Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 141 of 210
Found at i:42929417 original size:12 final size:12
Alignment explanation
Indices: 42929382--42929428 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
42929372 ATTATATTTG
42929382 ATTATATTT-CT
1 ATTATATTTACT
42929393 ATATATATATTACT
1 AT-TATAT-TTACT
42929407 -TTATTATTTACT
1 ATTA-TATTTACT
42929419 ATTATATTTA
1 ATTATATTTA
42929429 AACTGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 18 0.58
13 9 0.29
14 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATATTTACT
Found at i:42936895 original size:26 final size:26
Alignment explanation
Indices: 42936859--42936920 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
42936849 TCCTGAAGTG
*
42936859 TTCTGAAACTGATACAGGCTATGGTA
1 TTCTGAAACTGATACAGGCTATGATA
* *
42936885 TTCTGAAACTGATACATGTTATGATA
1 TTCTGAAACTGATACAGGCTATGATA
42936911 TTCTGAAACT
1 TTCTGAAACT
42936921 ATTATAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (26 bp):
TTCTGAAACTGATACAGGCTATGATA
Found at i:42947083 original size:34 final size:35
Alignment explanation
Indices: 42947044--42947119 Score: 136
Period size: 34 Copynumber: 2.2 Consensus size: 35
42947034 AAATAGAATT
*
42947044 AAATTAATTAGTTCTTATGAATTCGTTGAATAAGG
1 AAATTAATTAGTTATTATGAATTCGTTGAATAAGG
42947079 -AATTAATTAGTTATTATGAATTCGTTGAATAAGG
1 AAATTAATTAGTTATTATGAATTCGTTGAATAAGG
42947113 AAATTAA
1 AAATTAA
42947120 ATATATTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 33 0.85
35 6 0.15
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (35 bp):
AAATTAATTAGTTATTATGAATTCGTTGAATAAGG
Found at i:42948601 original size:20 final size:20
Alignment explanation
Indices: 42948576--42948617 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
42948566 ATCAATTCCT
42948576 ATCATTAATCCAATTCAAAC
1 ATCATTAATCCAATTCAAAC
* *
42948596 ATCATTTATCCAATTCATAC
1 ATCATTAATCCAATTCAAAC
42948616 AT
1 AT
42948618 TATCTTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCATTAATCCAATTCAAAC
Found at i:42950564 original size:25 final size:25
Alignment explanation
Indices: 42950522--42950578 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
42950512 GTGGCAAACC
*
42950522 AAGCCTTTGCGGCAAAATGTTTGGG
1 AAGCCTTTACGGCAAAATGTTTGGG
* *
42950547 AAGCCTTTATGGCGAAATGTTTGGG
1 AAGCCTTTACGGCAAAATGTTTGGG
42950572 AAGCCTT
1 AAGCCTT
42950579 GTGGCAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (25 bp):
AAGCCTTTACGGCAAAATGTTTGGG
Found at i:42954097 original size:26 final size:26
Alignment explanation
Indices: 42954063--42954132 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
42954053 AACACACCAA
* * *
42954063 TATCATAGCAAAGCTGTCAGTAATAG
1 TATCGTAGCAAAGCTGCCAGTAACAG
42954089 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGTAGCAAAGCTGCCAGTAACAG
*
42954115 TATCGCAGCAAAGCTGCC
1 TATCGTAGCAAAGCTGCC
42954133 TGTAGTATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGTAGCAAAGCTGCCAGTAACAG
Found at i:42956537 original size:38 final size:38
Alignment explanation
Indices: 42956486--42956563 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
42956476 TATCGAAACG
42956486 AGATAAAATAAGATTGCTTTCATAAAGAGAATACAATA
1 AGATAAAATAAGATTGCTTTCATAAAGAGAATACAATA
* *
42956524 AGATAAAATAAGATTGCTTTCGTAAAGAGTATACAATA
1 AGATAAAATAAGATTGCTTTCATAAAGAGAATACAATA
42956562 AG
1 AG
42956564 GTGTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (38 bp):
AGATAAAATAAGATTGCTTTCATAAAGAGAATACAATA
Found at i:42957420 original size:20 final size:19
Alignment explanation
Indices: 42957395--42957445 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
42957385 TTATTTTATT
*
42957395 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATA-TAAAA
42957415 TTATTATATTT-ATATAAAA
1 TTATTA-ATTTAATATAAAA
42957434 TT-TTAATTTAAT
1 TTATTAATTTAAT
42957446 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 5 0.18
19 6 0.21
20 9 0.32
21 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATAAAA
Found at i:42958518 original size:28 final size:27
Alignment explanation
Indices: 42958472--42958526 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
42958462 TATATTTGTT
* *
42958472 TTATAATTGTTTATAATATTATGTAATG
1 TTATAATTGTATATAATA-TATGAAATG
42958500 TTATAATTGTGATAT-ATATATGAAATG
1 TTATAATTGT-ATATAATATATGAAATG
42958527 ATCCACAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 13 0.54
29 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
TTATAATTGTATATAATATATGAAATG
Found at i:42974057 original size:42 final size:42
Alignment explanation
Indices: 42973977--42974058 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
42973967 CGTTTTCTCT
* **
42973977 ATGCCATAGTCCAACTATAGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATAGTCTTACACATATGCACATATTG
* *
42974019 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATAGTCTTACACA-TATGCACATAT
42974059 CACACCGACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATAGTCTTACACATATGCACATATTG
Found at i:42979411 original size:12 final size:12
Alignment explanation
Indices: 42979394--42979490 Score: 57
Period size: 12 Copynumber: 8.4 Consensus size: 12
42979384 TATTTAATAG
42979394 ATTTAATATTAA-
1 ATTTAAT-TTAAT
42979406 ATTTAATTTAAT
1 ATTTAATTTAAT
*
42979418 ATTT-CTCTTAAT
1 ATTTAAT-TTAAT
*
42979430 A-AT-ATTT--T
1 ATTTAATTTAAT
42979438 ATTT-ATTTAAT
1 ATTTAATTTAAT
* * *
42979449 ATTAAATTGATT
1 ATTTAATTTAAT
42979461 ATCTTAATATTAA-
1 AT-TTAAT-TTAAT
42979474 ATTTAATTTAAT
1 ATTTAATTTAAT
42979486 ATTTA
1 ATTTA
42979491 TCTTGATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 2 0.03
11 15 0.23
12 34 0.52
13 6 0.09
14 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (12 bp):
ATTTAATTTAAT
Found at i:42979469 original size:20 final size:19
Alignment explanation
Indices: 42979440--42979488 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
42979430 AATATTTTAT
42979440 TTATTTAATATTAAATTGA
1 TTATTTAATATTAAATTGA
42979459 TTATCTTAATATTAAATT--
1 TTAT-TTAATATTAAATTGA
*
42979477 TAATTTAATATT
1 TTATTTAATATT
42979489 TATCTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 3 0.11
19 4 0.14
20 13 0.46
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTTAATATTAAATTGA
Found at i:42979473 original size:68 final size:69
Alignment explanation
Indices: 42979396--42979530 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 69
42979386 TTTAATAGAT
* * * *
42979396 TTAATATTAAATTTAATTTAATATTTCTCTTAAT-AATATTTTATTTATTTAATATTAAATTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
42979460 TATC
66 TATC
*
42979464 TTAATATTAAATTTAATTTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
42979529 TA
66 TA
42979531 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
68 32 0.52
69 29 0.48
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:42979514 original size:32 final size:33
Alignment explanation
Indices: 42979398--42979520 Score: 110
Period size: 32 Copynumber: 3.7 Consensus size: 33
42979388 TAATAGATTT
* *
42979398 AATATTAAATTTAATTTAATATTTCTCTTAAT-
1 AATATTAAATTTAATTTAATATTTATCTTGATA
** **
42979430 AATATTTTATTT-ATTTAATA-TTAAATTGATTA
1 AATATTAAATTTAATTTAATATTTATCTTGA-TA
42979462 TCTTAATATTAAATTTAATTTAATATTTATCTTGATA
1 ----AATATTAAATTTAATTTAATATTTATCTTGATA
*
42979499 AATATTATA-TTAATTTAATATT
1 AATATTAAATTTAATTTAATATT
42979521 AAAGTGATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
30 5 0.07
31 9 0.12
32 23 0.32
33 8 0.11
36 10 0.14
37 10 0.14
38 7 0.10
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (33 bp):
AATATTAAATTTAATTTAATATTTATCTTGATA
Found at i:42980432 original size:13 final size:13
Alignment explanation
Indices: 42980416--42980450 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
42980406 TCTTATTATT
42980416 TTATTATTTTTTA
1 TTATTATTTTTTA
42980429 TTATTAATTTTTTA
1 TTATT-ATTTTTTA
*
42980443 TAATTATT
1 TTATTATT
42980451 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:42996501 original size:25 final size:26
Alignment explanation
Indices: 42996455--42996520 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
42996445 CCATGTAGGG
* *
42996455 TAAAATGACCAAAAAACCCTCATAGAC
1 TAAAATGACCAAAAAA-CCTCACAAAC
42996482 TAAAATGACCAAAAAA-CTCACAAAC
1 TAAAATGACCAAAAAACCTCACAAAC
*
42996507 TAAAATTACCAAAA
1 TAAAATGACCAAAA
42996521 TACCCCCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 20 0.56
27 16 0.44
ACGTcount: A:0.58, C:0.23, G:0.05, T:0.15
Consensus pattern (26 bp):
TAAAATGACCAAAAAACCTCACAAAC
Found at i:42996603 original size:27 final size:27
Alignment explanation
Indices: 42996427--42996684 Score: 173
Period size: 27 Copynumber: 9.6 Consensus size: 27
42996417 CTTACTATTT
* * *
42996427 GTAAAATGACTGTAATACCCAT-GTAGG
1 GTAAAATGACCGAAATACCC-TCATAGG
* * *
42996454 GTAAAATGACCAAAAAACCCTCATAGA
1 GTAAAATGACCGAAATACCCTCATAGG
* ** * **
42996481 CTAAAATGACC-AAA-AAACTCACAAA
1 GTAAAATGACCGAAATACCCTCATAGG
* * * *
42996506 CTAAAATTACCAAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* * * *
42996533 GTAAAATAATCGAAATACCCCCCATAGA
1 GTAAAATGACCGAAATA-CCCTCATAGG
* * *
42996561 TTAAAATAACCAAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
*
42996588 GTAAAATGACCGAAATA-CCTCCATAAG
1 GTAAAATGACCGAAATACCCT-CATAGG
* * *
42996615 GTAAAATGATCGAAATACCCCCATTGG
1 GTAAAATGACCGAAATACCCTCATAGG
* * *
42996642 GTAGAATGACCGTAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
42996669 GTTAAATGACTGAAAT
1 GTAAAATGACCGAAAT
42996685 TGATACGAGT
Statistics
Matches: 181, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
25 17 0.09
26 10 0.06
27 129 0.71
28 25 0.14
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCTCATAGG
Found at i:42996644 original size:54 final size:54
Alignment explanation
Indices: 42996453--42996678 Score: 206
Period size: 54 Copynumber: 4.2 Consensus size: 54
42996443 ACCCATGTAG
* * ** * * * *
42996453 GGTAAAATGACCAAAAAACCCTCATAGACTAAAATGACCAAAAAACTCACA-AA
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAA
* * * *
42996506 -CTAAAATTACCAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCCAT-A
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCCCATAA
* * * *
