Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008890.1 Hibiscus syriacus cultivar Beakdansim tig00112155_pilon, 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: 142419
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:4611 original size:21 final size:21
Alignment explanation
Indices: 4585--4624 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4575 CCCCCTTTGA
*
4585 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4606 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4625 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:10997 original size:19 final size:18
Alignment explanation
Indices: 10973--11015 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
10963 CTCCTCGGAT
10973 TCAAAC-TTAAAAAAGATAA
1 TCAAACATTAAAAAA-A-AA
10992 TCAAACATTTAAAAAAAAA
1 TCAAACA-TTAAAAAAAAA
11011 TCAAA
1 TCAAA
11016 GGAACTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (18 bp):
TCAAACATTAAAAAAAAA
Found at i:11963 original size:24 final size:24
Alignment explanation
Indices: 11937--12012 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
11927 AGTTCGATTG
*
11937 AAGCCTAAAATTTGAGCTCAATTG
1 AAGCCTAAAATTTGAGCTCAATTA
11961 AAGCCTAAAATTTGAGCTCAATTA
1 AAGCCTAAAATTTGAGCTCAATTA
11985 AAGCCTAAAATTTGAGCTCAATTA
1 AAGCCTAAAATTTGAGCTCAATTA
12009 AAGC
1 AAGC
12013 GAAAGAATAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (24 bp):
AAGCCTAAAATTTGAGCTCAATTA
Found at i:15345 original size:21 final size:21
Alignment explanation
Indices: 15321--15386 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
15311 TATCGCAAAT
15321 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
15342 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
15362 TCGCGTTGCAATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
15383 TCGC
1 TCGC
15387 AACGCGATTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:15367 original size:20 final size:20
Alignment explanation
Indices: 15342--15434 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
15332 TAGTTGAAAA
15342 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
15362 TCGCGTTGCAATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*** *
15383 TCGCAACGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
15403 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
15423 TCGCGTTGCGAT
1 TCGCGTTGCGAT
15435 AGTCTATAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 2
0.72 0.26 0.03
Matches are distributed among these distances:
20 42 0.79
21 11 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:15377 original size:41 final size:41
Alignment explanation
Indices: 15320--15411 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
15310 CTATCGCAAA
* ***
15320 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT
*
15361 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTTCAT
1 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT
15402 TTCGCGTTGC
1 TTCGCGTTGC
15412 GATTTTCCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT
Found at i:15545 original size:6 final size:6
Alignment explanation
Indices: 15534--15573 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
15524 GTGTCGAAGA
15534 CACGAC CACGAC CACGAC CACGAC C-CGAC C-CGAC C-CGAC C
1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC C
15574 CGAGACGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.28, C:0.55, G:0.17, T:0.00
Consensus pattern (6 bp):
CACGAC
Found at i:15564 original size:5 final size:5
Alignment explanation
Indices: 15536--15576 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
15526 GTCGAAGACA
15536 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
15577 GACGGACGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.27, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:16073 original size:6 final size:6
Alignment explanation
Indices: 16064--16090 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16054 GTCCGTCTCG
16064 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
16091 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:16218 original size:22 final size:22
Alignment explanation
Indices: 16191--16243 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
16181 AATTCGGAAA
16191 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
16213 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
16235 ATCGCAACG
1 ATCGCAACG
16244 CGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:17495 original size:24 final size:20
Alignment explanation
Indices: 17438--17514 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
17428 TTCCCCTTGA
*
17438 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
17458 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
17481 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
17502 A-TGCATCGATGCA
1 AGTGCATCGATGCA
17515 CTAATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:20321 original size:26 final size:26
Alignment explanation
Indices: 20285--20343 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
20275 TAGAAGAATG
20285 TAAACCTTGTCGATTGAAAAATACAA
1 TAAACCTTGTCGATTGAAAAATACAA
20311 TAAACCTTGTCGATTGAAAAATACAA
1 TAAACCTTGTCGATTGAAAAATACAA
*
20337 AAAACCT
1 TAAACCT
20344 CCCAGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (26 bp):
TAAACCTTGTCGATTGAAAAATACAA
Found at i:23880 original size:13 final size:13
Alignment explanation
Indices: 23862--23888 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23852 AAGATGAGAT
23862 GAGGCTGGAAAAA
1 GAGGCTGGAAAAA
23875 GAGGCTGGAAAAA
1 GAGGCTGGAAAAA
23888 G
1 G
23889 TTTGAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (13 bp):
GAGGCTGGAAAAA
Found at i:26263 original size:5 final size:5
Alignment explanation
Indices: 26253--26279 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26243 TCATATTATC
26253 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
26280 TGTCCATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:28227 original size:3 final size:3
Alignment explanation
Indices: 28221--28254 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
28211 CAATACTGGA
28221 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
28255 GAAAACTCAC
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:29902 original size:17 final size:17
Alignment explanation
Indices: 29880--29922 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
29870 AATATGTATT
29880 TAATTATTTGATTTATA
1 TAATTATTTGATTTATA
29897 TAATTATTTGATTTATA
1 TAATTATTTGATTTATA
29914 TAATTATTT
1 TAATTATTT
29923 AATTAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TAATTATTTGATTTATA
Found at i:30086 original size:27 final size:29
Alignment explanation
Indices: 30056--30109 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
30046 TAGTAATAAA
*
30056 ATAAATATAAATTTTAA-A-TTATTTATG
1 ATAAAAATAAATTTTAATAGTTATTTATG
*
30083 ATAAAAATAATTTTTAATAGTTATTTA
1 ATAAAAATAAATTTTAATAGTTATTTA
30110 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
28 1 0.04
29 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
ATAAAAATAAATTTTAATAGTTATTTATG
Found at i:31326 original size:23 final size:23
Alignment explanation
Indices: 31278--31326 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
31268 AACGTGCCAC
* * *
31278 AAAACATAGATAAACGTGTAATA
1 AAAACAAAGATAAACATGTAACA
*
31301 AAAACAAAGATAAACATGTTACA
1 AAAACAAAGATAAACATGTAACA
31324 AAA
1 AAA
