Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 91 of 205
Found at i:26518703 original size:14 final size:14
Alignment explanation
Indices: 26518684--26518713 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26518674 AGAAAGAAAG
*
26518684 AAAATTGAAAAGAA
1 AAAATTAAAAAGAA
26518698 AAAATTAAAAAGAA
1 AAAATTAAAAAGAA
26518712 AA
1 AA
26518714 TAGGAGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAATTAAAAAGAA
Found at i:26519515 original size:18 final size:18
Alignment explanation
Indices: 26519492--26519527 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26519482 CTTAAGTGTA
26519492 TAACCATCAACTCAACAC
1 TAACCATCAACTCAACAC
26519510 TAACCATCAACTCAACAC
1 TAACCATCAACTCAACAC
26519528 CTATCGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (18 bp):
TAACCATCAACTCAACAC
Found at i:26523775 original size:27 final size:27
Alignment explanation
Indices: 26523745--26523922 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26523735 ATATTGAGTC
* * * *
26523745 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
26523772 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26523799 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
26523827 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
26523854 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
26523881 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26523908 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26523923 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:26523884 original size:82 final size:81
Alignment explanation
Indices: 26523766--26523921 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26523756 TGCTATATAA
* *
26523766 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
26523831 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
26523848 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
26523912 CACTTAGTGC
65 CACTTAGTGC
26523922 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26524427 original size:12 final size:12
Alignment explanation
Indices: 26524410--26524436 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26524400 ATGGCATACT
26524410 TATGTATATATA
1 TATGTATATATA
26524422 TATGTATATATA
1 TATGTATATATA
26524434 TAT
1 TAT
26524437 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:26529485 original size:8 final size:9
Alignment explanation
Indices: 26529461--26529485 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26529451 AAATTATAAT
26529461 TTTAAAAAC
1 TTTAAAAAC
26529470 TTTAAAAAC
1 TTTAAAAAC
26529479 TTTAAAA
1 TTTAAAA
26529486 TTAACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
TTTAAAAAC
Found at i:26535704 original size:25 final size:26
Alignment explanation
Indices: 26535662--26535710 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
26535652 TTTAAAAATT
*
26535662 TTGAGTGACTAAATTAAAA-AAATAG
1 TTGAGTGACTAAAATAAAACAAATAG
26535687 TTGAGTGA-TCAAAATAAAACAAAT
1 TTGAGTGACT-AAAATAAAACAAAT
26535711 TAAATAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 16 0.76
26 4 0.19
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (26 bp):
TTGAGTGACTAAAATAAAACAAATAG
Found at i:26535950 original size:76 final size:77
Alignment explanation
Indices: 26535831--26535979 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 77
26535821 GACGAAATTG
* * * *
26535831 TTTTTCTATAATATTACTAAATGTGACATTTAAATATATTTATAATTTAATTTAAAATAATTATT
1 TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
26535896 TAACATTTGCCC
66 TAACATTTGCCC
* *
26535908 TTTTTCTATCATATTATTAAA-GTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
1 TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
*
26535972 TAATATTT
66 TAACATTT
26535980 AAATAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 46 0.71
77 19 0.29
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (77 bp):
TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
TAACATTTGCCC
Found at i:26537739 original size:13 final size:14
Alignment explanation
Indices: 26537723--26537751 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26537713 AATTTGAATA
26537723 TATTTTTAA-TATT
1 TATTTTTAATTATT
26537736 TATTTTTAATTATT
1 TATTTTTAATTATT
26537750 TA
1 TA
26537752 GGAAGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTTAATTATT
Found at i:26546494 original size:14 final size:14
Alignment explanation
Indices: 26546471--26546512 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
26546461 ATAGGATAGG
*
26546471 ATTTTGTTTATTTT
1 ATTTTATTTATTTT
*
26546485 ATTTTATTTAGTTT
1 ATTTTATTTATTTT
*
26546499 ATTTTATTAATTTT
1 ATTTTATTTATTTT
26546513 TGAAAAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:26547309 original size:21 final size:21
Alignment explanation
Indices: 26547267--26547312 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26547257 GTCTGCCCAT
* *
26547267 ACGGTCGTGTACCTTAGCCAC
1 ACGGCCGTGTACCTTAGACAC
26547288 ACGGCCGTGTACCTCT-GACAC
1 ACGGCCGTGTACCT-TAGACAC
26547309 ACGG
1 ACGG
26547313 TCTAAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.20
Consensus pattern (21 bp):
ACGGCCGTGTACCTTAGACAC
Found at i:26555523 original size:18 final size:18
Alignment explanation
Indices: 26555500--26555553 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
26555490 CTTCTAGGGC
26555500 TCGCATACATATAAAGGT
1 TCGCATACATATAAAGGT
* *
26555518 TCGCATACATATGAGGGT
1 TCGCATACATATAAAGGT
*
26555536 TCGTATACATATAAAGGT
1 TCGCATACATATAAAGGT
26555554 AATAAGTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (18 bp):
TCGCATACATATAAAGGT
Found at i:26560309 original size:29 final size:29
Alignment explanation
Indices: 26560277--26560536 Score: 259
Period size: 29 Copynumber: 9.1 Consensus size: 29
26560267 TAAGTGAGCA
*
26560277 TTTGTGGCTATCTCTGTTATAAGGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
*
26560306 TTTGTGGCTA--TCT-TTGAAAGGACA-CC
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
* * *
26560332 TTTGTGGTTATCTCTGTTATAAGAAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
*
26560361 TTTGTGGCTATCTCTGTTAAAAGAAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* * *
26560390 TTTGTGGCGATCTTTATTATAAA-GAAGCC
1 TTTGTGGCTATCTCTGTTA-AAAGGAAGCC
*
26560419 TTTGTGGCTATCTCTGTTAAAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* **
26560448 TTTATGGCTATCTCTGTTAAAAACATAG-C
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
*
26560477 TTTGTGGCTATCT-TAGTT-AAATGAATGCC
1 TTTGTGGCTATCTCT-GTTAAAAGGAA-GCC
* *
26560506 -TTGTGGCAAACTCTGTTAAAAGGAACGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAA-GCC
26560535 TT
1 TT
26560537 CTTGGTGAGA
Statistics
Matches: 190, Mismatches: 27, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
26 18 0.09
27 5 0.03
28 26 0.14
29 136 0.72
30 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGCC
Found at i:26560463 original size:87 final size:85
Alignment explanation
Indices: 26560281--26560536 Score: 288
Period size: 87 Copynumber: 3.0 Consensus size: 85
26560271 TGAGCATTTG
* * * * *
26560281 TGGCTATCTCTGTTATAAGGAAGCCTTTGTGGCTATCTT-TGAAAGGACA-CCTTTGTGGTTATC
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTTATTAAAAGA-AGCCTTTGTGGCTATC
* * *
26560344 TCTGTTATAAGAAAGCCTTTG
65 TCTGTTAAAAGGAAGCCTTTA
*
26560365 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCGATCTTTATTATAAAGAAGCCTTTGTGGCTAT
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATC-TTATTA-AAAGAAGCCTTTGTGGCTAT
*
26560430 CTCTGTTAAAAGGATGCCTTTA
64 CTCTGTTAAAAGGAAGCCTTTA
* *
26560452 TGGCTATCTCTGTTAAAA-ACATAG-CTTTGTGGCTATCTTAGTTAAATGAATGCC-TTGTGGCA
1 TGGCTATCTCTGTTAAAAGA-A-AGCCTTTGTGGCTATCTTA-TTAAAAGAA-GCCTTTGTGGCT
*
26560514 AACTCTGTTAAAAGGAACGCCTT
62 ATCTCTGTTAAAAGGAA-GCCTT
26560537 CTTGGTGAGA
Statistics
Matches: 148, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
84 34 0.23
85 2 0.01
86 34 0.23
87 76 0.51
88 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (85 bp):
TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTTATTAAAAGAAGCCTTTGTGGCTATCT
CTGTTAAAAGGAAGCCTTTA
Found at i:26561349 original size:15 final size:15
Alignment explanation
Indices: 26561329--26561360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26561319 TTAAGAATGC
*
26561329 TTCTCAAAAGTGCTT
1 TTCTCAAAAGTACTT
26561344 TTCTCAAAAGTACTT
1 TTCTCAAAAGTACTT
26561359 TT
1 TT
26561361 AAGGAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (15 bp):
TTCTCAAAAGTACTT
Found at i:26576481 original size:13 final size:12
Alignment explanation
Indices: 26576458--26576531 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 12
26576448 AGTCATTGGC
26576458 AAAAA-GAAAGA
1 AAAAAGGAAAGA
26576469 AAAAGAGGAAAG-
1 AAAA-AGGAAAGA
26576481 -AAAAGGAAAG-
1 AAAAAGGAAAGA
* *
26576491 GAGAAGGAGAAGA
1 AAAAAGGA-AAGA
26576504 AAAAA-GAAAGAA
1 AAAAAGGAAAG-A
26576516 AAAGAAGGAAAGA
1 AAA-AAGGAAAGA
26576529 AAA
1 AAA
26576532 GGAAAGGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
10 7 0.13
11 16 0.31
12 10 0.19
13 14 0.27
14 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAGA
Found at i:26576490 original size:5 final size:5
Alignment explanation
Indices: 26576474--26576544 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
26576464 AAAGAAAAAG
* * * * *
26576474 AGGAA AGAAA AGGAA AGGAGA AGGAGA AGAAAA AAGAA AGAAA AAG-A
1 AGGAA AGGAA AGGAA AGGA-A AGGA-A AG-GAA AGGAA AGGAA AGGAA
*
26576521 AGGAA AGAAA AGGAA AGGAA AGGA
1 AGGAA AGGAA AGGAA AGGAA AGGA
26576545 GAAGAGAGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
4 3 0.06
5 36 0.71
6 11 0.22
7 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
AGGAA
Found at i:26576503 original size:29 final size:26
Alignment explanation
Indices: 26576477--26576587 Score: 85
Period size: 25 Copynumber: 4.3 Consensus size: 26
26576467 GAAAAAGAGG
26576477 AAAGAAAAGGAAAGGAGAAGGAGAAGAAA
1 AAAG-AAAGGAAAGGAGAAGGAGAAG--A
*
26576506 AAAGAAA-GAAA-AAGAAGGA-AAGA
1 AAAGAAAGGAAAGGAGAAGGAGAAGA
26576529 AAAGGAAAGGAAAGGAGAAGAGAGAA-A
1 AAA-GAAAGGAAAGGAGAAG-GAGAAGA
* *
26576556 AAA-AAAAGAAGAGG-GAAGGA-AGGA
1 AAAGAAAGGAA-AGGAGAAGGAGAAGA
26576580 AAA-AAAGG
1 AAAGAAAGG
26576588 TAATTTTTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
23 5 0.07
24 14 0.20
25 17 0.24
26 15 0.21
27 10 0.14
28 5 0.07
29 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (26 bp):
AAAGAAAGGAAAGGAGAAGGAGAAGA
Found at i:26576544 original size:46 final size:47
Alignment explanation
Indices: 26576458--26576566 Score: 172
Period size: 46 Copynumber: 2.4 Consensus size: 47
26576448 AGTCATTGGC
26576458 AAAAAGAAAGAAAAAG-AGGAAAGAAAAGGAAAGGAGAAGGAGAAGA
1 AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGGAGAAGA
26576504 AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA-AAGGAGAAGA
1 AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGGAGAAGA
* *
26576550 GAGAA-AAA-AAAAAGAAG
1 AAAAAGAAAGAAAAAGAAG
26576567 AGGGAAGGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 9 0.15
45 3 0.05
46 29 0.48
47 19 0.32
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (47 bp):
AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGGAGAAGA
Found at i:26577325 original size:27 final size:27
Alignment explanation
Indices: 26577295--26577349 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
26577285 AAAGAGGCTG
26577295 ATGGAGGAGAATAAAAAGGCGGCACCA
1 ATGGAGGAGAATAAAAAGGCGGCACCA
*
26577322 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGGAGAATAAAAAGGCGGCACCA
26577349 A
1 A
26577350 AATGTGACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.35, T:0.07
Consensus pattern (27 bp):
ATGGAGGAGAATAAAAAGGCGGCACCA
Found at i:26579876 original size:14 final size:14
