Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003320.1 Hibiscus syriacus cultivar Beakdansim tig00006992_pilon, 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: 341838
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:656 original size:14 final size:14
Alignment explanation
Indices: 637--665 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
627 CCACGGTGCT
637 CCCGGAATCCTGCG
1 CCCGGAATCCTGCG
651 CCCGGAATCCTGCG
1 CCCGGAATCCTGCG
665 C
1 C
666 GATGTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.45, G:0.28, T:0.14
Consensus pattern (14 bp):
CCCGGAATCCTGCG
Found at i:5520 original size:15 final size:15
Alignment explanation
Indices: 5502--5531 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5492 CCACGGTGCT
5502 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
5517 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
5532 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:10402 original size:15 final size:15
Alignment explanation
Indices: 10384--10413 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10374 CCACGGTGCT
10384 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10399 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10414 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:17590 original size:15 final size:15
Alignment explanation
Indices: 17570--17609 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
17560 TTGAAGACTA
17570 GCACTAAAAATTGTG
1 GCACTAAAAATTGTG
17585 GCACTAAAAATTGTG
1 GCACTAAAAATTGTG
17600 GCACTAAAAA
1 GCACTAAAAA
17610 GAGAACCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (15 bp):
GCACTAAAAATTGTG
Found at i:23185 original size:32 final size:30
Alignment explanation
Indices: 23149--23239 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 30
23139 CCTAAGGTGA
23149 CCCTTGGGTAGGCTCTCAAGCCCCAAGGTACT
1 CCCTTGGGTAGGCTCT-AAGCCCCAAGGTA-T
* *
23181 CCCTTGGGTAGGTTCTGAGGCCCCAAGGTAT
1 CCCTTGGGTAGGCTCT-AAGCCCCAAGGTAT
* * *
23212 TCCTTGGATACGCTCTAAGGCCCCAAGG
1 CCCTTGGGTAGGCTCTAA-GCCCCAAGG
23240 CATTCCTTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.02
31 22 0.44
32 27 0.54
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (30 bp):
CCCTTGGGTAGGCTCTAAGCCCCAAGGTAT
Found at i:23233 original size:31 final size:31
Alignment explanation
Indices: 23150--23247 Score: 117
Period size: 31 Copynumber: 3.1 Consensus size: 31
23140 CTAAGGTGAC
*
23150 CCTTGGGTAGGCTCTCAA-GCCCCAAGGTACTC
1 CCTTGGGTAGGCTCT-AAGGCCCCAAGGTA-TT
* *
23182 CCTTGGGTAGGTTCTGAGGCCCCAAGGTATT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
* * *
23213 CCTTGGATACGCTCTAAGGCCCCAAGGCATT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
23244 CCTT
1 CCTT
23248 AGGTTGGATC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 32 0.56
32 25 0.44
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
Found at i:30427 original size:35 final size:36
Alignment explanation
Indices: 30286--30471 Score: 286
Period size: 36 Copynumber: 5.2 Consensus size: 36
30276 AAGTTTGCAT
*
30286 CGATTGAAGTCGAACGGAGGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
* **
30322 CGATTCAAGTCGAACGGAGGGAAGCAACAACACTTC
1 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
