Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 39 of 208
Found at i:10832618 original size:25 final size:25
Alignment explanation
Indices: 10832590--10832648 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
10832580 ATATGGATAG
*
10832590 AAATAATAAAGAT-TTTTATACTAAT
1 AAATAATAAA-ATATATTATACTAAT
*
10832615 AAAT-ATAAAATATATTATGCTAAT
1 AAATAATAAAATATATTATACTAAT
*
10832639 AAATACTAAA
1 AAATAATAAA
10832649 TCTTCTAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 19 0.66
25 8 0.28
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATAATAAAATATATTATACTAAT
Found at i:10834952 original size:24 final size:23
Alignment explanation
Indices: 10834902--10834990 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 23
10834892 TAAATATGGA
* *
10834902 AATAAATAACAAATATTTTTATACT
1 AATAAAT-GCAAATA-TATTATACT
*
10834927 AATAAATGTCAAATATATTATGCT
1 AATAAATG-CAAATATATTATACT
10834951 AATAAATGCTAAATATATTATACT
1 AATAAATGC-AAATATATTATACT
*
10834975 AATAAATACTAAATAT
1 AATAAATGC-AAATAT
10834991 TCTAAAAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.02
24 43 0.75
25 13 0.23
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (23 bp):
AATAAATGCAAATATATTATACT
Found at i:10837879 original size:25 final size:25
Alignment explanation
Indices: 10837831--10837879 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10837821 CTTCTTAGCC
*
10837831 ATAACTTTTTATAAAGAAATATATT
1 ATAACTTTTTATAAACAAATATATT
*
10837856 ATAACTCTTTTATAACCAAA-ATAT
1 ATAACT-TTTTATAAACAAATATAT
10837880 CTTCCAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (25 bp):
ATAACTTTTTATAAACAAATATATT
Found at i:10839847 original size:43 final size:43
Alignment explanation
Indices: 10839799--10839949 Score: 212
Period size: 43 Copynumber: 3.5 Consensus size: 43
10839789 TTTTAGAAAT
*
10839799 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTACCAC
* * * **
10839842 AAACGCCGCCATAGAACAAGACCTTTAGCAGCGCTTTTTTCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTACCAC
* *
10839885 AAACGCCGCTATAGAACAAGACCTTTAGTGGCGCTTTTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTACCAC
* *
10839928 AAACGCTGTTAAAGAACAAGAC
1 AAACGCCGCTAAAGAACAAGAC
10839950 ACTACACCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:10840133 original size:43 final size:43
Alignment explanation
Indices: 10840075--10840368 Score: 326
Period size: 43 Copynumber: 6.9 Consensus size: 43
10840065 GTTTTTAGAA
* * *
10840075 ACAAACGCCACTAAAGACCACGACCTTTAGCGGCGCTTACCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* * * **
10840118 ACAAACGCCGTTAAAGACCAAAACCTTTAGCGGCACTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* * *
10840161 ACAAACGCCGCTAAAGACCACGATCTTTAGCGACGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* *
10840204 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGC-TTCTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTC-CCC
*
10840247 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTCTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTC-CCC
* * * * * ***
10840290 ACAAGCGCCGCTATAGACCATGATC-TTAGCGGCGATTTTATC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* *
10840332 ACAAATGCCGCTAAAGAACAA-ACCTTTAGCGGCGCTT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
10840369 CTAGCAAAAA
Statistics
Matches: 211, Mismatches: 37, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
41 2 0.01
42 40 0.19
43 169 0.80
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
Found at i:10840223 original size:129 final size:127
Alignment explanation
Indices: 10840077--10840388 Score: 392
Period size: 129 Copynumber: 2.4 Consensus size: 127
10840067 TTTTAGAAAC
* *
10840077 AAACGCCACTAAAGACCACGACCTTTAGCGGCGCTTAC-CCCACAAACGCCGTTAAAGACCAAAA
1 AAACGCCGCTAAAGACCA-GACCTTTAGCGGCGCTT-CTCCCACAAACGCCGCTAAAGACCAAAA
* * *
10840141 CCTTTAGCGGCACTTTTTCCACAAACGCCGCTAAAGACCACGATCTTTAGCGACGCTTTCCCCAA
64 CCTTTAGCGGCACTTCTTCCACAAACGCCGCTAAAGACCACGATC-TTAGCGACGATTTCACCAA
* *
10840206 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCACAAACGCCGCTAAAGACCAAGAC
1 AAACGCCGCTAAAGACC-AGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAAAC
* * * * * * * *
10840271 CTTTAGCGGCGCTTCTTCCACAAGCGCCGCTATAGACCATGATCTTAGCGGCGATTTTATCAC
65 CTTTAGCGGCACTTCTTCCACAAACGCCGCTAAAGACCACGATCTTAGCGACGATTTCACCAA
* * * ** *
10840334 AAATGCCGCTAAAGAACAAACCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 AAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAA
10840389 AACATAATCT
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
127 33 0.21
128 29 0.18
129 96 0.60
130 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (127 bp):
AAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAAACC
TTTAGCGGCACTTCTTCCACAAACGCCGCTAAAGACCACGATCTTAGCGACGATTTCACCAA
Found at i:10842026 original size:22 final size:22
Alignment explanation
Indices: 10841996--10842037 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10841986 ACGATAAATT
* *
10841996 GGAACTAAATTCAAAGATTGGA
1 GGAAATAAATTCAAAAATTGGA
*
10842018 GGAAATAAATTGAAAAATTG
1 GGAAATAAATTCAAAAATTG
10842038 AAAAATACCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (22 bp):
GGAAATAAATTCAAAAATTGGA
Found at i:10844848 original size:15 final size:14
Alignment explanation
Indices: 10844830--10844884 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
10844820 CTTAAGCCCC
10844830 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* *
10844845 AACCATAATCCATA
1 AACCCTAAACCATA
*
10844859 ATCCCTAAACACATA
1 AACCCTAAAC-CATA
*
10844874 ATCCCTAAACC
1 AACCCTAAACC
10844885 TAATGACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:10845246 original size:41 final size:41
Alignment explanation
Indices: 10845189--10845460 Score: 456
Period size: 41 Copynumber: 6.6 Consensus size: 41
10845179 NNNNNNNNNN
* * *
10845189 CGGCGCTT-TTCAAAAAACGCCACTAAAACCCTGAGTATTAG
1 CGGCGCTTCTTC-AAAAACGCCGCTAAAGCCCTGAGCATTAG
* *
10845230 CGGCGCTTCCTAAAAAACGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
*
10845271 CGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
*
10845312 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAACATTAG
1 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
*
10845353 CGGCGCTTCTTCAAAAATGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
10845394 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
10845435 CGGCGCTTCTTCAAAAACGCCGCTAA
1 CGGCGCTTCTTCAAAAACGCCGCTAA
10845461 TGCCTCAAAA
Statistics
Matches: 217, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
41 216 1.00
42 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (41 bp):
CGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
Found at i:10845557 original size:39 final size:39
Alignment explanation
Indices: 10845525--10845637 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
10845515 TTTTGGGAAA
10845525 CGCCGCTAATGCTCATTTTTAGCTGCGTTTTTTAAAAAG
1 CGCCGCTAATGCTCATTTTTAGCTGCGTTTTTTAAAAAG
* * * *
10845564 CGCCGCTAATACTCGATCTTTAG-TGGCATTTTTTTAAAAG
1 CGCCGCTAATGCTC-ATTTTTAGCT-GCGTTTTTTAAAAAG
* *
10845604 CGCCGCTAATGCTTAATTTTTAGCGGCGTTTTTT
1 CGCCGCTAATGC-TCATTTTTAGCTGCGTTTTTT
10845638 TATCCAAACG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 14 0.23
40 46 0.75
41 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (39 bp):
CGCCGCTAATGCTCATTTTTAGCTGCGTTTTTTAAAAAG
Found at i:10846429 original size:4 final size:4
Alignment explanation
Indices: 10846420--10846555 Score: 254
Period size: 4 Copynumber: 34.0 Consensus size: 4
10846410 TTAGCGTGGG
10846420 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
10846468 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
10846516 TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
10846556 TACATATGTA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 128 1.00
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:10847392 original size:31 final size:31
Alignment explanation
Indices: 10847334--10847423 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 31
10847324 ATTTTTAAGT
*
10847334 ATATATTACATTACTTACATTACTTACTAAA
1 ATATATTACATTACTTAAATTACTTACTAAA
*
10847365 ATATGTTACATTACTTAAATATATTACTTACTAAA
1 ATATATTACATTACTT--A-A-ATTACTTACTAAA
10847400 ATTTATAATTTACATTACTTAAAT
1 A--TAT-A-TTACATTACTTAAAT
10847424 ATATTACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
31 15 0.31
33 1 0.02
35 16 0.33
36 1 0.02
37 4 0.08
39 11 0.23
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (31 bp):
ATATATTACATTACTTAAATTACTTACTAAA
Found at i:10847395 original size:22 final size:22
Alignment explanation
Indices: 10847343--10847435 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
10847333 TATATATTAC
*
10847343 ATTACTTACATTACTTACTAAAAT
1 ATTACTTACATTACTTA--AATAT
*
10847367 A-T-GTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
*
10847387 ATTACTTAC--TA---AAATTT
1 ATTACTTACATTACTTAAATAT
* *
10847404 ATAATTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
10847426 ATTACATTAC
1 ATTAC-TTAC
10847436 TTAAAGTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 17
0.67 0.12 0.22
Matches are distributed among these distances:
17 12 0.23
19 2 0.04
20 7 0.13
21 1 0.02
22 24 0.46
23 5 0.10
24 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (22 bp):
ATTACTTACATTACTTAAATAT
Found at i:10847413 original size:39 final size:41
Alignment explanation
Indices: 10847370--10847447 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
10847360 CTAAAATATG
10847370 TTACATTACTTAAATATATTAC-TTAC-TAAAATTTATAAT
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
*
10847409 TTACATTACTTAAATATATTACATTACTTAAAGTTTATA
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
10847448 TATATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 22 0.61
40 4 0.11
41 10 0.28
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (41 bp):
TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
Found at i:10847437 original size:18 final size:18
Alignment explanation
Indices: 10847352--10847440 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
10847342 CATTACTTAC
*
10847352 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
*
10847369 GTTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
*
10847387 ATTAC-TTACTAAAATTTAT
1 ATTACATTACTTAAA--TAT
10847406 AATTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
10847426 ATTACATTACTTAAA
1 ATTACATTACTTAAA
10847441 GTTTATATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 12 0.20
18 29 0.48
19 4 0.07
20 4 0.07
21 4 0.07
22 8 0.13
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:10847593 original size:24 final size:24
Alignment explanation
Indices: 10847529--10847603 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
10847519 ATAATTCTAA
10847529 AAATAATTGTAAATGTTATTTTTT
1 AAATAATTGTAAATGTTATTTTTT
***
10847553 AAAT-A-T-TAAAACCTATTTTTT
1 AAATAATTGTAAATGTTATTTTTT
10847574 AAATAATTGTAAATGTTATTTTTT
1 AAATAATTGTAAATGTTATTTTTT
*
10847598 ACATAA
1 AAATAA
10847604 CATACACTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 16 0.39
22 2 0.05
23 2 0.05
24 21 0.51
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (24 bp):
AAATAATTGTAAATGTTATTTTTT
Found at i:10847628 original size:9 final size:9
Alignment explanation
Indices: 10847616--10847882 Score: 83
Period size: 9 Copynumber: 31.0 Consensus size: 9
10847606 TACACTTAAA
10847616 TACATAACT
1 TACATAACT
10847625 TACATAACT
1 TACATAACT
*
10847634 TACAT-A-G
1 TACATAACT
10847641 TACATAACT
1 TACATAACT
10847650 TACATAA--
1 TACATAACT
*
10847657 TACACAACT
1 TACATAACT
*
10847666 TA-ATTAATATT
1 TACA-T-A-ACT
*
10847677 ATACATAACA
1 -TACATAACT
10847687 TACATAA--
1 TACATAACT
*
10847694 TAAATAA--
1 TACATAACT
*
10847701 TACACAACT
1 TACATAACT
*
10847710 TA-ATTAATATT
1 TACA-T-A-ACT
*
10847721 ATACATAACA
1 -TACATAACT
*
10847731 CACATAA--
1 TACATAACT
10847738 TACATAA-T
1 TACATAACT
*
10847746 ACACATAACT
1 -TACATAACT
*
10847756 TACAT-A-G
1 TACATAACT
10847763 TACATAACT
1 TACATAACT
*
10847772 AACATAA--
1 TACATAACT
*
10847779 TACACAACT
1 TACATAACT
*
10847788 TACGTAACT
1 TACATAACT
* *
10847797 TAAATAAGT
1 TACATAACT
*
10847806 TACATAGCT
1 TACATAACT
10847815 TACATAA--
1 TACATAACT
10847822 TACATAACT
1 TACATAACT
*
10847831 TACATAATT
1 TACATAACT
*
10847840 TACCTAA--
1 TACATAACT
*
10847847 TACATAA-A
1 TACATAACT
* * *
10847855 TATATATCA
1 TACATAACT
10847864 TATCATAACT
1 TA-CATAACT
10847874 TACATAACT
1 TACATAACT
10847883 CATTTATAGT
Statistics
Matches: 190, Mismatches: 40, Indels: 56
0.66 0.14 0.20
Matches are distributed among these distances:
7 51 0.27
8 11 0.06
9 103 0.54
10 11 0.06
11 6 0.03
12 6 0.03
13 2 0.01
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:10847646 original size:16 final size:16
Alignment explanation
Indices: 10847625--10847880 Score: 85
Period size: 16 Copynumber: 16.0 Consensus size: 16
10847615 ATACATAACT
*
10847625 TACATAACTTACATAG
1 TACATAACTTACATAA
10847641 TACATAACTTACATAA
1 TACATAACTTACATAA
*
10847657 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
10847670 TA-AT-ATTATACATAACA