42996559 GATTAAAATAACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCTCCATAA
1 G-GTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAA
* * * * * *
42996614 GGTAAAATGATCGAAATACCCCCATTGGGTAGAATGACCGTAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAA
*
42996668 GGTTAAATGAC
1 GGTAAAATGAC
42996679 TGAAATTGAT
Statistics
Matches: 138, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
52 34 0.25
53 5 0.04
54 58 0.42
55 41 0.30
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAA
Found at i:42998331 original size:32 final size:32
Alignment explanation
Indices: 42998273--42998429 Score: 120
Period size: 32 Copynumber: 4.9 Consensus size: 32
42998263 CCTACGATGG
* ***
42998273 TACTGATGGCTTTGTGATGATCATATTACCGT
1 TACTGACGGCTTTGTGCCAATCATATTACCGT
** * *
42998305 TTTTGACGGCTTTGTGTCAATTATATTACCGT
1 TACTGACGGCTTTGTGCCAATCATATTACCGT
* *
42998337 TACTGATGGCTTTGTGCCAATCATATTACCAT
1 TACTGACGGCTTTGTGCCAATCATATTACCGT
* * * * * * *
42998369 TACTGATGGCTATGAGTCGATTATATCAATCC--
1 TACTGACGGCTTTGTGCCAATCATAT-TA-CCGT
*
42998401 TACTGATGGCTTTGTGCCAATCATATTAC
1 TACTGACGGCTTTGTGCCAATCATATTAC
42998430 TGTACTTATG
Statistics
Matches: 98, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
30 1 0.01
31 1 0.01
32 93 0.95
33 1 0.01
34 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGACGGCTTTGTGCCAATCATATTACCGT
Found at i:42998392 original size:64 final size:64
Alignment explanation
Indices: 42998273--42998429 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 64
42998263 CCTACGATGG
*** * ** * * *
42998273 TACTGATGGCTTTGTGATGATCATATTACCGTTTTTGACGGCTTTGTGTCAATTATAT-TA-CC
1 TACTGATGGCTTTGTGCCAATCATATTACCATTACTGACGGCTATGAGTCAATTATATCAATCC
* *
42998335 GTTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGCTATGAGTCGATTATATCAATC
1 --TACTGATGGCTTTGTGCCAATCATATTACCATTACTGACGGCTATGAGTCAATTATATCAATC
42998400 C
64 C
42998401 TACTGATGGCTTTGTGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCAATCATATTAC
42998430 TGTACTTATG
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 77 0.96
65 1 0.01
66 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (64 bp):
TACTGATGGCTTTGTGCCAATCATATTACCATTACTGACGGCTATGAGTCAATTATATCAATCC
Found at i:43008347 original size:14 final size:13
Alignment explanation
Indices: 43008319--43008354 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
43008309 GCTGTATAGT
43008319 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
*
43008332 AGAAGAAGAGAAAA
1 AGAAGAA-AAAAAA
43008346 AGAAGAAAA
1 AGAAGAAAA
43008355 TGAGAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:43008351 original size:17 final size:17
Alignment explanation
Indices: 43008319--43008368 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
43008309 GCTGTATAGT
*
43008319 AGAAGA-AAAAAAAAGA
1 AGAAGAGAAAAAGAAGA
43008335 AGAAGAGAAAAAGAAGA
1 AGAAGAGAAAAAGAAGA
*
43008352 A-AATGAGAAAATGAAGA
1 AGAA-GAGAAAAAGAAGA
43008369 TGCCGACCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (17 bp):
AGAAGAGAAAAAGAAGA
Found at i:43010279 original size:10 final size:9
Alignment explanation
Indices: 43010266--43010329 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
43010256 AAATTACAAC
43010266 AAATATTTAA
1 AAATA-TTAA
43010276 AAATATTAA
1 AAATATTAA
43010285 AAAT-TGTAA
1 AAATAT-TAA
* *
43010294 AATTACTAA
1 AAATATTAA
43010303 AAAT-TGTAA
1 AAATAT-TAA
*
43010312 AATTATTAA
1 AAATATTAA
*
43010321 AAACATTAA
1 AAATATTAA
43010330 CAATTTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 36 0.84
10 6 0.14
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
AAATATTAA
Found at i:43010303 original size:18 final size:18
Alignment explanation
Indices: 43010255--43010323 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
43010245 TTTAAAATTA
*
43010255 AAAATTAC-AACAAATATTT
1 AAAATTACTAA-AAAT-TGT
* *
43010274 AAAAATATTAAAAATTGT
1 AAAATTACTAAAAATTGT
43010292 AAAATTACTAAAAATTGT
1 AAAATTACTAAAAATTGT
*
43010310 AAAATTATTAAAAA
1 AAAATTACTAAAAA
43010324 CATTAACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 31 0.72
19 10 0.23
20 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATTACTAAAAATTGT
Found at i:43010356 original size:22 final size:23
Alignment explanation
Indices: 43010318--43010362 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43010308 GTAAAATTAT
* *
43010318 TAAAAACATTAACAATTTGTAAA
1 TAAAAAAATTAACAATTAGTAAA
43010341 TAAAAAAATTAA-AATTAGTAAA
1 TAAAAAAATTAACAATTAGTAAA
43010363 GAATTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAAAATTAACAATTAGTAAA
Found at i:43012924 original size:12 final size:11
Alignment explanation
Indices: 43012909--43013015 Score: 72
Period size: 12 Copynumber: 9.0 Consensus size: 11
43012899 TTTTTTTATT
43012909 AAGTTTTGCATC
1 AAGTTTT-CATC
*
43012921 AAGTTCTT-TTC
1 AAGTT-TTCATC
43012932 AAGCTTTTCATC
1 AAG-TTTTCATC
43012944 AAGTCTTTCATC
1 AAGT-TTTCATC
43012956 AAGTGTTTTTCATC
1 AA--G-TTTTCATC
* *
43012970 AAGTTTTTAAGC
1 AAG-TTTTCATC
*
43012982 AAGTTTCCATC
1 AAGTTTTCATC
*
43012993 AAGTTTTTAATC
1 AAG-TTTTCATC
*
43013005 AAGCTTTCATC
1 AAGTTTTCATC
43013016 TTCTGAAATA
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
11 22 0.29
12 41 0.54
13 2 0.03
14 10 0.13
15 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (11 bp):
AAGTTTTCATC
Found at i:43012943 original size:23 final size:23
Alignment explanation
Indices: 43012901--43013015 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 23
43012891 TACCAAATTT
*
43012901 TTTTTATTAAG-TTTTGCATCAAG
1 TTTTTATCAAGCTTTT-CATCAAG
43012924 TTCTTT-TCAAGCTTTTCATCAAG
1 TT-TTTATCAAGCTTTTCATCAAG
* *
43012947 TCTTTCATCAAGTGTTTTTCATCAAG
1 T-TTTTATCAA--GCTTTTCATCAAG
* *
43012973 TTTTTAAGCAAG-TTTCCATCAAG
1 TTTTT-ATCAAGCTTTTCATCAAG
43012996 TTTTTAATCAAGC-TTTCATC
1 TTTTT-ATCAAGCTTTTCATC
43013016 TTCTGAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
23 43 0.57
24 13 0.17
25 3 0.04
26 17 0.22
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (23 bp):
TTTTTATCAAGCTTTTCATCAAG
Found at i:43012968 original size:14 final size:14
Alignment explanation
Indices: 43012936--43012977 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
43012926 CTTTTCAAGC
43012936 TTTTCATCAA--GT
1 TTTTCATCAAGTGT
*
43012948 CTTTCATCAAGTGT
1 TTTTCATCAAGTGT
43012962 TTTTCATCAAGT-T
1 TTTTCATCAAGTGT
43012975 TTT
1 TTT
43012978 AAGCAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 4 0.15
14 13 0.50
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (14 bp):
TTTTCATCAAGTGT
Found at i:43019836 original size:6 final size:6
Alignment explanation
Indices: 43019825--43019870 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
43019815 AGAAATACAC
* * *
43019825 ATTTTA ATTTTA ATTTTA A-TTTA TTTTTA TTTTTA ACTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
43019871 TATATAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:43019858 original size:23 final size:23
Alignment explanation
Indices: 43019826--43019869 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43019816 GAAATACACA
*
43019826 TTTTAATTTTAATTTTAATTTAT
1 TTTTAATTTTAACTTTAATTTAT
*
43019849 TTTTATTTTTAACTTTAATTT
1 TTTTAATTTTAACTTTAATTT
43019870 TTATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTAATTTTAACTTTAATTTAT
Found at i:43019882 original size:29 final size:29
Alignment explanation
Indices: 43019826--43019885 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
43019816 GAAATACACA
* * **
43019826 TTTTAATTTTAATTTTAATTTATTTTTAT
1 TTTTAACTTTAATTTTAATATAAATTTAT
*
43019855 TTTTAACTTTAATTTTTATATAAATTTAT
1 TTTTAACTTTAATTTTAATATAAATTTAT
43019884 TT
1 TT
43019886 ATATTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTAACTTTAATTTTAATATAAATTTAT
Found at i:43019892 original size:6 final size:6
Alignment explanation
Indices: 43019881--43019915 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
43019871 TATATAAATT
*
43019881 TATTTA TATTTA TATTTA CATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
43019916 TGTAGGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:43020201 original size:21 final size:21
Alignment explanation
Indices: 43020152--43020204 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
43020142 ATACCTTAAC
*
43020152 CTTTCACCCATCAAATCCTAAT
1 CTTTCACCTATCAAATCC-AAT
*
43020174 CTTTCACCTATCACATCC-AT
1 CTTTCACCTATCAAATCCAAT
43020194 CTTTTCACCTA
1 C-TTTCACCTA
43020205 GAAAACTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 9 0.32
22 16 0.57
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (21 bp):
CTTTCACCTATCAAATCCAAT
Found at i:43023333 original size:23 final size:22
Alignment explanation
Indices: 43023297--43023341 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
43023287 AATTTTTTTA
43023297 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATCAAG-TCTTT
43023320 TTAAGCTTTT-CATCAAGTCTTT
1 TTAAG-TTTTGCATCAAGTCTTT
43023342 CATCAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (22 bp):
TTAAGTTTTGCATCAAGTCTTT
Found at i:43023344 original size:12 final size:12
Alignment explanation
Indices: 43023299--43023397 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
43023289 TTTTTTTATT
*
43023299 AAGTTTTGCATC
1 AAGTTTTTCATC
*
43023311 AAGTTCTTT--TT
1 AAGTT-TTTCATC
*
43023322 AAGCTTTTCATC
1 AAGTTTTTCATC
*
43023334 AAGTCTTTCATC
1 AAGTTTTTCATC
*
43023346 AAGTGTTTTTTATC
1 AA--GTTTTTCATC
* *
43023360 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
43023372 AAG-TTTCCATC
1 AAGTTTTTCATC
*
43023383 AAGTTTTTGATC
1 AAGTTTTTCATC
43023395 AAG
1 AAG
43023398 CTTTCCATCT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.05
11 13 0.20
12 38 0.58
13 2 0.03
14 10 0.15
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:43023374 original size:26 final size:26
Alignment explanation
Indices: 43023326--43023375 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
43023316 CTTTTTAAGC
* *
43023326 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATCAAGTCTTTAAGCAAGTGT
* *
43023352 TTTTTATCAAGTTTTTAAGCAAGT
1 TTTTCATCAAGTCTTTAAGCAAGT
43023376 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTTCATCAAGTCTTTAAGCAAGTGT