30358 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
* * *
30394 TGATTCAAGTCGAACGGA-AGAAGCATCGACACTTC
1 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
*
30429 CGATTCAAGT-GAACGGAAGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
30464 CGATTCAA
1 CGATTCAA
30472 ATGTTCATCT
Statistics
Matches: 136, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
34 7 0.05
35 47 0.35
36 82 0.60
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (36 bp):
CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
Found at i:32518 original size:112 final size:112
Alignment explanation
Indices: 32186--32524 Score: 556
Period size: 112 Copynumber: 3.0 Consensus size: 112
32176 TCGTAGACAT
*
32186 CATTAAAATATGATTTTATCATATCAAATCAACATGTTGAAGTCCAACTCATAAGACTGTTAATC
1 CATTAAAATATGATTTTATCATATCAAATTAACATGTTGAAGTCCAACTCATAAGACTGTTAATC
*
32251 TTTAAACAGAAACAGATAATTTCGGGACATATGAATAATCAATTGAC
66 TTTAAACAGAAAAAGATAATTTCGGGACATATGAATAATCAATTGAC
*
32298 CATTAAAATATGATTTTATCATATCAAATT-ACATGTT-AAGTCCAACTCATAAGACTATTAATC
1 CATTAAAATATGATTTTATCATATCAAATTAACATGTTGAAGTCCAACTCATAAGACTGTTAATC
* * *
32361 TTTAAGCAAAAAAAAGATAATTTCGGGACATATGAATAATCAATTGAG
66 TTTAAAC-AGAAAAAGATAATTTCGGGACATATGAATAATCAATTGAC
* * *
32409 CATTACAATATGATTTTATCATATCAAATTAATATGTTGAAGTCCTACTCATAAGACTGTTAATC
1 CATTAAAATATGATTTTATCATATCAAATTAACATGTTGAAGTCCAACTCATAAGACTGTTAATC
* *
32474 TTTAAACAGAAAAAGATAATTTCGGGATATATGAATAATCAATTGAT
66 TTTAAACAGAAAAAGATAATTTCGGGACATATGAATAATCAATTGAC
32521 CATT
1 CATT
32525 TTATAATTTT
Statistics
Matches: 210, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
110 31 0.15
111 73 0.35
112 76 0.36
113 30 0.14
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (112 bp):
CATTAAAATATGATTTTATCATATCAAATTAACATGTTGAAGTCCAACTCATAAGACTGTTAATC
TTTAAACAGAAAAAGATAATTTCGGGACATATGAATAATCAATTGAC
Found at i:39022 original size:37 final size:37
Alignment explanation
Indices: 38968--39050 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
38958 GGTAACCAAC
38968 TTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 TTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
39004 ATTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 -TTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
39041 GTTGAAAAAT
1 TTTGAAAAAT
39051 GATAATGGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 32 0.76
38 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.43
Consensus pattern (37 bp):
TTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:39482 original size:16 final size:16
Alignment explanation
Indices: 39461--39493 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39451 TACTATTCAT
*
39461 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
39477 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
39493 G
1 G
39494 GTCGGCGATA
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:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:43609 original size:37 final size:38
Alignment explanation
Indices: 43554--43637 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
43544 TGGTAACCAA
43554 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
43591 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