31327 TATATTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (23 bp):
AAAACAAAGATAAACATGTAACA
Found at i:35125 original size:30 final size:30
Alignment explanation
Indices: 35091--35165 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
35081 AACGTAAGAA
*
35091 ATGTTCTTGGTGTTTTTCTAAGTTCAAGCG
1 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG
35121 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG
1 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG
*
35151 ATGTACTTGGTGTTC
1 ATGTTCTTGGTGTTC
35166 CTCAAAAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (30 bp):
ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG
Found at i:42566 original size:24 final size:23
Alignment explanation
Indices: 42539--42589 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
42529 TTTTGTAGGG
*
42539 TATTGTTTTGGTAAATTTTTTAAT
1 TATTGTTTTAGTAAA-TTTTTAAT
* *
42563 TATTGTTTTATTGAATTTTTAAT
1 TATTGTTTTAGTAAATTTTTAAT
42586 TATT
1 TATT
42590 AAAAGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (23 bp):
TATTGTTTTAGTAAATTTTTAAT
Found at i:42902 original size:49 final size:50
Alignment explanation
Indices: 42856--42952 Score: 128
Period size: 54 Copynumber: 1.9 Consensus size: 50
42846 TATTTTATAA
42856 TTTTT-TAATAATTAA-AA-GATTCAACAAAATAATATTATATAATTTAT
1 TTTTTATAATAATTAATAAGGATTCAACAAAATAATATTATATAATTTAT
*
42903 TTTTTAATAATATTTAATAATCGGGATTCAACAAAATAATATTATATAAT
1 TTTTT-ATAATAATTAATAA---GGATTCAACAAAATAATATTATATAAT
42953 CGAGAGAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
47 5 0.12
49 9 0.21
50 2 0.05
54 26 0.62
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (50 bp):
TTTTTATAATAATTAATAAGGATTCAACAAAATAATATTATATAATTTAT
Found at i:43661 original size:2 final size:2
Alignment explanation
Indices: 43654--43700 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
43644 ATGAAAATTA
43654 AT AT AT AT AT AT 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 AT AT AT AT AT AT
43696 A- AT AT
1 AT AT AT
43701 CTTTATGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44509 original size:3 final size:3
Alignment explanation
Indices: 44501--44528 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44491 GACTTTCAAG
44501 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44529 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:45562 original size:16 final size:16
Alignment explanation
Indices: 45541--45574 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45531 TTACTATTCA
*
45541 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
45557 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
45573 CG
1 CG
45575 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:57080 original size:31 final size:31
Alignment explanation
Indices: 57045--57105 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
57035 TCACGAGCCT
* * *
57045 AAAATTTTCAAGCTCGATTCGAACTCGAAAG
1 AAAATATTCAAACTCGACTCGAACTCGAAAG
* *
57076 AAAATATTGAAACTTGACTCGAACTCGAAA
1 AAAATATTCAAACTCGACTCGAACTCGAAA
57106 AGGCTCAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (31 bp):
AAAATATTCAAACTCGACTCGAACTCGAAAG
Found at i:58341 original size:14 final size:14
Alignment explanation
Indices: 58324--58362 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
58314 AGATTTAGGG
*
58324 TTTATGGTTTATGA
1 TTTATGGTTTATAA
*
58338 TTTATAGTTTATAA
1 TTTATGGTTTATAA
*
58352 TTTAGGGTTTA
1 TTTATGGTTTA
58363 GGGTGTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (14 bp):
TTTATGGTTTATAA
Found at i:58492 original size:13 final size:13
Alignment explanation
Indices: 58469--58506 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
58459 GAGTTTATAA
58469 TTTATGATTTAGGG
1 TTTA-GATTTAGGG
58483 TTTAGATTTAGGG
1 TTTAGATTTAGGG
58496 TTTAGAATTTA
1 TTTAG-ATTTA
58507 TAATTTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (13 bp):
TTTAGATTTAGGG
Found at i:58514 original size:21 final size:21
Alignment explanation
Indices: 58494--58549 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
58484 TTAGATTTAG
*
58494 GGTTTAGAATTTATAATTTAG
1 GGTTTAGAATTTAGAATTTAG
* * *
58515 GGTTTATAGTTTAGGATTTAG
1 GGTTTAGAATTTAGAATTTAG
*
58536 GGTTTA-AGTTTAGA
1 GGTTTAGAATTTAGA
58550 GTGTAATCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (21 bp):
GGTTTAGAATTTAGAATTTAG
Found at i:58540 original size:14 final size:14
Alignment explanation
Indices: 58469--58541 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 14
58459 GAGTTTATAA
*
58469 TTTATGATTTAGGG
1 TTTAGGATTTAGGG
58483 TTTA-GATTTAGGG
1 TTTAGGATTTAGGG
* ***
58496 TTTAGAATTTATAA
1 TTTAGGATTTAGGG
* **
58510 TTTAGGGTTTATAG
1 TTTAGGATTTAGGG
58524 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
58538 TTTA
1 TTTA
58542 AGTTTAGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
13 13 0.27
14 35 0.73
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:58548 original size:55 final size:55
Alignment explanation
Indices: 58432--58541 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
58422 CACATAATTG
* ** * *
58432 GATTAAGGGTTTAGGGTTTATGACTTAGAGTTTATAATTTATGATTTAGGGTTTA
1 GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA
* * *
58487 GATTTAGGGTTTAGAATTTATAATTTAGGGTTTATAGTTTAGGATTTAGGGTTTA
1 GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA
58542 AGTTTAGAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.46
Consensus pattern (55 bp):
GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA
Found at i:59789 original size:42 final size:41
Alignment explanation
Indices: 59742--59831 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 41
59732 CCACTAGGGG
*
59742 CACTGAATATTTGTCCCGAATGACCAC-TATGTCCCGAAGGAC
1 CACTGAATA--TGTCCCGAAGGACCACATATGTCCCGAAGGAC
*
59784 CACTG-ATATGTCCCGAAGGACCACAGATATGTCTCGAAGGAC
1 CACTGAATATGTCCCGAAGGACCAC--ATATGTCCCGAAGGAC
59826 CACTGA
1 CACTGA
59832 TAATCCCTCG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
39 15 0.36
41 3 0.07
42 24 0.57
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
CACTGAATATGTCCCGAAGGACCACATATGTCCCGAAGGAC
Found at i:59795 original size:21 final size:21
Alignment explanation
Indices: 59753--59833 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
59743 ACTGAATATT
*
59753 TGTCCCGAATGACCAC---TA
1 TGTCCCGAAGGACCACTGATA
59771 TGTCCCGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTGATA
*
59792 TGTCCCGAAGGACCACAGATA
1 TGTCCCGAAGGACCACTGATA
*
59813 TGTCTCGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTGATA
59834 ATCCCTCGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
18 15 0.27
21 41 0.73
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATA
Found at i:61417 original size:24 final size:20
Alignment explanation
Indices: 61360--61417 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
61350 TTCCCTTTGA
*
61360 AGTGCATCGATGCATTTTAC
1 AGTGCATCGATGCATTTAAC
*
61380 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT---TTAAC
61403 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
61418 CTACCCCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
23 5 0.16
24 12 0.39
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTTAAC
Found at i:61516 original size:18 final size:19
Alignment explanation
Indices: 61477--61516 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61467 AGGTGTATCA
61477 ATGCACTCCCTATGCATCG
1 ATGCACTCCCTATGCATCG
61496 ATGCACT-CCT-TGCATTCG
1 ATGCACTCCCTATGCA-TCG