Alignment explanation
Indices: 26579835--26579893 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
26579825 TTTTTGTATA
*
26579835 AATTTAATTATTCC
1 AATTTAATTATTCT
26579849 AATTTAATTATTCT
1 AATTTAATTATTCT
26579863 AATTTAATTATTCT
1 AATTTAATTATTCT
*
26579877 AGTTTTAATTAGTTCT
1 A-ATTTAATTA-TTCT
26579893 A
1 A
26579894 GTTTTAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
14 28 0.68
15 8 0.20
16 5 0.12
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.54
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:26579894 original size:16 final size:15
Alignment explanation
Indices: 26579837--26579905 Score: 79
Period size: 14 Copynumber: 4.7 Consensus size: 15
26579827 TTTGTATAAA
* *
26579837 TTTAATTATTCCA-A
1 TTTAATTATTCTAGT
*
26579851 TTTAATTATTCTA-A
1 TTTAATTATTCTAGT
26579865 TTTAATTATTCTAGT
1 TTTAATTATTCTAGT
26579880 TTTAATTAGTTCTAGT
1 TTTAATTA-TTCTAGT
*
26579896 TTTAGTTATT
1 TTTAATTATT
26579906 GTGGTTATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
14 26 0.52
15 10 0.20
16 14 0.28
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTAATTATTCTAGT
Found at i:26583243 original size:22 final size:23
Alignment explanation
Indices: 26583217--26583271 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
26583207 TATTAATCTT
26583217 AATAACTA-AAATTAAAACAAAA-
1 AATAACTACAAATT-AAACAAAAC
*
26583239 AATAA-TACAAATTATACAAAAC
1 AATAACTACAAATTAAACAAAAC
*
26583261 AATAACAACAA
1 AATAACTACAA
26583272 TGTAATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (23 bp):
AATAACTACAAATTAAACAAAAC
Found at i:26583466 original size:27 final size:27
Alignment explanation
Indices: 26583436--26583513 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
26583426 CCACTTAGTA
* *
26583436 TGGCACCATCGGTGCCGTCAATCTCCT
1 TGGCACCATCGGTGCCGTCAATCACAT
*
26583463 TGGCACCATCGGTGCCGCCAATCACAT
1 TGGCACCATCGGTGCCGTCAATCACAT
* *
26583490 TGGCACCTTTGGTGCCGTCAATCA
1 TGGCACCATCGGTGCCGTCAATCA
26583514 AGAACCCTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.35, G:0.23, T:0.24
Consensus pattern (27 bp):
TGGCACCATCGGTGCCGTCAATCACAT
Found at i:26584449 original size:20 final size:20
Alignment explanation
Indices: 26584424--26584465 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26584414 TTCTTACGAA
26584424 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTACAATTT
***
26584444 TTTATATTTTTTTACAATTT
1 TTTATAAAATTTTACAATTT
26584464 TT
1 TT
26584466 ATATTCTTCT
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:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATAAAATTTTACAATTT
Found at i:26584762 original size:90 final size:92
Alignment explanation
Indices: 26584592--26584762 Score: 229
Period size: 90 Copynumber: 1.9 Consensus size: 92
26584582 AAGCAGTGGT
* ** * * *
26584592 TTAATTGCTTTTTTTGAAAAAAGTTTAAGAGTTTTTTTTTGATACATTTTGAAAGTTCAAGTACC
1 TTAATTGCTTATTTTGAAAAAAGTTT-AGAGGATCTTTTTAATACATTTTAAAAGTTCAAGTACC
* *
26584657 TAATTGAGTGCAAAAAAAAGGTAGGGGC
65 TAAATGACTGCAAAAAAAAGGTAGGGGC
*
26584685 TTAATTGCTTATTTTGAAAAAA-TTT-GAGGATCTTTTTAATATATTTTAAAAGTTCAAGTACCT
1 TTAATTGCTTATTTTGAAAAAAGTTTAGAGGATCTTTTTAATACATTTTAAAAGTTCAAGTACCT
*
26584748 AAATGACTGTAAAAA
66 AAATGACTGCAAAAA
26584763 GGAAAGCAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
90 44 0.65
92 3 0.04
93 21 0.31
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (92 bp):
TTAATTGCTTATTTTGAAAAAAGTTTAGAGGATCTTTTTAATACATTTTAAAAGTTCAAGTACCT
AAATGACTGCAAAAAAAAGGTAGGGGC
Found at i:26586134 original size:15 final size:15
Alignment explanation
Indices: 26586114--26586143 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26586104 TGGACATCAC
26586114 CCCCCAAGGTTAACA
1 CCCCCAAGGTTAACA
26586129 CCCCCAAGGTTAACA
1 CCCCCAAGGTTAACA
26586144 AAGCACTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.40, G:0.13, T:0.13
Consensus pattern (15 bp):
CCCCCAAGGTTAACA
Found at i:26595203 original size:11 final size:11
Alignment explanation
Indices: 26595187--26595212 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26595177 ATTTTTTTAT
26595187 TTTTAAAATAC
1 TTTTAAAATAC
26595198 TTTTAAAATAC
1 TTTTAAAATAC
26595209 TTTT
1 TTTT
26595213 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:26595224 original size:10 final size:10
Alignment explanation
Indices: 26595209--26595272 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 10
26595199 TTTAAAATAC
26595209 TTTTTTTAAA
1 TTTTTTTAAA
26595219 -TTTTTTAAA
1 TTTTTTTAAA
*
26595228 -GTTTTTAAA
1 TTTTTTTAAA
*
26595237 TTTTTTAAAAA
1 TTTTTT-TAAA
26595248 TACTTTTTT-AA
1 T--TTTTTTAAA
*
26595259 TTTTTTTTAA
1 TTTTTTTAAA
26595269 TTTT
1 TTTT
26595273 AAAATATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 23 0.51
10 10 0.22
11 7 0.16
13 5 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:26595234 original size:18 final size:18
Alignment explanation
Indices: 26595211--26595245 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26595201 TAAAATACTT
26595211 TTTTTAAATTTTTTAAAG
1 TTTTTAAATTTTTTAAAG
26595229 TTTTTAAATTTTTTAAA
1 TTTTTAAATTTTTTAAA
26595246 AATACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTAAATTTTTTAAAG
Found at i:26595243 original size:41 final size:41
Alignment explanation
Indices: 26595177--26595304 Score: 163
Period size: 41 Copynumber: 3.1 Consensus size: 41
26595167 AAATATTTTT
* * *
26595177 ATTTTTTTATTTTTAAAATACTTTTAAAATACTTTTTTTAA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
26595218 ATTTTTTAAAGTTTTTAAAT-TTTTTAAAAATAC-TTTTTTAA
1 ATTTTTTAAA-TTTTAAAATATTTTT-AAAATACTTTTTTTAA
* *
26595259 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-A
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
26595299 ATTTTT
1 ATTTTT
26595305 GTTTTAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
40 21 0.28
41 39 0.52
42 15 0.20
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (41 bp):
ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:26595265 original size:9 final size:9
Alignment explanation
Indices: 26595210--26595245 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
26595200 TTAAAATACT
26595210 TTTTTTAAA
1 TTTTTTAAA
26595219 TTTTTTAAA
1 TTTTTTAAA
*
26595228 GTTTTTAAA
1 TTTTTTAAA
26595237 TTTTTTAAA
1 TTTTTTAAA
26595246 AATACTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:26595381 original size:30 final size:30
Alignment explanation
Indices: 26595347--26595422 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
26595337 ATTTAAAAAA
*
26595347 CGGGCCGGGCCCGGGTTTATGAATTTTTCC
1 CGGGCCGGGCCCGGGCTTATGAATTTTTCC
26595377 CGGGCCGGGCCCGGGCTTATGAATTTTTCC
1 CGGGCCGGGCCCGGGCTTATGAATTTTTCC
*
26595407 CGGGCCGGGCCTGGGC
1 CGGGCCGGGCCCGGGC
26595423 AAAATTCTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.08, C:0.30, G:0.38, T:0.24
Consensus pattern (30 bp):
CGGGCCGGGCCCGGGCTTATGAATTTTTCC
Found at i:26602529 original size:36 final size:38
Alignment explanation
Indices: 26602448--26602533 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 38
26602438 AAACTTTTAC
* *
26602448 TCCTAGCCCTAGATTTAAACTCTAAAGATATCTTATAA
1 TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
26602486 TCCTAGCCCTAGATTTAAACGCTAAAGA-A-CTAATAA
1 TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
*
26602522 TCGTAGCCCTAG
1 TCCTAGCCCTAG
26602534 TGATTAGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 17 0.38
37 1 0.02
38 27 0.60
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (38 bp):
TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
Found at i:26612947 original size:42 final size:42
Alignment explanation
Indices: 26612891--26612971 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
26612881 CCTAATTGGG
* * *
26612891 AAAATAATTCCCTTATTCTAATAAGCTACTTAAAGATAAGGA
1 AAAATAATACCCTTATTCTAATAAACTACTAAAAGATAAGGA
26612933 AAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
26612972 AATAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (42 bp):
AAAATAATACCCTTATTCTAATAAACTACTAAAAGATAAGGA
Found at i:26614420 original size:295 final size:295
Alignment explanation
Indices: 26613890--26614484 Score: 1190
Period size: 295 Copynumber: 2.0 Consensus size: 295
26613880 CTTGCCCTTG
26613890 TGAGTAACCTTATTTTTTAACAACTTGAGTGAACCGTTCAAACCAAGCTCAAGGAGACTGCTTTA
1 TGAGTAACCTTATTTTTTAACAACTTGAGTGAACCGTTCAAACCAAGCTCAAGGAGACTGCTTTA
26613955 GACCATACAAAGATTTTCTAAGCTTACATATTCGAGTTCCAAATTTTTCTTCAAAACCTAGAGGA
66 GACCATACAAAGATTTTCTAAGCTTACATATTCGAGTTCCAAATTTTTCTTCAAAACCTAGAGGA
26614020 GGATCCATGTAAACTTCTTCTTCAAGTTTCCCATTTAGGAAAACATTCTTCACTTCTAGCTGCTG
131 GGATCCATGTAAACTTCTTCTTCAAGTTTCCCATTTAGGAAAACATTCTTCACTTCTAGCTGCTG
26614085 TAAGGACCAATCAAGATTAACAGCAATTGATAAAAGACCTCTAACAGAATTTAATTTGGCTATTG
196 TAAGGACCAATCAAGATTAACAGCAATTGATAAAAGACCTCTAACAGAATTTAATTTGGCTATTG
26614150 GAGCAAATGTTTCAAGATAATCTATCACGTTTGTT
261 GAGCAAATGTTTCAAGATAATCTATCACGTTTGTT
26614185 TGAGTAACCTTATTTTTTAACAACTTGAGTGAACCGTTCAAACCAAGCTCAAGGAGACTGCTTTA
1 TGAGTAACCTTATTTTTTAACAACTTGAGTGAACCGTTCAAACCAAGCTCAAGGAGACTGCTTTA
26614250 GACCATACAAAGATTTTCTAAGCTTACATATTCGAGTTCCAAATTTTTCTTCAAAACCTAGAGGA
66 GACCATACAAAGATTTTCTAAGCTTACATATTCGAGTTCCAAATTTTTCTTCAAAACCTAGAGGA
26614315 GGATCCATGTAAACTTCTTCTTCAAGTTTCCCATTTAGGAAAACATTCTTCACTTCTAGCTGCTG
131 GGATCCATGTAAACTTCTTCTTCAAGTTTCCCATTTAGGAAAACATTCTTCACTTCTAGCTGCTG
26614380 TAAGGACCAATCAAGATTAACAGCAATTGATAAAAGACCTCTAACAGAATTTAATTTGGCTATTG
196 TAAGGACCAATCAAGATTAACAGCAATTGATAAAAGACCTCTAACAGAATTTAATTTGGCTATTG
26614445 GAGCAAATGTTTCAAGATAATCTATCACGTTTGTT
261 GAGCAAATGTTTCAAGATAATCTATCACGTTTGTT
26614480 TGAGT
1 TGAGT
26614485 GTACTGTTTA
Statistics
Matches: 300, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 300 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (295 bp):
TGAGTAACCTTATTTTTTAACAACTTGAGTGAACCGTTCAAACCAAGCTCAAGGAGACTGCTTTA
GACCATACAAAGATTTTCTAAGCTTACATATTCGAGTTCCAAATTTTTCTTCAAAACCTAGAGGA
GGATCCATGTAAACTTCTTCTTCAAGTTTCCCATTTAGGAAAACATTCTTCACTTCTAGCTGCTG
TAAGGACCAATCAAGATTAACAGCAATTGATAAAAGACCTCTAACAGAATTTAATTTGGCTATTG
GAGCAAATGTTTCAAGATAATCTATCACGTTTGTT
Found at i:26617101 original size:41 final size:41
Alignment explanation
Indices: 26617056--26617136 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
26617046 AATCTAATTG
** *
26617056 GGAAAATAATTTTCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAA
*
26617097 GGAAAATGATTCCCTTATTCTAAAAAACTACTAAAAGATA
1 GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATA
26617137 TAATAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAA
Found at i:26617150 original size:41 final size:41
Alignment explanation
Indices: 26617069--26617150 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
26617059 AAATAATTTT
* *
26617069 CTTATTCTAATAAACTACTAAAAGATAAGGAAAATGATTCC
1 CTTATTCTAAAAAACTACTAAAAGATAAAGAAAATGATTCC
*
26617110 CTTATTCTAAAAAACTACTAAAAGATATAATAAAAT-ATTCC
1 CTTATTCTAAAAAACTACTAAAAGATA-AAGAAAATGATTCC
26617151 TAGAATATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 31 0.84
42 6 0.16
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (41 bp):
CTTATTCTAAAAAACTACTAAAAGATAAAGAAAATGATTCC
Found at i:26628075 original size:165 final size:165
Alignment explanation
Indices: 26627803--26628298 Score: 920
Period size: 165 Copynumber: 3.0 Consensus size: 165
26627793 GAAAGTTGAT
*
26627803 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATACGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
26627868 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
26627933 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
* *
26627968 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCCGAAGTGCTACAATATGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