Found at i:43023387 original size:23 final size:24
Alignment explanation
Indices: 43023357--43023406 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
43023347 AGTGTTTTTT
43023357 ATCAAGTTTTTAAGCAAG-TTTCC
1 ATCAAGTTTTTAAGCAAGCTTTCC
* *
43023380 ATCAAGTTTTTGATCAAGCTTTCC
1 ATCAAGTTTTTAAGCAAGCTTTCC
43023404 ATC
1 ATC
43023407 TTCTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (24 bp):
ATCAAGTTTTTAAGCAAGCTTTCC
Found at i:43026462 original size:19 final size:19
Alignment explanation
Indices: 43026438--43026476 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43026428 TAAGACTAAG
43026438 TTGCTATTTGAACGCTCAA
1 TTGCTATTTGAACGCTCAA
43026457 TTGCTATTTGAACGCTCAA
1 TTGCTATTTGAACGCTCAA
43026476 T
1 T
43026477 AATATCTGAG
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:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (19 bp):
TTGCTATTTGAACGCTCAA
Found at i:43032767 original size:63 final size:63
Alignment explanation
Indices: 43032675--43032883 Score: 188
Period size: 63 Copynumber: 3.3 Consensus size: 63
43032665 CACGGGTTGA
* * * * * *
43032675 CACACGGGCGTGTGTCCAAGCTATGTAACTTAATGAATTTGGATTTGGGTCATACGGGCAAGC
1 CACACGGGTGTGTGTCCAGGCTATATAACTCAATGAATTTGGATTTAGGTCACACGGGCAAGC
* * * * *
43032738 CACACGGGTATGTGTCCAGGCTGTATAACTCACTGACTTTGGATTTAGGTCACACGGGTAAGC
1 CACACGGGTGTGTGTCCAGGCTATATAACTCAATGAATTTGGATTTAGGTCACACGGGCAAGC
* * * * * ** * * *
43032801 CACACAGGTGTGTGTCTAGGCCATGTAACTCACT-AACTTCAGATTTCGGTCACACAGGCAAGT
1 CACACGGGTGTGTGTCCAGGCTATATAACTCAATGAA-TTTGGATTTAGGTCACACGGGCAAGC
**
43032864 CACACGATTGTGTG-CCAGGC
1 CACACGGGTGTGTGTCCAGGC
43032884 CGTGTAGAGG
Statistics
Matches: 117, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
62 6 0.05
63 111 0.95
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (63 bp):
CACACGGGTGTGTGTCCAGGCTATATAACTCAATGAATTTGGATTTAGGTCACACGGGCAAGC
Found at i:43034565 original size:89 final size:89
Alignment explanation
Indices: 43034461--43034636 Score: 300
Period size: 89 Copynumber: 2.0 Consensus size: 89
43034451 TAGATACCAC
43034461 TACACCAATAATAATTCTTATATTAATTTAAAAAAAATTAAATTTTAACATAAA-TATTTTTCTT
1 TACACCAATAATAATTCTTATATTAATTT-AAAAAAATTAAATTTTAACATAAAGTATTTTTCTT
* *
43034525 AGCCAATTTACCACTTAACCAAAGT
65 AGCAAATTTACCACCTAACCAAAGT
* *
43034550 TACACCAATAATAATTCTTATATTAATTTTAAAAAATTAATTTTTAACATAAAGTATTTTTCTTA
1 TACACCAATAATAATTCTTATATTAATTTAAAAAAATTAAATTTTAACATAAAGTATTTTTCTTA
43034615 GCAAATTTACCACCTAACCAAA
66 GCAAATTTACCACCTAACCAAA
43034637 ATTTCATTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 22 0.27
89 60 0.73
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (89 bp):
TACACCAATAATAATTCTTATATTAATTTAAAAAAATTAAATTTTAACATAAAGTATTTTTCTTA
GCAAATTTACCACCTAACCAAAGT
Found at i:43035275 original size:33 final size:33
Alignment explanation
Indices: 43035233--43035296 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
43035223 CGCTAATGAT
**
43035233 CTGGGCTTTAGCGGTGTTTTTGAAGAAGCGCTG
1 CTGGGCTTTAGCGGCATTTTTGAAGAAGCGCTG
*
43035266 CTGGGCTTTAGCGGCATTTTTTAAGAAGCGC
1 CTGGGCTTTAGCGGCATTTTTGAAGAAGCGC
43035297 CGCTATTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (33 bp):
CTGGGCTTTAGCGGCATTTTTGAAGAAGCGCTG
Found at i:43035369 original size:41 final size:42
Alignment explanation
Indices: 43035313--43035498 Score: 188
Period size: 41 Copynumber: 4.6 Consensus size: 42
43035303 TGATCTGGGC
*
43035313 TTTAGAAA-CGCCGCTAATT-CTCTAGGCTTTAGCGGCATTT
1 TTTAGAAAGCGCCGCTAATTGCTCTGGGCTTTAGCGGCATTT
* *
43035353 TTTAGAAAGCGCCGCT-ATTGCTTTGGGCTTTAGTGGCATTT
1 TTTAGAAAGCGCCGCTAATTGCTCTGGGCTTTAGCGGCATTT
* * * * *
43035394 TTTAGGAAGCACCGCTAA-TACTCTGGGCATTA-CGGCGTTT
1 TTTAGAAAGCGCCGCTAATTGCTCTGGGCTTTAGCGGCATTT
* * ** *
43035434 TTGAAGAAAGCACCAAT-ATTGCTCTGGGCTTTAGCGGCGTTT
1 TT-TAGAAAGCGCCGCTAATTGCTCTGGGCTTTAGCGGCATTT
*
43035476 TTTAGAAAGCGCAGCTAA-TGCTC
1 TTTAGAAAGCGCCGCTAATTGCTC
43035499 AGGGGATTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
40 20 0.17
41 86 0.73
42 12 0.10
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
TTTAGAAAGCGCCGCTAATTGCTCTGGGCTTTAGCGGCATTT
Found at i:43035731 original size:7 final size:7
Alignment explanation
Indices: 43035721--43035780 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
43035711 AGAGTTTTGA
43035721 GTTTAGG
1 GTTTAGG
*
43035728 GTTTACG
1 GTTTAGG
*
43035735 GTGTA-G
1 GTTTAGG
*
43035741 GTTTAAG
1 GTTTAGG
*
43035748 GTTTGGG
1 GTTTAGG
*
43035755 GTTTGGG
1 GTTTAGG
*
43035762 GTTTAAG
1 GTTTAGG
43035769 GTTTAGG
1 GTTTAGG
43035776 GTTTA
1 GTTTA
43035781 TGTTTTAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 5 0.11
7 39 0.89
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:43035765 original size:21 final size:21
Alignment explanation
Indices: 43035740--43035779 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43035730 TTACGGTGTA
*
43035740 GGTTTAAGGTTTGGGGTTTGG
1 GGTTTAAGGTTTAGGGTTTGG
43035761 GGTTTAAGGTTTAGGGTTT
1 GGTTTAAGGTTTAGGGTTT
43035780 ATGTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.45
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGTTTGG
Found at i:43035875 original size:21 final size:21
Alignment explanation
Indices: 43035851--43035892 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43035841 TTAGGGCTTG
* * *
43035851 GTGTTTATGGTTTACGGTTTA
1 GTGTTAATGATTTAAGGTTTA
43035872 GTGTTAATGATTTAAGGTTTA
1 GTGTTAATGATTTAAGGTTTA
43035893 CAATGTATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.50
Consensus pattern (21 bp):
GTGTTAATGATTTAAGGTTTA
Found at i:43035924 original size:14 final size:14
Alignment explanation
Indices: 43035901--43035956 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
43035891 TACAATGTAT
* *
43035901 GATTTTGGGTTTTG
1 GATTTAGGGTTTAG
43035915 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
* *
43035929 GGTTTAGTG-TTACG
1 GATTTAGGGTTTA-G
43035943 GATTTTAGGGTTTA
1 GA-TTTAGGGTTTA
43035957 ATTACTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 3 0.09
14 21 0.64
15 6 0.18
16 3 0.09
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (14 bp):
GATTTAGGGTTTAG
Found at i:43037444 original size:31 final size:31
Alignment explanation
Indices: 43037406--43037485 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
43037396 TTGGATTTTA
*
43037406 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
43037437 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
43037468 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
43037486 ATCAACCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:43039723 original size:43 final size:43
Alignment explanation
Indices: 43039662--43039759 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
43039652 TTTGTGGTTA
* * *
43039662 TTAGCGGCGATTGTGGGTAAAGCGCCGCTAAAGATCAT-ATTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGA-TCT
43039705 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
43039748 TTAGCGGCGTTT
1 TTAGCGGCGTTT
43039760 TTTCTCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 50 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
Found at i:43046476 original size:7 final size:7
Alignment explanation
Indices: 43046464--43046499 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
43046454 TCAATAAAAA
43046464 TTATTTT
1 TTATTTT
43046471 TTATTTT
1 TTATTTT
43046478 TTA--TT
1 TTATTTT
43046483 TTATTTT
1 TTATTTT
43046490 TTATTTT
1 TTATTTT
43046497 TTA
1 TTA
43046500 AATTTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
7 22 0.81
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTATTTT
Found at i:43046484 original size:12 final size:12
Alignment explanation
Indices: 43046469--43046496 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43046459 AAAAATTATT
43046469 TTTTATTTTTTA
1 TTTTATTTTTTA
43046481 TTTTATTTTTTA
1 TTTTATTTTTTA
43046493 TTTT
1 TTTT
43046497 TTAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:43046488 original size:19 final size:20
Alignment explanation
Indices: 43046464--43046514 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
43046454 TCAATAAAAA
*
43046464 TTATTTTTTATTTTTT-ATT
1 TTATTTTTTATTTTTTAAAT
43046483 TTATTTTTTATTTTTTAAAT
1 TTATTTTTTATTTTTTAAAT
43046503 TTATATTTTTAT
1 TTAT-TTTTTAT
43046515 CAAATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 16 0.55
20 6 0.21
21 7 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTTATTTTTTAAAT
Found at i:43048782 original size:15 final size:15
Alignment explanation
Indices: 43048759--43048789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43048749 ATTCAACCTT
*
43048759 TACCTTAACCATTTC
1 TACCCTAACCATTTC
43048774 TACCCTAACCATTTC
1 TACCCTAACCATTTC
43048789 T
1 T
43048790 TGATCAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (15 bp):
TACCCTAACCATTTC
Found at i:43051180 original size:26 final size:26
Alignment explanation
Indices: 43051151--43051217 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
43051141 CTTTATACCT
*
43051151 TATATGTACATATATATATTTACACA
1 TATATATACATATATATATTTACACA
* * * *
43051177 TATACATACATATTTTTATTTATACA
1 TATATATACATATATATATTTACACA
43051203 TATATACATACATAT
1 TATAT--ATACATAT
43051218 TTATCTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 25 0.76
28 8 0.24
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (26 bp):
TATATATACATATATATATTTACACA
Found at i:43051230 original size:28 final size:27
Alignment explanation
Indices: 43051157--43051231 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
43051147 ACCTTATATG
* *
43051157 TACATATATATA-TTTACACATATACA
1 TACATATTTATATTTTACATATATACA
*
43051183 TACATATTTTTATTTATACATATATACA
1 TACATATTTATATTT-TACATATATACA
*
43051211 TACATATTTATCTCTTTACAT
1 TACATATTTATAT-TTTACAT
43051232 TTTTAACCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.24
27 2 0.05
28 27 0.66
29 2 0.05
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.47
Consensus pattern (27 bp):
TACATATTTATATTTTACATATATACA
Found at i:43056221 original size:42 final size:42
Alignment explanation
Indices: 43056151--43056231 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