61514 ATG
1 ATG
61517 TTCATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (19 bp):
ATGCACTCCCTATGCATCG
Found at i:61719 original size:17 final size:17
Alignment explanation
Indices: 61697--61735 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
61687 ATAACACTTT
61697 ACCATCTCCCATAATTC
1 ACCATCTCCCATAATTC
61714 ACCATCTCCCATAATTC
1 ACCATCTCCCATAATTC
61731 ACCAT
1 ACCAT
61736 AATTCTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (17 bp):
ACCATCTCCCATAATTC
Found at i:64974 original size:18 final size:18
Alignment explanation
Indices: 64951--65022 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
64941 TGAATATTTG
*
64951 TCCCGAATGACCATTATA
1 TCCCGAATGACCACTATA
64969 TCCCGAATGACCACTATA
1 TCCCGAATGACCACTATA
*
64987 TCCCGAAGGACCACTGATA
1 TCCCGAATGACCACT-ATA
*
65006 TGTCCCGAAGGACCACT
1 --TCCCGAATGACCACT
65023 GATAATCCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
18 31 0.63
19 3 0.06
21 15 0.31
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (18 bp):
TCCCGAATGACCACTATA
Found at i:75454 original size:13 final size:13
Alignment explanation
Indices: 75435--75471 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
75425 AACCCGACCC
*
75435 GACCCGACTCGTT
1 GACCCGACCCGTT
*
75448 TACCCGACCCGTT
1 GACCCGACCCGTT
75461 GACCCGACCCG
1 GACCCGACCCG
75472 ACACGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:75454 original size:18 final size:17
Alignment explanation
Indices: 75430--75500 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 17
75420 GTCATAACCC
75430 GACCCGACCCGACTCGTT
1 GACCCGACCCGAC-CGTT
*
75448 TACCCGA--C--CCGTT
1 GACCCGACCCGACCGTT
75461 GACCCGACCCGACACGTT
1 GACCCGACCCGAC-CGTT
75479 GACCCGACCCGACCCGTT
1 GACCCGACCCGA-CCGTT
75497 GACC
1 GACC
75501 GTTAACCCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
13 10 0.22
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 30 0.67
19 1 0.02
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:75465 original size:31 final size:31
Alignment explanation
Indices: 75430--75489 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
75420 GTCATAACCC
* *
75430 GACCCGACCCGACTCGTTTACCCGACCCGTT
1 GACCCGACCCGACACGTTGACCCGACCCGTT
75461 GACCCGACCCGACACGTTGACCCGACCCG
1 GACCCGACCCGACACGTTGACCCGACCCG
75490 ACCCGTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.13
Consensus pattern (31 bp):
GACCCGACCCGACACGTTGACCCGACCCGTT
Found at i:78026 original size:24 final size:24
Alignment explanation
Indices: 77999--78089 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
77989 TCAAATTTGA
* *
77999 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
78023 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
78046 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
78070 ATTCTGATATAATACTTGAC
1 ATTCTGATATGATACTTGAC
78090 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:78213 original size:35 final size:35
Alignment explanation
Indices: 78166--78240 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
78156 TGGAGGAAGA
*
78166 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC
*
78201 TTACTTGTAGGCTCCTCGGCTTTGTGCTCAAGGCC
1 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC
78236 TTACT
1 TTACT
78241 GTTCGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.11, C:0.28, G:0.27, T:0.35
Consensus pattern (35 bp):
TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC
Found at i:79532 original size:8 final size:8
Alignment explanation
Indices: 79519--79558 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
79509 TCGTTTACCC
79519 GACCCGTT
1 GACCCGTT
79527 GACCC---
1 GACCCGTT
79532 GACCCGTT
1 GACCCGTT
79540 GA-CCGTT
1 GACCCGTT
79547 GACCCGTT
1 GACCCGTT
79555 GACC
1 GACC
79559 AATGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:79552 original size:15 final size:13
Alignment explanation
Indices: 79510--79558 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
79500 CGACCCAACT
*
79510 CGTTTACCCGACC
1 CGTTGACCCGACC
79523 CGTTGACCCGACC
1 CGTTGACCCGACC
*
79536 CGTTGACCGTTGACC
1 CGTTGACC--CGACC
79551 CGTTGACC
1 CGTTGACC
79559 AATGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 20 0.62
15 12 0.38
ACGTcount: A:0.14, C:0.41, G:0.22, T:0.22
Consensus pattern (13 bp):
CGTTGACCCGACC
Found at i:79883 original size:17 final size:17
Alignment explanation
Indices: 79861--79895 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
79851 ACCCGATTCG
79861 ATCAGTTTATCGTAATT
1 ATCAGTTTATCGTAATT
79878 ATCAGTTTATCGTAATT
1 ATCAGTTTATCGTAATT
79895 A
1 A
79896 AGCTCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (17 bp):
ATCAGTTTATCGTAATT
Found at i:82077 original size:24 final size:24
Alignment explanation
Indices: 82050--82140 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
82040 TCAAATTTGA
* *
82050 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
82074 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
*
82097 ATTCTGATATGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
82121 ATTCTGATATAATACTTGAC
1 ATTCTGATATGATACTTGAC
82141 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 20 0.35
24 37 0.65
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:82265 original size:35 final size:35
Alignment explanation
Indices: 82218--82292 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
82208 TGGAGGAAGA
* *
82218 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
82253 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
82288 TTACT
1 TTACT
82293 GTTCGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
Found at i:84553 original size:6 final size:6
Alignment explanation
Indices: 84538--84623 Score: 86
Period size: 6 Copynumber: 14.5 Consensus size: 6
84528 GTTGTATATG
* * * *
84538 TAATAA -AATAA TAATAT TAATAT TAATAA TAAAAA TAAAAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * *
84585 TAATAA TAGTAA TAAAAA TAAAAA TAATAA -ATATAA TAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TA-ATAA TAA
84624 AAACCAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
5 6 0.09
6 62 0.90
7 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (6 bp):
TAATAA
Found at i:84567 original size:9 final size:9
Alignment explanation
Indices: 84538--84623 Score: 86
Period size: 9 Copynumber: 9.7 Consensus size: 9
84528 GTTGTATATG
84538 TAATAA-AA
1 TAATAATAA
*
84546 TAATAATAT
1 TAATAATAA
*
84555 TAATATTAA
1 TAATAATAA
*
84564 TAATAAAAA
1 TAATAATAA
*
84573 TAAAAATAA
1 TAATAATAA
84582 TAATAATAA
1 TAATAATAA
*
84591 TAGTAATAA
1 TAATAATAA
* *
84600 AAATAAAAA
1 TAATAATAA
84609 TAATAA-ATA
1 TAATAATA-A
84618 TAATAA
1 TAATAA
84624 AAACCAAATG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
8 7 0.11
9 56 0.89
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (9 bp):
TAATAATAA
Found at i:84574 original size:15 final size:15
Alignment explanation
Indices: 84544--84623 Score: 88
Period size: 15 Copynumber: 5.3 Consensus size: 15
84534 TATGTAATAA
**
84544 AATAATAATATTAAT
1 AATAATAATAAAAAT
*
84559 ATTAATAATAAAAAT
1 AATAATAATAAAAAT
* *
84574 AAAAATAATAATAAT
1 AATAATAATAAAAAT
*
84589 AATAGTAATAAAAAT
1 AATAATAATAAAAAT
* *
84604 AAAAATAATAAATAT
1 AATAATAATAAAAAT
84619 AATAA
1 AATAA
84624 AAACCAAATG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
AATAATAATAAAAAT
Found at i:84583 original size:30 final size:30
Alignment explanation
Indices: 84547--84623 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