* * * *
26628033 ACTCGAAAAAAGCAGCTGTTGATGCCAATCAAATCACAGGACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
26628098 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
26628133 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
*
26628198 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGAACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
26628263 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
26628298 A
1 A
26628299 GTAGCTGATT
Statistics
Matches: 317, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 317 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
Found at i:26635356 original size:17 final size:18
Alignment explanation
Indices: 26635323--26635357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26635313 TTTGTCAATA
*
26635323 TTTTTAAATTATAAAAAG
1 TTTTCAAATTATAAAAAG
26635341 TTTTCAAATTATAAAAA
1 TTTTCAAATTATAAAAA
26635358 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTTCAAATTATAAAAAG
Found at i:26635578 original size:24 final size:26
Alignment explanation
Indices: 26635533--26635586 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
26635523 ACTCGACTTT
*
26635533 TTTTTTAATTTTTGATAAGGTTAGGG
1 TTTTTTAATTTTTGATAAGGTTAGGA
**
26635559 TTTTTTAA-TTTTG-TTGGGTTAGGA
1 TTTTTTAATTTTTGATAAGGTTAGGA
26635583 TTTT
1 TTTT
26635587 ATGAGCGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 5 0.20
26 8 0.32
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (26 bp):
TTTTTTAATTTTTGATAAGGTTAGGA
Found at i:26648274 original size:40 final size:40
Alignment explanation
Indices: 26648230--26648438 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
26648220 GTACAAACAG
26648230 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* * * *
26648270 GTGCATTCAAGGGTACTGAAGTACAAACAAGAGCATTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* * * *
26648310 GTGCATGCAAGGGTATCGAAGTACAAACAAGGGGACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* *
26648350 ATGCATTCAGGGGTACCGAAGTACAAA-TAGAGGCACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAG-GGCACTTAT
* * * * *
26648390 GTGTATTCAGGAGTACCGAAGTACAAATACGGGCACCTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
26648430 GTGCATTCA
1 GTGCATTCA
26648439 TATATATATA
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (40 bp):
GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
Found at i:26648300 original size:20 final size:20
Alignment explanation
Indices: 26648240--26648300 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
26648230 GTGCATTCAG
*
26648240 GGGTACCGAAGTACAAACAA
1 GGGTACTGAAGTACAAACAA
* * * * **
26648260 GGGCACTTATGTGCATTCAA
1 GGGTACTGAAGTACAAACAA
26648280 GGGTACTGAAGTACAAACAA
1 GGGTACTGAAGTACAAACAA
26648300 G
1 G
26648301 AGCATTTATG
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
GGGTACTGAAGTACAAACAA
Found at i:26649811 original size:25 final size:25
Alignment explanation
Indices: 26649783--26649832 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
26649773 TAGATAATAT
*
26649783 GCCAC-AAGGTCTTTACAGAATATGC
1 GCCACAAAGG-CTTTACAAAATATGC
26649808 GCCACAAAGGCTTTACAAAATATGC
1 GCCACAAAGGCTTTACAAAATATGC
26649833 CATGACAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (25 bp):
GCCACAAAGGCTTTACAAAATATGC
Found at i:26653973 original size:27 final size:27
Alignment explanation
Indices: 26653943--26654420 Score: 356
Period size: 27 Copynumber: 17.8 Consensus size: 27
26653933 TCATTTCCTA
**
26653943 AGGGTATAACAGTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
26653970 AGGGTATTTC-GTTCATTTTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
** *
26653997 AGGGTATTTTGGTCATTTCACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* ** *
26654024 GGGGTATTTTGGTCATTTTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATG
26654050 AGGGATATTTCAGAT-ATTTTACCCTAT-
1 AGGG-TATTTCAG-TCATTTTACCCTATG
26654077 AGGGGTATTTC-GATCATTTTACCCTATG
1 A-GGGTATTTCAG-TCATTTTACCCTATG
* * *
26654105 GGGGTAATTC-GATTATTTTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* *
26654132 -GGGTATTTCAATCATTTTATCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* **
26654158 AGAGTATTTCAGTCATTCTT-TTCTAT-
1 AGGGTATTTCAGTCATT-TTACCCTATG
* * *
26654184 AGGGGTATTTAAGTTATTCTACCCTATG
1 A-GGGTATTTCAGTCATTTTACCCTATG
* * * *
26654212 GGGGTATTTCGGTCATTCTACCATATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* *
26654239 AGGCTATTTC-GATCATTCTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* * *
26654266 -GGGTTATTTCGGTCATTCTATCCTATG
1 AGGG-TATTTCAGTCATTTTACCCTATG
* * *
26654293 -GGGTATTTCGGTCATTCTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATG
* *
26654318 AGGGGTATTTCAGTTATTTTACCTTATG
1 A-GGGTATTTCAGTCATTTTACCCTATG
* * *
26654346 GGGGTATTTC-GATCATTTAATCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* * *
26654373 GGGGTATTTAAGCCATTTTACCCT-TG
1 AGGGTATTTCAGTCATTTTACCCTATG
* **
26654399 GGGGTATTTTGGTCATTTTACC
1 AGGGTATTTCAGTCATTTTACC
26654421 TATTTTGGGA
Statistics
Matches: 376, Mismatches: 54, Indels: 43
0.79 0.11 0.09
Matches are distributed among these distances:
26 75 0.20
27 292 0.78
28 9 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTATG
Found at i:26654001 original size:54 final size:54
Alignment explanation
Indices: 26653943--26654420 Score: 395
Period size: 54 Copynumber: 8.9 Consensus size: 54
26653933 TCATTTCCTA
** *
26653943 AGGGTATAACAGTCATTTTACCCTATGAGGGTATTTCGTTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
** * * * * *
26653997 AGGGTATTTTGGTCATTTCACCCTATGGGGGTATTTTGGTCATTTTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
26654050 AGGGATATTTCAGAT-ATTTTACCCTAT-AGGGGTATTTCGATCATTTTACCCTATG
1 AGGG-TATTTCAG-TCATTTTACCCTATGA-GGGTATTTCGATCATTTTACCCTATG
* * * * *
26654105 GGGGTAATTC-GATTATTTTACCCTATG-GGGTATTTCAATCATTTTATCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* ** * * *
26654158 AGAGTATTTCAGTCATTCTT-TTCTAT-AGGGGTATTT-AAGTTATTCTACCCTATG
1 AGGGTATTTCAGTCATT-TTACCCTATGA-GGGTATTTCGA-TCATTTTACCCTATG
* * * * * *
26654212 GGGGTATTTCGGTCATTCTACCATATGAGGCTATTTCGATCATTCTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * * *
26654266 -GGGTTATTTCGGTCATTCTATCCTATG-GGGTATTTCGGTCATTCTACCTTAT-
1 AGGG-TATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * *
26654318 AGGGGTATTTCAGTTATTTTACCTTATGGGGGTATTTCGATCATTTAATCCTATG
1 A-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * * *
26654373 GGGGTATTTAAGCCATTTTACCCT-TGGGGGTATTTTGGTCATTTTACC
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
26654421 TATTTTGGGA
Statistics
Matches: 342, Mismatches: 63, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
53 112 0.33
54 224 0.65
55 6 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
Found at i:26654207 original size:107 final size:105
Alignment explanation
Indices: 26653952--26654407 Score: 366
Period size: 107 Copynumber: 4.3 Consensus size: 105
26653942 AAGGGTATAA
* * * * * * * * *
26653952 CAGTCATTTTACCCTAT-GAGGGTATTTCGTTCATTTTACCCTATGAGGGTATTTTGGTCATTTC
1 CAGTCATTCTATCCTATAG-GGGTATTTAG-TCATTCTACCCTATGGGGGTATTTCGATTATTTT
* * * *
26654016 ACCCTATGGGGGTATTTTGGTCATTTTA-CCTTATAGGGATATTT
64 ACCATAT-GGGGTATTTCGATCATTTTATCC-TAT-GGGGTATTT
* * * * *
26654060 CAGAT-ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTAATTCGATTATTTT
1 CAG-TCATTCTATCCTATAGGGGTATTTAG-TCATTCTACCCTATGGGGGTATTTCGATTATTTT
* * *
26654124 ACCCTATGGGGTATTTCAATCATTTTATCCTATGAGAGTATTT
64 ACCATATGGGGTATTTCGATCATTTTATCCTATG-GGGTATTT
* * * * * *
26654167 CAGTCATTCTTTTCTATAGGGGTATTTAAGTTATTCTACCCTATGGGGGTATTTCGGTCATTCTA
1 CAGTCATTCTATCCTATAGGGGTATTT-AGTCATTCTACCCTATGGGGGTATTTCGATTATTTTA
* * *
26654232 CCATATGAGGCTATTTCGATCATTCTACCCTATGGGGTTATTT
65 CCATATG-GGGTATTTCGATCATTTTATCCTATGGGG-TATTT
* * * *
26654275 CGGTCATTCTATCCTAT-GGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTC-AGTTATTTT
1 CAGTCATTCTATCCTATAGGGGTATTT-AGTCATTCTACCCTATGGGGGTATTTCGA-TTATTTT
* *
26654338 ACCTTATGGGGGTATTTCGATCATTTAATCCTATGGGGGTATTT
64 ACCATAT-GGGGTATTTCGATCATTTTATCCTAT-GGGGTATTT
* * * * *
26654382 AAGCCATTTTACCCT-TGGGGGTATTT
1 CAGTCATTCTATCCTATAGGGGTATTT
26654408 TGGTCATTTT
Statistics
Matches: 286, Mismatches: 50, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
106 3 0.01
107 172 0.60
108 109 0.38
109 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (105 bp):
CAGTCATTCTATCCTATAGGGGTATTTAGTCATTCTACCCTATGGGGGTATTTCGATTATTTTAC
CATATGGGGTATTTCGATCATTTTATCCTATGGGGTATTT
Found at i:26654381 original size:134 final size:133
Alignment explanation
Indices: 26653955--26654423 Score: 550
Period size: 134 Copynumber: 3.5 Consensus size: 133
26653945 GGTATAACAG
* * * *
26653955 TCATTTTACCCTATGAGGGTATTTCGTTCATTTTACCCTATGAGGGTATTTTGGTCATTTCACCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG-GGGTATTTCGGTCATTTTATCC
* * * * *
26654020 TATGGGGGTATTTTGGTCATTTTACCTTATAGGGATATTTCAGATATTTTACCCTATAGGGGTAT
65 TAT-GGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTAT
26654085 TTCGA
129 TTCGA
* * * **
26654090 TCATTTTACCCTATGGGGGTAATTCGATTATTTTACCCTATGGGGTATTTCAATCATTTTATCCT
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGGTCATTTTATCCT
* * ** * *
26654155 ATGAGAGTATTTCAGTCATTCT-TTTCTATAGGGGTATTTAAGTTATTCTACCCTATGGGGGTAT
66 ATG-GGGTATTTCGGTCATTCTACCT-TATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTAT
*
26654219 TTCGG
129 TTCGA
* * * * *
26654224 TCATTCTACCATATGAGGCTATTTCGATCATTCTACCCTATGGGGTTATTTCGGTCATTCTATCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGG-TATTTCGGTCATTTTATCC
*
26654289 TATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCTTATGGGGGTATT
65 TATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTATT
26654354 TCGA
130 TCGA
* * * * * *
26654358 TCATTTAATCCTATGGGGGTATTT-AAGCCATTTTACCCT-TGGGGGTATTTTGGTCATTTTA-C
1 TCATTTTACCCTATGAGGGTATTTCGA-TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTATC
26654420 CTAT
64 CTAT
26654424 TTTGGGATCT
Statistics
Matches: 278, Mismatches: 50, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
132 5 0.02
133 18 0.06
134 196 0.71
135 59 0.21
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (133 bp):
TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGGTCATTTTATCCT
ATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTATTT
CGA
Found at i:26662785 original size:15 final size:15
Alignment explanation
Indices: 26662761--26662792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26662751 TATGCATGCA
*
26662761 AAATATAAAAGACAT
1 AAATACAAAAGACAT
26662776 AAATACAAAAGACAT
1 AAATACAAAAGACAT
26662791 AA
1 AA
26662793 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:26668800 original size:23 final size:23
Alignment explanation
Indices: 26668764--26668814 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
26668754 AAAAATGGTT
26668764 AAAT-TACCATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
*
26668786 AAATATACTATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
26668809 AAATAT
1 AAATAT
26668815 GCATTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATACCATATAAATCCATTC
Found at i:26671028 original size:23 final size:23
Alignment explanation
Indices: 26670992--26671042 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
26670982 AAAAATGGTT
26670992 AAAT-TACCATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
*
26671014 AAATATACTATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
26671037 AAATAT
1 AAATAT
26671043 GCATTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATACCATATAAATCCATTC
Found at i:26681671 original size:14 final size:14
Alignment explanation
Indices: 26681654--26681702 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
