Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold98
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: 1546936
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 3 of 13
Found at i:266501 original size:16 final size:16
Alignment explanation
Indices: 266480--266514 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
266470 ACACATATCT
266480 GATTTTGGAGTTGGAA
1 GATTTTGGAGTTGGAA
*
266496 GATTTTGGAGTTGGGA
1 GATTTTGGAGTTGGAA
266512 GAT
1 GAT
266515 CACCTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (16 bp):
GATTTTGGAGTTGGAA
Found at i:267581 original size:25 final size:25
Alignment explanation
Indices: 267539--267586 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
267529 TAATTAAAAT
* *
267539 AATATATTATATAAAAATTAATACG
1 AATATAATATATAAAAATAAATACG
267564 AATATAATATA-AATAAATAAATA
1 AATATAATATATAA-AAATAAATA
267587 TGTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AATATAATATATAAAAATAAATACG
Found at i:270555 original size:73 final size:73
Alignment explanation
Indices: 270458--270595 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 73
270448 TTATAAAATA
* * *
270458 AATTTCATTTACCAAAATTTTTCAATAGAATTAAAATTCTTATTTATAAGTGTGATAAATCTTAT
1 AATTTCATTTACCAAAATCTTTCAATAGAATTAAAATTCTTATTAATAAGTATGATAAATCTTAT
270523 TTTCTAAT
66 TTTCTAAT
* * * *
270531 AATTTCATTTGATC-AAATCTTTCAATATAATTAAAATTTTTATTAATAATTATGATAAATCTTA
1 AATTTCATTT-ACCAAAATCTTTCAATAGAATTAAAATTCTTATTAATAAGTATGATAAATCTTA
270595 T
65 T
270596 ATTAAGAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 55 0.96
74 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (73 bp):
AATTTCATTTACCAAAATCTTTCAATAGAATTAAAATTCTTATTAATAAGTATGATAAATCTTAT
TTTCTAAT
Found at i:270718 original size:2 final size:2
Alignment explanation
Indices: 270706--270745 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
270696 GATATAGCTA
*
270706 AT AT A- AT AT AT AT -T AT AG AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
270745 A
1 A
270746 AATGGAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:270727 original size:16 final size:17
Alignment explanation
Indices: 270708--270739 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
270698 TATAGCTAAT
270708 ATAATATATAT-TATAG
1 ATAATATATATATATAG
270724 ATAATATATATATATA
1 ATAATATATATATATA
270740 TATATAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAATATATATATATAG
Found at i:270905 original size:18 final size:18
Alignment explanation
Indices: 270884--270932 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
270874 ATTTTTATAT
270884 AAATTTATTTAATTGATA
1 AAATTTATTTAATTGATA
* *
270902 AAATTTATCTAATTTATA
1 AAATTTATTTAATTGATA
*
270920 AAA-ATATTTAATT
1 AAATTTATTTAATT
270933 CAATATAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
AAATTTATTTAATTGATA
Found at i:271038 original size:18 final size:19
Alignment explanation
Indices: 271002--271036 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
270992 TTTAATTAGT
271002 ATATATAATTATATATTTA
1 ATATATAATTATATATTTA
271021 ATAT-TAATTAT-TATTT
1 ATATATAATTATATATTT
271037 TATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATATAATTATATATTTA
Found at i:279086 original size:22 final size:25
Alignment explanation
Indices: 279058--279105 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
279048 TTTTGATTTG
279058 AATTTAAA-A-AATTTGA-TTAATT
1 AATTTAAATAGAATTTGATTTAATT
279080 AATTTAAATATGAATTTGATTTAATT
1 AATTTAAATA-GAATTTGATTTAATT
279106 CAAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
25 7 0.32
26 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
AATTTAAATAGAATTTGATTTAATT
Found at i:279200 original size:16 final size:16
Alignment explanation
Indices: 279141--279242 Score: 96
Period size: 16 Copynumber: 6.3 Consensus size: 16
279131 CAAAATTGAT
*
279141 TAATTTGAATTCAAAAA
1 TAATTTGAATT-TAAAA
* *
279158 TAATTTAAATTCAAAA
1 TAATTTGAATTTAAAA
*
279174 TAATTTAAATTTAAAA
1 TAATTTGAATTTAAAA
* *
279190 TAATTCGAATTTTAAA
1 TAATTTGAATTTAAAA
*
279206 TTATTTGAATTTAAAA
1 TAATTTGAATTTAAAA
* * * *
279222 TGATTCGAATCTGAAA
1 TAATTTGAATTTAAAA
279238 TAATT
1 TAATT
279243 AAAATAATTA
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
16 61 0.86
17 10 0.14
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATTTGAATTTAAAA
Found at i:280074 original size:16 final size:17
Alignment explanation
Indices: 280054--280095 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
280044 ACTCAAACCT
280054 AAAATAATTCGAACTTG
1 AAAATAATTCGAACTTG
*
280071 -AAATGATTCGAACTTG
1 AAAATAATTCGAACTTG
280087 AAAATAATT
1 AAAATAATT
280096 AAAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
AAAATAATTCGAACTTG
Found at i:281119 original size:5 final size:5
Alignment explanation
Indices: 281073--281109 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
281063 CCTGCTTCGG
*
281073 AGAAA AGAAA AGAAC AGAAA AGAAA AGAAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA A
281110 TAGAAGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:281955 original size:11 final size:11
Alignment explanation
Indices: 281941--281970 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
281931 TTTTAATTTA
281941 AAAATGATTAT
1 AAAATGATTAT
281952 AAAATGATTAT
1 AAAATGATTAT
*
281963 AAAGTGAT
1 AAAATGAT
281971 AGGTTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (11 bp):
AAAATGATTAT
Found at i:285705 original size:54 final size:53
Alignment explanation
Indices: 285611--285768 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 53
285601 TCATTGTTAA
* * *
285611 TGATGCCAAGGT--CG-TCAGAATTTGCTATAAGTGGCTTGGTGTCATAGATAG
1 TGATGCCAAGGTGGCGATCAGAAGTTGCTA-AAATGACTTGGTGTCATAGATAG
* *
285662 TGATGCCAAGGTGGCGATCAGAAGTTGCTAAGAATGACTTGGTGTCATAGACAA
1 TGATGCCAAGGTGGCGATCAGAAGTTGCTAA-AATGACTTGGTGTCATAGATAG
* * * **
285716 TAATGCCAAGGTGGCAATCAAAAGTTGCT-AAATGACTTATTGTCATAGATAG
1 TGATGCCAAGGTGGCGATCAGAAGTTGCTAAAATGACTTGGTGTCATAGATAG
285768 T
1 T
285769 ATGTGCGGTG
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
51 12 0.13
52 19 0.21
53 4 0.04
54 56 0.62
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (53 bp):
TGATGCCAAGGTGGCGATCAGAAGTTGCTAAAATGACTTGGTGTCATAGATAG
Found at i:287597 original size:34 final size:34
Alignment explanation
Indices: 287559--287660 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
287549 CTTTGTTAAG
287559 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
287593 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
287627 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
287661 GAATGTTAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:287659 original size:22 final size:22
Alignment explanation
Indices: 287552--287682 Score: 103
Period size: 22 Copynumber: 5.9 Consensus size: 22
287542 TTAATTTCTT
* * *
287552 TGTTAAGTGTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGAGAA
*
287574 TGTTAGGTGTGTTAGGTGATGTA
1 TGTTAGGTGTGTTAGGTGA-GAA
287597 T-TT-GGTGAGAATGTTAGGT--G--
1 TGTTAGGT--G--TGTTAGGTGAGAA
*
287617 TGTTAGGTGATGTGTTTGGTGAGAA
1 TGTTA-G-G-TGTGTTAGGTGAGAA
287642 TGTTAGGTGTGTTAGGTGAGAA
1 TGTTAGGTGTGTTAGGTGAGAA
287664 TGTTAGGTGTGTTAGGTGA
1 TGTTAGGTGTGTTAGGTGA
287683 TGTATTTGGT
Statistics
Matches: 89, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
20 1 0.01
21 12 0.13
22 52 0.58
23 8 0.09
24 2 0.02
25 14 0.16
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (22 bp):
TGTTAGGTGTGTTAGGTGAGAA
Found at i:287660 original size:56 final size:56
Alignment explanation
Indices: 287600--287711 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
287590 TGATGTATTT
*
287600 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
287656 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
287712 ACATGTATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (56 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
Found at i:292419 original size:34 final size:34
Alignment explanation
Indices: 292381--292516 Score: 263
Period size: 34 Copynumber: 4.0 Consensus size: 34
292371 CTTTGTTAAG
292381 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
292415 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
292449 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
292483 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
292517 GAATGTTAGG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 101 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:292515 original size:22 final size:22
Alignment explanation
Indices: 292483--292538 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
292473 TGTTAGGTGA
*
292483 TGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
292505 TGTGTTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
292527 TGTGTTAGGTGA
1 TGTGTTAGGTGA
292539 TGTATTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:292550 original size:68 final size:66
Alignment explanation
Indices: 292384--292567 Score: 244
Period size: 68 Copynumber: 2.9 Consensus size: 66
292374 TGTTAAGTGT
292384 ATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 ATTTGGT-AG-ATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
292449 TGT
64 TGA
*
292452 ATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA-G-G-
1 ATTTGGT-AG-ATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
292514 TG-
64 TGA