84537 GTAATAAAAT
* *
84547 AATAATATTAATATTAATAATAAAAATAAA
1 AATAATAATAATAATAATAATAAAAATAAA
*
84577 AATAATAATAATAATAGTAATAAAAATAAA
1 AATAATAATAATAATAATAATAAAAATAAA
84607 AATAATAA-ATATAATAA
1 AATAATAATA-ATAATAA
84624 AAACCAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (30 bp):
AATAATAATAATAATAATAATAAAAATAAA
Found at i:89493 original size:21 final size:21
Alignment explanation
Indices: 89467--89678 Score: 179
Period size: 21 Copynumber: 10.1 Consensus size: 21
89457 CATATTCGCA
89467 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
*
89488 TTGCGATTTATTTCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* *
89509 TTGCGA--TAGTCCAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
*
89530 TTGCGATTTATTCCAAGTTCG
1 TTGCGATTTATTCCAAATTCG
* * *
89551 TTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
89572 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* *
89593 TTGCGA--TAGTCCAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
*
89614 TTGTGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* * *
89635 TTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
89656 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
89677 TT
1 TT
89679 TCTTAAGAAT
Statistics
Matches: 153, Mismatches: 22, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
19 34 0.22
21 84 0.55
23 35 0.23
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (21 bp):
TTGCGATTTATTCCAAATTCG
Found at i:89532 original size:42 final size:42
Alignment explanation
Indices: 89486--89678 Score: 341
Period size: 42 Copynumber: 4.6 Consensus size: 42
89476 ATTCCAAATT
*
89486 CGTTGCGATTTATTTCAAATTCGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
* *
89528 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
89570 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
* *
89612 CGTTGTGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
89654 CGTTGCGATTTATTCCAAATTCGTT
1 CGTTGCGATTTATTCCAAATTCGTT
89679 TCTTAAGAAT
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 143 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (42 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
Found at i:90257 original size:3 final size:3
Alignment explanation
Indices: 90249--90280 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
90239 GGGTCGGGTC
*
90249 GTG GTG GTG GTG GTG GTG GTG GTC GTG GTG GT
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GT
90281 CGTGAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.62, T:0.34
Consensus pattern (3 bp):
GTG
Found at i:90281 original size:9 final size:9
Alignment explanation
Indices: 90249--90284 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
90239 GGGTCGGGTC
*
90249 GTGGTGGTG
1 GTGGTCGTG
*
90258 GTGGTGGTG
1 GTGGTCGTG
90267 GTGGTCGTG
1 GTGGTCGTG
90276 GTGGTCGTG
1 GTGGTCGTG
90285 AATACCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.06, G:0.61, T:0.33
Consensus pattern (9 bp):
GTGGTCGTG
Found at i:90916 original size:21 final size:21
Alignment explanation
Indices: 90890--90934 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
90880 ATCTTCATTC
90890 AATGTCTAAAATTTTCATATA
1 AATGTCTAAAATTTTCATATA
90911 AATGTCTAAAATTTTCATATA
1 AATGTCTAAAATTTTCATATA
90932 AAT
1 AAT
90935 AAAATTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (21 bp):
AATGTCTAAAATTTTCATATA
Found at i:95027 original size:20 final size:21
Alignment explanation
Indices: 94988--95037 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
94978 TTCTCTAAAA
94988 TATAATATTATGAATATATTT
1 TATAATATTATGAATATATTT
* *
95009 TATAATTTTA-GATTATATTT
1 TATAATATTATGAATATATTT
*
95029 GAT-ATATTA
1 TATAATATTA
95038 AATAACATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
TATAATATTATGAATATATTT
Found at i:96734 original size:2 final size:2
Alignment explanation
Indices: 96729--96769 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
96719 TTTAATTGAA
*
96729 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AGT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A
96770 GACATTTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:97402 original size:17 final size:17
Alignment explanation
Indices: 97380--97416 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
97370 TTTCAAATGA
97380 TTTTTTCTTCCAATTTT
1 TTTTTTCTTCCAATTTT
97397 TTTTTTCTTCCAATTTT
1 TTTTTTCTTCCAATTTT
97414 TTT
1 TTT
97417 GGTTGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTCTTCCAATTTT
Found at i:102948 original size:23 final size:23
Alignment explanation
Indices: 102917--102971 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
102907 GTTGTTAATT
102917 GTTACGATGTTAATATGATATTTC
1 GTTA-GATGTTAATATGATATTTC
102941 GTTAGATGTTAATATGATATTTC
1 GTTAGATGTTAATATGATATTTC
102964 GTTA-ATGT
1 GTTAGATGT
102972 AGGGATTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 4 0.13
23 23 0.74
24 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (23 bp):
GTTAGATGTTAATATGATATTTC
Found at i:103114 original size:22 final size:23
Alignment explanation
Indices: 103086--103132 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
103076 TTTTTATTTT
*
103086 TTCTAAAATATATATAT-AAATA
1 TTCTAAAATATAAATATAAAATA
* *
103108 TTCTAAATTTTAAATATAAAATA
1 TTCTAAAATATAAATATAAAATA
103131 TT
1 TT
103133 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TTCTAAAATATAAATATAAAATA
Found at i:106357 original size:15 final size:15
Alignment explanation
Indices: 106337--106371 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
106327 TGCTCACCAT
106337 TCGAACAAACTTCAC
1 TCGAACAAACTTCAC
*
106352 TCGAACAAGCTTCAC
1 TCGAACAAACTTCAC
106367 TCGAA
1 TCGAA
106372 GAGCCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (15 bp):
TCGAACAAACTTCAC
Found at i:107117 original size:117 final size:116
Alignment explanation
Indices: 106978--107283 Score: 350
Period size: 117 Copynumber: 2.6 Consensus size: 116
106968 ACCTTTGCAC
* * * * *
106978 CGGAAACAC-TCAAGTTGCTCTCGCTTATTTACCCTCGGCTCT-TCAGCTTGGCC-CTTGGCTTT
1 CGGAAACACTTCAA-TGGCTCTCGCTTCTTTACCCTCGGCT-TAT-AGCTTCGCCAC-TCGCATT
** * * *
107040 CG-CACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCAT
62 -GTCACCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT
* *
107095 TGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTC
1 CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTCGCATTGTC
* * *
107160 ACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACAT
65 ACCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT
* * * *
107212 CGGAAATACTTCAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGC
1 CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTCGCATTGTC
107277 ACCGAGC
65 ACCGAGC
107284 TTTGCTTTGT
Statistics
Matches: 165, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
116 2 0.01
117 157 0.95
118 6 0.04
ACGTcount: A:0.16, C:0.33, G:0.20, T:0.32
Consensus pattern (116 bp):
CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTATAGCTTCGCCACTCGCATTGTCA
CCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT
Found at i:107290 original size:117 final size:117
Alignment explanation
Indices: 107041--107290 Score: 392
Period size: 117 Copynumber: 2.1 Consensus size: 117
107031 CTTGGCTTTC
* * * * *
107041 GCACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTT
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