43056141 CTTAAAAAGG
*
43056151 GCAGCTCAAAAATTGATCAAAATGGGGCATAAGGTGATCAGA
1 GCAGCTCAAAAATTGATCAAAATAGGGCATAAGGTGATCAGA
** * * **
43056193 GCAGCTCAAATTTTGATCAGATTAGGGCATGTGGTGATC
1 GCAGCTCAAAAATTGATCAAAATAGGGCATAAGGTGATC
43056232 TTGCTATACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (42 bp):
GCAGCTCAAAAATTGATCAAAATAGGGCATAAGGTGATCAGA
Found at i:43057488 original size:44 final size:44
Alignment explanation
Indices: 43057429--43057642 Score: 182
Period size: 44 Copynumber: 4.9 Consensus size: 44
43057419 AAACCACCAC
* * * * *
43057429 TCCTATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
* * * *
43057473 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
* * * ** ** * *
43057517 TCTTATCTTCCC-AAGGTAGTAG-GGAAACAGATTTAA-ACCATCAG
1 TCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGATCGAAGACTGTAAA
* * *
43057561 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
*
43057605 TCCTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGAC
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
43057643 AGCGAATCTT
Statistics
Matches: 129, Mismatches: 35, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
43 16 0.12
44 95 0.74
45 18 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
Found at i:43057681 original size:132 final size:132
Alignment explanation
Indices: 43057287--43057659 Score: 586
Period size: 132 Copynumber: 2.8 Consensus size: 132
43057277 CAGATCGGTG
* * * *
43057287 AAACCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCCTGTCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
* * * *
43057352 TAAGCAGTAGTAGAGCAAATCGAAGACAATGAATCTTATCTTCCCAAGGTAGTAGGGAAATAGAT
66 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGAT
43057417 TT
131 TT
* * *
43057419 AAACCACCACTCCTATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
* *
43057484 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGAT
66 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGAT
43057549 TT
131 TT
* *
43057551 AAACCATCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTATCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
* *
43057616 TAAGCAGTACTGGAGCAGATCGAAGACAGCGAATCTTA-CTTCCC
66 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCC
43057660 TGGCGGTCCA
Statistics
Matches: 219, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
131 6 0.03
132 213 0.97
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (132 bp):
AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGAT
TT
Found at i:43057705 original size:50 final size:50
Alignment explanation
Indices: 43057644--43058207 Score: 425
Period size: 50 Copynumber: 11.3 Consensus size: 50
43057634 ATCGAAGACA
* * * *
43057644 GCGAATCTTACTTCCCTGGCGGTCCAGTGGAACAGATTGAAACTACAACG
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * * * ** * *
43057694 GTGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACA
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* ** * *
43057744 ACGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACAACG
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * ** * * * *
43057794 ACGAATCTTGCTT-CCTCAACATTGCAGTTGAAAAAATTGAAGCTACAACA
1 GCGAATCTTACTTCCCT-GGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* ** * * *
43057844 GTGAATCTTACTTTTTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
1 GCGAATCTTAC-TTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
** * * * * * * * *
43057895 ATGAATCTTGCTTCCCCGACATTGCAAT-TAAAAGATTGAGGCCACAACG
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * * * *
43057944 GCGAATCTTACTTCCCTAGCGGTGCATTGGAACATATTGAAGCTACAACG
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * * ** * * * *
43057994 GCGAATCTTGCTTCCAC-GACATTATAAT-TAAAAGATTGAAGCCACAACA
1 GCGAATCTTACTTCC-CTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * * *
43058043 GTGAATCTTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACAACA
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * * * * * * * *
43058093 ACGAATCTTGCTTCCCCGACATTACAGTTGAAAAGATTGAAACCACAACG
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
* * *
43058143 GCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACA
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
*
43058193 GTGAATCTTACTTCC
1 GCGAATCTTACTTCC
43058208 TCGACATTGC
Statistics
Matches: 383, Mismatches: 124, Indels: 14
0.74 0.24 0.03
Matches are distributed among these distances:
48 1 0.00
49 75 0.20
50 269 0.70
51 37 0.10
52 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
GCGAATCTTACTTCCCTGGCAGTGCAGTGGAAAAGATTGAAGCTACAACG
Found at i:43057818 original size:100 final size:100
Alignment explanation
Indices: 43057641--43058223 Score: 733
Period size: 100 Copynumber: 5.8 Consensus size: 100
43057631 CAGATCGAAG
* * ** *
43057641 ACAGCGAATCTTACTTCCCTGGCGGTCCAGTGGAACAGATTGAAACTACAACGGTGAATCTTACT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
*
43057706 TCCCTGACATTGCAATTAAAAAGATTGAAGCCACA
66 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * *
43057741 ACAACGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
* * * *
43057806 TCCTCAACATTGCAGTTGAAAAA-ATTGAAGCTACA
66 TCCCCGACATTGCAATT-AAAAAGATTGAAGCCACA
* ** * *
43057841 ACAGTGAATCTTACTTTTTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTGC
1 ACAGCGAATCTTAC-TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGC
*
43057906 TTCCCCGACATTGCAATT-AAAAGATTGAGGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * *
43057941 ACGGCGAATCTTACTTCCCTAGCGGTGCATTGGAACATATTGAAGCTACAACGGCGAATCTTGCT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
* **
43058006 TCCACGACATTATAATT-AAAAGATTGAAGCCACA
66 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * *
43058040 ACAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACAACAACGAATCTTGCT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
* * * *
43058105 TCCCCGACATTACAGTTGAAAAGATTGAAACCACA
66 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * *
43058140 ACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAAC-AGTGAATCTTAC
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGA-CGAATCTTGC
* *
43058204 TTCCTCGACATTGCAGTTAA
65 TTCCCCGACATTGCAATTAA
43058224 TTAAAACTGA
Statistics
Matches: 415, Mismatches: 63, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
99 147 0.35
100 204 0.49
101 64 0.15
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCT
TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
Found at i:43058474 original size:44 final size:46
Alignment explanation
Indices: 43058424--43058713 Score: 142
Period size: 45 Copynumber: 6.4 Consensus size: 46
43058414 TCAGACTTTA
* * * *
43058424 TGCAGTAAAGCAAG-TTAAAGCTACAAG-TCTTATCTCACTGAGGT
1 TGCAGTAGAGCAAGACTAAAGATACAAGATCTTATCTCACTGAAGT
* * *
43058468 TGCAGTAGA-CTAGACTAAAGATACCAGATCTTATCTCTCTGAAGT
1 TGCAGTAGAGCAAGACTAAAGATACAAGATCTTATCTCACTGAAGT
** * *
43058513 TGCAGTAGAGC-AGA-TCACACCATAACAAG-TCTTATCTCCCTAAAGT
1 TGCAGTAGAGCAAGACT-A-AAGAT-ACAAGATCTTATCTCACTGAAGT
* *
43058559 TGCAGT-GAAGC-AGACTGAAGATAGCAA-ACCTTATCTC-CTTGAAGT
1 TGCAGTAG-AGCAAGACTAAAGATA-CAAGATCTTATCTCAC-TGAAGT
* * ** * * * *
43058604 TACAGTGGAGC-AGGTTGAAGATACCTCAA-ACCTTATCACCCTGAAGT
1 TGCAGTAGAGCAAGACTAAAGATA---CAAGATCTTATCTCACTGAAGT
* * * * *
43058651 TGCAGTGGAGCAAG-TTGAAGATACAAG-TCTTATCTCCCTGACGT
1 TGCAGTAGAGCAAGACTAAAGATACAAGATCTTATCTCACTGAAGT
* *
43058695 TGCATTGGAGC-AGACTAAA
1 TGCAGTAGAGCAAGACTAAA
43058714 ACTACGAATC
Statistics
Matches: 199, Mismatches: 29, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.03
44 51 0.26
45 66 0.33
46 32 0.16
47 42 0.21
48 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (46 bp):
TGCAGTAGAGCAAGACTAAAGATACAAGATCTTATCTCACTGAAGT
Found at i:43058602 original size:91 final size:91
Alignment explanation
Indices: 43058446--43058616 Score: 213
Period size: 91 Copynumber: 1.9 Consensus size: 91
43058436 AGTTAAAGCT
* * * *
43058446 ACAAGTCTTATCTCACTGAGGTTGCAGTAGACTAGACTAAAGATACCAGATCTTATCTCTCTGAA
1 ACAAGTCTTATCTCACTAAAGTTGCAGTAGACTAGACTAAAGATACCAAACCTTATCTCTCTGAA
*
43058511 GTTGCAGTAGAGCAGATCACACCATA
66 GTTACAGTAGAGCAGATCACACCATA
* * *
43058537 ACAAGTCTTATCTCCCTAAAGTTGCAGT-GAAGC-AGACTGAAGATAGCAAACCTTATCTC-CTT
1 ACAAGTCTTATCTCACTAAAGTTGCAGTAG-A-CTAGACTAAAGATACCAAACCTTATCTCTC-T
*
43058599 GAAGTTACAGTGGAGCAG
63 GAAGTTACAGTAGAGCAG
43058617 GTTGAAGATA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
90 2 0.03
91 65 0.96
92 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (91 bp):
ACAAGTCTTATCTCACTAAAGTTGCAGTAGACTAGACTAAAGATACCAAACCTTATCTCTCTGAA
GTTACAGTAGAGCAGATCACACCATA
Found at i:43058610 original size:45 final size:44
Alignment explanation
Indices: 43058452--43058710 Score: 191
Period size: 45 Copynumber: 5.7 Consensus size: 44
43058442 AGCTACAAGT
* * * * * *
43058452 CTTATCTCACTGAGGTTGCAGTAGA-CTAGACTAAAGATACCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTGAAGATA-CAAAC
* * * * **
43058497 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACACCATAACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-A-GAT-ACAAAC
* *
43058543 CTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAAC
* * **
43058588 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATACCTCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA---CAAAC
* * **
43058635 CTTATCACCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATACAAAC
* *
43058679 CTTATCTCCCTGACGTTGCATTGGAGCAGACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
43058711 AAAACTACGA
Statistics
Matches: 173, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
44 32 0.18
45 66 0.38
46 33 0.19
47 42 0.24
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAAC
Found at i:43058651 original size:47 final size:46
Alignment explanation
Indices: 43058543--43058707 Score: 183
Period size: 47 Copynumber: 3.6 Consensus size: 46
43058533 CATAACAAGT
* * **
43058543 CTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGATA-GCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACGCAAAC
* * *