43628 -GTTGAAAAAT
1 CTTTGAAAAAT
43638 GACAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 33 0.77
38 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:55410 original size:14 final size:14
Alignment explanation
Indices: 55391--55418 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55381 GAATTTTTCA
55391 AAAATATATTTCCT
1 AAAATATATTTCCT
55405 AAAATATATTTCCT
1 AAAATATATTTCCT
55419 GATGCAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATATATTTCCT
Found at i:57686 original size:59 final size:59
Alignment explanation
Indices: 57607--57725 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
57597 TTAAAACTTA
57607 TTTTATTTTTAACAAAACTAATATATATGTTAAATAGTGTTTGTATACTTTCATCTTCC
1 TTTTATTTTTAACAAAACTAATATATATGTTAAATAGTGTTTGTATACTTTCATCTTCC
57666 TTTTATTTTTAACAAAACTAATATATATGTTAAATAGTGTTTGTATACTTTCATCTTCC
1 TTTTATTTTTAACAAAACTAATATATATGTTAAATAGTGTTTGTATACTTTCATCTTCC
57725 T
1 T
57726 CATCAATCCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (59 bp):
TTTTATTTTTAACAAAACTAATATATATGTTAAATAGTGTTTGTATACTTTCATCTTCC
Found at i:59079 original size:73 final size:73
Alignment explanation
Indices: 58996--59135 Score: 246
Period size: 73 Copynumber: 1.9 Consensus size: 73
58986 CTCATATAAT
*
58996 TCATTATCCACACAATCTCATCAATAAAAGTTAAATAATATATG-TTCTAATCAAGTGATGGTAT
1 TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTC-AATCAAGTGATGGTAT
59060 ATTCATATG
65 ATTCATATG
*
59069 TCATCATCCACACAATCTCATCAATAAAAGTTAAATATTATATGTTTCAATCAAGTGATGGTATA
1 TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTCAATCAAGTGATGGTATA
59134 TT
66 TT
59136 AGAAGGTCTG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 61 0.95
74 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (73 bp):
TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTCAATCAAGTGATGGTATA
TTCATATG
Found at i:60360 original size:30 final size:25
Alignment explanation
Indices: 60295--60343 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
60285 TATATAATAT
60295 ATATATAGTTTAGTAGTTTACATAA
1 ATATATAGTTTAGTAGTTTACATAA
60320 ATATATAGTTTAGTAGTTTACATA
1 ATATATAGTTTAGTAGTTTACATA
60344 TGAACTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (25 bp):
ATATATAGTTTAGTAGTTTACATAA
Found at i:62601 original size:20 final size:20
Alignment explanation
Indices: 62559--62603 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62549 GCATTTCTAT
* * *
62559 TTTTTGATCAAAATATTTTA
1 TTTTTGAACAAAATAATTGA
*
62579 TTTTTGAACAAGATAATTGA
1 TTTTTGAACAAAATAATTGA
62599 TTTTT
1 TTTTT
62604 TATGAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTTTGAACAAAATAATTGA
Found at i:71544 original size:2 final size:2
Alignment explanation
Indices: 71537--71567 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
71527 TTTAGCAACA
*
71537 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71568 ACCCGTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77380 original size:17 final size:17
Alignment explanation
Indices: 77358--77406 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
77348 GTAAATAATA
77358 TTTTCTTGGTATATGAT
1 TTTTCTTGGTATATGAT
77375 TTTTC-T--TA-AT-A-
1 TTTTCTTGGTATATGAT
77386 TTTTCTTGGTATATGAT
1 TTTTCTTGGTATATGAT
77403 TTTT
1 TTTT
