Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold445.1
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: 1085936
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.34
Warning! 26856 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:986419 original size:130 final size:130
Alignment explanation
Indices: 986271--986540 Score: 416
Period size: 130 Copynumber: 2.1 Consensus size: 130
986261 CCCATGAAAC
** * *
986271 TAAAAAATAGATGTTGTAATGAACTTAAATTTAACAAATACTTGGATCTGAATTTTAAAATCTGA
1 TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
* * * * **
986336 AAAA-TAAAGGTATTAAATTTCAAATTTATGAAATAATACAAAAACTTATGGCATATCTTAATCA
66 AAAACAAAAGG-ACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATAACATATCTTAATCA
986400 T
130 T
*
986401 TAAAAAATAGACATTGTAATGAACTTAAATTTAATAAATAATTAGATCTGAATTTTAAAATCTGA
1 TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
986466 AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATAACATATCTTAATCAT
66 AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATAACATATCTTAATCAT
986531 TAAAGAAATA
1 TAAA-AAATA
986541 ATTGAAATTA
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
130 117 0.92
131 10 0.08
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.33
Consensus pattern (130 bp):
TAAAAAATAGACATTGTAATGAACTTAAATTTAACAAATAATTAGATCTGAATTTTAAAATCTGA
AAAACAAAAGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATAACATATCTTAATCAT
Found at i:987521 original size:4 final size:4
Alignment explanation
Indices: 987512--987548 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
987502 ATGTTATGTA
987512 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
987549 GAGAAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:1001057 original size:17 final size:17
Alignment explanation
Indices: 1001035--1001084 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1001025 AATTTTAAAT
1001035 ATATATTTTATTATTTA
1 ATATATTTTATTATTTA
* *
1001052 ATATATGTTATT-TTAAA
1 ATATATTTTATTATT-TA
1001069 ATATATATTTA-TATTT
1 ATATAT-TTTATTATTT
1001085 TAAATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATATTTTATTATTTA
Found at i:1001089 original size:19 final size:19
Alignment explanation
Indices: 1001026--1001089 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
1001016 TAATTAATTA
1001026 ATTTTAAATATATATTT-T
1 ATTTTAAATATATATTTAT
* *
1001044 ATTATTTAATATAT-GTTAT
1 ATT-TTAAATATATATTTAT
*
1001063 -TTTAAAATATATATTTAT
1 ATTTTAAATATATATTTAT
1001081 ATTTTAAAT
1 ATTTTAAAT
1001090 TTAATATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
17 8 0.22
18 11 0.31
19 17 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTAAATATATATTTAT
Found at i:1001098 original size:34 final size:35
Alignment explanation
Indices: 1000995--1001099 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 35
1000985 TTTATTATCG
*
1000995 TATATATTTTA-TATGTTATTATAATTAATTAATTTTAAA
1 TATATATTTTATTAT-TTAATAT-A-TAA-T-ATTTTAAA
**
1001034 TATATATTTTATTATTTAATATATGTTATTTTAAA
1 TATATATTTTATTATTTAATATATAATATTTTAAA
*
1001069 -ATATATATTTA-TATTTTAA-ATTTAATATTTT
1 TATATAT-TTTATTA-TTTAATATATAATATTTT
1001100 TACATGCATA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
34 17 0.30
35 17 0.30
36 1 0.02
37 1 0.02
38 1 0.02
39 17 0.30
40 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TATATATTTTATTATTTAATATATAATATTTTAAA
Found at i:1003315 original size:8 final size:8
Alignment explanation
Indices: 1003243--1003327 Score: 58
Period size: 8 Copynumber: 11.1 Consensus size: 8
1003233 TATTTTTATA
*
1003243 TAATTTTT
1 TAATATTT
1003251 TAATAATTT
1 TAAT-ATTT
1003260 TAATAATTT
1 TAAT-ATTT
1003269 T--TATTT
1 TAATATTT
* *
1003275 TTATTTTT
1 TAATATTT
*
1003283 TGAATTTTT
1 T-AATATTT
1003292 TAA-ATTT
1 TAATATTT
1003299 TAATA---
1 TAATATTT
1003304 TAATATTT
1 TAATATTT
1003312 TAATATTT
1 TAATATTT
1003320 T-ATATTT
1 TAATATTT
1003327 T
1 T
1003328 TTTAAGATGA
Statistics
Matches: 65, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
5 5 0.08
6 5 0.08
7 14 0.22
8 21 0.32
9 20 0.31
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:1003340 original size:29 final size:31
Alignment explanation
Indices: 1003308--1003366 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
1003298 TTAATATAAT
*
1003308 ATTTTAATATT-TTAT-ATT-TTTTTAAGATG
1 ATTTTAAT-TTCTTATAATTATTGTTAAGATG
1003337 ATTTTAATTTCTTATAATTATTGTTAAGAT
1 ATTTTAATTTCTTATAATTATTGTTAAGAT
1003367 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 12 0.46
30 3 0.12
31 9 0.35
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (31 bp):
ATTTTAATTTCTTATAATTATTGTTAAGATG
Found at i:1005418 original size:15 final size:16
Alignment explanation
Indices: 1005397--1005443 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
1005387 TATACTACAA
1005397 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
1005413 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
1005430 AAATATTTATTATT
1 -AATATTTATTATT
1005444 TGTAACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 5 0.20
18 1 0.04
19 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:1006404 original size:51 final size:51
Alignment explanation
Indices: 1006333--1006446 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
1006323 CTGATCACAT
1006333 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
1006384 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
1006435 TTGTCACTTGTC
1 TTATCACTTGTC
1006447 GCTTGTCACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:1006441 original size:7 final size:7
Alignment explanation
Indices: 1006425--1006463 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
1006415 CTAAAGCTAC
*
1006425 CACTTAT
1 CACTTGT
1006432 CACTTGT
1 CACTTGT
1006439 CACTTGT
1 CACTTGT
*
1006446 CGCTTGT
1 CACTTGT
*
1006453 CACTTAT
1 CACTTGT
1006460 CACT
1 CACT
1006464 GATCAGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.10, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:1015665 original size:115 final size:115
Alignment explanation
Indices: 1015463--1015691 Score: 440
Period size: 115 Copynumber: 2.0 Consensus size: 115
1015453 TTTACTTTAA
1015463 TGTATATATCTTAAACAAGTCTTAGTATTTATATAATCATCAAACCTTATACATGCCATATAAAT
1 TGTATATATCTTAAACAAGTCTTAGTATTTATATAATCATCAAACCTTATACATGCCATATAAAT
1015528 CAAAAAGAAATTTACAAAAGCTACCGGAGATAATCTAGATAGTGTGATCT
66 CAAAAAGAAATTTACAAAAGCTACCGGAGATAATCTAGATAGTGTGATCT
*
1015578 TGTATATTTCTTAAACAAGTCTTAGTATTTATATAATCATCAAACCTTATACATGCCATATAAAT
1 TGTATATATCTTAAACAAGTCTTAGTATTTATATAATCATCAAACCTTATACATGCCATATAAAT
*
1015643 CAAAAAGAAATTTACAAAAGCTACCGGAGATAATCTGGATAGTGTGATC
66 CAAAAAGAAATTTACAAAAGCTACCGGAGATAATCTAGATAGTGTGATC
1015692 CTCTGTGTTG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (115 bp):
TGTATATATCTTAAACAAGTCTTAGTATTTATATAATCATCAAACCTTATACATGCCATATAAAT
CAAAAAGAAATTTACAAAAGCTACCGGAGATAATCTAGATAGTGTGATCT
Found at i:1016033 original size:82 final size:82
Alignment explanation
Indices: 1015896--1016056 Score: 295
Period size: 82 Copynumber: 2.0 Consensus size: 82
1015886 TATAAACTTA
* *
1015896 CTACTAGTTATCCATTTCCTTTAATTCTTTTGGGTCCATTTGTCACATATCATTCTTTAACCAAA
1 CTACTACTTATCCATTTCCTTTAATTCTTTTGGGCCCATTTGTCACATATCATTCTTTAACCAAA
1015961 TTAGGGAATGGTTATGT
66 TTAGGGAATGGTTATGT
*
1015978 CTACTACTTATCCATTTCCTTTTATTCTTTTGGGCCCATTTGTCACATATCATTCTTTAACCAAA
1 CTACTACTTATCCATTTCCTTTAATTCTTTTGGGCCCATTTGTCACATATCATTCTTTAACCAAA
1016043 TTAGGGAATGGTTA
66 TTAGGGAATGGTTA
1016057 CGGAAAATTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (82 bp):
CTACTACTTATCCATTTCCTTTAATTCTTTTGGGCCCATTTGTCACATATCATTCTTTAACCAAA
TTAGGGAATGGTTATGT
Found at i:1016244 original size:51 final size:51
Alignment explanation
Indices: 1016170--1016283 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
1016160 CTGATCACAT
* *
1016170 TTATCACTTGTCATTGATTAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
1016221 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
1016272 TTGTCGCTTGTC
1 TTATCACTTGTC
1016284 GCTTGTCACT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:1018027 original size:23 final size:21