292516 A----G-A-ATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 ATTTGGTAGATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
292568 ACATGTATAT
Statistics
Matches: 114, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
56 48 0.42
58 1 0.01
60 1 0.01
64 1 0.01
65 2 0.02
66 1 0.01
67 1 0.01
68 59 0.52
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.41
Consensus pattern (66 bp):
ATTTGGTAGATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATG
A
Found at i:295813 original size:16 final size:15
Alignment explanation
Indices: 295788--295817 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
295778 GATTTGTCAA
295788 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
295803 AAAGCAAAAAAAAAA
1 AAAG-AAAAAAAAAA
295818 AACTTAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:297742 original size:3 final size:3
Alignment explanation
Indices: 297734--297784 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
297724 ATTTAGTGGA
297734 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
297782 ATT
1 ATT
297785 TTCATTTTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:302896 original size:20 final size:20
Alignment explanation
Indices: 302871--302925 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
302861 ATTTTAACTA
302871 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
302891 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
*
302911 AATGTATCGATACAT
1 GATGTATCGATACAT
302926 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:302969 original size:20 final size:20
Alignment explanation
Indices: 302940--302996 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
302930 GTAAAAAGAC
* *
302940 AAAATATATCGATACATTGA
1 AAAATGTATCGATACATTCA
302960 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTCA
* *
302980 TACATGTATCGATACAT
1 AAAATGTATCGATACAT
302997 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTCA
Found at i:304464 original size:32 final size:32
Alignment explanation
Indices: 304407--304468 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
304397 GGGTAAAAGC
* *
304407 AAAAAAAATGAGAAACACAAAAGAAACAAAAAT
1 AAAAAAAATGAAAAAAACAAAAGAAA-AAAAAT
*
304440 AAAAAAAAT-AAAAAAACAAGAGAAAAAAA
1 AAAAAAAATGAAAAAAACAAAAGAAAAAAA
304469 GAAGGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 13 0.50
33 9 0.35
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.05
Consensus pattern (32 bp):
AAAAAAAATGAAAAAAACAAAAGAAAAAAAAT
Found at i:305268 original size:61 final size:61
Alignment explanation
Indices: 305189--305751 Score: 461
Period size: 61 Copynumber: 9.0 Consensus size: 61
305179 TTTTTTTTTT
* * * *
305189 AAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTAGTGACACCTTTTAGTCCTC
1 AAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
** *
305250 AAAGAGCAGGATGTCTTTTTCCTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGTCTTC
1 AAAGAGCAGGATGTCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
* * * * *
305312 AAAAAGCATGA-CTCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA-CTTTTAAGTCCTC
1 AAAGAGCAGGATGTC-TTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTT-AGTCCTC
* * * *
305373 AAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
1 AAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
* * * ** * * * *
305434 AAATAGCAAGACACTTTCCTTTTTCTTTTAAAATCTACATAAGTTGGT-AGTACTTTTTAGTCCT
1 AAAGAGC-AG-GA-TGT-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGA-CACCTTTTAGTCCT
305498 C
61 C
* * ** ** * *
305499 AAAGAGCAGGACACTCATCTTTTCCTTTTAAAGCCCACACAAACTGAAGGCACCTTTTAGTCCTT
1 AAAGAGCAGG--A-T-GTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
* * * * *
305564 AAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
1 AAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
** * * *
305625 AAAGAGCAGGACACTCACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACTCCTTCTCAGTC
1 AAAGAGCAGG--A-TGTCTTTTT-CTTTTAAAGCCCACACAAGTTGGT-G-ACACCTT-TTAGTC
305690 CTC
59 CTC
* * ** * * *
305693 AAAGAGTAAGACAT-TTTTTCCTTTTAAAGCCCACATAAGGTGGTGACACCTCTTA-TCCT
1 AAAGAGCAGGATGTCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCT
305752 TTCAATTCTC
Statistics
Matches: 406, Mismatches: 75, Indels: 43
0.77 0.14 0.08
Matches are distributed among these distances:
60 9 0.02
61 157 0.39
62 65 0.16
63 4 0.01
64 36 0.09
65 112 0.28
66 3 0.01
67 4 0.01
68 16 0.04
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (61 bp):
AAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTC
Found at i:305581 original size:191 final size:188
Alignment explanation
Indices: 305187--305727 Score: 627
Period size: 191 Copynumber: 2.9 Consensus size: 188
305177 CCTTTTTTTT
* * * * * *
305187 TTAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTAGTGACACCTTTTAGTCCTCAA
1 TTAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
* * * * *
305252 AGAGC-AG-GA-TGT-CTTTTTCCTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGTCTTCA
66 AGAGCAAGACACT-TCCTTTTTCCTTTTAAAGCCTACATAAGTTGGTG-CACTTTTTAGTCCTCA
* * * * ** **
305313 AAAAGCATG--ACTCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACTTTTAAGTCC
129 AAGAGCAAGACACTCTTTTTCCTTTTAAAGCCCACACAAACTGAAGGCACTTTTAAGTCC
*
305371 TCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
1 TTAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
* ** *
305436 ATAGCAAGACACTTTCCTTTTT-CTTTTAAAATCTACATAAGTTGGTAGTACTTTTTAGTCCTCA
66 AGAGCAAGACAC-TTCCTTTTTCCTTTTAAAGCCTACATAAGTTGGT-GCACTTTTTAGTCCTCA
*
305500 AAGAGCAGGACACTCATCTTTTCCTTTTAAAGCCCACACAAACTGAAGGCACCTTTT-AGTCC
129 AAGAGCAAGACACTC-T-TTTTCCTTTTAAAGCCCACACAAACTGAAGGCA-CTTTTAAGTCC
*
305562 TTAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
1 TTAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
* * *
305627 AGAGCAGGACAC-TCACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACTCCTTCTCAGTCC
66 AGAGCAAGACACTTC-CTTTTTCCTTTTAAAGCCTACATAAGTTGGT-GCACT--TT-TTAGTCC
*
305691 TCAAAGAGTAAGACA-T-TTTTTCCTTTTAAAGCCCACA
126 TCAAAGAGCAAGACACTCTTTTTCCTTTTAAAGCCCACA
305728 TAAGGTGGTG
Statistics
Matches: 305, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
184 62 0.20
185 2 0.01
186 1 0.00
187 41 0.13
188 8 0.03
189 6 0.02
190 27 0.09
191 131 0.43
192 5 0.02
193 3 0.01
194 19 0.06
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (188 bp):
TTAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
AGAGCAAGACACTTCCTTTTTCCTTTTAAAGCCTACATAAGTTGGTGCACTTTTTAGTCCTCAAA
GAGCAAGACACTCTTTTTCCTTTTAAAGCCCACACAAACTGAAGGCACTTTTAAGTCC
Found at i:305582 original size:126 final size:124
Alignment explanation
Indices: 305166--305737 Score: 559
Period size: 126 Copynumber: 4.6 Consensus size: 124
305156 GTTCAATTCG
* ** * * * *
305166 AGTTGGTGGCACCTTTT-TTTTTTAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTT
1 AGTTGGTGGCACCTTTTAGTCCTTAAAAAGCAAGACTCCTTTTTCTTTTAAAGCCCACACAAGTT
* * * ** * **
305230 AGTGACACCTTTTAGTCCTCAAAGAGCAGGA-TGTCTTTTTCCTTTTAAAGCCCACATG
66 GGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTCCTTTTCCTTTTAAAGCCCACACA
* * * *
305288 AGTTGGTGACACCTTTTAGT-CTTCAAAAAGCATGACTCTTTTTTCTTTTAAAGCCCACACGAGT
1 AGTTGGTGGCACCTTTTAGTCCTT-AAAAAGCAAGACTCCTTTTTCTTTTAAAGCCCACACAAGT
* *
305352 TGGTGGCACTTTTAAGTCCTCAAAGAGCA--AGA-TGCCTTTTCCTTTTAAAGCCCACACA
65 TGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACT-CCTTTTCCTTTTAAAGCCCACACA
* * ** * *
305410 AGTTGGTGGCACCTTTTAGTCCTCAAATAGCAAGACACTTTCCTTTTTCTTTTAAAATCTACATA
1 AGTTGGTGGCACCTTTTAGTCCTTAAAAAGCAAG--AC--TCCTTTTTCTTTTAAAGCCCACACA
* *
305475 AGTTGGTAGTACTTTTTAGTCCTCAAAGAGCAGGACACTCATCTTTTCCTTTTAAAGCCCACACA
62 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTC--CTTTTCCTTTTAAAGCCCACACA
** ** * *
305540 AACTGAAGGCACCTTTTAGTCCTTAAAGAGCAAGA-TGCCTTTTCCTTTTAAAGCCCACACAAGT
1 AGTTGGTGGCACCTTTTAGTCCTTAAAAAGCAAGACT-CCTTTTTCTTTTAAAGCCCACACAAGT
*
305604 TGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTCACTTTTTCCTTTTAAAGCCTACACA
65 TGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTC-C-TTTTCCTTTTAAAGCCCACACA
* * * * *
305666 AGTTGGTGGCACTCCTTCTCAGTCCTCAAAGAGTAAGACAT--TTTTTCCTTTTAAAGCCCACAT
1 AGTTGGTGGCA--CCTT-TTAGTCCTTAAAAAGCAAGAC-TCCTTTTT-CTTTTAAAGCCCACAC
*
305729 AAGGTGGTG
61 AAGTTGGTG
305738 ACACCTCTTA
Statistics
Matches: 374, Mismatches: 54, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
121 2 0.01
122 66 0.18
123 64 0.17
124 2 0.01
125 2 0.01
126 133 0.36
128 12 0.03
129 41 0.11
130 51 0.14
131 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (124 bp):
AGTTGGTGGCACCTTTTAGTCCTTAAAAAGCAAGACTCCTTTTTCTTTTAAAGCCCACACAAGTT
GGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTCCTTTTCCTTTTAAAGCCCACACA
Found at i:305790 original size:69 final size:68
Alignment explanation
Indices: 305640--305927 Score: 250
Period size: 69 Copynumber: 4.3 Consensus size: 68
305630 GCAGGACACT
* * * * * *
305640 CACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA-CTCCT-T-C--TCAGTCCTCAAAGAGT
1 CACTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTCTTATCCTTTCA-TTCTCAAAGAGC
305700 AAGA
65 AAGA
* * * * *
305704 CATTTTTTCCTTTTAAAGCCCACATAAGGTGGTGACACCTCTTATCCTTTCAATTCTCAAAGAGC
1 CACTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTCTTATCCTTTC-ATTCTCAAAGAGC
*
305769 ATGA
65 AAGA
* * *
