
21246473 TTAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Done.