Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 85 of 133
Found at i:16910362 original size:5 final size:5
Alignment explanation
Indices: 16910346--16910411 Score: 66
Period size: 5 Copynumber: 13.2 Consensus size: 5
16910336 ATTTTTTTTA
* *
16910346 TGTTT T-TTT TGTTT TGTTTT TGTTT T-TATT T-TTAT TATTT TATTT
1 TGTTT TGTTT TGTTT TG-TTT TGTTT TGT-TT TGTT-T TGTTT TGTTT
16910391 TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT T
16910412 TTATGTGTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
4 6 0.11
5 42 0.76
6 7 0.13
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (5 bp):
TGTTT
Found at i:16910363 original size:14 final size:14
Alignment explanation
Indices: 16910337--16910427 Score: 71
Period size: 15 Copynumber: 6.2 Consensus size: 14
16910327 AAAGAGCCCA
*
16910337 TTTTTT-TTATGTT
1 TTTTTTGTTTTGTT
16910350 TTTTTTGTTTTGTT
1 TTTTTTGTTTTGTT
*
16910364 TTTGTTT-TTATTTTT
1 TTT-TTTGTT-TTGTT
*
16910379 ATTATTTTATTTTGTT
1 -TT-TTTTGTTTTGTT
16910395 TTGTTTTGTTTTGTT
1 TT-TTTTGTTTTGTT
16910410 TTTTATGTGTTTT-TT
1 TTTT-T-TGTTTTGTT
16910425 TTT
1 TTT
16910428 AATCTTTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.09
14 13 0.20
15 28 0.43
16 15 0.23
17 3 0.05
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (14 bp):
TTTTTTGTTTTGTT
Found at i:16910366 original size:6 final size:6
Alignment explanation
Indices: 16910351--16910412 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
16910341 TTTTATGTTT
* *
16910351 TTTTTG -TTTTG TTTTTG TTTTTA TTTTTA TTATTT- TATTTTG -TTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TT-TTTG T-TTTTG TTTTTG
16910398 -TTTTG -TTTTG TTTTT
1 TTTTTG TTTTTG TTTTT
16910413 TATGTGTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 20 0.40
6 26 0.52
7 4 0.08
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.82
Consensus pattern (6 bp):
TTTTTG
Found at i:16910428 original size:14 final size:13
Alignment explanation
Indices: 16910337--16910428 Score: 82
Period size: 14 Copynumber: 6.7 Consensus size: 13
16910327 AAAGAGCCCA
16910337 TTTTTTTTATGTT
1 TTTTTTTTATGTT
*
16910350 TTTTTTGTTTTGTT
1 TTTTTT-TTATGTT
16910364 TTTGTTTTTAT-TT
1 TTT-TTTTTATGTT
16910377 TTATTATTTTAT-TT
1 TT-TT-TTTTATGTT
16910391 TGTTTTGTTT-TGTT
1 T-TTTT-TTTATGTT
16910405 TTGTTTTTTATGTGT
1 TT-TTTTTTATGT-T
16910420 TTTTTTTTA
1 TTTTTTTTA
16910429 ATCTTTAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
13 17 0.25
14 43 0.64
15 7 0.10
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.82
Consensus pattern (13 bp):
TTTTTTTTATGTT
Found at i:16911780 original size:18 final size:17
Alignment explanation
Indices: 16911759--16911815 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
16911749 TGAGTCCACC
16911759 TTCATTTTTTTTCTTTTT
1 TTCATTTTTTTT-TTTTT
* *
16911777 TTCACTTTGTTTTTTTT
1 TTCATTTTTTTTTTTTT
16911794 TTCATTTTTGCTTTTTTTT
1 TTCATTTTT--TTTTTTTT
16911813 TTC
1 TTC
16911816 TCCTTTCCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 12 0.36
18 10 0.30
19 11 0.33
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.79
Consensus pattern (17 bp):
TTCATTTTTTTTTTTTT
Found at i:16911794 original size:17 final size:19
Alignment explanation
Indices: 16911772--16911815 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
16911762 ATTTTTTTTC
16911772 TTTTTTTCA-CTTTG-TTT
1 TTTTTTTCATCTTTGCTTT
*
16911789 TTTTTTTCATTTTTGCTTT
1 TTTTTTTCATCTTTGCTTT
16911808 TTTTTTTC
1 TTTTTTTC
16911816 TCCTTTCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 11 0.46
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTTTCATCTTTGCTTT
Found at i:16915242 original size:24 final size:24
Alignment explanation
Indices: 16915214--16915260 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
16915204 TCATCATGAT
16915214 TATCCTTGTATTCATTATTTGAAC
1 TATCCTTGTATTCATTATTTGAAC
*
16915238 TATCCTTGTATTCATTTTTTGAA
1 TATCCTTGTATTCATTATTTGAA
16915261 AACCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (24 bp):
TATCCTTGTATTCATTATTTGAAC
Found at i:16921722 original size:32 final size:32
Alignment explanation
Indices: 16921686--16921758 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 32
16921676 GAAGAATAAC
16921686 AAATTTGTAACATTGTAGGATCCATGAAAAGA
1 AAATTTGTAACATTGTAGGATCCATGAAAAGA
16921718 AAATTTTGTAACATTGTAGGATCCATGAAAAGA
1 AAA-TTTGTAACATTGTAGGATCCATGAAAAGA
*
16921751 AACTTTGT
1 AAATTTGT
16921759 TGAAAGATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 8 0.21
33 31 0.79
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.32
Consensus pattern (32 bp):
AAATTTGTAACATTGTAGGATCCATGAAAAGA
Found at i:16921922 original size:25 final size:23
Alignment explanation
Indices: 16921894--16921945 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
16921884 ATAAAATAAT
16921894 AATAA-AAAACCTTTGAGAATAATGA
1 AATAATAAAACC-TTG-GAA-AATGA
*
16921919 AATAATAAAAGCTTGGAAAATGA
1 AATAATAAAACCTTGGAAAATGA
16921942 AATA
1 AATA
16921946 CACAAAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 3 0.12
25 8 0.32
26 5 0.20
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (23 bp):
AATAATAAAACCTTGGAAAATGA
Found at i:16923754 original size:22 final size:22
Alignment explanation
Indices: 16923726--16923767 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16923716 AAAAGTTTTT
* *
16923726 TTTTTTTTTTTCATATATTTCA
1 TTTTTTTATTACATATATTTCA
16923748 TTTTTTTATTACATATATTT
1 TTTTTTTATTACATATATTT
16923768 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTTATTACATATATTTCA
Found at i:16924092 original size:3 final size:3
Alignment explanation
Indices: 16924084--16924108 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16924074 CTAATTTTTA
16924084 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
16924109 AATTTTTATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16924277 original size:18 final size:18
Alignment explanation
Indices: 16924254--16924289 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16924244 ATAATTTTAG
16924254 GTAATTAAGTGAAAAAAA
1 GTAATTAAGTGAAAAAAA
16924272 GTAATTAAGTGAAAAAAA
1 GTAATTAAGTGAAAAAAA
16924290 TCTTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (18 bp):
GTAATTAAGTGAAAAAAA
Found at i:16927079 original size:23 final size:25
Alignment explanation
Indices: 16927029--16927079 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
16927019 TGAAATTATC
** *
16927029 TATAATAGAATTTTATTATTTATCA
1 TATAATAGAATTAAATTATTTATAA
16927054 TATAATAG-ATTAAATT-TTTATAA
1 TATAATAGAATTAAATTATTTATAA
16927077 TAT
1 TAT
16927080 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 6 0.26
25 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TATAATAGAATTAAATTATTTATAA
Found at i:16927101 original size:16 final size:16
Alignment explanation
Indices: 16927062--16927094 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16927052 CATATAATAG
*
16927062 ATTAAATTTTTATAAT
1 ATTATATTTTTATAAT
16927078 ATTATATTTTTA-AAT
1 ATTATATTTTTATAAT
16927093 AT
1 AT
16927095 ATTTATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATATTTTTATAAT
Found at i:16932690 original size:19 final size:20
Alignment explanation
Indices: 16932643--16932691 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
16932633 GCATGAAGAT
*
16932643 TCAAGATTTTTAAATTGAAAA
1 TCAA-ATTTCTAAATTGAAAA
**
16932664 AAAAATTTCTAAATTG-AAA
1 TCAAATTTCTAAATTGAAAA
16932683 TCAAATTTC
1 TCAAATTTC
16932692 GAGAATTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (20 bp):
TCAAATTTCTAAATTGAAAA
Found at i:16932744 original size:27 final size:28
Alignment explanation
Indices: 16932664--16932757 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
16932654 AAATTGAAAA
*
16932664 AAAAATTTCTAAATTGAA-ATCAAATTTC
1 AAAAATTTTTAAATT-AAGATCAAATTTC
* * ** * *
16932692 GAGAATTTTTAAATTGTGACCCAATTT-
1 AAAAATTTTTAAATTAAGATCAAATTTC
16932719 AAAAATTTTTAAATTAAGATCAAATTTC
1 AAAAATTTTTAAATTAAGATCAAATTTC
*
16932747 AAGAATTTTTA
1 AAAAATTTTTA
16932758 GGGTGGGTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
27 21 0.42
28 29 0.58
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (28 bp):
AAAAATTTTTAAATTAAGATCAAATTTC
Found at i:16933306 original size:15 final size:15
Alignment explanation
Indices: 16933267--16933299 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16933257 ATTAAAAGTC
*
16933267 TTTAGATATTTTAAT
1 TTTAAATATTTTAAT
16933282 TTTAAATATTTTAAT
1 TTTAAATATTTTAAT
16933297 TTT
1 TTT
16933300 GTATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTAAATATTTTAAT
Found at i:16934017 original size:28 final size:28
Alignment explanation
Indices: 16933942--16934007 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
16933932 ACAAAAGAAA
* *
16933942 TCTTAATTTGGGATCAAATTCCAAAAAT
1 TCTTAAATTGAGATCAAATTCCAAAAAT
*
16933970 TCTTAAATTGAGATCAAATTCCAAGAAT
1 TCTTAAATTGAGATCAAATTCCAAAAAT
*
16933998 TCTTATATTG
1 TCTTAAATTG
16934008 TGAGTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (28 bp):
TCTTAAATTGAGATCAAATTCCAAAAAT
Found at i:16934419 original size:61 final size:60
Alignment explanation