305773 CACTTTTTCTTTTTAAAG-CCACACGAGCTGGTGGCACAT-TTATCCTTTCAGTCATCAAAGAGC
1 CACTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTCTTATCCTTTCATTC-TCAAAGAGC
*
305836 AAAA
65 AAGA
** * * * *
305840 TGCTTTTTCTTTTTAAAGCCTAGACAAGCTGGCGGCATCTCTTATCCTTTCATTCCTCAAAGAG-
1 CACTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTCTTATCCTTTCATT-CTCAAAGAGC
*
305904 AATGG
65 AA-GA
**
305909 CGTTTTTTCTTTTTAAAGC
1 CACTTTTTCTTTTTAAAGC
305928 TTGCACGAGC
Statistics
Matches: 181, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
64 32 0.18
65 4 0.02
66 4 0.02
67 38 0.21
68 33 0.18
69 68 0.38
70 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (68 bp):
CACTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTCTTATCCTTTCATTCTCAAAGAGCA
AGA
Found at i:305856 original size:136 final size:134
Alignment explanation
Indices: 305640--305957 Score: 324
Period size: 136 Copynumber: 2.3 Consensus size: 134
305630 GCAGGACACT
* * * * *
305640 CACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCAC---TCCTTCTCAGTCCTCAAAGAGTAA
1 CACTTTTTCTTTTTAAAGCC-ACACGAGCTGGTGGCACTTTTCCTT-TCAGTCATCAAAGAGCAA
* * *
305702 GACATTTTTTCCTTTTAAAGCCCACATAAGGTGGTGACACCTCTTATCCTTTCAATT-CTCAAAG
64 GACATTTTTTCCTTTTAAAGCCCACACAAGCTGGCGACACCTCTTATCCTTTC-ATTCCTCAAAG
*
305766 AGCATGA
128 AGAATGA
305773 CACTTTTTCTTTTTAAAGCCACACGAGCTGGTGGCACATTTATCCTTTCAGTCATCAAAGAGCAA
1 CACTTTTTCTTTTTAAAGCCACACGAGCTGGTGGCAC-TTT-TCCTTTCAGTCATCAAAGAGCAA
* * * * *
305838 -A-ATGCTTTTTCTTTTTAAAGCCTAGACAAGCTGGCGGCATCTCTTATCCTTTCATTCCTCAAA
64 GACAT--TTTTTCCTTTTAAAGCCCACACAAGCTGGCGACACCTCTTATCCTTTCATTCCTCAAA
*
305901 GAGAATGG
127 GAGAATGA
** ** *
305909 CGTTTTTTCTTTTTAAAGCTTGCACGAGCTGGCGGCACCTTTTTCCTTT
1 CACTTTTTCTTTTTAAAGC-CACACGAGCTGGTGGCA-C-TTTTCCTTT
305958 TGAAGCATAA
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
132 15 0.10
133 19 0.12
134 2 0.01
135 4 0.03
136 85 0.55
137 25 0.16
138 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (134 bp):
CACTTTTTCTTTTTAAAGCCACACGAGCTGGTGGCACTTTTCCTTTCAGTCATCAAAGAGCAAGA
CATTTTTTCCTTTTAAAGCCCACACAAGCTGGCGACACCTCTTATCCTTTCATTCCTCAAAGAGA
ATGA
Found at i:307648 original size:37 final size:37
Alignment explanation
Indices: 307598--307672 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
307588 GGCTGGGTCA
307598 CGCAATGTTGTTGGAAAGATACGACACCACACCACGT
1 CGCAATGTTGTTGGAAAGATACGACACCACACCACGT
307635 CGCAATGTTGTTGGAAAGATACGACACCACACCACGT
1 CGCAATGTTGTTGGAAAGATACGACACCACACCACGT
307672 C
1 C
307673 TGGAATGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (37 bp):
CGCAATGTTGTTGGAAAGATACGACACCACACCACGT
Found at i:309289 original size:3 final size:3
Alignment explanation
Indices: 309281--309311 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
309271 AAAACCATCT
309281 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
309312 TACAATTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:309547 original size:14 final size:15
Alignment explanation
Indices: 309528--309556 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
309518 ACTTTTATAT
309528 AAAAAA-TATAAATA
1 AAAAAATTATAAATA
309542 AAAAAATTATAAATA
1 AAAAAATTATAAATA
309557 TTAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATTATAAATA
Found at i:312737 original size:4 final size:4
Alignment explanation
Indices: 312730--312756 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
312720 ATTTAAAAAA
312730 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
312757 AATGAGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:312871 original size:17 final size:18
Alignment explanation
Indices: 312838--312876 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
312828 AAACTTTGAT
*
312838 TATTAAATAGTAAAAAAA
1 TATTAAAAAGTAAAAAAA
312856 TATTAAAAAG-AAAAAAA
1 TATTAAAAAGTAAAAAAA
312873 TATT
1 TATT
312877 GACTTAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
TATTAAAAAGTAAAAAAA
Found at i:315155 original size:17 final size:18
Alignment explanation
Indices: 315118--315155 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
315108 TCCAGTTCGG
**
315118 TTTGGTTTTTTTTTTTGT
1 TTTGGTTTTTTTTTTCAT
315136 TTTGG-TTTTTTTTTCAT
1 TTTGGTTTTTTTTTTCAT
315153 TTT
1 TTT
315156 TTTCAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.82
Consensus pattern (18 bp):
TTTGGTTTTTTTTTTCAT
Found at i:316210 original size:20 final size:19
Alignment explanation
Indices: 316187--316286 Score: 89
Period size: 20 Copynumber: 5.7 Consensus size: 19
316177 CACACCCAGA
316187 TGTATCGATACATTATGTTT
1 TGTATCGATACATTATG-TT
316207 TGTATCGATAC---A---T
1 TGTATCGATACATTATGTT
316220 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATG-TT
316240 TGTATCGATAC---A---T
1 TGTATCGATACATTATGTT
316253 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATG-TT
316273 TGTATCGATACATT
1 TGTATCGATACATT
316287 GTATCAATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 24 0.36
16 2 0.03
17 2 0.03
20 38 0.58
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATTATGTT
Found at i:316229 original size:33 final size:33
Alignment explanation
Indices: 316187--316317 Score: 201
Period size: 33 Copynumber: 4.0 Consensus size: 33
316177 CACACCCAGA
*
316187 TGTATCGATACATTATGTTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
316220 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
316253 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* * * * *
316286 TGTATCAATATA-TATTCATTGTATCAATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
316318 GGACAATTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 17 0.18
33 75 0.82
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:316291 original size:13 final size:13
Alignment explanation
Indices: 316206--316266 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
316196 ACATTATGTT
316206 TTGTATCGATACA
1 TTGTATCGATACA
316219 TTGTATCGATACA
1 TTGTATCGATACA
*
316232 -T-TAT-G---CT
1 TTGTATCGATACA
316239 TTGTATCGATACA
1 TTGTATCGATACA
316252 TTGTATCGATACA
1 TTGTATCGATACA
316265 TT
1 TT
316267 ATGCTTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 29 0.73
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:318674 original size:20 final size:21
Alignment explanation
Indices: 318633--318674 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
318623 TATTAAAAAG
*
318633 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
318654 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
318674 T
1 T
318675 ACGCATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 10 0.53
21 8 0.42
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:324955 original size:33 final size:32
Alignment explanation
Indices: 324913--324977 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
324903 CACACCCAGA
*
324913 TGTATTGATACAT-TATGCTTTGTATCGATACAT
1 TGTATTGATACATGT-T-CATTGTATCGATACAT
324946 TGTATTGATACATGTTCATTGTATCGATACAT
1 TGTATTGATACATGTTCATTGTATCGATACAT
324978 GGACAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (32 bp):
TGTATTGATACATGTTCATTGTATCGATACAT
Found at i:324988 original size:20 final size:19
Alignment explanation
Indices: 324942--324998 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
324932 TTGTATCGAT
* *
324942 ACATTGTATTGATACATGT
1 ACATTGTATCGATACATGG
*
324961 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
324980 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
324999 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:325953 original size:31 final size:31
Alignment explanation
Indices: 325918--325978 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
325908 TTGACTGGCG
* *
325918 ATTGGTGATTA-AGAAATTCAATTTGGATTTA
1 ATTGGTGACTAGAG-AATTCAATTTAGATTTA
*
325949 ATTGGTGGCTAGAGAATTCAATTTAGATTT
1 ATTGGTGACTAGAGAATTCAATTTAGATTT
325979 GACTGGTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (31 bp):
ATTGGTGACTAGAGAATTCAATTTAGATTTA
Found at i:325998 original size:31 final size:30
Alignment explanation
Indices: 325929--325998 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
325919 TTGGTGATTA
* *
325929 AGAAATTCAATTTGGATTTAATTGGTGGCT
1 AGAAATTCAATTTAGATTTAACTGGTGGCT
*
325959 AGAGAATTCAATTTAGATTTGACTGGTGGCT
1 AGA-AATTCAATTTAGATTTAACTGGTGGCT
325990 AGGAAATTC
1 A-GAAATTC
325999 TAAATTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 3 0.09
31 30 0.86
32 2 0.06
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (30 bp):
AGAAATTCAATTTAGATTTAACTGGTGGCT
Found at i:326712 original size:31 final size:31
Alignment explanation
Indices: 326671--326740 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
326661 TTGATTTGGA
* *
326671 AATTTCCTAACCGCCAGCCAAATCTAAATTG
1 AATTTGCTAACCGCCAGCCAAATCCAAATTG
* * *
326702 AATTTGCTAACTGCTAGCCAAATCCAATTTG
1 AATTTGCTAACCGCCAGCCAAATCCAAATTG
326733 AATTTGCT
1 AATTTGCT
326741 GGCGGCTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (31 bp):
AATTTGCTAACCGCCAGCCAAATCCAAATTG
Found at i:326749 original size:31 final size:31
Alignment explanation
Indices: 326671--326759 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
326661 TTGATTTGGA
* * * * *
326671 AATTTCCTAACCGCCAGCCAAATCTAAATTG
1 AATTTGCTAACGGCTAGCCAAATCCAATTTG
*
326702 AATTTGCTAACTGCTAGCCAAATCCAATTTG
1 AATTTGCTAACGGCTAGCCAAATCCAATTTG
** *
326733 AATTTGCTGGCGGCTAG-CAAATTCAAT
1 AATTTGCTAACGGCTAGCCAAATCCAAT