26681644 TTCATTTTCC
26681654 ACCTGCCATTACAT
1 ACCTGCCATTACAT
* *
26681668 ACCTCCACACTCTGCAT
1 ACCTGC-CA-T-TACAT
26681685 ACCTGCCATTACAT
1 ACCTGCCATTACAT
26681699 ACCT
1 ACCT
26681703 TCACACTCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 13 0.46
15 3 0.11
16 3 0.11
17 9 0.32
ACGTcount: A:0.27, C:0.41, G:0.06, T:0.27
Consensus pattern (14 bp):
ACCTGCCATTACAT
Found at i:26681687 original size:17 final size:17
Alignment explanation
Indices: 26681665--26681716 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
26681655 CCTGCCATTA
26681665 CATACCTCCACACTCTG
1 CATACCTCCACACTCTG
* *
26681682 CATACCTGC-CA-T-TA
1 CATACCTCCACACTCTG
*
26681696 CATACCTTCACACTCTG
1 CATACCTCCACACTCTG
26681713 CATA
1 CATA
26681717 TCATTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 3 0.11
17 13 0.46
ACGTcount: A:0.27, C:0.40, G:0.06, T:0.27
Consensus pattern (17 bp):
CATACCTCCACACTCTG
Found at i:26681692 original size:31 final size:31
Alignment explanation
Indices: 26681654--26681716 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
26681644 TTCATTTTCC
26681654 ACCTGCCATTACATACCTCCACACTCTGCAT
1 ACCTGCCATTACATACCTCCACACTCTGCAT
*
26681685 ACCTGCCATTACATACCTTCACACTCTGCAT
1 ACCTGCCATTACATACCTCCACACTCTGCAT
26681716 A
1 A
26681717 TCATTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.40, G:0.06, T:0.27
Consensus pattern (31 bp):
ACCTGCCATTACATACCTCCACACTCTGCAT
Found at i:26682208 original size:36 final size:36
Alignment explanation
Indices: 26682168--26682240 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
26682158 CTTATAAAGA
* *
26682168 GAAAGTTCTATAATTTAGTTACTTAGAATTACTGTT
1 GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
* *
26682204 GAAAGTTTTATATTTTAGTTACCTAGAATTACAGTT
1 GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
26682240 G
1 G
26682241 TACTTATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (36 bp):
GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
Found at i:26688915 original size:21 final size:21
Alignment explanation
Indices: 26688891--26688932 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26688881 TAACTTTTTC
*
26688891 TTCTTCAGCAACAACTTCCTT
1 TTCTGCAGCAACAACTTCCTT
*
26688912 TTCTGCAGCATCAACTTCCTT
1 TTCTGCAGCAACAACTTCCTT
26688933 CTCAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.38
Consensus pattern (21 bp):
TTCTGCAGCAACAACTTCCTT
Found at i:26695010 original size:21 final size:21
Alignment explanation
Indices: 26694986--26695028 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
26694976 TGTGGCTGCA
26694986 TTTGAATG-TGCTGATTGTAGT
1 TTTG-ATGTTGCTGATTGTAGT
* *
26695007 TTTGCTGTTGTTGATTGTAGT
1 TTTGATGTTGCTGATTGTAGT
26695028 T
1 T
26695029 CCCTTGTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.14, C:0.05, G:0.28, T:0.53
Consensus pattern (21 bp):
TTTGATGTTGCTGATTGTAGT
Found at i:26709135 original size:26 final size:27
Alignment explanation
Indices: 26709106--26709170 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
26709096 TTTAAATTAT
*
26709106 TAATTATTTTAAATTAA-TTAAAAATC
1 TAATTATCTTAAATTAATTTAAAAATC
* * * *
26709132 TAATCATCCTAACTTAATTTAAAATTC
1 TAATTATCTTAAATTAATTTAAAAATC
26709159 TAATTATCTTAA
1 TAATTATCTTAA
26709171 CTAAAATCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATTATCTTAAATTAATTTAAAAATC
Found at i:26709202 original size:53 final size:53
Alignment explanation
Indices: 26709054--26709483 Score: 160
Period size: 53 Copynumber: 8.3 Consensus size: 53
26709044 CTAAACTCCG
* * *
26709054 AATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTGATTTAAATTATT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * * ** *
26709107 AATTATTTTAAATTAATTAAAAATCTAATCATCCTAA-C--TTAATTTAAAATT-CT
1 AATTATCTTAACTAAAATCTAAAT-T-ATTAT-CTAATCTATTAATTT-AAATTACT
*
26709160 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAA-TTAAATTCCT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * * *
26709212 AATTTTATTATCT-AAAT-TAAAACTCTAATTATCCTAA--T-TCAATTTAAACT-CAT
1 AATTATCTTAACTAAAATCT-AAA-T-T-ATTAT-CTAATCTATTAATTTAAATTAC-T
* * * *
26709265 AATTATC-T-A-T---ATCTAAATTATTACCTAATATTTTAATTTAAATTATT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * ** * ***
26709312 AATCATC-TAAATAAATTAGAAATCTAATTATTCTAA--T-TTAGTTTAAACCCCT
1 AATTATCTTAACTAAAATCTAAAT-T-ATTA-TCTAATCTATTAATTTAAATTACT
* * * * *
26709364 AATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTTAA-TTAAATTCCT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * *
26709416 AACTATCTT-ATTTAAAT-TAAAATTTCAATTATCCTAA--T-TTAATTTAAACT-CT
1 AATTATCTTAACTAAAATCT-AAA-TT--ATTAT-CTAATCTATTAATTTAAATTACT
26709468 AATTATCTTAACTAAA
1 AATTATCTTAACTAAA
26709484 TTAAATCTCT
Statistics
Matches: 281, Mismatches: 57, Indels: 78
0.68 0.14 0.19
Matches are distributed among these distances:
44 4 0.01
45 4 0.01
46 2 0.01
47 19 0.07
48 6 0.02
49 2 0.01
50 11 0.04
51 30 0.11
52 74 0.26
53 89 0.32
54 20 0.07
55 16 0.06
56 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.43
Consensus pattern (53 bp):
AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
Found at i:26709257 original size:105 final size:103
Alignment explanation
Indices: 26709045--26709483 Score: 428
Period size: 105 Copynumber: 4.2 Consensus size: 103
26709035 CGAGGAACCC
* * *
26709045 TAAACTCCGAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTGATTTAAATTATTAAT
1 TAAACT-CTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATT-AATTAAATTACTAAT
* * *
26709110 TATT-TTAAATTAATTAAAAATCTAATCATCCTAACTTAATT
64 T-TTATTAAATAAATT-AAAATCTAATTATCCTAATTTAATT
* * *
26709151 TAAAATTCTAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTAAATTCCTAATT
1 T-AAACTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATT
** *
26709216 TTATTATCTAAATTAAAACTCTAATTATCCTAATTCAATT
65 TTATTAAATAAATTAAAA-TCTAATTATCCTAATTTAATT
* * *
26709256 TAAACTCATAATTATC-T-A-T---ATCTAAATTATTACCTAATATTTTAATTTAAATTATTAA-
1 TAAACTC-TAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAA-TTAAATTACTAAT
* * *
26709314 -TCATCTAAATAAATTAGAAATCTAATTATTCTAATTTAGTT
64 TTTAT-TAAATAAATTA-AAATCTAATTATCCTAATTTAATT
* * * * * * * *
26709355 TAAACCCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTTAATTAAATTCCTAACT
1 TAAA-CTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATT
* * ** *
26709420 ATCTTATTTAAATTAAAATTTCAATTATCCTAATTTAATT
65 TTATTAAATAAATTAAAATCT-AATTATCCTAATTTAATT
26709460 TAAACTCTAATTATCTTAACTAAA
1 TAAACTCTAATTATCTTAACTAAA
26709484 TTAAATCTCT
Statistics
Matches: 273, Mismatches: 43, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
98 3 0.01
99 61 0.22
100 16 0.06
101 1 0.00
102 2 0.01
103 1 0.00
104 45 0.16
105 98 0.36
106 42 0.15
107 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (103 bp):
TAAACTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATTT
TATTAAATAAATTAAAATCTAATTATCCTAATTTAATT
Found at i:26709434 original size:26 final size:25
Alignment explanation
Indices: 26709404--26709505 Score: 80
Period size: 26 Copynumber: 3.9 Consensus size: 25
26709394 CTAACCTGTT
*
26709404 AATTAAATTCCTAACTATCTTATTTA
1 AATTAAATT-CTAATTATCTTATTTA
*
26709430 AATTAAAATT-TCAATTATCCTAATTTA
1 AATT-AAATTCT-AATTAT-CTTATTTA
* * **
26709457 ATTTAAACTCTAATTATCTTAACTA
1 AATTAAATTCTAATTATCTTATTTA
*
26709482 AATTAAATCTCTAATCATCGTTAT
1 AATTAAAT-TCTAATTATC-TTAT
26709506 ATATTTTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
25 12 0.20
26 28 0.47
27 19 0.32
ACGTcount: A:0.40, C:0.15, G:0.01, T:0.44
Consensus pattern (25 bp):
AATTAAATTCTAATTATCTTATTTA
Found at i:26709434 original size:204 final size:203
Alignment explanation
Indices: 26709070--26709486 Score: 568
Period size: 204 Copynumber: 2.0 Consensus size: 203
26709060 CTTAACTAAA
* * * * *
26709070 ATCTAAATTATTACCTAATCTATTGATTTAAATTATTAATTATTTTAAATTAATTAAAAATCTAA
1 ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
** * * *
26709135 TCATCCTAACTTAATTTAAAATTCTAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATT
66 TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
* *
26709200 AATTAAATTCCTAATTTTATTATCTAAATTAAAA-CTCTAATTATCCTAATTCAATTTAAACTCA
131 AATTAAATTCCTAACTATATTATCTAAATTAAAATCTC-AATTATCCTAATTCAATTTAAACTC-
26709264 TAATTATCTAT
194 TAATTATCT-T
* *
26709275 ATCTAAATTATTACCTAATATTTTAATTTAAATTATTAATCA-TCTAAATAAATTAGAAATCTAA
1 ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
* * * * * *
26709339 TTATTCTAATTTAGTTTAAACCCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTT
66 TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
* * * *
26709404 AATTAAATTCCTAACTATCTTATTTAAATTAAAATTTCAATTATCCTAATTTAATTTAAACTCTA
131 AATTAAATTCCTAACTATATTATCTAAATTAAAATCTCAATTATCCTAATTCAATTTAAACTCTA
26709469 ATTATCTT
196 ATTATCTT
*
26709477 AACTAAATTA
1 ATCTAAATTA
26709487 AATCTCTAAT
Statistics
Matches: 186, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
202 10 0.05
203 9 0.05
204 127 0.68
205 40 0.22
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (203 bp):
ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
AATTAAATTCCTAACTATATTATCTAAATTAAAATCTCAATTATCCTAATTCAATTTAAACTCTA
ATTATCTT
Found at i:26711199 original size:29 final size:29
Alignment explanation
Indices: 26711157--26711244 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
26711147 AAGTGAACAT
* * * * *
26711157 CGATACAAAATACCTGATAATATGGTCAC
1 CGATACATAGTACCTAATAAAATAGTCAC
26711186 CGATACATAGTACCTAATAAAATAGTCAC
1 CGATACATAGTACCTAATAAAATAGTCAC
* * * *
26711215 TGGTACATAGCACCTAATAAATATAATCAC
1 CGATACATAGTACCTAATAAA-ATAGTCAC
26711245 TGGCACATAG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 42 0.86
30 7 0.14
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (29 bp):
CGATACATAGTACCTAATAAAATAGTCAC
Found at i:26711247 original size:30 final size:29
Alignment explanation
Indices: 26711189--26711254 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
26711179 TGGTCACCGA
* *
26711189 TACATAGTACCTAATAAAATAGTCACTGG
1 TACATAGCACCTAATAAAATAATCACTGG
26711218 TACATAGCACCTAATAAATATAATCACTGG
1 TACATAGCACCTAATAAA-ATAATCACTGG
*
26711248 CACATAG
1 TACATAG
26711255 TGCTTGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (29 bp):
TACATAGCACCTAATAAAATAATCACTGG
Found at i:26714223 original size:16 final size:16
Alignment explanation
Indices: 26714198--26714240 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
26714188 GCTCGCATAT
* * *
26714198 CATAGTTCACATTCAG
1 CATAGCTCACATGCAA
26714214 CATAGCTCACATGCAA
1 CATAGCTCACATGCAA
*
26714230 CATTGCTCACA
1 CATAGCTCACA
26714241 ATTATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (16 bp):
CATAGCTCACATGCAA
Found at i:26715903 original size:25 final size:24
Alignment explanation
Indices: 26715875--26715933 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
26715865 ATGCTCATAT
26715875 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTAT-AATCGGTATGCTCTCAC
26715900 GAGCTATAGATCGGTATGCTCTCAC
1 GAGCTATA-ATCGGTATGCTCTCAC
26715925 GAGCTATAA
1 GAGCTATAA
26715934 ATCACTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.06
25 31 0.94
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
GAGCTATAATCGGTATGCTCTCAC
Found at i:26723557 original size:25 final size:25
Alignment explanation
Indices: 26723529--26723577 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
26723519 TATGAATTGG
*
26723529 TATGCTCTCATGAGCTATAAATCGA
1 TATGCTCTCAGGAGCTATAAATCGA
* *
26723554 TATGCTTTTAGGAGCTATAAATCG
1 TATGCTCTCAGGAGCTATAAATCG
26723578 GTAACCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (25 bp):
TATGCTCTCAGGAGCTATAAATCGA
Found at i:26724891 original size:27 final size:27