Alignment explanation
Indices: 1017983--1018027 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
1017973 AATTAACTAT
*
1017983 CGAAACTTTAAAATTTCTTAA
1 CGAAACTTTAAAATTTCCTAA
1018004 CGAAACTTTAATAATTTTCCTAA
1 CGAAACTTTAA-AA-TTTCCTAA
1018027 C
1 C
1018028 TTCACACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 2 0.10
23 8 0.38
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (21 bp):
CGAAACTTTAAAATTTCCTAA
Found at i:1018199 original size:16 final size:16
Alignment explanation
Indices: 1018175--1018219 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
1018165 ATAATATGTG
*
1018175 AATAATATTATTTAAA
1 AATATTATTATTTAAA
1018191 AATATTATT-TTT-AA
1 AATATTATTATTTAAA
1018205 AAT-TTATTA-TTAAA
1 AATATTATTATTTAAA
1018219 A
1 A
1018220 TAAAATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 3 0.12
16 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTATTATTTAAA
Found at i:1018211 original size:13 final size:14
Alignment explanation
Indices: 1018178--1018221 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
1018168 ATATGTGAAT
*
1018178 AATATTATT-TAAA
1 AATATTATTATTAA
*
1018191 AATATTATTTTTAA
1 AATATTATTATTAA
1018205 AAT-TTATTATTAA
1 AATATTATTATTAA
1018218 AATA
1 AATA
1018222 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:1018285 original size:26 final size:27
Alignment explanation
Indices: 1018228--1018293 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
1018218 AATAAAATTG
*
1018228 AAATATTAAATTATTTATTATATTAACT
1 AAATATT-AATAATTTATTATATTAACT
*
1018256 --ATATTAATAATTTATTATA-TGACT
1 AAATATTAATAATTTATTATATTAACT
*
1018280 AAATATAAATAATT
1 AAATATTAATAATT
1018294 AAATATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.12
25 13 0.39
26 16 0.48
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (27 bp):
AAATATTAATAATTTATTATATTAACT
Found at i:1021142 original size:18 final size:17
Alignment explanation
Indices: 1021116--1021149 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1021106 TCATTTAGTG
1021116 AAAAAAATTATAAAATT
1 AAAAAAATTATAAAATT
*
1021133 AAAAATAATTCTAAAAT
1 AAAAA-AATTATAAAAT
1021150 GAATTGTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAATTATAAAATT
Found at i:1022443 original size:23 final size:23
Alignment explanation
Indices: 1022417--1022491 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
1022407 ATACATGCCA
1022417 TTATACCAAAATAAGTTTGCTAT
1 TTATACCAAAATAAGTTTGCTAT
* * *
1022440 TTATACC-AAA-ACG--AGCCA-
1 TTATACCAAAATAAGTTTGCTAT
1022458 TTATACCAAAATAAGTTTGCTAT
1 TTATACCAAAATAAGTTTGCTAT
1022481 TTATACCAAAA
1 TTATACCAAAA
1022492 CGAGCTGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 7 0.17
19 6 0.15
20 2 0.05
21 2 0.05
22 6 0.15
23 18 0.44
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (23 bp):
TTATACCAAAATAAGTTTGCTAT
Found at i:1022470 original size:41 final size:41
Alignment explanation
Indices: 1022413--1022496 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
1022403 GTCTATACAT
1022413 GCCATTATACCAAAATAAGTTTGCTATTTATACCAAAACGA
1 GCCATTATACCAAAATAAGTTTGCTATTTATACCAAAACGA
1022454 GCCATTATACCAAAATAAGTTTGCTATTTATACCAAAACGA
1 GCCATTATACCAAAATAAGTTTGCTATTTATACCAAAACGA
1022495 GC
1 GC
1022497 TGAAGGATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (41 bp):
GCCATTATACCAAAATAAGTTTGCTATTTATACCAAAACGA
Found at i:1031993 original size:14 final size:14
Alignment explanation
Indices: 1031974--1032004 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1031964 ATTGGTCTTA
1031974 ATTATTTTAGTTTT
1 ATTATTTTAGTTTT
1031988 ATTATTTTAGTTTT
1 ATTATTTTAGTTTT
1032002 ATT
1 ATT
1032005 TTGGTTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
ATTATTTTAGTTTT
Found at i:1035185 original size:10 final size:10
Alignment explanation
Indices: 1035170--1035200 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
1035160 TAAGGGACAA
1035170 TATGATTGAT
1 TATGATTGAT
1035180 TATGATTGAT
1 TATGATTGAT
1035190 TATGATTGAT
1 TATGATTGAT
1035200 T
1 T
1035201 TCTGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (10 bp):
TATGATTGAT
Found at i:1051298 original size:21 final size:22
Alignment explanation
Indices: 1051272--1051318 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1051262 CTCTGCTCAA
*
1051272 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
1051293 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
1051315 ACTC
1 ACTC
1051319 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:1055417 original size:18 final size:18
Alignment explanation
Indices: 1055391--1055425 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1055381 TGAAATATGT
1055391 ATAAACCCAAAACAAATC
1 ATAAACCCAAAACAAATC
*
1055409 ATAAGCCCAAAACAAAT
1 ATAAACCCAAAACAAAT
1055426 GACGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.26, G:0.03, T:0.11
Consensus pattern (18 bp):
ATAAACCCAAAACAAATC
Found at i:1055637 original size:26 final size:25
Alignment explanation
Indices: 1055606--1055656 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
1055596 TAAAATAAAA
1055606 AAAAAACTAAAAATAGAGAGACGGAAG
1 AAAAAACTAAAAA-AGAGAGA-GGAAG
*
1055633 AAAAAATTAAAAAAGAGAGAGGAA
1 AAAAAACTAAAAAAGAGAGAGGAA
1055657 TGAACAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 12 0.52
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.08
Consensus pattern (25 bp):
AAAAAACTAAAAAAGAGAGAGGAAG
Found at i:1056395 original size:23 final size:25
Alignment explanation
Indices: 1056353--1056405 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
1056343 ATAAATATAG
1056353 ATTTAGTCTACTTTTATTTTT-AAGA
1 ATTTAGTCTACTTTTATTTTTCAA-A
1056378 ATTTAGTCT-C-TTTATTTTTCAAA
1 ATTTAGTCTACTTTTATTTTTCAAA
1056401 ATTTA
1 ATTTA
1056406 AAATTCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 15 0.56
24 3 0.11
25 9 0.33
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (25 bp):
ATTTAGTCTACTTTTATTTTTCAAA
Found at i:1056605 original size:30 final size:31
Alignment explanation
Indices: 1056569--1056627 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
1056559 ATAGTTAGAC
*
1056569 CTAAATT-TTGAAATTTAAAA-AGTACATAAA
1 CTAAATTCTT-AAATTAAAAAGAGTACATAAA
1056599 CTAAATTCTTAAATTAAAAAGAGTACATA
1 CTAAATTCTTAAATTAAAAAGAGTACATA
1056628 GATTTATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (31 bp):
CTAAATTCTTAAATTAAAAAGAGTACATAAA
Found at i:1060429 original size:14 final size:13
Alignment explanation
Indices: 1060410--1060451 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1060400 TTGATTTTTT
1060410 TTAAAACACAGAAA
1 TTAAAA-ACAGAAA
1060424 TTAAAAAACAGAAA
1 TT-AAAAACAGAAA
*
1060438 CTAAAAACA-AAA
1 TTAAAAACAGAAA
1060450 TT
1 TT
1060452 TGAGAAGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 10 0.40
15 4 0.16
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (13 bp):
TTAAAAACAGAAA
Found at i:1060850 original size:17 final size:17
Alignment explanation
Indices: 1060828--1060873 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
1060818 GAAAAATGAG
1060828 AATTTTTAAAACACGAA
1 AATTTTTAAAACACGAA
*
1060845 AATTTTGAAAACACGAA
1 AATTTTTAAAACACGAA
*
1060862 AATTTTTGAAAC
1 AATTTTTAAAAC
1060874 CTGAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:1061500 original size:15 final size:17
Alignment explanation
Indices: 1061480--1061511 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1061470 TTAGGAAACG
1061480 TACATAA-A-AAATATA
1 TACATAATATAAATATA
1061495 TACATAATATAAATATA
1 TACATAATATAAATATA
1061512 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:1062048 original size:11 final size:10
Alignment explanation
Indices: 1062028--1062053 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1062018 TTGAAGAGAG
1062028 AAAGAAAAAA
1 AAAGAAAAAA
1062038 AAAGAAAAAA
1 AAAGAAAAAA
1062048 AAAGAA
1 AAAGAA
1062054 GGGAGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:1062542 original size:19 final size:19
Alignment explanation
Indices: 1062518--1062571 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1062508 AGGGTTTCTT
1062518 GGTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTGGGGGGTTA
*
1062537 GGTTTTTTTT-TGGGGTTA
1 GGTTTTTTTTGGGGGGTTA
1062555 GGTTTTTTTTTGGGGGG
1 GG-TTTTTTTTGGGGGG
1062572 CTTAATGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 18 0.58
20 4 0.13
ACGTcount: A:0.04, C:0.00, G:0.41, T:0.56
Consensus pattern (19 bp):
GGTTTTTTTTGGGGGGTTA
Found at i:1062545 original size:20 final size:20
Alignment explanation
Indices: 1062520--1062571 Score: 90
Period size: 18 Copynumber: 2.7 Consensus size: 20
1062510 GGTTTCTTGG
1062520 TTTTTTTTGGGGGGTTAGGT
1 TTTTTTTTGGGGGGTTAGGT
1062540 TTTTTTTT--GGGGTTAGGT
1 TTTTTTTTGGGGGGTTAGGT
1062558 TTTTTTTTGGGGGG
1 TTTTTTTTGGGGGG
1062572 CTTAATGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.60
20 12 0.40
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.58
Consensus pattern (20 bp):
TTTTTTTTGGGGGGTTAGGT
Found at i:1063387 original size:72 final size:72
Alignment explanation
Indices: 1063298--1063667 Score: 474
Period size: 72 Copynumber: 5.1 Consensus size: 72
1063288 GATTTTTTTT
* * * * *
1063298 TTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATAT
1063363 GAGTTGAA
65 GAGTTGAA
** *
1063371 TTTTGAAAACAGAAATTGAAATTACCTCAATGTGTCCCGAGGCTCAACTCACCTT-TCGCAATAT
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTTCTCGCAATAT
*
1063435 GAGTTGAT
65 GAGTTGAA
* * * *
1063443 TTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCACAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATG
1063508 AGTTGAA
66 AGTTGAA
* *
1063515 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT-CTGAGGCTCAACTAATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATG
*
1063579 AGTTGATTTTT
66 AGTTGA----A
* ** *
1063590 TTTTTAACAACAGAAATTGAAAATTACCTCATTGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
1063655 TGAGTTGAA
64 TGAGTTGAA
1063664 TTTT
1 TTTT
1063668 TTTGAAAAAT
Statistics
Matches: 259, Mismatches: 29, Indels: 17
0.85 0.10 0.06
Matches are distributed among these distances:
71 32 0.12
72 152 0.59
73 7 0.03
74 4 0.02
75 6 0.02
76 11 0.04
77 15 0.06
78 32 0.12
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATG
AGTTGAA
Found at i:1063772 original size:74 final size:73
Alignment explanation
Indices: 1063683--1063924 Score: 272
Period size: 74 Copynumber: 3.3 Consensus size: 73
1063673 AAAATATAAA
* * * * *
1063683 TTGAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1063748 GTTGATTTT
65 GTTGATTTT
* * * **
1063757 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1063822 GTTGATTTTTT
65 GTTGA--TTTT
* * * *
1063833 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
1063897 ATTGA-TTT
65 GTTGATTTT
*
1063905 TTGAAAAACATAAATTGAAA
1 TTG-AAAACAAAAATTGAAA
1063925 AATGGAAATC
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
72 5 0.04
73 14 0.10
74 58 0.41
75 54 0.39
76 9 0.06
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:1063822 original size:164 final size:164
Alignment explanation
Indices: 1063517--1063834 Score: 426
Period size: 164 Copynumber: 1.9 Consensus size: 164
1063507 GAGTTGAATT
* * * **
1063517 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTAATTTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATTAACTCAACGTGCCTGAGGCTCAACTAACCTCTCGCAATATGAGT
* * *** *
1063582 TGATTTTTTTTTTAACAACAGAAATTGAAAATTACCTCATTGTGTCCTGAGGCTCAACTCACCTC
66 TGA--TTTTTTTGAACAACAAAAATTGAAAATTACCTCAGCATGTCCTGAGGCTCAACTCACATC
1063647 TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
129 TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
* *
1063683 TTGAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 TTGAAAA-CAGAAATTGAAATTAACTCAACGTGCC-TGAGGCTCAACTAACCTCTCGCAATATGA
* *
1063748 GTTGA-TTTTTTGAA-AGACAAAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATAT
64 GTTGATTTTTTTGAACA-ACAAAAATTGAAAATTACCTCAGCATGTCCTGAGGCTCAACTCACAT
*
1063810 CTCGCAATATGAGTTGATTTTTTTT
128 CTCGCAATATGAGTTGAATTTTTTT
1063835 TACAACAGAA
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
164 51 0.38
165 21 0.16
166 7 0.05
167 24 0.18
168 30 0.23
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (164 bp):
TTGAAAACAGAAATTGAAATTAACTCAACGTGCCTGAGGCTCAACTAACCTCTCGCAATATGAGT
TGATTTTTTTGAACAACAAAAATTGAAAATTACCTCAGCATGTCCTGAGGCTCAACTCACATCTC
GCAATATGAGTTGAATTTTTTTGAAAAATATAAA
Found at i:1063871 original size:239 final size:235
Alignment explanation
Indices: 1063445--1064680 Score: 1132
Period size: 239 Copynumber: 5.3 Consensus size: 235
1063435 GAGTTGATTT
* * *
1063445 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCACAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
1063510 TTGA-ATTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTAATTTCTCG
66 TTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCG
**
1063572 CAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAAATTACCTCATTGTGTCCTGAGGCTC
131 CAATATGAGTTGA-TTTTTTTTTAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTC
*
1063637 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
193 AACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAACATAAA
* * * *
1063683 TTGAAAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATG
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
* *
1063747 AGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCT
64 AGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCT
*
1063812 CGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
129 CGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
* *
1063877 ACTCACCTCTCGCAATATAAATTGATTTTTGAAAAACATAAA
194 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
* * * *
1063919 TTGAAAA-ATGGAAATCGTAAA-TACCTC-GTCATGAGACCTGAGGTTCAACTCACCTCTCGCAA
1 TTGAAAACA--GAAATTG-AAATTACCTCAG-C--GTGTCCTGAGGCTCAACTCACCTCTCGCAA
* *
1063981 TATGAGTTGATTTTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCA
60 TATGAGTTGA------TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCA
* * * *
1064046 ACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAATTACATCAGCGTGTC
119 ACTCATCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTC
* **
1064108 CTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT--------T---
184 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
*
1064149 TT-AACAACAGAAATTAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC---A--
1 TTGAA-AACAGAAATT-GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
1064208 A--TG------TG--AG-CAGAAATTGAAAATATCTCAACGTGTCTTGAGGCTTAACTCACCTCT
64 AGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCT
* * * *
1064262 CGCAATATGAGTTGA---TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCA
129 CGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1064323 ACTCACCTCTCGCAATATGAGTTGATTTTTG----AC-----
194 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
*
1064356 ----AAACATAAATTGAAATTACCTCAGCGTGTTACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTG-T-CCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
1064417 AGTTGATTTTTTTTTGAAGGACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
64 AGTTGA---TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATC
* *
1064482 TCTCGTAATATGAGTTGATTTTTTGAAACATAAATTAAAACACAAAAATTGACAATT-CCTCAGC
126 TCTCGCAATATGAGTTGATTTTTT------T---TT-AAA-ACAGAAATTGA-AATTACCTCAGC
** * *
1064546 GTACCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACATAAA
179 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
* * * * *
1064603 TTGAAAA-ATGGAAATCGTAAA-TACCTC-GTCATGAGACCAGAGGTTCAACTCACCTCTCGCAA
1 TTGAAAACA--GAAATTG-AAATTACCTCAG-C--GTGTCCTGAGGCTCAACTCACCTCTCGCAA
1064665 TATGAGTTGATTTTTT
60 TATGAGTTGATTTTTT
1064681 TTTATGAACG
Statistics
Matches: 839, Mismatches: 77, Indels: 153
0.78 0.07 0.14
Matches are distributed among these distances:
202 16 0.02
203 10 0.01
204 25 0.03
205 59 0.07
206 64 0.08
207 2 0.00
209 3 0.00
211 2 0.00
220 2 0.00
221 2 0.00
222 1 0.00
223 59 0.07
225 1 0.00
226 3 0.00
228 25 0.03
229 10 0.01
230 11 0.01
231 2 0.00
232 1 0.00
233 1 0.00
234 1 0.00
235 1 0.00
236 38 0.05
237 4 0.00
238 101 0.12
239 105 0.13
240 19 0.02