1 TACATAACT-TACAT-A-A
*
10847687 TACATAA--TAAATAA
1 TACATAACTTACATAA
*
10847701 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
10847714 TA-AT-ATTATACATAACA
1 TACATAACT-TACAT-A-A
*
10847731 CACATAA--TACATAA
1 TACATAACTTACATAA
*
10847745 TACACATAACTTACATAG
1 T--ACATAACTTACATAA
*
10847763 TACATAACTAACATAA
1 TACATAACTTACATAA
* *
10847779 TACACAACTTACGTAA
1 TACATAACTTACATAA
* * *
10847795 CTTAAATAAGTTACATAGCT
1 --TACATAACTTACATA--A
10847815 TACATAA--TACATAA
1 TACATAACTTACATAA
* *
10847829 CTTACATAATTTACCTAA
1 --TACATAACTTACATAA
* * *
10847847 TACATAAATATATATCA
1 TACATAACT-TACATAA
10847864 TATCATAACTTACATAA
1 TA-CATAACTTACATAA
10847881 CTCATTTATA
Statistics
Matches: 177, Mismatches: 31, Indels: 63
0.65 0.11 0.23
Matches are distributed among these distances:
11 4 0.02
12 6 0.03
13 8 0.05
14 8 0.05
15 6 0.03
16 89 0.50
17 14 0.08
18 40 0.23
19 2 0.01
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:10847680 original size:21 final size:21
Alignment explanation
Indices: 10847656--10847725 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
10847646 AACTTACATA
10847656 ATACACAACTTAATTAATATT
1 ATACACAACTTAATTAATATT
* * *
10847677 ATACATAACATACA-TAATAAATA
1 ATACACAACTTA-ATTAAT--ATT
10847700 ATACACAACTTAATTAATATT
1 ATACACAACTTAATTAATATT
10847721 ATACA
1 ATACA
10847726 TAACACACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 21 0.54
22 2 0.05
23 16 0.41
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATACACAACTTAATTAATATT
Found at i:10847682 original size:44 final size:43
Alignment explanation
Indices: 10847653--10847750 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 43
10847643 CATAACTTAC
10847653 ATAATACACAACTTAATTAATATTATACATAACATACATAATAA
1 ATAATACACAACTTAATTAATATTATACAT-ACATACATAATAA
* *
10847697 ATAATACACAACTTAATTAATATTATACATAACACACATAATAC
1 ATAATACACAACTTAATTAATATTATACAT-ACATACATAATAA
10847741 ATAATACACA
1 ATAATACACA
10847751 TAACTTACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (43 bp):
ATAATACACAACTTAATTAATATTATACATACATACATAATAA
Found at i:10847699 original size:25 final size:25
Alignment explanation
Indices: 10847666--10847761 Score: 78
Period size: 25 Copynumber: 4.1 Consensus size: 25
10847656 ATACACAACT
*
10847666 TAATTAATATTATACATAACATACA
1 TAATAAATATTATACATAACATACA
*
10847691 TAATAAATA--ATAC---ACA-ACT
1 TAATAAATATTATACATAACATACA
* *
10847710 TAATTAATATTATACATAACACACA
1 TAATAAATATTATACATAACATACA
* * * *
10847735 TAATACATAATACACATAACTTACA
1 TAATAAATATTATACATAACATACA
10847760 TA
1 TA
10847762 GTACATAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
19 10 0.18
20 3 0.05
21 4 0.07
23 4 0.07
24 3 0.05
25 31 0.56
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (25 bp):
TAATAAATATTATACATAACATACA
Found at i:10847823 original size:43 final size:41
Alignment explanation
Indices: 10847614--10847833 Score: 141
Period size: 41 Copynumber: 5.3 Consensus size: 41
10847604 CATACACTTA
* * * *
10847614 AATACATAACTTACATAACTTACATAGTACATAACTTACAT
1 AATACACAACTTACGTAACTTAAATAGTACATAACTAACAT
** * *
10847655 AATACACAACTTAATTAATATTATACATAACATACATAA-TAA-AT
1 AATACACAACTTACGTAA-CTTA-A-AT-A-GTACATAACTAACAT
** *
10847699 AATACACAACTTAATTAA--T-ATTA-TACATAAC-ACACAT
1 AATACACAACTTACGTAACTTAAATAGTACATAACTA-ACAT
* * * *
10847736 AATACATAA-TACACATAACTTACATAGTACATAACTAACAT
1 AATACACAACT-TACGTAACTTAAATAGTACATAACTAACAT
* *
10847777 AATACACAACTTACGTAACTTAAATAAGTTACATAGCTTACAT
1 AATACACAACTTACGTAACTTAAAT-AG-TACATAACTAACAT
*
10847820 AATACATAACTTAC
1 AATACACAACTTAC
10847834 ATAATTTACC
Statistics
Matches: 141, Mismatches: 21, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
35 8 0.06
36 2 0.01
37 15 0.11
38 1 0.01
39 2 0.01
40 2 0.01
41 47 0.33
42 7 0.05
43 25 0.18
44 22 0.16
45 3 0.02
46 7 0.05
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (41 bp):
AATACACAACTTACGTAACTTAAATAGTACATAACTAACAT
Found at i:10847853 original size:25 final size:25
Alignment explanation
Indices: 10847616--10847667 Score: 54
Period size: 25 Copynumber: 2.1 Consensus size: 25
10847606 TACACTTAAA
*
10847616 TACATAACTTACATAACTTACAT-A-G
1 TACATAACTTACATAA--TACATAACT
*
10847641 TACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACATAACT
10847666 TA
1 TA
10847668 ATTAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
23 4 0.17
24 1 0.04
25 18 0.78
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:10849684 original size:21 final size:21
Alignment explanation
Indices: 10849660--10849708 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
10849650 TACAACTTAA
*
10849660 AGCAGAGGCGGCAGTGAGGGC
1 AGCAGAGGCGGCAGCGAGGGC
10849681 AGCAGAGGCGGCAGCGAGGGC
1 AGCAGAGGCGGCAGCGAGGGC
10849702 AGCAGAG
1 AGCAGAG
10849709 CAGAGCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.51, T:0.02
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCGAGGGC
Found at i:10850110 original size:43 final size:43
Alignment explanation
Indices: 10850056--10850154 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
10850046 CATCAAACAA
*
10850056 TAGCGGCGTTTGTGAGGTAAGCACCGCTAAAGAACATGAACTT
1 TAGCGGCGTTTGTGAGGAAAGCACCGCTAAAGAACATGAACTT
* * * **
10850099 TAGCGGCGTTTGTGGGGAAAGCGCGGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGTGAGGAAAGCACCGCTAAAGAACATGAACTT
10850142 TAGCGGCGTTTGT
1 TAGCGGCGTTTGT
10850155 CGGTGAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGGAAAGCACCGCTAAAGAACATGAACTT
Found at i:10850420 original size:73 final size:73
Alignment explanation
Indices: 10850301--10850455 Score: 240
Period size: 73 Copynumber: 2.1 Consensus size: 73
10850291 TGGTGTAGTG
* * *
10850301 GCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGACTTAGGTTTTTTTGCGGCGCTTT-
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGACTTAGGTTTTTTTGAGGCGCTTTC
**
10850365 CTTAAAAT
66 CCAAAAAT
*
10850373 CGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGGCTTAGGTTTTTTTGAGGCGCTTT
1 -GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGACTTAGGTTTTTTTGAGGCGCTTT
10850438 CCCAAAAAT
65 CCCAAAAAT
10850447 GCCGCTAAA
1 GCCGCTAAA
10850456 GCCCTGAGCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
73 69 0.92
74 6 0.08
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (73 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGACTTAGGTTTTTTTGAGGCGCTTTC
CCAAAAAT
Found at i:10850599 original size:113 final size:114
Alignment explanation
Indices: 10850355--10850794 Score: 704
Period size: 114 Copynumber: 3.9 Consensus size: 114
10850345 AGGTTTTTTT
* *
10850355 GCGGCGCTTTCTTAAAATCGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
10850420 GTTTTTTTGAGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
10850469 GCGTCACTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
10850534 G-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
10850582 GCGGCGCTTTCTTAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGTGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
10850647 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
10850696 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGATTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* ** *
10850761 G-TTTTTTGCGGCGCTTTCTGGAAAATGCCGCTAA
66 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAA
10850795 TGCTTATTTT
Statistics
Matches: 299, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
113 132 0.44
114 167 0.56
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:10850750 original size:227 final size:227
Alignment explanation
Indices: 10850355--10850794 Score: 754
Period size: 227 Copynumber: 1.9 Consensus size: 227
10850345 AGGTTTTTTT
* * * *
10850355 GCGGCGCTTTCTTAAAATCGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCCTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
* *
10850420 GTTTTTTTGAGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGTCACTTTCTTAAA
66 GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCTTAAA
*
10850485 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTT
131 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGCGGCGCTT
10850550 TCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
196 TCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
*
10850582 GCGGCGCTTTCTTAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGTGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
* *
10850647 GTTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAA
66 GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCTTAAA
*
10850712 AACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGATTAGGTTTTTTGCGGCGCTT
131 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGCGGCGCTT
** *
10850777 TCTGGAAAATGCCGCTAA
196 TCTCAAAAACGCCGCTAA
10850795 TGCTTATTTT
Statistics
Matches: 199, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
227 199 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (227 bp):
GCGGCGCTTTCTTAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
GTTTTTTTGAGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCTTAAA
AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGCGGCGCTT
TCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
Found at i:10860970 original size:51 final size:51
Alignment explanation
Indices: 10860910--10861011 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
10860900 AACTTCTCCA
*
10860910 AATCTGGCCATAATATCTAGACCGAGTTTGGGGTGTTACATTTACATTCAC
1 AATCTGGCCATAATATCTAGACCGAGTTTGGGGTGTTACATTCACATTCAC
*
10860961 AATCTGGCCATAATATCTAGACCGCGTTTGGGGTGTTACATTCACATTCAC
1 AATCTGGCCATAATATCTAGACCGAGTTTGGGGTGTTACATTCACATTCAC
10861012 TGAACAGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (51 bp):
AATCTGGCCATAATATCTAGACCGAGTTTGGGGTGTTACATTCACATTCAC
Found at i:10864281 original size:15 final size:17
Alignment explanation
Indices: 10864255--10864287 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10864245 TAATGACATT
10864255 TTTTAGTTTT-AAATAA
1 TTTTAGTTTTAAAATAA
10864271 TTTTA-TTTTAAAATAA
1 TTTTAGTTTTAAAATAA
10864287 T
1 T
10864288 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTAGTTTTAAAATAA
Found at i:10870892 original size:30 final size:29
Alignment explanation
Indices: 10870854--10870917 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
10870844 AACTTATGTT
10870854 ATTTTTAATTTTGTTATTATTTGAAAGGC
1 ATTTTTAATTTTGTTATTATTTGAAAGGC
* * * *
10870883 ATTTGTTAATTTTTTTATTGTTTTAGAGGC
1 ATTT-TTAATTTTGTTATTATTTGAAAGGC
10870913 ATTTT
1 ATTTT
10870918 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.59
Consensus pattern (29 bp):
ATTTTTAATTTTGTTATTATTTGAAAGGC
Found at i:10873667 original size:3 final size:3
Alignment explanation
Indices: 10873659--10873704 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
10873649 ATAATCAAAT
* * *
10873659 ATA ATA ATA ATA ATA ACA ATA ATAA ATA GTA ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
10873705 GTAAATTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:10873680 original size:28 final size:28
Alignment explanation
Indices: 10873649--10873702 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
10873639 AAATAGAAAT
*
10873649 ATAATCAAATA-TAATAATAATAATAACA
1 ATAAT-AAATAGTAATAAAAATAATAACA
10873677 ATAATAAATAGTAATAAAAATAATAA
1 ATAATAAATAGTAATAAAAATAATAA
10873703 TAGTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAATAAATAGTAATAAAAATAATAACA
Found at i:10873698 original size:25 final size:25
Alignment explanation
Indices: 10873663--10873710 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10873653 TCAAATATAA
*
10873663 TAATAATAATAACAATAATAAATAG
1 TAATAAAAATAACAATAATAAATAG
* *
10873688 TAATAAAAATAATAATAGTAAAT
1 TAATAAAAATAACAATAATAAAT
10873711 TAATTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
TAATAAAAATAACAATAATAAATAG
Found at i:10875542 original size:86 final size:86
Alignment explanation
Indices: 10875355--10875571 Score: 283
Period size: 86 Copynumber: 2.5 Consensus size: 86
10875345 TTAGGGAGAT
***
10875355 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAAAAGATAAGGCTGGTATATTCGATCTA
1 AAGATCTGT-ATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGG-ATATTCGATCTA
* * *
10875420 CTTCGCTGCCAGTATAGGAAGAC
64 CTTAGCTGCCAATACAGGAAGAC
* * * * * *
10875443 AAGATATGTTATTTTCAACCTACTCTATTGTTGCTCAGGGAGATAAGGCTGG-TCTTCGATCTAT
1 AAGATCTG-TATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGATATTCGATCTAC
10875507 TTAGCTGCCAATACAGGAAGAC
65 TTAGCTGCCAATACAGGAAGAC
10875529 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 AAGATCTG-TATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
10875572 CTGCTCCACT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 67 0.60
88 43 0.39
89 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (86 bp):
AAGATCTGTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGATATTCGATCTACT
TAGCTGCCAATACAGGAAGAC
Found at i:10875721 original size:87 final size:87
Alignment explanation
Indices: 10875575--10876690 Score: 1136
Period size: 87 Copynumber: 12.8 Consensus size: 87
10875565 AGGGAGACTG
*
10875575 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