43058588 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATACCTCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CGCAAAC
* * **
43058635 CTTATCACCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA--CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACGCAAAC
* *
43058679 CTTATCTCCCTGACGTTGCATTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
43058708 ACTAAAACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 28 0.28
45 33 0.33
47 40 0.40
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACGCAAAC
Found at i:43060549 original size:26 final size:26
Alignment explanation
Indices: 43060520--43060586 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
43060510 CTTTATACCT
*
43060520 TATATGTACATATATATATTTACACA
1 TATATATACATATATATATTTACACA
* * * *
43060546 TATACATACATATTTTTATTTATACA
1 TATATATACATATATATATTTACACA
43060572 TATATACATACATAT
1 TATAT--ATACATAT
43060587 TTATCTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 25 0.76
28 8 0.24
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (26 bp):
TATATATACATATATATATTTACACA
Found at i:43060599 original size:28 final size:27
Alignment explanation
Indices: 43060526--43060600 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
43060516 ACCTTATATG
* *
43060526 TACATATATATA-TTTACACATATACA
1 TACATATTTATATTTTACATATATACA
*
43060552 TACATATTTTTATTTATACATATATACA
1 TACATATTTATATTT-TACATATATACA
*
43060580 TACATATTTATCTCTTTACAT
1 TACATATTTATAT-TTTACAT
43060601 TTTTAACCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.24
27 2 0.05
28 27 0.66
29 2 0.05
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.47
Consensus pattern (27 bp):
TACATATTTATATTTTACATATATACA
Found at i:43063845 original size:23 final size:22
Alignment explanation
Indices: 43063813--43063874 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
43063803 CCCGACCCGT
**
43063813 TTTTTAATTAAAATTAAATTTATA
1 TTTTT-ATTAAAATTAAAACTA-A
43063837 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
43063859 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
43063875 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 14 0.40
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:43063869 original size:16 final size:16
Alignment explanation
Indices: 43063848--43063904 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
43063838 TTTTATTAAA
*
43063848 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
43063864 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
43063880 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
43063896 ATTAAAATT
1 ATTAAAATT
43063905 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:43063987 original size:19 final size:18
Alignment explanation
Indices: 43063965--43064019 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
43063955 ATTTTGTTCT
43063965 TAAAATTATTAATTGTTA
1 TAAAATTATTAATTGTTA
* *
43063983 CTAAAATTATCAAATT-ATA
1 -TAAAATTAT-TAATTGTTA
*
43064002 TCAAATTATTAATTGTTA
1 TAAAATTATTAATTGTTA
43064020 ATTGTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.14
18 10 0.34
19 11 0.38
20 4 0.14
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (18 bp):
TAAAATTATTAATTGTTA
Found at i:43064098 original size:22 final size:20
Alignment explanation
Indices: 43064073--43064112 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
43064063 AAACTTAAAA
*
43064073 TAAAACTAAAACTAGTATATTT
1 TAAAAATAAAA-TA-TATATTT
43064095 TAAAAATAAAATATATAT
1 TAAAAATAAAATATATAT
43064113 ATATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TAAAAATAAAATATATATTT
Found at i:43064402 original size:26 final size:26
Alignment explanation
Indices: 43064337--43064403 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
43064327 AAACATTGAA
43064337 TTTTTTATTTTTTATATTTTTAAAATG
1 TTTTTT-TTTTTTATATTTTTAAAATG
*
43064364 TCTTTATTTTTTT-TATTTTTAAAGA-G
1 T-TTTTTTTTTTTATATTTTTAAA-ATG
43064390 TTTTTTTTATTTTA
1 TTTTTTTT-TTTTA
43064404 AAAATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 6 0.18
26 16 0.47
27 8 0.24
28 4 0.12
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTTTTTTTTTATATTTTTAAAATG
Found at i:43064567 original size:9 final size:8
Alignment explanation
Indices: 43064537--43064564 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
43064527 TGAAGGTTAA
43064537 AAAATTTT
1 AAAATTTT
43064545 AAAATTTT
1 AAAATTTT
43064553 AAAATTTT
1 AAAATTTT
43064561 AAAA
1 AAAA
43064565 ATTAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:43065683 original size:22 final size:22
Alignment explanation
Indices: 43065655--43065705 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
43065645 TTCTCTTAAA
* *
43065655 CTCTCAATTTCCTTTC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
43065676 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
43065699 CTCTCAA
1 CTCTCAA
43065706 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:43065702 original size:52 final size:52
Alignment explanation
Indices: 43065604--43065702 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
43065594 ACAAATCCTA
* **
43065604 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAACTTCTCTTAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
*
43065656 TCTCAATTTCCTTTCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
43065703 CAAATCCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.39
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
Found at i:43065782 original size:31 final size:31
Alignment explanation
Indices: 43065739--43065805 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
43065729 CCTCAATTTC
*
43065739 ATTTTTTTAAATAATTTCAAA-TTTTTTTAT
1 ATTTTTTAAAATAATTTCAAATTTTTTTTAT
*
43065769 ATTTTTTAAAAATAATTTTAAATTTTTTTTAT
1 ATTTTTT-AAAATAATTTCAAATTTTTTTTAT
43065801 ATTTT
1 ATTTT
43065806 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 7 0.21
31 12 0.36
32 14 0.42
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTTAAAATAATTTCAAATTTTTTTTAT
Found at i:43067395 original size:29 final size:29
Alignment explanation
Indices: 43067363--43067447 Score: 170
Period size: 29 Copynumber: 2.9 Consensus size: 29
43067353 CTAAGGTAGG
43067363 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAACCCTAACCTTAACCTAATTTAAT
43067392 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAACCCTAACCTTAACCTAATTTAAT
43067421 TAAAAACCCTAACCTTAACCTAATTTA
1 TAAAAACCCTAACCTTAACCTAATTTA
43067448 TGCATTCTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.31
Consensus pattern (29 bp):
TAAAAACCCTAACCTTAACCTAATTTAAT
Found at i:43072819 original size:121 final size:123
Alignment explanation
Indices: 43072509--43072852 Score: 595
Period size: 123 Copynumber: 2.8 Consensus size: 123
43072499 TTATTTCGAG
*
43072509 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCCTCTACCAGGATGCTGTTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
43072573 GAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTT
43072632 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
43072697 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAG-AAT-ATTGTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTT
* * *
43072753 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAATAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
43072818 AAATCGCACCCTCGTGGACGCGATTTTGCTACAGT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGT
43072853 TGCAAGTTTG
Statistics
Matches: 213, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
121 101 0.47
122 3 0.01
123 108 0.51
124 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTT
Found at i:43078220 original size:5 final size:5
Alignment explanation
Indices: 43078210--43078235 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43078200 CTCGAAAATT
43078210 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
43078236 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:43078906 original size:7 final size:7
Alignment explanation
Indices: 43078896--43078920 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43078886 TTATATACAT
43078896 AATACTA
1 AATACTA
43078903 AATACTA
1 AATACTA
43078910 AATACTA
1 AATACTA
43078917 AATA
1 AATA
43078921 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:43080040 original size:51 final size:51
Alignment explanation
Indices: 43079972--43080084 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
43079962 TTTAAAAAAT
* * *
43079972 GAAATTGAGGGGAAATTGAAATTAAATATGAATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGAAAATTGAAATTAAATATGAATTTGAAAGAATTTTGGAAG
* *
43080023 GAAATTGAGAGAAAATTGAAATTAAATATGAGTTTGAAAGATTTTTGGAAG
1 GAAATTGAGAGAAAATTGAAATTAAATATGAATTTGAAAGAATTTTGGAAG
43080074 GAAATTGAGAG
1 GAAATTGAGAG
43080085 GATTAGAGAG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGAAAATTGAAATTAAATATGAATTTGAAAGAATTTTGGAAG
Found at i:43081220 original size:13 final size:13
Alignment explanation
Indices: 43081204--43081262 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
43081194 TTTAAACTAA
43081204 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
43081217 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
43081230 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
43081243 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
43081256 ACTTTTC
1 ACTTTTC
43081263 CACAGCACCG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:43081243 original size:26 final size:26
Alignment explanation
Indices: 43081204--43081270 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
43081194 TTTAAACTAA
* * *
43081204 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCCACAGCACTTCTCAAAAGC
* *
43081230 ACTTTTCCACAGCACTTTTTAAAAGC
1 ACTTTTCCACAGCACTTCTCAAAAGC
43081256 ACTTTTCCACAGCAC
1 ACTTTTCCACAGCAC
43081271 CGAAGCACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (26 bp):
ACTTTTCCACAGCACTTCTCAAAAGC
Found at i:43081269 original size:13 final size:13
Alignment explanation
Indices: 43081230--43081270 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
43081220 TCTCAAAAGT
43081230 ACTTTTCCACAGC
1 ACTTTTCCACAGC
** *
43081243 ACTTTTTAAAAGC
1 ACTTTTCCACAGC
