Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011505.1 Kokia drynarioides strain JFW-HI SEQ_126490, whole genome shotgun sequence
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: 365990
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 225 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:220 original size:16 final size:16
Alignment explanation
Indices: 199--231 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
189 GTGTGGGGAT
*
199 AAAAAAACAA-AAATG
1 AAAAAAAAAACAAATG
214 AAAAAAAAAACAAATG
1 AAAAAAAAAACAAATG
230 AA
1 AA
232 GGGAATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAACAAATG
Found at i:6992 original size:23 final size:23
Alignment explanation
Indices: 6957--7000 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6947 CGTCCTTCCT
6957 TGCTGACTAGACCTTCTAGAAAC
1 TGCTGACTAGACCTTCTAGAAAC
* * *
6980 TGCTGATTGGACCTTTTAGAA
1 TGCTGACTAGACCTTCTAGAA
7001 GCTATTGACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (23 bp):
TGCTGACTAGACCTTCTAGAAAC
Found at i:7013 original size:23 final size:23
Alignment explanation
Indices: 6959--7013 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
6949 TCCTTCCTTG
* *
6959 CTGACTAGACCTTCTAGAAACTG
1 CTGACTGGACCTTCTAGAAACTA
* * *
6982 CTGATTGGACCTTTTAGAAGCTA
1 CTGACTGGACCTTCTAGAAACTA
*
7005 TTGACTGGA
1 CTGACTGGA
7014 TGTCACGTCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (23 bp):
CTGACTGGACCTTCTAGAAACTA
Found at i:7255 original size:19 final size:20
Alignment explanation
Indices: 7231--7271 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
7221 TTTTTCAGAA
7231 AAAGTCAACGGTCAAC-GTC
1 AAAGTCAACGGTCAACGGTC
*
7250 AAAGTCAATGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
7270 AA
1 AA
7272 TGATCAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:7289 original size:27 final size:26
Alignment explanation
Indices: 7234--7289 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
7224 TTCAGAAAAA
*
7234 GTCAACGGTCAACGTCAAAGTCAATG
1 GTCAACGGTCAACGTCAAAGTCAAAG
*
7260 GTCAACGGTCAATGATCAAAGTCAAAG
1 GTCAACGGTCAACG-TCAAAGTCAAAG
7287 GTC
1 GTC
7290 GGTCAACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GTCAACGGTCAACGTCAAAGTCAAAG
Found at i:11708 original size:21 final size:21
Alignment explanation
Indices: 11682--11724 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11672 AGTAAAGGTC
11682 ACACCTACCCTAAGCTCTTTA
1 ACACCTACCCTAAGCTCTTTA
11703 ACACCTACCCTAAGCTCTTTA
1 ACACCTACCCTAAGCTCTTTA
11724 A
1 A
11725 AGGAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (21 bp):
ACACCTACCCTAAGCTCTTTA
Found at i:14054 original size:19 final size:21
Alignment explanation
Indices: 14012--14061 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
14002 TTTTAGATAT
* *
14012 ATATTTATATTGTTTTTTTTA
1 ATATTTATATTGTTTTTATAA
14033 ATATTTA-ATTG-TTTTATAA
1 ATATTTATATTGTTTTTATAA
14052 ATATTT-TATT
1 ATATTTATATT
14062 TATTGAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 15 0.58
20 4 0.15
21 7 0.27
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (21 bp):
ATATTTATATTGTTTTTATAA
Found at i:22318 original size:24 final size:24
Alignment explanation
Indices: 22258--22319 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
22248 TAGATTAATA
* *
22258 AGAGTTTAACTCAAACACATGAAC
1 AGAGTTTAACTGAAACACATAAAC
*
22282 AGAG-TTAATTGAAACA-ATTAAAC
1 AGAGTTTAACTGAAACACA-TAAAC
22305 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
22320 GATTATTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.56
24 13 0.41
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACACATAAAC
Found at i:35994 original size:73 final size:70
Alignment explanation
Indices: 35917--36146 Score: 192
Period size: 73 Copynumber: 3.2 Consensus size: 70
35907 GGCTATACCT
35917 ACGGGCATGTGTCAGACCGTGTGCCTATACTATTTTGAAAGTTAAGAAACAGTGAGTTACACGAC
1 ACGGGCATGTG-CAGACCGTGTGCCTATACT-TTTTGAAAG-TAAGAAACAGTGAGTTACACGAC
35982 CTGGACAC
63 CTGGACAC
* * ** * * * * * * **
35990 ACGGGCATGTGCTAGACTGTGAGGATATTCTGTGTGTAAAATAAGAAATAGTGAGTTACATGAGT
1 ACGGGCATGTGC-AGACCGTGTGCCTATACTTTTTG-AAAGTAAGAAACAGTGAGTTACACGACC
36055 TGGACAC
64 TGGACAC
* * * * * * *
36062 ACGGGCGTGTGCCAAACCGTGTGCCCATACTGTTTTGCATGAACAAAAACAGTGAGTTACAC-AG
1 ACGGGCATGTG-CAGACCGTGTGCCTATACT-TTTTGAAAGTA-AGAAACAGTGAGTTACACGA-
36126 CCTGGACAC
62 CCTGGACAC
*
36135 ACAGGCATGTGC
1 ACGGGCATGTGC
36147 CAAACTGTGT
Statistics
Matches: 118, Mismatches: 33, Indels: 13
0.72 0.20 0.08
Matches are distributed among these distances:
72 56 0.47
73 62 0.53
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (70 bp):
ACGGGCATGTGCAGACCGTGTGCCTATACTTTTTGAAAGTAAGAAACAGTGAGTTACACGACCTG
GACAC
Found at i:36303 original size:39 final size:38
Alignment explanation
Indices: 36242--36356 Score: 124
Period size: 39 Copynumber: 3.0 Consensus size: 38
36232 GAAAGTTATC
** *
36242 AAATTACTGAACTGGCAGTGACACTATAAACACTGCAAT
1 AAATTACT-AACTGATAGTGACACTGTAAACACTGCAAT
* *
36281 AAATTACTAAACTGATAATGACACTGTAAACACTACAAT
1 AAATTACT-AACTGATAGTGACACTGTAAACACTGCAAT
* * *
36320 -ACTATACTGACCGATAGTGACACTGTAAACACTGCAA
1 AAAT-TACTAACTGATAGTGACACTGTAAACACTGCAA
36357 AATAATATTG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 27 0.42
39 37 0.58
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (38 bp):
AAATTACTAACTGATAGTGACACTGTAAACACTGCAAT
Found at i:36349 original size:38 final size:39
Alignment explanation
Indices: 36258--36352 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 39
36248 CTGAACTGGC
* * *
36258 AGTGACACTATAAACACTGCAATAAATTACTAAACTGAT
1 AGTGACACTGTAAACACTACAATAAATTACTAAACCGAT
* * *
36297 AATGACACTGTAAACACTACAAT-ACTATACT-GACCGAT
1 AGTGACACTGTAAACACTACAATAAAT-TACTAAACCGAT
36335 AGTGACACTGTAAACACT
1 AGTGACACTGTAAACACT
36353 GCAAAATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 24 0.50
39 24 0.50
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (39 bp):
AGTGACACTGTAAACACTACAATAAATTACTAAACCGAT
Found at i:38905 original size:20 final size:20
Alignment explanation
Indices: 38877--38918 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
38867 AGCTTTTGAC
38877 TAATCATTT-TGATGTTATTT
1 TAATCATTTATGAT-TTATTT
*
38897 TAATGATTTAATGATTTATTT
1 TAATCATTT-ATGATTTATTT
38918 T
1 T
38919 TGATTTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (20 bp):
TAATCATTTATGATTTATTT
Found at i:38924 original size:19 final size:21
Alignment explanation
Indices: 38886--38925 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
38876 CTAATCATTT
38886 TGATGTTATTTTAATGATTTAA
1 TGATGTTATTTT-ATGATTTAA
38908 TGAT-TTATTTT-TGATTTA
1 TGATGTTATTTTATGATTTA
38926 CCTTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
TGATGTTATTTTATGATTTAA
Found at i:39577 original size:19 final size:19
Alignment explanation
Indices: 39553--39606 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
39543 AGGTGACAGC
*
39553 TCTACCAATACAATACTCT
1 TCTACCAATACAAGACTCT
*
39572 TCTACCGATACAAGAGACTCT
1 TCTACCAATAC-A-AGACTCT
*
39593 TCTACCAAAACAAG
1 TCTACCAATACAAG
39607 TTATACATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 15 0.52
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.24
Consensus pattern (19 bp):
TCTACCAATACAAGACTCT
Found at i:42977 original size:111 final size:111
Alignment explanation
Indices: 42783--43003 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
42773 TCAGTCCTCC
* *
42783 GCTTGGCTTGAAAACATTCTTAGAAAAACCATTTAAATAAATTGAGTATGAAACAATGGTGATGC
1 GCTTGGCTTGAAAACATTCTTAGAAAAACCATTTAAACAAATTAAGTATGAAACAATGGTGATGC
42848 AATTCATTACCAACTCAATCCAA-GAGGCAATGAAAACCAACCGACT
66 AATTCATTACCAACTCAATCCAATG-GGCAATGAAAACCAACCGACT
42894 GCTTGGCTTGAAAACATTCTTAGAAAAACCATTTAAACAAATTAAGTATGAAACAATGGTGATGC
1 GCTTGGCTTGAAAACATTCTTAGAAAAACCATTTAAACAAATTAAGTATGAAACAATGGTGATGC
*
42959 AATTCATTACCAACTCAATCCAATGGGTAATGAAAACCAACCGAC
66 AATTCATTACCAACTCAATCCAATGGGCAATGAAAACCAACCGAC
43004 CAAGTATATC
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
111 105 0.99
112 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (111 bp):
GCTTGGCTTGAAAACATTCTTAGAAAAACCATTTAAACAAATTAAGTATGAAACAATGGTGATGC
AATTCATTACCAACTCAATCCAATGGGCAATGAAAACCAACCGACT
Found at i:48316 original size:21 final size:22
Alignment explanation
Indices: 48269--48319 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
48259 TATTATTTTT
48269 TAATTTT-TTTAAATATTTATA
1 TAATTTTATTTAAATATTTATA
* *
48290 TTATTTTATTTTAATATTTA-A
1 TAATTTTATTTAAATATTTATA
48311 TAATTTTAT
1 TAATTTTAT
48320 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TAATTTTATTTAAATATTTATA
Found at i:48405 original size:18 final size:18
Alignment explanation
Indices: 48379--48413 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48369 TATGTGTTCT
*
48379 AAATTACATAATATATAA
1 AAATAACATAATATATAA
48397 AAATAACATAATATATA
1 AAATAACATAATATATA
48414 GTATTATAAA
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:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:51091 original size:86 final size:89
Alignment explanation
Indices: 50934--51106 Score: 212
Period size: 86 Copynumber: 2.0 Consensus size: 89
50924 AAAAATAAAA
* **
50934 AATTAAGCCTCTCTGTTTTTTATACTTAATTGAGCACTTGAACTTTCAAAATGTATAAAAAAAGC
1 AATTAAGCCTCTCTGTTTTTTATACTCAATTGAGCACTTGAACTTTCAAAATACATAAAAAAAGC
* *
50999 CTTC-AAACTTTTGCAAAAAAAGC
66 CCTCAAAACTTTTGAAAAAAAAGC
* * *
51022 AATTAAGCC-C-CTGTTTTTT-TCACTCAATTGGGTACTTGAACTTTCAAAATACAT-CAAAAAG
1 AATTAAGCCTCTCTGTTTTTTAT-ACTCAATTGAGCACTTGAACTTTCAAAATACATAAAAAAAG
*
51083 ACCCTCAAAATTTTTGAAAAAAAA
65 -CCCTCAAAACTTTTGAAAAAAAA
51107 AAAAAAAAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 7 0.10
86 41 0.56
87 16 0.22
88 9 0.12
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (89 bp):
AATTAAGCCTCTCTGTTTTTTATACTCAATTGAGCACTTGAACTTTCAAAATACATAAAAAAAGC
CCTCAAAACTTTTGAAAAAAAAGC
Found at i:51251 original size:10 final size:10
Alignment explanation
Indices: 51185--51255 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
51175 AATTTTTTAG
51185 AAAAATTATT
1 AAAAATTATT
51195 --AAATT-TT
1 AAAAATTATT
*
51202 AATAAAATATT
1 AA-AAATTATT
51213 -AAAATATATT
1 AAAAAT-TATT
51223 -AAAA-T-TT
1 AAAAATTATT
51230 AAAAA-T-TT
1 AAAAATTATT
51238 AAAAATTATT
1 AAAAATTATT
51248 AAAAATTA
1 AAAAATTA
51256 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
7 4 0.08
8 18 0.35
9 4 0.08
10 23 0.45
11 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAAATTATT
Found at i:51252 original size:18 final size:18