107106 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
* ** * * *
107158 TCACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAATACTT
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
*
107223 CAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
107275 GCACCGAGCTTTGCTT
1 GCACCGAGCTTTGCTT
107291 TGTTTGGGCA
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (117 bp):
GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
Found at i:107340 original size:117 final size:116
Alignment explanation
Indices: 107060--107369 Score: 365
Period size: 117 Copynumber: 2.6 Consensus size: 116
107050 TTTACTTCGG
* * * *
107060 TGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTTCAATGGCTCTCGCTTCTTT
1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
*
107125 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTCACCGAGCCCTGCTTCAT
65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT
* *
107177 TGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAATACTTCAATGGCTCTCGCTTCTTT
1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
* ** **
107242 ATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCTTTGCTTTGTT
65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGC-TTCAT
* * * * * * * *
107295 TGG-GCAACTCTTGGC-CCTATGTG-CTCCTTGACATATGAAGCACTTCAGTGGATCTCGCTTGT
1 TGGTGCAA-TC-TCGCACCT-TGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCT
107357 TTACCCTCGGCTT
63 TTACCCTCGGCTT
107370 TCCTGCACCA
Statistics
Matches: 167, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
117 149 0.89
118 11 0.07
119 7 0.04
ACGTcount: A:0.15, C:0.31, G:0.20, T:0.34
Consensus pattern (116 bp):
TGGTGCAATCTCGCACCTTGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTTA
CCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT
Found at i:110636 original size:12 final size:12
Alignment explanation
Indices: 110619--110669 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
110609 TTTAAAGAGG
110619 TTTTATATTTAA
1 TTTTATATTTAA
110631 TTTTATA-TTATA
1 TTTTATATTTA-A
*
110643 TTTGAT-TTTAA
1 TTTTATATTTAA
110654 TTTTA-ATATTAA
1 TTTTATAT-TTAA
110666 TTTT
1 TTTT
110670 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:110673 original size:14 final size:14
Alignment explanation
Indices: 110654--110702 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
110644 TTGATTTTAA
110654 TTTTAATATTAATT
1 TTTTAATATTAATT
110668 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
110678 ATTAAATATTAATT
1 TTTTAATATTAATT
110692 TTTTAATATTA
1 TTTTAATATTA
110703 TATTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.15
11 1 0.04
12 6 0.22
13 1 0.04
14 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:110756 original size:21 final size:19
Alignment explanation
Indices: 110718--110763 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
110708 TAGATATTTA
*
110718 ATTTTATATCATATAAATT
1 ATTTTATATAATATAAATT
110737 ATTTTATATAATATTAAA--
1 ATTTTATATAATA-TAAATT
110755 ATTTTATAT
1 ATTTTATAT
110764 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATATAATATAAATT
Found at i:111286 original size:31 final size:31
Alignment explanation
Indices: 111249--111308 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
111239 TAGCTGTATT
* *
111249 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
*
111280 AATTATTTAAGTCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
111309 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:113243 original size:18 final size:18
Alignment explanation
Indices: 113212--113250 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
113202 GTCCCAAAGG
* *
113212 ACTATTTCCTGAAGGACC
1 ACTATATCCCGAAGGACC
113230 ACTATATCCCGAAGGACC
1 ACTATATCCCGAAGGACC
113248 ACT
1 ACT
113251 CCTTAAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (18 bp):
ACTATATCCCGAAGGACC
Found at i:117834 original size:32 final size:32
Alignment explanation
Indices: 117798--117879 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
117788 AATTGTTACA
*
117798 CATTATCTAAATGTGACACTAACGCTCATATG
1 CATTATCTAAATGTAACACTAACGCTCATATG
* * * * *
117830 CATTATCTGAATGTAACATTGACTCTGATATG
1 CATTATCTAAATGTAACACTAACGCTCATATG
* *
117862 CATTATCTGAATATAACA
1 CATTATCTAAATGTAACA
117880 TTGACTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CATTATCTAAATGTAACACTAACGCTCATATG
Found at i:117865 original size:16 final size:18
Alignment explanation
Indices: 117835--117887 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 18
117825 ATATGCATTA
*
117835 TCTGAATGTAACATTGAC
1 TCTGAATATAACATTGAC
*
117853 TCTG-ATAT-GCATT-A-
1 TCTGAATATAACATTGAC
117867 TCTGAATATAACATTGAC
1 TCTGAATATAACATTGAC
117885 TCT
1 TCT
117888 AATGTGTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 4 0.14
15 5 0.18
16 8 0.29
17 4 0.14
18 7 0.25
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (18 bp):
TCTGAATATAACATTGAC
Found at i:117880 original size:32 final size:32
Alignment explanation
Indices: 117825--117905 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
117815 ACTAACGCTC
* *
117825 ATATGCATTATCTGAATGTAACATTGACTCTG
1 ATATGCATTATCTGAATATAACATTGACTCTA
117857 ATATGCATTATCTGAATATAACATTGACTCTA
1 ATATGCATTATCTGAATATAACATTGACTCTA
* * *
117889 ATGTGTATTATTTGAAT
1 ATATGCATTATCTGAAT
117906 GAAACACTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (32 bp):
ATATGCATTATCTGAATATAACATTGACTCTA
Found at i:119668 original size:20 final size:21
Alignment explanation
Indices: 119643--119682 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
119633 TTTACACCAA
119643 TTCAT-CCAGTATCGATACTG
1 TTCATCCCAGTATCGATACTG
119663 TTCATCCCAGTATCGATACT
1 TTCATCCCAGTATCGATACT
119683 CGAACCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (21 bp):
TTCATCCCAGTATCGATACTG
Found at i:121443 original size:20 final size:20
Alignment explanation
Indices: 121418--121510 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
121408 TTTTCCCAAT
121418 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
121438 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
121458 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
121479 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
121500 TCGCAATGCGA
1 TCGCAATGCGA
121511 TACTAACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:121460 original size:41 final size:41
Alignment explanation
Indices: 121415--121510 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
121405 CGATTTTCCC
*
121415 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
121456 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
121497 AAATCGCAATGCGA
1 AATTCGCAATGCGA
121511 TACTAACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:121523 original size:41 final size:41
Alignment explanation
Indices: 121437--121571 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
121427 GAATAAGTAA
* * *
121437 ATCGCAACGCGAATTGGGAAATTCGCAATGCGA-A-TAAGT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
121476 AAATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
1 --ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
* * * * * *
121519 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTAACT
*
121560 TTCGCAACGCGA
1 ATCGCAACGCGA
121572 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
41 73 0.91
42 3 0.04
43 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
Found at i:121524 original size:20 final size:20