241 103 0.12
242 34 0.04
244 72 0.09
249 6 0.01
250 1 0.00
251 4 0.00
252 46 0.05
253 3 0.00
254 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (235 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCG
CAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
Found at i:1063876 original size:75 final size:73
Alignment explanation
Indices: 1063686--1064214 Score: 414
Period size: 75 Copynumber: 6.9 Consensus size: 73
1063676 ATATAAATTG
* * * * *
1063686 AAAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
1063750 TGATTTTTT
65 TGATTTTTT
* * * * * **
1063759 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1063824 TGATTTTTTTT
65 TGA--TTTTTT
* * * *
1063835 TACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1063900 GATTTTTG
66 GATTTTTT
* * * * * * * *
1063908 AAAAACATAAATTGAAAAATGGAAATCGTAAATACCTCGTCATGAGACCTGAGGTTCAACTCACC
1 AAAAACAGAAATTG--AAAT---TA-CCT-CA-GCGT-GTCCT-------GAGGCTCAACTCACC
1063973 TCTCGCAATATGAGTTGATTTTTTTTTTTT
50 TCTCGCAATATGAGTTGA------TTTTTT
* * * * **
1064003 GAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
1064068 TGA-ATTTT
65 TGATTTTTT
* * * **
1064076 GAAAACAGAAATTGAAATTACATCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1064141 GATTTTTTTT
66 GA--TTTTTT
* * *
1064151 AACAACAGAAATTAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 AAAAACAGAAATT-GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1064215 CAGAAATTGA
Statistics
Matches: 360, Mismatches: 65, Indels: 58
0.75 0.13 0.12
Matches are distributed among these distances:
72 60 0.17
73 20 0.06
74 53 0.15
75 76 0.21
76 50 0.14
78 1 0.00
79 2 0.01
80 31 0.09
81 2 0.01
82 4 0.01
87 4 0.01
88 2 0.01
89 31 0.09
90 2 0.01
91 1 0.00
94 3 0.01
95 5 0.01
96 13 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTT
Found at i:1064047 original size:169 final size:163
Alignment explanation
Indices: 1063793--1064209 Score: 427
Period size: 169 Copynumber: 2.6 Consensus size: 163
1063783 CAGCATGTCT
* * * *
1063793 TGAGGCTCAACTCATATCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTTTAAAACAAAAATTGAAAATACCT
* * *
1063858 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAACATAAATTGA
66 CAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAATTTTG-AAAACAGAAATTGA
1063923 AAAATGGAAATCGTAAATACCTCGTCATGAGACC
130 AAAATGGAAATCGTAAATACCTCGTCATGAGACC
* *
1063957 TGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAAAACAAAAATTGAAAA
1 TGAGGCTCAACTCACATCTCGCAATATGAGTTGA---TTTTTTTTT--AAAACAAAAATTGAAAA
* ** * *
1064022 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
61 TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAATTTTGAAAACAGAAA
* * * *
1064087 -T------T-GAAAT--TACAT--C-AG-C--GTGTCC
126 TTGAAAAATGGAAATCGTAAATACCTCGTCATGAGACC
* ** * *
1064109 TAAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTAACAACAGAAATTAAAAATTAC
1 TGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTTTAA-AACAAAAATTGAAAA-TAC
*
1064173 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
64 CTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAAT
1064210 GTGAGCAGAA
Statistics
Matches: 218, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
146 2 0.01
147 13 0.06
148 44 0.20
152 34 0.16
154 1 0.00
155 1 0.00
156 1 0.00
158 4 0.02
160 5 0.02
161 1 0.00
164 31 0.14
167 10 0.05
168 9 0.04
169 62 0.28
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (163 bp):
TGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTTTAAAACAAAAATTGAAAATACCT
CAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAATTTTGAAAACAGAAATTGAA
AAATGGAAATCGTAAATACCTCGTCATGAGACC
Found at i:1064147 original size:152 final size:146
Alignment explanation
Indices: 1063955--1064517 Score: 624
Period size: 152 Copynumber: 3.9 Consensus size: 146
1063945 CGTCATGAGA
*
1063955 CCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAAAACAAAAATTGAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTTGAAAAACAAAAATTGAA
* * **
1064020 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
62 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAACAGA
1064085 AATTGAAATTACATCAGCGTGT
126 AATTGAAATTAC-TCAGCGTGT
* ** * * *
1064107 CCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT-AACAACAGAAATTAAAAATT
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTGAAAA-T
1064171 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC-A-AT--G-TG-A----G---CAGAAATT
65 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATT
* *
1064223 GAAAATATCTCAACGTGT
130 GAAATTA-CTCAGCGTGT
* * *
1064241 CTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA---TTTTTG-AAAA-ATAAATTGAAAATA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTGAAAATA
* * *
1064301 CCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAAT
66 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG--AAACAGAAAT
1064366 TGAAATTACCTCAGCGTGTT
129 TGAAATTA-CTCAGCGTG-T
**
1064386 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGGACAAAAATTGAAAA
1 -CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAACAAAAATTGAAAA
* * * * *
1064451 TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGAAACATAAA
64 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAACAGAAA
1064516 TT
128 TT
1064518 AAAACACAAA
Statistics
Matches: 348, Mismatches: 36, Indels: 55
0.79 0.08 0.13
Matches are distributed among these distances:
129 36 0.10
130 11 0.03
131 10 0.03
133 1 0.00
134 55 0.16
135 1 0.00
138 1 0.00
139 1 0.00
142 1 0.00
143 2 0.01
144 22 0.06
145 1 0.00
146 36 0.10
147 16 0.05
148 41 0.12
150 6 0.02
151 13 0.04
152 88 0.25
153 6 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (146 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTGAAAATA
CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATTG
AAATTACTCAGCGTGT
Found at i:1064205 original size:76 final size:74
Alignment explanation
Indices: 1063955--1064214 Score: 292
Period size: 72 Copynumber: 3.4 Consensus size: 74
1063945 CGTCATGAGA
* *
1063955 CCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAAAACAAAAATTGAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTT--AAAACAGAAATT-AA
*
1064020 AA-TACCTCAGCATGT
59 AATTACCTCAGCGTGT
* ** * * * *
1064035 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTAAAATTACC
1064098 TCAGCGTGT
66 TCAGCGTGT
* **
1064107 CCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAAATTA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATT-AAAATTA
1064172 CCTCAGCGTGT
64 CCTCAGCGTGT
*
1064183 CCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1064215 CAGAAATTGA
Statistics
Matches: 155, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
71 3 0.02
72 56 0.36
74 10 0.06
75 10 0.06
76 44 0.28
80 32 0.21
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTAAAATTACC
TCAGCGTGT
Found at i:1064249 original size:58 final size:59
Alignment explanation
Indices: 1064156--1064272 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 59
1064146 TTTTTAACAA
* *
1064156 CAGAAATTAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 CAGAAATTAAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
1064215 CAGAAATTGAAAA-TATCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAG
1 CAGAAATTAAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1064273 TTGATTTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 40 0.77
59 12 0.23
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (59 bp):
CAGAAATTAAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:1064334 original size:71 final size:72
Alignment explanation
Indices: 1064218--1064521 Score: 400
Period size: 71 Copynumber: 4.1 Consensus size: 72
1064208 ATGTGAGCAG
* * *
1064218 AAATTGAAAATATCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1064282 GAAAAAT
66 GAAAAAT
* *
1064289 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1064353 GACAAACAT
66 GA-AAA-AT
* *
1064362 AAATTGAAATTACCTCAGCGTGTTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTG-T-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---T
1064427 TTTTTGAAGGACAA-