43081256 ACTTTTCCACAGC
1 ACTTTTCCACAGC
43081269 AC
1 AC
43081271 CGAAGCACTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (13 bp):
ACTTTTCCACAGC
Found at i:43099568 original size:24 final size:25
Alignment explanation
Indices: 43099527--43099575 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
43099517 TAAAAATCTA
43099527 AAAAAAATGTAATATTTAAAAAAAT
1 AAAAAAATGTAATATTTAAAAAAAT
* *
43099552 AAAAAATTGTACT-TTTAAAAAAAT
1 AAAAAAATGTAATATTTAAAAAAAT
43099576 TATGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAAAAATGTAATATTTAAAAAAAT
Found at i:43100099 original size:24 final size:26
Alignment explanation
Indices: 43100071--43100119 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43100061 TATATTTTTT
*
43100071 AAAATTTT-ATTTT-TTAAATATAAA
1 AAAATTTTAATTTTGTTAAAAATAAA
43100095 AAAATTTTAATTTTGTTAAAAATAA
1 AAAATTTTAATTTTGTTAAAAATAA
43100120 TACATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 5 0.23
26 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATTTTAATTTTGTTAAAAATAAA
Found at i:43105302 original size:16 final size:17
Alignment explanation
Indices: 43105273--43105305 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
43105263 TTTTATTTTT
43105273 ATTTTTAATCAAATATA
1 ATTTTTAATCAAATATA
*
43105290 ATTTTT-ATTAAATATA
1 ATTTTTAATCAAATATA
43105306 TATATTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTTAATCAAATATA
Found at i:43105376 original size:6 final size:7
Alignment explanation
Indices: 43105344--43105375 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
43105334 ATATTAAATA
43105344 TTTTTAT
1 TTTTTAT
43105351 TTTTTAT
1 TTTTTAT
*
43105358 TTTTTAG
1 TTTTTAT
43105365 TTTTTAT
1 TTTTTAT
43105372 TTTT
1 TTTT
43105376 AATCAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:43106427 original size:13 final size:13
Alignment explanation
Indices: 43106409--43106434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43106399 AAACCTATTT
43106409 GAACAACTTATAC
1 GAACAACTTATAC
43106422 GAACAACTTATAC
1 GAACAACTTATAC
43106435 TGAGATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
GAACAACTTATAC
Found at i:43108661 original size:3 final size:3
Alignment explanation
Indices: 43108653--43108690 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
43108643 CATTTAAATA
43108653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43108691 AAAACTAGAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:43112908 original size:20 final size:20
Alignment explanation
Indices: 43112874--43112915 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43112864 AACTATTTAA
** *
43112874 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
43112894 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
43112914 AT
1 AT
43112916 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:43130849 original size:21 final size:21
Alignment explanation
Indices: 43130804--43130900 Score: 144
Period size: 21 Copynumber: 4.7 Consensus size: 21
43130794 ATTTTCGAGA
*
43130804 ATATTCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
43130823 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
43130844 ATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGAT
*
43130865 ATATGCAATCTTAGATATAAT
1 ATATGCAATCTTAGATATGAT
*
43130886 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
43130901 AGATATGATT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.25
21 53 0.75
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:43130936 original size:21 final size:23
Alignment explanation
Indices: 43130892--43130936 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
43130882 TAATATATAC
*
43130892 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
43130915 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
43130936 A
1 A
43130937 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:43131315 original size:17 final size:17
Alignment explanation
Indices: 43131293--43131333 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43131283 AAATTAGTTA
43131293 ATTTTTAGGATGTAATT
1 ATTTTTAGGATGTAATT
***
43131310 ATTTTTTTTATGTAATT
1 ATTTTTAGGATGTAATT
43131327 ATTTTTA
1 ATTTTTA
43131334 ATTATATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (17 bp):
ATTTTTAGGATGTAATT
Found at i:43138043 original size:6 final size:6
Alignment explanation
Indices: 43138032--43138065 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43138022 AAAAAGTGAT
* *
43138032 AAAAAG AAAAAG AAAAGG AAAAGG AAAAGG AAAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAA
43138066 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:43139341 original size:44 final size:44
Alignment explanation
Indices: 43139293--43139477 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
43139283 AAGATTATAG
43139293 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* * ** **
43139337 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCATATTTAAGA-CACTAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGATGGC-AA
** * * * * * * * * * *
43139381 GCCTTGTCTCCTTGAGCAG-ACGCGGAGTAG-GCTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTA-GTGGAGCAGATC-AAAGATGGCAA
43139425 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
43139469 ATCTTATCT
1 ATCTTATCT
43139478 TTCCAAGATA
Statistics
Matches: 95, Mismatches: 34, Indels: 24
0.62 0.22 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 75 0.79
45 9 0.09
46 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
Found at i:43139479 original size:132 final size:132
Alignment explanation
Indices: 43139247--43139904 Score: 1039
Period size: 132 Copynumber: 5.0 Consensus size: 132
43139237 GTGAAACACT
* *
43139247 AAGCCTTGTCTCCCTGAGCAGCAACGGAGTAGGCTGAAGATTATAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
43139312 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAGACA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
43139377 CT
131 CC
*
43139379 AAGCCTTGTCTCCTTGAGCAG-ACGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCA
1 AAGCCTTGTCTCCCTGAGCAGCA-GCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCA
43139443 GTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
65 GTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
43139508 ACC
130 ACC
*
43139511 AAGCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
43139576 TAGTGGAGTAGATCAATGATGCCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
43139641 CC
131 CC
* * ** * * *
43139643 AAGCATTGTCTCCCTGAACAGCAGCGGAGTAGATTGAAAATTTTAGATCTTATCTCCTTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
43139708 TAGTGGAGCAGATCACAGACGGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
43139773 CC
131 CC
** * *
43139775 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGTTTGAAAATTTTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
43139840 TAATGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
43139905 ATAATCCTAT
Statistics
Matches: 489, Mismatches: 35, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 487 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:43139942 original size:44 final size:44
Alignment explanation
Indices: 43139890--43140494 Score: 253
Period size: 44 Copynumber: 14.0 Consensus size: 44
43139880 GATAGTGGGA
*
43139890 AGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* * ** * * * *
43139934 AGCGGATTAAA-ACTTTGGATCTTATCTCTCTGAAGTTGTAG-AG
1 AGCAGATTAAAGCCAAT-AATCTTATCTCCCTGAAGTTGCAGTGG
** * *
43139977 AGCA-A--ATCG-CATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCA-ATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
43140018 AGCAAACT-AAG-TAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-G
1 AGCAGATTAAAGCCAA-TAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * * *
43140061 AGGCAGACTGAAGATGGC-A-AATCTTATATCCCTGAAGTTACCGTGG
1 A-GCAGA-TTAA-A-GCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
43140107 AGCAGATTAAAGCCGATAATCCTATCTTCTTGAAGTTGCAGTTG
1 AGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
43140151 AGCGGATTAAAACC-TTGGATCTTATCTCTCTAAAGTTGCAG-AG
1 AGCAGATTAAAGCCAAT-AATCTTATCTCCCTGAAGTTGCAGTGG
* * *
43140194 AGCAGA-T--CG-CATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCA-ATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
43140235 AGCAGACT-CAG-CAAGCAAGTCTTATCTTCCTGAAGTTGTAGT-G
1 AGCAGATTAAAGCCAA-TAA-TCTTATCTCCCTGAAGTTGCAGTGG
* * *
43140278 AGGTAGACTGAAGATG-GAA-AATCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGA-TTAA-A-GCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
43140324 AGTAGATTAGAGCCGATAATCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * *
43140368 AGCGGATTAAAACC-TTGGATCTTATCTCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGCCAAT-AATCTTATCTCCCTGAAGTTGCAGTGG
*** * *
43140411 AGCAGA-TCGTGTC--TAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
* ** *
43140452 AGCAGACT-AAGTAAACAATTCTTATC-CTCCTGAAGTTGCAGTG
1 AGCAGATTAAAGCCAATAA-TCTTATCTC-CCTGAAGTTGCAGTG
43140495 AGGCAGACTA
Statistics
Matches: 418, Mismatches: 100, Indels: 86
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 63 0.15
41 24 0.06
42 10 0.02
43 38 0.09
44 216 0.52
45 49 0.12
46 10 0.02
47 2 0.00
48 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:43140099 original size:45 final size:43
Alignment explanation
Indices: 43139993--43140110 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 43
43139983 TCGCATCTAG
*
43139993 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAG
1 TCTTAT-TCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
* * *
43140037 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATTC-CCTGAAGTTGCAGTGGA-GCAAACT-AAGTA-AGCAAA
* *
43140082 TCTTATATCCCTGAAGTTACCGTGGAGCA
1 TCTTAT-TCCCTGAAGTTGCAGTGGAGCA
43140111 GATTAAAGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
43 3 0.05
44 27 0.44
45 28 0.46
46 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TCTTATTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
Found at i:43140128 original size:217 final size:217
Alignment explanation
Indices: 43139890--43140503 Score: 1003