Alignment explanation
Indices: 121499--121593 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
121489 AATTGAGAAA
*
121499 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* * **
121519 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-AACT
* *
121540 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
* *
121560 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTAACT
*
121580 TTCGCAACGCGATA
1 ATCGCAACGCGATA
121594 ATACATAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:121809 original size:22 final size:22
Alignment explanation
Indices: 121781--121824 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
121771 CACTCTCTCA
121781 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
121803 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
121825 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:123440 original size:18 final size:18
Alignment explanation
Indices: 123419--123463 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
123409 TCCACTTCGG
*
123419 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
123437 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
123455 GAGCCATCA
1 GAGCCATCA
123464 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:123986 original size:20 final size:20
Alignment explanation
Indices: 123936--124002 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
123926 TAGTTTACTT
*
123936 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
123956 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
123976 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
123995 TCGCAACG
1 TCGCAACG
124003 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:123997 original size:19 final size:18
Alignment explanation
Indices: 123975--124070 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
123965 GAAAATGGCT
123975 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
123994 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
124008 ATCGCAACGCGAAATG-AA
1 ATCGCAA-GCGAAATGAAA
*
124026 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
124040 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
124059 ATCGCAATGCGA
1 ATCGCAA-GCGA
124071 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:124010 original size:14 final size:14
Alignment explanation
Indices: 123991--124048 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
123981 ATGCGAAATG
123991 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
124005 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
124021 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
124037 AAAATCGCAACG
1 AAAATCGCAACG
124049 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:124033 original size:32 final size:33
Alignment explanation
Indices: 123975--124065 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
123965 GAAAATGGCT
*
123975 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
124008 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
124040 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
124066 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:124120 original size:32 final size:32
Alignment explanation
Indices: 124077--124187 Score: 168
Period size: 32 Copynumber: 3.4 Consensus size: 32
124067 GCGATTTGTG
* *
124077 TTTCGCGTTGCGATTTTGTCATTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
* *
124109 TTTTGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
*
124141 TTTCGCATTCCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGA-TTTCA
124174 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
124188 AGCCATTTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 54 0.75
33 18 0.25
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.48
Consensus pattern (32 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
Found at i:124124 original size:13 final size:14
Alignment explanation
Indices: 124082--124171 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 14
124072 TTGTGTTTCG
124082 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
124096 CATTGCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
124113 GCGTTGCGATTTTGT
1 -CGTTGCGATTTTGT
*
124128 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
124144 CGCATTCCGATTTTGT
1 CG--TTGCGATTTTGT
124160 CGTTGCGATTTT
1 CGTTGCGATTTT
124172 CATTTCGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 27 0.45
15 5 0.08
16 8 0.13
17 5 0.08
18 15 0.25
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:124143 original size:19 final size:19
Alignment explanation
Indices: 124089--124143 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
124079 TCGCGTTGCG
*
124089 ATTTTGTCATTGCGATTTC
1 ATTTTGTCGTTGCGATTTC
124108 ATTTTG-CGTTGCG-----
1 ATTTTGTCGTTGCGATTTC
124121 ATTTTGTCGTTGCGATTTC
1 ATTTTGTCGTTGCGATTTC
124140 ATTT
1 ATTT
124144 CGCATTCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
13 6 0.21
14 7 0.24
18 6 0.21
19 10 0.34
ACGTcount: A:0.13, C:0.15, G:0.20, T:0.53
Consensus pattern (19 bp):
ATTTTGTCGTTGCGATTTC
Found at i:124186 original size:19 final size:19
Alignment explanation
Indices: 124130--124229 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 19
124120 GATTTTGTCG
124130 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
124148 TTCCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
124162 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
124181 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
** *
124201 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
124220 TTGCGATTTT
1 TTGCGATTTT
124230 AAGTTTCGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 4 0.06
17 4 0.06
18 8 0.12
19 24 0.37
20 17 0.26
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:124206 original size:20 final size:19
Alignment explanation
Indices: 124172--124226 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
124162 TTGCGATTTT
*
124172 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
124191 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
124211 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
124227 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:126112 original size:14 final size:14
Alignment explanation
Indices: 126093--126128 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
126083 ATTGTTTAAT
126093 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
126107 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
126121 TGATTTGT
1 TGATTTGT
126129 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:126699 original size:14 final size:14
Alignment explanation
Indices: 126680--126715 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
126670 ATTGTTTAAT
126680 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
126694 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
126708 TGATTTGT
1 TGATTTGT
126716 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:127286 original size:14 final size:14
Alignment explanation
Indices: 127267--127302 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
127257 ATTGTTTAAT
127267 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
127281 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
127295 TGATTTGT
1 TGATTTGT
127303 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:127874 original size:14 final size:14
Alignment explanation
Indices: 127855--127890 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