Alignment explanation
Indices: 51185--51254 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
51175 AATTTTTTAG
*
51185 AAAAATTATT-AAATTTT
1 AAAAATTATTAAAAATTT
*
51202 AATAAAATATTAAAATATATT
1 AA-AAATTATTAAAA-AT-TT
51223 -AAAA-T-TTAAAAATTT
1 AAAAATTATTAAAAATTT
51238 AAAAATTATTAAAAATT
1 AAAAATTATTAAAAATT
51255 AGAATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 9 0.20
18 17 0.39
19 6 0.14
20 2 0.05
21 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTATTAAAAATTT
Found at i:51291 original size:10 final size:10
Alignment explanation
Indices: 51284--51328 Score: 72
Period size: 10 Copynumber: 4.5 Consensus size: 10
51274 TCGTAAAAAA
51284 ATAAAAAATT
1 ATAAAAAATT
51294 ATAAAAAATT
1 ATAAAAAATT
*
51304 ATAAAAAATC
1 ATAAAAAATT
*
51314 ATAAAAAAAT
1 ATAAAAAATT
51324 ATAAA
1 ATAAA
51329 GTGCATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:51307 original size:20 final size:20
Alignment explanation
Indices: 51269--51328 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
51259 TTTTTTTTAT
*
51269 AAAAATCGT-AAAAAA-ATA
1 AAAAATCATAAAAAAATATA
* *
51287 AAAAATTATAAAAAATTATA
1 AAAAATCATAAAAAAATATA
51307 AAAAATCATAAAAAAATATA
1 AAAAATCATAAAAAAATATA
51327 AA
1 AA
51329 GTGCATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 7 0.20
19 5 0.14
20 23 0.66
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAATCATAAAAAAATATA
Found at i:51600 original size:18 final size:18
Alignment explanation
Indices: 51579--51632 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
51569 TTTACTACTG
51579 TATAAATTTTTATATTTT
1 TATAAATTTTTATATTTT
*
51597 TATACA-TTTTATAATTTT
1 TATAAATTTTTAT-ATTTT
*
51615 T-TACGATTTTTAT-TTTT
1 TATA-AATTTTTATATTTT
51632 T
1 T
51633 TTTTCTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 13 0.42
18 12 0.39
19 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATAAATTTTTATATTTT
Found at i:51606 original size:17 final size:17
Alignment explanation
Indices: 51586--51632 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
51576 CTGTATAAAT
51586 TTTTATATTTTTATAC-A
1 TTTTATATTTTT-TACGA
51603 TTTTATAATTTTTTACGA
1 TTTTAT-ATTTTTTACGA
51621 TTTT-TATTTTTT
1 TTTTATATTTTTT
51633 TTTTCTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 11 0.39
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTATATTTTTTACGA
Found at i:57587 original size:90 final size:90
Alignment explanation
Indices: 57344--57609 Score: 453
Period size: 89 Copynumber: 3.0 Consensus size: 90
57334 AAATACACAC
57344 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
*
57409 TTAATGTCAGATATTTGTACAACTG
66 TTAATGTCAGATATTTGTACAACGG
* * * *
57434 AATT-ATGGTTGGTAACAAATATTTTGACAAGATCTGGGAAAGATTGATTAATGGAATCAAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
* *
57498 TTAATGCCGGATATTTGTACAACGG
66 TTAATGTCAGATATTTGTACAACGG
*
57523 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAACCGAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
57588 TTAATGTCAGATATTTGTACAA
66 TTAATGTCAGATATTTGTACAA
57610 TAGAATTACG
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
89 82 0.51
90 79 0.49
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (90 bp):
AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
TTAATGTCAGATATTTGTACAACGG
Found at i:57616 original size:90 final size:89
Alignment explanation
Indices: 57344--57617 Score: 442
Period size: 90 Copynumber: 3.1 Consensus size: 89
57334 AAATACACAC
57344 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
57409 TTAATGTCAGATATTTGTACAACTG
66 TTAATGTCAGATATTTGTACAA-TG
* * * *
57434 AATT-ATGGTTGGTAACAAATATTTTGACAAGATCTGGGAAAGATTGATTAATGGAATCAAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
* * *
57498 TTAATGCCGGATATTTGTACAACGG
66 TTAATGTCAGATATTTGTACAA-TG
*
57523 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAACCGAAAGA
1 AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
57588 TTAATGTCAGATATTTGTACAATAG
66 TTAATGTCAGATATTTGTACAAT-G
57613 AATTA
1 AATTA
57618 CGAAATTTAG
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
89 82 0.49
90 85 0.51
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.30
Consensus pattern (89 bp):
AATTAACGGTCGGTAACAAATATTTTGACAAGATCTGAGAAAGATTGATTAATGGAATCGAAAGA
TTAATGTCAGATATTTGTACAATG
Found at i:62871 original size:24 final size:24
Alignment explanation
Indices: 62839--63015 Score: 264
Period size: 24 Copynumber: 7.4 Consensus size: 24
62829 GTTCAGTACA
* *
62839 TTTACGCTCGTCAACTAATATACG
1 TTTACGCTCGTCAGCTAATATGCG
*
62863 TTTACGCTCGCCAGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
62887 TTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
* *
62911 TTTACGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCG
*
62935 TTTACGCTCGTCAGCTAATATGCA
1 TTTACGCTCGTCAGCTAATATGCG
* *
62959 TTTACGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCG
* *
62983 TTTACGCTCGTCAACTAATATGCA
1 TTTACGCTCGTCAGCTAATATGCG
63007 TTTACGCTC
1 TTTACGCTC
63016 ACCAGCTATT
Statistics
Matches: 137, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 137 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTAATATGCG
Found at i:62913 original size:48 final size:48
Alignment explanation
Indices: 62839--63023 Score: 307
Period size: 48 Copynumber: 3.9 Consensus size: 48
62829 GTTCAGTACA
* * *
62839 TTTACGCTCGTCAACTAATATACGTTTACGCTCGCCAGCTAATATGCG
1 TTTACGCTCGTCAACTAATATGCATTTACGCTCGCCAGCTAATATACG
* *
62887 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAACTAATATGCATTTACGCTCGCCAGCTAATATACG
*
62935 TTTACGCTCGTCAGCTAATATGCATTTACGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAACTAATATGCATTTACGCTCGCCAGCTAATATACG
*
62983 TTTACGCTCGTCAACTAATATGCATTTACGCTCACCAGCTA
1 TTTACGCTCGTCAACTAATATGCATTTACGCTCGCCAGCTA
63024 TTCAGATAAA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (48 bp):
TTTACGCTCGTCAACTAATATGCATTTACGCTCGCCAGCTAATATACG
Found at i:64238 original size:21 final size:21
Alignment explanation
Indices: 64214--64253 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64204 AATTTATTAT
* *
64214 TCATTTCTTTCTTTCTTTCAG
1 TCATTTCTTTATTTATTTCAG
64235 TCATTTCTTTATTTATTTC
1 TCATTTCTTTATTTATTTC
64254 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.20, G:0.03, T:0.65
Consensus pattern (21 bp):
TCATTTCTTTATTTATTTCAG
Found at i:73010 original size:26 final size:26
Alignment explanation
Indices: 72966--73018 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
72956 AAGATTAACA
*
72966 TCGATGGAGGTTTCAATGGCCGAAAG
1 TCGATGGAGCTTTCAATGGCCGAAAG
** *
72992 TCGATGGAGCTTTTGATGGTCGAAAG
1 TCGATGGAGCTTTCAATGGCCGAAAG
73018 T
1 T
73019 TTAGAGCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (26 bp):
TCGATGGAGCTTTCAATGGCCGAAAG
Found at i:77342 original size:5 final size:5
Alignment explanation
Indices: 77332--77357 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
77322 GAAAGAGGCC
77332 CCCCA CCCCA CCCCA CCCCA CCCCA C
1 CCCCA CCCCA CCCCA CCCCA CCCCA C
77358 GATTGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.81, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCCA
Found at i:78073 original size:5 final size:5
Alignment explanation
Indices: 78063--78087 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
78053 AAAGTGATGG
78063 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
78088 CGGGGTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:97712 original size:21 final size:22
Alignment explanation
Indices: 97686--97727 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
97676 GATCAAAAAG
97686 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
97707 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
97728 ACATGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:97921 original size:25 final size:23
Alignment explanation
Indices: 97863--97926 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
97853 TTCCTAAAAT
97863 GGAGAAA-AAAGGATGGTGAGAGAA
1 GGAGAAATAAAGG--GGTGAGAGAA
97887 GGAGAAATAAAGGGGTGAGATGAA
1 GGAGAAATAAAGGGGTGAGA-GAA
* *
97911 GTGGGACATAAAGGGG
1 G-GAGAAATAAAGGGG
97927 AAGAATAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 7 0.20
24 11 0.31
25 17 0.49
ACGTcount: A:0.44, C:0.02, G:0.44, T:0.11
Consensus pattern (23 bp):
GGAGAAATAAAGGGGTGAGAGAA
Found at i:97983 original size:16 final size:18
Alignment explanation
Indices: 97954--97986 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
97944 TAATGTGCCA
97954 AACTATTTTCGTGTTTGT
1 AACTATTTTCGTGTTTGT
97972 AACT-TTTT-GTGTTTG
1 AACTATTTTCGTGTTTG
97987 ACTGTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (18 bp):
AACTATTTTCGTGTTTGT
Found at i:101051 original size:15 final size:15
Alignment explanation
Indices: 101031--101063 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
101021 CCAACTTTGA
101031 TTTTAT-TTTCTATTT
1 TTTTATCTTT-TATTT
101046 TTTTATCTTTTATTT
1 TTTTATCTTTTATTT
101061 TTT
1 TTT
101064 GTACTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATCTTTTATTT
Found at i:106417 original size:21 final size:19
Alignment explanation
Indices: 106379--106417 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
106369 TTACTTTAAT
*
106379 CCATTTTGTTTTGTAATTA
1 CCATTTTGTTTAGTAATTA
106398 CCATTTTGTCCTTAGTAATT
1 CCATTTTGT--TTAGTAATT
106418 TTTAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (19 bp):
CCATTTTGTTTAGTAATTA
Found at i:109042 original size:51 final size:51
Alignment explanation
Indices: 108937--109042 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 51
108927 TATTACTAGC
* * * * *
108937 TAAATTTGTTAAATCATGACGAAATTGATAAAATATGTAAATGTTGGGGGT
1 TAAAATTGTTAAATCAAGACGAAATTGATAAAATACGTAAATGTTGAGGAT
* * * *
108988 TAAAATTGTTGAATCAAGACTAAATTGATAAGATGCGTAAAT-TTGTAGGAT
1 TAAAATTGTTAAATCAAGACGAAATTGATAAAATACGTAAATGTTG-AGGAT
109039 TAAA
1 TAAA
109043 TTTATTATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 3 0.07
51 42 0.93
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (51 bp):
TAAAATTGTTAAATCAAGACGAAATTGATAAAATACGTAAATGTTGAGGAT
Found at i:112690 original size:18 final size:20
Alignment explanation
Indices: 112652--112693 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
112642 ATAAGCTTCT
112652 TAATCAAATTTAAAATCACA
1 TAATCAAATTTAAAATCACA
*
112672 TAATC-AATTT-AATTCACA
1 TAATCAAATTTAAAATCACA
112690 TAAT
1 TAAT
112694 AAAGAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 5 0.24
20 5 0.24
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATCAAATTTAAAATCACA
Found at i:113971 original size:24 final size:24
Alignment explanation
Indices: 113943--113993 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
113933 AGAAATAATC
* *
113943 TTTCAGCTAAACTCTGTTTATTTG
1 TTTCAACTAAACTCTGTTTAGTTG
*
113967 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAACTAAACTCTGTTTAGTTG
113991 TTT
1 TTT
113994 GAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.53
Consensus pattern (24 bp):
TTTCAACTAAACTCTGTTTAGTTG
Found at i:114002 original size:24 final size:24
Alignment explanation
Indices: 113951--114005 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
113941 TCTTTCAGCT
* *
113951 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTAGTTGTTTCAATC
* *
113975 AAACTCTGTTTAGTTGTTTGAGTC
1 AAACTCTGTTTAGTTGTTTCAATC
113999 AAACTCT
1 AAACTCT
114006 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTTAGTTGTTTCAATC
Found at i:116499 original size:26 final size:26
Alignment explanation
Indices: 116470--116519 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
116460 TCTTTCTCTT
*
116470 ATATTTTTATAATATTA-AATAATAAA
1 ATATTATTAT-ATATTATAATAATAAA
*
116496 ATATTATTATTTATTATAATAATA
1 ATATTATTATATATTATAATAATA
116520 TTATTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTATTATATATTATAATAATAAA
Found at i:116516 original size:18 final size:18
Alignment explanation
Indices: 116495--116529 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
116485 TAAATAATAA
* *
116495 AATATTATTATTTATTAT
1 AATAATATTATTAATTAT
116513 AATAATATTATTAATTA
1 AATAATATTATTAATTA
116530 ATATATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATATTATTAATTAT
Found at i:116519 original size:21 final size:20
Alignment explanation
Indices: 116491--116534 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
116481 ATATTAAATA
* *
116491 ATAAAATATTATTATTTATT
1 ATAAAATATTATTAATTAAT
116511 ATAATAATATTATTAATTAAT
1 ATAA-AATATTATTAATTAAT
116532 ATA
1 ATA
116535 TCTTTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTAATTAAT
Found at i:118016 original size:23 final size:23
Alignment explanation
Indices: 117986--118036 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
117976 TCATAACACA
117986 ATTTCATCAAGGGTAAAAATGGC
1 ATTTCATCAAGGGTAAAAATGGC
118009 ATTTCATCAAGGGTAAAAATGGC
1 ATTTCATCAAGGGTAAAAATGGC
118032 ATTTC
1 ATTTC
118037 CAGTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (23 bp):
ATTTCATCAAGGGTAAAAATGGC
Found at i:119521 original size:21 final size:22
Alignment explanation
Indices: 119484--119526 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
119474 ACTTTCATCA
*
119484 TTAAGCTTTAATTAACC-ATTT
1 TTAACCTTTAATTAACCTATTT
119505 TTAACCTTT-ATTAAACCTATTT
1 TTAACCTTTAATT-AACCTATTT
119527 ATAATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAACCTTTAATTAACCTATTT
Found at i:120137 original size:16 final size:15
Alignment explanation
Indices: 120118--120156 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
120108 TAGTGTTGAA
120118 ATTTTTTATCAAATGG
1 ATTTTTT-TCAAATGG
* *
120134 ATTTTTTTTAGATGG
1 ATTTTTTTCAAATGG
120149 ATTTTTTT
1 ATTTTTTT
120157 ATGTTTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (15 bp):
ATTTTTTTCAAATGG
Found at i:121512 original size:20 final size:19
Alignment explanation
Indices: 121496--121535 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
121486 AATTTGGTCT
121496 CAAAGTCGCGACATTGGAAGGC
1 CAAAGTCGCGACATT-G--GGC
121518 CAAAGTCGCGACATTGGG
1 CAAAGTCGCGACATTGGG
121536 TTATAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
21 1 0.06
22 15 0.83
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (19 bp):
CAAAGTCGCGACATTGGGC
Found at i:122369 original size:33 final size:32
Alignment explanation
Indices: 122300--122380 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
122290 TCATGTTAGT
*
122300 TTTTCTTTTTC--TTCTTTCCTCTTATTGCTT
1 TTTTCTTTTTCTTTTCTTTCCTCTTATTGCTG
122330 TATTTCTTTTTCTTTTCTTTCCTCTTAGTTTG-TG
1 T-TTTCTTTTTCTTTTCTTTCCTCTTA--TTGCTG
122364 TTTTCTTTCCTTCTTTT
1 TTTTCTTT--TTCTTTT
122381 TGTTAATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 1 0.02
31 10 0.23
33 20 0.47
34 2 0.05
35 10 0.23
ACGTcount: A:0.04, C:0.21, G:0.05, T:0.70
Consensus pattern (32 bp):
TTTTCTTTTTCTTTTCTTTCCTCTTATTGCTG
Found at i:124296 original size:18 final size:18
Alignment explanation
Indices: 124269--124308 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
124259 GAAAGGAATG
*
124269 GCATACTGGCTCGTTAGA
1 GCATACTGGCTCGTAAGA
*
124287 GCATATTGGCTCGTAAGA
1 GCATACTGGCTCGTAAGA
124305 GCAT
1 GCAT
124309 TATAGGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (18 bp):
GCATACTGGCTCGTAAGA
Found at i:131715 original size:18 final size:18
Alignment explanation
Indices: 131692--131731 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
131682 GAAAGGAATG
* *
131692 GCATACTGGCTTGTTAGA
1 GCATACTGGCTCGTAAGA
131710 GCATACTGGCTCGTAAGA
1 GCATACTGGCTCGTAAGA
131728 GCAT
1 GCAT
131732 TATTAGATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (18 bp):
GCATACTGGCTCGTAAGA
Found at i:139799 original size:19 final size:19
Alignment explanation
Indices: 139775--139812 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
139765 CTTTTAAAAA
139775 TAGCAAATGATGTGACAAC
1 TAGCAAATGATGTGACAAC
139794 TAGCAAATGATGTGACAAC
1 TAGCAAATGATGTGACAAC
139813 GACGGAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (19 bp):
TAGCAAATGATGTGACAAC
Found at i:139988 original size:20 final size:19
Alignment explanation
Indices: 139960--139999 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
139950 TTGATGTGCT
*
139960 TGCTAGTTTTCTTTTTTATC
1 TGCTAG-TTTCTTGTTTATC
*
139980 TGCTTGTTTCTTGTTTATC
1 TGCTAGTTTCTTGTTTATC
139999 T
1 T
140000 TTCCGGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.07, C:0.15, G:0.12, T:0.65
Consensus pattern (19 bp):
TGCTAGTTTCTTGTTTATC
Found at i:141041 original size:34 final size:34
Alignment explanation
Indices: 141003--141069 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
140993 TGCAGTTGCA
141003 GAGAAACGAAACATTTGAAGCCCAGCCCATTTCG
1 GAGAAACGAAACATTTGAAGCCCAGCCCATTTCG
*
141037 GAGAAACGAAATATTTGAAGCCCAGCCCATTTC
1 GAGAAACGAAACATTTGAAGCCCAGCCCATTTC
141070 AAAATTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (34 bp):
GAGAAACGAAACATTTGAAGCCCAGCCCATTTCG
Found at i:155535 original size:6 final size:6
Alignment explanation
Indices: 155526--155567 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
155516 TCTCATTTCA
*
155526 ACCTCT ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC
1 ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC
155568 CCTACTAGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.64, G:0.00, T:0.19
Consensus pattern (6 bp):
ACCTCC
Found at i:157328 original size:18 final size:18
Alignment explanation
Indices: 157295--157329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
157285 TAGTTGAATC
**
157295 AATTTTTAATTTTTTATA
1 AATTTTTAATGATTTATA
157313 AATTTTTAATGATTTAT
1 AATTTTTAATGATTTAT
157330 TTAGATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
AATTTTTAATGATTTATA
Found at i:163029 original size:30 final size:30
Alignment explanation
Indices: 162694--163033 Score: 270
Period size: 29 Copynumber: 11.5 Consensus size: 30
162684 TTTCAGAGAA
* *
162694 TTTG-GGGTTAAAATATAATTTTGGAAAAG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
*
162723 TTT-AGGGGT-AAAATGTAATTTTGGGAAAG
1 TTTGA-GGGTCAAAATGTAATTTTGGAAAAG
*
162752 TTTGAGTGGTCAAAATGTGATTTTAGG-AAAG
1 TTTGAG-GGTCAAAATGTAATTTT-GGAAAAG
* * ** * *
162783 TTCGA-GGTCAAAATATGGTTTTGGGAATG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
* * *
162812 TTTG-GATGTCAAAATGCAATTTTAGAAAAG
1 TTTGAG-GGTCAAAATGTAATTTTGGAAAAG
* * * * *
162842 TTT-ACGATCAAAATATGATTTTGGGAAAG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
* *
162871 TTCG-GAGGTTAAAATGTAATTTTGGAAAAG
1 TTTGAG-GGTCAAAATGTAATTTTGGAAAAG
* * *
162901 TTTGAGGGTCAAAATGAAACTTAGGAAAAG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
* *
162931 TTT-AGGGGTTAAAATGAAATTTTGGAAAAG
1 TTTGA-GGGTCAAAATGTAATTTTGGAAAAG
* * *
162961 TTT-AAGGTCAAAATGAAATTTTGGAAAGG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
* *
162990 TTT-AGGGTTAAAATGTAATTTTAGAAAAG
1 TTTGAGGGTCAAAATGTAATTTTGGAAAAG
*
163019 TTTGAGGGTTAAAAT
1 TTTGAGGGTCAAAAT
163034 CGAATTTCTA
Statistics
Matches: 249, Mismatches: 47, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.01
29 115 0.46
30 109 0.44
31 21 0.08
32 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
TTTGAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:163033 original size:59 final size:57
Alignment explanation
Indices: 162698--163053 Score: 274
Period size: 59 Copynumber: 6.0 Consensus size: 57
162688 AGAGAATTTG
* * *
162698 GGGTTAAAATATAATTTTGGAAAAGTTTAGGGGT-AAAATGTAATTTTGGGAAAGTTTGA
1 GGGTTAAAATGTAATTTTAGAAAAGTTTA-GGGTCAAAATGAAATTTT-GGAAAGTTT-A
* * * * ** *
162757 GTGGTCAAAATGTGATTTTAGGAAAG-TTCGAGGTCAAAAT-ATGGTTTTGGGAATGTTT-
1 G-GGTTAAAATGTAATTTTAGAAAAGTTTAG-GGTCAAAATGA-AATTTT-GGAAAGTTTA
* * * * * **
162815 GGATGTCAAAATGCAATTTTAGAAAAGTTTACGATCAAAAT-ATGATTTTGGGAAAGTTCG
1 GG--GTTAAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATGA-AATTTT-GGAAAGTTTA
* * *
162875 GAGGTTAAAATGTAATTTTGGAAAAGTTTGAGGGTCAAAATGAAACTTAGGAAAAGTTTA
1 G-GGTTAAAATGTAATTTTAGAAAAGTTT-AGGGTCAAAATGAAATTTTGG-AAAGTTTA
* * *
162935 GGGGTTAAAATGAAATTTTGGAAAAGTTTAAGGTCAAAATGAAATTTTGGAAAGGTTTA
1 -GGGTTAAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATGAAATTTTGGAAA-GTTTA
* *
162994 GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGTTAAAATCG-AATTTCTAGAAAGTTTA
1 GGGTTAAAATGTAATTTTAGAAAAGTTT-AGGGTCAAAAT-GAAATTT-TGGAAAGTTTA
163053 G
1 G
163054 AGACCTTATG
Statistics
Matches: 242, Mismatches: 38, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
57 1 0.00
58 31 0.13
59 117 0.48
60 90 0.37
61 3 0.01
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (57 bp):
GGGTTAAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATGAAATTTTGGAAAGTTTA
Found at i:163040 original size:30 final size:29
Alignment explanation
Indices: 162675--163053 Score: 200
Period size: 29 Copynumber: 12.9 Consensus size: 29
162665 AAAAGGGCTG
* * * *
162675 AAAATGAAGTTTCAGAGAA-TTTGGGGTT
1 AAAATGAAATTTTAGAAAAGTTTAGGGTT
* *
162703 AAAAT-ATAATTTTGGAAAAGTTTAGGGGT
1 AAAATGA-AATTTTAGAAAAGTTTAGGGTT
* * * *
162732 AAAATGTAATTTTGGGAAAGTTTGAGTGGTC
1 AAAATGAAATTTTAGAAAAGTTT-AG-GGTT