Indices: 16934228--16934451 Score: 188
Period size: 61 Copynumber: 3.7 Consensus size: 60
16934218 TGTTTAAGAT
* * *
16934228 CAAATTTATTCAATTCAAGATCAAGTCATCCAA-AAGCTTGAAGGAAATTTTTTATGAAAAA
1 CAAATTTATTCAATTCAAGATCAAGTCAT-CAAGAATCTTGAAGCAAATTTTTT-TAAAAAA
* * * * ** *
16934289 C-AA-TTATTCAATTCAATATCAACTCATCAAGATTTTTGAAGCAAATTTCTACTAAAGAA
1 CAAATTTATTCAATTCAAGATCAAGTCATCAAGAATCTTGAAGCAAATTT-TTTTAAAAAA
* * * * *
16934348 -TAATTATATTCAATTTAAGATCTAGTCGTCAAGACTCTTGAAGCAAATTTTTGTTAAAAAA
1 CAAATT-TATTCAATTCAAGATCAAGTCATCAAGAATCTTGAAGCAAATTTTT-TTAAAAAA
* * * *
16934409 CAAATTTATTCAATTTAACATAAAATCATCAAGACA-CTTGAAG
1 CAAATTTATTCAATTCAAGATCAAGTCATCAAGA-ATCTTGAAG
16934452 TGAAATGTTT
Statistics
Matches: 128, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
58 3 0.02
59 42 0.33
60 5 0.04
61 74 0.58
62 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (60 bp):
CAAATTTATTCAATTCAAGATCAAGTCATCAAGAATCTTGAAGCAAATTTTTTTAAAAAA
Found at i:16935164 original size:15 final size:14
Alignment explanation
Indices: 16935133--16935172 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
16935123 TTGTTTCGTA
16935133 AAAAATGATTTACG
1 AAAAATGATTTACG
*
16935147 AAAAATGATTTATG
1 AAAAATGATTTACG
*
16935161 GAAAATG-TTTAC
1 AAAAATGATTTAC
16935173 ATTTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAAATGATTTACG
Found at i:16935441 original size:9 final size:10
Alignment explanation
Indices: 16935427--16935496 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 10
16935417 AAAATAAAAC
16935427 TATTTATTAT
1 TATTTATTAT
16935437 T-TTTA-TAT
1 TATTTATTAT
16935445 TATTTATTAAT
1 TATTTATT-AT
*
16935456 ATATTATAATAT
1 -TATT-TATTAT
16935468 TATTTATTTAT
1 TATTTA-TTAT
* *
16935479 TAATATAATAT
1 T-ATTTATTAT
16935490 TATTTAT
1 TATTTAT
16935497 AAGTAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.09
9 8 0.17
10 8 0.17
11 14 0.30
12 10 0.21
13 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTTATTAT
Found at i:16935451 original size:15 final size:15
Alignment explanation
Indices: 16935440--16935490 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
16935430 TTATTATTTT
16935440 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
16935455 TATATTA--TAATAT
1 TATATTATTTATTAA
16935468 TAT-TTATTTATTAA
1 TATATTATTTATTAA
*
16935482 TATAATATT
1 TATATTATT
16935491 ATTTATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 7 0.25
15 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:16936700 original size:27 final size:27
Alignment explanation
Indices: 16936669--16936724 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
16936659 AAAAAAAAAA
16936669 AGTCTACCAAAAGAAAA-GAGGACCATT
1 AGTCTACCAAAAGAAAATG-GGACCATT
*
16936696 AGTCTACTAAAAGAAAATGGGACCATT
1 AGTCTACCAAAAGAAAATGGGACCATT
16936723 AG
1 AG
16936725 GGCCATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (27 bp):
AGTCTACCAAAAGAAAATGGGACCATT
Found at i:16937264 original size:23 final size:22
Alignment explanation
Indices: 16937233--16937279 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16937223 TAAAAAAATC
*
16937233 TTTTTTTATCTTTT-TATTTAAT
1 TTTTTTTAT-TTTTATATTCAAT
16937255 TTTTGTTTATTTTTATATTCAAT
1 TTTT-TTTATTTTTATATTCAAT
16937278 TT
1 TT
16937280 AAAATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTTATTTTTATATTCAAT
Found at i:16937804 original size:19 final size:18
Alignment explanation
Indices: 16937782--16937825 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
16937772 TGATATATAT
*
16937782 GAATAAATACGATTAATAC
1 GAATAAATACGA-AAATAC
*
16937801 GAATATATACGAAAATAC
1 GAATAAATACGAAAATAC
*
16937819 GACTAAA
1 GAATAAA
16937826 ACAATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
GAATAAATACGAAAATAC
Found at i:16939971 original size:12 final size:12
Alignment explanation
Indices: 16939954--16939980 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16939944 TAAGACATAT
16939954 AACATTTTGAAA
1 AACATTTTGAAA
16939966 AACATTTTGAAA
1 AACATTTTGAAA
16939978 AAC
1 AAC
16939981 TCCCTATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (12 bp):
AACATTTTGAAA
Found at i:16940670 original size:16 final size:16
Alignment explanation
Indices: 16940649--16940683 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
16940639 ATATAAGCTC
*
16940649 ATACTAATTGTTAAGG
1 ATACTAATTGTTAAAG
16940665 ATACTAATTGTTAAAG
1 ATACTAATTGTTAAAG
16940681 ATA
1 ATA
16940684 TGTTATCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (16 bp):
ATACTAATTGTTAAAG
Found at i:16947016 original size:11 final size:12
Alignment explanation
Indices: 16946985--16947021 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
16946975 TGTATCATAC
16946985 TATTA-TTATTAT
1 TATTATTTA-TAT
16946997 TATTATTTATAT
1 TATTATTTATAT
16947009 TA-TATTTATAT
1 TATTATTTATAT
16947020 TA
1 TA
16947022 GTAATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 10 0.42
13 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:16947657 original size:267 final size:269
Alignment explanation
Indices: 16947182--16947718 Score: 783
Period size: 267 Copynumber: 2.0 Consensus size: 269
16947172 TGTTTTTTAT
* * * * *
16947182 GTTCATGTGTTTAGACGTGTCAACACGTATAAGAGACGAATTGTGTGTGTCATAATGTATCAATT
1 GTTCATGTGTTTAGACGTGTCAACACGTATAAAACACAAATTGTGTCTGTCATAACGTATCAATT
* * * *
16947247 TAAAGACTCAATGCTAGACGTAAACATTTGGAATTCGAAAAAACGAGAAGTCTTCATCATTCTTT
66 TAAAGACTCAATGCTAGACGTAAACATTTAGAATTCGAAAAAACGAGAAGTCGTCACCAATCTTT
* * *
16947312 TTTAAAGTATGATTGACCACCTAAAAAATTTATTTTTTTAATAAAACAGTAAAATGAGTTTAAAA
131 TTTAAAATATGATTGACCACCTAAAAAATTTATCTTTTTAATAAAACAATAAAATGAGTTTAAAA
* * *
16947377 TTTATCAAAGAAATAA-TTT-GTCTATAAAAATAAGATTGGATTTGAGAATTGATTATGCATGAA
196 TTTAACAAAGAAATAATTTTAGTCTATAAAAACAAGATTGGATTTGAGAATTGATTACGCATGAA
*
16947440 GAAGAATTA
261 AAAGAATTA
* *
16947449 GTTCATGTGTTTAGACGTGTCAACACGTATAAAACACAAATTTTGTCTGTCATAACGTATCGATT
1 GTTCATGTGTTTAGACGTGTCAACACGTATAAAACACAAATTGTGTCTGTCATAACGTATCAATT
* * *
16947514 TAGAGACTCAATGCTAGACGTAAACATTTAGAATTCGAAAAAATG-GAGAGTGGTCACCAATCTT
66 TAAAGACTCAATGCTAGACGTAAACATTTAGAATTCGAAAAAACGAGA-AGTCGTCACCAATCTT
* ** *
16947578 TTTTAAAATGTGATTGGTCACCTAAAAATTTTATCTTTTTAATAAAACAATAAAATGAGTTTAAA
130 TTTTAAAATATGATTGACCACCTAAAAAATTTATCTTTTTAATAAAACAATAAAATGAGTTTAAA
* * * *
16947643 ATTTAACAAAGAAATAATTTTAGTCTATGAAAACAAGATTGGGTTTTAGAATTGATTACGTATGA
195 ATTTAACAAAGAAATAATTTTAGTCTATAAAAACAAGATTGGATTTGAGAATTGATTACGCATGA
16947708 AAAAGAATTA
260 AAAAGAATTA
16947718 G
1 G
16947719 CATTTTCACA
Statistics
Matches: 238, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
266 2 0.01
267 186 0.78
268 3 0.01
269 47 0.20
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (269 bp):
GTTCATGTGTTTAGACGTGTCAACACGTATAAAACACAAATTGTGTCTGTCATAACGTATCAATT
TAAAGACTCAATGCTAGACGTAAACATTTAGAATTCGAAAAAACGAGAAGTCGTCACCAATCTTT
TTTAAAATATGATTGACCACCTAAAAAATTTATCTTTTTAATAAAACAATAAAATGAGTTTAAAA
TTTAACAAAGAAATAATTTTAGTCTATAAAAACAAGATTGGATTTGAGAATTGATTACGCATGAA
AAAGAATTA
Found at i:16948341 original size:20 final size:20
Alignment explanation
Indices: 16948308--16948410 Score: 79
Period size: 20 Copynumber: 5.2 Consensus size: 20
16948298 AGGTTTCATT
16948308 TAGGGTTT-GAGTTTACATA
1 TAGGGTTTAGAGTTTACATA
*
16948327 TAGGGTTTAGAGTTTATATA
1 TAGGGTTTAGAGTTTACATA
* * *
16948347 TAAGGTTTAAGGGTTCACATA
1 TAGGGTTT-AGAGTTTACATA
* *
16948368 TAGAGTTTA-AGGTTT-CCT-
1 TAGGGTTTAGA-GTTTACATA
* *
16948386 TTGAGGTTTAGGGTTTACATA
1 TAG-GGTTTAGAGTTTACATA
16948407 TAGG
1 TAGG
16948411 TTTTTAAAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
18 2 0.03
19 19 0.31
20 24 0.39
21 17 0.27
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (20 bp):
TAGGGTTTAGAGTTTACATA
Found at i:16948408 original size:39 final size:37
Alignment explanation
Indices: 16948294--16948413 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 37
16948284 AATTTAAGGT
*
16948294 TTTAAGGTTTCATTTAGGGTTT-GAGTTTACATATAGGG
1 TTTAAGGTTTCATTTA-GGTTTAGGGTTTACATATA-GG
*
16948332 TTT-AGAGTTT-ATATATAAGGTTTAAGGGTTCACATATAGAG
1 TTTAAG-GTTTCAT-T-T-AGGTTT-AGGGTTTACATATAG-G
*
16948373 TTTAAGGTTTCCTTTGAGGTTTAGGGTTTACATATAGG
1 TTTAAGGTTTCATTT-AGGTTTAGGGTTTACATATAGG
16948411 TTT
1 TTT
16948414 TTAAAAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
37 4 0.06
38 12 0.18
39 20 0.29
40 9 0.13
41 20 0.29
42 3 0.04
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (37 bp):
TTTAAGGTTTCATTTAGGTTTAGGGTTTACATATAGG
Found at i:16948572 original size:17 final size:17
Alignment explanation
Indices: 16948550--16948586 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16948540 TAAAAACTAT
16948550 TATTA-TTTATTTCTTAC
1 TATTATTTTATTT-TTAC
16948567 TATTATTTTATTTTTAC
1 TATTATTTTATTTTTAC
16948584 TAT
1 TAT
16948587 CTAATAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTATTTTATTTTTAC
Found at i:16949847 original size:20 final size:21
Alignment explanation
Indices: 16949824--16949868 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
16949814 ATTGTATTCT
* *
16949824 TTTTTGTT-TTGGGTTTTTTG
1 TTTTTGTTATTGGCTTTCTTG
16949844 TTTTTGTTATTGGCTTTCTTG