326760 ATTTTGGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 9 0.18
31 40 0.82
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (31 bp):
AATTTGCTAACGGCTAGCCAAATCCAATTTG
Found at i:327640 original size:33 final size:33
Alignment explanation
Indices: 327602--327668 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
327592 GTTACAAGCT
327602 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTATAC--CATGTATCGATACA
327635 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
327668 A
1 A
327669 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:327653 original size:20 final size:20
Alignment explanation
Indices: 327630--327667 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
327620 TCATGTATCG
327630 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
327650 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
327668 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:327666 original size:13 final size:13
Alignment explanation
Indices: 327622--327647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
327612 ACATTTCTTC
327622 ATGTATCGATACA
1 ATGTATCGATACA
327635 ATGTATCGATACA
1 ATGTATCGATACA
327648 TTATACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:327742 original size:19 final size:20
Alignment explanation
Indices: 327718--327770 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
327708 TCAATTTGTC
* *
327718 CATGTATCGATATAATG-AA
1 CATGTATCGATACAAAGCAA
*
327737 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAGCAA
327757 CATGTATCGATACA
1 CATGTATCGATACA
327771 TTTGGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:328351 original size:22 final size:18
Alignment explanation
Indices: 328303--328355 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
328293 CTTTAAAAAA
328303 TTCTCCCCCTTAAACGAT
1 TTCTCCCCCTTAAACGAT
328321 TATCTCCCCCTTAAACAGTTAT
1 T-TCTCCCCCTTAAAC-G--AT
328343 CTTCTCCCCCTTA
1 -TTCTCCCCCTTA
328356 TGTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 1 0.03
22 13 0.43
23 1 0.03
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (18 bp):
TTCTCCCCCTTAAACGAT
Found at i:329685 original size:13 final size:13
Alignment explanation
Indices: 329667--329699 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
329657 GTCGTTGGGC
329667 ACAATGTATCGAT
1 ACAATGTATCGAT
329680 ACAATGTATCGAT
1 ACAATGTATCGAT
329693 ACAATGT
1 ACAATGT
329700 CCCATGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:330415 original size:22 final size:23
Alignment explanation
Indices: 330388--330434 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
330378 TTTGTTTAAA
330388 AACAAA-TTTTACTAAGAGGTTT
1 AACAAATTTTTACTAAGAGGTTT
330410 AACAAATTTTTACTAAGAGGTTT
1 AACAAATTTTTACTAAGAGGTTT
330433 AA
1 AA
330435 GGTAGATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (23 bp):
AACAAATTTTTACTAAGAGGTTT
Found at i:330511 original size:20 final size:19
Alignment explanation
Indices: 330473--330511 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
330463 TAAAAAACGT
*
330473 TTTCTCCCTCTTAATAAAA
1 TTTCTCCCTCTTAAAAAAA
*
330492 TTTCTTCCCTTTTAAAAAAA
1 TTTC-TCCCTCTTAAAAAAA
330512 ATATCTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTCTCCCTCTTAAAAAAA
Found at i:335023 original size:28 final size:27
Alignment explanation
Indices: 334992--335090 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
334982 AAAATCAGGA
334992 TTGGAGTATCCCTTCGAAAATAACGGGG
1 TTGGAGTATCCC-TCGAAAATAACGGGG
* *
335020 TTGGAGTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTAT-CCCTCGAAAATAACGGGG
* *
335048 TTGGAGTATCCC-CGATGAGATAACGAGG
1 TTGGAGTATCCCTCGA--AAATAACGGGG
335076 TTGGAGTAT-CCTCGA
1 TTGGAGTATCCCTCGA
335091 TTGTGAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.03
27 5 0.08
28 51 0.84
29 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
TTGGAGTATCCCTCGAAAATAACGGGG
Found at i:335164 original size:52 final size:53
Alignment explanation
Indices: 335074--335197 Score: 171
Period size: 52 Copynumber: 2.4 Consensus size: 53
335064 GAGATAACGA
* ** * *
335074 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTATTTTTGAAAATAAAACCGG
* *
335126 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTA-TTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTATTTTTGAAAATAAAACCGG
335178 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
335198 TGGAGAATTG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 52 0.83
53 11 0.17
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTATTTTTGAAAATAAAACCGG
Found at i:337553 original size:20 final size:20
Alignment explanation
Indices: 337526--337580 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
337516 TAAAATTTCC
*
337526 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
337546 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
337566 AAATGTATCGATACA
1 AAATGTATCGATACA
337581 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:337624 original size:19 final size:18
Alignment explanation
Indices: 337600--337667 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
337590 CAGTAGCTAA
337600 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
337619 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
337634 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
337651 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
337668 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:337640 original size:13 final size:13
Alignment explanation
Indices: 337622--337646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337612 ACAATACTTA
337622 TGTATCGATACAT
1 TGTATCGATACAT
337635 TGTATCGATACA
1 TGTATCGATACA
337647 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:337644 original size:32 final size:32
Alignment explanation
Indices: 337603--337665 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
337593 TAGCTAATTA
*
337603 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
337635 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
337666 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:342621 original size:47 final size:47
Alignment explanation
Indices: 342546--342639 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
342536 TAGACAAATG
* *
342546 TATCAATACAATGTCTCATGTATCGATACAAACAGTGGTAGGGTAGC
1 TATCAATACAATATCCCATGTATCGATACAAACAGTGGTAGGGTAGC
* * *
342593 TATCGATACAATATCCCATGTATTGATACAAATAGTGGTAGGGTAGC
1 TATCAATACAATATCCCATGTATCGATACAAACAGTGGTAGGGTAGC
342640 AACTGCCAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (47 bp):
TATCAATACAATATCCCATGTATCGATACAAACAGTGGTAGGGTAGC
Found at i:342711 original size:13 final size:13
Alignment explanation
Indices: 342693--342717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
342683 ACCAAGATCA
342693 TGTATCGATACAG
1 TGTATCGATACAG
342706 TGTATCGATACA
1 TGTATCGATACA
342718 AAGCAATATG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:342716 original size:32 final size:32
Alignment explanation
Indices: 342673--342736 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
342663 ACAATTCGCT
*
342673 GTGTATAGATACCAAG-ATCATGTATCGATACA
1 GTGTATAGATACAAAGAAT-ATGTATCGATACA
*
342705 GTGTATCGATACAAAGCAATATGTATCGATAC
1 GTGTATAGATACAAAG-AATATGTATCGATAC
342737 TTCTGGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 12 0.43
34 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (32 bp):
GTGTATAGATACAAAGAATATGTATCGATACA
Found at i:343136 original size:21 final size:20
Alignment explanation
Indices: 343105--343143 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
343095 CGATAAATTC
343105 ACTTATGTATCAATACAATA
1 ACTTATGTATCAATACAATA
343125 ACTTATTGTATCAATACAA
1 ACTTA-TGTATCAATACAA
343144 ATTATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (20 bp):
ACTTATGTATCAATACAATA
Found at i:346592 original size:13 final size:13
Alignment explanation
Indices: 346574--346598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
346564 CATAAAATGT
346574 TGTATCGATACAA
1 TGTATCGATACAA
346587 TGTATCGATACA
1 TGTATCGATACA
346599 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:346683 original size:13 final size:13
Alignment explanation
Indices: 346665--346689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
346655 ATTACTCACA
346665 TGTATCGATACAT
1 TGTATCGATACAT
346678 TGTATCGATACA
1 TGTATCGATACA
346690 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:346826 original size:52 final size:52
Alignment explanation
Indices: 346698--346818 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
346688 CACTGATCTT
*
346698 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
346750 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
346802 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
346819 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:354114 original size:1 final size:1
Alignment explanation
Indices: 354108--354132 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
354098 AATCTTCACG
354108 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
354133 CCCCTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:355083 original size:1 final size:1
Alignment explanation
Indices: 355079--355109 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
355069 TACCTTTTTT
355079 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