127845 ATTGTTTAAT
127855 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
127869 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
127883 TGATTTGT
1 TGATTTGT
127891 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:128138 original size:588 final size:589
Alignment explanation
Indices: 125845--128853 Score: 5883
Period size: 587 Copynumber: 5.1 Consensus size: 589
125835 TGGTAAGTCA
*
125845 AATGCCAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
125908 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
125973 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
126038 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
126103 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
126168 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
126233 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
*
126298 CATTTTCGCATTGCGATAGTTAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
126363 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
126428 ACAT
586 ACAT
126432 AATGCAAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
126495 TCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
126560 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
126625 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
126690 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
126755 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
126820 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
126885 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
126950 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
127015 ACAT
586 ACAT
127019 AATGCAAGTTTTGTTAACATATAT-C-CCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
127082 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
127147 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
127212 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
127277 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
127342 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
127407 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
127472 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
127537 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT-AAATAC
521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
127601 ACAT
586 ACAT
127605 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
127670 TCAATAATTTGCTGTTTATAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
*
127735 ATGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
127800 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
127865 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
*
127930 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAATAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
127995 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
128060 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
128125 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
128190 ACAT
586 ACAT
128194 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
128259 TCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
128324 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
128389 TGATTCAATAATTGATGAAG-AATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
128453 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
128518 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
128583 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
128648 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
128713 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
128778 ACAT
586 ACAT
*
128782 AATGCAAGTTTTGTTAACATATATACTCC-TTTGGTTTGAAAATATTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
128846 TCAATAAT
66 TCAATAAT
128854 AATTGTTAAA
Statistics
Matches: 2405, Mismatches: 12, Indels: 10
0.99 0.00 0.00
Matches are distributed among these distances:
586 34 0.01
587 1195 0.50
588 950 0.40
589 226 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (589 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC
CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA
ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC
ACAT
Found at i:128462 original size:14 final size:14
Alignment explanation
Indices: 128443--128478 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
128433 ATTGTTTAAT
128443 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
128457 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
128471 TGATTTGT
1 TGATTTGT
128479 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:129776 original size:24 final size:24
Alignment explanation
Indices: 129720--129778 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
129710 AGTCAGTATT
* *
129720 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
129744 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
129768 CGAATTTTGAT
1 CGAAATTTGAT
129779 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:129970 original size:12 final size:12
Alignment explanation
Indices: 129953--129977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129943 ATATAATCCT
129953 GAAGAAGAAAAA
1 GAAGAAGAAAAA
129965 GAAGAAGAAAAA
1 GAAGAAGAAAAA
129977 G
1 G
129978 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:130772 original size:20 final size:20
Alignment explanation
Indices: 130679--130772 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
130669 CGCTAAGTAA
*
130679 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
130699 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
130719 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
130740 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
130760 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
130773 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:130791 original size:41 final size:41
Alignment explanation
Indices: 130700--130834 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
130690 AAAGTCAGTA
* * * ** *
130700 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
130740 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
130782 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
130823 TCGCGTTGCGAT
1 TCGCGTTGCGAT
130835 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:130805 original size:20 final size:20
Alignment explanation
Indices: 130761--130853 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
130751 ATAGTCAGTA
* **
130761 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
130782 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
130802 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
130823 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
130843 TCGCATTGCGA
1 TCGCATTGCGA
130854 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:130835 original size:41 final size:41
Alignment explanation
Indices: 130761--130856 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
130751 ATAGTCAGTA
*
130761 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
130802 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
130843 TCGCATTGCGAATT
1 TCGCATTGCGAATT
130857 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:133480 original size:17 final size:16
Alignment explanation
Indices: 133458--133511 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
133448 AACCGGGTAT
133458 CGGGTACCCGCAAAATC