Alignment explanation
Indices: 26724861--26724915 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
26724851 GTTTGCACAT
26724861 AGAATAGTTTGCATAAGAACATAGCTC
1 AGAATAGTTTGCATAAGAACATAGCTC
26724888 AGAATAGTTTGCATAAGAACATAGCTC
1 AGAATAGTTTGCATAAGAACATAGCTC
26724915 A
1 A
26724916 CTTAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (27 bp):
AGAATAGTTTGCATAAGAACATAGCTC
Found at i:26740715 original size:38 final size:38
Alignment explanation
Indices: 26740654--26740846 Score: 235
Period size: 38 Copynumber: 5.1 Consensus size: 38
26740644 GTAAATTTTC
* * *
26740654 AATA-CACCGGCACAAAGCCTGCTAGGCACATAGCGCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
* * * *
26740691 AATATCACCGGCACACAGCTTGCTAGACACACAGCTTG
1 AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
*
26740729 AATATCACCGGCACAAAGCCTACTAGGCACACAGCTCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
* * *
26740767 AATATCACTGGCACAAAGCTTGCTAGGCACACAGTTCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
** * * *
26740805 AATATCACTAGCACAAAGCCTACTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
26740843 AATA
1 AATA
26740847 ACATTACATT
Statistics
Matches: 133, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
37 4 0.03
38 129 0.97
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.16
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGGCACACAGCTCG
Found at i:26740787 original size:76 final size:76
Alignment explanation
Indices: 26740654--26740846 Score: 273
Period size: 76 Copynumber: 2.6 Consensus size: 76
26740644 GTAAATTTTC
* * * *
26740654 AATA-CACCGGCACAAAGCCTGCTAGGCACATAGCGCAAATATCACCGGCACACAGCTTGCTAGA
1 AATATCACCGGCACAAAGCCTACTAGGCACATAGCCCGAATATCACCGGCACAAAGCTTGCTAGA
26740718 CACACAGCTT-G
66 CACACAG-TTCG
* * * *
26740729 AATATCACCGGCACAAAGCCTACTAGGCACACAGCTCGAATATCACTGGCACAAAGCTTGCTAGG
1 AATATCACCGGCACAAAGCCTACTAGGCACATAGCCCGAATATCACCGGCACAAAGCTTGCTAGA
26740794 CACACAGTTCG
66 CACACAGTTCG
**
26740805 AATATCACTAGCACAAAGCCTACTAGGCACATAGCCCGAATA
1 AATATCACCGGCACAAAGCCTACTAGGCACATAGCCCGAATA
26740847 ACATTACATT
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 6 0.06
76 99 0.94
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.16
Consensus pattern (76 bp):
AATATCACCGGCACAAAGCCTACTAGGCACATAGCCCGAATATCACCGGCACAAAGCTTGCTAGA
CACACAGTTCG
Found at i:26743289 original size:28 final size:28
Alignment explanation
Indices: 26743249--26743307 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
26743239 GCGTATAATA
26743249 GAATTTCTAATAATGTGTAATGAAATTT
1 GAATTTCTAATAATGTGTAATGAAATTT
26743277 GAATTTCTAATAATGTGTAATGAAATTT
1 GAATTTCTAATAATGTGTAATGAAATTT
26743305 GAA
1 GAA
26743308 GCAAATGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (28 bp):
GAATTTCTAATAATGTGTAATGAAATTT
Found at i:26743699 original size:18 final size:17
Alignment explanation
Indices: 26743675--26743714 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
26743665 AAATTATTTT
26743675 TAAAATTTAGAAAATTATA
1 TAAAA-TTA-AAAATTATA
26743694 -AAAATTAAAAATTATA
1 TAAAATTAAAAATTATA
26743710 TAAAA
1 TAAAA
26743715 GTAGATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATTAAAAATTATA
Found at i:26743706 original size:16 final size:17
Alignment explanation
Indices: 26743675--26743719 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
26743665 AAATTATTTT
*
26743675 TAAAATTTAGAAAATTA
1 TAAAAATTAGAAAATTA
26743692 TAAAAATTA-AAAATTA
1 TAAAAATTAGAAAATTA
*
26743708 TATAAAAGTAGA
1 TA-AAAATTAGA
26743720 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 14 0.58
18 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (17 bp):
TAAAAATTAGAAAATTA
Found at i:26743741 original size:19 final size:21
Alignment explanation
Indices: 26743699--26743742 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
26743689 TTATAAAAAT
* *
26743699 TAAAAATTATATAAAAGTAGA
1 TAAAAATTATATAAAAATAAA
26743720 TAAAAATT-T-TAAAAATAAA
1 TAAAAATTATATAAAAATAAA
26743739 TAAA
1 TAAA
26743743 GGGAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAATTATATAAAAATAAA
Found at i:26756236 original size:31 final size:32
Alignment explanation
Indices: 26756189--26756261 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
26756179 ACAAAATTTC
*
26756189 ACATGAA-TTTTGGTTTAATTTGTAATATTAT
1 ACATGAACTTTTGGTTTAATTTGCAATATTAT
*
26756220 ACATGAGCTTTT-GTTTAATTTGCAATATTAT
1 ACATGAACTTTTGGTTTAATTTGCAATATTAT
*
26756251 GCATGAACTTT
1 ACATGAACTTT
26756262 GACTTTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (32 bp):
ACATGAACTTTTGGTTTAATTTGCAATATTAT
Found at i:26757118 original size:21 final size:20
Alignment explanation
Indices: 26757084--26757124 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
26757074 TTAGTTTGAT
26757084 TTTTTTATATAATTT-ATAA
1 TTTTTTATATAATTTGATAA
26757103 TTTTTTATATTAAATTTGATAA
1 TTTTTTATA-T-AATTTGATAA
26757125 ATTAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 5 0.26
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTTATATAATTTGATAA
Found at i:26759123 original size:3 final size:3
Alignment explanation
Indices: 26759115--26759144 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
26759105 TTTGAGCCGT
26759115 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
26759145 GTTAGATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:26766707 original size:22 final size:22
Alignment explanation
Indices: 26766648--26766710 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
26766638 AAAGATTTCT
26766648 TTATAATTTATATCTTAAACTAAA
1 TTATAATTTAT-T-TTAAACTAAA
*
26766672 -TATAAAGTTGATTTTAAA-TAAA
1 TTAT-AA-TTTATTTTAAACTAAA
26766694 TTATATATTTATTTTAA
1 TTATA-ATTTATTTTAA
26766711 TATTTTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 14 0.42
23 12 0.36
24 3 0.09
25 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
TTATAATTTATTTTAAACTAAA
Found at i:26767934 original size:20 final size:20
Alignment explanation
Indices: 26767905--26767954 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26767895 CATATATCCT
* *
26767905 AATTTTATTTTATTCCAATC
1 AATTTGATTTGATTCCAATC
**
26767925 AATTTGATTTGATTTTAATC
1 AATTTGATTTGATTCCAATC
*
26767945 AAATTGATTT
1 AATTTGATTT
26767955 AATTGCTCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (20 bp):
AATTTGATTTGATTCCAATC
Found at i:26768744 original size:21 final size:21
Alignment explanation
Indices: 26768718--26768759 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26768708 TAAATTATAA
26768718 ATATTTTA-ACATTAAAAATAT
1 ATATTTTATA-ATTAAAAATAT
*
26768739 ATATTTTATAATTAAATATAT
1 ATATTTTATAATTAAAAATAT
26768760 TTTCTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTTTATAATTAAAAATAT
Found at i:26768802 original size:23 final size:24
Alignment explanation
Indices: 26768748--26768803 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
26768738 TATATTTTAT
* *
26768748 AATTAAATATATTTTCTTTTAACA
1 AATTAAATATATTTTATATTAACA
26768772 AATTAAATATATTTTATAATT-AC-
1 AATTAAATATATTTTAT-ATTAACA
26768795 AATTAAATA
1 AATTAAATA
26768804 ATATAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTAAATATATTTTATATTAACA
Found at i:26776856 original size:22 final size:22
Alignment explanation
Indices: 26776828--26776872 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26776818 AGTCATTGTG
26776828 AAAAAAAATCAATAAAAAA-TTT
1 AAAAAAAATCAA-AAAAAAGTTT
*
26776850 AAAAAAATTCAAAAAAAAGTTT
1 AAAAAAAATCAAAAAAAAGTTT
26776872 A
1 A
26776873 TTTTATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAAAGTTT
Found at i:26778030 original size:13 final size:12
Alignment explanation
Indices: 26778012--26778053 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
26778002 TGTGAGCGAG
26778012 AAAAGAACATTGA
1 AAAAGAA-ATTGA
26778025 AAAAGAAATTG-
1 AAAAGAAATTGA
26778036 -AAAGAAA-TGA
1 AAAAGAAATTGA
26778046 AAAAGAAA
1 AAAAGAAA
26778054 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:26778113 original size:12 final size:12
Alignment explanation
Indices: 26778096--26778171 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
26778086 AGCGAAAAGC
26778096 AAAAAGAGATTG
1 AAAAAGAGATTG
*
26778108 AAAAAGAAATTG
1 AAAAAGAGATTG
*
26778120 --AAAGAGA-AG
1 AAAAAGAGATTG
*
26778129 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
26778144 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
26778156 AAAGAGAGCTTG
1 AAAAAGAGATTG
26778168 AAAA
1 AAAA
26778172 GAAATCGAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:26778137 original size:15 final size:15
Alignment explanation
Indices: 26778119--26778152 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26778109 AAAAGAAATT
26778119 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
26778134 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
26778149 GAAA
1 GAAA
26778153 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:26780562 original size:34 final size:34
Alignment explanation
Indices: 26780496--26780563 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
26780486 ATGTGTCCTA
*
26780496 ATGTGGCTGCCAAATTTATTAAGCCTTGTTGACC
1 ATGTGGCTGCCAAATTTATTAAGCCTTATTGACC
* * * *
26780530 ATGTGGCTGTCGAATTTATTATGTCTTATTGACC
1 ATGTGGCTGCCAAATTTATTAAGCCTTATTGACC
26780564 CCTTTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (34 bp):
ATGTGGCTGCCAAATTTATTAAGCCTTATTGACC
Found at i:26780740 original size:72 final size:72
Alignment explanation
Indices: 26780622--26780811 Score: 290
Period size: 72 Copynumber: 2.6 Consensus size: 72
26780612 GCAGGTACAT
* *
26780622 GGACGGCAATTAAAGAGAAAGGTTGCTGCTGCATTTTTCCAAGCTGCCGAATTTAATGTGTGCAT
1 GGACGGCATTTAAAGAG-AAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCAT
26780687 GGGACTTG
65 GGGACTTG
*
26780695 GGACGGCATTTAAAGAGAAGGTTGCTGCTGCCTTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
1 GGACGGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
26780760 GGACTTG
66 GGACTTG
* * * * * *
26780767 GGACGACATTAAAAGAGGAGGCTGCTGTTGCATTTTTCTAAGCTG
1 GGACGGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTG
26780812 ATTATTCAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 91 0.85
73 16 0.15
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (72 bp):
GGACGGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
GGACTTG
Found at i:26781663 original size:43 final size:42
Alignment explanation
Indices: 26781559--26781769 Score: 133
Period size: 43 Copynumber: 4.8 Consensus size: 42
26781549 CAAATCCATT
*
26781559 TAGAACATAACCTTTAGC-GACGTTT-CTCACAAAAAAATGCCACTA
1 TAGAACATAACCTTTAGCGGAC-TTTCCTCAC----AAACGCCACTA
* * * *
26781604 TATAACATCACATTTAGCGGAACTTTCCTCACAAACGCCGCTA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAACGCCACTA
*
26781647 TAGAACATAACCTTTAGC-GACGTTT-CTCACAAAAAAATGCCACTA
1 TAGAACATAACCTTTAGCGGAC-TTTCCTCAC----AAACGCCACTA
* * * ** *
26781692 TATAACATGACATTTAATGGCACTTTCCTCACAAACGCCGCTA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAACGCCACTA
* ** *
26781735 AAGAACATGGCCTTTAGCGGCACTTTCCCCACAAA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAA
26781770 AACATCGCTA
Statistics
Matches: 131, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
41 7 0.05
42 4 0.03
43 61 0.47
45 37 0.28
46 8 0.06
47 14 0.11
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (42 bp):
TAGAACATAACCTTTAGCGGACTTTCCTCACAAACGCCACTA
Found at i:26781699 original size:45 final size:45
Alignment explanation
Indices: 26781562--26781699 Score: 169
Period size: 45 Copynumber: 3.1 Consensus size: 45
26781552 ATCCATTTAG
26781562 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
1 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
* * * * *
26781607 AACATCACATTTAGCGGAAC-TTTCCTCAC----AAACGCCGCTATAG