355110 GTCCACGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:355179 original size:32 final size:32
Alignment explanation
Indices: 355107--355416 Score: 272
Period size: 32 Copynumber: 9.7 Consensus size: 32
355097 AAAAAAAAAA
* * * *
355107 AAAGTCCACGACTCAGTGGCAATC-TCTGC-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTTCTTT
*
355138 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
*
355170 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
* *
355202 AAAGTCCACAACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
*
355232 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
* * * *
355263 AAAGCCCACAATTCCGGGGCA-CTTTTTTCATCTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTTC-T-TT
* * * *
355297 TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
* * * * *
355329 AAAGCCCACAACTCCGTGGCACCTTCTCCTTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTC-TTT
* * *
355362 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGTCCACAACTCAGTGGCATCTTTTTC-TTT
* *
355396 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACAACTCAGTGGCA
355417 CCTACGACTT
Statistics
Matches: 244, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
30 30 0.12
31 45 0.18
32 88 0.36
33 25 0.10
34 55 0.23
35 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (32 bp):
AAAGTCCACAACTCAGTGGCATCTTTTTCTTT
Found at i:355302 original size:95 final size:94
Alignment explanation
Indices: 355107--355416 Score: 293
Period size: 95 Copynumber: 3.2 Consensus size: 94
355097 AAAAAAAAAA
*
355107 AAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAA
1 AAAGTCCACAACTCAGTGGC-ATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAA
* * *
355172 AGTCCACGACTCAGTGGCATCTTTTTCTTT
65 AGCCCACAACTCAGGGGCATCTTTTTCTTT
*
355202 AAAGTCCACAACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTTAA
1 AAAGTCCACAACTCAGTGGCATCTCTG-CTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAA
* *
355265 AGCCCACAATTCCGGGGCA-CTTTTTTCATCTT
65 AGCCCACAACTCAGGGGCATC-TTTTTC-T-TT
* * * * * * * * * * * *
355297 TAAGTCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTCCTTTT
1 AAAGTCCACAACTCAGTGGCATC-TCTGC-TCAAAGTCCACGACTCAGTGGCATCTTTTTC-TTT
* * *
355362 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
63 -AAAGCCCACAACTCAGGGGCATCTTTTTC-TTT
* *
355396 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACAACTCAGTGGCA
355417 CCTACGACTT
Statistics
Matches: 180, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
92 1 0.01
93 34 0.19
94 28 0.16
95 40 0.22
96 1 0.01
97 22 0.12
98 4 0.02
99 23 0.13
100 26 0.14
101 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (94 bp):
AAAGTCCACAACTCAGTGGCATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAA
GCCCACAACTCAGGGGCATCTTTTTCTTT
Found at i:355350 original size:66 final size:66
Alignment explanation
Indices: 355165--355417 Score: 252
Period size: 66 Copynumber: 3.9 Consensus size: 66
355155 GGCATCTTTT
* * * * * *
355165 TCTTTAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAGTCCACAACTCAGTGGCA-TTTTGT
1 TCTTTAAAGTCCACAACTCAGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTTTTCT
355229 C
66 C
* * * * * *
355230 TC---AAAGTCCACGACTCAGTGGCA-TTTTTTCTTTAAAGCCCACAATTCCGGGGCACTTTTTT
1 TCTTTAAAGTCCACAACTCAGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTTTTCT
355291 C
66 C
* *
355292 ATCTTT-AAGTCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCAC-CTTC
1 -TCTTTAAAGTCCACAACTCAGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTTTTC
355355 TC
65 TC
* * * *
355357 -CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCAC
1 TC-TTT-AAAGTCCACAACTCAGTGGCACC-TTTTCCTTTAAAGCCCACAACTCCGTGGCAC
355418 CTACGACTTT
Statistics
Matches: 161, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
61 26 0.16
62 27 0.17
63 3 0.02
64 3 0.02
65 24 0.15
66 49 0.30
67 29 0.18
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (66 bp):
TCTTTAAAGTCCACAACTCAGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTTTTCT
C
Found at i:355515 original size:88 final size:88
Alignment explanation
Indices: 355356--355593 Score: 433
Period size: 88 Copynumber: 2.7 Consensus size: 88
355346 GGCACCTTCT
* *
355356 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACCT
1 CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACCT
355420 ACGACTTTGTGGCACTCTCTTTC
66 ACGACTTTGTGGCACTCTCTTTC
355443 CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACCT
1 CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACCT
355508 ACGACTTTGTGGCACTCTCTTTC
66 ACGACTTTGTGGCACTCTCTTTC
* *
355531 CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAATTCCGTGGCAC
1 CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCAC
355594 TCTTTTTCCC
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
87 34 0.23
88 112 0.77
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (88 bp):
CCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACCT
ACGACTTTGTGGCACTCTCTTTC
Found at i:355671 original size:70 final size:70
Alignment explanation
Indices: 355516--355705 Score: 294
Period size: 70 Copynumber: 2.7 Consensus size: 70
355506 CTACGACTTT
* *
355516 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCAC
*
355581 AATTCC
65 AACTCC
*
355587 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCAC
355651 AACTCC
65 AACTCC
* *
355657 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTT
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTT
355706 TCCTTCCCAA
Statistics
Matches: 112, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
68 19 0.17
69 7 0.06
70 49 0.44
71 37 0.33
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCACA
ACTCC
Found at i:355705 original size:35 final size:35
Alignment explanation
Indices: 355516--355710 Score: 254
Period size: 35 Copynumber: 5.5 Consensus size: 35
355506 CTACGACTTT
*
355516 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCACT-TTTTTCCC-TTTTAAAGCCCACAACTCC
* * *
355553 GTGGCACCTTTTT-CCGTTTAAAGCCCACAATTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
355587 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACT-TTTTTCCCTTTT-AAAGCCCACAACTCC
355624 GTGGCACTTTTTT--CTTTTAAAGCCCACAACTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
*
355657 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCACT-TTTTTCCCTTTTAAAGCCCACAACTCC
*
355692 GTGGCATCTTTTTTTCCTT
1 GTGGCA-CTTTTTTCCCTT
355711 CCCAAAGCCC
Statistics
Matches: 142, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
33 23 0.16
34 34 0.24
35 35 0.25
36 21 0.15
37 29 0.20
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (35 bp):
GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
Found at i:355717 original size:105 final size:104
Alignment explanation
Indices: 355534--355723 Score: 292
Period size: 105 Copynumber: 1.8 Consensus size: 104
355524 CTCTTTCCCT
* *
355534 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAATTCCGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
**
355599 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
66 TTCCCTTCCCAAAGCCCACAACTCCGTGGCACTTTTTTC
* *
355638 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTC-T
*
355702 TTTTTCCTTCCCAAAGCCCACA
64 TTTTCCCTTCCCAAAGCCCACA
355724 CAAGTCGGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 28 0.36
105 49 0.64
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (104 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTCCCTTCCCAAAGCCCACAACTCCGTGGCACTTTTTTC
Found at i:355750 original size:32 final size:32
Alignment explanation
Indices: 355712--355803 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 32
355702 TTTTTCCTTC
355712 CCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
355743 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAA-CTTCTT
355777 CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCAAAGCCCACACAAGTCGGTGGCAAC
355804 CCCTCTAAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 25 0.43
34 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
Found at i:355750 original size:104 final size:102
Alignment explanation
Indices: 355537--355755 Score: 255
Period size: 105 Copynumber: 2.1 Consensus size: 102
355527 TTTCCCTTTT
* *
355537 TAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAATTCCGTGGCACTCTTTTTC
1 TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** * *
355602 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
66 CCTTCCCAAAGCCCACAACTCCGTGGCAC-TTCTTC-TC
* *
355641 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1 TAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
* * *
355705 TTCCTTCCCAAAGCCCACACAAGTCGGTGGCAAC-TCTTC-C
64 TCCCTTCCCAAAG-CC-CACAACTCCGTGGC-ACTTCTTCTC
355745 TAAAGCCCACA
1 TAAAGCCCACA
355756 CAAGTCGGTG
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
104 36 0.36
105 43 0.43
106 6 0.06
107 12 0.12
108 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (102 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTCCCAAAGCCCACAACTCCGTGGCACTTCTTCTC
Found at i:355788 original size:33 final size:32
Alignment explanation
Indices: 355712--355804 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
355702 TTTTTCCTTC
355712 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
355743 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