10875640 CAAGGCTGGGGTCTTCGATCTA
66 CAAGGCTGGGGTCTTCGATCTA
** *
10875662 CTCCACTACTGCTTAGAAAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTACTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
* * *
10875727 CAAGGCTGAGGTCTTTGATCTG
66 CAAGGCTGGGGTCTTCGATCTA
* * * * * *
10875749 CTCCACTACTGCTTAGGGAGATAAGATCTGTAAGTTTTAACTTACTCCACTACTGTTCAGGAAAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
* * *
10875814 CAAGGCTGGGGTTTTCGATTTG
66 CAAGGCTGGGGTCTTCGATCTA
* * *
10875836 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTTAACCTACTCTACTGCTGCTCAGAGTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTTAACCTACTCCACTGCTGCTCAGGGAG
*
10875901 ACAAGGCTGGGGTCTTCGATCTG
65 ACAAGGCTGGGGTCTTCGATCTA
* * **
10875924 CTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAAGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
* ** *
10875989 TAAGGCTGGTATATTCGATCTA
66 CAAGGCTGGGGTCTTCGATCTA
* * * * * * * * * * * * * *
10876011 CTTCGCTGCCAG-TACAGGAAGACAAGGTCCGTTATTTTCAACCTACTCTATTGTTGCTCAGGGA
1 CTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGA
*
10876075 GATAAGGCTGGGGTCTTCGATCTA
64 GACAAGGCTGGGGTCTTCGATCTA
** * * * * * * * *
10876099 -TTTAGCTGC-GAATACAGGAAGACAAGATCTGCT-ATTCTCAACCTACTTCACTGCTGCTCAGG
1 CTCCA-CTACTG-CT-TAGGGAGATAAGATCTG-TAATTTTTAACCTACTCCACTGCTGCTCAGG
* * * *
10876161 GAGATAAGGCTGGGGTCTTTGATTTG
62 GAGACAAGGCTGGGGTCTTCGATCTA
* * *
10876187 CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTTAACCTACCCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
*
10876252 CAAGGTTGGGGTCTTCGATCTA
66 CAAGGCTGGGGTCTTCGATCTA
* * * * *
10876274 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGTTCAGGAAAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
* * *
10876339 CAAGGCTGGGGTTTTCGATTTG
66 CAAGGCTGGGGTCTTCGATCTA
* * *
10876361 CTCCACTACTGCTTAGGGAAATAAGATCTGTAATTTTTTAACCTACTCCACTACTGCTCAGAGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTTAACCTACTCCACTGCTGCTCAGGGAG
*
10876426 ACAAGGCTGGGGTCTTCGATCTG
65 ACAAGGCTGGGGTCTTCGATCTA
* * **
10876449 CTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAAGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
* ** *
10876514 TAAGGCTGGTATATTCGATCTA
66 CAAGGCTGGGGTCTTCGATCTA
* * * * * * * * * * * *
10876536 CTTCGCTGCCAG-TATAGGAAGACAAGATCCGTTATTTTCAACCTACTCTATTGTTGCTCAGGGA
1 CTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGA
* *
10876600 GATAAGGCTGGGGTCTTTGATCTA
64 GACAAGGCTGGGGTCTTCGATCTA
* * *
10876624 -T---TTAGCTGTCAATATAGGAAGACAAGATCTGCT-ATTTTTAACCTACTCCACTGCTGCTCA
1 CTCCACTA-CTG-C--T-TAGGGAGATAAGATCTG-TAATTTTTAACCTACTCCACTGCTGCTCA
10876684 GGGAGAC
60 GGGAGAC
10876691 TGCTCCACTG
Statistics
Matches: 865, Mismatches: 145, Indels: 37
0.83 0.14 0.04
Matches are distributed among these distances:
84 3 0.00
86 2 0.00
87 460 0.53
88 395 0.46
89 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGA
CAAGGCTGGGGTCTTCGATCTA
Found at i:10875972 original size:175 final size:174
Alignment explanation
Indices: 10875572--10878469 Score: 1491
Period size: 174 Copynumber: 16.3 Consensus size: 174
10875562 CTCAGGGAGA
* * *
10875572 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTAACCTACTCCACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* * * * **
10875637 AGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGAAAGATAAGATCTGTAATTTTTAA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAA
* * *
10875702 CCTACTCCACTGCTACTCAGGGAGACAAGGCTGAGGTCTTTGAT
131 CCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * *
10875746 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAGTTTT-AACTTACTCCACTACTGTTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGG
10875810 AAAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTT
65 AAAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTT
* * *
10875875 AACCTACTCTACTGCTGCTCAGAGTGACAAGGCTGGGGTCTTCGAT
129 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
*
10875921 CTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA--A
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* ** * * * * * * * * * * * * *
10875984 AGAGATAAGGCTGGTATATTCGATCTACTTCGCTGCCAG-TACAGGAAGACAAGGTCCGTTATTT
66 A-A-ACAAGGCTGGGGTTTTCGATTTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATTT
* * * * *
10876048 TCAACCTACTCTATTGTTGCTCAGGGAGATAAGGCTGGGGTCTTCGAT
127 TTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* ** * * * * * * *
10876096 CT-ATTTAGCTGC-GAATACAGGAAGACAAGATCTGCT-ATTCTCAACCTACTTCACTGCTGCTC
1 CTGCTCCA-CTACTG-CT-TAGGGAGATAAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTC
* * * *
10876158 AGGGAGATAAGGCTGGGGTCTTT-GATTTGCTCCACTACTGCTTAGGGAGATCAGATCTGTAATT
62 AGGAAAACAAGGCTGGGGT-TTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* * *
10876222 TTTAACCTACCCCACTACTGCTCAGGGAGACAAGGTTGGGGTCTTCGAT
126 TTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * *
10876271 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGTTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
*
10876336 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTGTAATTTTTTA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTTA
* *
10876401 ACCTACTCCACTACTGCTCAGAGAGACAAGGCTGGGGTCTTCGAT
130 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
*
10876446 CTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA--A
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* ** * * * * * * * * * * *
10876509 AGAGATAAGGCTGGTATATTCGATCTACTTCGCTGCCAG-TATAGGAAGACAAGATCCGTTATTT
66 A-A-ACAAGGCTGGGGTTTTCGATTTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATTT
* * * * * *
10876573 TCAACCTACTCTATTGTTGCTCAGGGAGATAAGGCTGGGGTCTTTGAT
127 TTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * * * *
10876621 CT-AT---TTAGCTGTCAATATAGGAAGACAAGATCTGCT-ATTTTTAACCTACTCCACTGCTGC
1 CTGCTCCACTA-CTG-C--T-TAGGGAGATAAGATCTG-TAATTTTCAACCTACTCCACTGCTGC
** * * * **
10876681 TCAGGGAGACTGCTCCACTGCTGCTTAGGGAGATAAGATCTGCAATTT--TTAACCTACTCCACT
60 TCA-GGA-A----AACA-AG--GC-T-GGG-G-T----T-TTCGATTTGCTCCA-CTA-----CT
* * * * * ** * * * * * *
10876744 GCTACTCAGGGAGACAAG-GCTGGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
101 GCT--T-AGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAG-GC
*** * * *
10876808 TGTAATTTTCAAC
162 TGGGGTCTTCGAT
* * * * *** * * ** * * * * *
10876821 CTACTCCACTACTGCTCAGGGAGACAAG-GCTGGGGTCTTCGATTTGCTCCACTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* * * **** * ** * * * * *** * *
10876885 AGATAAGATCTATAATTTTCAACCTACTCCACTACTGCTCAGGGAGACAAG-GCTGGGGTCTTCA
66 AAACAAG-GCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTA
* * * * * * *** * * *
10876949 ATCTACTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
130 ACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGTCTTCGAT
* * * * * * * * * * * * *
10876995 CTACTCCACTGCTACTCAGGGAGACAAG-GCTG-AGATCTTCGATCTGCTCTACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA-ATTTTCAACCTACTCCACTGCTGCTCAGG
* * * * *** * ** * ** * * * * ***
10877058 GAGATAAGATCTGTAATTTTCAACCTACTCCACTACTATTTAGGAAAACAAG-GCTGGGGTTTTT
65 AAAACAAG-GCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT
* * * * * * * *** * *
10877122 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAAT
129 AACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTG-GGGTCTTCGAT
* * * * * * *** * * * * * * *
10877170 CTACTTCACTGCTGCTCAGAGAGACAATG-T-TGGGGTCTTCGATCTGCTCCACTACTACTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAA-GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGG
* * * *** * ** * * ** * *
10877233 GAGA-TAGGATCTGTAATTTTCAACCTACTCCACTACTGCTCAAAGAGATAAG-GCTG-ATATAT
65 AAAACAAGG--CTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA-ATTT
** * * * * * * * *** * * *
10877295 TCGATCTATTTCACTGCCAG-TACAGGAAGACAAGATCCGTTATTTTCAAC
127 TTAACCTACTCCACTG-CTGCT-CAGGGAGACAAG-GCTGGGGTCTTCGAT
* ** * * * * ** * * * ** ***
10877345 CTACTATATTATTGCTAAGGGAGATAAG-GCTAG-GGTCTTCGATCTA-TTTAGCTGCCAATACA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTACTCCA-CTGCTGCT-CA
* * *** * * * *
10877407 GGAAGACAAGATCTGCTATTTTC-ATCCTACTCCACTACTGCTCAGGGAGACTGCTCCAATACTG
63 GGAAAACAAG-GCTGGGGTTTTCGAT-TTGCTCCACTACTGCTTAGGGAGA----T--AAGA-T-
* * ** * ** * **** **
10877471 CTTAGGGAGATAAGATTGTAATTTTTA-ACCTACT-CCACTGCTGCTCAAGGAGACAAGGCTGGG
118 C-T-----G-TAA-TTTTTAA--CCTACTCC-ACTGCTGCT-CAGGGAGACA-----AGGCTGGG
10877534 GTCTTCGAT
166 GTCTTCGAT
* * * *
10877543 CTGCTCCAATACTGCTTAGGGAGATAAGATATGTAATTTTTAACCTACTCCACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* * * *
10877608 AGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTAA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAA
* * *
10877673 CCTACTCCACTGCTGCTTAGGGAGATAAGGCCGGGGTCTTCGAT
131 CCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * * * *
10877717 TTGCTCCAGTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTACTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* ** * * * * *
10877782 AGACAAGTTTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTATAATTTTTAA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAA
* * *
10877847 CCTATTCCACTGCTACTCAGGGAGACAAGGCTGAGGTCTTCGAT
131 CCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
*
10877891 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* ** * *
10877956 AAATAAGGCTGGGGTTTTTTATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTT-A
* **
10878021 ACCTACTCCACTGCTGCTAAAAGAGACAAGGCTGGGGTCTTCGAT
130 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* *
10878066 CTGCTCCACTA---CTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* * * * * *
10878128 AGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATAATTTTCAA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAA
* *
10878193 CCTACTCCACTGCTACTCAGGGAGACAAGCCTGGGGTCTTCGAT
131 CCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * *
10878237 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTAAACCTACTCCACTGCTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
* * * *
10878302 AGACAAGGCTGGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTTA
66 AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTTA
* * * *
10878367 GCCTACTCCACTGCTGCTTAGAGAGACAAGGTTGGGGTCTTCGAT
130 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * *
10878412 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTTAACCTATTCCACTGCTG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
10878470 TCAAGGGAGA
Statistics
Matches: 2173, Mismatches: 431, Indels: 239
0.76 0.15 0.08
Matches are distributed among these distances:
171 54 0.02
172 105 0.05
173 8 0.00
174 811 0.37
175 726 0.33
176 191 0.09
177 11 0.01
178 1 0.00
179 8 0.00
180 7 0.00
181 10 0.00
182 9 0.00
183 4 0.00
185 3 0.00
186 3 0.00
187 2 0.00
188 1 0.00
189 3 0.00
190 2 0.00
191 5 0.00
192 4 0.00
193 7 0.00
194 10 0.00
195 6 0.00
196 1 0.00
197 33 0.02
198 64 0.03
199 55 0.03
200 22 0.01
201 1 0.00
202 1 0.00
203 3 0.00
204 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (174 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
AAACAAGGCTGGGGTTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAA
CCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTCGAT
Found at i:10876238 original size:44 final size:44
Alignment explanation
Indices: 10876187--10876505 Score: 211
Period size: 43 Copynumber: 7.3 Consensus size: 44
10876177 CTTTGATTTG
*
10876187 CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTCAACCTA
* * * *** * * *
10876231 CCCCACTACTGCTCAGGGAGA-CAAGGT-TGGGGTCTTCGATCTA
1 CTCCACTACTGCTTAGGGAGATC-AGATCTGTAATTTTCAACCTA
*
10876274 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTCAACCTA
* * * *** * ** *
10876318 CTCCACTACTG-TTCA-GGAAAACA-AGGCTGGGGTTTTCGATTTG
1 CTCCACTACTGCTT-AGGGAGATCAGA-TCTGTAATTTTCAACCTA
* * *
10876361 CTCCACTACTGCTTAGGGAAATAAGATCTGTAATTTTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATCAGATCTGTAA-TTTTCAACCTA
* * * *** * * * *
10876406 CTCCACTACTGCTCAGAGAGA-CA-AGGCTGGGGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATCAGA-TCTGTAATTTTCAACCTA
* *
10876449 CTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTCAACCTA
*
10876493 CTCCACTGCTGCT
1 CTCCACTACTGCT
10876506 CAAAGAGATA
Statistics
Matches: 194, Mismatches: 69, Indels: 24
0.68 0.24 0.08
Matches are distributed among these distances:
42 1 0.01
43 86 0.44
44 81 0.42
45 26 0.13
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATCAGATCTGTAATTTTCAACCTA
Found at i:10876801 original size:87 final size:87
Alignment explanation
Indices: 10876690--10878465 Score: 1685
Period size: 87 Copynumber: 20.6 Consensus size: 87
10876680 CTCAGGGAGA
* * * *
10876690 CTGCTCCACTGCTGCTTAGGGAGATAAGATCTGCAATTTTTAACCTACTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
*
10876755 AGACAAGGCTGGAGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
*
10876777 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
10876842 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * *
10876864 TTGCTCCACTACTACTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACTACTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
*
10876929 AGACAAGGCTGGGGTCTTCAAT
66 AGACAAGGCTGGGGTCTTCGAT
* * *
10876951 CTACTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
* *
10877016 AGACAAGGCTGAGATCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * *
10877038 CTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTATTTAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
* * *
10877103 AAACAAGGCTGGGGTTTTTGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * * *
10877125 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAATCTACTTCACTGCTGCTCAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTACTACTCAGG
* *
10877190 GAGACAATGTTGGGGTCTTCGAT
65 GAGACAAGGCTGGGGTCTTCGAT
* * * **
10877213 CTGCTCCACTACTACTTAGGGAGATAGGATCTGTAATTTTCAACCTACTCCACTACTGCTCAAAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
* *** *
10877278 AGATAAGGCTGATATATTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
** * * * * * * * * ** * * * *
10877300 CTATTTCACTGCCAG-TACAGGAAGACAAGATCCGTTATTTTCAACCTACTATATTATTGCTAAG
1 CTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAG
* *
10877364 GGAGATAAGGCTAGGGTCTTCGAT
64 GGAGACAAGGCTGGGGTCTTCGAT
* ** * *** * * * * *
10877388 CT-ATTTAGCTGCCAATACAGGAAGACAAGATCTGCT-ATTTTCATCCTACTCCACTACTGCTCA
1 CTGCTCCA-CTACTGCT-TAGGGAGATAAGATCTG-TAATTTTCAACCTACTCCACTACTACTCA
* *
10877451 GGGAG---A--CT---G-CTCCAAT
63 GGGAGACAAGGCTGGGGTCTTCGAT
* ** * * *** * * ** * ** * * * ** *
10877467 ACTGCT-TAGGGA--GATAAGATTG-TAA-TTTTTAACCTACTCCACTGCTGCTCAAGGAGACAA
1 -CTGCTCCA-CTACTGCTTAGGGAGATAAGATCTGTA-ATTTTCAAC--CTACTCCA--CTACTA
** * * *** * ** * *
10877527 GGCTGGG-GTCTTCGAT-CTG-CTCCAAT
59 CTCAGGGAGACAAGGCTGGGGTCTTCGAT
* * * *
10877553 ACTGCT-----------TAGGGAGATAAGATATGTAATTTTTAACCTACTCCACTGCTGCTCAGG
1 -CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGG
10877607 GAGACAAGGCTGGGGTCTTCGAT
65 GAGACAAGGCTGGGGTCTTCGAT
* * * * *
10877630 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTAACCTACTCCACTGCTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
* *
10877695 AGATAAGGCCGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * *
10877717 TTGCTCCAGTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTACTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
**
10877782 AGACAAGTTTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * * * *
10877804 CTACTCCACTACTGCTTAGGGAGATAGGATCTATAATTTTTAACCTATTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
*
10877869 AGACAAGGCTGAGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* *
10877891 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
* * * **
10877956 AAATAAGGCTGGGGTTTTTTAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * * **
10877978 CTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCTAAAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTACTACTCAGG
10878043 GAGACAAGGCTGGGGTCTTCGAT
65 GAGACAAGGCTGGGGTCTTCGAT
* * * *
10878066 CTGCTCCACTA---CTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
10878128 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * *
10878150 CTGCTCCACTACTGCTTAGAGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
*
10878215 AGACAAGCCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * *
10878237 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTAAACCTACTCCACTGCTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
*
10878302 AGACAAGGCTGGAGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * * * * *
10878324 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTTAGCCTACTCCACTGCTGCTTAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTACTACTCAGG
*
10878389 GAGACAAGGTTGGGGTCTTCGAT
65 GAGACAAGGCTGGGGTCTTCGAT
* * *
10878412 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTTAACCTATTCCACT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACT
10878466 GCTGTCAAGG
Statistics
Matches: 1411, Mismatches: 236, Indels: 84
0.82 0.14 0.05
Matches are distributed among these distances:
74 5 0.00
75 6 0.00
76 18 0.01
77 11 0.01
78 15 0.01
79 9 0.01
80 12 0.01
81 1 0.00
83 2 0.00
84 59 0.04
85 22 0.02
86 14 0.01
87 930 0.66
88 306 0.22
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTACTCAGGG
AGACAAGGCTGGGGTCTTCGAT
Found at i:10877375 original size:88 final size:88
Alignment explanation
Indices: 10877277--10877437 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
10877267 ACTGCTCAAA
* * *
10877277 GAGATAAGGCT-GATATATTCGATCTATTTCA-CTGCCAGTACAGGAAGACAAGATCCGTTATTT
1 GAGATAAGGCTAG-GATATTCGATCTATTT-AGCTGCCAATACAGGAAGACAAGATCCGCTATTT
10877340 TCAACCTACTATATTATTGCTAAGG
64 TCAACCTACTATATTATTGCTAAGG
* * *
10877365 GAGATAAGGCTAGGGTCTTCGATCTATTTAGCTGCCAATACAGGAAGACAAGATCTGCTATTTTC
1 GAGATAAGGCTAGGATATTCGATCTATTTAGCTGCCAATACAGGAAGACAAGATCCGCTATTTTC
*
10877430 ATCCTACT
66 AACCTACT
10877438 CCACTACTGC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
87 1 0.02
88 62 0.97
89 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (88 bp):
GAGATAAGGCTAGGATATTCGATCTATTTAGCTGCCAATACAGGAAGACAAGATCCGCTATTTTC
AACCTACTATATTATTGCTAAGG
Found at i:10878508 original size:88 final size:88
Alignment explanation
Indices: 10878431--10878597 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 88
10878421 TACTACTTAG
* * * * *
10878431 GGAGATAAGA-TCTGTAATTTTTAACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATTT
1 GGAGATAAGACTCAG-AATCTTCAACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCT
* * *
10878495 TTAACCTATTCCACTGCTGTCCAA
65 TCAACCTATTCCACTACTCTCCAA
* * *
10878519 GGAGATAGGACTCAGAATCTTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATCTT
1 GGAGATAAGACTCAGAATCTTCAACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCTT
10878584 CAACCTATTCCACT
66 CAACCTATTCCACT
10878598 GTTGTCCAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 66 0.96
89 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (88 bp):
GGAGATAAGACTCAGAATCTTCAACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCTT
CAACCTATTCCACTACTCTCCAA
Found at i:10878514 original size:44 final size:44
Alignment explanation
Indices: 10878453--10878618 Score: 235
Period size: 44 Copynumber: 3.8 Consensus size: 44
10878443 TGTAATTTTT
* *
10878453 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATTTTT
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATCTTC
* *
10878497 AACCTATTCCACTGCTGTCCAA-GGAGATAGGACTCAGAATCTTC
1 AACCTATTCCACTGCTGT-CAAGGGAGATAGGACTTATAATCTTC
* * *
10878541 AACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATCTTC
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATCTTC
* *
10878585 AACCTATTCCACTGTTGTCCAGGGAGATAGGACT
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACT
10878619 GGTATCTTTG
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
43 2 0.02
44 107 0.96
45 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATCTTC
Found at i:10878598 original size:88 final size:88
Alignment explanation
Indices: 10878453--10878618 Score: 269
Period size: 88 Copynumber: 1.9 Consensus size: 88
10878443 TGTAATTTTT
* * *
10878453 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTATAATTTTTAACCTATTCCACTGCTGTCCA
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTCCA
10878518 AGGAGATAGGACTCAGAATCTTC
66 AGGAGATAGGACTCAGAATCTTC
* * *
10878541 AACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGTTGTCCA
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTCCA
*
10878606 GGGAGATAGGACT
66 AGGAGATAGGACT
10878619 GGTATCTTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
AACCTATTCCACTGCTGTCAAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTCCA
AGGAGATAGGACTCAGAATCTTC
Found at i:10879288 original size:41 final size:40
Alignment explanation
Indices: 10879231--10879312 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 40
10879221 TATTTTTTTA
* * *
10879231 TTTTTTTTGGACTCAAAGCGCCTTTTGCGGGTTTTCACCT
1 TTTTTTTTGGAATCAAAGCGCCCTTTGCGGATTTTCACCT
10879271 TTTTTTTTAGGAATCAAAGCGCCCTTTGCGGATTTTCACCT
1 TTTTTTTT-GGAATCAAAGCGCCCTTTGCGGATTTTCACCT
10879312 T
1 T
10879313 GATCCCTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (40 bp):
TTTTTTTTGGAATCAAAGCGCCCTTTGCGGATTTTCACCT
Found at i:10881374 original size:25 final size:25
Alignment explanation
Indices: 10881322--10881387 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
10881312 AAGAAAGTCC
* *
10881322 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTAA
*
10881347 AAAAGAATGAAAGAAT-ATTGGCTAA
1 AAAAGAATGAAAGAATAATT-ACTAA
10881372 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
10881388 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTAA
Found at i:10884599 original size:13 final size:13
Alignment explanation
Indices: 10884578--10884624 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
10884568 ATAATCAAAT
*
10884578 ATAAT-AATAACA
1 ATAATAAATAATA
*
10884590 ATAATAAATAGTA
1 ATAATAAATAATA
*
10884603 ATAAAAAATAATA
1 ATAATAAATAATA
*
10884616 ATAGTAAAT
1 ATAATAAAT
10884625 TAGTTAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 5 0.18
13 23 0.82
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:10884606 original size:19 final size:19
Alignment explanation
Indices: 10884575--10884622 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 19
10884565 AATATAATCA
10884575 AATA-TAATAATAACAATAAT
1 AATAGTAATAA-AA-AATAAT
10884595 AAATAGTAATAAAAAATAAT
1 -AATAGTAATAAAAAATAAT
10884615 AATAGTAA
1 AATAGTAA
10884623 ATTAGTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.31
20 6 0.23
21 6 0.23
22 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
AATAGTAATAAAAAATAAT
Found at i:10884618 original size:26 final size:29
Alignment explanation
Indices: 10884583--10884647 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 29
10884573 CAAATATAAT
10884583 AATAACAATAATAAA-TAG-TAATA-AAA
1 AATAACAATAATAAATTAGTTAATAGAAA
* *
10884609 AATAATAATAGTAAATTAGTTAATAGGAAA
1 AATAACAATAATAAATTAGTTAATA-GAAA
*
10884639 AATATCAAT
1 AATAACAAT
10884648 CAGGACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 13 0.42
27 3 0.10
28 5 0.16
30 10 0.32
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (29 bp):
AATAACAATAATAAATTAGTTAATAGAAA
Found at i:10885513 original size:41 final size:41
Alignment explanation
Indices: 10885462--10885545 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
10885452 TTTAAACAAA
* *
10885462 GGCACATATGTGCTATTCAAGGGTA-CAGAAGTACAAATAGG
1 GGCACATATGTACAATTCAAGGGTATCA-AAGTACAAATAGG
* * *
10885503 GGCACGTATGTACAATTTAGGGGTATCAAAGTACAAATAGG
1 GGCACATATGTACAATTCAAGGGTATCAAAGTACAAATAGG
10885544 GG
1 GG
10885546 ATAATTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.23
Consensus pattern (41 bp):
GGCACATATGTACAATTCAAGGGTATCAAAGTACAAATAGG
Found at i:10888833 original size:15 final size:15
Alignment explanation
Indices: 10888815--10888859 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
10888805 ATCTTTTATT
*
10888815 TTATTATTTTATTTA
1 TTATTATTTGATTTA
*
10888830 TTATTATTTGGTTTA
1 TTATTATTTGATTTA
*
10888845 TTATTATTAGATTTA
1 TTATTATTTGATTTA
10888860 GTTTATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTATTTGATTTA
Found at i:10888863 original size:20 final size:19
Alignment explanation
Indices: 10888822--10888872 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
10888812 ATTTTATTAT
*
10888822 TTTATTTATTATT-ATTTGG
1 TTTA-TTATTATTAATTTAG
10888841 TTTATTATTATTAGATTTAG
1 TTTATTATTATTA-ATTTAG
10888861 TTTATTA-TATTA
1 TTTATTATTATTA
10888873 TTGTTACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TTTATTATTATTAATTTAG
Found at i:10891312 original size:2 final size:2
Alignment explanation
Indices: 10891305--10891360 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
10891295 TATAGCTTCT
* *
10891305 TA TA TA TA TG TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10891347 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
10891361 ATTTAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10891745 original size:14 final size:15
Alignment explanation
Indices: 10891714--10891749 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10891704 TTTTATGAAA
*
10891714 TTGGGCTTGGGTGTT
1 TTGGGCTTCGGTGTT
10891729 TTGGGCTTCGG-GTT
1 TTGGGCTTCGGTGTT
10891743 TTGGGCT
1 TTGGGCT
10891750 GTATTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.11, G:0.44, T:0.44
Consensus pattern (15 bp):
TTGGGCTTCGGTGTT
Found at i:10892058 original size:50 final size:50
Alignment explanation
Indices: 10891965--10892543 Score: 213
Period size: 49 Copynumber: 11.9 Consensus size: 50
10891955 TGTGTCGCCT
* * ***
10891965 GGGAAGTAA-AATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTTA
1 GGGAAGTAAGACT-CGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
**
10892015 GGGAAGTAAGA-TCCGCTGTTGTAGCTTCAATCTGTTCCGTTGC-ATCGCCA
1 GGGAAGTAAGACT-CGCTGTTGTAGCTTCAATCTGTTCCGTTGCAAT-GTTA
** * * * * * *
10892065 ATGATGTGAGACTCGCTGTTGTAGCTTCAATCTATT-TGACTGCAATGTTG
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCG-TTGCAATGTTA
* *