** * * *
162763 AAAATGTGATTTTAGGAAAG-TTCGAGGTC
1 AAAATGAAATTTTAGAAAAGTTTAG-GGTT
** * * * *
162792 AAAAT-ATGGTTTTGGGAATGTTT-GGATGTC
1 AAAATGA-AATTTTAGAAAAGTTTAGG--GTT
* * * *
162822 AAAATGCAATTTTAGAAAAGTTTACGATC
1 AAAATGAAATTTTAGAAAAGTTTAGGGTT
* * * **
162851 AAAAT-ATGATTTTGGGAAAGTTCGGAGGTT
1 AAAATGA-AATTTTAGAAAAGTTTAG-GGTT
* * *
162881 AAAATGTAATTTTGGAAAAGTTTGAGGGTC
1 AAAATGAAATTTTAGAAAAGTTT-AGGGTT
*
162911 AAAATGAAA-CTTAGGAAAAGTTTAGGGGTT
1 AAAATGAAATTTTA-GAAAAGTTTA-GGGTT
* * *
162941 AAAATGAAATTTTGGAAAAGTTTAAGGTC
1 AAAATGAAATTTTAGAAAAGTTTAGGGTT
* *
162970 AAAATGAAATTTTGGAAAGGTTTAGGGTT
1 AAAATGAAATTTTAGAAAAGTTTAGGGTT
*
162999 AAAATGTAATTTTAGAAAAGTTTGAGGGTT
1 AAAATGAAATTTTAGAAAAGTTT-AGGGTT
163029 AAAATCG-AATTTCTAG-AAAGTTTAG
1 AAAAT-GAAATTT-TAGAAAAGTTTAG
163054 AGACCTTATG
Statistics
Matches: 275, Mismatches: 55, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.00
28 14 0.05
29 121 0.44
30 111 0.40
31 28 0.10
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
AAAATGAAATTTTAGAAAAGTTTAGGGTT
Found at i:163752 original size:2 final size:2
Alignment explanation
Indices: 163745--163793 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
163735 TAAATAAACG
** * *
163745 TA TA TA TA TA TA TA TA TA TA TA TA GG TA TT TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
163787 TG TA TA T
1 TA TA TA T
163794 GTATGTAGGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
TA
Found at i:163794 original size:12 final size:12
Alignment explanation
Indices: 163747--163797 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
163737 AATAAACGTA
*
163747 TATATATATATA
1 TATATATATATG
*
163759 TATATATATAGG
1 TATATATATATG
*
163771 TATTTATATATG
1 TATATATATATG
*
163783 TATATGTATATG
1 TATATATATATG
163795 TAT
1 TAT
163798 GTAGGTATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:164992 original size:171 final size:172
Alignment explanation
Indices: 164648--165015 Score: 488
Period size: 171 Copynumber: 2.1 Consensus size: 172
164638 CTCTTGATCT
* *
164648 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTGATTACTTCAACCCACTTCTCTACATCTCAT
1 ACTTTTCTGTATCTCATCAGGAAGATGACCGCTTGATTACTTCAACCCACTTCTCTACATCTCAT
* * * * *
164713 CAGGAAGATAGAGGTTTGAAGTTTCACTCACATTGAGTTTTGCTTCATTGATTTGGTCTACTTCT
66 CAGGAAGATAGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTAATTGATTTGGTCTACTTCT
* * *
164778 TTGTATCTCATAAAGAAGATGATCACCTCATTGATTTAATCC
131 CTGTATCTCATAAAGAAAATGACCACCTCATTGATTTAATCC
* * ** * **
164820 ACTTTTCTGTATCTCATCAGGAAGATGACCTCTTTATTACTTTGACCCACTTCTTTGTATCTCAT
1 ACTTTTCTGTATCTCATCAGGAAGATGACCGCTTGATTACTTCAACCCACTTCTCTACATCTCAT
* * ***
164885 CAGGAAGAT-GGGGTTTGAAGTCTCATTTGTATTAAGCTTCGCTTAATTGATTTGGTCTACTTCT
66 CAGGAAGATAGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTAATTGATTTGGTCTACTTCT
* *
164949 CTGTATCTCATCAGGAAAATGACCACCTCATTG-TTTCAATCC
131 CTGTATCTCATAAAGAAAATGACCACCTCATTGATTT-AATCC
*
164991 ACTTTTCTGTATCTCATCAAGAAGA
1 ACTTTTCTGTATCTCATCAGGAAGA
165016 CGGATTTGGT
Statistics
Matches: 170, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
170 3 0.02
171 102 0.60
172 65 0.38
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (172 bp):
ACTTTTCTGTATCTCATCAGGAAGATGACCGCTTGATTACTTCAACCCACTTCTCTACATCTCAT
CAGGAAGATAGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTAATTGATTTGGTCTACTTCT
CTGTATCTCATAAAGAAAATGACCACCTCATTGATTTAATCC
Found at i:165078 original size:85 final size:85
Alignment explanation
Indices: 164933--165094 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
164923 TCGCTTAATT
* * *
164933 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACCACCTCATTGTTTCAATCCACTTTTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAAATGACCACCTCATTGTTTCAACCCACTTCTC
164998 TGTATCTCATCAAGAAGACG
66 TGTATCTCATCAAGAAGACG
* * * * * *
165018 GATTTGGTCCACTTCTTTGTATCTCATCA-GAAAGATGATCGCTTTATTGCTTT-GACCCACTTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAA-ATGACCACCTCATTG-TTTCAACCCACTTC
165081 TCTGTATCTCATCA
64 TCTGTATCTCATCA
165095 GAAAGATGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.06
85 59 0.89
86 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAGGAAAATGACCACCTCATTGTTTCAACCCACTTCTC
TGTATCTCATCAAGAAGACG
Found at i:165287 original size:85 final size:85
Alignment explanation
Indices: 165140--165307 Score: 230
Period size: 85 Copynumber: 2.0 Consensus size: 85
165130 TCGCTTTATT
*
165140 GATTTGGTCTACTTCTATGTATCTCATCAAGAAGATGACCGCCTCATTCTTTCAATCTACTTCTC
1 GATTTGGTCTACCTCTATGTATCTCATCAAGAAGATGACCGCCTCATTCTTTCAATCTACTTCTC
*
165205 TGTATCTCATCAGGAAGACG
66 TGTATCTCATCAGAAAGACG
* * * * * * * *
165225 GATTTGGTCTACCTCTCTGTATCTTATCAGGAAGATGATCGCTTTATTGCTTTGACTC-ACTTCT
1 GATTTGGTCTACCTCTATGTATCTCATCAAGAAGATGACCGCCTCATT-CTTTCAATCTACTTCT
165289 CTGTATCTCATCAGAAAGA
65 CTGTATCTCATCAGAAAGA
165308 TGAGGTTTGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 65 0.90
86 7 0.10
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACCTCTATGTATCTCATCAAGAAGATGACCGCCTCATTCTTTCAATCTACTTCTC
TGTATCTCATCAGAAAGACG
Found at i:165440 original size:208 final size:208
Alignment explanation
Indices: 164817--165560 Score: 1026
Period size: 208 Copynumber: 3.6 Consensus size: 208
164807 ATTGATTTAA
* * * *
164817 TCCACTTTTCTGTATCTCATCAGGAAGATGACCTCTTTATTACTTTGACCCACTTCTTTGTATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTATTACTTTGACCCACTTCTCTGTATCT
* * *
164882 CATCAGGAAGATGGGGTTTGAAGTCTCATTTGTATTAAGCTTCGCTTAATTGATTTGGTCTACTT
66 CATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTT
* * *
164947 CTCTGTATCTCATCAGGAAAATGACCACCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
131 CTATGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
165012 AAGACGGATTTGG
196 AAGACGGATTTGG
* * *
165025 TCCACTTCTTTGTATCTCATCAGAAAGATGATCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTATTACTTTGACCCACTTCTCTGTATCT
* * *
165090 CATCAGAAAGATGGGGTTTG-ATTCTCATTCGTATTGTGCTTCGCTTTATTGATTTGGTCTACTT
66 CATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTT
* * * * *
165154 CTATGTATCTCATCAAGAAGATGACCGCCTCATTCTTTCAATCTACTTCTCTGTATCTCATCAGG
131 CTATGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
165219 AAGACGGATTTGG
196 AAGACGGATTTGG
* * * * *
165232 TCTACCTCTCTGTATCTTATCAGGAAGATGATCGCTTTATTGCTTTGACTCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTATTACTTTGACCCACTTCTCTGTATCT
* * * * *
165297 CATCAGAAAGATGAGGTTTGAAGTCTTATTCGTATTGAGCTTTGCTTCATTAATTTGGTCTACTT
66 CATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTT
* * *
165362 TTTTGTATCTCATCAGGAAGATAACCGCCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
131 CTATGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
**
165427 AAGACAAATTTGG
196 AAGACGGATTTGG
* * * * *
165440 TCCATTTCTCTGTATCTAATCAGGAAGATGA-CGTTTTTATTACTTTGACCCACTTCTATATATC
1 TCCACTTCTCTGTATCTCATCAGGAAGATGATCG-CTTTATTACTTTGACCCACTTCTCTGTATC
* * ** * *
165504 TCATCA-AGAAGATGCGGTTTGAAGTCTCACTCACATTGAGCTTCACTTCATTGATTT
65 TCATCAGA-AAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATTGATTT
165561 TGACATTTCA
Statistics
Matches: 472, Mismatches: 61, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
207 190 0.40
208 282 0.60
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (208 bp):
TCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTATTACTTTGACCCACTTCTCTGTATCT
CATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTT
CTATGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTCTGTATCTCATCAAG
AAGACGGATTTGG
Found at i:165706 original size:39 final size:39
Alignment explanation
Indices: 165581--165770 Score: 177
Period size: 39 Copynumber: 4.8 Consensus size: 39
165571 CTCTTCTCAT
* * * *
165581 GATCAGGGTAAGAGATTGTATGATGGCTACAGTCTGCCCCAC
1 GATCGGGGTAAGAGATTG---GATGGCTGCAATCTACCCCAC
* * ****
165623 GATTGGGGTAAGAGATTGGATGGCTACAATC-AGCCTTGT
1 GATCGGGGTAAGAGATTGGATGGCTGCAATCTA-CCCCAC
* *
165662 GATCGGGATAAGAGATTGGATGGCTGTAATCTACCCCAC
1 GATCGGGGTAAGAGATTGGATGGCTGCAATCTACCCCAC
* * *
165701 TATCGGGGTAAGAGATTGGATGGTTGCAATCTGCCCCAC
1 GATCGGGGTAAGAGATTGGATGGCTGCAATCTACCCCAC
* *
165740 GATCGGGGTAAGAGATTTGAT-GCTTCAATCT
1 GATCGGGGTAAGAGATTGGATGGCTGCAATCT
165771 TTCTCGTCAT
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
38 8 0.07
39 96 0.79
40 1 0.01
42 16 0.13
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (39 bp):
GATCGGGGTAAGAGATTGGATGGCTGCAATCTACCCCAC
Found at i:165952 original size:49 final size:49
Alignment explanation
Indices: 165812--166237 Score: 343
Period size: 49 Copynumber: 8.7 Consensus size: 49
165802 CGTCATTGTA
* * * * * * *
165812 GCCTCAACTTTTCCCTTCATATCTTCATGGTGTCGGATTCACCATTGCA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
* * * * ** * ** * * *
165861 GACTCAATCATTCCCATCACGTTTTCTAAAGTACCGGGTTCGCTGTTACG
1 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCGGGTTCGCCGTTGCG
* * * *
165911 GCCTCAACCTTTCCTTTCATATCTTTATGATATCGGGTTCGCCGTTGCG
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
* * * ** * *
165960 GCCTCAACCTTTCCCATCACATCTTCTAAGGTA-CGGAGTTTACCATTGTG
1 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCGG-GTTCGCCGTTGCG
* * ***
166010 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATAGGGTTCACCGTTATA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
* * * *
166059 ACCTCAACATTTTCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCG
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
* *** *
166108 GCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGTTATTGCA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
* * * * * *
166157 GCCCCAACCTTTCCCATCACATCTTCTAAGATATCGGGTTCGCCGTTGTG
1 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCGGGTTCGCCGTTGCG
*
166207 G-CTCAACCTTTCCCTTCATATCTTCATGGTA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTA
166238 CCTCGATTCA
Statistics
Matches: 289, Mismatches: 83, Indels: 11
0.75 0.22 0.03
Matches are distributed among these distances:
48 4 0.01
49 200 0.69
50 85 0.29
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (49 bp):
GCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCG
Found at i:165966 original size:99 final size:99
Alignment explanation
Indices: 165812--166237 Score: 421
Period size: 99 Copynumber: 4.3 Consensus size: 99
165802 CGTCATTGTA
* * * * *
165812 GCCTCAACTTTTCCCTTCATATCTTCATGGTGTCGGATTCACCATTGCAGACTCAATCATTCCCA
1 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCACCATTGCAGCCTCAACCATTCCCA