1 CGGGTACCCG-AAAATC
**
133475 CGGGTACCCGATTA-C
1 CGGGTACCCGAAAATC
*
133490 CGGGTACCCGTAACATC
1 CGGGTACCCG-AAAATC
133507 CGGGT
1 CGGGT
133512 CGGGACACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 11 0.35
16 4 0.13
17 16 0.52
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (16 bp):
CGGGTACCCGAAAATC
Found at i:133585 original size:16 final size:16
Alignment explanation
Indices: 133547--133588 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
133537 ACCCGGAAGT
* *
133547 TCCGGGTACCAGTAAA
1 TCCGGGTACCCGAAAA
133563 T-CGGGTACCCGAAAA
1 TCCGGGTACCCGAAAA
133578 TCCGGGTACCC
1 TCCGGGTACCC
133589 AGATTTGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (16 bp):
TCCGGGTACCCGAAAA
Found at i:137436 original size:113 final size:113
Alignment explanation
Indices: 137238--137603 Score: 610
Period size: 113 Copynumber: 3.3 Consensus size: 113
137228 TTGTCGGTTT
* *
137238 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
* *
137303 CGGCCTATAAATGACTAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
137351 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGAAAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
137416 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
**
137464 GTGTCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
* * *
137528 CGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATA
66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
137576 GTGTCGATACTTTATTATAA-GTATCGAT
1 GTGTCGATACTTTATAAAAATGTATCGAT
137604 ACTTTTGGAA
Statistics
Matches: 238, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
111 6 0.03
112 78 0.33
113 154 0.65
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (113 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:137768 original size:182 final size:182
Alignment explanation
Indices: 137461--138140 Score: 979
Period size: 182 Copynumber: 3.8 Consensus size: 182
137451 GGATATATTG
** *
137461 AAAGTGTCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
** * * * * *
137526 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
* *
137591 TATAAGTATCGATACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
137643 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
137708 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
137773 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
*
137825 AAAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * * *
137890 ACCGG--T--AAA-GAGC--TACCGG-ATA-TG-T--TGAAAATGTTG--A---T----ACTTTA
66 ACCGGTCTCGAAATGA-CAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTA
* *
137934 TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
* *
137987 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAGAAATATGAAAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
138052 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
138117 TATAAGTATCGACACTTTTGGAAT
131 TATAAGTATCGACACTTTTGGAAT
138141 AATAAAGTAT
Statistics
Matches: 443, Mismatches: 33, Indels: 44
0.85 0.06 0.08
Matches are distributed among these distances:
162 123 0.28
164 1 0.00
166 5 0.01
167 2 0.00
168 5 0.01
169 3 0.01
170 1 0.00
171 10 0.02
173 9 0.02
174 1 0.00
175 3 0.01
176 5 0.01
177 2 0.00
178 5 0.01
180 1 0.00
182 267 0.60
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
Found at i:137904 original size:162 final size:162
Alignment explanation
Indices: 137720--138057 Score: 595
Period size: 162 Copynumber: 2.1 Consensus size: 162
137710 CGATCTCGAA
*
137720 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
1 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA
* * *
137785 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATG
66 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
137850 TATCGATCCATAACAATATAACAGGTAAAAAT
131 TATCGATCCATAACAATATAACAGGTAAAAAT
* *
137882 ATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAATGTTGATACTTTATTATAAGTATCGA
1 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA
137947 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
*
138012 TATCGATCCATAACAATATAACAGGTAGAAAT
131 TATCGATCCATAACAATATAACAGGTAAAAAT
* *
138044 ATGAAAAAATCGGT
1 ATGACAAAACCGGT
138058 CTCGAAATGA
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 167 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (162 bp):
ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA
CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAAT
Found at i:138955 original size:23 final size:23
Alignment explanation
Indices: 138926--138973 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
138916 AAATAGGTTA
*
138926 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
138949 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
138972 AT
1 AT
138974 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:139183 original size:14 final size:14
Alignment explanation
Indices: 139164--139190 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
139154 TTGATTTAAG
139164 AATCAGTTATAGTA
1 AATCAGTTATAGTA
139178 AATCAGTTATAGT
1 AATCAGTTATAGT
139191 TTGTACTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
AATCAGTTATAGTA
Found at i:140443 original size:2 final size:2
Alignment explanation
Indices: 140436--140462 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
140426 TGTAATGAAG
140436 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 A
140463 AACAACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:141234 original size:2 final size:2
Alignment explanation
Indices: 141227--141260 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
141217 ATATTCTCTA
141227 AT AT 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 AT AT
141261 TCAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141750 original size:21 final size:21
Alignment explanation
Indices: 141721--141773 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
141711 ATTCTGACTA
*
141721 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTATCCAAAT
* *
141742 TCGCGTTGCGATTATCCTAAT
1 TCGCATTGCGATTATCCAAAT
*
141763 TCGCAATGCGA
1 TCGCATTGCGA
141774 ATACGTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTATCCAAAT
Found at i:141784 original size:20 final size:20
Alignment explanation
Indices: 141763--141851 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
141753 TTATCCTAAT
* *
141763 TCGCAATGCGAATACGTAAT
1 TCGCAACGCGAATACGTAAA
*
141783 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
** *
141803 TCGCAACGCGAATTTGGAAAA
1 TCGCAACGCGAA-TACGTAAA
141824 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
141844 TCGCAACG
1 TCGCAACG
141852 AGATTCTGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 43 0.72
21 17 0.28
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:141793 original size:41 final size:40
Alignment explanation
Indices: 141739--141851 Score: 100
Period size: 41 Copynumber: 2.8 Consensus size: 40
141729 CGATTTTCCA
** * * *
141739 AATTCGCGTTGCGATTATCCTAATTCGCAATGCGAATACGT
1 AATTCGCAATGCGAATA-CCTAAATCGCAACGCGAATACGT
* ** *
141780 AATTCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGA
1 AATTCGCAATGCGAATACCTAAATCGCAACGCGAA-TACGT
* * *
141821 AAATCGCAACGCGAATACGTAAATCGCAACG
1 AATTCGCAATGCGAATACCTAAATCGCAACG
141852 AGATTCTGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 15 0.25
41 45 0.75
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
AATTCGCAATGCGAATACCTAAATCGCAACGCGAATACGT
Done.