61 TTTTTGAA--A-AAT
* *
1064441 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
1064506 GAAACAT
66 GAAAAAT
1064513 AAATT-AAAA
1 AAATTGAAAA
1064522 CACAAAAATT
Statistics
Matches: 209, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
71 66 0.32
72 9 0.04
73 23 0.11
74 9 0.04
75 36 0.17
77 34 0.16
78 2 0.01
79 27 0.13
80 2 0.01
81 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAAT
Found at i:1072971 original size:12 final size:12
Alignment explanation
Indices: 1072949--1072984 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1072939 TGGGATATGC
*
1072949 AATGAATGAATG
1 AATGCATGAATG
*
1072961 GATGCATGAATG
1 AATGCATGAATG
1072973 AATGCATGAATG
1 AATGCATGAATG
1072985 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:1072971 original size:16 final size:17
Alignment explanation
Indices: 1072945--1072976 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1072935 AGTATGGGAT
1072945 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
1072962 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
1072977 CATGAATGTC
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:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:1074410 original size:15 final size:17
Alignment explanation
Indices: 1074390--1074421 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1074380 TTAGGAAACG
1074390 TACATAA-A-AAATATA
1 TACATAATATAAATATA
1074405 TACATAATATAAATATA
1 TACATAATATAAATATA
1074422 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:1075024 original size:32 final size:33
Alignment explanation
Indices: 1074988--1075053 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
1074978 CGGGAAAGGA
* *
1074988 AATCCGGCCAAGGGGG-TGTCACCGGCCGATCG
1 AATCCAGCCAAGGGGGCTGTCACCAGCCGATCG
*
1075020 AATCCAGCCAGGGGGGCTTGTCACCAGCCGATCG
1 AATCCAGCCAAGGGGGC-TGTCACCAGCCGATCG
1075054 TCGGTCGCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 14 0.48
34 15 0.52
ACGTcount: A:0.20, C:0.32, G:0.35, T:0.14
Consensus pattern (33 bp):
AATCCAGCCAAGGGGGCTGTCACCAGCCGATCG
Found at i:1075438 original size:17 final size:17
Alignment explanation
Indices: 1075418--1075463 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
1075408 TTGGTTTTAT
1075418 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
1075435 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
*
1075452 TCTTTTTTTGGG
1 TTTTTTTTTGGG
1075464 GGGCTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.04, C:0.02, G:0.28, T:0.65
Consensus pattern (17 bp):
TTTTTTTTTGGGTTAGG
Found at i:1075849 original size:14 final size:14
Alignment explanation
Indices: 1075830--1075864 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1075820 GTTGATTCTT
*
1075830 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
1075844 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
1075858 TTGAAAA
1 TTGAAAA
1075865 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:1076010 original size:88 final size:85
Alignment explanation
Indices: 1075756--1077012 Score: 536
Period size: 86 Copynumber: 14.8 Consensus size: 85
1075746 GTTGATTTTT
* *
1075756 TTGAC-AACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGC--GT-CTGAGGCTTAACTCACCTCTCGCAATATGA
*
1075820 GTTGATTCTTTTGAAAAGTAGAAA
63 GTTGATTTTTTTGAAAAG-AGAAA
1075844 TTGA-AAAGCAGAAATTGAAAATACCTCAGCACGTGAGCTGAGGCTTAACTCACCTCTCGCAATA
1 TTGACAAA-CAGAAATTGAAAATACCTCAG--CGT---CTGAGGCTTAACTCACCTCTCGCAATA
* *
1075908 TGAGTTGA-ATTTTTGAAAA-ATAAA
60 TGAGTTGATTTTTTTGAAAAGAGAAA
* * *
1075932 TTGACAAACGGAAATTGAAAATACCTCAGCGTCTTGAGGTTTAACTCACCTCTCGCAATATAAGT
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTC-TGAGGCTTAACTCACCTCTCGCAATATGAGT
*
1075997 TGATTTTTTTTTTGAAAGACAGAAA
65 TGA---TTTTTTTGAAA-AGAGAAA
** ** * * *
1076022 TTG------A-AAA-T--ACCT-CAAC-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATT
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTC-TGAGGCTTAACTCACCTCTCGCAATATGAGT
*******
1076075 TGATTTTTTTG--ATTTTTTT
65 TGATTTTTTTGAAAAGAGAAA
* * *
1076094 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
* *******
1076158 ATTTGATTTTTTTG--ATTTTTTT
62 AGTTGATTTTTTTGAAAAGAGAAA
* * *
1076180 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
* *******
1076244 ATTTGATTTTTTTG--ATTTTTTT
62 AGTTGATTTTTTTGAAAAGAGAAA
* * *
1076266 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
* *******
1076330 ATTTGATTTTTTTG--ATTTTTTT
62 AGTTGATTTTTTTGAAAAGAGAAA
* * *
1076352 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
* *******
1076416 ATTTGATTTTTTTG--ATTTTTTT
62 AGTTGATTTTTTTGAAAAGAGAAA
* * *
1076438 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
1076502 AGTTGGA--TTTTTGAAAA-A-AAA
62 AGTT-GATTTTTTTGAAAAGAGAAA
* * *
1076523 TTTGACAAACAGAAATTGAAAATACCTTAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAT
1 -TTGACAAACAGAAATTGAAAATACCTCAGCGTC-TGAGGCTTAACTCACCTCTCGCAATATGAG
*******
1076588 TTGATTTTTTTG--ATTTTTTT
64 TTGATTTTTTTGAAAAGAGAAA
* * *
1076608 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTC-A-GCGTC-TGAGGCTTAACTCACCTCTCGCAATATG
*
1076672 AGTTGATTTTTTTGAAAAATAGAAA
62 AGTTGATTTTTTTG-AAAAGAGAAA
** ** * * *
1076697 TT---AAA-AG----T--ACCT-CAGC-GTGTCCTGAGGATCAACTCACCTCTCGCAATATGAGT
1 TTGACAAACAGAAATTGAAAATACCTCAGCGT-CTGAGGCTTAACTCACCTCTCGCAATATGAGT
*
1076750 TGATTCTTTTGAAAAGTAGAAA
65 TGATTTTTTTGAAAAG-AGAAA
* * ** * * * *
1076772 TTG---AA-A-ATATCT--CAGCACGTGAGC--C-GAGGCTCAACTCACCTCTCGCAATATGAAT
1 TTGACAAACAGAAAT-TGAAAATACCTCAGCGTCTGAGGCTTAACTCACCTCTCGCAATATGAGT
*
1076827 TG-TTTTTTTGGAAAA-ACAAAA
65 TGATTTTTTT-GAAAAGA-GAAA
* * * * * *
1076848 TTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCATCACTCGCAATA
1 -TTGACAAACAGAAATTGAAAATACCTCAGCGTCT--G---AGGCTTAACTCACCTCTCGCAATA
* *
1076913 TGAGCTGATTTTTTTGAAACACAGAAA
60 TGAGTTGATTTTTTTGAAA-AGAGAAA
* *
1076940 TTGA-AGAACAGAAATGGAAAACACCTCAGCGTCTTGAGG-TTCAACTCACCTCTCGCAATATGA
1 TTGACA-AACAGAAATTGAAAATACCTCAGCGTC-TGAGGCTT-AACTCACCTCTCGCAATATGA
1077003 GTTGATTTTT
63 GTTGATTTTT
1077013 GACAAACAAA
Statistics
Matches: 995, Mismatches: 97, Indels: 155
0.80 0.08 0.12
Matches are distributed among these distances:
72 3 0.00
73 1 0.00
74 4 0.00
75 63 0.06
76 10 0.01
77 38 0.04
78 39 0.04
79 8 0.01
80 6 0.01
81 4 0.00
82 5 0.01
83 18 0.02
84 90 0.09
85 16 0.02
86 454 0.46
87 38 0.04
88 44 0.04
89 30 0.03
90 18 0.02
91 93 0.09
92 12 0.01
93 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (85 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAAGAGAAA
Found at i:1076101 original size:86 final size:86
Alignment explanation
Indices: 1075996--1076761 Score: 1215
Period size: 86 Copynumber: 9.0 Consensus size: 86
1075986 GCAATATAAG
*
1075996 TTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
1 TTGA-TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
1076061 CTCGCAATATGATTTGATTTTT
65 CTCGCAATATGATTTGATTTTT
1076083 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1076148 TCGCAATATGATTTGATTTTT
66 TCGCAATATGATTTGATTTTT
1076169 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1076234 TCGCAATATGATTTGATTTTT
66 TCGCAATATGATTTGATTTTT
1076255 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1076320 TCGCAATATGATTTGATTTTT
66 TCGCAATATGATTTGATTTTT
1076341 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1076406 TCGCAATATGATTTGATTTTT
66 TCGCAATATGATTTGATTTTT
1076427 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
1076492 TCGCAATATGAGTTGGA--TTT
66 TCGCAATATGA-TTTGATTTTT
****** * * *
1076512 TTGAAAAAAAATTTGACAA-ACAGAAATTGAAAATACCT-TA-GCGTCTTGAGGCTCAACTCACC
1 TTG-ATTTTTTTTTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
1076574 TCTCGCAATATGATTTGATTTTT
64 TCTCGCAATATGATTTGATTTTT
1076597 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1076662 TCGCAATATGA---G------
66 TCGCAATATGATTTGATTTTT
* * * *
1076674 TTGA--TTTTTTTGAAAAATAGAAATT-AAAAGTACCTCAGCGTGTCCTGAGGATCAACTCACCT
1 TTGATTTTTTTTTGAAAGATAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCT
* *
1076736 CTCGCAATATGAGTTGATTCTT
65 CTCGCAATATGATTTGATTTTT
1076758 TTGA
1 TTGA