1 TTTTTGTTATTGGCTTTCTTG
16949865 TTTT
1 TTTT
16949869 CACCAACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.02, C:0.04, G:0.20, T:0.73
Consensus pattern (21 bp):
TTTTTGTTATTGGCTTTCTTG
Found at i:16949936 original size:25 final size:24
Alignment explanation
Indices: 16949886--16949938 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16949876 ATTCTTTTTC
*
16949886 TCTTTTTCTTTTGCTACTGTGGTT
1 TCTTTTTCTTTTGCTACTGTGATT
*
16949910 TCTTTTT-TTTTAGCTACTATTGATT
1 TCTTTTTCTTTT-GCTACT-GTGATT
16949935 TCTT
1 TCTT
16949939 ATTGTATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 13 0.52
25 8 0.32
ACGTcount: A:0.09, C:0.15, G:0.11, T:0.64
Consensus pattern (24 bp):
TCTTTTTCTTTTGCTACTGTGATT
Found at i:16951211 original size:106 final size:105
Alignment explanation
Indices: 16950982--16951278 Score: 294
Period size: 106 Copynumber: 2.8 Consensus size: 105
16950972 ATCCACCAAT
* * * *
16950982 CGAAAAATAAAAATAACTAGGATTGAACTGTAAGTCTGAAAATAAATAAGAATCGAGATTAAACC
1 CGAAAAATAAAAATAACTAAGATTGAACTGTAAGTCGGAAAAT-AATATG-ATCGAGATTAAGCC
** * * ** *
16951047 ATAAATTGAAAATTAAAAGATGATTGGAATTGAATTGTCAAT
64 ATAAATCAAAAAATAAAAGACGATTGGAATTGAATACTCAAA
* * *
16951089 CGAAAAATAAATATAACTAAAATTGAACTGTAAGTCGGGAAATGAATATGATC-AGGATTAAGCC
1 CGAAAAATAAAAATAACTAAGATTGAACTGTAAGTCGGAAAAT-AATATGATCGA-GATTAAGCC
*
16951153 GTAAATCAAAAAATAAAAGACGATTAGG-ATTGAATCACT-AAA
64 ATAAATCAAAAAATAAAAGACGATT-GGAATTGAAT-ACTCAAA
* * * * * * * *
16951195 CGAAAAATAAAGATAACCATGATTAAACTGCAAGTAGAGAAAATAATATGATCGAAATTGAGCCA
1 CGAAAAATAAAAATAACTAAGATTGAACTGTAAGTCG-GAAAATAATATGATCGAGATTAAGCCA
*
16951260 CAAATCAAAAAATAAAAGA
65 TAAATCAAAAAATAAAAGA
16951279 TGATCGGGAC
Statistics
Matches: 157, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
105 1 0.01
106 104 0.66
107 52 0.33
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.23
Consensus pattern (105 bp):
CGAAAAATAAAAATAACTAAGATTGAACTGTAAGTCGGAAAATAATATGATCGAGATTAAGCCAT
AAATCAAAAAATAAAAGACGATTGGAATTGAATACTCAAA
Found at i:16952677 original size:17 final size:19
Alignment explanation
Indices: 16952657--16952701 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
16952647 AATTCAAATC
16952657 TTTTTCTTTTTC-AT-TGT
1 TTTTTCTTTTTCAATATGT
*
16952674 TTTTT-TTTTTCAATATTT
1 TTTTTCTTTTTCAATATGT
16952692 TTTTTCTTTT
1 TTTTTCTTTT
16952702 CAAGCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 7 0.29
18 7 0.29
19 4 0.17
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTTTCAATATGT
Found at i:16952692 original size:16 final size:16
Alignment explanation
Indices: 16952657--16952696 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
16952647 AATTCAAATC
* * *
16952657 TTTTTCTTTTTCATTG
1 TTTTTTTTTTTCAATA
16952673 TTTTTTTTTTTCAATA
1 TTTTTTTTTTTCAATA
16952689 TTTTTTTT
1 TTTTTTTT
16952697 CTTTTCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTTTCAATA
Found at i:16958787 original size:27 final size:27
Alignment explanation
Indices: 16958749--16958804 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16958739 TAACAAATAG
16958749 CATAGTAATCTCATTTTTAGTTACTGC
1 CATAGTAATCTCATTTTTAGTTACTGC
*
16958776 CATAGTAATCTCATTTTTAGTTAGTGC
1 CATAGTAATCTCATTTTTAGTTACTGC
16958803 CA
1 CA
16958805 ATTGGACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (27 bp):
CATAGTAATCTCATTTTTAGTTACTGC
Found at i:16959829 original size:3 final size:3
Alignment explanation
Indices: 16959823--16959855 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16959813 AATAATAATA
16959823 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16959856 TTGCTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16965078 original size:12 final size:12
Alignment explanation
Indices: 16965058--16965090 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
16965048 CACTTTATAT
16965058 TTCATTTAGTTC
1 TTCATTTAGTTC
*
16965070 TTCAATTAGTTC
1 TTCATTTAGTTC
16965082 TTCATTTAG
1 TTCATTTAG
16965091 CTTATGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (12 bp):
TTCATTTAGTTC
Found at i:16969820 original size:15 final size:16
Alignment explanation
Indices: 16969802--16969839 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
16969792 AATGAAGAAG
16969802 AGGAAAGAAAA-AAAA
1 AGGAAAGAAAATAAAA
16969817 AGGAAA-AAAATAAAA
1 AGGAAAGAAAATAAAA
*
16969832 AAGAAAGA
1 AGGAAAGA
16969840 GGAAGACGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AGGAAAGAAAATAAAA
Found at i:16970315 original size:70 final size:73
Alignment explanation
Indices: 16970238--16970411 Score: 198
Period size: 73 Copynumber: 2.4 Consensus size: 73
16970228 ATTATTAAAT
* **
16970238 CTATATTTTTAAAATTCTAAAATTTTAACAAA-A-T-CACA-TTTTAAGATAAAAAACATAATGG
1 CTATATTTTCAAAATTCTAAAATTTTAACAAAGATTGCA-ATTTTTAAGATAAAAAACATAATAA
16970299 ATG-TCAAAA
65 ATGTTC-AAA
* * * *
16970308 CTTTATTTTCCAAAATT-TAAAATTTTAACAAAGATTGGAATTTTTATGATAAAAAACATAGTAA
1 CTATATTTT-CAAAATTCTAAAATTTTAACAAAGATTGCAATTTTTAAGATAAAAAACATAATAA
16970372 ATGTTCAAA
65 ATGTTCAAA
*
16970381 CTATATTTTCAAATTTTCTAAAATTTTAACA
1 CTATATTTTCAAA-ATTCTAAAATTTTAACA
16970412 TGGATTAGGT
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
70 23 0.26
71 7 0.08
72 6 0.07
73 36 0.41
74 15 0.17
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (73 bp):
CTATATTTTCAAAATTCTAAAATTTTAACAAAGATTGCAATTTTTAAGATAAAAAACATAATAAA
TGTTCAAA
Found at i:16970453 original size:29 final size:29
Alignment explanation
Indices: 16970397--16970453 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
16970387 TTTCAAATTT
** * **
16970397 TCTAAAATTTTAACATGGATTAGGTTTTA
1 TCTAAAATTTTAACAAAGACTACATTTTA
16970426 TCTAAAATTTTAACAAAGACTACATTTT
1 TCTAAAATTTTAACAAAGACTACATTTT
16970454 TAAGATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (29 bp):
TCTAAAATTTTAACAAAGACTACATTTTA
Found at i:16970620 original size:8 final size:8
Alignment explanation
Indices: 16970607--16970639 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
16970597 TTGAAATTAT
16970607 ATTTTAAA
1 ATTTTAAA
16970615 ATTTTAAA
1 ATTTTAAA
16970623 ATTTTAAA
1 ATTTTAAA
16970631 ATTTTAAA
1 ATTTTAAA
16970639 A
1 A
16970640 AGATCATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:16970874 original size:76 final size:76
Alignment explanation
Indices: 16970774--16970925 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 76
16970764 TTTTTAAGAT
* * ** * *
16970774 AAAAACGTAATGGGTGTTGAAACTATATTTTTGAAATTATGATATTTTAACT-AAGATTATGCTT
1 AAAAACGTAATGGATGTTGAAACTATATGTTCAAAATTATAAAATTTTAA-TAAAGATTATGCTT
16970838 TTAAAACAAAAA
65 TTAAAACAAAAA
* * * *
16970850 AAAAATGTAGTGGATGTTGAAACTATATGTTCAAAATTCTAAAATTTTAATAAAGATTATGTTTT
1 AAAAACGTAATGGATGTTGAAACTATATGTTCAAAATTATAAAATTTTAATAAAGATTATGCTTT
*
16970915 TAAAATAAAAA
66 TAAAACAAAAA
16970926 TGTAGTTGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 1 0.02
76 63 0.98
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.37
Consensus pattern (76 bp):
AAAAACGTAATGGATGTTGAAACTATATGTTCAAAATTATAAAATTTTAATAAAGATTATGCTTT
TAAAACAAAAA
Found at i:16975120 original size:19 final size:19
Alignment explanation
Indices: 16975096--16975134 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16975086 AATTGAGCAA
16975096 CTACCCAAACGTTTAATCC
1 CTACCCAAACGTTTAATCC
16975115 CTACCCAAACGTTTAATCC
1 CTACCCAAACGTTTAATCC
16975134 C
1 C
16975135 AAATTGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.05, T:0.26
Consensus pattern (19 bp):
CTACCCAAACGTTTAATCC
Found at i:16977311 original size:81 final size:77
Alignment explanation
Indices: 16977168--16977393 Score: 222
Period size: 81 Copynumber: 2.8 Consensus size: 77
16977158 CAACTTAAGA
* * * *
16977168 GTTAACTTTTATTATAACGTAGTAATTGAGTGCATTATAATAAACAATTGACAA-AATAAAACAA
1 GTTAATTTTTATTATAACGTAGTAATTGAG-G-GTTATAAAAAATAATTGACAATAAT-AAACAA
16977232 TTACAACCAAATACTAT
63 TTACAACCAAATA-T-T
* * *
16977249 GTTAATTTTTATTATAACATAGTAATTGCACGGGTAATAAAAAATAATTGATAATAATAAACAAT
1 GTTAATTTTTATTATAACGTAGTAATTG-A-GGGTTATAAAAAATAATTGACAATAATAAACAAT
* *
16977314 TGCAATCAAATATT
64 TACAACCAAATATT
* * *
16977328 GCATTAATTTTTATTATAACGTAGGT-ATTAAATGTGTTATAAAAAATTATTGACAATAATAAAC
1 G--TTAATTTTTATTATAACGTA-GTAATT-GA-GGGTTATAAAAAATAATTGACAATAATAAAC
16977392 AA
61 AA
16977394 CTTAATTAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
79 2 0.02
80 1 0.01
81 111 0.91
82 7 0.06
83 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (77 bp):
GTTAATTTTTATTATAACGTAGTAATTGAGGGTTATAAAAAATAATTGACAATAATAAACAATTA
CAACCAAATATT
Found at i:16977451 original size:80 final size:80
Alignment explanation
Indices: 16977285--16977479 Score: 198
Period size: 80 Copynumber: 2.4 Consensus size: 80
16977275 TGCACGGGTA
* * * **
16977285 ATAAAAAATAATTGATAATAATAAACAA-TTGCAATCAAATATTGCATTAATTTTTATTATAACG
1 ATAAAAAATAATTGACAATAATAAACAACTT--AATTAAATATTGCACTAATAATTATTATAACG
*
16977349 TAGGTATTAAATGTGTT
64 TAGGTATTAAATATGTT
* * *
16977366 ATAAAAAATTATTGACAATAATAAACAACTTAATTAAATATTGCGCTAATAATTATTATAATGTA
1 ATAAAAAATAATTGACAATAATAAACAACTTAATTAAATATTGCACTAATAATTATTATAACGTA
***
16977431 -GTAATTTTGTATGTT
66 GGT-ATTAAATATGTT
* * * *