1 AACATAACCTTTAGC-G-ACGTTT-CTCACAAAAAAATGCCACTATAT
26781650 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
1 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
26781695 AACAT
1 AACAT
26781700 GACATTTAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
41 7 0.09
42 4 0.05
43 24 0.32
45 29 0.39
46 4 0.05
47 7 0.09
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.25
Consensus pattern (45 bp):
AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
Found at i:26781717 original size:88 final size:88
Alignment explanation
Indices: 26781559--26781753 Score: 327
Period size: 88 Copynumber: 2.2 Consensus size: 88
26781549 CAAATCCATT
*
26781559 TAGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAGCGG
1 TAGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAACGG
26781624 AACTTTCCTCACAAACGCCGCTA
66 AACTTTCCTCACAAACGCCGCTA
* *
26781647 TAGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAATGG
1 TAGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAACGG
*
26781712 CACTTTCCTCACAAACGCCGCTA
66 AACTTTCCTCACAAACGCCGCTA
* **
26781735 AAGAACATGGCCTTTAGCG
1 TAGAACATAACCTTTAGCG
26781754 GCACTTTCCC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (88 bp):
TAGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAACGG
AACTTTCCTCACAAACGCCGCTA
Found at i:26781771 original size:88 final size:88
Alignment explanation
Indices: 26781560--26781861 Score: 279
Period size: 88 Copynumber: 3.4 Consensus size: 88
26781550 AAATCCATTT
* * * * *
26781560 AGAACATAACCTTTAGC-G-ACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAGCG
1 AGAACATGACCTTTAGCGGCAC-TTTC-CCCACAAAAATGCCACTATATAACATGACATTTAGTG
* *
26781623 GAACTTTCCTCACAAACGCCGCTAT
64 GCACTTTCCTCACAAACGCCGCTAA
* * * *
26781648 AGAACATAACCTTTAGC-G-ACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAATG
1 AGAACATGACCTTTAGCGGCAC-TTTC-CCCACAAAAATGCCACTATATAACATGACATTTAGTG
26781711 GCACTTTCCTCACAAACGCCGCTAA
64 GCACTTTCCTCACAAACGCCGCTAA
* *** * * * * * *
26781736 AGAACATGGCCTTTAGCGGCACTTTCCCCACAAAAACATCGCTATAAAATATGCCCTTTAGTGAC
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAAAATGCCACTATATAACATGACATTTAGTGGC
* *
26781801 GCTTTCCCCACAAACGTCGCTAGCTAA
66 ACTTTCCTCACAAACG-C-C--GCTAA
* *
26781828 AGAGCATGACCTTTAGCGACACTTTCCCCACAAA
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAA
26781862 CGCCACTACT
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
88 139 0.76
89 6 0.03
90 3 0.02
92 36 0.20
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.24
Consensus pattern (88 bp):
AGAACATGACCTTTAGCGGCACTTTCCCCACAAAAATGCCACTATATAACATGACATTTAGTGGC
ACTTTCCTCACAAACGCCGCTAA
Found at i:26781854 original size:47 final size:46
Alignment explanation
Indices: 26781712--26781863 Score: 147
Period size: 47 Copynumber: 3.4 Consensus size: 46
26781702 CATTTAATGG
* * *
26781712 CACTTTCCTCACAAACG-C-C--GCTAAAGAACATGGCCTTTAGCGG
1 CACTTTCCCCACAAACGTCGCTAGCTAAAG-ACATGACCTTTAGCGA
* * * *
26781755 CACTTTCCCCACAAAAACATCGCTA--TAAA-ATATGCCCTTTAGTGA
1 CACTTTCCCCAC--AAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
*
26781800 CGCTTTCCCCACAAACGTCGCTAGCTAAAGAGCATGACCTTTAGCGA
1 CACTTTCCCCACAAACGTCGCTAGCTAAAGA-CATGACCTTTAGCGA
26781847 CACTTTCCCCACAAACG
1 CACTTTCCCCACAAACG
26781864 CCACTACTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
43 21 0.24
45 31 0.36
46 2 0.02
47 33 0.38
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.22
Consensus pattern (46 bp):
CACTTTCCCCACAAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
Found at i:26786476 original size:36 final size:36
Alignment explanation
Indices: 26786429--26786499 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
26786419 ATCATTCCCG
26786429 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
26786465 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
26786500 AAAAGAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (36 bp):
AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
Found at i:26787926 original size:36 final size:36
Alignment explanation
Indices: 26787885--26787961 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
26787875 ATCCAAAGTT
*
26787885 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
26787921 TTATGTAAGTTATGATATAATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
26787957 TTATG
1 TTATG
26787962 ATCCAAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGATATAATATATATTTATGTAAG
Found at i:26795477 original size:41 final size:41
Alignment explanation
Indices: 26795347--26795523 Score: 223
Period size: 41 Copynumber: 4.4 Consensus size: 41
26795337 AAAATGATAC
* * *
26795347 TTTGCGGCTTTTTTCTCAT-AGCGCCGCTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
26795387 TTTGTGGCGTTTTTCTCAT-AGCGCCGTTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* * * *
26795427 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
26795468 TTTGTGGCGTTTTTCTCATAAACGCCGCTACTGCTTTACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
26795509 ATTGTGGCATTTTTC
1 TTTGTGGCGTTTTTC
26795524 CGTTAGCGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 55 0.46
41 65 0.54
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
Found at i:26795481 original size:81 final size:81
Alignment explanation
Indices: 26795347--26795523 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
26795337 AAAATGATAC
* * * *
26795347 TTTGCGGCTTTTTTCTCATAGCGCCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCAT-AGCGC
1 TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
*
26795411 CGTTAATGCTTGACCT
66 CGCTAATGCTTGACCT
* * *
26795427 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
1 TTTGCGGCATTTTTCTCAT-AACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
* *
26795492 CCGCTACTGCTTTACCT
65 CCGCTAATGCTTGACCT
* *
26795509 ATTGTGGCATTTTTC
1 TTTGCGGCATTTTTC
26795524 CGTTAGCGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 18 0.22
81 36 0.43
82 29 0.35
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
CGCTAATGCTTGACCT
Found at i:26796791 original size:16 final size:16
Alignment explanation
Indices: 26796770--26796800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26796760 ATATTTAGTC
26796770 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
26796786 ATATAATTAATTATT
1 ATATAATAAATTATT
26796801 TTTAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:26798169 original size:21 final size:21
Alignment explanation
Indices: 26798116--26798171 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
26798106 ATATATGCCT
*
26798116 TAAAAATT-ATAAAAA--ATA
1 TAAAAATTCAGAAAAATTATA
*
26798134 TAAATATTCAGAAAAATTATA
1 TAAAAATTCAGAAAAATTATA
*
26798155 TAAAAATTTCAAAAAAA
1 TAAAAA-TTCAGAAAAA
26798172 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 7 0.23
19 6 0.20
21 8 0.27
22 9 0.30
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATTCAGAAAAATTATA
Found at i:26802421 original size:17 final size:17
Alignment explanation
Indices: 26802401--26802469 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
26802391 TTTGTTTTAA
26802401 AAAATAAAAAAATAAAT
1 AAAATAAAAAAATAAAT
* *
26802418 AAAA-ACAACAAATATAT
1 AAAATA-AAAAAATAAAT
*
26802435 ATAAATAAAAACTAATTAA-
1 A-AAATAAAAA--AATAAAT
26802454 AAAATAAAAGAAATAA
1 AAAATAAAA-AAATAA
26802470 TTACATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
16 1 0.03
17 18 0.45
18 14 0.35
19 3 0.08
20 4 0.10
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAAATAAAT
Found at i:26803093 original size:22 final size:21
Alignment explanation
Indices: 26803058--26803115 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
26803048 AAAGGGTATC
* *
26803058 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
26803079 TACAAAATCATATCTTGTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
26803102 TACATATCATATCT
1 TACAAATCATATCT
26803116 AAGATTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26803103 original size:23 final size:22
Alignment explanation
Indices: 26803073--26803115 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
26803063 ATTAAATCTC
26803073 TAAGATTACAAAATCATATCTTG
1 TAAGATTAC-AAATCATATCTTG
*
26803096 TAAGATTACATATCATATCT
1 TAAGATTACAAATCATATCT
26803116 AAGATTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTG
Found at i:26803120 original size:19 final size:19
Alignment explanation
Indices: 26803071--26803168 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
26803061 AAATTAAATC
*
26803071 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
26803091 TCTTGTAAGATTACATATCATA
1 TC---TAAGATTACATATCATA
*
26803113 TCTAAGATTGCCTATATCATA
1 TCTAAGATT-AC-ATATCATA
*
26803134 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
26803153 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26803169 CTCGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 31 0.44
20 4 0.06
21 17 0.24
22 9 0.13
23 9 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26803131 original size:21 final size:20
Alignment explanation
Indices: 26803104--26803168 Score: 107
Period size: 19 Copynumber: 3.3 Consensus size: 20
26803094 TGTAAGATTA
26803104 CATATCATATCTAAGATTGC
1 CATATCATATCTAAGATTGC
26803124 CTATATCATATCTAAGATTG-
1 C-ATATCATATCTAAGATTGC
26803144 CATATCATATCTAAGATTG-
1 CATATCATATCTAAGATTGC
26803163 CATATC
1 CATATC
26803169 CTCGAAGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 24 0.55
20 2 0.05
21 18 0.41
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
CATATCATATCTAAGATTGC
Found at i:26803178 original size:17 final size:18
Alignment explanation
Indices: 26803097--26803178 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
26803087 CATATCTTGT
* *
26803097 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26803116 AAGATTGCCTATATCATATCT
1 AAGATTG-C-ATATCA-ATCG
*
26803137 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26803156 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
26803173 AAGATT
1 AAGATT
26803179 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 30 0.52
20 2 0.03
21 18 0.31
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:26803740 original size:174 final size:176
Alignment explanation
Indices: 26803471--26803983 Score: 489
Period size: 173 Copynumber: 2.9 Consensus size: 176
26803461 TCCATCACTC
*
26803471 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAATTTC
1 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
* * ** *
26803536 AGGGGGATAAGGCTTGCTTTCTTGAGTCTG-CTCCACTACAACTTCAGG-GAGATAAGACTCGA-
66 AGGGAGATAAGGATTGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAGACTCGAT
*
26803598 TA-TGA-TCTACTCTACTGCAACTTC-AGAGAGATAAGATCTGTGGTTT
129 TACTGAGTCTACTCCACTGCAACTTCAAG-GAGATAAGATCTGTGGTTT
* *
26803644 TAATCCGCTCCACTACAACTTCAGGGAGACA-AGATTTGTTTATTTAGTATGCCTCACTGCAACT
1 TAATCCACTCCACTACAACTT-AGGGAGACAGA-ATTTGTTTATTTAGTATGCCCCACTGCAACT
* * *
26803708 TCAGGGAGAT-AGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGA
64 TCAGGGAGATAAGGATT-GCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCGA
* * * *
26803772 TTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGA-C--TAGATG
128 TTACTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGATCTGTGGTTT
* ** * * * * * ** *** *
26803818 TGATCTGCT-CTCTGCAACTTCAGGAAGATAGGATTATCG--GCTTTAACCTGCTCCACTGCAAC
1 TAATCCACTCCACTACAACTT-AGGGAGACAGAATT-T-GTTTATTTAGTATGCCCCACTGCAAC
* *
26803880 TTCAGGGAGATAA-GATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
63 TTCAGGGAGATAAGGA-TTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCG
* * * * * *
26803944 CTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGA
127 ATTACTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGA
26803984 CTAGATGCGA
Statistics
Matches: 290, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
173 155 0.53
174 97 0.33
175 6 0.02
176 3 0.01
177 27 0.09
178 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
AGGGAGATAAGGATTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCGATTA
CTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGATCTGTGGTTT
Found at i:26803791 original size:89 final size:89
Alignment explanation
Indices: 26803698--26803983 Score: 336
Period size: 89 Copynumber: 3.3 Consensus size: 89
26803688 TAGTATGCCT
* *
26803698 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
* *
26803763 AAGACTTGATTACTTAGTCTACTC
66 AAGACTTGATTGCTTAGTCTGCTC
* * * * *
26803787 CACTGCAACTTCAAGGAGATAAGACTAG--AT-GTGA-TCTG-CTC-TCTGCAACTTCAGGAAGA
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCAT-TGCAACTTCAGGAGGA
* * **
26803846 TAGGA-TT-ATCGGCTTTAACCTGCTC
65 TAAGACTTGAT-TGC-TTAGTCTGCTC
* *
26803871 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
*
26803936 AAGACTTGCTTGCTTAGTCTGCTC
66 AAGACTTGATTGCTTAGTCTGCTC
*
26803960 CATTGCAACTTCAGGGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
26803984 CTAGATGCGA
Statistics
Matches: 160, Mismatches: 26, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
82 2 0.01
83 4 0.03
84 55 0.34
85 4 0.03
86 4 0.03
87 4 0.03
88 4 0.03
89 78 0.49
90 4 0.03
91 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (89 bp):
CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
AAGACTTGATTGCTTAGTCTGCTC
Found at i:26803811 original size:44 final size:43
Alignment explanation
Indices: 26803513--26804160 Score: 354
Period size: 44 Copynumber: 14.9 Consensus size: 43
26803503 ATTTGTTTAT
* * * * * *
26803513 TTAGTATGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATTC
* * *
26803557 TTGAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGA-TA
1 TT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
26803600 TGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * * * * *
26803643 TTAATCCGCTCCACTACAACTTCAGGGAGACAAGATTTGTTTAT
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT-C
* *
26803687 TTAGTATGC-CTCACTGCAACTTCAGGGAGATAGGA-TTCGCCA-TC
1 TTAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTT-G--ATTC
*
26803731 TTCAGTCTGC-CTCATTGCAACTTCA-GGAGGATAAGACTTGATTAC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * * *
26803776 TTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGA-TG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
26803818 TGA-TCTGCT-CTCTGCAACTTCAGGAAGATAGGA-TT-ATCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
** *
26803859 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
*
26803904 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * *
26803949 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * **
26803992 -GA-TCTACT-CTCTGCAACTTCAAAGAGATAAGATCTGTGATT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * *
26804033 TTAATCTGCTCCACTGCAACTTTAGGGAGATAGGA-TTG-TCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
* * * *
26804076 TTTAATCTGCTCCACTGCAACCTCAGGGAGATAATATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
* *
26804121 TTCAGTCTGC-CTCACTGCAACTTCAGGGAGACAAGGCTTG
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTG
26804161 GTGGCTTAAA
Statistics
Matches: 464, Mismatches: 90, Indels: 99
0.71 0.14 0.15
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 41 0.09
41 41 0.09
42 17 0.04
43 22 0.05
44 202 0.44
45 136 0.29
46 2 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
Found at i:26803879 original size:84 final size:83
Alignment explanation
Indices: 26803784--26804064 Score: 271
Period size: 84 Copynumber: 3.3 Consensus size: 83
26803774 ACTTAGTCTA
* *
26803784 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAA
*
26803849 GATTATCGGCTTTAACCTG
66 GATT-TCGGCTTTAATCTG
* * * * * *
26803868 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG--AT-GTGA-TCTG-CTCTCTGCAACTTCAGGAA
* * *
26803933 GATAAGACTTGCTTGC-TTAGTCTG
61 GATAAGA-TTTC-GGCTTTAATCTG
* * * *
26803957 CTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCA-AAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGA-AGATA
**
26804021 AGATCTGT-GATTTTAATCTG
65 AGAT-T-TCGGCTTTAATCTG
*
26804041 CTCCACTGCAACTTTAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
26804065 GGATTGTCGG
Statistics
Matches: 157, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 79 0.50
85 3 0.02
86 3 0.02
87 4 0.03
88 4 0.03
89 58 0.37
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (83 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAA
GATTTCGGCTTTAATCTG
Found at i:26803888 original size:173 final size:173
Alignment explanation
Indices: 26803698--26804069 Score: 559
Period size: 173 Copynumber: 2.2 Consensus size: 173
26803688 TAGTATGCCT
*
26803698 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
* *
26803763 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTC
66 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
* * *
26803828 TCTGCAACTTC-AGGAAGATAGGAT-TATCGGCTTTAACCTGCTC
131 TCTGCAACTTCAAAG-AGATAAGATCTAT-GACTTTAACCTGCTC
* *
26803871 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
* * * * *
26803936 AAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
* * *
26804001 TCTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCTGCTC
131 TCTGCAACTTCAAAGAGATAAGATCTATGACTTTAACCTGCTC
*
26804044 CACTGCAACTTTAGGGAGATAGGATT
1 CACTGCAACTTCAGGGAGATAGGATT
26804070 GTCGGCTTTA
Statistics
Matches: 179, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 175 0.98
174 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAAAGAGATAAGATCTATGACTTTAACCTGCTC
Found at i:26803889 original size:217 final size:216
Alignment explanation
Indices: 26803513--26804160 Score: 692
Period size: 217 Copynumber: 3.0 Consensus size: 216
26803503 ATTTGTTTAT
* * * * * * * * *
26803513 TTAGTATGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTACAAC
1 TTAGTCTGCTCCATTGCAACTTCA-GGGGATAAGACTTGATTACTT-AGTCTACTCCACTGCAAC
* * * *
26803578 TTCAGGGAGATAAGACTCGATATGATCTACTCTACTGCAACTTCA-GAGAGATAAGATCTGT-GG
64 TTCAAGGAGATAAGACTAGATATGATCTGCTCT-CTGCAACTTCAGGA-AGATAGGAT-TGTCGG
* * * ** *
26803641 TTTTAATCC-GCTCCACTACAACTTCAGGGAGACAAGATTTGTTTAT-TT-AGTATGCCTCACTG
126 CTTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CCATCTTCAGTCTGCCTCACTG
*
26803703 CAACTTCAGGGAGATAGGA-TTCGCCAT-C
189 CAACTTCAGGGAGATAAGACTT-G-CATGC
26803731 TTCAGTCTGC-CTCATTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTACTCCACTGCAA
1 TT-AGTCTGCTC-CATTGCAACTTCAGG-GGATAAGACTTGATTACTTAGTCTACTCCACTGCAA
* *
26803795 CTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTATCGGCT
63 CTTCAAGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTGTCGGCT
26803860 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
128 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
*
26803925 TTCA-GGAGGATAAGACTTGCTTGC
193 TTCAGGGA-GATAAGACTTGCATGC
* * * *
26803949 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTACT-CTCTGCAACT
1 TTAGTCTGCTCCATTGCAACTTCAGGG-GATAAGACTTGATTACTTAGTCTACTCCACTGCAACT
* * * * * * *
26804010 TCAAAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGG
65 TCAAGGAGATAAGA-CT-AGA-TATGATCTGCT-CTCTGCAACTTCAGGAAGATAGGATTGTCGG
* * *
26804075 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAATATTTGCCATCTTCAGTCTGCCTCACTGCA
126 CTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
* *
26804140 ACTTCAGGGAGACAAGGCTTG
191 ACTTCAGGGAGATAAGACTTG
26804161 GTGGCTTAAA
Statistics
Matches: 373, Mismatches: 39, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
213 22 0.06
214 8 0.02
215 3 0.01
216 18 0.05
217 200 0.54
218 87 0.23
219 35 0.09
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (216 bp):
TTAGTCTGCTCCATTGCAACTTCAGGGGATAAGACTTGATTACTTAGTCTACTCCACTGCAACTT
CAAGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTGTCGGCTTTA
ACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
AGGGAGATAAGACTTGCATGC
Found at i:26804130 original size:173 final size:173
Alignment explanation
Indices: 26803698--26804151 Score: 519
Period size: 173 Copynumber: 2.6 Consensus size: 173
26803688 TAGTATGCCT
* * * * * *
26803698 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
* * * * *
26803763 AAGACTTG-ATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
66 AAGACTTGCA-TGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACT
* * *
26803827 CTCTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTC
130 CTCTGCAACTTCAAGAAGATAAGATTATCGACTTTAACCTGCTC
* * *
26803871 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
* *
26803936 AAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGCATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
* * *
26804001 TCTGCAACTTCAA-AGAGATAAGATCTGT-GATTTTAATCTGCTC
131 TCTGCAACTTCAAGA-AGATAAGAT-TATCGACTTTAACCTGCTC
* * * * *
26804044 CACTGCAACTTTAGGGAGATAGGA-TTGTCGGCTTTAATCTG-CTCCACTGCAACCTCAGG-GAG
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCT-CACTGCAACCTCAGGAG-G
* *
26804106 ATAATATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTCAGGGAGA
64 ATAAGACTTG-CATGCTT-AGTCTGCTC-CACTGCAACTTCAGGGAGA
26804152 CAAGGCTTGG
Statistics
Matches: 245, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
171 3 0.01
172 40 0.16
173 200 0.82
174 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (173 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
AAGACTTGCATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAAGAAGATAAGATTATCGACTTTAACCTGCTC
Found at i:26804241 original size:44 final size:44
Alignment explanation
Indices: 26804193--26804377 Score: 150
Period size: 44 Copynumber: 4.2 Consensus size: 44
26804183 TATCTTGGAA
26804193 AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAAGG
1 AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAAGG
* * * * * *
26804237 AGATAAGATCT-ACAATCTTCAACCTAT-TCCACTGCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCT-TCTCCACTACTGCTTAAGG
* * * * * *
26804281 AGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT--GG
1 AGATAA-GATTTGTCGTCTTCAATCTTC-T-CCACTACTGCTTAAGG
26804323 AAAGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAAGG
1 --AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAAGG
26804369 AGATAAGAT
1 AGATAAGAT
26804378 CTACAATCTT
Statistics
Matches: 103, Mismatches: 24, Indels: 28
0.66 0.15 0.18
Matches are distributed among these distances:
42 8 0.08
43 8 0.08
44 75 0.73
45 5 0.05
46 7 0.07
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAAGG
Found at i:26804304 original size:132 final size:132
Alignment explanation
Indices: 26804147--26804555 Score: 692
Period size: 132 Copynumber: 3.1 Consensus size: 132
26804137 GCAACTTCAG
26804147 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
26804212 CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
66 CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
26804277 AA
131 AA
26804279 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
26804344 CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
66 CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
26804409 AA
131 AA
* * *
26804411 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTTTCGTCCT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
* * * * * * * ** *
26804476 CGATCTACTCCACTACTACTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGTTGTTGCTC
66 CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
*
26804541 AG
131 AA
26804543 GGAGACAAGGCTT
1 GGAGACAAGGCTT
26804556 AGTGTTTCAC
Statistics