* * * *
165877 TCACGTTTTCTAAAGTACCGGGTTCGCTGTTACG
66 TCACATCTTCTAAAGTACCGGGTTCGCCGTTGCG
* * * * * * *
165911 GCCTCAACCTTTCCTTTCATATCTTTATGATATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCA
1 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCACCATTGCAGCCTCAACCATTCCCA
* ** * *
165976 TCACATCTTCTAAGGTA-CGGAGTTTACCATTGTG
66 TCACATCTTCTAAAGTACCGG-GTTCGCCGTTGCG
* * * ** * *
166010 GCCTCAACCTTTCCCTTCAAATCTTCATGGTATAGGGTTCACCGTTATAACCTCAA-CATTTTCC
1 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCACCATTGCAGCCTCAACCA-TTCCC
* * **
166074 TTCAAATCTTC-ATGGTACCGGGTTCGCCGTTGCG
65 ATCACATCTTCTAAAGTACCGGGTTCGCCGTTGCG
* * *** * *
166108 GCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGTTATTGCAGCCCCAACCTTTCCCA
1 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCACCATTGCAGCCTCAACCATTCCCA
* *
166173 TCACATCTTCT-AAGATATCGGGTTCGCCGTTGTG
66 TCACATCTTCTAAAG-TACCGGGTTCGCCGTTGCG
166207 G-CTCAACCTTTCCCTTCATATCTTCATGGTA
1 GCCTCAACCTTTCCCTTCATATCTTCATGGTA
166238 CCTCGATTCA
Statistics
Matches: 262, Mismatches: 59, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
98 107 0.41
99 155 0.59
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (99 bp):
GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCACCATTGCAGCCTCAACCATTCCCA
TCACATCTTCTAAAGTACCGGGTTCGCCGTTGCG
Found at i:166196 original size:148 final size:145
Alignment explanation
Indices: 165812--166239 Score: 419
Period size: 148 Copynumber: 2.9 Consensus size: 145
165802 CGTCATTGTA
* * * * * * *
165812 GCCTCAACTTTTCCCTTCATATCTTCATGGTGTCGGATTCACCATTGCAGACTCAATCATTCCCA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGT-ACGGGTTCACCATTGCAGCCTCAACCTTTCCCA
* * * * * * * *
165877 TCACGTTTTCTAA-AGTACCGGGTTCGCTGTTACGGCCTCAACCTTTCCTTTCATATCTTTATGA
65 TCACATCTTCTAAGA-TATCGGGTTCGCCGTTA-TGCCTCAACTTTTCC-TTCATATCTTCATGG
*
165941 TATCGGGTTCGCCGTTGCG
127 TACCGGGTTCGCCGTTGCG
* * * * **
165960 GCCTCAACCTTTCCCATCACATCTTCTAAGGTACGGAGTTTACCATTGTGGCCTCAACCTTTCCC
1 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTACGG-GTTCACCATTGCAGCCTCAACCTTTCCC
* * * * * * * *
166025 TTCAAATCTTC-ATGGTATAGGGTTCACCGTTATAACCTCAACATTTTCCTTCAAATCTTCATGG
64 ATCACATCTTCTAAGATATCGGGTTCGCCGTTAT-GCCTCAAC-TTTTCCTTCATATCTTCATGG
166089 TACCGGGTTCGCCGTTGCG
127 TACCGGGTTCGCCGTTGCG
*** *
166108 GCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGTTATTGCAGCCCCAACCTTTCCCA
1 GCCTCAACCTTTCCCTTCAAATCTTCATGGTA-CGGGTTCACCATTGCAGCCTCAACCTTTCCCA
* * *
166173 TCACATCTTCTAAGATATCGGGTTCGCCGTTGTGGCTCAACCTTTCCCTTCATATCTTCATGGTA
65 TCACATCTTCTAAGATATCGGGTTCGCCGTTATGCCTCAA-CTTTTCCTTCATATCTTCATGGTA
166238 CC
129 CC
166240 TCGATTCATT
Statistics
Matches: 222, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
147 63 0.28
148 122 0.55
149 37 0.17
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (145 bp):
GCCTCAACCTTTCCCTTCAAATCTTCATGGTACGGGTTCACCATTGCAGCCTCAACCTTTCCCAT
CACATCTTCTAAGATATCGGGTTCGCCGTTATGCCTCAACTTTTCCTTCATATCTTCATGGTACC
GGGTTCGCCGTTGCG
Found at i:167188 original size:16 final size:15
Alignment explanation
Indices: 167150--167191 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
167140 CGACCTCTCC
*
167150 TTTTCTTTTTC-CTT
1 TTTTTTTTTTCTCTT
*
167164 TTTCTTTTTTCTCTT
1 TTTTTTTTTTCTCTT
167179 TTTTTATTTTTCT
1 TTTTT-TTTTTCT
167192 TTTCCTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 7 0.30
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTCTCTT
Found at i:167218 original size:29 final size:29
Alignment explanation
Indices: 167155--167221 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
167145 TCTCCTTTTC
* * * *
167155 TTTTTCCTTTTTCTTTTTTCTCTTTTTTTA
1 TTTTT-CTTTTCCTTTTTTATATTTATTTA
167185 TTTTTCTTTTCCTTTTTTATATTTATTTA
1 TTTTTCTTTTCCTTTTTTATATTTATTTA
167214 TTTTTCTT
1 TTTTTCTT
167222 CATCGAATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTCTTTTCCTTTTTTATATTTATTTA
Found at i:171760 original size:30 final size:29
Alignment explanation
Indices: 171718--171907 Score: 138
Period size: 30 Copynumber: 6.5 Consensus size: 29
171708 AATTTGGGGT
*
171718 TAAAATGCAATTTTGGAAAAGTTTAAGGG
1 TAAAATGTAATTTTGGAAAAGTTTAAGGG
* * *
171747 TAAATACGTAATTTTAGAAAAGTTTAGAGGT
1 TAAA-ATGTAATTTTGGAAAAGTTTA-AGGG
* *
171778 TAAAATGTAACTTTGGAAAAGTTTAGGGG
1 TAAAATGTAATTTTGGAAAAGTTTAAGGG
* * **
171807 TCAAGATGAAATTTTGGAAAAGTTT-AGATT
1 T-AAAATGTAATTTTGGAAAAGTTTAAG-GG
** * *
171837 TAAAATACAATTTTGGAAAAGTTCAA-GT
1 TAAAATGTAATTTTGGAAAAGTTTAAGGG
* *
171865 TCAAAA--AAATTTTGGAAAAGTTTGAGGG
1 T-AAAATGTAATTTTGGAAAAGTTTAAGGG
171893 TTAAAATCG-AATTTT
1 -TAAAAT-GTAATTTT
171908 TAGAAAGTTC
Statistics
Matches: 126, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
27 16 0.13
28 7 0.06
29 32 0.25
30 64 0.51
31 7 0.06
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
TAAAATGTAATTTTGGAAAAGTTTAAGGG
Found at i:171779 original size:60 final size:60
Alignment explanation
Indices: 171715--171907 Score: 193
Period size: 60 Copynumber: 3.3 Consensus size: 60
171705 GAGAATTTGG
* *
171715 GGTTAAAATGCAATTTTGGAAAAGTTTAAGGGTAAATACGTAATTTTAGAAAAGTTTAGA
1 GGTTAAAATGCAATTTTGGAAAAGTTTAAGGGTAAAGACGAAATTTTAGAAAAGTTTAGA
* * * * * *
171775 GGTTAAAATGTAACTTTGGAAAAGTTTAGGGGTCAAGATGAAATTTTGGAAAAGTTTAGA
1 GGTTAAAATGCAATTTTGGAAAAGTTTAAGGGTAAAGACGAAATTTTAGAAAAGTTTAGA
* * * * *
171835 -TTTAAAATACAATTTTGGAAAAGTTCAA-GTTCAAA-A--AAATTTTGGAAAAGTTT-GA
1 GGTTAAAATGCAATTTTGGAAAAGTTTAAGGGT-AAAGACGAAATTTTAGAAAAGTTTAGA
171890 GGGTTAAAAT-CGAATTTT
1 -GGTTAAAATGC-AATTTT
171908 TAGAAAGTTC
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
55 2 0.02
56 18 0.16
57 13 0.12
58 3 0.03
59 24 0.21
60 52 0.46
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (60 bp):
GGTTAAAATGCAATTTTGGAAAAGTTTAAGGGTAAAGACGAAATTTTAGAAAAGTTTAGA
Found at i:172284 original size:8 final size:8
Alignment explanation
Indices: 172261--172290 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
172251 AAAAAAAACT
172261 TTCTCTTC
1 TTCTCTTC
172269 TCTCTCTTC
1 T-TCTCTTC
172278 TTCTCTTC
1 TTCTCTTC
172286 TTCTC
1 TTCTC
172291 GTTTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (8 bp):
TTCTCTTC
Found at i:172728 original size:6 final size:6
Alignment explanation
Indices: 172696--172751 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
172686 AAATAAATAA
* * *
172696 ATGTAT ATATAT ATGGGTAT TTATAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT AT--GTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
172746 ATGTAT
1 ATGTAT
172752 GTAGGTATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
6 38 0.90
8 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:174584 original size:16 final size:16
Alignment explanation
Indices: 174563--174595 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
174553 TTCTTGGTAA
174563 ATGCTTACCTTAAATC
1 ATGCTTACCTTAAATC
*
174579 ATGCTTACCTTTAATC
1 ATGCTTACCTTAAATC
174595 A
1 A
174596 GTTTTAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (16 bp):
ATGCTTACCTTAAATC
Found at i:182215 original size:19 final size:19
Alignment explanation
Indices: 182169--182234 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
182159 TTATAATTTT
*
182169 AAATTTAAAATATATAAAA
1 AAATATAAAATATATAAAA
* * *
182188 AAATTTAAAATATATATAT
1 AAATATAAAATATATAAAA
* *
182207 ATATATAAATTA-ATAAAA
1 AAATATAAAATATATAAAA
*
182225 TAATATAAAA
1 AAATATAAAA
182235 AAGTTTTTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 11 0.30
19 26 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATAAAATATATAAAA
Found at i:182232 original size:10 final size:9
Alignment explanation
Indices: 182174--182234 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
182164 ATTTTAAATT
182174 TAAAATATA
1 TAAAATATA
* *
182183 TAAAAAAATT
1 T-AAAATATA
182193 TAAAATATA
1 TAAAATATA
*
182202 TATATATATA
1 TA-AAATATA
*
182212 TAAATTA-A
1 TAAAATATA
182220 TAAAATAATA
1 TAAAAT-ATA
182230 TAAAA
1 TAAAA
182235 AAGTTTTTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 21 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAATATA
Found at i:182542 original size:4 final size:4
Alignment explanation
Indices: 182533--182584 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
182523 CATCTAGAAT
182533 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
182581 ATAC
1 ATAC
182585 CATTTGTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:182693 original size:19 final size:19
Alignment explanation
Indices: 182666--182712 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
182656 TATAATATAA
182666 ACATATTTTAAAATAAATT
1 ACATATTTTAAAATAAATT
* *
182685 ACATGTTTTGAAATAAATT
1 ACATATTTTAAAATAAATT
*
182704 CCA-ATTTTA
1 ACATATTTTA
182713 TTTCTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (19 bp):
ACATATTTTAAAATAAATT
Found at i:183208 original size:24 final size:24
Alignment explanation
Indices: 183181--183231 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
183171 AGTTTGGCTC
* *
183181 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAATTTAACTG
*
183205 AAACAATTAAACAGAATTTAACTG
1 AAACAAATAAACAGAATTTAACTG
183229 AAA
1 AAA
183232 GATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAATTTAACTG
Found at i:186442 original size:22 final size:21
Alignment explanation
Indices: 186412--186455 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
186402 GACCCCGCCC
*
186412 ATTTTTTTTTTTTTAATATTT
1 ATTTTTTTTATTTTAATATTT
186433 ATTTTATTTTATTTTAATATTT
1 ATTTT-TTTTATTTTAATATTT
186455 A
1 A
186456 ATAATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTTTTTATTTTAATATTT
Found at i:188763 original size:23 final size:23
Alignment explanation
Indices: 188733--188817 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
188723 TTCTCAAGTC
188733 TAGGGTTCGCATAATACTACATA
1 TAGGGTTCGCATAATACTACATA
* ** *
188756 TAGGGTTCTCATAATAAAAAATA
1 TAGGGTTCGCATAATACTACATA
* * *
188779 TAAGGTTCGCATATTACTACATG
1 TAGGGTTCGCATAATACTACATA
*
188802 TAGGGTTTGCATAATA
1 TAGGGTTCGCATAATA
188818 AAACATGTAA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (23 bp):
TAGGGTTCGCATAATACTACATA
Found at i:188806 original size:46 final size:46
Alignment explanation
Indices: 188736--188832 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
188726 TCAAGTCTAG
188736 GGTTCGCATAATACTACATATAGGGTTCT-CATAATAAAAAATATAA
1 GGTTCGCATAATACTACATATAGGGTT-TGCATAATAAAAAATATAA
* * * *
188782 GGTTCGCATATTACTACATGTAGGGTTTGCATAATAAAACATGTAA