10892115 GGGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGC-ATCGCCT-
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAAT-G-TTA
* * * * * * ***
10892165 -GGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATG---
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
* * * *
10892211 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAAT-G-TTA
* * * * * * *** *
10892261 -GAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATG--G
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
* * ** *
10892308 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCAGC-ATCGCCT-
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAAT-G-TTA
* * * * * * * * ***
10892358 -GAAAGTAAGATTTGCCGTTGTGGCTTCGATATTTTAAATTGCAATG---
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
* * *
10892404 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG--A
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAAT-GTTA
* * * * * * * ***
10892452 CTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATG---
1 -GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
* * *
10892500 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCA
10892544 TCGCCTGAAA
Statistics
Matches: 391, Mismatches: 111, Indels: 57
0.70 0.20 0.10
Matches are distributed among these distances:
46 4 0.01
47 99 0.25
48 32 0.08
49 134 0.34
50 116 0.30
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCAATGTTA
Found at i:10892245 original size:96 final size:96
Alignment explanation
Indices: 10891959--10892594 Score: 900
Period size: 96 Copynumber: 6.5 Consensus size: 96
10891949 GTCCATTGTG
* * * * * * * *
10891959 TCGCCTGGGAAGTAAAATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTTAGGGAAGTAA
1 TCGCCT-GAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATG---GGGAAGTGA
* *
10892024 GA-TCCGCTGTTGTAGCTTCAATCTGTTCCGTTGCA
62 GACT-CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* * * * * * * *
10892059 TCGCCAATG-ATGTGAGACTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAATGTTGGGGAAGT
1 TCGCC--TGAAAGTAAGATTCGCCGTTGTGGCTTCGATCT-TTTAAATTGCAA---TGGGGAAGT
* *
10892122 GAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCA
60 GAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
10892159 TCGCCTGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
10892224 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
10892255 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGGAAGTGAGAC
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT-GGGGAAGTGAGAC
*
10892320 TCGCCGTTGTAGCTTCAATCTGTTCCGCAGCA
65 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
10892352 TCGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCGATATTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
10892417 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
10892448 TCGACTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
10892513 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
10892544 TCGCCTGAAAGTAAGATTCGTCGTTGTGGCTTCGATCTTTTAAATTGCAAT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT
10892595 CTATGGTTAC
Statistics
Matches: 496, Mismatches: 30, Indels: 24
0.90 0.05 0.04
Matches are distributed among these distances:
96 279 0.56
97 93 0.19
98 5 0.01
99 29 0.06
100 82 0.17
101 5 0.01
102 1 0.00
103 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (96 bp):
TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
Found at i:10892345 original size:193 final size:193
Alignment explanation
Indices: 10891959--10892594 Score: 911
Period size: 193 Copynumber: 3.3 Consensus size: 193
10891949 GTCCATTGTG
* * * * * * * *
10891959 TCGCCTGGGAAGTAAAATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTTAGGGAAGTAA
1 TCGCCT-GAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATG---GGGAAGTGA
* * * * * *
10892024 GA-TCCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAATG-ATGTGAGACTCGCTGTTGT
62 GACT-CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGAAAGTAAGATTCGCCGTTGT
* * * * *
10892087 AGCTTCAATCTATTT-GACTGCAATGTTGGGGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTT
124 GGCTTCGATCT-TTTAAATTGCAATG--GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTT
*
10892151 CCGTTGCA
186 CCGCTGCA
* *
10892159 TCGCCTGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
10892224 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCG
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCG
*
10892289 ATCTTTTAAATTGCAATGGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCAGCA
131 ATCTTTTAAATTGCAATGGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
10892352 TCGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCGATATTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
*
10892417 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGACTGAAAGTAAGATTCGCCGTTGTGGCTTCG
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCG
10892482 ATCTTTTAAATTGCAAT-GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
131 ATCTTTTAAATTGCAATGGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
10892544 TCGCCTGAAAGTAAGATTCGTCGTTGTGGCTTCGATCTTTTAAATTGCAAT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT
10892595 CTATGGTTAC
Statistics
Matches: 403, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
192 92 0.23
193 184 0.46
194 5 0.01
195 32 0.08
196 44 0.11
197 1 0.00
199 39 0.10
200 6 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (193 bp):
TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
CGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCG
ATCTTTTAAATTGCAATGGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
Found at i:10905941 original size:2 final size:2
Alignment explanation
Indices: 10905934--10905986 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
10905924 TATAGCTTCT
*
10905934 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10905976 TA TA TA TA TA T
1 TA TA TA TA TA T
10905987 GATTTAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10906372 original size:14 final size:15
Alignment explanation
Indices: 10906341--10906376 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10906331 TTTTATGAAA
*
10906341 TTGGGCTTGGGTGTT
1 TTGGGCTTCGGTGTT
10906356 TTGGGCTTCGG-GTT
1 TTGGGCTTCGGTGTT
10906370 TTGGGCT
1 TTGGGCT
10906377 GTATTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.11, G:0.44, T:0.44
Consensus pattern (15 bp):
TTGGGCTTCGGTGTT
Found at i:10906772 original size:8 final size:7
Alignment explanation
Indices: 10906744--10906774 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10906734 TAGATATTTA
10906744 TTTTAAT
1 TTTTAAT
10906751 TTTTAAT
1 TTTTAAT
10906758 TTTTAAT
1 TTTTAAT
10906765 TTTATAAT
1 TTT-TAAT
10906773 TT
1 TT
10906775 AACATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.74
8 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:10912392 original size:60 final size:59
Alignment explanation
Indices: 10912283--10912415 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
10912273 TACACTAGTA
* ** * *
10912283 GTCATACAACTATTAGTGAATTTCTTTTCTGATTACACAACTATAAAAAGTTAGAAAAAG
1 GTCACACAACTATTAGAAAATTTCTTTTCTAATCACACAACTATAAAAAGTTA-AAAAAG
* * * * * * *
10912343 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACCCAAGTATGAAAAGTTACAAATG
1 GTCACACAACTATTAGAAAATTTCTTTTCTAATCACACAACTATAAAAAGTTAAAAAAG
10912402 GTCACACAACTATT
1 GTCACACAACTATT
10912416 CAATTTTGTC
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
59 17 0.28
60 43 0.72
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (59 bp):
GTCACACAACTATTAGAAAATTTCTTTTCTAATCACACAACTATAAAAAGTTAAAAAAG
Found at i:10913297 original size:19 final size:19
Alignment explanation
Indices: 10913275--10913312 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10913265 TTTGTTAACG
*
10913275 TAATCAGTCAGCTTTAAGT
1 TAATCAATCAGCTTTAAGT
10913294 TAATCAATCAGCTTTAAGT
1 TAATCAATCAGCTTTAAGT
10913313 AAACGTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
TAATCAATCAGCTTTAAGT
Found at i:10920941 original size:42 final size:42
Alignment explanation
Indices: 10920884--10921013 Score: 210
Period size: 42 Copynumber: 3.1 Consensus size: 42
10920874 GTGTTTACAG
*
10920884 AAAAAACGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
1 AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
10920926 AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
1 AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
* **
10920968 AAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT--A
1 AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
10921008 AAAAAA
1 AAAAAA
10921014 GACGTCACTA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
40 7 0.08
42 77 0.92
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (42 bp):
AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
Found at i:10921025 original size:42 final size:42
Alignment explanation
Indices: 10920884--10921078 Score: 196
Period size: 42 Copynumber: 4.6 Consensus size: 42
10920874 GTGTTTACAG
* * ** *
10920884 AAAAAACGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
1 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAA
* * * ** *
10920926 AAAAAATGCCGCTAAAGGTCATGTTGATTAGCGGCGCTTGGA
1 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAA
* *
10920968 AAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AA
1 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAA
* * * * *
10921009 AAAAAGACGTCACTAAAGATCGTGATCTTTAACGGCACTT-AA
1 AAAAA-ACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAA
10921051 ATAAAAACGCCACTAAAGATCATGTTCT
1 A-AAAAACGCCACTAAAGATCATGTTCT
10921079 AAAAGAAAAG
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
41 6 0.04
42 126 0.93
43 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAA
Found at i:10922796 original size:9 final size:9
Alignment explanation
Indices: 10922779--10922996 Score: 177
Period size: 9 Copynumber: 24.8 Consensus size: 9
10922769 TATGTATTAA
*
10922779 GTAAATTAT
1 GTAAGTTAT
10922788 GTAAGTTAT
1 GTAAGTTAT
** *
10922797 CAAAGTAAT
1 GTAAGTTAT
*
10922806 GTATGTTAT
1 GTAAGTTAT
10922815 GTAAG-TA-
1 GTAAGTTAT
10922822 GTAAGTTAT
1 GTAAGTTAT
*
10922831 -TATGTATTAT
1 GTAAG--TTAT
10922841 GTAAGTTAT
1 GTAAGTTAT
10922850 GTAAGTTAT
1 GTAAGTTAT
10922859 GTAAGTTAT
1 GTAAGTTAT
10922868 GT-A-TTAT
1 GTAAGTTAT
*
10922875 GTAGGTTAT
1 GTAAGTTAT
*
10922884 GTAAGTTGT
1 GTAAGTTAT
*
10922893 GTAAGATAT
1 GTAAGTTAT
*
10922902 TTAAGTTAT
1 GTAAGTTAT
*
10922911 GTAAGTTTT
1 GTAAGTTAT
10922920 GT-A-TTAT
1 GTAAGTTAT
10922927 GTAAGTTAT
1 GTAAGTTAT
10922936 GTAAGTTAT
1 GTAAGTTAT
* * *
10922945 GTATGCTGT
1 GTAAGTTAT
10922954 GT-A-TTAT
1 GTAAGTTAT
10922961 GTAAGTTGTTAT
1 GTAA---GTTAT
*
10922973 GTTA-TTAT
1 GTAAGTTAT
10922981 GTAAGTTAT
1 GTAAGTTAT
*
10922990 GCAAGTT
1 GTAAGTT
10922997 TATATATAAG
Statistics
Matches: 164, Mismatches: 30, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
7 20 0.12
8 18 0.11
9 112 0.68
10 4 0.02
11 3 0.02
12 7 0.04
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:10922873 original size:34 final size:34
Alignment explanation
Indices: 10922804--10922996 Score: 155
Period size: 34 Copynumber: 5.5 Consensus size: 34
10922794 TATCAAAGTA
*
10922804 ATGTATGTTATGTAAG-TA-GTAAGTTATTATGTATT
1 ATGTAAGTTATGTAAGTTATGTAAG---TTATGTATT
10922839 ATGTAAGTTATGTAAGTTATGTAAGTTATGTATT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATGTATT
* * * *
10922873 ATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATGT-A-TT
*
10922909 ATGTAAGTTTTGT-A-TTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATGT-A-TT
* * *
10922943 ATGTATGCTGTGT-A-TTATGTAAGTTGTTATGTTATT
1 ATGTAAGTTATGTAAGTTATGTAA---GTTATG-TATT
*
10922979 ATGTAAGTTATGCAAGTT
1 ATGTAAGTTATGTAAGTT
10922997 TATATATAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
34 72 0.55
35 17 0.13
36 26 0.20
37 13 0.10
38 3 0.02
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.48
Consensus pattern (34 bp):
ATGTAAGTTATGTAAGTTATGTAAGTTATGTATT
Found at i:10922914 original size:52 final size:52
Alignment explanation
Indices: 10922779--10922996 Score: 192
Period size: 52 Copynumber: 4.1 Consensus size: 52
10922769 TATGTATTAA
* * ** * * *
10922779 GTAAATTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTA-GTAAGTTAT
1 GTAAGTTATGTAAGATATGTAAGTTATGTAAGTTATGT-ATTATGTAAGTTAT
* * *
10922831 -TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGTAGGTTAT
1 GTAAG--TTATGTAAGATATGTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* * *
10922884 GTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGATATGTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* * *
10922936 GTAAGTTATGTATGCTGTGT-A-TTATGTAAGTTGTTATGTTATTATGTAAGTTAT
1 GTAAGTTATGTAAGATATGTAAGTTATGTAA---GTTATG-TATTATGTAAGTTAT
*
10922990 GCAAGTT
1 GTAAGTT
10922997 TATATATAAG
Statistics
Matches: 137, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
50 8 0.06
51 3 0.02
52 60 0.44
53 42 0.31
54 24 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (52 bp):
GTAAGTTATGTAAGATATGTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:10923171 original size:23 final size:24
Alignment explanation
Indices: 10923137--10923191 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
10923127 GTTTATATAA
*
10923137 ATAT-TAA-TAAGTTATGTAAGTT
1 ATATATAAGTAAGTTATGAAAGTT
10923159 AT-TATAAGTAAGTTATGAAAGTT
1 ATATATAAGTAAGTTATGAAAGTT
10923182 ATATATAAGT
1 ATATATAAGT
10923192 TTATATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
23 16 0.55
24 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (24 bp):
ATATATAAGTAAGTTATGAAAGTT
Found at i:10923196 original size:32 final size:32
Alignment explanation
Indices: 10922982--10923397 Score: 206
Period size: 32 Copynumber: 13.3 Consensus size: 32
10922972 TGTTATTATG
* * * *
10922982 TAAGTTATGCAAGTTTATATATAAGCTTGTAGA
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
* * *
10923015 TAACTTATGTAAGTTAATATGTAAG--TA-ATG
1 TAAGTTATGTAAGTT-ATATATAAGTTTATATA
* *
10923045 T-A-TTATGTAAGTTTATATAAAAATTT-TATA
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
* * *
10923075 TAAGTCATGT-A--T-TATGTAAGTTTACATA
1 TAAGTTATGTAAGTTATATATAAGTTTATATA
*
10923103 TAAGTTTATGTGATAG-T-TATGTAAGTTTATATA
1 TAAG-TTATGT-A-AGTTATATATAAGTTTATATA
* * *
10923136 -AATATTA-ATAAG-T-TATGTAAGTTATTATA-A
1 TAA-GTTATGTAAGTTATATATAAG-T-TTATATA
*
10923166 GTAAGTTATGAAAGTTATATATAAGTTTATATA
1 -TAAGTTATGTAAGTTATATATAAGTTTATATA
* *
10923199 TAAGTTATGTAAGTTATTATGTAAG--T-TATG
1 TAAGTTATGTAAGTTA-TATATAAGTTTATATA
* * * *
10923229 T--GTTGTATAAGTTTATATATAAATTT-TATT
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
10923259 TAAGTTATGTATGTAAGTTATATATAAGTTTATATA
1 TAAG---T-TATGTAAGTTATATATAAGTTTATATA
*
10923295 TAAGTTATGTAAGTTATATATAAGTTTTTATA
1 TAAGTTATGTAAGTTATATATAAGTTTATATA
* *
10923327 TAAGTTATGTAAGTTATTATGTAAG--T-TATG
1 TAAGTTATGTAAGTTA-TATATAAGTTTATATA
* * *
10923357 T--GTTGTGTAAGTTTATATATAAATTT-TATT
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
10923387 TAAGTTATGTA
1 TAAGTTATGTA
10923398 TGTAAATTAT
Statistics
Matches: 301, Mismatches: 43, Indels: 79
0.71 0.10 0.19
Matches are distributed among these distances:
27 8 0.03
28 52 0.17
29 25 0.08
30 27 0.09
31 14 0.05
32 88 0.29
33 53 0.18
34 7 0.02
35 14 0.05
36 13 0.04
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (32 bp):
TAAGTTATGTAAGTTATATATAAGTTTATATA
Found at i:10923211 original size:21 final size:21
Alignment explanation
Indices: 10923187--10923357 Score: 65
Period size: 21 Copynumber: 8.0 Consensus size: 21
10923177 AAGTTATATA
10923187 TAAGTT-TATATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
10923208 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
* *
10923229 T--G---TTGTATAAGTTTATATA
1 TAAGTTATTATATAAG--T-TATG
* *
10923248 TAAATT-TTATTTAAGTTATGTATG
1 TAAGTTATTATATAAGTTA--T--G
*
10923272 TAAGTTA-TATATAAGTT-TA
1 TAAGTTATTATATAAGTTATG
* * *
10923291 TATA-TAAGTTATGTAAGTTATA
1 TA-AGTTA-TTATATAAGTTATG
*
10923313 TATAAGTTTTTATATAAGTTATG
1 TA--AGTTATTATATAAGTTATG
*
10923336 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
10923357 T
1 T
10923358 GTTGTGTAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
16 7 0.06
18 1 0.01
19 9 0.08
20 3 0.03
21 48 0.43
22 6 0.05
23 22 0.20
24 15 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:10923212 original size:184 final size:182
Alignment explanation
Indices: 10922928--10923356 Score: 519
Period size: 184 Copynumber: 2.3 Consensus size: 182
10922918 TTGTATTATG
* ** * * * * *
10922928 TAAGTTATGTAAGTTATGTATGCTGTGTATTATGTAAGTTGT-TATGTTATTATGTAAGTTATGC
1 TAAGTTATGTAAGTTATATAT-AAG-ATATTATATAAGTTATGTAAGTTATTATGTAAGTTATGA
* *
10922992 AAGTTTATATATAAGCTTGTAGATAACTTATGTAAGTTAATATGTAAGTAATGTATTATGTAAGT
64 AAGTTTATATATAAGCTTATAGATAACTTATGTAAGTTAATATGTAAGTAATGTATTATATAAGT
*
10923057 TTATATAAAAATTTTATATAAGTCATGTATTATGTAAGTTTACATATAAGTTTATGTGA
129 TTATATAAAAATTTTATATAAGTCATG---TATGTAAG-TTACATATAAGTTTATAT-A
10923116 T-AGTTATGTAAGTT-TATATAA-ATATTA-ATAAGTTATGTAAGTTATTATAAGTAAGTTATGA
1 TAAGTTATGTAAGTTATATATAAGATATTATATAAGTTATGTAAGTTATTAT--GTAAGTTATGA
* * * * * * *
10923177 AAG-TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTATAAGT
64 AAGTTTATATATAAGCTTATAGATAACTTATGTAAGTTAATATGTAAGTAATGTATTATATAAGT
* * * *
10923241 TTATATATAAATTTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATA
129 TTATATAAAAATTTTATATAAGTCATGTATGTAAGTTACATATAAGTTTATATA
* *
10923295 TAAGTTATGTAAGTTATATATAAGTTTTTATATAAGTTATGTAAGTTATTATGTAAGTTATG
1 TAAGTTATGTAAGTTATATATAAGATATTATATAAGTTATGTAAGTTATTATGTAAGTTATG
10923357 TGTTGTGTAA
Statistics
Matches: 210, Mismatches: 24, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
179 2 0.01
180 29 0.14
181 25 0.12
182 11 0.05
183 36 0.17
184 76 0.36
185 13 0.06
186 4 0.02
187 13 0.06
188 1 0.00
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (182 bp):
TAAGTTATGTAAGTTATATATAAGATATTATATAAGTTATGTAAGTTATTATGTAAGTTATGAAA
GTTTATATATAAGCTTATAGATAACTTATGTAAGTTAATATGTAAGTAATGTATTATATAAGTTT
ATATAAAAATTTTATATAAGTCATGTATGTAAGTTACATATAAGTTTATATA
Found at i:10923219 original size:96 final size:96
Alignment explanation
Indices: 10923091--10923326 Score: 231
Period size: 96 Copynumber: 2.5 Consensus size: 96
10923081 ATGTATTATG
* *
10923091 TAAGTTTACATATAAGTTTATGT--GATAGTTATGTAAGTTTATATAAATAT-TAATAAG-T-TA
1 TAAGTTTATATATAAG-TTATGTAAGTTA-TTATGTAAGTTTATAT-AAT-TGT-ATAAGTTATA
* *
10923151 TGTAAGTTATTA-TAAGTAA-GTTATGAAAGTTATATA
61 TATAAATT-TTATTAAGTAATG-TATGAAAGTTATATA
* *
10923187 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAG-TTATGT-GTTGTATAAGTTTATATATA
1 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTTATATAATTGTATAAG-TTATATATA
* *
10923250 AATTTTATTTAAGTTATGTATGTAAGTTATATA
65 AATTTTA-TTAAGTAATGTATGAAAGTTATATA
* *
10923283 TAAGTTTATATATAAGTTATGTAAGTTA-TATATAAGTTTTTATA
1 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTTATATA
10923327 TAAGTTATGT
Statistics
Matches: 118, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
92 6 0.05
93 2 0.02
94 4 0.03
95 26 0.22
96 76 0.64
97 4 0.03
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.47
Consensus pattern (96 bp):
TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTTATATAATTGTATAAGTTATATATAA
ATTTTATTAAGTAATGTATGAAAGTTATATA
Found at i:10923300 original size:128 final size:129
Alignment explanation
Indices: 10923167--10923412 Score: 449
Period size: 128 Copynumber: 1.9 Consensus size: 129
10923157 TTATTATAAG
10923167 TAAGTTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
1 TAAGTTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
*
10923232 TGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAGTTAT-ATATAAGTTTATATA
66 TGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATGATATAAGTTTATATA
* *
10923295 TAAGTTATGTAAGTTATATATAAGTTTTTATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
1 TAAGTTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
*
10923360 TGTGTAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATGATAT
66 TGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATGATAT
10923413 GATTGATAAA
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
128 109 0.96
129 4 0.04
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (129 bp):
TAAGTTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
TGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATGATATAAGTTTATATA
Found at i:10923346 original size:12 final size:12
Alignment explanation
Indices: 10923148--10923355 Score: 92
Period size: 12 Copynumber: 18.1 Consensus size: 12
10923138 TATTAATAAG
10923148 TTATGTAAGTTA
1 TTATGTAAGTTA
*
10923160 TTA--TAAGTAA
1 TTATGTAAGTTA
*
10923170 GTTATGAAAGTTA
1 -TTATGTAAGTTA
*
10923183 -TATATAAGTT-
1 TTATGTAAGTTA
*
10923193 TATATATAAG---
1 T-TATGTAAGTTA
10923203 TTATGTAAGTTA
1 TTATGTAAGTTA
10923215 TTATGTAAGTTA
1 TTATGTAAGTTA
*
10923227 TGTGTTGTATAAGTT-
1 T-T-ATG--TAAGTTA
* *
10923242 TATATATAAATT-
1 T-TATGTAAGTTA
*
10923254 TTATTTAAGTTA
1 TTATGTAAGTTA
10923266 TGTATGTAAGTTA
1 T-TATGTAAGTTA
*
10923279 -TATATAAGTT-
1 TTATGTAAGTTA
*
10923289 TATATATAAG---
1 T-TATGTAAGTTA
10923299 TTATGTAAGTTA
1 TTATGTAAGTTA
* *
10923311 -TATATAAGTTT
1 TTATGTAAGTTA
*
10923322 TTATATAAG---
1 TTATGTAAGTTA
10923331 TTATGTAAGTTA
1 TTATGTAAGTTA
10923343 TTATGTAAGTTA
1 TTATGTAAGTTA
10923355 T
1 T
10923356 GTGTTGTGTA
Statistics
Matches: 154, Mismatches: 19, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
9 22 0.14
10 8 0.05
11 37 0.24
12 60 0.39
13 16 0.10
14 3 0.02
15 2 0.01
16 6 0.04
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:10923456 original size:128 final size:128
Alignment explanation
Indices: 10923167--10923454 Score: 387
Period size: 128 Copynumber: 2.3 Consensus size: 128
10923157 TTATTATAAG
*
10923167 TAAGTTATG-AAAGTTATATATAAG-TTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGT
1 TAAGTTATGTAAA-TTATATAAAAGTTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGT
* * *
10923230 GTTGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATA
65 GTTGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATATAT-AGATTAGATA
* *
10923295 TAAGTTATGTAAGTTATATATAAGTTTT-TATATAAGTTATGTAAGTTATTATGTAAGTTATGTG
1 TAAGTTATGTAAATTATATAAAAGTTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTG
*
10923359 TTGTGTAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATGATAT-GATT-GATA
66 TTGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTAT-ATATAGATTAGATA
*
10923421 -AA-TT-TTTCAAATATATATAAAA-TTTTAATATATA
1 TAAGTTATGT-AAAT-TATATAAAAGTTTT-ATATATA
10923455 TATTAAAAAT
Statistics
Matches: 145, Mismatches: 8, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
123 2 0.01
124 9 0.06
125 10 0.07
126 9 0.06
127 3 0.02
128 103 0.71
129 9 0.06
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (128 bp):
TAAGTTATGTAAATTATATAAAAGTTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTG
TTGTATAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAATTATATATAGATTAGATA
Found at i:10923457 original size:19 final size:19
Alignment explanation
Indices: 10923418--10923462 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
10923408 GATATGATTG
*
10923418 ATAAATTTTTCAAATATAT
1 ATAAAATTTTCAAATATAT
10923437 ATAAAATTTT-AATATATAT
1 ATAAAATTTTCAA-ATATAT
10923456 ATTAAAA
1 A-TAAAA
10923463 ATGTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAATTTTCAAATATAT
Found at i:10923457 original size:21 final size:22
Alignment explanation
Indices: 10923429--10923481 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
10923419 TAAATTTTTC
* *
10923429 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAAATGTATAT
*
10923450 ATATATAT-TAAAAATGTATAT
1 AAATATATATAAAAATGTATAT
10923471 AAATATATATA
1 AAATATATATA
10923482 TCAAAGATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATATATAAAAATGTATAT
Found at i:10926224 original size:73 final size:74
Alignment explanation
Indices: 10926073--10926231 Score: 202
Period size: 73 Copynumber: 2.2 Consensus size: 74
10926063 CGTTTGGTAG
* *
10926073 AAAACGCCACTAAGAACACAGAACAAAACGCAACGTTTTGCCATTCCTGAAACAAATTTGTGGCA
1 AAAACGCCACTAAGAACACAAAACAAAACGCAACGTTTTGCCATTACTGAAACAAATTTGTGGCA
10926138 TTTTGTTAT
66 TTTTGTTAT
* * * *
10926147 -AAACGCCACTAGGAACACAAAATAAAACGTCAACGTTTTG-CA-TACT-ATGACATATTTGTGG
1 AAAACGCCACTAAGAACACAAAACAAAACG-CAACGTTTTGCCATTACTGA-AACAAATTTGTGG
10926208 CATTTT-TTACT
64 CATTTTGTTA-T
10926219 AAAACGCCACTAA
1 AAAACGCCACTAA
10926232 TGCATAAACA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
71 4 0.05
72 21 0.28
73 39 0.53
74 10 0.14
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (74 bp):
AAAACGCCACTAAGAACACAAAACAAAACGCAACGTTTTGCCATTACTGAAACAAATTTGTGGCA
TTTTGTTAT
Found at i:10926344 original size:6 final size:7
Alignment explanation
Indices: 10926324--10926358 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
10926314 CTATAAAAAA
10926324 CTAAACC
1 CTAAACC
10926331 CTAAACC
1 CTAAACC
10926338 C-AAACC
1 CTAAACC
10926344 CTAAACC
1 CTAAACC
*
10926351 ATAAACC
1 CTAAACC
10926358 C
1 C
10926359 CAAATTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (7 bp):
CTAAACC
Found at i:10926344 original size:13 final size:13
Alignment explanation
Indices: 10926326--10926350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10926316 ATAAAAAACT
10926326 AAACCCTAAACCC
1 AAACCCTAAACCC
10926339 AAACCCTAAACC
1 AAACCCTAAACC
10926351 ATAAACCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.44, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:10926587 original size:22 final size:23
Alignment explanation
Indices: 10926559--10926603 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
10926549 TTATCAAAAT
*
10926559 CCCTAACCCTT-AAACCCTAATA
1 CCCTAACCCTTAAAACCATAATA
10926581 CCCTAACCCTTAAAACCATAATA
1 CCCTAACCCTTAAAACCATAATA
10926604 TTAAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (23 bp):
CCCTAACCCTTAAAACCATAATA
Found at i:10927408 original size:104 final size:106
Alignment explanation
Indices: 10927137--10927812 Score: 440
Period size: 113 Copynumber: 6.1 Consensus size: 106
10927127 TTGGGCTTAG
* * * *