16977446 GTAAAAAATAATTGAC-ATAGTAGACAACTAAATT
1 ATAAAAAATAATTGACAATAATAAACAACTTAATT
16977480 GAATGTGTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 17 0.18
80 50 0.53
81 26 0.27
82 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (80 bp):
ATAAAAAATAATTGACAATAATAAACAACTTAATTAAATATTGCACTAATAATTATTATAACGTA
GGTATTAAATATGTT
Found at i:16977495 original size:122 final size:122
Alignment explanation
Indices: 16977358--16977600 Score: 396
Period size: 123 Copynumber: 2.0 Consensus size: 122
16977348 GTAGGTATTA
* *
16977358 AATGTGTTATAAAAAATTATTGACAATAATAAACAACTTAATTAAATATTGCGCTAATAATTATT
1 AATGTGTTATAAAAAATTATTGACAATAATAAACAACTTAATCAAATATTGCACTAATAATTATT
* * * *
16977423 ATAATGTAGTAATTTTGTATGTTGTAAAAAATAATTGACATAGTAGACAACTAAATTG
66 ATAATGCAGCAATTTAGTATGCTG-AAAAAATAATTGACATAGTAGACAACTAAATTG
*
16977481 AATGTGTTATAAAAAATTATTGACAATAATAAACAACTTAATCAAATATTGCATTAATAATTATT
1 AATGTGTTATAAAAAATTATTGACAATAATAAACAACTTAATCAAATATTGCACTAATAATTATT
* *
16977546 ATAATGCAGCAATTTAGTGTGCTGAAAAAATAATTGACATAGTAGACAATTAAAT
66 ATAATGCAGCAATTTAGTATGCTGAAAAAATAATTGACATAGTAGACAACTAAAT
16977601 CAAATGTCGT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 30 0.27
123 81 0.73
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (122 bp):
AATGTGTTATAAAAAATTATTGACAATAATAAACAACTTAATCAAATATTGCACTAATAATTATT
ATAATGCAGCAATTTAGTATGCTGAAAAAATAATTGACATAGTAGACAACTAAATTG
Found at i:16977857 original size:80 final size:79
Alignment explanation
Indices: 16977660--16977859 Score: 204
Period size: 80 Copynumber: 2.5 Consensus size: 79
16977650 AAACAATTAC
** * *** * * * *
16977660 AATCAAATATTACGTTAATTTTTATTATAATGCACTAATTGTTAGCATTATAAAAATAATTGACA
1 AATCAAATATTGTGTTAATTTTTATTATAATGCAATAATTAAGAGCATTAGAAAAACAATTAAAA
* *
16977725 ATTTAAAATATTTA
66 AATTAAAATACTTA
** * **
16977739 CAATCAAATGCTGTGTTAATTTTTAGTATAACACAATAATTAAGAGCATTACGAAAAACAATTAA
1 -AATCAAATATTGTGTTAATTTTTATTATAATGCAATAATTAAGAGCATTA-GAAAAACAATTAA
16977804 AAAATTAAAATAACTT-
64 AAAATTAAAAT-ACTTA
*
16977820 AATCAAATATTGTGTTAATTTTTATTATAATGTAATAATT
1 AATCAAATATTGTGTTAATTTTTATTATAATGCAATAATT
16977860 GAATGCGTTA
Statistics
Matches: 95, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
80 73 0.77
81 19 0.20
82 3 0.03
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (79 bp):
AATCAAATATTGTGTTAATTTTTATTATAATGCAATAATTAAGAGCATTAGAAAAACAATTAAAA
AATTAAAATACTTA
Found at i:16978059 original size:80 final size:80
Alignment explanation
Indices: 16977648--16978148 Score: 183
Period size: 80 Copynumber: 6.3 Consensus size: 80
16977638 GAATGCATTA
* * ** * * *
16977648 TAAAACAATTACAATCAAATATTACGTTAATTTTTATTATAATGCACTAATTG-TTAGCATTATA
1 TAAAACAACTAAAATCAAATATT-CGTTAATTTTTATTATAAAACAATAATTGAGTA-TATTATA
*
16977712 AAAA-TAATTGACAATT
64 AAAAGTAATTGACAATC
* ** * * * * * *
16977728 TAAAATATTTACAATCAAATGCTGT-GTTAATTTTTAGTATAACACAATAATTAAG-AGCATTAC
1 TAAAACAACTAAAATCAAAT-AT-TCGTTAATTTTTATTATAAAACAATAATTGAGTA-TATTA-
* * * *
16977791 GAAAAA-CAATTAAAAAAT-
62 TAAAAAGTAATT-GACAATC
* * * *** * ***
16977809 TAAAATAACT-TAATCAAATATTGTGTTAATTTTTATTATAATGTAATAATTGAATGCGTTAT-A
1 TAAAACAACTAAAATCAAATATT-CGTTAATTTTTATTATAAAACAATAATTGAGTATATTATAA
*
16977872 AAA-TCAATTTACAAT-
65 AAAGT-AATTGACAATC
* * * * ** * *
16977887 AATAAACAACT-TAATAAAAAATTACGCCATTTTTTTATTATAAAACAATAATTGAGTATGTTAT
1 TA-AAACAACTAAAATCAAATATT-CGTTA-ATTTTTATTATAAAACAATAATTGAGTATATTAT
*
16977951 AAAAAGTAATTGACAATT
63 AAAAAGTAATTGACAATC
* * * *
16977969 TAAAATAACTAAAATTAAATATTCGTTAATTTTTATTATATAACAATAATTGAGT-TCATTCTAA
1 TAAAACAACTAAAATCAAATATTCGTTAATTTTTATTATAAAACAATAATTGAGTAT-ATTATAA
16978033 AAA-TCAATTGACAATAC
65 AAAGT-AATTGACAAT-C
** * ** * * * *
16978050 T-CTACAACTATAATCAAATACTGTATTTAA-TTTTATCATAACATAGTAATTGAG--TATTATA
1 TAAAACAACTAAAATCAAATA-T-TCGTTAATTTTTATTATAAAACAATAATTGAGTATATTATA
* *
16978111 AAAGGCAATTGACAAT-
64 AAAAGTAATTGACAATC
* * *
16978127 AATAAACACCTACAATCAAATA
1 TA-AAACAACTAAAATCAAATA
16978149 CTATAATCAA
Statistics
Matches: 321, Mismatches: 77, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
78 10 0.03
79 59 0.18
80 169 0.53
81 62 0.19
82 21 0.07
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (80 bp):
TAAAACAACTAAAATCAAATATTCGTTAATTTTTATTATAAAACAATAATTGAGTATATTATAAA
AAGTAATTGACAATC
Found at i:16978124 original size:79 final size:78
Alignment explanation
Indices: 16977924--16978150 Score: 187
Period size: 80 Copynumber: 2.9 Consensus size: 78
16977914 CATTTTTTTA
* * * * * * *
16977924 TTATAAAACAATAATTGAGTAT-GTTATAAAAAGTAATTGACAAT-TTAAAATAACTAAAATTAA
1 TTATATAACAATAATTGAGT-TCATTATAAAAAGCAATTGACAATAAT-AAACAACTACAATCAA
*
16977987 ATATTCGTTAATTT--TT
64 ATACT-G-T-ATTTAATT
* * * ** *
16978003 ATTATATAACAATAATTGAGTTCATTCTAAAAATCAATTGACAATACTCTACAACTATAATCAAA
1 -TTATATAACAATAATTGAGTTCATTATAAAAAGCAATTGACAATAATAAACAACTACAATCAAA
16978068 TACTGTATTTAATT
65 TACTGTATTTAATT
* *
16978082 TTATCATAACATAGTAATTGAG-T-ATTATAAAAGGCAATTGACAATAATAAACACCTACAATCA
1 TTAT-ATAACA-A-TAATTGAGTTCATTATAAAAAGCAATTGACAATAATAAACAACTACAATCA
16978145 AATACT
63 AATACT
16978151 ATAATCAAGT
Statistics
Matches: 120, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
77 4 0.03
78 5 0.04
79 48 0.40
80 54 0.45
81 9 0.08
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (78 bp):
TTATATAACAATAATTGAGTTCATTATAAAAAGCAATTGACAATAATAAACAACTACAATCAAAT
ACTGTATTTAATT
Found at i:16982210 original size:46 final size:46
Alignment explanation
Indices: 16982155--16982245 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
16982145 GAGGGATGCA
* *
16982155 CAATTTCTATAGTGGATTCAAAATATACAATTTCTATAGTAGAGGT
1 CAATATCTATAGTGGATTCAAAATATACAATTTCTACAGTAGAGGT
*
16982201 CAATATCTATAGTGGATTCGAAATATACAATTTCTACAGTAGAGG
1 CAATATCTATAGTGGATTCAAAATATACAATTTCTACAGTAGAGG
16982246 CCATTCGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (46 bp):
CAATATCTATAGTGGATTCAAAATATACAATTTCTACAGTAGAGGT
Found at i:16982600 original size:2 final size:2
Alignment explanation
Indices: 16982593--16982625 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16982583 GGATGAGTTC
16982593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16982626 ACCTTATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16988752 original size:18 final size:18
Alignment explanation
Indices: 16988729--16988765 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16988719 AACTTAAGGC
*
16988729 ATGCTAGGTTAGCACTTT
1 ATGCTAAGTTAGCACTTT
16988747 ATGCTAAGTTAGCACTTT
1 ATGCTAAGTTAGCACTTT
16988765 A
1 A
16988766 GGGGTCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (18 bp):
ATGCTAAGTTAGCACTTT
Found at i:16992516 original size:61 final size:62
Alignment explanation
Indices: 16992439--16992567 Score: 181
Period size: 61 Copynumber: 2.1 Consensus size: 62
16992429 TTTTATCTAG
* * ** *
16992439 TAAAATCTCACAAATTCTTATCATAGATGATGTGATTAT-AGAATACATAAAACTTAGTAAAT
1 TAAAATCTCACAAATTCTCACCATAGATGATGAAATTATGA-AATACATAAAACTTAGTAAAC
*
16992501 TAAAA-CTCACAAATTCTCCCCATAGATGATGAAATTATGAAATACATAAAACTTAGTAAAC
1 TAAAATCTCACAAATTCTCACCATAGATGATGAAATTATGAAATACATAAAACTTAGTAAAC
16992562 TAAAAT
1 TAAAAT
16992568 TTAAACATCA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
61 53 0.90
62 6 0.10
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (62 bp):
TAAAATCTCACAAATTCTCACCATAGATGATGAAATTATGAAATACATAAAACTTAGTAAAC
Found at i:16993019 original size:17 final size:15
Alignment explanation
Indices: 16992974--16993020 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
16992964 ATGAAATAAT
16992974 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
16992987 ATAATATATAACAAC
1 AAAATATATAACAAC
16993002 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
16993019 AA
1 AA
16993021 TATGCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:16998053 original size:31 final size:30
Alignment explanation
Indices: 16998009--16998078 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
16997999 TAAATTAAAA
16998009 ATTTATT-ATTAATGAAATG-A-TATTATTTG
1 ATTTATTAATTAATG--ATGTAGTATTATTTG
16998038 ATTTATCTAATTAATGATGTAGTATTATTTG
1 ATTTAT-TAATTAATGATGTAGTATTATTTG
*
16998069 AGTTATTAAT
1 ATTTATTAAT
16998079 AATATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 9 0.25
30 6 0.17
31 21 0.58
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.51
Consensus pattern (30 bp):
ATTTATTAATTAATGATGTAGTATTATTTG
Found at i:16998656 original size:15 final size:15
Alignment explanation
Indices: 16998636--16998665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16998626 TCCGATAAGG
16998636 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
*
16998651 TTTTTTTTTTTTTTC
1 TTTTTTTCTTTTTTC
16998666 CATTTCTTAA
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:17005532 original size:2 final size:2
Alignment explanation
Indices: 17005525--17005563 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17005515 ACTAATATCG
17005525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17005564 CACATGGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17011200 original size:3 final size:3