Period size: 217 Copynumber: 2.8 Consensus size: 217
43139880 GATAGTGGGA
* *
43139890 AGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTGGATC
1 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATC
* *
43139955 TTATCTCTCTGAAGTTGTAGAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
43140020 CAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCT
131 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCT
*
43140085 TATATCCCTGAAGTTACCGTGG
196 TATATCCCTGAAGTTACAGTGG
* * *
43140107 AGCAGATTAAAGCCGATAATCCTATCTTCTTGAAGTTGCAGTTGAGCGGATTAAAACCTTGGATC
1 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATC
*
43140172 TTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
43140237 CAGACTCAGCAAGCAAGTCTTATCTTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGAAAATCT
131 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCT
* *
43140302 TATCTCCCTGAAGTTGCAGTGG
196 TATATCCCTGAAGTTACAGTGG
* * *
43140324 AGTAGATTAGAGCCGATAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATC
1 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATC
**
43140389 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGTGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
43140454 CAGACTAAGTAAACAATTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
131 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
43140504 AAATAAACAA
Statistics
Matches: 363, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 363 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (217 bp):
AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATC
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCT
TATATCCCTGAAGTTACAGTGG
Found at i:43140475 original size:84 final size:84
Alignment explanation
Indices: 43139952--43140504 Score: 290
Period size: 84 Copynumber: 6.4 Consensus size: 84
43139942 AAAACTTTGG
* * * * *
43139952 ATCTTATCTCTCTGAAGTTGTAGAGAGCA-AATCGCA-TCTAGTCTTATCTCCCTGAAGTTGCAG
1 ATCTTATCTCTCTGAAGTTGCAGTGAGCAGACTAG-AGCCTAGTCTTATCTCCCTGAAGTTGCAG
* *
43140015 TGGAGCAAACTAAGTAAGCA
65 TGGAGCAGACTAAGTAAACA
* * * *
43140035 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATATCCCTGAAGT
1 A-TCTTATCTCT-CTGAAGTTGCAGTGA-GCAGACT--AGA-GCCTAGTCTTATCTCCCTGAAGT
* * * *** *
43140099 TACCGTGGAGCAGATTAAAGCCGATA
60 TGCAGTGGAGCAGACT-AAGTAAACA
* * * * * * * *
43140125 ATCCTATCT-TCTTGAAGTTGCAGTTGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGTTG
1 ATCTTATCTCTC-TGAAGTTGCAG-TGAGCAGACTAGAGCC-TAG-TCTTATCTCCCTGAAGTTG
* * * *
43140189 CAG-AGAGCAGA-T-CG-CATCTA
62 CAGTGGAGCAGACTAAGTAAAC-A
* * * *
43140209 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAGCAAG-CAAGTCTTATCTTCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGT-GAGCAGACT-AG--AGCCTAGTCTTATCTCCCTGAAGTTG
* * *
43140273 TAGT-GAGGTAGACTGAAGATGGAA-A
62 CAGTGGA-GCAGACT-AAG-T-AAACA
* * * *
43140298 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAGAGCCGATAATCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCTCTGAAGTTGCAGT-GAGCAGACTAGAGCC--TAGTCTTATCTCCCTGAAGTTGC
* * * *
43140363 AGTGGAGCGGATTAA--AACCTTGG
63 AGTGGAGCAGACTAAGTAAAC---A
* * * *
43140386 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-TCGTGTCTAGTCTTATCTCCCTGAAGTTGCAGT
1 ATCTTATCTCTCTGAAGTTGCAGTGAGCAGACTAGAGCCTAGTCTTATCTCCCTGAAGTTGCAGT
43140450 GGAGCAGACTAAGTAAACA
66 GGAGCAGACTAAGTAAACA
43140469 ATTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTA
1 A-TCTTATCTCT-CTGAAGTTGCAGTGA-GCAGACTA
43140505 AATAAACAAA
Statistics
Matches: 349, Mismatches: 79, Indels: 81
0.69 0.16 0.16
Matches are distributed among these distances:
83 8 0.02
84 124 0.36
85 15 0.04
86 16 0.05
87 18 0.05
88 46 0.13
89 111 0.32
90 10 0.03
91 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (84 bp):
ATCTTATCTCTCTGAAGTTGCAGTGAGCAGACTAGAGCCTAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTAAGTAAACA
Found at i:43140501 original size:44 final size:44
Alignment explanation
Indices: 43140210--43140540 Score: 177
Period size: 44 Copynumber: 7.6 Consensus size: 44
43140200 TCGCATCTAG
* ** * *
43140210 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAT
* * * *
43140254 TCTTATCTTCCTGAAGTTGTAGT-GAGGTAGACTGAAGATGGAA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AA-AT-AAACAAT
* * **** *
43140299 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAGAGCCGATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AATAAACAAT
* * **
43140343 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-T-TA-AAACCTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAT
* * ** ** * *
43140384 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGT-GTCTAG
1 ---TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAT
*
43140427 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAT
*
43140471 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAATAAACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAATAAACAAT
* * *
43140515 TCCTGTCTCCCT-AAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
43140541 TGGATTAGAG
Statistics
Matches: 221, Mismatches: 46, Indels: 41
0.72 0.15 0.13
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 1 0.00
43 27 0.12
44 129 0.58
45 30 0.14
46 4 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAT
Found at i:43140878 original size:19 final size:19
Alignment explanation
Indices: 43140851--43140913 Score: 99
Period size: 19 Copynumber: 3.2 Consensus size: 19
43140841 ATTTTCGAGA
*
43140851 ATATCCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
43140870 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
43140889 ATATATGCAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
43140910 ATAT
1 ATAT
43140914 ATACAATCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:43140931 original size:19 final size:21
Alignment explanation
Indices: 43140851--43140933 Score: 120
Period size: 21 Copynumber: 4.1 Consensus size: 21
43140841 ATTTTCGAGA
*
43140851 ATATCCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
43140870 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
43140891 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
43140912 ATATACAATCTTAGA-A-GAT
1 ATATGCAATCTTAGATATGAT
43140931 ATA
1 ATA
43140934 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
19 24 0.40
20 1 0.02
21 35 0.58
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:43140932 original size:40 final size:40
Alignment explanation
Indices: 43140851--43140933 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
43140841 ATTTTCGAGA
*
43140851 ATATCCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATCCAATCTTAGATATGATATACAATCTTAGATATGAT
*
43140891 ATATGCAATCTTAGATATGATATATACAATCTTAGA-A-GAT
1 ATATCCAATCTTAGATATG--ATATACAATCTTAGATATGAT
43140931 ATA
1 ATA
43140934 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 24 0.62
41 1 0.03
42 14 0.36
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (40 bp):
ATATCCAATCTTAGATATGATATACAATCTTAGATATGAT
Found at i:43141336 original size:17 final size:17
Alignment explanation
Indices: 43141314--43141354 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43141304 AAATTAGTTA
43141314 ATTTTTAGGATGTAATT
1 ATTTTTAGGATGTAATT
***
43141331 ATTTTTTTTATGTAATT
1 ATTTTTAGGATGTAATT
43141348 ATTTTTA
1 ATTTTTA
43141355 ATTATATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (17 bp):
ATTTTTAGGATGTAATT
Found at i:43144879 original size:50 final size:49
Alignment explanation
Indices: 43144821--43144933 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
43144811 AAAGCTTGAG
* * * *
43144821 GTCTCGAGACAATGATCCTTTAAAGCAAACCTTAGCTTTGATGTTGGCTA
1 GTCTCGAGACAAGGATCCCTTAAAGC-AACCTTAGCTTTAATGTAGGCTA
* * ** * *
43144871 GTCTCGAGACAAGGTTCCCTTGAAGCAATTTTAGCTTTAATGTAGGTTT
1 GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTAATGTAGGCTA
43144920 GTCTCGAGACAAGG
1 GTCTCGAGACAAGG
43144934 TTGGGAACCT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
49 31 0.58
50 22 0.42
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (49 bp):
GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTAATGTAGGCTA
Found at i:43145909 original size:13 final size:13
Alignment explanation
Indices: 43145891--43145915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43145881 ATGTCCATTT
43145891 CAGATACAGATAA
1 CAGATACAGATAA
43145904 CAGATACAGATA
1 CAGATACAGATA
43145916 TGAAGATCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
CAGATACAGATAA
Found at i:43147338 original size:9 final size:9
Alignment explanation
Indices: 43147320--43147366 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
43147310 AGGCTTGAAC
*
43147320 CAAAAATAA
1 CAAAATTAA
43147329 CAAAATTAA
1 CAAAATTAA
*
43147338 CAAAATTAC
1 CAAAATTAA
*
43147347 CAAAAATAA
1 CAAAATTAA
43147356 CAAAATTAA
1 CAAAATTAA
43147365 CA
1 CA
43147367 GCTGTGTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (9 bp):
CAAAATTAA
Found at i:43152909 original size:13 final size:13
Alignment explanation
Indices: 43152891--43152915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43152881 ATGTCCATTT
43152891 CAGATACAAATAA
1 CAGATACAAATAA
43152904 CAGATACAAATA
1 CAGATACAAATA
43152916 TGCAGATCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
CAGATACAAATAA
Found at i:43158634 original size:12 final size:12
Alignment explanation
Indices: 43158617--43158669 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
43158607 ACTAATCCTC
43158617 TCTCAAATTTCT
1 TCTCAAATTTCT
*
43158629 TCTC-AATTTCC
1 TCTCAAATTTCT
43158640 TCTC-AATTTCCT
1 TCTCAAATTT-CT
*
43158652 TCT-AAAATTC-
1 TCTCAAATTTCT
43158662 TCTCAAAT
1 TCTCAAAT
43158670 CCATATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 3 0.09
11 19 0.56
12 12 0.35
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCT
Found at i:43158664 original size:22 final size:21
Alignment explanation
Indices: 43158615--43158667 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
43158605 AAACTAATCC
* *
43158615 TCTCTCAAATTTCTTCTCAATT
1 TCTCTC-AATTTCTTCTAAAAT
43158637 TCCTCTCAATTTCCTTCTAAAAT
1 T-CTCTCAATTT-CTTCTAAAAT
43158660 TCTCTCAA
1 TCTCTCAA