Matches: 263, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 263 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
CAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTC
AA
Found at i:26804388 original size:44 final size:44
Alignment explanation
Indices: 26804208--26804415 Score: 128
Period size: 44 Copynumber: 4.7 Consensus size: 44
26804198 AGATTTGTCG
26804208 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAA
1 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAA
* * * * * ***
26804252 TCTTCAACCTAT-TCCACTGCTGCTCAAGGAGACAAG-GCT-TGG
1 TCTTCAATCT-TCTCCACTACTGCTTAAGGAGATAAGATCTACAA
* * * * *
26804294 TGGCTTAAATCTGCTTCCCACTA-T-CTT--GGAAAGATAAGATTTGTC-G
1 T--CTTCAATCTTC-T-CCACTACTGCTTAAGG--AGATAAGATCT-ACAA
26804340 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAA
1 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAA
* * *
26804384 TCTTCAACCTAT-TCCACTGCTGCTCAAGGAGA
1 TCTTCAATCT-TCTCCACTACTGCTTAAGGAGA
26804416 CAAGGCTTGG
Statistics
Matches: 122, Mismatches: 25, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
42 9 0.07
43 5 0.04
44 94 0.77
45 5 0.04
46 9 0.07
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAA
Found at i:26805860 original size:19 final size:21
Alignment explanation
Indices: 26805815--26805855 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
26805805 CTCCATTTTC
26805815 CTTTTCTTTTTCTTTTTATCA
1 CTTTTCTTTTTCTTTTTATCA
26805836 CTTTTTCTTCTTT-TTTTTAT
1 C-TTTTCTT-TTTCTTTTTAT
26805856 ATTTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.06
22 14 0.78
23 3 0.17
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTCTTTTTCTTTTTATCA
Found at i:26820000 original size:928 final size:928
Alignment explanation
Indices: 26818205--26820359 Score: 4193
Period size: 928 Copynumber: 2.3 Consensus size: 928
26818195 ACGTACTGGA
26818205 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
1 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
26818270 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
66 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
26818335 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
131 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
26818400 GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
196 GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
26818465 ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGTGATGACATACTCCCTACGACGTCAAC
261 ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGTGATGACATACTCCCTACGACGTCAAC
26818530 CGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTTAGAAGATGAGTCCGATGTGGATCCAC
326 CGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTTAGAAGATGAGTCCGATGTGGATCCAC
26818595 CTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTATTTTCTGAACCGGAGCCTATTCCAACA
391 CTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTATTTTCTGAACCGGAGCCTATTCCAACA
*
26818660 GAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAAAATCCATAATTCAGAGCATACTCACC
456 GAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAAAATCCATAATTCAGAGAATACTCACC
26818725 TCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGATGCGTTAGAGTTTCTAGATCTACCAC
521 TCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGATGCGTTAGAGTTTCTAGATCTACCAC
26818790 ACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTGCTGAATTTGAAGGTGGTAATCAGTTT
586 ACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTGCTGAATTTGAAGGTGGTAATCAGTTT
26818855 ACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACATAGCATCAAAAACGGCGTTAACTACCA
651 ACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACATAGCATCAAAAACGGCGTTAACTACCA
* * *
26818920 CGTCGTTAAATTCAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCACATGTTCAT
716 CGTCCTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTGTGCGGTGCAAGACGGCACATGTTCAT
*
26818985 GGAAAATCTACGCCTCGTTAAGGAAAAGGACAGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCA
781 GGAAAATCTACGCCTCGTTAAGGAAAAGAACAGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCA
26819050 CATACATGTGCTGCAGGTACAGTATTGACGGTATATGAATAATACTTTTATTATGTAATGTTGCA
846 CATACATGTGCTGCAGGTACAGTATTGACGGTATATGAATAATACTTTTATTATGTAATGTTGCA
26819115 TTATTTAATGTACTCCGT
911 TTATTTAATGTACTCCGT
26819133 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
1 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
26819198 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
66 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
26819263 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
131 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
26819328 GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
196 GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
26819393 ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGTGATGACATACTCCCTACGACGTCAAC
261 ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGTGATGACATACTCCCTACGACGTCAAC
26819458 CGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTTAGAAGATGAGTCCGATGTGGATCCAC
326 CGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTTAGAAGATGAGTCCGATGTGGATCCAC
26819523 CTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTATTTTCTGAACCGGAGCCTATTCCAACA
391 CTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTATTTTCTGAACCGGAGCCTATTCCAACA
26819588 GAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAAAATCCATAATTCAGAGAATACTCACC
456 GAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAAAATCCATAATTCAGAGAATACTCACC
26819653 TCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGATGCGTTAGAGTTTCTAGATCTACCAC
521 TCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGATGCGTTAGAGTTTCTAGATCTACCAC
*
26819718 ACCGGTTGCGTGGTCGTACAAGTTCGGGGGTAGATTCTGCTGAATTTGAAGGTGGTAATCAGTTT
586 ACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTGCTGAATTTGAAGGTGGTAATCAGTTT
*
26819783 ACCAACAAGGATAGTTTTATTGGTGCTTTGAAACAACATAGCATCAAAAACGGCGTTAACTACCA
651 ACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACATAGCATCAAAAACGGCGTTAACTACCA
26819848 CGTCCTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTGTGCGGTGCAAGACGGCACATGTTCAT
716 CGTCCTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTGTGCGGTGCAAGACGGCACATGTTCAT
*
26819913 GGAAAATCTATGCCTCGTTAAGGAAAAGAACAGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCA
781 GGAAAATCTACGCCTCGTTAAGGAAAAGAACAGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCA
26819978 CATACATGTGCTGCAGGTACAGTATTGACGGTATATGAATAATACTTTTATTATGTAATGTTGCA
846 CATACATGTGCTGCAGGTACAGTATTGACGGTATATGAATAATACTTTTATTATGTAATGTTGCA
26820043 TTATTTAATGTACTCCGT
911 TTATTTAATGTACTCCGT
26820061 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
1 TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
26820126 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
66 ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
*
26820191 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAATATGCATAGTG
131 GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
* * *
26820256 GGTGGGACGCCTTGTAACACCCCGACCCGAGTCCGTCGCCGGATTAGAGTTACGAGGCATTACCA
196 GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
*
26820321 ATCAAAATCCGACCCAAAATTATTATTACCAAAATTAGT
261 ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGT
26820360 CAACAATTTA
Statistics
Matches: 1214, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
928 1214 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (928 bp):
TAATAGGTGTTTCACAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCT
ACGGTAAGAGCAGATCCTAGGACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGG
GTACACTCCCTCTTACCGTAAGGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTG
GGTGGGATGCCTTGTAACACCCCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCA
ATCAAAATCTGACCCAAAATTATTATTACCAAAATTAGTGATGACATACTCCCTACGACGTCAAC
CGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTTAGAAGATGAGTCCGATGTGGATCCAC
CTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTATTTTCTGAACCGGAGCCTATTCCAACA
GAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAAAATCCATAATTCAGAGAATACTCACC
TCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGATGCGTTAGAGTTTCTAGATCTACCAC
ACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTGCTGAATTTGAAGGTGGTAATCAGTTT
ACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACATAGCATCAAAAACGGCGTTAACTACCA
CGTCCTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTGTGCGGTGCAAGACGGCACATGTTCAT
GGAAAATCTACGCCTCGTTAAGGAAAAGAACAGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCA
CATACATGTGCTGCAGGTACAGTATTGACGGTATATGAATAATACTTTTATTATGTAATGTTGCA
TTATTTAATGTACTCCGT
Found at i:26821277 original size:41 final size:41
Alignment explanation
Indices: 26821215--26821349 Score: 225
Period size: 41 Copynumber: 3.3 Consensus size: 41
26821205 AATTTAACAT
*
26821215 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
* * * *
26821256 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
26821297 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
26821338 ATTCAGATCACC
1 ATTCAGATCACC
26821350 AATTCCAAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
Found at i:26821582 original size:41 final size:41
Alignment explanation
Indices: 26821525--26821619 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
26821515 TTCGTTCCTT
*
26821525 TGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
26821566 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
26821607 TGATTCAGATCAC
1 TGATTCAGATCAC
26821620 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:26824432 original size:23 final size:23
Alignment explanation
Indices: 26824401--26824648 Score: 415
Period size: 23 Copynumber: 10.8 Consensus size: 23
26824391 GTTTTTAAGT
26824401 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
26824424 ATAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* * *
26824447 ATAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
26824470 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
26824493 TTAGGTTAAGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* *
26824516 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
26824539 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
26824562 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* *
26824585 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
26824608 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
26824631 TTAGGTTAGGGTTTTCAA
1 TTAGGTTAGGGTTTTCAA
26824649 TTTTTATCAC
Statistics
Matches: 209, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 209 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTCAACTTAA
Found at i:26824498 original size:69 final size:69
Alignment explanation
Indices: 26824386--26824648 Score: 469
Period size: 69 Copynumber: 3.9 Consensus size: 69
26824376 TGACAAATTA
* * *
26824386 TTAGGGTTTTTAA-GT--TTAGGTTAGGGTTTTCAACTTAAATAGGTTAGGGTTTTCAACTTAAA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAT
26824448 TAGG
66 TAGG
*
26824452 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAAGGTTTTCAACTTAAT
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAT
26824517 TAGG
66 TAGG
26824521 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAT
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAT
26824586 TAGG
66 TAGG
26824590 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
26824649 TTTTTATCAC
Statistics
Matches: 189, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
66 13 0.07
67 1 0.01
69 175 0.93
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.46
Consensus pattern (69 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAT
TAGG
Done.