Alignment explanation
Indices: 17011192--17011292 Score: 107
Period size: 3 Copynumber: 33.3 Consensus size: 3
17011182 TGATTTTTTA
* * *
17011192 AAT AAT AAT AAT AAT AAT AAT GAT AAT AGT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17011240 AAT AAT ACT AAT AA- ACT ATGT ACGAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT A--AT AAT AAT AAT AAT AAT AAT AAT
17011286 AAT AAT A
1 AAT AAT A
17011293 TAGTAAAGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.04
3 76 0.93
4 2 0.02
5 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17013276 original size:15 final size:15
Alignment explanation
Indices: 17013256--17013288 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17013246 AGGACATTCA
17013256 CATTTGCATCACTTG
1 CATTTGCATCACTTG
*
17013271 CATTTGTATCACTTG
1 CATTTGCATCACTTG
17013286 CAT
1 CAT
17013289 GTACATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
CATTTGCATCACTTG
Found at i:17013655 original size:15 final size:15
Alignment explanation
Indices: 17013635--17013701 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
17013625 AATAAAACAT
17013635 TTGCATTTGCATCAC
1 TTGCATTTGCATCAC
*
17013650 TTGCATCTGCATCAC
1 TTGCATTTGCATCAC
** *
17013665 AAG--TATG-A-CA-
1 TTGCATTTGCATCAC
17013675 TTCGCATTTGCATCAC
1 TT-GCATTTGCATCAC
17013691 TTGCATTTGCA
1 TTGCATTTGCA
17013702 CTTGTATAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
11 3 0.08
12 1 0.03
13 6 0.15
14 1 0.03
15 26 0.67
16 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (15 bp):
TTGCATTTGCATCAC
Found at i:17018365 original size:3 final size:3
Alignment explanation
Indices: 17018357--17018402 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
17018347 CATAATCATG
* *
17018357 ATA ATA ATA ATA AT- ATA ATA ATA GTT ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17018403 TTTAAATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:17018500 original size:3 final size:3
Alignment explanation
Indices: 17018494--17018531 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17018484 GGAATTATTA
17018494 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17018532 AACTTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17021564 original size:29 final size:29
Alignment explanation
Indices: 17021522--17021581 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17021512 GAACTGAAGA
17021522 AATGAATGAAAAAGATGAGATATCATAAC
1 AATGAATGAAAAAGATGAGATATCATAAC
17021551 AATGAATGAAAAAGATGAGATATCATAAC
1 AATGAATGAAAAAGATGAGATATCATAAC
17021580 AA
1 AA
17021582 GTTAAGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (29 bp):
AATGAATGAAAAAGATGAGATATCATAAC
Found at i:17021780 original size:32 final size:32
Alignment explanation
Indices: 17021634--17021926 Score: 160
Period size: 31 Copynumber: 9.4 Consensus size: 32
17021624 AAAATGAGAA
* * * *
17021634 TTAAGCCTAGTTTAGTTGTCACCGAAG-AGAT
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
* * * *
17021665 TTAAACCCAGTTTAGTTGCCA-CTGA-GGAGAA
1 TTAAGCCCAGTTTAGTTGGCACCT-ATGAAGAT
* * * * * * *
17021696 TGAAGCCTAATTTAGCTGGCACCAAAG-AGAA
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
*
17021727 TTAAGCCTAGTTTAGTTGGCACCTATGAAGAT
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
* *
17021759 TTAAGCCCAGTCTAGTCGGCACC--T-AA-AT
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
* * *
17021787 TTAAGCCTAGTTTAGTTGACACCTATGAGGAGAA
1 TTAAGCCCAGTTTAGTTGGCACCTATGA--AGAT
* *
17021821 TTAAGCCCAGTTTAGCTGGCA--T-TG-AGAA
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
* * * ** *
17021849 TTAAGCCCAATTTAGTTAGCACTTACAAAAAT
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
* * ** *
17021881 TTAAGCCTAGCTTAACTGGCACCAATGAAGAT
1 TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
*
17021913 TTAAGCTCAGTTTA
1 TTAAGCCCAGTTTA
17021927 ACTAGCACCG
Statistics
Matches: 197, Mismatches: 50, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
28 43 0.22
29 2 0.01
30 5 0.03
31 67 0.34
32 60 0.30
33 1 0.01
34 19 0.10
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (32 bp):
TTAAGCCCAGTTTAGTTGGCACCTATGAAGAT
Found at i:17022558 original size:97 final size:96
Alignment explanation
Indices: 17022422--17022724 Score: 295
Period size: 97 Copynumber: 3.1 Consensus size: 96
17022412 TTTCAACTTT
* * * * *
17022422 GAGATTTTGAAAGTTTCCTAACCTTTCTTTGGAAGAGCTTTTCAAAAATGGGATTTTAAAAGTTT
1 GAGATTTT-AAAGTTTCCTAGCCTCTCTTTAGAA-AGCTTTTCAAAATTGAGATTTTAAAAGTTT
* * *
17022487 CCTAGCCTCTGTCTAGAGAAGCTTTTCAAAATG
64 CCTAGCCTCTCTTTAGAGAAGTTTTTCAAAATG
* * *
17022520 GTAG-TTTTAAAGTTTCCTAGCCTCTCCTTAGATAAGCTTTTTAAAATTGAGATTTTCAAAGTTT
1 G-AGATTTTAAAGTTTCCTAGCCTCTCTTTAGA-AAGCTTTTCAAAATTGAGATTTTAAAAGTTT
** * *
17022584 CCTAATCTCTCTTTAGA-AGAGTTTTTAAAAATT
64 CCTAGCCTCTCTTTAGAGA-AGTTTTTCAAAATG
* *
17022617 GAGATTTATAAAGTTTCCTAGTCTCTCTTTAGAGGAGCTTTTCAAAATTGAGATTTTTTAAAAAA
1 GAGATTT-TAAAGTTTCCTAGCCTCTCTTTAGA-AAGCTTTTCAAAATTGAGA--TTTT--AAAA
* * * * *
17022682 GTTTCATAGCCTCTTTTTAGAGGAGTTTTTCAAAGTT
60 GTTTCCTAGCCTCTCTTTAGAGAAGTTTTTCAAAATG
17022719 GAGATT
1 GAGATT
17022725 GCCTTTAAAA
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
96 3 0.02
97 74 0.44
98 46 0.28
99 2 0.01
100 4 0.02
102 38 0.23
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (96 bp):
GAGATTTTAAAGTTTCCTAGCCTCTCTTTAGAAAGCTTTTCAAAATTGAGATTTTAAAAGTTTCC
TAGCCTCTCTTTAGAGAAGTTTTTCAAAATG
Found at i:17022701 original size:53 final size:49
Alignment explanation
Indices: 17022411--17022771 Score: 323
Period size: 49 Copynumber: 7.2 Consensus size: 49
17022401 GTAATCTAAG
** * * * * *
17022411 TTTTCAACTTTGAGATTTTGAAAGTTTCCTAACCTTTCTTTGGAAGAGC
1 TTTTCAAAATTGAGATTTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* * * * *
17022460 TTTTCAAAAATGGGATTTTAAAAGTTTCCTAGCCTCTGTCTAGAGAAGC
1 TTTTCAAAATTGAGATTTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* * **
17022509 TTTTCAAAATGGTAG-TTTT-AAAGTTTCCTAGCCTCTCCTTAGATAAGC
1 TTTTCAAAATTG-AGATTTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* * ** * *
17022557 TTTTTAAAATTGAGATTTTCAAAGTTTCCTAATCTCTCTTTAGAAGAGT
1 TTTTCAAAATTGAGATTTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* *
17022606 TTTTAAAAATTGAGA-TTTATAAAGTTTCCTAGTCTCTCTTTAGAGGAGC
1 TTTTCAAAATTGAGATTTTA-AAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* * *
17022655 TTTTCAAAATTGAGATTTTTTAAAAAAGTTTCATAGCCTCTTTTTAGAGGAGT
1 TTTTCAAAATTGAGA--TTTT--AAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
* ** * *
17022708 TTTTCAAAGTTGAGATTGCCTTTAAAAGTTTCAAAGCCTCTTTTTAGAGGAGT
1 TTTTCAAAATTGAGA-T---TTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
17022761 TTTTCAAAATT
1 TTTTCAAAATT
17022772 CAAGTTTTCA
Statistics
Matches: 260, Mismatches: 40, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
47 2 0.01
48 42 0.16
49 128 0.49
50 1 0.00
52 5 0.02
53 78 0.30
54 1 0.00
55 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (49 bp):
TTTTCAAAATTGAGATTTTAAAAGTTTCCTAGCCTCTCTTTAGAGGAGC
Found at i:17025063 original size:12 final size:12
Alignment explanation
Indices: 17025046--17025093 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
17025036 TGCCCATGCA
17025046 AACCCTAAACCT
1 AACCCTAAACCT
*
17025058 AACCCTAAACCA
1 AACCCTAAACCT
* *
17025070 AACCATGAACCCT
1 AACCCT-AAACCT
*
17025083 AAACCTAAACC
1 AACCCTAAACC
17025094 CTGAACCTCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.46, C:0.40, G:0.02, T:0.12
Consensus pattern (12 bp):
AACCCTAAACCT
Found at i:17025068 original size:7 final size:7
Alignment explanation
Indices: 17025045--17025100 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
17025035 TTGCCCATGC
17025045 AAACCCT
1 AAACCCT
17025052 AAA-CCT
1 AAACCCT
17025058 -AACCCT
1 AAACCCT
17025064 AAA-CC-
1 AAACCCT
*
17025069 AAACCAT
1 AAACCCT
*
17025076 GAACCCT
1 AAACCCT
17025083 AAA-CCT
1 AAACCCT
17025089 AAACCCT
1 AAACCCT
*
17025096 GAACC
1 AAACC
17025101 TCCTTTGGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
5 5 0.13
6 15 0.38
7 19 0.49
ACGTcount: A:0.45, C:0.39, G:0.04, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:17025080 original size:19 final size:20
Alignment explanation
Indices: 17025049--17025100 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
17025039 CCATGCAAAC
17025049 CCTAAACC-T-AACCCTAAA
1 CCTAAACCATGAACCCTAAA
17025067 CC-AAACCATGAACCCTAAA
1 CCTAAACCATGAACCCTAAA
*
17025086 CCTAAACCCTGAACC
1 CCTAAACCATGAACC
17025101 TCCTTTGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 11 0.37
20 11 0.37
ACGTcount: A:0.42, C:0.40, G:0.04, T:0.13
Consensus pattern (20 bp):
CCTAAACCATGAACCCTAAA
Found at i:17025365 original size:25 final size:25
Alignment explanation
Indices: 17025331--17025382 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
17025321 GTGTTTGATG
17025331 CACGTTCTAACTAGATACAATGTTA
1 CACGTTCTAACTAGATACAATGTTA
17025356 CACGTTCTAACTAGATACAATGTTA
1 CACGTTCTAACTAGATACAATGTTA
17025381 CA
1 CA
17025383 TGCTTGTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
CACGTTCTAACTAGATACAATGTTA
Found at i:17025959 original size:61 final size:60