77407 TTAGATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 2 0.08
14 4 0.15
15 2 0.08
16 2 0.08
17 9 0.35
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.63
Consensus pattern (17 bp):
TTTTCTTGGTATATGAT
Found at i:77418 original size:29 final size:28
Alignment explanation
Indices: 77353--77422 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
77343 CAATCGTAAA
77353 TAATATTTTCTTGGTATATGATTTTTCT
1 TAATATTTTCTTGGTATATGATTTTTCT
77381 TAATATTTTCTTGGTATATGATTTTT-T
1 TAATATTTTCTTGGTATATGATTTTTCT
77408 TAGATACTTTTCTTG
1 TA-ATA-TTTTCTTG
77423 ATGGATGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 3 0.08
28 29 0.73
29 8 0.20
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.60
Consensus pattern (28 bp):
TAATATTTTCTTGGTATATGATTTTTCT
Found at i:77430 original size:29 final size:28
Alignment explanation
Indices: 77353--77435 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
77343 CAATCGTAAA
* *
77353 TAATATTTTCTTGGTATATGATTTTTCT
1 TAATATTTTCTTGATAGATGATTTTTCT
* *
77381 TAATATTTTCTTGGTATATGATTTTT-T
1 TAATATTTTCTTGATAGATGATTTTTCT
*
77408 TAGATACTTTTCTTGATGGATGATTTTT
1 TA-ATA-TTTTCTTGATAGATGATTTTT
77436 GTTCACATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 3 0.06
28 29 0.58
29 18 0.36
ACGTcount: A:0.22, C:0.06, G:0.13, T:0.59
Consensus pattern (28 bp):
TAATATTTTCTTGATAGATGATTTTTCT
Found at i:77977 original size:20 final size:22
Alignment explanation
Indices: 77944--77987 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
77934 CACCCGCATC
77944 ATCCATCCACCCAT-TA-ATAT
1 ATCCATCCACCCATATATATAT
* *
77964 ATCCATTCATCCATATATATAT
1 ATCCATCCACCCATATATATAT
77986 AT
1 AT
77988 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATCCATCCACCCATATATATAT
Found at i:78314 original size:14 final size:14
Alignment explanation
Indices: 78269--78404 Score: 50
Period size: 14 Copynumber: 9.8 Consensus size: 14
78259 AATGAACCCT
78269 AACCCTAAAACC-TA
1 AACCCT-AAACCTTA
** *
78283 AACTATAAATCTTA
1 AACCCTAAACCTTA
* *
78297 AACCTTAAACCCTA
1 AACCCTAAACCTTA
*
78311 AA-CCTAAGCAC-TA
1 AACCCTAAAC-CTTA
*
78324 AATCCTAAACCTTA
1 AACCCTAAACCTTA
**
78338 AACTATAAA-CTATA
1 AACCCTAAACCT-TA
* * * *
78352 AATCCGATACCTAA
1 AACCCTAAACCTTA
*
78366 AACCATAAAACC-TA
1 AACCCT-AAACCTTA
78380 AACCCTAAA-CTTAA
1 AACCCTAAACCTT-A
*
78394 AACCATAAACC
1 AACCCTAAACC
78405 CCAAACCATA
Statistics
Matches: 86, Mismatches: 26, Indels: 19
0.66 0.20 0.15
Matches are distributed among these distances:
12 1 0.01
13 20 0.23
14 58 0.67
15 7 0.08
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:78326 original size:34 final size:35
Alignment explanation
Indices: 78269--78340 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
78259 AATGAACCCT
*
78269 AACCCTAAAACCTAAACTATAAATCTTAAACCTTA
1 AACCCTAAAACCTAAACTATAAATCCTAAACCTTA
*
78304 AACCCT-AAACCTAAGC-ACTAAATCCTAAACCTTA
1 AACCCTAAAACCTAAACTA-TAAATCCTAAACCTTA
78338 AAC
1 AAC
78341 TATAAACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 1 0.03
34 27 0.79
35 6 0.18
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (35 bp):
AACCCTAAAACCTAAACTATAAATCCTAAACCTTA
Found at i:78410 original size:14 final size:14
Alignment explanation
Indices: 78364--78416 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