10927137 GCTTT-CTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTAAT-GAAAACGCCGCTAA
1 GCTTTCCT-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCATCAAAAACGCCGCTAA
* * *
10927200 ATACCCGAAAGCTCGGAAAATGGCATCGTTGGGCTTATGTTTTTTTGCGAC
64 ATCCCCGAAAGCTC----AA-GG--TCGTTGGGCTTA-GGTTTTTTGCGGC
* * * *
10927251 AC-TTCCTCAAACACGCCGCTAAAGCCCTGAGCATTGGCGGCGCTT-ATTTAAAAACGCCGCTAA
1 GCTTTCCT-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCA-TCAAAAACGCCGCTAA
* *
10927314 ATACCCGAAAGCTC-A-GTCGTTGGGCTTAGGTTTTTTCCGGC
64 ATCCCCGAAAGCTCAAGGTCGTTGGGCTTAGGTTTTTTGCGGC
* * * *
10927355 GCTTTCCTAAAAACGCCGCTAAAGCCCTAAGCATTAGCAGTGATTCATCAAAAACGCCG-TAAAA
1 GCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCT-AAA
* *
10927419 TCCCCGAATGCTCAGAAAACGGGTCGTTGGCCTTAGGTTTTTTTGCGGC
65 TCCCCGAAAGCTC----AA--GGTCGTTGGGCTTAGG-TTTTTTGCGGC
*
10927468 GCTTTCCCT-AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA
1 GCTTT-CCTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAA
* * * * *
10927532 TCCCCGAATGCTAAGAAAACGACGTCGTTGGGTTTAGGTTTTCTTGTGGT
65 TCCCCGAAAGCT----CAA-G--GTCGTTGGGCTTAGGTTTT-TTGCGGC
* * * * * *
10927582 GCTTTCC-ATAAAACCCCGTTAAATCCCTGAGCATTAACGGTGCTTC-CCAAAAACGCCGCTAAA
1 GCTTTCCTA-AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAA
* *
10927645 -CACCCGAATGCTCAGAAAACGACGTCGTTGGGCTTAGTTTTTTTGCGGC
65 TC-CCCGAAAGCTC----AA-G--GTCGTTGGGCTTAGGTTTTTTGCGGC
* * * * * * * * *
10927694 ACTTT-CTCAAAAATGCCGCTAAAAGCCCTAAACGTTAGCGGCACTTTATTAAAAATGCCGCTAA
1 GCTTTCCT-AAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAA
** * *
10927758 GCCCCCGAATGCTCAGAAACGGCGTCGTTGGGCTTAGGTTTTTGGCGGC
64 ATCCCCGAAAGCTC---AA--G-GTCGTTGGGCTTAGGTTTTTTGCGGC
10927807 GCTTTC
1 GCTTTC
10927813 TTTGGAAACA
Statistics
Matches: 459, Mismatches: 65, Indels: 76
0.76 0.11 0.13
Matches are distributed among these distances:
103 1 0.00
104 67 0.15
105 18 0.04
107 1 0.00
109 2 0.00
111 1 0.00
112 34 0.07
113 188 0.41
114 146 0.32
115 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (106 bp):
GCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAT
CCCCGAAAGCTCAAGGTCGTTGGGCTTAGGTTTTTTGCGGC
Found at i:10927627 original size:114 final size:112
Alignment explanation
Indices: 10927329--10927812 Score: 555
Period size: 113 Copynumber: 4.3 Consensus size: 112
10927319 CGAAAGCTCA
* * *
10927329 GTCGTTGGGCTTAGGTTTTTTCCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTAAGCATTAGCA
1 GTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCCT-AAAACGCCGCTAAAGCCCTGAGCATTAGCG
* * *
10927394 GTGATTCATCAAAAACGCCG-TAAAATCCCCGAATGCTCAGAAAACG-G
65 GTGCTTCCTCAAAAACGCCGCT-AAATCCCCGAATGCTCAGAAAACGAC
*
10927441 GTCGTTGGCCTTAGGTTTTTTTGCGGCGCTTTCCCTAAAACGCCGCTAAAGCCCTGAGCATTAGC
1 GTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTT-CCTAAAACGCCGCTAAAGCCCTGAGCATTAGC
* *
10927506 GGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTAAGAAAACGAC
64 GGTGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGAC
* * * * * * *
10927555 GTCGTTGGGTTTAGGTTTTCTTGTGGTGCTTTCCATAAAACCCCGTTAAATCCCTGAGCATTAAC
1 GTCGTTGGGCTTAGGTTTT-TTGCGGCGCTTTCC-TAAAACGCCGCTAAAGCCCTGAGCATTAGC
10927620 GGTGCTTCC-CAAAAACGCCGCTAAA-CACCCGAATGCTCAGAAAACGAC
64 GGTGCTTCCTCAAAAACGCCGCTAAATC-CCCGAATGCTCAGAAAACGAC
* * * * * * *
10927668 GTCGTTGGGCTTAGTTTTTTTGCGGCACTTTCTCAAAAATGCCGCTAAAAGCCCTAAACGTTAGC
1 GTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTC-CTAAAACGCCGCT-AAAGCCCTGAGCATTAGC
** ** * * ** *
10927733 GGCACTTTATTAAAAATGCCGCTAAGCCCCCGAATGCTCAG-AAACGGC
64 GGTGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGAC
*
10927781 GTCGTTGGGCTTAGGTTTTTGGCGGCGCTTTC
1 GTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTC
10927813 TTTGGAAACA
Statistics
Matches: 317, Mismatches: 44, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
112 33 0.10
113 196 0.62
114 87 0.27
115 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (112 bp):
GTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCCTAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
TGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGAC
Found at i:10927687 original size:226 final size:223
Alignment explanation
Indices: 10927187--10927812 Score: 657
Period size: 227 Copynumber: 2.8 Consensus size: 223
10927177 CGCTTTAATG
* * * * * *
10927187 AAAACGCCGCTAAATACCCGAAAGCTCGGAAAATGGCATCGTTGGGCTTATGTTTTTTTGCGACA
1 AAAACGCCGCTAAA-ACCCGAATGCTCAGAAAA-CGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
* *
10927252 C-TT-CCTCAAACACGCCGCTAAAGCCCTGAGCATTGGCGGCGCTTATTTAAAAACGCCGCTAAA
64 CTTTCCCT-AAA-ACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAA
* * *
10927315 TACCCGAAAGCT-----C-A-GTCGTTGGGCTTAGGTTTTTTCCGGCGCTTTCCTAAAAACGCCG
127 TCCCCGAATGCTAGAAACGACGTCGTTGGGCTTAGGTTTTTTCCGGCGCTTTCCTAAAAACCCCG
* *
10927373 CTAAAGCCCTAAGCATTAGCAGTGATTCATCA
192 CTAAAGCCCTAAGCATTAACAGTGATTCACCA
* * *
10927405 AAAACGCCG-TAAAATCCCCGAATGCTCAGAAAACGGGTCGTTGGCCTTAGGTTTTTTTGCGGCG
1 AAAACGCCGCTAAAA--CCCGAATGCTCAGAAAACGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
** *
10927469 CTTTCCCTAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAATC
64 CTTTCCCTAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATC
* ** *
10927534 CCCGAATGCTAAGAAAACGACGTCGTTGGGTTTAGGTTTTCTTGTGGTGCTTTCC-ATAAAACCC
129 CCCGAATGCT-AG-AAACGACGTCGTTGGGCTTAGGTTTT-TTCCGGCGCTTTCCTA-AAAACCC
* * * * *
10927598 CGTTAAATCCCTGAGCATTAACGGTGCTTC-CCA
190 CGCTAAAGCCCTAAGCATTAACAGTGATTCACCA
10927631 AAAACGCCGCTAAACACCCGAATGCTCAGAAAACGACGTCGTTGGGCTTA-GTTTTTTTGCGGCA
1 AAAACGCCGCTAAA-ACCCGAATGCTCAGAAAACG-CGTCGTTGGGCTTAGGTTTTTTTGCGGCA
* * * * * * * * * **
10927695 CTTTCTCAAAAATGCCGCTAAAAGCCCTAAACGTTAGCGGCACTTTATTAAAAATGCCGCTAAGC
64 CTTTCCCTAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAAT
* **
10927760 CCCCGAATGCTCAGAAACGGCGTCGTTGGGCTTAGGTTTTTGGCGGCGCTTTC
128 CCCCGAATGCT-AGAAACGACGTCGTTGGGCTTAGGTTTTTTCCGGCGCTTTC
10927813 TTTGGAAACA
Statistics
Matches: 340, Mismatches: 49, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
216 1 0.00
217 87 0.26
218 29 0.09
219 3 0.01
224 1 0.00
225 11 0.03
226 102 0.30
227 105 0.31
228 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (223 bp):
AAAACGCCGCTAAAACCCGAATGCTCAGAAAACGCGTCGTTGGGCTTAGGTTTTTTTGCGGCACT
TTCCCTAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCC
CGAATGCTAGAAACGACGTCGTTGGGCTTAGGTTTTTTCCGGCGCTTTCCTAAAAACCCCGCTAA
AGCCCTAAGCATTAACAGTGATTCACCA
Found at i:10933988 original size:26 final size:27
Alignment explanation
Indices: 10933959--10934044 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
10933949 ATATAAATGA
*
10933959 TATATTATA-ACATATA-ATTAATAATT
1 TATATTATATA-ATATATATAAATAATT
*
10933985 TATATTATATATTATATATAAATAATT
1 TATATTATATAATATATATAAATAATT
* * * *
10934012 TATATGACTATATATAAATAAAAATAATA
1 TATATTA-TATA-ATATATATAAATAATT
10934041 TATA
1 TATA
10934045 AATAATTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
26 13 0.27
27 16 0.33
28 4 0.08
29 16 0.33
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
TATATTATATAATATATATAAATAATT
Found at i:10933991 original size:13 final size:13
Alignment explanation
Indices: 10933975--10934016 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10933965 ATAACATATA
10933975 ATTAATAATTTAT
1 ATTAATAATTTAT
10933988 ATT-ATATATTATAT
1 ATTAATA-ATT-TAT
*
10934002 ATAAATAATTTAT
1 ATTAATAATTTAT
10934015 AT
1 AT
10934017 GACTATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 8 0.32
15 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAATAATTTAT
Found at i:10934016 original size:27 final size:29
Alignment explanation
Indices: 10933978--10934044 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
10933968 ACATATAATT
* * *
10933978 AATAATTTATATTA-TATAT-TATATATA
1 AATAATTTATATGACTATATATAAATAAA
10934005 AATAATTTATATGACTATATATAAATAAA
1 AATAATTTATATGACTATATATAAATAAA
*
10934034 AATAATATATA
1 AATAATTTATA
10934045 AATAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 13 0.38
28 5 0.15
29 16 0.47
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
AATAATTTATATGACTATATATAAATAAA
Found at i:10934029 original size:23 final size:22
Alignment explanation
Indices: 10933989--10934032 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10933979 ATAATTTATA
*
10933989 TTATATATTATATATAAATAAT
1 TTATATACTATATATAAATAAT
10934011 TTATATGACTATATATAAATAA
1 TTATAT-ACTATATATAAATAA
10934033 AAATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATATACTATATATAAATAAT
Found at i:10938354 original size:34 final size:33
Alignment explanation
Indices: 10938303--10938408 Score: 81
Period size: 34 Copynumber: 3.1 Consensus size: 33
10938293 TAAGAGTAAA
* *
10938303 CAGTTGGG-CTTGAGCCCATCACAATACCAGTAAT
1 CAGTGGGGCCTTG-GCCCATCACAATAACAGT-AT
* ** * *
10938337 CAGTGGGGCCTTTGCCCAATTTCAGTAATAGTAT
1 CAGTGGGGCCTTGGCCC-ATCACAATAACAGTAT
*
10938371 CAGTGGGGCCTTGGCCCATAACAGA-AACAGATAT
1 CAGTGGGGCCTTGGCCCATCACA-ATAACAG-TAT
10938405 CAGT
1 CAGT
10938409 TATGCAGTGA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
33 8 0.14
34 36 0.64
35 12 0.21
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (33 bp):
CAGTGGGGCCTTGGCCCATCACAATAACAGTAT
Found at i:10939142 original size:81 final size:80
Alignment explanation
Indices: 10938894--10939146 Score: 348
Period size: 81 Copynumber: 3.1 Consensus size: 80
10938884 GGTATTTTTG
* * *
10938894 TCATTTTATCTTATTGGGGTATTTTGGTCATTCTACCCTAT-GGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
10938958 TATAGGGGTATTTCGA
66 TAT-GGGGTATTTCGA
* * * * *
10938974 TCATTTTACCATATAAGGGTATTTTGGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTATCC
1 TCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
10939039 TATGGGGGTATTTCGA
66 TAT-GGGGTATTTCGA
* * *
10939055 TCATTTTACCTTATAGGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
10939120 TATGGGAGTATTTCAGA
66 TATGGG-GTATTTC-GA
*
10939137 -AATTTTACCT
1 TCATTTTACCT
10939147 ATTTTGGGGT
Statistics
Matches: 152, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 38 0.25
81 112 0.74
82 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (80 bp):
TCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
TATGGGGTATTTCGA
Found at i:10939145 original size:27 final size:27
Alignment explanation
Indices: 10938876--10939133 Score: 313
Period size: 27 Copynumber: 9.6 Consensus size: 27
10938866 AACAGTCATT
* ** *
10938876 CCTATAAGGGTATTTTTGTCATTTTAT
1 CCTATAGGGGTATTTCGGTCATTTTAC
* * * *
10938903 CTTATTGGGGTATTTTGGTCATTCTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
10938930 CCTAT-GGGGTATTTCGGTCATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
*
10938956 CCTATAGGGGTATTTCGATCATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
* * *
10938983 CATATAAGGGTATTTTGGTCATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
* * *
10939010 CTTATAGGGGTATTTCAGTCATTTTAT
1 CCTATAGGGGTATTTCGGTCATTTTAC
* *
10939037 CCTATGGGGGTATTTCGATCATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
* *
10939064 CTTATAGGGGTATTTCGGTTATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
*
10939091 CCTATAGGGGTATTTTGGTCATTTTAC
1 CCTATAGGGGTATTTCGGTCATTTTAC
10939118 CCTAT-GGGAGTATTTC
1 CCTATAGGG-GTATTTC
10939134 AGAAATTTTA
Statistics
Matches: 197, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 27 0.14
27 170 0.86
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.45
Consensus pattern (27 bp):
CCTATAGGGGTATTTCGGTCATTTTAC
Found at i:10939399 original size:18 final size:18
Alignment explanation
Indices: 10939376--10939430 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
10939366 ATCCGTGTGG
10939376 GGCCCAC-GAGCCCATTTT
1 GGCCCACTG-GCCCATTTT
10939394 GGCCCAACTGGCCCATTTT
1 GGCCC-ACTGGCCCATTTT
10939413 GGCCCAACGTGGCCCATT
1 GGCCC-AC-TGGCCCATT
10939431 ATAGCCAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.15
19 19 0.56
20 10 0.29
ACGTcount: A:0.16, C:0.38, G:0.24, T:0.22
Consensus pattern (18 bp):
GGCCCACTGGCCCATTTT
Found at i:10939409 original size:19 final size:20
Alignment explanation
Indices: 10939385--10939430 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
10939375 GGGCCCACGA
10939385 GCCCATTTTGGCCCAAC-TG
1 GCCCATTTTGGCCCAACGTG
10939404 GCCCATTTTGGCCCAACGTG
1 GCCCATTTTGGCCCAACGTG
10939424 GCCCATT
1 GCCCATT
10939431 ATAGCCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.15, C:0.37, G:0.22, T:0.26
Consensus pattern (20 bp):
GCCCATTTTGGCCCAACGTG
Found at i:10939438 original size:19 final size:19
Alignment explanation
Indices: 10939385--10939436 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
10939375 GGGCCCACGA
* *
10939385 GCCCATTTTGGCCCAACTG
1 GCCCATTATAGCCCAACTG
* *
10939404 GCCCATTTTGGCCCAACGTG
1 GCCCATTATAGCCCAAC-TG
10939424 GCCCATTATAGCC
1 GCCCATTATAGCC
10939437 AAAGCCCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.17, C:0.37, G:0.21, T:0.25
Consensus pattern (19 bp):
GCCCATTATAGCCCAACTG
Found at i:10941005 original size:9 final size:9
Alignment explanation
Indices: 10940979--10941012 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10940969 GATAACAGAC