Alignment explanation
Indices: 17025811--17025988 Score: 203
Period size: 61 Copynumber: 2.9 Consensus size: 60
17025801 CATATTCCAT
* * * * *
17025811 ACATCAAAGTTTGTACTTTTATCAATAGCATTTTGGTAATTTTTCTTACATCCATTCCCCA
1 ACATCAAAGTTTGTATTTTTATCAATGGCATTTTGGTAA-TTTTGTTACATGCATTACCCA
* * * * **
17025872 AGCATCAAAGCTTGCATTTCTATCAATGGCATTTTGGTAATTTTGTTACAAGCATTATTCA
1 A-CATCAAAGTTTGTATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATTACCCA
* * *
17025933 CACATCAAAGTTTATATTTTTATCAATGGCATTTTGTTAATTTAGTTACATGCATT
1 -ACATCAAAGTTTGTATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATT
17025989 TCCAAACCCT
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
61 63 0.65
62 34 0.35
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (60 bp):
ACATCAAAGTTTGTATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATTACCCA
Found at i:17026008 original size:7 final size:6
Alignment explanation
Indices: 17025996--17026288 Score: 87
Period size: 7 Copynumber: 45.0 Consensus size: 6
17025986 ATTTCCAAAC
17025996 CCTAAA TCCTAAA CC-AAA GCCCTAAA CTCTAAA CC-AAA CCTTAAA TCCTAAA
1 CCTAAA -CCTAAA CCTAAA --CCTAAA C-CTAAA CCTAAA CC-TAAA -CCTAAA
* * *
17026048 CCCTAAA TCCTAAA CCCTAAA CCTAAA CC-AAG CCTTAA CCTTAAA CGTCAAA
1 -CCTAAA -CCTAAA -CCTAAA CCTAAA CCTAAA CCTAAA CC-TAAA CCT-AAA
* *
17026100 CC-AAA TCCTAGA CCTTAAA TCTTAAA CCTTAAA -CTAAAA CCCTAAA
1 CCTAAA -CCTAAA CC-TAAA -CCTAAA CC-TAAA CCT-AAA -CCTAAA
* * * ** *
17026146 TCCTAAC CCTAGA CTCTAAA CCCAAA GTTTAAT CCTAAAA CCTAAA CCTTAAA
1 -CCTAAA CCTAAA C-CTAAA CCTAAA -CCTAAA CCT-AAA CCTAAA CC-TAAA
* * * * * *
17026199 CTTAGAT CTTAAA TCGAAA CCCTAAC CCTAAA CCCTAAA CCCTAAAA CC-AAA
1 CCTA-AA CCTAAA CCTAAA -CCTAAA CCTAAA -CCTAAA -CCT-AAA CCTAAA
* * *
17026251 GCCTTAA CCTAGAC CCTAAA -CTAAC CCTAAA CCCTAAA
1 -CCTAAA CCTA-AA CCTAAA CCTAAA CCTAAA -CCTAAA
17026289 ACCAACTTGA
Statistics
Matches: 213, Mismatches: 42, Indels: 62
0.67 0.13 0.20
Matches are distributed among these distances:
5 23 0.11
6 61 0.29
7 118 0.55
8 11 0.05
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:17026020 original size:20 final size:19
Alignment explanation
Indices: 17025990--17026076 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 19
17025980 ACATGCATTT
17025990 CCAAACCCTAAATCCTAAA
1 CCAAACCCTAAATCCTAAA
17026009 CCAAAGCCCTAAA-CTCTAAA
1 CCAAA-CCCTAAATC-CTAAA
*
17026029 CCAAACCTTAAATCCTAAA
1 CCAAACCCTAAATCCTAAA
* *
17026048 CCCTAAATCCTAAACCCTAAA
1 -CC-AAACCCTAAATCCTAAA
17026069 CCTAAACC
1 CC-AAACC
17026077 AAGCCTTAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
19 17 0.29
20 27 0.47
21 14 0.24
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (19 bp):
CCAAACCCTAAATCCTAAA
Found at i:17026074 original size:13 final size:13
Alignment explanation
Indices: 17025992--17026288 Score: 118
Period size: 13 Copynumber: 22.8 Consensus size: 13
17025982 ATGCATTTCC
17025992 AAACCCTAAATCCT
1 AAACCCTAAA-CCT
17026006 AAA-CC-AAAGCCCT
1 AAACCCTAAA--CCT
*
17026019 AAACTCTAAACC-
1 AAACCCTAAACCT
*
17026031 AAACCTTAAATCCT
1 AAACCCTAAA-CCT
17026045 AAACCCTAAATCCT
1 AAACCCTAAA-CCT
17026059 AAACCCTAAACCT
1 AAACCCTAAACCT
*
17026072 AAA-CC-AAGCCT
1 AAACCCTAAACCT
* * *
17026083 TAACCTTAAACGT
1 AAACCCTAAACCT
17026096 CAAA-CC-AAATCCT
1 -AAACCCTAAA-CCT
* * *
17026109 AGACCTTAAATCTT
1 AAACCCTAAA-CCT
*
17026123 AAACCTTAAA-CT
1 AAACCCTAAACCT
17026135 AAAACCCTAAATCCT
1 -AAACCCTAAA-CCT
*
17026150 -AACCCTAGACTCT
1 AAACCCTAAAC-CT
**
17026163 AAACCC-AAAGTT
1 AAACCCTAAACCT
* *
17026175 TAATCCTAAAACCT
1 AAACCCT-AAACCT
* *
17026189 AAACCTTAAACTT
1 AAACCCTAAACCT
* * * * *
17026202 AGATCTTAAATCG
1 AAACCCTAAACCT
*
17026215 AAACCCTAACCCT
1 AAACCCTAAACCT
17026228 AAACCCTAAACCCT
1 AAACCCTAAA-CCT
*
17026242 AAAACC-AAAGCCT
1 AAACCCTAAA-CCT
* *
17026255 TAA-CCTAGACCCT
1 AAACCCTA-AACCT
*
17026268 AAA--CTAACCCT
1 AAACCCTAAACCT
17026279 AAACCCTAAA
1 AAACCCTAAA
17026289 ACCAACTTGA
Statistics
Matches: 211, Mismatches: 49, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
11 15 0.07
12 31 0.15
13 94 0.45
14 66 0.31
15 5 0.02
ACGTcount: A:0.44, C:0.32, G:0.03, T:0.21
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:17026728 original size:25 final size:24
Alignment explanation
Indices: 17026698--17026754 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 24
17026688 ATTTTAATCC
*
17026698 AAAAATAAATTATTTTGCTTTTAAA
1 AAAAATAAATGATTTT-CTTTTAAA
17026723 AAAAATTAAATGATTTTCTTTTAAA
1 AAAAA-TAAATGATTTTCTTTTAAA
17026748 AGAAAAT
1 A-AAAAT
17026755 TAAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (24 bp):
AAAAATAAATGATTTTCTTTTAAA
Found at i:17026732 original size:26 final size:25
Alignment explanation
Indices: 17026698--17026758 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
17026688 ATTTTAATCC
*
17026698 AAAAA-TAAATTATTTTGCTTTTAAA
1 AAAAATTAAATGATTTT-CTTTTAAA
17026723 AAAAATTAAATGATTTTCTTTTAAA
1 AAAAATTAAATGATTTTCTTTTAAA
17026748 AGAAAATTAAA
1 A-AAAATTAAA
17026759 AAAAATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (25 bp):
AAAAATTAAATGATTTTCTTTTAAA
Found at i:17027431 original size:16 final size:16
Alignment explanation
Indices: 17027410--17027444 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17027400 ATTCAAATTC
17027410 TTGTGAGTTATTTTT-T
1 TTGTGAGTT-TTTTTAT
17027426 TTGTGAGTTTTTTTAT
1 TTGTGAGTTTTTTTAT
17027442 TTG
1 TTG
17027445 CAGTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.11, C:0.00, G:0.20, T:0.69
Consensus pattern (16 bp):
TTGTGAGTTTTTTTAT
Found at i:17033906 original size:22 final size:23
Alignment explanation
Indices: 17033875--17033922 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
17033865 CATTATGAGC
17033875 CTTCTGAATTTGCTATATTTGGA
1 CTTCTGAATTTGCTATATTTGGA
17033898 CTTC-GAATTTGCTATATTTGGA
1 CTTCTGAATTTGCTATATTTGGA
17033920 CTT
1 CTT
17033923 AAAAAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (23 bp):
CTTCTGAATTTGCTATATTTGGA
Found at i:17045244 original size:14 final size:16
Alignment explanation
Indices: 17045208--17045242 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17045198 TATATAATTT
*
17045208 AAAAAGAGAGAGAGAG
1 AAAAAGAGAAAGAGAG
17045224 AAAAAGAGAAAGA-AG
1 AAAAAGAGAAAGAGAG
17045239 AAAA
1 AAAA
17045243 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAAAGAGAAAGAGAG
Found at i:17045962 original size:15 final size:15
Alignment explanation
Indices: 17045942--17045971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17045932 CTAAAGGATG
17045942 TGAATGAATGAATGA
1 TGAATGAATGAATGA
*
17045957 TGAATGAGTGAATGA
1 TGAATGAATGAATGA
17045972 AGATAAAGGA
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:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (15 bp):
TGAATGAATGAATGA
Found at i:17048847 original size:62 final size:61
Alignment explanation
Indices: 17048748--17048930 Score: 262
Period size: 61 Copynumber: 3.0 Consensus size: 61
17048738 CATTCATACT
* *
17048748 CCATGCATTAAAATTTGCATTTTTATCAATGGCATTTTGGTAATTTTTGTTACATGCATTTC
1 CCATGCATCAAAGTTTGCATTTTTATCAATGGCATTTTGGTAA-TTTTGTTACATGCATTTC
* * *
17048810 CCATGCATCAAAGTTTACATTTTTTTCAATGGAATTTTGGTAATTTTGTTACATGCATTCTC
1 CCATGCATCAAAGTTTGCATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATT-TC
* *
17048872 CACA--CATCAAAGTTTGCATCTTTATCAATGGCATTTTGGTAATTTAGTTACATGCATTT
1 C-CATGCATCAAAGTTTGCATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATTT
17048931 ACAAACCCTA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
60 1 0.01
61 65 0.60
62 41 0.38
63 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (61 bp):
CCATGCATCAAAGTTTGCATTTTTATCAATGGCATTTTGGTAATTTTGTTACATGCATTTC
Found at i:17048984 original size:13 final size:14
Alignment explanation
Indices: 17048933--17049036 Score: 69
Period size: 14 Copynumber: 7.9 Consensus size: 14
17048923 ATGCATTTAC
* *
17048933 AAACCCTAAATCCT
1 AAACCATAAACCCT
*
17048947 AAACAATAAA-CC-
1 AAACCATAAACCCT
17048959 AAACCATAAACCCT
1 AAACCATAAACCCT
17048973 AAACCA-AAACCCT
1 AAACCATAAACCCT
* * *
17048986 -AACCTTAGACCTT
1 AAACCATAAACCCT
*
17048999 AAACCA-AAACTCT
1 AAACCATAAACCCT
*
17049012 -AACC-TCAAATCCT
1 AAACCAT-AAACCCT
*
17049025 AAACCCTAAACC
1 AAACCATAAACC
17049037 TTGAAATCTA
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
12 17 0.25
13 25 0.36
14 26 0.38
15 1 0.01
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.16
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:17048989 original size:26 final size:25
Alignment explanation
Indices: 17048937--17049029 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
17048927 ATTTACAAAC
* * *
17048937 CCTAAATCCTAAA-CAATAAACCAAA
1 CCTAAACCCTAAACCAA-AACCCTAA
17048962 CCATAAACCCTAAACCAAAACCCTAA
1 CC-TAAACCCTAAACCAAAACCCTAA
* * *
17048988 CCTTAGACCTTAAACCAAAACTCTAA
1 CC-TAAACCCTAAACCAAAACCCTAA
*
17049014 CCTCAAATCCTAAACC
1 CCT-AAACCCTAAACC
17049030 CTAAACCTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.05
26 49 0.89
27 3 0.05
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (25 bp):
CCTAAACCCTAAACCAAAACCCTAA