78354 TCCGATACCT
*
78364 AAAACCATAAAACC
1 AAAACCATAAACCC
* * **
78378 TAAACCCTAAACTT
1 AAAACCATAAACCC
78392 AAAACCATAAACCC
1 AAAACCATAAACCC
*
78406 CAAACCATAAA
1 AAAACCATAAA
78417 TCCGATTATG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCATAAACCC
Found at i:78410 original size:28 final size:28
Alignment explanation
Indices: 78363--78416 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
78353 ATCCGATACC
* *
78363 TAAAACCATAAAACCTAAACCCTAAACT
1 TAAAACCATAAAACCCAAACCATAAACT
*
78391 TAAAACCATAAACCCCAAACCATAAA
1 TAAAACCATAAAACCCAAACCATAAA
78417 TCCGATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (28 bp):
TAAAACCATAAAACCCAAACCATAAACT
Found at i:79099 original size:52 final size:51
Alignment explanation
Indices: 79015--79164 Score: 146
Period size: 52 Copynumber: 3.0 Consensus size: 51
79005 GAAAAATTTC
** *
79015 AATAAAAAATA-TTTTTATTCGAACTCATCACATTGAGCTGACGAGTTCT-
1 AATAAAAAATATTTTTTATTAAAACTCATCACATTGAGATGACGAGTTCTA
* * * * * **
79064 AATAAAATATAATTTTTTAATTAAAATTTATCACATCGAGATAAAAAGTT-TA
1 AATAAAAAAT-ATTTTTT-ATTAAAACTCATCACATTGAGATGACGAGTTCTA
*
79116 AATAAAAAATATTTTTTATTAAAACTCATCAC-TTCGAGGTGACGAGTTC
1 AATAAAAAATATTTTTTATTAAAACTCATCACATT-GAGATGACGAGTTC
79165 CATGTCACTG
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
49 10 0.13
50 23 0.30
51 13 0.17
52 31 0.40
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (51 bp):
AATAAAAAATATTTTTTATTAAAACTCATCACATTGAGATGACGAGTTCTA
Found at i:81854 original size:134 final size:135
Alignment explanation
Indices: 81676--81941 Score: 444
Period size: 135 Copynumber: 2.0 Consensus size: 135
81666 TCAAATTTTC
* * * * *
81676 AAAACCTTACTTTTATTAAGGTCATGGAATACTTATGCTGTCCACTAG-TTAAGCAATAAGGGAA
1 AAAACCCTACTTTTATTAAGCTCATAGAATACTTATGCTCTCCACTAGAGTAAGCAATAAGGGAA
*
81740 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGTGTTTGTGGTTATAATACCTATCAAGTATT
66 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTATCAAGTATT
81805 GTTCA
131 GTTCA
*
81810 AAAACCCTACTTTTTTTAAGCTCATAGAATACTTATGCTCTCCACTAGAGTAAGCAATAAGGGAA
1 AAAACCCTACTTTTATTAAGCTCATAGAATACTTATGCTCTCCACTAGAGTAAGCAATAAGGGAA
* *
81875 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATGATATCTATCAAGTATT
66 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTATCAAGTATT
81940 GT
131 GT
81942 GTGAATAAGT
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
134 43 0.35
135 79 0.65
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (135 bp):
AAAACCCTACTTTTATTAAGCTCATAGAATACTTATGCTCTCCACTAGAGTAAGCAATAAGGGAA
CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTATCAAGTATT
GTTCA
Found at i:82521 original size:20 final size:20
Alignment explanation
Indices: 82496--82535 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
82486 ACTATGGAAG
*
82496 AAAGAGAGGAGAGAGAAAGA
1 AAAGAGAGAAGAGAGAAAGA
*
82516 AAAGAGAGAAGAGAGGAAGA
1 AAAGAGAGAAGAGAGAAAGA
82536 TTGAAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (20 bp):
AAAGAGAGAAGAGAGAAAGA
Found at i:83651 original size:42 final size:42
Alignment explanation
Indices: 83595--83905 Score: 319
Period size: 42 Copynumber: 7.2 Consensus size: 42
83585 TATGGGTTTA
*
83595 AATTATAAAAGTAAAAAGT-ATGATTGAAAAATTAGGGTCCTC