1 GGTTCGCATAATACTACATATAGGGTTTGCATAATAAAAAATATAA
188828 GGTTC
1 GGTTC
188833 ACATGTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (46 bp):
GGTTCGCATAATACTACATATAGGGTTTGCATAATAAAAAATATAA
Found at i:188823 original size:23 final size:23
Alignment explanation
Indices: 188733--188832 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
188723 TTCTCAAGTC
**
188733 TAGGGTTCGCATAATACTACATA
1 TAGGGTTCGCATAATAAAACATA
* *
188756 TAGGGTTCTCATAATAAAAAATA
1 TAGGGTTCGCATAATAAAACATA
* * ** *
188779 TAAGGTTCGCATATTACTACATG
1 TAGGGTTCGCATAATAAAACATA
* *
188802 TAGGGTTTGCATAATAAAACATG
1 TAGGGTTCGCATAATAAAACATA
*
188825 TAAGGTTC
1 TAGGGTTC
188833 ACATGTCAAA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (23 bp):
TAGGGTTCGCATAATAAAACATA
Found at i:188895 original size:15 final size:15
Alignment explanation
Indices: 188874--188916 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
188864 TTCATCTTAG
*
188874 GGGTTCATATACA-A
1 GGGTTCACATACATA
188888 GAGGTTCACATACATA
1 G-GGTTCACATACATA
*
188904 GGGTTCACTTACA
1 GGGTTCACATACA
188917 GATTACCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 22 0.88
16 2 0.08
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (15 bp):
GGGTTCACATACATA
Found at i:193808 original size:45 final size:43
Alignment explanation
Indices: 193743--193834 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 43
193733 GCTATGATAT
*
193743 ATATGGTAAAATATTGTTTGATTGATTATGCTATACGATATGCATG
1 ATATGGTAAAATATTATTTGATTGATTATGCTAT---ATATGCATG
*
193789 ATATGGT-AAATATTATTTGATTTATTATGCTATATATGCATG
1 ATATGGTAAAATATTATTTGATTGATTATGCTATATATGCATG
193831 ATAT
1 ATAT
193835 AGGTTTCGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 13 0.30
45 24 0.55
46 7 0.16
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (43 bp):
ATATGGTAAAATATTATTTGATTGATTATGCTATATATGCATG
Found at i:195168 original size:27 final size:26
Alignment explanation
Indices: 195138--195201 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
195128 TTTGTCGAGG
* *
195138 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCAATAAATGAATA-T
*
195165 TTATTAATTTATCAATAAATTAATAT
1 TTATTAATTTATCAATAAATGAATAT
195191 TTATTAATTTA
1 TTATTAATTTA
195202 GAAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCAATAAATGAATAT
Found at i:195208 original size:27 final size:27
Alignment explanation
Indices: 195152--195208 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
195142 TAGTTTATCG
**
195152 ATAAATGAATATTTTATTAATTTATCA
1 ATAAATGAATATTTTATTAATTTAAAA
*
195179 ATAAATTAATA-TTTATTAATTTAGAAA
1 ATAAATGAATATTTTATTAATTTA-AAA
195206 ATA
1 ATA
195209 TTTCATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
ATAAATGAATATTTTATTAATTTAAAA
Found at i:195389 original size:35 final size:34
Alignment explanation
Indices: 195313--195393 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 34
195303 CATGTATCAA
* **
195313 AGTTAATTGGTCCATGTAACAAAAAAAAAGGAGTT
1 AGTTAATTGGTTCATGTAACAAAAAAAAAAAAG-T
*
195348 AATTAATTGGTTCATGTAACCAAAAAGAAAAAAAG-
1 AGTTAATTGGTTCATGTAA-CAAAAA-AAAAAAAGT
195383 AGTTAA-TGGTT
1 AGTTAATTGGTT
195394 TCAAAATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 5 0.13
35 22 0.56
36 6 0.15
37 6 0.15
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (34 bp):
AGTTAATTGGTTCATGTAACAAAAAAAAAAAAGT
Found at i:202363 original size:45 final size:45
Alignment explanation
Indices: 202312--202583 Score: 393
Period size: 45 Copynumber: 6.0 Consensus size: 45
202302 GTTCAAACTA
* * *
202312 ATGATATGGTAAATATTATTTGATTAATTATGTTATACGATATGC
1 ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
*
202357 ATGATATGATAAATATTATTTGATTGATTATACTATACGATATGC
1 ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
*
202402 ATGATATGATAAATATTATTTGATTGATTATACTATACGATATGC
1 ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
* * * * *
202447 ATGATATGGTAAATATTATTTCATTTATTATGCTATATGATATGT
1 ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
* * *
202492 ATGATATGGTAAATATTATTTGATT-ACTTATGTTATACGATAAGC
1 ATGATATGATAAATATTATTTGATTGA-TTATGCTATACGATATGC
* *
202537 ATGATATGATAAATATTATTTGATCGATTATGTTATACGATATGC
1 ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
202582 AT
1 AT
202584 ACGTTTCGCT
Statistics
Matches: 207, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.00
45 205 0.99
46 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (45 bp):
ATGATATGATAAATATTATTTGATTGATTATGCTATACGATATGC
Found at i:202406 original size:26 final size:26
Alignment explanation
Indices: 202377--202451 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
202367 AAATATTATT
202377 TGATTGATTATACTATACGATATGCA
1 TGATTGATTATACTATACGATATGCA
* *
202403 TGATATGA-TA-A--ATA--TTAT--T
1 TGAT-TGATTATACTATACGATATGCA
202422 TGATTGATTATACTATACGATATGCA
1 TGATTGATTATACTATACGATATGCA
202448 TGAT
1 TGAT
202452 ATGGTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 1 0.03
21 3 0.08
22 3 0.08
23 3 0.08
24 3 0.08
25 1 0.03
26 10 0.28
27 3 0.08
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (26 bp):
TGATTGATTATACTATACGATATGCA
Found at i:208962 original size:9 final size:9
Alignment explanation
Indices: 208948--208995 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
208938 AGGAGAATGT
208948 AGAAGAGAA
1 AGAAGAGAA
208957 AGAAGAGAA
1 AGAAGAGAA
208966 AGAAGAAGAA
1 AGAAG-AGAA
*
208976 AGAAAAG-A
1 AGAAGAGAA
*
208984 AGACGAGAA
1 AGAAGAGAA
208993 AGA
1 AGA
208996 GGAAGAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 6 0.18
9 20 0.59
10 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (9 bp):
AGAAGAGAA
Found at i:208974 original size:15 final size:15
Alignment explanation
Indices: 208956--209002 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
208946 GTAGAAGAGA
208956 AAGAAGAGAAAGAAG
1 AAGAAGAGAAAGAAG
208971 AAGAA-AG-AA-AAG
1 AAGAAGAGAAAGAAG
* *
208983 AAGACGAGAAAGAGG
1 AAGAAGAGAAAGAAG
208998 AAGAA
1 AAGAA
209003 TTTGTCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 4 0.15
15 11 0.42
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAAGAGAAAGAAG
Found at i:244800 original size:29 final size:29
Alignment explanation
Indices: 244767--244823 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
244757 GGCATTGAAC
*
244767 TATCAAGATTAAGTTACATGTGCGATAAG
1 TATCAAGATTAAGTTACATATGCGATAAG
244796 TATCAAGATTAAGTTACATATGCGATAA
1 TATCAAGATTAAGTTACATATGCGATAA
244824 TAATTGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (29 bp):
TATCAAGATTAAGTTACATATGCGATAAG
Found at i:246413 original size:18 final size:19
Alignment explanation
Indices: 246378--246416 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
246368 AATAAATATA
246378 AATACAATTTAAATTTAAT
1 AATACAATTTAAATTTAAT
246397 AATA-AATTGTAAA-TTAAT
1 AATACAATT-TAAATTTAAT
246415 AA
1 AA
246417 AAACAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATACAATTTAAATTTAAT
Found at i:261983 original size:21 final size:19
Alignment explanation
Indices: 261958--262011 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
261948 CTTGTAAAAC
261958 AAAAGAAAACAAAGACAATA
1 AAAAGAAAACAAAGACAA-A
* *
261978 AGAAAGACAACAAAGAGAAA
1 A-AAAGAAAACAAAGACAAA
261998 AAAA-AAAACAAAGA
1 AAAAGAAAACAAAGA
262012 GATATGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
20 3 0.10
21 15 0.50
ACGTcount: A:0.76, C:0.09, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAGAAAACAAAGACAAA
Found at i:262009 original size:18 final size:19
Alignment explanation
Indices: 261958--262013 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
261948 CTTGTAAAAC
* *
261958 AAAAGAAAACAAAGACAAT
1 AAAAAAAAACAAAGAGAAT
*
261977 AAGAAAGACAACAAAGAGAA-
1 AA-AAA-AAAACAAAGAGAAT
261997 AAAAAAAAACAAAGAGA
1 AAAAAAAAACAAAGAGA
262014 TATGATTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 11 0.35
19 5 0.16
20 4 0.13
21 11 0.35
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAGAGAAT
Found at i:278742 original size:98 final size:98
Alignment explanation
Indices: 278571--278760 Score: 251
Period size: 98 Copynumber: 1.9 Consensus size: 98
278561 TGGAAAAGGA
* *
278571 TATTCGATTATCTCGATTTGAAGAAAATTCGCACCTAGTAACTTAAGGCACAAATTTTTAGAATA
1 TATTCGATTATCTCGATTTGAAGAAAATTCGCACCTAGTAACTTAAGGCACAAATTTTCAAAATA
*
278636 AGAGAT-AAAGAAACATTGCCTCGATTTAGGGGG
66 AGAAATAAAAG-AACATTGCCTCGATTTAGGGGG
* * * *
278669 TATTCGATTATTTCGGTTTGAGGAAAAATT-GCACCTAGTAAGTTAAGGCACAAATTTTCAAAAC
1 TATTCGATTATCTCGATTTGAAG-AAAATTCGCACCTAGTAACTTAAGGCACAAATTTTCAAAA-
* *
278733 T-CGAAATAAAAGAATATTGCCTCGATTT
64 TAAGAAATAAAAGAACATTGCCTCGATTT
278761 TAAAGTTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
98 69 0.86
99 11 0.14
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (98 bp):
TATTCGATTATCTCGATTTGAAGAAAATTCGCACCTAGTAACTTAAGGCACAAATTTTCAAAATA
AGAAATAAAAGAACATTGCCTCGATTTAGGGGG
Found at i:279151 original size:59 final size:60
Alignment explanation
Indices: 279080--279378 Score: 332
Period size: 59 Copynumber: 5.1 Consensus size: 60
279070 TTAGACATAT
279080 GAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGG-AAGTTC
1 GAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTC
** * * *
279139 GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATATTT-GAAAGTTT
1 GAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTC
* * *
279198 AAGGGT-AAATGGTAA-TTTTGGAAAAATTAGGGTTAAAAA-AGAAATTTTGGAAAGTTC
1 GAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTC
* * * * *
279255 GAGGATAAAAAT-GTAA-TTTTGGAAATATCAGGGTCAAAAATGGAA-TTTTGGAAAGTTA
1 GAGGGT-AAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTC
* * *
279313 GAGGGTAAAAAT-GTAATTTTTGGAAAAA-TCGAGG-TCAAAATGGAATTTTTTTGGAAAGTTT
1 GAGGGT-AAAATGGTAATTTTTGGAAAAATTAG-GGTTAAAAATGGAA--TTTTTGGAAAGTTC
279374 GAGGG
1 GAGGG
279379 CCAAAATATG
Statistics
Matches: 203, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
56 6 0.03
57 32 0.16
58 72 0.35
59 76 0.37
61 17 0.08
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.31
Consensus pattern (60 bp):
GAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTC
Found at i:279215 original size:58 final size:59
Alignment explanation
Indices: 279081--279361 Score: 303
Period size: 58 Copynumber: 4.8 Consensus size: 59
279071 TAGACATATG
** * *
279081 AGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGG-AAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAA-TTTTGGAAAGTTCA
*
279140 AGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATATTT-GAAAGTTTA