1076762 AAAGTAGAAA
Statistics
Matches: 636, Mismatches: 25, Indels: 39
0.91 0.04 0.06
Matches are distributed among these distances:
74 4 0.01
75 61 0.10
77 4 0.01
78 1 0.00
83 7 0.01
84 62 0.10
85 14 0.02
86 473 0.74
87 10 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (86 bp):
TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGATTTGATTTTT
Found at i:1076212 original size:172 final size:166
Alignment explanation
Indices: 1075747--1077540 Score: 1439
Period size: 172 Copynumber: 11.0 Consensus size: 166
1075737 GTAATACGAG
* * * * * *
1075747 TTGATTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
1 TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
**** *
1075811 GCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCAC
66 GCAATATGAGTTGA-T-TTTTG---A-T-TTTTTTGAAAAACAGAAATTGAAAATACCTCA--AC
* * *
1075876 GTGAGC-TGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-ATTT
122 GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *** ** * * *
1075920 TTGAAAAATAAATTGACAA-ACGGAAATTGAAAATACCTC-A-GCGTCTTGAGGTTTAACTCACC
1 TTG---ATTTTTTTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
* *
1075982 TCTCGCAATATAAGTTGA--TTT--TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTC
62 TCTCGCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTC
*
1076043 TTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTT
127 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1076083 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA--TTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
1076148 TCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTG
64 TCGCAATATGAGTTGA--TTTTTGA--TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
*
1076213 TCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTT
125 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1076255 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA--TTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
1076320 TCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTG
64 TCGCAATATGAGTTGA--TTTTTGA--TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
*
1076385 TCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTT
125 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1076427 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA--TTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
**** * * *
1076492 TCGCAATATGAGTTGGATTTTTGAAAAAAAATTTGACAAACAGAAATTGAAAATACCT-TA-GCG
64 TCGCAATATGAGTT-GATTTTTG---ATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
*
1076555 TCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTT
125 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1076597 TTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA--TTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
1076662 TCGCAATATGA---G----TTGATTTTTTTGAAAAATAGAAATT-AAAAGTACCTCAGCGTGTCC
64 TCGCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCT
* *
1076719 TGAGGATCAACTCACCTCTCGCAATATGAGTTGATTCTT
128 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
1076758 TTGA--------AAAG-TAGAAATTGAAAATATCTCAGCACGTGAGC-CGAGGCTCAACTCACCT
1 TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCT
* * **** * *
1076813 CTCGCAATATGAATTGTTTTTTTGGAAAAACAAAATTTGAAAAACAGAATTTGAAAATACCTCAG
63 CTCGCAATATGAGTTG-ATTTTT-G----A-TTTTTTTGAAAAACAGAAATTGAAAATACCTCAA
* ** * * *
1076878 CGTGTGAGTCAAGGCTCAACTCATCACTCGCAATATGAGCTGATTTTT
121 CGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
***** * * * * *
1076926 TTGAAACACAGAAATTG-AAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCA
1 TTG----A-TTTTTTTGAAAG-ATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
* * * *
1076988 CCTCTCGCAATATGA---G----TTGA--TTTTTGACAAACAAAAATTGAAATTACCTC-A-GCG
60 CCTCTCGCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
* * *
1077042 TCTTGAGGTTCAACTCACCTATCGCAATATAAGTTGATTTTT
125 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
1077084 TTGA--------AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTC
1 TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
* *
1077140 GCAATATGA---G----CTGATTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGA
66 GCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGA
*
1077197 GGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTT
131 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * * *
1077231 TTGA-------CAAACA-A-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATC
1 TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
1077287 GCAATATGA---G----TTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGA
66 GCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGA
* *
1077345 GGCTCAACTCACCTCTTGCAATATGAGTTGA--GTT
131 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * * *
1077379 TTGA-------CAAACA-A-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTC
1 TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
* *** * *
1077435 GCAATATGAGTTGATTTTTTTAGAAACATAAATT-AAAAAAACGAAAATTGAAAATACCTCAGCG
66 GCAATATGAGTTGA--TTTTT-G--A-TTTTTTTGAAAAACA-G-AAATTGAAAATACCTCAACG
*
1077499 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
123 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1077541 GAAAAGCAGA
Statistics
Matches: 1396, Mismatches: 135, Indels: 189
0.81 0.08 0.11
Matches are distributed among these distances:
144 18 0.01
145 1 0.00
146 40 0.03
147 87 0.06
148 139 0.10
149 36 0.03
150 19 0.01
151 5 0.00
152 33 0.02
153 1 0.00
154 1 0.00
155 1 0.00
157 2 0.00
158 40 0.03
159 21 0.02
160 13 0.01
161 52 0.04
162 143 0.10
163 7 0.01
164 61 0.04
165 3 0.00
166 29 0.02
167 4 0.00
168 38 0.03
169 1 0.00
170 122 0.09
171 10 0.01
172 354 0.25
173 5 0.00
174 1 0.00
175 35 0.03
176 6 0.00
177 20 0.01
178 29 0.02
179 1 0.00
180 3 0.00
182 15 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (166 bp):
TTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
Found at i:1076257 original size:75 final size:75
Alignment explanation
Indices: 1076175--1077460 Score: 1036
Period size: 86 Copynumber: 16.1 Consensus size: 75
1076165 TTTTTTGATT
*
1076175 TTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1076240 TATGATTTGATTTTTTTGA
66 TATGA---G------TTGA
*
1076259 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1 --TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1076324 AATATGATTTGATTTTTTTGA
64 AATATGA---G------TTGA
*
1076345 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1 --TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1076410 AATATGATTTGATTTTTTTGA
64 AATATGA---G------TTGA
*
1076431 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1 --TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1076496 AATATGAGTTGGA
64 AATATGAGTT-GA
* *
1076509 TTTTTGAAAAAAAATTTGACAA-ACAGAAATTGAAAATACCT-TA-GCGTCTTGAGGCTCAACTC
1 -TTTT---------TTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
1076571 ACCTCTCGCAATATGATTTGATTTTTTTGA
55 ACCTCTCGCAATATGA---G------TTGA
*
1076601 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1 --TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
1076666 AATATGAGTTGA
64 AATATGAGTTGA
* * * * *
1076678 TTTTTTTGAAAAATAGAAATT-AAAAGTACCTCAGCGTGTCCTGAGGATCAACTCACCTCTCGCA
1 TTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
1076742 ATATGAGTTGA
65 ATATGAGTTGA
* * * * *
1076753 TTCTTTTGAAA-AGTAGAAATTGAAAATATCTCAGCACGTGAGC-CGAGGCTCAACTCACCTCTC
1 TTTTTTTGAAAGA-CAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTC
*
1076816 GCAATATGAATTG-
62 GCAATATGAGTTGA
* * * *
1076829 TTTTTTTGGAAAAACA-AAATTTGAAAA-ACAGAATTTGAAAATACCTCAG-CGTGTGA-G-TCA
1 TTTTTTT-GAAAGACAGAAA-TTGAAAATAC-----CT---CA-ACGT--GTC-T-TGAGGCTCA
*
1076889 AGGCTCAACTCATCACTCGCAATATGAGCTGA
51 A--CTC-AC-C-T--CTCGCAATATGAGTTGA
* * * ** * *
1076921 TTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACT
1 TTTTTTTGAAAGACAGAAATT---G---A-AAAT----ACCTCAAC-GTGTCTTGAGGCTCAACT
1076986 CACCTCTCGCAATATGAGTTGA
54 CACCTCTCGCAATATGAGTTGA
* * * * *
1077008 --TTTTTGACAA-ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCA
1 TTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
*
1077068 ATATAAGTTGA
65 ATATGAGTTGA
* *
1077079 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
*
1077144 TATGAGCTGA
66 TATGAGTTGA
1077154 TTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1077218 TATGAGTT-A
66 TATGAGTTGA
* * * * * *
1077227 -ATTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCA
1 TTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
1077290 ATATGAGTTGA
65 ATATGAGTTGA
* *
1077301 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAA
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1077366 TATGAGTTGA
66 TATGAGTTGA
* * * * * *
1077376 --GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCA
1 TTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
1077438 ATATGAGTTGA
65 ATATGAGTTGA
1077449 TTTTTTTAGAAA
1 TTTTTTT-GAAA
1077461 CATAAATTAA
Statistics
Matches: 1040, Mismatches: 74, Indels: 183
0.80 0.06 0.14
Matches are distributed among these distances:
71 38 0.04
72 7 0.01
73 146 0.14
74 78 0.08
75 203 0.20
76 16 0.02
77 57 0.05
78 7 0.01
79 1 0.00
81 1 0.00
82 1 0.00
83 8 0.01
84 62 0.06
85 19 0.02
86 306 0.29
87 21 0.02
88 1 0.00
89 2 0.00
90 1 0.00
91 25 0.02
92 18 0.02
93 10 0.01
94 7 0.01
97 1 0.00
98 3 0.00
103 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGA
Found at i:1076317 original size:258 final size:247
Alignment explanation
Indices: 1075722--1077540 Score: 1506
Period size: 258 Copynumber: 7.4 Consensus size: 247
1075712 TGGCCCAAGA
* * * *
1075722 CTCAACTCACCTCTCGTAATACGAGTTGA--TTT--TTTTGACA-ACAGAAATTGAAATTACCTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGACAGAAATTGAAAATACCTC
* * * * * * *****
1075782 AGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTG
66 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTG---ATTTTTTTTTG
* * *
1075847 AAAAGCAGAAATTGAAAATACCTCAGCACGTGAGC-TGAGGCTTAACTCACCTCTCGCAATATGA
128 AAAAACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *** * *
1075911 GTTGAATTTTTGAAAAATAAATTGACAA-ACGGAAATTGAAAATACCTC-A-GCGTCTTGAGG
190 GTTG-ATTTTTG---ATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
* * * *
1075971 TTTAACTCACCTCTCGCAATATAAGTTGATTTTT-TTTTTGAAAGACAGAAATTGAAAATACCTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGACAGAAATTGAAAATACCTC
1076035 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAA
66 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAA
* * *
1076100 GATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGAT
131 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
1076165 TTTTTTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGG
195 -TTTTTGA--TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
* *
1076221 CTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAAGATAGAAATTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA-----TTTTGAAAGACAGAAATTGAAA
1076286 ATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTT
59 ATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTT
* *
1076351 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
124 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
1076416 ATTTGATTTTTTTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGG
189 AGTTGA--TTTTTGA--TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
*
1076479 CTCAACTCACCTCTCGCAATATGAGTTGGATTTTTGAAAAAAAATTTGACAA-ACAGAAATTGAA
1 CTCAACTCACCTCTCGCAATATGAGTT-GATTTTTG------ATTTTGA-AAGACAGAAATTGAA
* *
1076543 AATACCT-TA-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTT
58 AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTT
* *
1076606 TTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
123 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
1076671 GA---G----TTGATTTTTTTGAAAAATAGAAATT-AAAAGTACCTCAGCGTGTCCTGAGG
188 GAGTTGATTTTTGATTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGG
* * * *
1076724 ATCAACTCACCTCTCGCAATATGAGTTGA---TT-CTTTTGAAA-AGTAGAAATTGAAAATATCT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGA-CAGAAATTGAAAATACCT
* * * *****
1076784 CAGCACGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAATTG-TTTTTTTGGAAAAACAAA
65 CA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTT-G---ATTTTT
* * * * ** * *
1076847 ATTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCATCACTCGCAAT
123 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAAT
* ***** * * *
1076912 ATGAGCTGATTTTTTTGAAACACAGAAATTG-AAGAACAGAAATGGAAAACACCTC-A-GCGTCT
186 ATGAGTTGA--TTTTTG----A-TTTTTTTGAAAG-ACAGAAATTGAAAATACCTCAACGTGTCT
1076974 TGAGG
243 TGAGG
* * * *
1076979 TTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-----CAA-ACAAAAATTGAAATTACCTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGACAGAAATTGAAAATACCTC
* * * *
1077038 -A-GCGTCTTGAGGTTCAACTCACCTATCGCAATAT-A----A----GTTGA--TTTTTTTGAAA
66 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAA
*
1077090 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA---G--
131 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
1077150 --CTGATTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
196 TTTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
* * * *
1077199 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTGA-----CAA-ACAAAAATTGAAATTACCTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGACAGAAATTGAAAATACCTC
* * *
1077258 AGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA---G------TTGA--TTTTTTTGAAA
66 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAA
*
1077312 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
131 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
1077376 ----G----TTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGG
196 TTTTGATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
* * * *
1077420 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAAACATAAATT-AAAAAAACGAAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-G----AT--TTTGAAAGACA-G-AAATT
* * *
1077484 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
55 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTT
1077541 GAAAAGCAGA
Statistics
Matches: 1336, Mismatches: 135, Indels: 203
0.80 0.08 0.12
Matches are distributed among these distances:
218 18 0.01
219 6 0.00
220 72 0.05
221 58 0.04
222 104 0.08
223 6 0.00
224 4 0.00
225 1 0.00
228 1 0.00
230 1 0.00
233 28 0.02
234 23 0.02
235 35 0.03
237 61 0.05
238 34 0.03
239 1 0.00
240 2 0.00
241 36 0.03
243 26 0.02
244 6 0.00
245 64 0.05
246 2 0.00
247 8 0.01
248 61 0.05
249 57 0.04
250 63 0.05
251 3 0.00
252 15 0.01
253 81 0.06
254 3 0.00
255 37 0.03
256 123 0.09
257 22 0.02
258 269 0.20
259 4 0.00
263 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (247 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTGAAAGACAGAAATTGAAAATACCTC
AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGATTTTTTTTTGAAA
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
Found at i:1076869 original size:13 final size:14
Alignment explanation
Indices: 1076837--1076869 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1076827 TGTTTTTTTG
1076837 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
1076851 GAAAAACAGAATTT
1 GAAAAACAAAATTT
1076865 GAAAA
1 GAAAA
1076870 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:1076912 original size:91 final size:92
Alignment explanation
Indices: 1076757--1077012 Score: 256
Period size: 91 Copynumber: 2.8 Consensus size: 92
1076747 AGTTGATTCT
** * ** * *
1076757 TTTGAAAAGTAGAAATTGAAAATATCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCACTCGCAATA
*
1076822 TGAATTG-TTTTTTTGGAAAAACA-AAA
66 TGAACTGATTTTTTT-GAAAAACAGAAA
* * *
1076848 TTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCATCACTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCACTCGCAATA
* *
1076913 TGAGCTGATTTTTTTGAAACACAGAAA
66 TGAACTGATTTTTTTGAAAAACAGAAA
* * * * * * *
1076940 -TTGAAGAACAGAAATGGAAAACACCTCAGCGTCT-TG---AGGTTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCACTCGCAATA
**
1077000 TGAGTTGATTTTT