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTAGGGTCCTC
* * *
83637 AATTTTAAAGGTAAAAAGTGAGATTAAAAAAATTAGGGGCCTC
1 AATTATAAAGGTAAAAAGTGAGATT-GAAAAATTAGGGTCCTC
* *
83680 AATTTTGAAGGTAAAAAGT-ATGATTGAAAAATTAGGGGT-CTC
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTA-GGGTCCTC
* *
83722 AATTATAAAGGTAAAAGGTGATATTGAAAAAATTAGGAGT--TC
1 AATTATAAAGGTAAAAAGTGAGATTG-AAAAATTAGG-GTCCTC
* *
83764 AATTATAAAGGTAAAATGTGAGATTGAAAAAAAAATTAGGGTCATC
1 AATTATAAAGGTAAAAAGTGAGATTG----AAAAATTAGGGTCCTC
** *
83810 AATTATAAATATAAAAAAGTGAGATTGAAAAAATTAATGGT-CTC
1 AATTATAAAGGT-AAAAAGTGAGATTG-AAAAATT-AGGGTCCTC
* *
83854 AATTATAAAGATAAAAAGTGAGATTAGAAAAATTAGGGGCCTC
1 AATTATAAAGGTAAAAAGTGAGATT-GAAAAATTAGGGTCCTC
83897 AATTATAAA
1 AATTATAAA
83906 TATAAAAATT
Statistics
Matches: 232, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
42 84 0.36
43 84 0.36
44 24 0.10
45 15 0.06
46 12 0.05
47 13 0.06
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (42 bp):
AATTATAAAGGTAAAAAGTGAGATTGAAAAATTAGGGTCCTC
Found at i:83697 original size:85 final size:84
Alignment explanation
Indices: 83595--83905 Score: 349
Period size: 85 Copynumber: 3.6 Consensus size: 84
83585 TATGGGTTTA
* *
83595 AATTATAAAAGTAAAAAGT-ATGATTGAAAAATTAGGGTCCTCAATTTTAAAGGTAAAAAGTGAG
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTAGGGTCCTCAATTATAAAGGTAAAAAGTGAG
*
83659 ATTAAAAAAATTAGGGGCCTC
65 ATTGAAAAAATTAGGGG-CTC
* * *
83680 AATTTTGAAGGTAAAAAGT-ATGATTGAAAAATTAGGGGT-CTCAATTATAAAGGTAAAAGGTGA
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTA-GGGTCCTCAATTATAAAGGTAAAAAGTGA
* * *
83743 TATTGAAAAAATTAGGAGTTC
64 GATTGAAAAAATTAGGGGCTC
* * **
83764 AATTATAAAGGTAAAATGTGAGATTGAAAAAAAAATTAGGGTCATCAATTATAAATATAAAAAAG
1 AATTATAAAGGTAAAAAGTGAGATTG----AAAAATTAGGGTCCTCAATTATAAAGGT-AAAAAG
* *
83829 TGAGATTGAAAAAATTAATGGTCTC
61 TGAGATTGAAAAAATT-AGGGGCTC
* *
83854 AATTATAAAGATAAAAAGTGAGATTAGAAAAATTAGGGGCCTCAATTATAAA
1 AATTATAAAGGTAAAAAGTGAGATT-GAAAAATTAGGGTCCTCAATTATAAA
83906 TATAAAAATT
Statistics
Matches: 191, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
84 23 0.12
85 69 0.36
86 4 0.02
87 27 0.14
88 20 0.10
89 20 0.10
90 27 0.14
91 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (84 bp):
AATTATAAAGGTAAAAAGTGAGATTGAAAAATTAGGGTCCTCAATTATAAAGGTAAAAAGTGAGA
TTGAAAAAATTAGGGGCTC
Found at i:83911 original size:43 final size:42
Alignment explanation
Indices: 83595--83913 Score: 304
Period size: 43 Copynumber: 7.4 Consensus size: 42
83585 TATGGGTTTA
*
83595 AATTATAAA-AGTAAAAAGT-ATGATTGAAAAATTAGGGTCCTC
1 AATTATAAAGA-TAAAAAGTGA-GATTGAAAAATTAGGGGCCTC
* * *
83637 AATTTTAAAGGTAAAAAGTGAGATTAAAAAAATTAGGGGCCTC
1 AATTATAAAGATAAAAAGTGAGATT-GAAAAATTAGGGGCCTC
* * * *
83680 AATTTTGAAGGTAAAAAGT-ATGATTGAAAAATTAGGGGTCTC
1 AATTATAAAGATAAAAAGTGA-GATTGAAAAATTAGGGGCCTC
* * * * *
83722 AATTATAAAGGTAAAAGGTGATATTGAAAAAATTAGGAG-TTC
1 AATTATAAAGATAAAAAGTGAGATTG-AAAAATTAGGGGCCTC
* * * *
83764 AATTATAAAGGTAAAATGTGAGATTGAAAAAAAAATTAGGGTCATC
1 AATTATAAAGATAAAAAGTGAGATTG----AAAAATTAGGGGCCTC
* ** *
83810 AATTATAAATATAAAAAAGTGAGATTGAAAAAATTAATGGTCTC
1 AATTATAAAGAT-AAAAAGTGAGATTG-AAAAATTAGGGGCCTC
83854 AATTATAAAGATAAAAAGTGAGATTAGAAAAATTAGGGGCCTC