1 AGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAAT-TTTGGAAAGTTCA
* * * *
279199 AGGGT-AAATGGTAA-TTTTGGAAAAATTAGGGTTAAAAAA-GAAATTTTGGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAAAAA-TCGGGGTAAAAAATGGAATTTTGGAAAGTTCA
* * * *
279256 AGGATAAAAAT-GTAA-TTTTGGAAATATCAGGGTCAAAAATGGAATTTTGGAAAGTT-A
1 AGGGT-AAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGAAAGTTCA
* *
279313 GAGGGTAAAAAT-GTAATTTTTGGAAAAATCGAGGT-CAAAATGGAATTTT
1 -AGGGT-AAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTT
279362 TTTGGAAAGT
Statistics
Matches: 190, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
56 3 0.02
57 35 0.18
58 78 0.41
59 74 0.39
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.31
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGAAAGTTCA
Found at i:279363 original size:30 final size:30
Alignment explanation
Indices: 279080--279362 Score: 180
Period size: 29 Copynumber: 9.7 Consensus size: 30
279070 TTAGACATAT
279080 GAGGGT-AAAATGGTAATTTTTGGAAAAAT-
1 GAGGGTCAAAATGG-AATTTTTGGAAAAATC
* * **
279109 TAGGGTTAAAAATGGAATTTTTGG-AAGTTC
1 GAGGG-TCAAAATGGAATTTTTGGAAAAATC
279139 GAGGGT-AAAATGGTAATTTTTGGAAAAATC
1 GAGGGTCAAAATGG-AATTTTTGGAAAAATC
* * ** *
279169 G-GGGTAAAAAATGGAATATTT-GAAAGTTT
1 GAGGGT-CAAAATGGAATTTTTGGAAAAATC
*
279198 AAGGGT--AAATGGTAA-TTTTGGAAAAAT-
1 GAGGGTCAAAATGG-AATTTTTGGAAAAATC
* * ** * **
279225 TAGGGTTAAAAAAGAAATTTTGGAAAGTTC
1 GAGGGTCAAAATGGAATTTTTGGAAAAATC
* * * *
279255 GAGGATAAAAATGTAA-TTTTGGAAATATC
1 GAGGGTCAAAATGGAATTTTTGGAAAAATC
** *
279284 -AGGGTCAAAAATGGAA-TTTTGGAAAGTTA
1 GAGGGTC-AAAATGGAATTTTTGGAAAAATC
* *
279313 GAGGGTAAAAATGTAATTTTTGGAAAAATC
1 GAGGGTCAAAATGGAATTTTTGGAAAAATC
279343 GA-GGTCAAAATGGAATTTTT
1 GAGGGTCAAAATGGAATTTTT
279363 TTGGAAAGTT
Statistics
Matches: 197, Mismatches: 40, Indels: 34
0.73 0.15 0.13
Matches are distributed among these distances:
27 14 0.07
28 20 0.10
29 93 0.47
30 56 0.28
31 14 0.07
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.31
Consensus pattern (30 bp):
GAGGGTCAAAATGGAATTTTTGGAAAAATC
Found at i:279393 original size:61 final size:59
Alignment explanation
Indices: 279093--279397 Score: 252
Period size: 58 Copynumber: 5.2 Consensus size: 59
279083 GGTAAAATGG
* * * * *
279093 TAATTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGG-AAGTTCGAGGG-TAAAATGG
1 TAATTTTTGGAAAAATCAGGGTCAAAAATGGAA-TTTTGGAAAGTTAGAGGGCAAAAAT-A
* * * *
279152 TAATTTTTGGAAAAATCGGGGTAAAAAATGGAATATTT-GAAAGTTTA-AGGG--TAAATGG
1 TAATTTTTGGAAAAATCAGGGTCAAAAATGGAAT-TTTGGAAAG-TTAGAGGGCAAAAAT-A
* * * * * ** *
279210 TAA-TTTTGGAAAAATTAGGGTTAAAAAAGAAATTTTGGAAAGTTCGAGGATAAAAATG
1 TAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTAGAGGGCAAAAATA
* * *
279268 TAA-TTTTGGAAATATCAGGGTCAAAAATGGAATTTTGGAAAGTTAGAGGGTAAAAATG
1 TAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTAGAGGGCAAAAATA
* *
279326 TAATTTTTGGAAAAATC-GAGGTC-AAAATGGAATTTTTTTGGAAAGTTTGAGGGCCAAAATA
1 TAATTTTTGGAAAAATCAG-GGTCAAAAATGGAA---TTTTGGAAAGTTAGAGGGCAAAAATA
*
279387 TGATTTTTGGA
1 TAATTTTTGGA
279398 CAGTTTAGGG
Statistics
Matches: 208, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.02
57 33 0.16
58 76 0.37
59 60 0.29
60 2 0.01
61 32 0.15
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (59 bp):
TAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTAGAGGGCAAAAATA
Found at i:280652 original size:21 final size:20
Alignment explanation
Indices: 280613--280653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
280603 GAAGAGGCAA
280613 TAAATATTGACTGAATGTAT
1 TAAATATTGACTGAATGTAT
280633 TAAATATATGCACT-AATGTAT
1 TAAATAT-TG-ACTGAATGTAT
280654 ATTAGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 9 0.47
22 3 0.16
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (20 bp):
TAAATATTGACTGAATGTAT
Found at i:281296 original size:17 final size:17
Alignment explanation
Indices: 281276--281380 Score: 86
Period size: 17 Copynumber: 6.0 Consensus size: 17
281266 TAATTATTTT
281276 TAAATTTAAA-TTCAAAA
1 TAAATTTAAACTT-AAAA
**
281293 TAAATTTAAACTTAATT
1 TAAATTTAAACTTAAAA
281310 TAAATTTAAACTTTAAAA
1 TAAATTTAAAC-TTAAAA
* *
281328 GAAAAGTTTAAACTTAAAC
1 -TAAA-TTTAAACTTAAAA
* **
281347 TAAATTCAAACCCAAAA
1 TAAATTTAAACTTAAAA
* *
281364 TGAATTTAAAATTAAAA
1 TAAATTTAAACTTAAAA
281381 AATAAAAAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
17 44 0.65
18 9 0.13
19 8 0.12
20 7 0.10
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:281346 original size:6 final size:6
Alignment explanation
Indices: 281274--281326 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
281264 TTTAATTATT
* * *
281274 TTTAAA TTTAAA TTCAAA -ATAAA TTTAAA CTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
281320 CTTTAAA
1 -TTTAAA
281327 AGAAAAGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
5 7 0.18
6 25 0.66
7 6 0.16
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:281911 original size:49 final size:50
Alignment explanation
Indices: 281827--282362 Score: 314
Period size: 49 Copynumber: 10.9 Consensus size: 50
281817 AGGTGTAAGG
* * ** * * *
281827 TTCGCCATTGCGACTTAAATCCCTCCCATT-GTGTCTTC-GCGGTACTTGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCC-TTCATGTCTTCTGAGGTACTAGA
*
281876 TTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACTA-A
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * * * * ** *
281924 GTTCGTCGTTGTGACTTAAACCTTTCCCTT-TTGTATCTT-TTCGGTACTGGA
1 -TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG--TCTTCTGAGGTACTAGA
* * * * *
281975 TCCGCCGTCGCGGCTTAGATCTTTCCCTTCATG-CTTCTGAGGTACAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * * * * ** *
282024 TTTGCCATTGCGACTTAAACCCTTCCCTTTGTGTCTT-TGTGGTACTAGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * * * * *
282073 TCCGCCGTTGCAGCTTAGATCTTTCCCTTTATGTC-TCTGTGGTACTGGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * * *
282122 TTTGCCGTTGCAGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * * * ** *
282171 TTCTCCTTTGTGACTTAAA-CTCTTCCCTTTGTGTCTT-T-ACGGTACTGGA
1 TTCGCCGTTGCGGCTTAAATCT-TTCCCTTCATGTCTTCTGA-GGTACTAGA
** * * * * *
282220 CCCACTGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCTAAGGTA-TAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACT-AGA
* * * * ** * *
282269 TTCGCCTTTGCGACTTAAACCCTTCCCTTTGTGTCTT-TGCGGTACTGGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
* * *
282318 TCCGCCATTGCGGCTTAAATCTTCCCCTTCATGTC-TCTGAGGTAC
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTAC
282363 ATTTTGTGGC
Statistics
Matches: 358, Mismatches: 108, Indels: 42
0.70 0.21 0.08
Matches are distributed among these distances:
48 17 0.05
49 297 0.83
50 40 0.11
51 4 0.01
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (50 bp):
TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCTGAGGTACTAGA
Found at i:281997 original size:99 final size:100
Alignment explanation
Indices: 281822--282118 Score: 356
Period size: 99 Copynumber: 3.0 Consensus size: 100
281812 TTCTTAGGTG
* * * * * *
281822 TAAGGTTCGCCATTGCGACTTAAATCCC-TCCCATTGTGTCTTCG-CGGTACTTGATTCGCTGTT
1 TAAGGTTCGCCATTGCGACTTAAA-CCCTTCCCTTTGTATCTTTGTCGGTACTAGATCCGCCGTT
*
281885 GCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTAC
65 GCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTAC
* * * * * *
281921 TAA-GTTCGTCGTTGTGACTTAAACCTTTCCCTTTTGTATCTTT-TCGGTACTGGATCCGCCGTC
1 TAAGGTTCGCCATTGCGACTTAAACCCTTCCC-TTTGTATCTTTGTCGGTACTAGATCCGCCGTT
281984 GCGGCTTAGATCTTTCCCTTCATG-CTTCTGAGGTAC
65 GCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTAC
* *
282020 -AAGGTTTGCCATTGCGACTTAAACCCTTCCCTTTGTGTCTTTGT-GGTACTAGATCCGCCGTTG
1 TAAGGTTCGCCATTGCGACTTAAACCCTTCCCTTTGTATCTTTGTCGGTACTAGATCCGCCGTTG
* * *
282083 CAGCTTAGATCTTTCCCTTTATGTCTCTGTGGTAC
66 CGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTAC
282118 T
1 T
282119 GGATTTGCCG
Statistics
Matches: 167, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
97 2 0.01
98 81 0.49
99 84 0.50
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.38
Consensus pattern (100 bp):
TAAGGTTCGCCATTGCGACTTAAACCCTTCCCTTTGTATCTTTGTCGGTACTAGATCCGCCGTTG
CGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTAC
Found at i:282167 original size:147 final size:147
Alignment explanation
Indices: 281966--282257 Score: 408
Period size: 147 Copynumber: 2.0 Consensus size: 147
281956 GTATCTTTTC
* *
281966 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGCTTCTGAGGTACAAGGTT-TGCC
1 GGTACTGGATCCGCCGTCGCAGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCT-CC
** * *
282030 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTAGATCCGCCGTTGCAGCTTAGATCT
65 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCT
*
282095 TTCCCTTTATGTCTCTGT
130 TTCCCTTCATGTCTCTGT
** *
282113 GGTACTGGATTTGCCGTTGCAGCTTAAATCTTTCCCTTCATG-TCTCTGAGGTACAAGGTTCTCC
1 GGTACTGGATCCGCCGTCGCAGCTTAAATCTTTCCCTTCATGCT-TCTGAGGTACAAGGTTCTCC
* * * * * *
282177 TTTGTGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTGGACCCACTGTTGCGGCTTAGATCT
65 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCT
282242 TTCCCTTCATGTCTCT
130 TTCCCTTCATGTCTCT
282258 AAGGTATAAG
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
146 1 0.01
147 125 0.98
148 1 0.01
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (147 bp):
GGTACTGGATCCGCCGTCGCAGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCTCCA
TTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCTT
TCCCTTCATGTCTCTGT
Found at i:282197 original size:98 final size:98
Alignment explanation
Indices: 282095--282363 Score: 376
Period size: 98 Copynumber: 2.7 Consensus size: 98
282085 GCTTAGATCT
* * * ** *
282095 TTCCCTTTATGTCTCTGTGGTACTGGATTTGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCT
1 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCT
* * *
282160 GAGGTACAAGGTTCTCCTTTGTGACTTAAACTC
66 GAGGTACAAGGTTCGCCTTTGCGACTTAAACCC
* * * * *
282193 TTCCCTTTGTGTCTTTACGGTACTGGACCCACTGTTGCGGCTTAGATCTTTCCCTTCATGTCTCT
1 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCT
* *
282258 AAGGTATAAGGTTCGCCTTTGCGACTTAAACCC
66 GAGGTACAAGGTTCGCCTTTGCGACTTAAACCC
* *
282291 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCATTGCGGCTTAAATCTTCCCCTTCATGTCTCT
1 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCT
282356 GAGGTACA
66 GAGGTACA
282364 TTTTGTGGCA
Statistics
Matches: 146, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