355777 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
355805 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:355927 original size:49 final size:49
Alignment explanation
Indices: 355816--356719 Score: 1187
Period size: 49 Copynumber: 18.5 Consensus size: 49
355806 CTCTAAGCCA
*
355816 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* * *
355868 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
355917 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
355969 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
356018 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* * *
356070 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
356119 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
356168 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
356220 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
356269 AATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
356318 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
356367 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
356416 AATATAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
356459 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
356508 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
356551 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
356600 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
356643 AATATAGCTGGCCTTGAATCGGCATATTGGCACATTTTCCATCTTTAAGTTC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCC
*
356695 AATGTAGCTGGCCTTGAATCAGCAC
1 AATATAGCTGGCCTTGAATCAGCAC
356720 GTTGACATCC
Statistics
Matches: 756, Mismatches: 66, Indels: 60
0.86 0.07 0.07
Matches are distributed among these distances:
43 116 0.15
45 3 0.00
47 2 0.00
49 428 0.57
50 8 0.01
51 6 0.01
52 193 0.26
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:355984 original size:101 final size:98
Alignment explanation
Indices: 355820--356719 Score: 1233
Period size: 101 Copynumber: 9.2 Consensus size: 98
355810 AAGCCAAATA
* *
355820 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGA
* * * *
355885 CTCAGCACATTGGCACCTTCATCTTTAAGCCCAATA
63 ATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
355921 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGA
* * *
355986 CTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
63 ATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
356022 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGA
* * *
356087 CTCAGCACATTGGCACCTCCATCTTTAAGTCCAATG
63 ATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
356123 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
356188 AGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
66 AGCATATTGGCACC--TT-CATCTTTAAGTCCAATG
* * *
356224 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
356289 AGCATATTGGCATCTTCATCTTTAAGTCCAATG
66 AGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
356322 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
* *
356387 AGCATATTGGCATCTTCATCTTTAAGTCCAATA
66 AGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
356420 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
356479 AGCATATTGGCATCTTCATCTTTAAGTCCAATG
66 AGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
356512 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
356571 AGCATATTGGCATCTTCATCTTTAAGTCCAATG
66 AGCATATTGGCACCTTCATCTTTAAGTCCAATG
356604 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
* * *
356663 GGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
66 AGCATATTGGCAC--CTT-CATCTTTAAGTCCAATG
356699 TAGCTGGCCTTGAATCAGCAC
1 TAGCTGGCCTTGAATCAGCAC
356720 GTTGACATCC
Statistics
Matches: 772, Mismatches: 21, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
92 222 0.29
94 3 0.00
95 37 0.05
98 185 0.24
99 4 0.01
100 1 0.00
101 320 0.41
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
AGCATATTGGCACCTTCATCTTTAAGTCCAATG
Found at i:356126 original size:150 final size:147
Alignment explanation
Indices: 355816--356719 Score: 1178
Period size: 150 Copynumber: 6.2 Consensus size: 147
355806 CTCTAAGCCA
* *
355816 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCC
* * *
355881 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTG
63 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
355946 GCACCTTTTCCATCTTTAAGTCC
128 GCACC---TCCATCTTTAAGTCC
* *
355969 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
* * *
356034 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
66 AATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
356099 GCACCTCCATCTTTAAGTCC
128 GCACCTCCATCTTTAAGTCC
* *
356119 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
* * *
356184 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
66 AATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
*
356249 GCACCTTCATCTTTAAGTCC
128 GCACCTCCATCTTTAAGTCC
* * * * *
356269 AATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
* * *
356334 ACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
356399 TCTTCATCTTTAAGTCC
131 CCTCCATCTTTAAGTCC
* *
356416 AATATAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
* * * *
356475 AATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
66 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
356540 ----C--CTTTAAGTCC
131 CCTCCATCTTTAAGTCC
* * * *
356551 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
* *
356616 AATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCA
66 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
356675 CATTTTCCATCTTTAAGTTC
131 C---CTCCATCTTTAAGTCC
*
356695 AATGTAGCTGGCCTTGAATCAGCAC
1 AATATAGCTGGCCTTGAATCAGCAC
356720 GTTGACATCC
Statistics
Matches: 681, Mismatches: 52, Indels: 45
0.88 0.07 0.06
Matches are distributed among these distances:
135 77 0.11
137 2 0.00
139 1 0.00
141 121 0.18
142 1 0.00
143 1 0.00
144 31 0.05
147 85 0.12
148 2 0.00
150 282 0.41
151 2 0.00
152 2 0.00
153 74 0.11
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (147 bp):
AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
CCTCCATCTTTAAGTCC
Found at i:356477 original size:92 final size:92
Alignment explanation
Indices: 356357--356719 Score: 636
Period size: 92 Copynumber: 3.9 Consensus size: 92
356347 GCACCTTCAT
*
356357 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
356422 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
356449 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
356514 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
356541 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
356606 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
356633 CTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
356698 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
356720 GTTGACATCC
Statistics
Matches: 262, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
92 220 0.84
94 5 0.02
95 37 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:357683 original size:13 final size:13
Alignment explanation
Indices: 357665--357689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
357655 CATAAAATGT
357665 TGTATCGATACAA
1 TGTATCGATACAA
357678 TGTATCGATACA
1 TGTATCGATACA
357690 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:357774 original size:13 final size:13
Alignment explanation
Indices: 357756--357780 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
357746 ATTACTCACA
357756 TGTATCGATACAT
1 TGTATCGATACAT
357769 TGTATCGATACA
1 TGTATCGATACA
357781 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:357917 original size:52 final size:52
Alignment explanation
Indices: 357789--357909 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
357779 CACTGATCTT
*
357789 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
357841 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
357893 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
357910 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:361034 original size:13 final size:13
Alignment explanation
Indices: 361016--361042 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
361006 ACATTATGCT
361016 TTGTATCGATACA
1 TTGTATCGATACA
361029 TTGTATCGATACA
1 TTGTATCGATACA
361042 T
1 T
361043 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:361149 original size:33 final size:33
Alignment explanation
Indices: 361091--361159 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
361081 CTACCACTGT
* *
361091 TTGTATCGATACATGGTACAATGTATTGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
*
361124 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
361157 TTG
1 TTG
361160 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:363389 original size:21 final size:20
Alignment explanation
Indices: 363355--363397 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
363345 TATTAAAAAG
*
363355 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
363376 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
363396 TT
1 TT
363398 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:363396 original size:20 final size:21
Alignment explanation
Indices: 363355--363397 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
363345 TATTAAAAAG
*
363355 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
363376 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