1 AATTATAAAGATAAAAAGTGAGATT-GAAAAATTAGGGGCCTC
*
83897 AATTATAAATATAAAAA
1 AATTATAAAGATAAAAA
83914 TTAAAGAAAA
Statistics
Matches: 234, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
42 82 0.35
43 92 0.39
44 24 0.10
45 11 0.05
46 12 0.05
47 13 0.06
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (42 bp):
AATTATAAAGATAAAAAGTGAGATTGAAAAATTAGGGGCCTC
Found at i:83937 original size:90 final size:88
Alignment explanation
Indices: 83746--83928 Score: 210
Period size: 87 Copynumber: 2.1 Consensus size: 88
83736 AAGGTGATAT
* * * *
83746 TGAAAAAATT-AGGAGT-TCAATTATAAAGGTAAAATGTGAGATTGAAAAAAAAATTAGGGTCAT
1 TGAAAAAATTAATG-GTCTCAATTATAAAGATAAAAAGTGAGATT--AAAAAAAATTAGGGGCAT
** * *
83809 CAATTATAAATATAAAAAAGTGAGAT
63 CAATTATAAATATAAAAAAAAGAAAA
* *
83835 TGAAAAAATTAATGGTCTCAATTATAAAGATAAAAAGTGAGATT-AGAAAAATTAGGGGCCTCAA
1 TGAAAAAATTAATGGTCTCAATTATAAAGATAAAAAGTGAGATTAAAAAAAATTAGGGGCATCAA
83899 TTATAAATATAAAAATTAAAGAAAA
66 TTATAAATATAAAAA--AAAGAAAA
83924 TGAAA
1 TGAAA
83929 GGACTTAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
87 32 0.40
89 21 0.26
90 27 0.34
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.26
Consensus pattern (88 bp):
TGAAAAAATTAATGGTCTCAATTATAAAGATAAAAAGTGAGATTAAAAAAAATTAGGGGCATCAA
TTATAAATATAAAAAAAAGAAAA
Found at i:84642 original size:31 final size:31
Alignment explanation
Indices: 84607--84667 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
84597 ATTCAAAAAA
*
84607 TTAGGGACCTC-AATTATAAAGGTAAAAAGTG
1 TTAGGGACCTCAAATT-TAAAGATAAAAAGTG
*
84638 TTAGGGGCCTCAAATTTAAAGATAAAAAGT
1 TTAGGGACCTCAAATTTAAAGATAAAAAGT
84668 AAGATTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (31 bp):
TTAGGGACCTCAAATTTAAAGATAAAAAGTG
Found at i:87158 original size:21 final size:21
Alignment explanation
Indices: 87134--87182 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
87124 CCCGCTACAC
* *
87134 CCGCAATAGCGCCCGCGACGG
1 CCGCAATAACGCCCACGACGG
87155 CCGCAATAACGCCCACGACGG
1 CCGCAATAACGCCCACGACGG
87176 CCGCAAT
1 CCGCAAT
87183 CACAGTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.43, G:0.27, T:0.06
Consensus pattern (21 bp):
CCGCAATAACGCCCACGACGG
Found at i:88546 original size:32 final size:32
Alignment explanation
Indices: 88500--88578 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
88490 ATGAGTATAG
* *
88500 GAGCCAACCTAAGGGAGTACCTAGGGGCCTT-A
1 GAGCCTACCCAAGGGAGTACCTAGGGG-CTTAA
* *
88532 GAGCCTGCCCAAGGGAGTACCTTGGGGCTTAA
1 GAGCCTACCCAAGGGAGTACCTAGGGGCTTAA
*
88564 GATCCTACCCAAGGG
1 GAGCCTACCCAAGGG
88579 TCACCTTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 3 0.08
32 37 0.93
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.16
Consensus pattern (32 bp):
GAGCCTACCCAAGGGAGTACCTAGGGGCTTAA
Found at i:98362 original size:15 final size:15
Alignment explanation
Indices: 98342--98373 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98332 AAAATATTTC
*
98342 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
98357 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
98372 TT
1 TT
98374 CAATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:99153 original size:16 final size:17
Alignment explanation
Indices: 99122--99156 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