43158668 ATCCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (21 bp):
TCTCTCAATTTCTTCTAAAAT
Found at i:43158746 original size:12 final size:12
Alignment explanation
Indices: 43158731--43158755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43158721 CCCTTTTTTT
43158731 AAATAATTTTAA
1 AAATAATTTTAA
43158743 AAATAATTTTAA
1 AAATAATTTTAA
43158755 A
1 A
43158756 TTTTTTTTTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:43161401 original size:123 final size:123
Alignment explanation
Indices: 43161181--43161405 Score: 405
Period size: 123 Copynumber: 1.8 Consensus size: 123
43161171 CCCAAACATG
*
43161181 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGAATCCTGC
** *
43161246 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAATATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAATATTTCTTCCATGAC
43161304 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGAATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGAATCCTGC
*
43161369 TAGAAGCGATTTTGTACTATTTGATCACAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAA
43161406 CTCGAAATTA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGAATCCTGC
TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAATATTTCTTCCATGAC
Found at i:43164699 original size:256 final size:255
Alignment explanation
Indices: 43164245--43164756 Score: 907
Period size: 256 Copynumber: 2.0 Consensus size: 255
43164235 AAACTATCAT
* *
43164245 TTCATATCTTTCAGTGATTTTTTACAATCTTTGGATTTTGCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* * *
43164310 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTGATGCCCTGAGTGTAGTATTTTTGTTTGTAA
66 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAATATTTTTGTTTGAAA
*
43164375 ACTTGTAATTTTTTTGAATATATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
131 ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
* *
43164440 TATAATTGTCCTTATGTGGTTTTTGCATGCAAAGCAAAATAGAAGTAAATATTGGCTTAC
196 TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
43164500 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* *
43164565 GATAGAAATGGTAAGAGGTTTCTAGTGTTGGATCTAATGCCCTGAGTGTAATATTTTTTTTTGAA
66 GATAGAAATGGTAAGAAGTTTCTA-TGTTGGATCTAATGCCCTGAGTGTAATATTTTTGTTTGAA
* *
43164630 AACTTGTAATTTTTTTGAATAGATTGGTTAATAAAATAATTCATGGATTATATTAATTATACTTT
130 AACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTT
43164695 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
195 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
43164756 T
1 T
43164757 GGTTGTCTAA
Statistics
Matches: 244, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
255 86 0.35
256 158 0.65
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (255 bp):
TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAATATTTTTGTTTGAAA
ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
Found at i:43166026 original size:13 final size:13
Alignment explanation
Indices: 43165992--43166082 Score: 85
Period size: 13 Copynumber: 7.1 Consensus size: 13
43165982 TCTATTTCCT
*
43165992 TATAATCAATTCA
1 TATAATCATTTCA
43166005 TATAA-CATTTCA
1 TATAATCATTTCA
*
43166017 TGTAATCATTTCA
1 TATAATCATTTCA
* **
43166030 TATAACCATTTTG
1 TATAATCATTTCA
*
43166043 TATAACCATTTCA
1 TATAATCATTTCA
* *
43166056 TCTAAACATTTCA
1 TATAATCATTTCA
* *
43166069 TTTTATCATTTCA
1 TATAATCATTTCA
43166082 T
1 T
43166083 TTACACATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.16
13 54 0.84
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (13 bp):
TATAATCATTTCA
Found at i:43166039 original size:26 final size:25
Alignment explanation
Indices: 43165992--43166092 Score: 94
Period size: 26 Copynumber: 3.9 Consensus size: 25
43165982 TCTATTTCCT
*
43165992 TATAATCAATTCATATAACATTTCA
1 TATAATCATTTCATATAACATTTCA
* **
43166017 TGTAATCATTTCATATAACCATTTTG
1 TATAATCATTTCATATAA-CATTTCA
* *
43166043 TATAACCATTTCATCTAAACATTTCA
1 TATAATCATTTCATAT-AACATTTCA
* * *
43166069 TTTTATCATTTCATTTACACATTT
1 TATAATCATTTCATATA-ACATTT
43166093 AGCACAGAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
25 17 0.28
26 41 0.68
27 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.46
Consensus pattern (25 bp):
TATAATCATTTCATATAACATTTCA
Found at i:43166091 original size:13 final size:12
Alignment explanation
Indices: 43166001--43166092 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
43165991 TTATAATCAA
*
43166001 TTCATATAACAT
1 TTCATTTAACAT
*
43166013 TTCATGTAATCAT
1 TTCATTTAA-CAT
*
43166026 TTCATATAACCAT
1 TTCATTTAA-CAT
** *
43166039 TTTGTATAACCAT
1 TTCATTTAA-CAT
*
43166052 TTCATCTAAACAT
1 TTCAT-TTAACAT
*
43166065 TTCATTTTATCAT
1 TTCA-TTTAACAT
43166078 TTCATTTACACAT
1 TTCATTTA-ACAT
43166091 TT
1 TT
43166093 AGCACAGAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
12 12 0.19
13 49 0.77
14 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (12 bp):
TTCATTTAACAT
Found at i:43166316 original size:25 final size:25
Alignment explanation
Indices: 43166252--43166316 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
43166242 CACGGGAAAG
* *
43166252 ATGCTCATACAAGCTGTAACTGTAA
1 ATGCTCACACAAGCTATAACTGTAA
* * *
43166277 TTGCTCTCA-AGAGCTATATCTGTAA
1 ATGCTCACACA-AGCTATAACTGTAA
43166302 ATGCTCACACAAGCT
1 ATGCTCACACAAGCT
43166317 GCGAAATGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
ATGCTCACACAAGCTATAACTGTAA
Found at i:43185865 original size:21 final size:21
Alignment explanation
Indices: 43185819--43185866 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
43185809 TAATTTTGTG
*
43185819 ATATTTTTATAAATTAGCTTT
1 ATATTTTTATAAATTAGATTT
*
43185840 ATATTTTTACTAAATTATATTT
1 ATATTTTTA-TAAATTAGATTT
43185862 -TATTT
1 ATATTT
43185867 ATTTCCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATTTTTATAAATTAGATTT
Found at i:43191020 original size:546 final size:547
Alignment explanation
Indices: 43189978--43191070 Score: 1706
Period size: 546 Copynumber: 2.0 Consensus size: 547
43189968 CGAACGACGA
* * *
43189978 AAGCCAAAAATGGGGCTGTCGATGCCACACGTCCGTGTACCAGGCCGTGTGGCAGGCCGTGTGTG
1 AAGCCAAAAATGGGGCTATCGACGCCACACGTCCGTGTACCAGGCCGTGTGGCAGACCGTGTGTG
* **
43190043 ACACATAATTGTGTAAGTCACTAACTTGGGTCACACGGGCATGTGCCCAGACCGTGCAAAGGACT
66 ACACATAATCGTGTAAGTCACTAACTTGGGTCACACGAACATGTGCCCAGACCGTGCAAAGGACT
* * *
43190108 GATTTTTTATTAGAGTTACGCGGGAGTGTGACACAACCGTGTGGGCCACACGGGCCAGCCATTTA
131 GATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGGCCACACGGGCCAGCCATTTA
* ** *
43190173 GGCAATGCGAATCCATACGGGTGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAATGT
196 GGCAATGCGAATCCACACGGACGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAACGT
*
43190238 TTTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCGAA
261 TGTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCGAA
* * * *
43190303 ATCTGGTTATCTGTTAGTGTGTAATTTGTTATTTATACGTATGTATAATATGACATAAGTTAAGT
326 ACCTGGTGATCTGTTAGTGTATAATTTGTTATCTATACGTATGTATAATATGACATAAGTTAAGT
* * *
43190368 AGTATGATTTGTTAGCGTATAATGTGCTTTTGCTTGGGGTGTGTTTAAGGTATGTGATTTATTCA
391 AGTATGATTTGTTAGCATATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATTCA
43190433 GGTATGACCCGTGTTCTATTAATTTTGATAGTACATTTTTGTGTTACTTTGTTGGATGAGAACAT
456 GGTATGACCCGTGTTCTATTAATTTTGATAGTACATTTTTGTGTTACTTTGTTGGATGAGAACAT
43190498 GCAATATCTGAATATGTTGATTTGTCT
521 GCAATATCTGAATATGTTGATTTGTCT
* *
43190525 AAGCCAAAAATGGGGCTATCGACGCCACACAG-CCGTGTACTAGGCCGTGTGGTAGACCGTGTGT
1 AAGCCAAAAATGGGGCTATCGACGCCACAC-GTCCGTGTACCAGGCCGTGTGGCAGACCGTGTGT
* * * * * * * *
43190589 GACACATAGTCGTGTGAGTCACTAATTTGGGTCACACGAACGTGTGCCTAGACTGTGCAAGGGAT
65 GACACATAATCGTGTAAGTCACTAACTTGGGTCACACGAACATGTGCCCAGACCGTGCAAAGGAC
* * * *
43190654 TGATTTTTTATTAGAGTTACACAGGCGTGTGACACGACTATGTGGGCTACAC-GGCCAGCCATTT
130 TGATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGGCCACACGGGCCAGCCATTT
** * * *
43190718 AGGCTGTGTGAATTCACACGGACGTGTGGGCCGAAAA-TCTAAAATTTTCCCTAGGGCTATAAAC
195 AGGCAATGCGAATCCACACGGACGTGTGGGCC-AAAATTCTAAAATTTTCCCTAGGGCCATAAAC
* * * *
43190782 GTTGTTTGGATCGAACGCAAGCTTTCCGTAGGGTCTGTATGATATGTATTAAGTTATAAAACTCG
259 GTTGTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCG
* *
43190847 AAACCTGGTGATCTGTTAGTGTATAATTTGTTATCTGTACGTATGTCTAATATGACATAAGTTAA
324 AAACCTGGTGATCTGTTAGTGTATAATTTGTTATCTATACGTATGTATAATATGACATAAGTTAA
43190912 GTAGTATGATTTGTTAGCATATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATT
389 GTAGTATGATTTGTTAGCATATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATT
* * *
43190977 CAGGTATGACCCGTGTTCTGTTAATTTTGATGGTACGTTTTTGTGTTACTTTGTTGGATGAGAAC
454 CAGGTATGACCCGTGTTCTATTAATTTTGATAGTACATTTTTGTGTTACTTTGTTGGATGAGAAC
43191042 ATGCAATATCTGAATATGTTGATTTGTCT
519 ATGCAATATCTGAATATGTTGATTTGTCT
43191071 GATATTGATT
Statistics
Matches: 495, Mismatches: 49, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
546 334 0.67
547 160 0.32
548 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (547 bp):
AAGCCAAAAATGGGGCTATCGACGCCACACGTCCGTGTACCAGGCCGTGTGGCAGACCGTGTGTG
ACACATAATCGTGTAAGTCACTAACTTGGGTCACACGAACATGTGCCCAGACCGTGCAAAGGACT
GATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGGCCACACGGGCCAGCCATTTA
GGCAATGCGAATCCACACGGACGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAACGT
TGTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCGAA
ACCTGGTGATCTGTTAGTGTATAATTTGTTATCTATACGTATGTATAATATGACATAAGTTAAGT
AGTATGATTTGTTAGCATATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATTCA
GGTATGACCCGTGTTCTATTAATTTTGATAGTACATTTTTGTGTTACTTTGTTGGATGAGAACAT
GCAATATCTGAATATGTTGATTTGTCT
Found at i:43197396 original size:18 final size:17
Alignment explanation
Indices: 43197326--43197396 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 17
43197316 CCACATCAGC
* *
43197326 AATTAATTAATTTTTAA
1 AATTAAATAATTTTAAA
43197343 AATTAAAT-ATTATTGAAA
1 AATTAAATAATT-TT-AAA
*
43197361 AATATAAAAAAATTTTAAA
1 AAT-T-AAATAATTTTAAA
*
43197380 AATTAATTAATTGTTAA
1 AATTAAATAATT-TTAA
43197397 TGTGGCAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
16 3 0.07
17 15 0.35
18 10 0.23
19 7 0.16
20 5 0.12
21 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATTAAATAATTTTAAA
Done.