66 TGAACTGATTTTT
1077013 GACAAACAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
87 33 0.24
90 1 0.01
91 96 0.69
92 10 0.07
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (92 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCACTCGCAATA
TGAACTGATTTTTTTGAAAAACAGAAA
Found at i:1077158 original size:73 final size:73
Alignment explanation
Indices: 1076940--1077453 Score: 676
Period size: 73 Copynumber: 7.0 Consensus size: 73
1076930 AACACAGAAA
* * * * *
1076940 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1077003 GTTGATTT
66 GTTGATTT
* * * * * * *
1077011 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATAA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1077074 GTTGATTTTT
66 GTTGA--TTT
*
1077084 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
1077149 GCTGATTTT
66 GTTGA-TTT
* *
1077158 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
1077223 GTTAATTT
66 GTTGATTT
* * * * * *
1077231 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1077296 GTTGATTTTT
66 GTTGA--TTT
*
1077306 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
1077371 GTTGAGTT
66 GTTGATTT
* * * * * *
1077379 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1077444 GTTGATTT
66 GTTGATTT
1077452 TT
1 TT
1077454 TTAGAAACAT
Statistics
Matches: 392, Mismatches: 45, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
71 60 0.15
73 160 0.41
74 70 0.18
75 102 0.26
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:1077354 original size:222 final size:221
Alignment explanation
Indices: 1076946--1077540 Score: 795
Period size: 222 Copynumber: 2.6 Consensus size: 221
1076936 GAAATTGAAG
* * * * *
1076946 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
* *
1077009 TTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTATCGCAATAT
66 TTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATAT
* *
1077072 AAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCT
131 GAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
* *
1077137 CTCGCAATATGAGCTGATTTTTTTA-A
196 CTCGCAATATGAGCTGA-GTTTTGACA
1077163 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1077228 TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATA
65 TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATA
1077293 TGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
130 TGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
* *
1077358 TCTTGCAATATGAGTTGAGTTTTGACA
195 TCTCGCAATATGAGCTGAGTTTTGACA
* * * * *
1077385 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-
* * *
1077450 TTTTTTAGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
64 ATTTTT-G--AC-----------AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
*
1077515 TCACCTCTCGCAATATGAGTTGATTT
115 TCACCTATCGCAATATGAGTTGATTT
1077541 GAAAAGCAGA
Statistics
Matches: 334, Mismatches: 22, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
217 1 0.00
218 18 0.05
219 1 0.00
220 70 0.21
221 61 0.18
222 110 0.33
223 5 0.01
224 1 0.00
226 2 0.01
237 65 0.19
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (221 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATAT
GAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
CTCGCAATATGAGCTGAGTTTTGACA
Found at i:1077366 original size:148 final size:147
Alignment explanation
Indices: 1076962--1077473 Score: 719
Period size: 148 Copynumber: 3.5 Consensus size: 147
1076952 AATGGAAAAC
* * * * *
1076962 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAA
* * * * * *
1077024 ATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATAAGTTGATTTTTTTG
66 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTG
* * *
1077087 AAAAACAGAAATTGAAAAT
129 ACAAACAAAAATTGAAATT
* * * * *
1077106 ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAGACAGAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAA
1077171 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAC
66 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAC
1077236 AAACAAAAATTGAAATT
131 AAACAAAAATTGAAATT
*
1077253 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAGA
* * *
1077318 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGA
65 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGA
1077383 CAAACAAAAATTGAAATT
130 CAAACAAAAATTGAAATT
* * *
1077401 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAAACATAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAA
*
1077466 ATTAAAAA
66 ATTGAAAA
1077474 AACGAAAATT
Statistics
Matches: 333, Mismatches: 29, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
144 7 0.02
146 37 0.11
147 112 0.34
148 143 0.43
149 34 0.10
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAA
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAC
AAACAAAAATTGAAATT
Found at i:1077678 original size:14 final size:13
Alignment explanation
Indices: 1077643--1077687 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
1077633 TTGATTTTTG
1077643 AAAAACAGAAATT
1 AAAAACAGAAATT
*
1077656 AAAAGCAGAAATT
1 AAAAACAGAAATT
1077669 GAAAAACAGAAATT
1 -AAAAACAGAAATT
1077683 AAAAA
1 AAAAA
1077688 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:1077708 original size:100 final size:101
Alignment explanation
Indices: 1077471--1077831 Score: 450
Period size: 100 Copynumber: 3.7 Consensus size: 101
1077461 CATAAATTAA
*
1077471 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
1077535 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
1077570 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1077635 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * *
1077670 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1077735 GATTTTTGAAAAGCATAAATT--------G--A---
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * *
1077758 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1077823 TTGATTTTT
64 TTGATTTTT
1077832 TTGAAAGATA
Statistics
Matches: 238, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
88 24 0.10
90 41 0.17
91 1 0.00
93 1 0.00
99 64 0.27
100 92 0.39
101 15 0.06
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:1077824 original size:90 final size:87
Alignment explanation
Indices: 1077656--1077831 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 87
1077646 AACAGAAATT
* * *
1077656 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
1077721 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
1077743 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
1077808 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
1077832 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.28
89 1 0.01
90 42 0.54
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:1078729 original size:12 final size:11
Alignment explanation
Indices: 1078702--1078735 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1078692 TTGATCCCTC
1078702 TCTCTTTTTTT
1 TCTCTTTTTTT
1078713 T-TCTTTTCTTT
1 TCTCTTTT-TTT
1078724 TCTCTTTTTTT
1 TCTCTTTTTTT
1078735 T
1 T
1078736 TTAAGATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.29
11 9 0.43
12 6 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTCTTTTTTT
Found at i:1081788 original size:116 final size:116
Alignment explanation
Indices: 1081584--1081815 Score: 428
Period size: 116 Copynumber: 2.0 Consensus size: 116
1081574 GTCAATGAAA
*
1081584 GAAAACAATGAATGTTTTGCTGTGTTATCCACCAACATATTAATGTGTGCTAAGGGAAAATTATC
1 GAAAACAATGAATGTTTTGCTGTGTTATCCACCAACATATCAATGTGTGCTAAGGGAAAATTATC
1081649 TTTAGGACTTGCTCGATTCAGGTCACGATAATCCATGCACATTCGTACTTT
66 TTTAGGACTTGCTCGATTCAGGTCACGATAATCCATGCACATTCGTACTTT
* *
1081700 GAAAACAATGAATGTTTTGCTGTGTTATCCACCAACGTATCAATGTGTGGTAAGGGAAAATTATC
1 GAAAACAATGAATGTTTTGCTGTGTTATCCACCAACATATCAATGTGTGCTAAGGGAAAATTATC
*
1081765 TTTAGGACTTGCTCGATTCAGGTCACGATAATCCATGCACATTCGTCCTTT
66 TTTAGGACTTGCTCGATTCAGGTCACGATAATCCATGCACATTCGTACTTT
1081816 ACCGTCTTTC
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (116 bp):
GAAAACAATGAATGTTTTGCTGTGTTATCCACCAACATATCAATGTGTGCTAAGGGAAAATTATC
TTTAGGACTTGCTCGATTCAGGTCACGATAATCCATGCACATTCGTACTTT
Done.