10940979 AAGAAGAAA
1 AAGAAGAAA
*
10940988 AA-AATAAA
1 AAGAAGAAA
10940996 AAGAAGAAA
1 AAGAAGAAA
10941005 AAGAAGAA
1 AAGAAGAA
10941013 GAAACTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:10941479 original size:16 final size:16
Alignment explanation
Indices: 10941458--10941492 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10941448 TTAAAGTCTA
10941458 CAAATGCTAATCAAGT
1 CAAATGCTAATCAAGT
10941474 CAAATGCTAATCAAGT
1 CAAATGCTAATCAAGT
10941490 CAA
1 CAA
10941493 CCCATACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (16 bp):
CAAATGCTAATCAAGT
Found at i:10941798 original size:27 final size:28
Alignment explanation
Indices: 10941738--10941791 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
10941728 GATTTTGAAA
*
10941738 TTTTTTATATTTTTATTTTAAAGAGTTT
1 TTTTTTATATTTTTATTTTAAAGAATTT
10941766 TTTTTTA-ATTTTTA-TTTAAA-AATTT
1 TTTTTTATATTTTTATTTTAAAGAATTT
10941791 T
1 T
10941792 ATGTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 7 0.28
28 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (28 bp):
TTTTTTATATTTTTATTTTAAAGAATTT
Found at i:10942896 original size:22 final size:22
Alignment explanation
Indices: 10942856--10942904 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
10942846 AATTATTACA
*
10942856 GTTC-TTTCCTCTTCCTTCTTC
1 GTTCTTTTCCTCTTCCTTCTAC
*
10942877 GGTTCTTTTCCT-TTCTTTCTAC
1 -GTTCTTTTCCTCTTCCTTCTAC
10942899 GTTCTT
1 GTTCTT
10942905 CTTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.02, C:0.31, G:0.08, T:0.59
Consensus pattern (22 bp):
GTTCTTTTCCTCTTCCTTCTAC
Found at i:10943363 original size:63 final size:63
Alignment explanation
Indices: 10943264--10943436 Score: 231
Period size: 63 Copynumber: 2.7 Consensus size: 63
10943254 GGTTACATGG
* * * * *
10943264 GCGTGTGTCCAGGTCGTGTAACTCACTGTTTGTGAATTAAGGTCATACGGGCTAGGGACACAA
1 GCGTGTGTCCAGGCCATGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCAAGGGACACAA
*
10943327 GCGTGTGTCCAGGCCATGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCAAGGGACACAA
1 GCGTGTGTCCAGGCCATGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCAAGGGACACAA
* * * * *
10943390 GCATGTGTCTAGGCCATGTAACTTATTGTTTATGAATT-AGTGTCACA
1 GCGTGTGTCCAGGCCATGTAACTCACTGTTTGTGAATTAAG-GTCACA
10943437 TGGGCGTGTG
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 1 0.01
63 96 0.99
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (63 bp):
GCGTGTGTCCAGGCCATGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCAAGGGACACAA
Found at i:10944933 original size:22 final size:21
Alignment explanation
Indices: 10944908--10944988 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
10944898 ATATCCAAAC
10944908 TATAATAACAAAATAGTAGCAA
1 TATAATAA-AAAATAGTAGCAA
**
10944930 TATAATAGCGAAAT-GCTAGCAA
1 TATAATA-AAAAATAG-TAGCAA
* * *
10944952 CACAATGAAAAAATAGTGGCAA
1 TATAAT-AAAAAATAGTAGCAA
* *
10944974 AATAGTAAAAAATAG
1 TATAATAAAAAATAG
10944989 CAACAATTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
21 10 0.22
22 33 0.73
23 2 0.04
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (21 bp):
TATAATAAAAAATAGTAGCAA
Found at i:10945391 original size:27 final size:28
Alignment explanation
Indices: 10945306--10945396 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 28
10945296 ATTGTTTTTA
*
10945306 TTTTAAAATTTTTAGCTTTTAAAATTAT
1 TTTTAAAATTTTTAACTTTTAAAATTAT
* * * * **
10945334 TTCTGAAATATAT-A-TTGTTATTATTAT
1 TTTTAAAATTTTTAACTT-TTAAAATTAT
10945361 TTTTAAAATTTTTAACTTTTAAAATTAT
1 TTTTAAAATTTTTAACTTTTAAAATTAT
10945389 TTTTAAAA
1 TTTTAAAA
10945397 ATCTCTAACG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
26 2 0.04
27 17 0.36
28 26 0.55
29 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTTAAAATTTTTAACTTTTAAAATTAT
Found at i:10948392 original size:26 final size:25
Alignment explanation
Indices: 10948347--10948419 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
10948337 TTTCTCATCC
10948347 CTATTTTACCTTGGCAAAATTTAGA
1 CTATTTTACCTTGGCAAAATTTAGA
* * *
10948372 CTATTTTACTTTTGGTAAAATTTTGA
1 CTATTTTAC-CTTGGCAAAATTTAGA
* * * *
10948398 CGATTTTTCCCTGGTAAAATTT
1 CTATTTTACCTTGGCAAAATTT
10948420 TGAGAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 20 0.50
26 20 0.50
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (25 bp):
CTATTTTACCTTGGCAAAATTTAGA
Found at i:10952932 original size:101 final size:103
Alignment explanation
Indices: 10952782--10953017 Score: 347
Period size: 103 Copynumber: 2.3 Consensus size: 103
10952772 TGATTCGGGA
*
10952782 AATCAACACTTAGCAA-CCCCTTTCACATTCAAAGATACGGTGGAATCAG-CTTAGAAACCACCA
1 AATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAGACTTAGAAACCACCA
* *
10952845 ATGATTC-GGGAAATCAGCACTTAGCAACCCTTTGGGGG
66 ATGATTCAGAG-AATCAGCACTTAGCAACCCCTTGGGGG
* * *
10952883 AATCAGCACTTAGCAACCCCCTTTCACATT-TAAGGTACGGTGGAATCAGCACTTAGCAACCACC
1 AATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAG-ACTTAGAAACCACC
*
10952947 AATGATTCAGAGAATCATCACTTAGCAACCCCTTGGGGG
65 AATGATTCAGAGAATCAGCACTTAGCAACCCCTTGGGGG
*
10952986 AATCAGCACTTAGCAACCCCCTTT-ATATTCAA
1 AATCAGCACTTAGCAACCCCCTTTCACATTCAA
10953018 TGTATTCCGA
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
101 32 0.26
102 17 0.14
103 70 0.58
104 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (103 bp):
AATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAGACTTAGAAACCACCA
ATGATTCAGAGAATCAGCACTTAGCAACCCCTTGGGGG
Found at i:10962465 original size:16 final size:16
Alignment explanation
Indices: 10962444--10962474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10962434 TATATTATTT
*
10962444 GATATTTTATTATTAA
1 GATATTGTATTATTAA
10962460 GATATTGTATTATTA
1 GATATTGTATTATTA
10962475 TTTTATTTCG
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:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
GATATTGTATTATTAA
Found at i:10963946 original size:22 final size:22
Alignment explanation
Indices: 10963921--10963962 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10963911 TTTATGTTTT
*
10963921 ATATAT-ATTATTTTATTATATA
1 ATATATCA-TATTATATTATATA
10963943 ATATATCATATTATATTATA
1 ATATATCATATTATATTATA
10963963 NNNNNNNNNN
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATCATATTATATTATATA
Found at i:10971583 original size:5 final size:5
Alignment explanation
Indices: 10971555--10971614 Score: 79
Period size: 5 Copynumber: 12.2 Consensus size: 5
10971545 TTTTTATGTT
* *
10971555 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTGTA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
10971604 TTATA TTATA T
1 TTATA TTATA T
10971615 AAGTAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 5 0.10
5 43 0.88
6 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:10972448 original size:3 final size:3
Alignment explanation
Indices: 10972440--10972504 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
10972430 AATAAAAAAT
* * * * *
10972440 TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTA TTA TTA TTG TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10972488 TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
10972505 TTTAATGATT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10972470 original size:27 final size:27
Alignment explanation
Indices: 10972440--10972504 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
10972430 AATAAAAAAT
10972440 TTATTATTATTATTGTTAATATAATTA
1 TTATTATTATTATTGTTAATATAATTA
10972467 TTATTATTATTATTGTTAATATAATTA
1 TTATTATTATTATTGTTAATATAATTA
10972494 TTATTATTATT
1 TTATTATTATT
10972505 TTTAATGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTATTATTGTTAATATAATTA
Found at i:10979739 original size:12 final size:12
Alignment explanation
Indices: 10979722--10979747 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10979712 CCTAAAACTC
10979722 TTAGGCCCTATT
1 TTAGGCCCTATT
10979734 TTAGGCCCTATT
1 TTAGGCCCTATT
10979746 TT
1 TT
10979748 GGAGTGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (12 bp):
TTAGGCCCTATT
Found at i:10981104 original size:28 final size:28
Alignment explanation
Indices: 10981064--10981120 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10981054 GTGATAGTAG
10981064 ATCGTTTGACGAAGTCAACATATTTCTT
1 ATCGTTTGACGAAGTCAACATATTTCTT
10981092 ATCGTTTGACGAAGTCAACATATTTCTT
1 ATCGTTTGACGAAGTCAACATATTTCTT
10981120 A
1 A
10981121 CCTATCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (28 bp):
ATCGTTTGACGAAGTCAACATATTTCTT
Found at i:10981829 original size:36 final size:36
Alignment explanation
Indices: 10981788--10981862 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
10981778 ATACCACCTC
* *
10981788 AACATCGAGATGTGAAACACATCGTGGATACGGTCT
1 AACATCGAGACGTAAAACACATCGTGGATACGGTCT
10981824 AACATCGAGACGTAAAACACATCGTGGATACGGTCT
1 AACATCGAGACGTAAAACACATCGTGGATACGGTCT
10981860 AAC
1 AAC
10981863 TCTGGATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (36 bp):
AACATCGAGACGTAAAACACATCGTGGATACGGTCT
Found at i:10986642 original size:11 final size:11
Alignment explanation
Indices: 10986626--10986650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10986616 AGTATTAAGC
10986626 TACTACAACCA
1 TACTACAACCA
10986637 TACTACAACCA
1 TACTACAACCA
10986648 TAC
1 TAC
10986651 ACGTGTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (11 bp):
TACTACAACCA
Found at i:10991216 original size:23 final size:23
Alignment explanation
Indices: 10991189--10991234 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10991179 TCATAAAAAT
*
10991189 TGTTCATGAATATATTCGTTTAA
1 TGTTCACGAATATATTCGTTTAA
* *
10991212 TGTTCACGAATATCTTTGTTTAA
1 TGTTCACGAATATATTCGTTTAA
10991235 CTTAAACACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (23 bp):
TGTTCACGAATATATTCGTTTAA
Found at i:10991750 original size:17 final size:17
Alignment explanation
Indices: 10991728--10991763 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10991718 TTTTAGGAAT
10991728 GTCTTAGCTCGAAAAAA
1 GTCTTAGCTCGAAAAAA
10991745 GTCTTAGCTCGAAAAAA
1 GTCTTAGCTCGAAAAAA
10991762 GT
1 GT
10991764 TTTAATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (17 bp):
GTCTTAGCTCGAAAAAA
Found at i:10992556 original size:24 final size:24
Alignment explanation
Indices: 10992503--10992556 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
10992493 ATGTTTTACA
*
10992503 AATTTATAAATTTTTTAAAAAAAT
1 AATTTTTAAATTTTTTAAAAAAAT
*
10992527 AATTTTTAAA-TTTTTAAAAAATT
1 AATTTTTAAATTTTTTAAAAAAAT
*
10992550 AAGTTTT
1 AATTTTT
10992557 GAAACGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTAAATTTTTTAAAAAAAT
Found at i:10994472 original size:20 final size:18
Alignment explanation
Indices: 10994447--10994486 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
10994437 TTAAATGTAT
*
10994447 AAATTTGTAAAACATTATTA
1 AAATTTATAAAA-A-TATTA
10994467 AAATTTATAAAAATATTA
1 AAATTTATAAAAATATTA
10994485 AA
1 AA
10994487 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATTTATAAAAATATTA
Found at i:10994484 original size:21 final size:22
Alignment explanation
Indices: 10994465--10994517 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 22
10994455 AAAACATTAT
10994465 TAAAATTTATAAAAATATTAAA
1 TAAAATTTATAAAAATATTAAA
10994487 TAAAA-TTA-AAAAA-A-TAAA
1 TAAAATTTATAAAAATATTAAA
*
10994505 -AAAATTAATAAAA
1 TAAAATTTATAAAA
10994518 TCATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 5 0.18
20 5 0.18
21 3 0.11
22 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATTTATAAAAATATTAAA
Found at i:10994494 original size:10 final size:9
Alignment explanation
Indices: 10994474--10994518 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
10994464 TTAAAATTTA
*
10994474 TAAAAATAT
1 TAAAAAAAT
10994483 TAAATAAAAT
1 TAAA-AAAAT
10994493 TAAAAAAA-
1 TAAAAAAAT
10994501 TAAAAAAAT
1 TAAAAAAAT
*
10994510 TAATAAAAT
1 TAAAAAAAT
10994519 CATTTAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
10 8 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:10994510 original size:17 final size:18
Alignment explanation
Indices: 10994483--10994518 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10994473 ATAAAAATAT
10994483 TAAATAAAATTAAAAAAA
1 TAAATAAAATTAAAAAAA
*
10994501 TAAA-AAAATTAATAAAA
1 TAAATAAAATTAAAAAAA
10994518 T
1 T
10994519 CATTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATAAAATTAAAAAAA
Found at i:10999585 original size:17 final size:17
Alignment explanation
Indices: 10999563--10999597 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10999553 TCAAAAATAA
10999563 AATCCAAAACCAAAAAC
1 AATCCAAAACCAAAAAC
10999580 AATCCAAAACCAAAAAC
1 AATCCAAAACCAAAAAC
10999597 A
1 A
10999598 GTCCTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (17 bp):
AATCCAAAACCAAAAAC
Found at i:11009315 original size:16 final size:16
Alignment explanation
Indices: 11009294--11009329 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11009284 TTCAACTGAT
*
11009294 TATTCAATGATTTCCA
1 TATTCAATGATTTCAA
11009310 TATTCAATGATTTCAA
1 TATTCAATGATTTCAA
11009326 TATT
1 TATT
11009330 TAACTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (16 bp):
TATTCAATGATTTCAA
Done.