Found at i:17049034 original size:7 final size:7
Alignment explanation
Indices: 17048933--17049036 Score: 51
Period size: 7 Copynumber: 15.7 Consensus size: 7
17048923 ATGCATTTAC
17048933 AAACCCT
1 AAACCCT
*
17048940 AAATCCT
1 AAACCCT
**
17048947 AAACAAT
1 AAACCCT
17048954 AAA-CC-
1 AAACCCT
*
17048959 AAACCAT
1 AAACCCT
17048966 AAACCCT
1 AAACCCT
*
17048973 AAA-CCA
1 AAACCCT
17048979 AAACCCT
1 AAACCCT
*
17048986 -AACCTT
1 AAACCCT
* *
17048992 AGACCTT
1 AAACCCT
*
17048999 AAA-CCA
1 AAACCCT
*
17049005 AAACTCT
1 AAACCCT
17049012 -AA-CCT
1 AAACCCT
*
17049017 CAAATCCT
1 -AAACCCT
17049025 AAACCCT
1 AAACCCT
17049032 AAACC
1 AAACC
17049037 TTGAAATCTA
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
5 5 0.07
6 17 0.24
7 45 0.64
8 3 0.04
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:17051360 original size:37 final size:37
Alignment explanation
Indices: 17051317--17051426 Score: 143
Period size: 37 Copynumber: 3.0 Consensus size: 37
17051307 TGTATGCTTG
* *
17051317 TTATGATGTACATGGGATGGACTACATGTATTATCTA
1 TTATGATATACATGAGATGGACTACATGTATTATCTA
*
17051354 TTATGATATATATGAGATGGACTACATGTATTATCTA
1 TTATGATATACATGAGATGGACTACATGTATTATCTA
* *
17051391 TT-TAGATATGCATGAAAT-GAGCTACATGTATTATCT
1 TTAT-GATATACATGAGATGGA-CTACATGTATTATCT
17051427 TTTACAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.05
37 62 0.95
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (37 bp):
TTATGATATACATGAGATGGACTACATGTATTATCTA
Found at i:17051782 original size:19 final size:18
Alignment explanation
Indices: 17051760--17051799 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17051750 TTTTTGAAAA
*
17051760 TTTTTATTT-TTTTTTTG
1 TTTTTTTTTCTTTTTTTG
17051777 CTTTTTTTTTCTTTTTTTG
1 -TTTTTTTTTCTTTTTTTG
17051796 TTTT
1 TTTT
17051800 GTTGGATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTTG
Found at i:17053503 original size:26 final size:27
Alignment explanation
Indices: 17053455--17053506 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17053445 CAAATGCTGG
**
17053455 TTTTAGGGTTTAGGGGTTGGTTTGGAT
1 TTTTAGGGTTTAGGGGTAAGTTTGGAT
*
17053482 TTTTAGGTTTTAGGGG-AAGTTTGGA
1 TTTTAGGGTTTAGGGGTAAGTTTGGA
17053507 GTCTAGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (27 bp):
TTTTAGGGTTTAGGGGTAAGTTTGGAT
Found at i:17053568 original size:13 final size:13
Alignment explanation
Indices: 17053552--17053747 Score: 62
Period size: 13 Copynumber: 14.3 Consensus size: 13
17053542 TTAGAGTATA
17053552 GGTTAGGGTTTAG
1 GGTTAGGGTTTAG
*
17053565 GGTTGATTTGAGGTCTAG
1 GGTT-A---G-GGTTTAG
17053583 -GTTAGGGTTTAG
1 GGTTAGGGTTTAG
*
17053595 AG-TATGGAGTTTAG
1 GGTTA-GG-GTTTAG
*
17053609 GTTTAGGGTTTGATTTG
1 GGTTAGGGTTT-A---G
* *
17053626 GCTTAGGGTTTAA
1 GGTTAGGGTTTAG
* *
17053639 GGTTTGAGGTTTAA
1 GGTTAG-GGTTTAG
* * *
17053653 AGTTAGAG-TCAG
1 GGTTAGGGTTTAG
*
17053665 GGTTTAGTGTTT-G
1 GG-TTAGGGTTTAG
*
17053678 GTTTAGGGTTTAG
1 GGTTAGGGTTTAG
17053691 GGTTTAGGGTTTA-
1 GG-TTAGGGTTTAG
*
17053704 GGTATAGGGTTTAA
1 GGT-TAGGGTTTAG
* *
17053718 AGTTTGGGTTTAG
1 GGTTAGGGTTTAG
*
17053731 GGTTTA-GGTATAG
1 GG-TTAGGGTTTAG
17053744 GGTT
1 GGTT
17053748 TAAAGTTTGG
Statistics
Matches: 137, Mismatches: 25, Indels: 43
0.67 0.12 0.21
Matches are distributed among these distances:
12 22 0.16
13 54 0.39
14 36 0.26
15 2 0.01
16 2 0.01
17 15 0.11
18 6 0.04
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.42
Consensus pattern (13 bp):
GGTTAGGGTTTAG
Found at i:17053643 original size:51 final size:49
Alignment explanation
Indices: 17053539--17053643 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 49
17053529 AGGTTGGGTT
* *
17053539 GGTTTAGAGTATAGGTTAGGGTTTAGGGTTGATTTGAGGTCTAGGTTAG
1 GGTTTAGAGTATAGGTTAGGGTTTAGGGTTGATTTGAGCTCTAGGTTAA
*
17053588 GGTTTAGAGTATGGAGTTTA-GGTTTAGGGTTTGATTTG-GCT-TAGGGTTTAA
1 GGTTTAGAGTAT--AGGTTAGGGTTTAGGG-TTGATTTGAGCTCTA-GG-TTAA
17053639 GGTTT
1 GGTTT
17053644 GAGGTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
49 14 0.29
50 13 0.27
51 21 0.44
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (49 bp):
GGTTTAGAGTATAGGTTAGGGTTTAGGGTTGATTTGAGCTCTAGGTTAA
Found at i:17053687 original size:7 final size:7
Alignment explanation
Indices: 17053663--17053767 Score: 96
Period size: 7 Copynumber: 15.9 Consensus size: 7
17053653 AGTTAGAGTC
17053663 AGGGTTT
1 AGGGTTT
*
17053670 AGTGTTT
1 AGGGTTT
17053677 --GGTTT
1 AGGGTTT
17053682 AGGGTTT
1 AGGGTTT
17053689 AGGGTTT
1 AGGGTTT
17053696 AGGGTTT
1 AGGGTTT
*
17053703 A-GGTAT
1 AGGGTTT
17053709 AGGGTTT
1 AGGGTTT
**
17053716 AAAGTTT
1 AGGGTTT
17053723 -GGGTTT
1 AGGGTTT
17053729 AGGGTTT
1 AGGGTTT
*
17053736 A-GGTAT
1 AGGGTTT
17053742 AGGGTTT
1 AGGGTTT
**
17053749 AAAGTTT
1 AGGGTTT
17053756 -GGGTTT
1 AGGGTTT
*
17053762 TGGGTT
1 AGGGTT
17053768 AGATTTAGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
5 4 0.05
6 18 0.23
7 56 0.72
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:17053700 original size:33 final size:33
Alignment explanation
Indices: 17053685--17053767 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
17053675 TTGGTTTAGG
17053685 GTTTAGGGTTTAGGGTTTAGGTATAGGGTTTAAA
1 GTTT-GGGTTTAGGGTTTAGGTATAGGGTTTAAA
17053719 GTTTGGGTTTAGGGTTTAGGTATAGGGTTTAAA
1 GTTTGGGTTTAGGGTTTAGGTATAGGGTTTAAA
*
17053752 GTTTGGGTTTTGGGTT
1 GTTTGGGTTTAGGGTT
17053768 AGATTTAGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 44 0.92
34 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (33 bp):
GTTTGGGTTTAGGGTTTAGGTATAGGGTTTAAA
Found at i:17053755 original size:20 final size:20
Alignment explanation
Indices: 17053602--17053736 Score: 77
Period size: 20 Copynumber: 7.0 Consensus size: 20
17053592 TAGAGTATGG
*
17053602 AGTTTAGGTTTAGGGTTT-G
1 AGTTTAGGTTTAGGGTTTAA
*
17053621 A-TTT-GGCTTAGGGTTTAA
1 AGTTTAGGTTTAGGGTTTAA
* ** *
17053639 GGTTTGAGGTTTAAAG-TTAG
1 AGTTT-AGGTTTAGGGTTTAA
* *
17053659 AG-TCAGGGTTTAGTGTTT--
1 AGTTTA-GGTTTAGGGTTTAA
* *
17053677 GGTTTAGGGTTTAGGGTTTAG
1 AGTTTA-GGTTTAGGGTTTAA
* *
17053698 GGTTTAGGTATAGGGTTTAA
1 AGTTTAGGTTTAGGGTTTAA
*
17053718 AGTTTGGGTTTAGGGTTTA
1 AGTTTAGGTTTAGGGTTTA
17053737 GGTATAGGGT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
17 11 0.12
18 5 0.06
19 26 0.30
20 34 0.39
21 12 0.14
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (20 bp):
AGTTTAGGTTTAGGGTTTAA
Found at i:17053766 original size:20 final size:20
Alignment explanation
Indices: 17053720--17053767 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
17053710 GGGTTTAAAG
**
17053720 TTTGGGTTTAGGGTTTAGGT
1 TTTGGGTTTAAAGTTTAGGT
* * *
17053740 ATAGGGTTTAAAGTTTGGGT
1 TTTGGGTTTAAAGTTTAGGT
17053760 TTTGGGTT
1 TTTGGGTT
17053768 AGATTTAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
TTTGGGTTTAAAGTTTAGGT
Found at i:17058207 original size:40 final size:41
Alignment explanation
Indices: 17058151--17058239 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 41
17058141 CAATCTTTTT
*
17058151 TTTTTACTGCAATAATAAACAGTGAAATTGGCATTTTAATG
1 TTTTTAGTGCAATAATAAACAGTGAAATTGGCATTTTAATG
* * *
17058192 TTTTTAGT-CAATAATAAATATTGAAATTGGCATTTTAGTG
1 TTTTTAGTGCAATAATAAACAGTGAAATTGGCATTTTAATG
17058232 TTTTTAGT
1 TTTTTAGT
17058240 AAAAAATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 37 0.84
41 7 0.16
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.45
Consensus pattern (41 bp):
TTTTTAGTGCAATAATAAACAGTGAAATTGGCATTTTAATG
Found at i:17059526 original size:2 final size:2
Alignment explanation
Indices: 17059521--17059545 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17059511 TATATATATA
17059521 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
17059546 ATTCAATATA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17059847 original size:17 final size:17
Alignment explanation
Indices: 17059821--17059854 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17059811 GATCAATTTT
17059821 GCATTATCAAT-ATAAA
1 GCATTATCAATAATAAA
17059837 GCATATATCAATAATAAA
1 GCAT-TATCAATAATAAA
17059855 AAATTAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
GCATTATCAATAATAAA
Found at i:17062991 original size:16 final size:17
Alignment explanation
Indices: 17062951--17062995 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
17062941 CAATTAATTG
*
17062951 AGTTCATGAGTATTATA
1 AGTTCATGAATATTATA
* *
17062968 AATTCATGAATA-TCTA
1 AGTTCATGAATATTATA
17062984 AGTTCATGAATA
1 AGTTCATGAATA
17062996 GTCAAAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (17 bp):
AGTTCATGAATATTATA
Found at i:17064114 original size:18 final size:18
Alignment explanation
Indices: 17064080--17064114 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17064070 GAAAATCATC
**
17064080 TATCAAATAAGGTGTTTT
1 TATCAAATAAGCCGTTTT
17064098 TATCAAATAAGCCGTTT
1 TATCAAATAAGCCGTTT
17064115 GCAAAAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TATCAAATAAGCCGTTTT
Found at i:17064283 original size:110 final size:110
Alignment explanation
Indices: 17064145--17064406 Score: 259
Period size: 110 Copynumber: 2.4 Consensus size: 110
17064135 TTGAATGGGC
* * *
17064145 TTTGTAAATATGTTGGAAAAAACATCAAATAA-AGCATTTTGTTCAAAAAA-ATA-CCTTATTTG