98 146 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (98 bp):
TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCT
GAGGTACAAGGTTCGCCTTTGCGACTTAAACCC
Found at i:282313 original size:147 final size:147
Alignment explanation
Indices: 281966--282297 Score: 377
Period size: 147 Copynumber: 2.3 Consensus size: 147
281956 GTATCTTTTC
* * * * * *
281966 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATG-CTTCTGAGGTACAAGGTTTGCC
1 GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTC-TCTGAGGTACAAGGTTTGCC
** * *
282030 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTAGATCCGCCGTTGCAGCTTAGATCT
65 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCT
* **
282095 TTCCCTTTATGTCTCTGT
130 TTCCCTTCATGTCTCTAA
* * *
282113 GGTACTGGATTTGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCT-CC
1 GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTCTCTGAGGTACAAGGTT-TGCC
* * * * * *
282177 TTTGTGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTGGACCCACTGTTGCGGCTTAGATCT
65 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCT
282242 TTCCCTTCATGTCTCTAA
130 TTCCCTTCATGTCTCTAA
*
282260 GGTA-TAAGG-TTCGCCTTTGC-GACTTAAACCCTTCCCTT
1 GGTACT--GGATTCGCCGTTGCAG-CTTAAACCCTTCCCTT
282298 TGTGTCTTTG
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
146 2 0.01
147 152 0.96
148 4 0.03
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (147 bp):
GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTCTCTGAGGTACAAGGTTTGCCA
TTGCGACTTAAACCCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCTT
TCCCTTCATGTCTCTAA
Found at i:282346 original size:147 final size:147
Alignment explanation
Indices: 281966--282343 Score: 372
Period size: 147 Copynumber: 2.6 Consensus size: 147
281956 GTATCTTTTC
* * * * * * **
281966 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATG-CTTCTGAGGTACAAGGTTTGCC
1 GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTC-TCTGAGGTACAAGGTCCGCC
* ** * *
282030 ATTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTAGATCCGCCGTTGCAGCTTAGATCT
65 ATTGCGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCT
* **
282095 TTCCCTTTATGTCTCTGT
130 TTCCCTTCATGTCTCTAA
* * * * * *
282113 GGTACTGGATTTGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCTCCT
1 GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTCTCTGAGGTACAAGGTCCGCCA
* * * *
282178 TTGTGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTGGACCCACTGTTGCGGCTTAGATCTT
66 TTGCGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCTT
282243 TCCCTTCATGTCTCTAA
131 TCCCTTCATGTCTCTAA
* ** * * *
282260 GGTA-TAAGG-TTCGCCTTTGC-GACTTAAACCCTTCCCTTTGTGTCTTTGCGGTAC-TGGATCC
1 GGTACT--GGATTCGCCGTTGCAG-CTTAAACCCTTCCCTTCATGTCTCTGAGGTACAAGG-TCC
*
282321 GCCATTGCGGCTTAAA-TCTTCCC
62 GCCATTGCGACTTAAACTCTTCCC
282344 CTTCATGTCT
Statistics
Matches: 192, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
146 11 0.06
147 178 0.93
148 3 0.02
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (147 bp):
GGTACTGGATTCGCCGTTGCAGCTTAAACCCTTCCCTTCATGTCTCTGAGGTACAAGGTCCGCCA
TTGCGACTTAAACTCTTCCCTTTGTGTCTTTACGGTACTAGACCCACCGTTGCAGCTTAGATCTT
TCCCTTCATGTCTCTAA
Found at i:292931 original size:28 final size:28
Alignment explanation
Indices: 292890--293170 Score: 121
Period size: 29 Copynumber: 9.7 Consensus size: 28
292880 ATTCGATGGT
*
292890 AAAATGGTGATTTTTGGAAAATGGGGTCA
1 AAAATGG-AATTTTTGGAAAATGGGGTCA
* * **
292919 AAAATGGATTTTTTTGAAGTTTGAGGGT--
1 AAAATGGAATTTTTGGAA-AATG-GGGTCA
* *
292947 AAAATGGTAATTTTTGGAAAATAGGGACA
1 AAAATGG-AATTTTTGGAAAATGGGGTCA
**
292976 AAAATGGAATTTTTGGAAGTTCGGGGGT--
1 AAAATGGAATTTTTGGAAAAT--GGGGTCA
** *
293004 AAAATGGTAA-TTTTGGAAAAATTAAGGTTA
1 AAAATGG-AATTTTTGG-AAAA-TGGGGTCA
* * *
293034 AAAATGGAA-TTTTAGAAAGTTTGGGGTTAA
1 AAAATGGAATTTTTGGAAA--ATGGGG-TCA
* * *
293064 AAAATGTAA-TTTTGGAAAAATTGAGGTTA
1 AAAATGGAATTTTTGG-AAAA-TGGGGTCA
*
293093 AAAATGGAA-TTTTGGAAAGTTCAGGGGT-A
1 AAAATGGAATTTTTGGAAA-AT--GGGGTCA
* * * *
293122 AAAATGTATTTTTTGGAAAAATTAGGGTTA
1 AAAATGGAATTTTTGG-AAAA-TGGGGTCA
293152 AAAATGGAATTTTTGGAAA
1 AAAATGGAATTTTTGGAAA
293171 GTTCAAGGGT
Statistics
Matches: 190, Mismatches: 38, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.02
28 51 0.27
29 70 0.37
30 59 0.31
31 7 0.04
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAAATGGGGTCA
Found at i:292960 original size:57 final size:57
Alignment explanation
Indices: 292881--293185 Score: 246
Period size: 57 Copynumber: 5.2 Consensus size: 57
292871 TTATTAGACA
* * * * * *
292881 TTCGATGGTAAAATGGTGATTTTTGGAAAATGGGGTCAAAAATGGATTTTTTTGAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGAAAATAGGGACAAAAATGGAATTTTTGGAAG
*
292938 TTTGAGGGTAAAATGGTAATTTTTGGAAAATAGGGACAAAAATGGAATTTTTGGAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGAAAATAGGGACAAAAATGGAATTTTTGGAAG
* * ** * *
292995 TTCGGGGGTAAAATGGTAA-TTTTGGAAAAATTAAGGTTAAAAATGGAATTTTAGAAAG
1 TTCGAGGGTAAAATGGTAATTTTTGG-AAAA-TAGGGACAAAAATGGAATTTTTGGAAG
* * **
293053 TTTG-GGGTTAAAAAAT-GTAA-TTTTGGAAAAATTGAGGTTAAAAATGGAA-TTTTGGAAAG
1 TTCGAGGG-T--AAAATGGTAATTTTTGG-AAAATAG-GGACAAAAATGGAATTTTTGG-AAG
* **
293112 TTC-AGGGGTAAAAAT-GTATTTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAG
1 TTCGA-GGGT-AAAATGGTAATTTTTGG-AAAA-TAGGGACAAAAATGGAATTTTTGG-AAG
*
293172 TTCAAGGGTCAAAA
1 TTCGAGGGT-AAAA
293186 CATTATTTTT
Statistics
Matches: 212, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
56 6 0.03
57 74 0.35
58 40 0.19
59 60 0.28
60 31 0.15
61 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.33
Consensus pattern (57 bp):
TTCGAGGGTAAAATGGTAATTTTTGGAAAATAGGGACAAAAATGGAATTTTTGGAAG
Found at i:293007 original size:29 final size:29
Alignment explanation
Indices: 292890--293203 Score: 179
Period size: 30 Copynumber: 10.8 Consensus size: 29
292880 ATTCGATGGT
* *
292890 AAAATGGTGATTTTTGGAAA-AT-GGGGTCA
1 AAAATGG-AATTTTTGGAAAGTTAGGGGT-A
* * *
292919 AAAATGGATTTTTTTG-AAGTTTGAGGGT-
1 AAAATGGAATTTTTGGAAAGTTAG-GGGTA
* **
292947 AAAATGGTAATTTTTGGAAA-ATAGGGACA
1 AAAATGG-AATTTTTGGAAAGTTAGGGGTA
*
292976 AAAATGGAATTTTTGG-AAGTTCGGGGGT-
1 AAAATGGAATTTTTGGAAAGTT-AGGGGTA
* * *
293004 AAAATGGTAA-TTTTGGAAAAATTAAGGTTA
1 AAAATGG-AATTTTTGG-AAAGTTAGGGGTA
* *
293034 AAAATGGAA-TTTTAGAAAGTTTGGGGTTAA
1 AAAATGGAATTTTTGGAAAGTTAGGGG-T-A
* * *
293064 AAAATGTAA-TTTTGGAAAAATT-GAGGTTA
1 AAAATGGAATTTTTGG-AAAGTTAG-GGGTA
293093 AAAATGGAA-TTTTGGAAAGTTCAGGGGTA
1 AAAATGGAATTTTTGGAAAGTT-AGGGGTA
* * * *
293122 AAAATGTATTTTTTGGAAAAATTAGGGTTA
1 AAAATGGAATTTTTGG-AAAGTTAGGGGTA
*
293152 AAAATGGAATTTTTGGAAAGTTCAAGGGTCA
1 AAAATGGAATTTTTGGAAAGTT-AGGGGT-A
*
293183 AAACAT--TATTTTTGGAAAGTT
1 AAA-ATGGAATTTTTGGAAAGTT
293204 TGAGGGCCAA
Statistics
Matches: 222, Mismatches: 40, Indels: 45
0.72 0.13 0.15
Matches are distributed among these distances:
27 4 0.02
28 51 0.23
29 71 0.32
30 78 0.35
31 16 0.07
32 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAAGTTAGGGGTA
Found at i:293194 original size:30 final size:30
Alignment explanation
Indices: 293092--293233 Score: 107
Period size: 30 Copynumber: 4.7 Consensus size: 30
293082 AATTGAGGTT
*
293092 AAAAATGGAA-TTTTGGAAAGTTCAGGGGT-
1 AAAAAT-GAATTTTTGGAAAGTTCAAGGGTC
* * *
293121 AAAAATGTATTTTTTGGAAAAATT--AGGGTT
1 AAAAATG-AATTTTTGG-AAAGTTCAAGGGTC
293151 AAAAATGGAATTTTTGGAAAGTTCAAGGGTC
1 AAAAAT-GAATTTTTGGAAAGTTCAAGGGTC
* ** *
293182 AAAACAT-TATTTTTGGAAAGTTTGAGGGCC
1 AAAA-ATGAATTTTTGGAAAGTTCAAGGGTC
*
293212 AAAATAT-AATTTTTGGATAGTT
1 AAAA-ATGAATTTTTGGAAAGTT
293234 TAGGGACCTG
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
28 1 0.01
29 16 0.17
30 58 0.63
31 15 0.16
32 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (30 bp):
AAAAATGAATTTTTGGAAAGTTCAAGGGTC
Found at i:293216 original size:60 final size:60
Alignment explanation
Indices: 292900--293200 Score: 256
Period size: 59 Copynumber: 5.2 Consensus size: 60
292890 AAAATGGTGA
* * * ** *
292900 TTTTTGG-AAAA-TGGGGTCAAAAATGGATTTTTTTG-AAGTTTGAGGGT-AAAATGGTAA
1 TTTTTGGAAAAATTAGGGTCAAAAATGGAATTTTTGGAAAGTTCAAGGGTAAAAAT-GTAT
* **
292957 TTTTTGG-AAAA-TAGGGACAAAAATGGAATTTTTGG-AAGTTCGGGGGT-AAAATGGTA-
1 TTTTTGGAAAAATTAGGGTCAAAAATGGAATTTTTGGAAAGTTCAAGGGTAAAAAT-GTAT
* * * * **
293013 ATTTTGGAAAAATTAAGGTTAAAAATGGAA-TTTTAGAAAGTT-TGGGGTTAAAAAATGTA-
1 TTTTTGGAAAAATTAGGGTCAAAAATGGAATTTTTGGAAAGTTCAAGGG-T-AAAAATGTAT
* * *
293072 ATTTTGGAAAAATT-GAGGTTAAAAATGGAA-TTTTGGAAAGTTCAGGGGTAAAAATGTAT
1 TTTTTGGAAAAATTAG-GGTCAAAAATGGAATTTTTGGAAAGTTCAAGGGTAAAAATGTAT
*
293131 TTTTTGGAAAAATTAGGGTTAAAAATGGAATTTTTGGAAAGTTCAAGGGTCAAAACAT-TA-
1 TTTTTGGAAAAATTAGGGTCAAAAATGGAATTTTTGGAAAGTTCAAGGGT-AAAA-ATGTAT
293191 TTTTTGGAAA
1 TTTTTGGAAA
293201 GTTTGAGGGC
Statistics
Matches: 214, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
56 6 0.03
57 63 0.29
58 29 0.14
59 70 0.33
60 38 0.18
61 6 0.03
62 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (60 bp):
TTTTTGGAAAAATTAGGGTCAAAAATGGAATTTTTGGAAAGTTCAAGGGTAAAAATGTAT
Found at i:294294 original size:3 final size:3
Alignment explanation
Indices: 294286--294379 Score: 71
Period size: 3 Copynumber: 31.0 Consensus size: 3
294276 CCATTTTTAT
** * ** *
294286 TTA TTA TTA ACA TTA ATA TTA TTA TTA TTA ACA TTA TTAA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * * * * *
294332 TTG TTA TTA TTG TTA TTA TAA TTA ATA TTA ATA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
294380 AAAATCAATG
Statistics
Matches: 66, Mismatches: 24, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:295109 original size:17 final size:16
Alignment explanation
Indices: 295089--295135 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
295079 TTAATTATTT
295089 TTAAATTTAAATTCAAA
1 TTAAATTTAAATT-AAA
*
295106 TTAAATTTAAACTTAAT
1 TTAAATTTAAA-TTAAA
295123 TTAAATTTAAATT
1 TTAAATTTAAATT
295136 TTAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:295121 original size:12 final size:12
Alignment explanation
Indices: 295088--295159 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 12
295078 TTTAATTATT
*
295088 TTTAAATTTAAA
1 TTTAAACTTAAA
*
295100 TTCAAA-TTAAA
1 TTTAAACTTAAA
295111 TTTAAACTT-AA
1 TTTAAACTTAAA
*
295122 TTTAAATTTAAA
1 TTTAAACTTAAA
***
295134 TTTTAAAAGAAAA
1 -TTTAAACTTAAA
295147 GTTTAAACTTAAA
1 -TTTAAACTTAAA
295160 CTAAATTCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
11 20 0.43
12 9 0.19
13 18 0.38
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (12 bp):
TTTAAACTTAAA
Done.