363396 TT
1 TT
363398 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:365923 original size:23 final size:23
Alignment explanation
Indices: 365896--365943 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
365886 TCCACAACCG
365896 AGGCTGAATACATATCCGTAAGA
1 AGGCTGAATACATATCCGTAAGA
365919 AGGCTGAATACATATCCGTAAGA
1 AGGCTGAATACATATCCGTAAGA
365942 AG
1 AG
365944 TTGTTGTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (23 bp):
AGGCTGAATACATATCCGTAAGA
Found at i:368581 original size:22 final size:22
Alignment explanation
Indices: 368556--368607 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
368546 TTGACAAAAA
*
368556 GGGAGAAATGCCTTGATTAAGG
1 GGGAGAAATGCCTTAATTAAGG
* *
368578 GGGAGAAATTCTTTAATTAAGG
1 GGGAGAAATGCCTTAATTAAGG
368600 GGGAGAAA
1 GGGAGAAA
368608 AATGAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.23
Consensus pattern (22 bp):
GGGAGAAATGCCTTAATTAAGG
Found at i:369290 original size:33 final size:33
Alignment explanation
Indices: 369228--369292 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
369218 CCACTGTTTA
* *
369228 TATCGATACATGGTACATTTTATCAATACATTG
1 TATCGATACATGATACATTGTATCAATACATTG
*
369261 TATCGATACATGATGA-ATTGTATCGATACATT
1 TATCGATACATGAT-ACATTGTATCAATACATT
369293 ACTTGTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (33 bp):
TATCGATACATGATACATTGTATCAATACATTG
Found at i:374420 original size:18 final size:18
Alignment explanation
Indices: 374379--374429 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
374369 TCTAATTAAG
374379 ATAAAAAATAA-TAA-TA
1 ATAAAAAATAATTAATTA
374395 A-AATAAAATAATTAATTA
1 ATAA-AAAATAATTAATTA
374413 ATAAAAAATAATTAATT
1 ATAAAAAATAATTAATT
374430 TTATATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 3 0.10
18 16 0.52
19 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAAATAATTAATTA
Found at i:374426 original size:14 final size:16
Alignment explanation
Indices: 374383--374428 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
374373 ATTAAGATAA
*
374383 AAAATAA-TAATAAAAT
1 AAAATAATTAAT-TAAT
374399 AAAATAATTAATTAAT
1 AAAATAATTAATTAAT
374415 AAAA-AA-TAATTAAT
1 AAAATAATTAATTAAT
374429 TTTATATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 2 0.07
16 14 0.50
17 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATTAATTAAT
Found at i:374554 original size:22 final size:22
Alignment explanation
Indices: 374527--374605 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
374517 TCAAACTCAC
374527 ATATATTCTATTTAATATAAAT
1 ATATATTCTATTTAATATAAAT
* *
374549 ATATATTTTA-TTATATTTAAAT
1 ATATATTCTATTTA-ATATAAAT
*
374571 AATATATTCTATTTAATATGAAT
1 -ATATATTCTATTTAATATAAAT
* *
374594 ATACATTGTATT
1 ATATATTCTATT
374606 ATATTTAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.06
22 26 0.55
23 15 0.32
24 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (22 bp):
ATATATTCTATTTAATATAAAT
Found at i:374577 original size:45 final size:45
Alignment explanation
Indices: 374527--374614 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
374517 TCAAACTCAC
* *
374527 ATATATTCTATTTAATATAAATATATATTTTATTATATTTAAATA
1 ATATATTCTATTTAATATAAATATACATTGTATTATATTTAAATA
*
374572 ATATATTCTATTTAATATGAATATACATTGTATTATATTTAAA
1 ATATATTCTATTTAATATAAATATACATTGTATTATATTTAAA
374615 CAATTTAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (45 bp):
ATATATTCTATTTAATATAAATATACATTGTATTATATTTAAATA
Found at i:374578 original size:18 final size:20
Alignment explanation
Indices: 374557--374596 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
374547 ATATATATTT
374557 TATTATATTTAA-AT-AATA
1 TATTATATTTAATATGAATA
*
374575 TATTCTATTTAATATGAATA
1 TATTATATTTAATATGAATA
374595 TA
1 TA
374597 CATTGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 2 0.11
20 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TATTATATTTAATATGAATA
Found at i:377980 original size:21 final size:21
Alignment explanation
Indices: 377950--377990 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
377940 TTTAATTATT
*
377950 AAAAATTATATATTTTCATTC
1 AAAAAATATATATTTTCATTC
*
377971 AAAAAATATATTTTTTCATT
1 AAAAAATATATATTTTCATT
377991 TATCTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAAAATATATATTTTCATTC
Found at i:378515 original size:32 final size:31
Alignment explanation
Indices: 378475--378534 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
378465 AACTTCATAA
* *
378475 AAATAATTAAT-TTTTATATTTATATAAATTT
1 AAATAATTAATAATTAATA-TTATATAAATTT
378506 AAATAAATTAATAATTAATATTATATAAA
1 AAAT-AATTAATAATTAATATTATATAAA
378535 ATTTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.16
32 16 0.64
33 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATAATTAATAATTAATATTATATAAATTT
Found at i:378566 original size:16 final size:16
Alignment explanation
Indices: 378541--378578 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
378531 TAAAATTTTA
378541 ATTATA-TTTTATTAT
1 ATTATATTTTTATTAT
378556 ATTATATTTTTATTAT
1 ATTATATTTTTATTAT
*
378572 TTTATAT
1 ATTATAT
378579 ATATTATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATATTTTTATTAT
Found at i:378863 original size:11 final size:11
Alignment explanation
Indices: 378844--378880 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
378834 ATTACGTTGA
*
378844 ATTTTATTTTT
1 ATTTAATTTTT
378855 ATTTAATTTTT
1 ATTTAATTTTT
*
378866 AATTAATTTTT
1 ATTTAATTTTT
378877 ATTT
1 ATTT
378881 TTTATAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:379315 original size:19 final size:19
Alignment explanation
Indices: 379291--379346 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
379281 TGTATGGATA
* *
379291 CATTGTATCAATACATGCT
1 CATTGTATCGATACATGCC
* *
379310 CATTGTATCGATATATACC
1 CATTGTATCGATACATGCC
379329 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
379347 AAACTGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCC
Found at i:379384 original size:42 final size:42
Alignment explanation
Indices: 379336--379429 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
379326 ACCCAATTGT
379336 ATCGATACATGAAACTGGTAGTAGCTACCCTAAGTGAAATGA
1 ATCGATACATGAAACTGGTAGTAGCTACCCTAAGTGAAATGA
**
379378 ATCGATACATGAAACTGGTAGTAGCTACCCTAAGTGAAATTT
1 ATCGATACATGAAACTGGTAGTAGCTACCCTAAGTGAAATGA
379420 ATCGATACAT
1 ATCGATACAT
379430 AGGATAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (42 bp):
ATCGATACATGAAACTGGTAGTAGCTACCCTAAGTGAAATGA
Found at i:381602 original size:20 final size:19
Alignment explanation
Indices: 381560--381613 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
381550 ATTGATACAA
*
381560 TGTATCGATACATGATCAT
1 TGTATCGATACATGATAAT
*
381579 TGTATCGATTCATAGATAAT
1 TGTATCGATACAT-GATAAT
381599 TGTATCGATACATGA
1 TGTATCGATACATGA
381614 AACTAGTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:381697 original size:33 final size:33
Alignment explanation
Indices: 381641--381709 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
381631 CTACCACTGT
* * *
381641 TTGTATCGATACATGGTACATTGTGTTGATACA
1 TTGTATCGATACATGATACATTGTATCGATACA
381674 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACATTGTATCGATACA
381707 TTG
1 TTG
381710 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATACATTGTATCGATACA
Found at i:388465 original size:30 final size:28
Alignment explanation
Indices: 388431--388486 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
388421 TCGGTGATTA
388431 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAAT-AA-CGAGATTGGAGTATCCCCTC
*
388461 GAAAATAACGGGATTGGAGTATCCCC
1 GAAAATAACGAGATTGGAGTATCCCC
388487 AATTATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 2 0.08
30 6 0.24
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (28 bp):
GAAAATAACGAGATTGGAGTATCCCCTC
Found at i:388560 original size:28 final size:28
Alignment explanation
Indices: 388520--388596 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
388510 GGAATAAAGC
* *
388520 CGGGGTTGGAGTATCCCC-TTGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
388548 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
388576 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
388597 TATGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:388819 original size:28 final size:27
Alignment explanation
Indices: 388784--388859 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
388774 GAAATAAAGT
388784 CGGGGTTGGAGTATCTCCTCGGA-AAT-AA
1 CGGGGTTGGAGTATC-CC-C-GATAATCAA
*
388812 CGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAATCAA
388839 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
388860 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 25 0.56
28 15 0.33
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAATCAA
Found at i:388947 original size:51 final size:51
Alignment explanation
Indices: 388580--388965 Score: 219
Period size: 52 Copynumber: 7.4 Consensus size: 51
388570 AAATAACGAG
* * * * *
388580 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAG--TGTTTTGAAAATAAAATCGGA
* * * * *
388633 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
* * *
388685 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGG-
1 GTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAATCGGA
* * * * * * * * *
388736 GATTAGAATATCCTCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGG
1 G-TTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
* *** * *** ** * *
388788 GTTGGAGTATCTCCTCGGA-AAT-AACGGGGTTGGAGTATCCCCGATGAT-CAA-CGGG
1 GTTGGAGTATC-CC-C-GATTATGAA--AAATT--AGTGT-TTTGAAAATAAAATCGGA
* * *
388843 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGAAAATAAAATCGGA
388897 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
*
388948 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
388966 GTGGAGAATT
Statistics
Matches: 252, Mismatches: 60, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
51 69 0.27
52 83 0.33
53 37 0.15
54 40 0.16
55 15 0.06
56 5 0.02
57 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:391340 original size:13 final size:13
Alignment explanation
Indices: 391322--391347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
391312 ACAAAGATCC
391322 ATGTATCGATACA
1 ATGTATCGATACA
391335 ATGTATCGATACA
1 ATGTATCGATACA
391348 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:391343 original size:33 final size:33
Alignment explanation
Indices: 391301--391367 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
391291 AAAATTTCCA
***
391301 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
391334 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
391367 A
1 A
391368 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:391411 original size:19 final size:18
Alignment explanation
Indices: 391387--391454 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
391377 CAGTAGCTAA
391387 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
391406 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
391421 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
391438 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
391455 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:391427 original size:13 final size:13
Alignment explanation
Indices: 391409--391433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
391399 ACAATACTTA
391409 TGTATCGATACAT
1 TGTATCGATACAT
391422 TGTATCGATACA
1 TGTATCGATACA
391434 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:391431 original size:32 final size:32
Alignment explanation
Indices: 391390--391452 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
391380 TAGCTAATTA
*
391390 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
391422 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
391453 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:392444 original size:59 final size:59
Alignment explanation
Indices: 392263--392556 Score: 420
Period size: 59 Copynumber: 5.0 Consensus size: 59
392253 TGAGGAGTAA
* *
392263 AAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * *
392317 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-
1 AAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
392377 AAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
392437 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * *
392496 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
392555 AA
1 AA
392557 TTCTTCCCCA
Statistics
Matches: 217, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
54 3 0.01
55 23 0.11
59 138 0.64
60 30 0.14
61 23 0.11
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (59 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
Found at i:395523 original size:13 final size:13
Alignment explanation
Indices: 395505--395531 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
395495 ACATTATGCT
395505 TTGTATCGATACA
1 TTGTATCGATACA
395518 TTGTATCGATACA
1 TTGTATCGATACA
395531 T
1 T
395532 GGACATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:404623 original size:28 final size:28
Alignment explanation
Indices: 404543--405481 Score: 1157
Period size: 28 Copynumber: 33.0 Consensus size: 28
404533 TGGCATTTCT
* * * * *
404543 TTTCAAAGTCCAGAACTCCGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
404571 TTT-TAAGTCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
404598 TTTCAAAGCCCACAAGTCAGTAGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
404626 TTTCAAAGCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
404654 -TTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
404681 TGTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *** *
404709 TGTCAAAGCCCATGCGTCTGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
404737 TTTTAAAGCCCACAAGTTACTAGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
404766 TTTCAAAGCCCATAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
404795 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
404823 TTTCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
404852 TTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
404881 TCTTCAAAGCCCACAAGTCAGTGGCACCC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCC
*
404910 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
404938 TTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
404967 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
404995 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
405024 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
405052 TTTCAAAGCCCACAAGTCAGTAGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
405079 TTTTAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
405108 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
405136 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
405164 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
405193 TTTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
405222 TCTTCAAAGCCCACAAGTCAGTGGCACCC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCC
*
405251 TTTCAAAGCCCATAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
405278 TTTTAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
405306 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
405334 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
405362 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * **
405391 TTTCAAGGCCCACAAGCCAATGATAACTCC
1 TTTCAAAGCCCACAAGTCAGTG-GCAC-CC
* * *
405421 TTTCAAAGCTCACATGAGTCAATGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
*
405453 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
405482 TTTTTTTAAA
Statistics
Matches: 802, Mismatches: 88, Indels: 40
0.86 0.09 0.04
Matches are distributed among these distances:
27 94 0.12
28 401 0.50
29 208 0.26
30 65 0.08
31 2 0.00
32 27 0.03
33 1 0.00
34 4 0.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:404797 original size:57 final size:56
Alignment explanation
Indices: 404543--405406 Score: 1094
Period size: 57 Copynumber: 15.3 Consensus size: 56
404533 TGGCATTTCT
* * * * * *
404543 TTTCAAAGTCCAGAACTCCGTGGCA-TCCTTTT-AAGTCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
404598 TTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
404654 -TTCAAAGCCCACAAGTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
* *** * * * * *
404709 TGTCAAAGCCCATGCGTCTGTGGCACCCTTTTAAAGCCCACAAGTTACTAGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCAC-CC
*
404766 TTTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
404823 TTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCA-CCC
* * *
404881 TCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
1 T-TTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
* *
404938 TTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTAAAGCCCACAAGTCAGTGGCACCC
404995 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
405052 TTTCAAAGCCCACAAGTCAGTAGCAC-CTTTTAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCAC-CC
* *
405108 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
405164 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCA-CCC
* * *
405222 TCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCA-CC
1 T-TTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
405278 TTTTAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
405334 TTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTAAAGCCCACAAGTCAGTGGCAC-CC
*
405391 TTTCAAGGCCCACAAG
1 TTTCAAAGCCCACAAG
405407 CCAATGATAA
Statistics
Matches: 719, Mismatches: 71, Indels: 36
0.87 0.09 0.04
Matches are distributed among these distances:
54 4 0.01
55 138 0.19
56 206 0.29
57 244 0.34
58 71 0.10
59 56 0.08
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:405608 original size:45 final size:46
Alignment explanation
Indices: 405544--405675 Score: 140
Period size: 49 Copynumber: 2.8 Consensus size: 46
405534 TTGTCTGACA
* * *
405544 TCGCTAGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* *
405589 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
* **
405638 TCACTGGCCTTGAATTGGCACATTGGCACTCCTTTCAT
1 TCGCTGGCCTTGAATCAGCACATTGGCA--CCTTTCAT
405676 CTCTAAGTCT
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
45 23 0.32
47 8 0.11
48 2 0.03
49 38 0.54
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:409976 original size:21 final size:19
Alignment explanation
Indices: 409952--410004 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
409942 TTCAACAATT
409952 TGTATCGATACAAACAGTAAC
1 TGTATCGATACAAA-AGT-AC
* **
409973 TGTATCAATACAAAAGTGT
1 TGTATCGATACAAAAGTAC
409992 TGTATCGATACAA
1 TGTATCGATACAA
410005 CGTATCGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAC
Done.