1 TTTGTAAAAATTTTAGAAAAAACATCAAATAAGA-CA-TTTG-T-AAAAAAGATAGCCTTATTTG
* * *
17064207 AAT-AGGTCAAATAAGG-AGTTTGTT-CAAAGAAACGTCTTATTTGATACT
62 AATGA-GTCAAATAAGGCA-TTTGTTAAAAAAAAACGCCTTATTTGATACT
* * * *
17064255 TTTGTAAAGATTTTAGAAAAAATATCAAATAAGACATTTGTAAAAAAGATATGCTTTCTTTGAAT
1 TTTGTAAAAATTTTAGAAAAAACATCAAATAAGACATTTGTAAAAAAGATA-GCCTTATTTGAAT
*
17064320 GAGTCAAATAAGGCATTTGTTAAAAAAAAAAATGCCTTATTTGATACT
65 GAGTCAAATAAGGCATTTGTT--AAAAAAAAACGCCTTATTTGATACT
* * *
17064368 TTTGCAAAAATTTT-GAGAAAAGCATCAAATAAGTCATTT
1 TTTGTAAAAATTTTAGA-AAAAACATCAAATAAGACATTT
17064407 ATTCAAAGGA
Statistics
Matches: 127, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
107 6 0.05
108 4 0.03
109 4 0.03
110 57 0.45
111 3 0.02
112 2 0.02
113 51 0.40
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (110 bp):
TTTGTAAAAATTTTAGAAAAAACATCAAATAAGACATTTGTAAAAAAGATAGCCTTATTTGAATG
AGTCAAATAAGGCATTTGTTAAAAAAAAACGCCTTATTTGATACT
Found at i:17065421 original size:20 final size:20
Alignment explanation
Indices: 17065396--17065436 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17065386 TTAGACAAAT
17065396 TGATAGTTATTCAATTGGCA
1 TGATAGTTATTCAATTGGCA
17065416 TGATAGTTATTCAATTGGCA
1 TGATAGTTATTCAATTGGCA
17065436 T
1 T
17065437 ATTCTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (20 bp):
TGATAGTTATTCAATTGGCA
Found at i:17066588 original size:22 final size:23
Alignment explanation
Indices: 17066528--17066588 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
17066518 TATACCGGAC
* *
17066528 AAAATTTAGAGAAAAATTTTTAGG
1 AAAATTTA-ATAAAATTTTTTAGG
* *
17066552 TAAATTTTATAAAATTTTTTA-G
1 AAAATTTAATAAAATTTTTTAGG
*
17066574 AAAATTTAATTAAAT
1 AAAATTTAATAAAAT
17066589 AAATACTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 13 0.43
23 11 0.37
24 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
AAAATTTAATAAAATTTTTTAGG
Found at i:17066598 original size:27 final size:27
Alignment explanation
Indices: 17066568--17066619 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17066558 TTATAAAATT
* *
17066568 TTTTAGAAAAT-TTAATTAAATAAATAC
1 TTTTAAAAAATCTAAATT-AATAAATAC
17066595 TTTTAAAAAATCTAAATTAATAAAT
1 TTTTAAAAAATCTAAATTAATAAAT
17066620 TAATAGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTTAAAAAATCTAAATTAATAAATAC
Found at i:17066729 original size:25 final size:25
Alignment explanation
Indices: 17066701--17066754 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17066691 ATTGATATTT
* *
17066701 ATTTTATAGTAAAAAT-TCTATTAAA
1 ATTTT-TAGTAAAAATATATATCAAA
*
17066726 ATTTTTATTAAAAATATATATCAAA
1 ATTTTTAGTAAAAATATATATCAAA
17066751 ATTT
1 ATTT
17066755 ATTAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTTTTAGTAAAAATATATATCAAA
Found at i:17066772 original size:11 final size:12
Alignment explanation
Indices: 17066710--17066772 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
17066700 TATTTTATAG
17066710 TAAAA-ATTCTAT
1 TAAAATATT-TAT
*
17066722 TAAAATTTTTAT
1 TAAAATATTTAT
*
17066734 TAAAA-ATATAT
1 TAAAATATTTAT
*
17066745 ATCAAA-ATTTAT
1 -TAAAATATTTAT
17066757 TAAAATATTT-T
1 TAAAATATTTAT
17066768 TAAAA
1 TAAAA
17066773 CTTACATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 14 0.33
12 26 0.62
13 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAATATTTAT
Found at i:17067067 original size:2 final size:2
Alignment explanation
Indices: 17067060--17067089 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17067050 TCCTAGTGCA
17067060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17067090 TAGAGCAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17067970 original size:27 final size:27
Alignment explanation
Indices: 17067932--17067985 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17067922 TTAATTTTGC
17067932 ATGTCTTGTTGTCACCTACTATACATT
1 ATGTCTTGTTGTCACCTACTATACATT
17067959 ATGTCTTGTTGTCACCTACTATACATT
1 ATGTCTTGTTGTCACCTACTATACATT
17067986 CCTAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (27 bp):
ATGTCTTGTTGTCACCTACTATACATT
Found at i:17081353 original size:3 final size:3
Alignment explanation
Indices: 17081345--17081431 Score: 89
Period size: 3 Copynumber: 31.3 Consensus size: 3
17081335 AAATAACAAG
*
17081345 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAG AA- AA- AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17081389 AAT AAT AAC AAC AAT AAT AAT AAA AAT -AT AAT -AT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17081432 TAAAATGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
2 14 0.19
3 60 0.81
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:17089292 original size:16 final size:16
Alignment explanation
Indices: 17089252--17089295 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
17089242 ATTGGTTCAA
* **
17089252 AACAATTGCTATCTTT
1 AACAATTGGTATCCAT
17089268 AACAATTGGTATCCAT
1 AACAATTGGTATCCAT
17089284 AACAATTGGTAT
1 AACAATTGGTAT
17089296 GAGCTTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (16 bp):
AACAATTGGTATCCAT
Found at i:17089958 original size:27 final size:27
Alignment explanation
Indices: 17089927--17089979 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17089917 TTGGATTAAG
*
17089927 ATGCATAAATTGAGGGGGAGTTTTGCC
1 ATGCATAAATTAAGGGGGAGTTTTGCC
***
17089954 ATGCATTGTTTAAGGGGGAGTTTTGC
1 ATGCATAAATTAAGGGGGAGTTTTGC
17089980 AAAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (27 bp):
ATGCATAAATTAAGGGGGAGTTTTGCC
Found at i:17100838 original size:16 final size:16
Alignment explanation
Indices: 17100798--17100841 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
17100788 ATTGGTTCAA
* **
17100798 AACAATTGCTATCTTT
1 AACAATTGGTATCCAT
17100814 AACAATTGGTATCCAT
1 AACAATTGGTATCCAT
17100830 AACAATTGGTAT
1 AACAATTGGTAT
17100842 GAGCTTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (16 bp):
AACAATTGGTATCCAT
Found at i:17101503 original size:27 final size:27
Alignment explanation
Indices: 17101472--17101524 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17101462 TTGGATTAAG
*
17101472 ATGCATAAATTGAGGGGGAGTTTTGCC
1 ATGCATAAATTAAGGGGGAGTTTTGCC
***
17101499 ATGCATTGTTTAAGGGGGAGTTTTGC
1 ATGCATAAATTAAGGGGGAGTTTTGC
17101525 AAAATGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (27 bp):
ATGCATAAATTAAGGGGGAGTTTTGCC
Found at i:17103508 original size:22 final size:21
Alignment explanation
Indices: 17103488--17103529 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17103478 TTTTTATATT
17103488 TAGTTGAAAATTT-CATGATA
1 TAGTTGAAAATTTACATGATA
*
17103508 TAGTTGATAATTTAGCATGATA
1 TAGTTGAAAATTTA-CATGATA
17103530 AGTAGTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
22 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TAGTTGAAAATTTACATGATA
Found at i:17107320 original size:20 final size:20
Alignment explanation
Indices: 17107295--17107337 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17107285 ACAAACAAAC
*
17107295 CCTAAACGAAT-ATAAATTAA
1 CCTAAAC-AATCATAAATGAA
17107315 CCTAAACAATCATAAATGAA
1 CCTAAACAATCATAAATGAA
17107335 CCT
1 CCT
17107338 TAAAATAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (20 bp):
CCTAAACAATCATAAATGAA
Found at i:17109307 original size:16 final size:18
Alignment explanation
Indices: 17109270--17109308 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
17109260 ATTTTTTTTG
17109270 TTTTTATGTATTTCTATT
1 TTTTTATGTATTTCTATT
17109288 TTTTTAT-T-TTTCTATT
1 TTTTTATGTATTTCTATT
17109304 TTTTT
1 TTTTT
17109309 TCACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATGTATTTCTATT
Found at i:17109780 original size:17 final size:18
Alignment explanation
Indices: 17109758--17109796 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
17109748 TAGTCTCTCA
17109758 TTAAAGTTCATT-TTTTT
1 TTAAAGTTCATTCTTTTT
17109775 TTAAAGTTCATTCTTTTT
1 TTAAAGTTCATTCTTTTT
17109793 TTAA
1 TTAA
17109797 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (18 bp):
TTAAAGTTCATTCTTTTT
Found at i:17111210 original size:20 final size:20
Alignment explanation
Indices: 17111182--17111254 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
17111172 TACATGGTAT
*
17111182 TTATTTTTGCATGATTAATA
1 TTATATTTGCATGATTAATA
17111202 TTATATTTGCATGA-T-A-A
1 TTATATTTGCATGATTAATA
*
17111219 TT-TATTTGC----CTAATA
1 TTATATTTGCATGATTAATA
*
17111234 TTTTATTTGCATGATTAATA
1 TTATATTTGCATGATTAATA
17111254 T
1 T
17111255 ATTTATATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 3 0.07
16 14 0.33
17 3 0.07
18 1 0.02
19 1 0.02
20 19 0.44
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (20 bp):
TTATATTTGCATGATTAATA
Found at i:17111226 original size:16 final size:16
Alignment explanation
Indices: 17111205--17111258 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
17111195 ATTAATATTA
17111205 TATTTGCATGATAATT
1 TATTTGCATGATAATT
* * *
17111221 TATTTGCCTAATATTT
1 TATTTGCATGATAATT
*
17111237 TATTTGCATGATTAATA
1 TATTTGCATGA-TAATT
17111254 TATTT
1 TATTT
17111259 ATATGAATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (16 bp):
TATTTGCATGATAATT
Done.