99112 CGTATCGCCG
*
99122 ACGAAATTTTACTATTC
1 ACGAAATTTCACTATTC
99139 ACGAAA-TTCACTATTC
1 ACGAAATTTCACTATTC
99155 AC
1 AC
99157 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (17 bp):
ACGAAATTTCACTATTC
Found at i:100575 original size:30 final size:29
Alignment explanation
Indices: 100510--100579 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
100500 TGATGATGTG
* *
100510 GCATGTCCACTTAGACTAAATGCTGACGT
1 GCATGTCCACTTAGACTAAATACTGACAT
* *
100539 GACATGTCCACTTTGACTAAATATTGACAT
1 G-CATGTCCACTTAGACTAAATACTGACAT
100569 CGCATGTCCAC
1 -GCATGTCCAC
100580 GTGTGATGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.03
30 33 0.94
31 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
GCATGTCCACTTAGACTAAATACTGACAT
Found at i:107108 original size:21 final size:21
Alignment explanation
Indices: 107082--107137 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
107072 GCGAATAAGT
107082 AAATCGCAACGCGAATTGGAA
1 AAATCGCAACGCGAATTGGAA
107103 AAATCGCAACGCGAATTGGAA
1 AAATCGCAACGCGAATTGGAA
107124 AAATCGCAACGCGA
1 AAATCGCAACGCGA
107138 TAATACAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGAA
Found at i:107147 original size:21 final size:21
Alignment explanation
Indices: 107082--107160 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
107072 GCGAATAAGT
*
107082 AAATCGCAACGCGA-ATTGGAA
1 AAATCGCAACGCGATAAT-GAA
*
107103 AAATCGCAACGCGA-ATTGGAA
1 AAATCGCAACGCGATAAT-GAA
107124 AAATCGCAACGCGATAAT-ACA
1 AAATCGCAACGCGATAATGA-A
*
107145 AAATCGTAACGCGATA
1 AAATCGCAACGCGATA
107161 CTGACTTTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.02
21 51 0.94
22 2 0.04
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.15
Consensus pattern (21 bp):
AAATCGCAACGCGATAATGAA
Found at i:107177 original size:20 final size:20
Alignment explanation
Indices: 107152--107200 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
107142 ACAAAATCGT
107152 AACGCGATACTGACTTTCGC
1 AACGCGATACTGACTTTCGC
*
107172 AACGCGATTCTGACTTTCGC
1 AACGCGATACTGACTTTCGC
*
107192 AACGAGATA
1 AACGCGATA
107201 ATACAGAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
AACGCGATACTGACTTTCGC
Found at i:107981 original size:24 final size:24
Alignment explanation
Indices: 107930--107983 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
107920 GTATTCGAAA
* * *
107930 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCAGAC
* *
107954 TTTGATATTAGTCAATACTCAGAT
1 TTTGATATTAGTCAATACCCAGAC
107978 TTTGAT
1 TTTGAT
107984 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCAGAC
Found at i:108175 original size:12 final size:12
Alignment explanation
Indices: 108158--108182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108148 ATATAATCCT
108158 GAAGAAGAAAAA
1 GAAGAAGAAAAA
108170 GAAGAAGAAAAA
1 GAAGAAGAAAAA
108182 G
1 G
108183 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:110981 original size:19 final size:19
Alignment explanation
Indices: 110940--111004 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
110930 GAAATGAAAA
110940 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
110956 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
110973 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
110992 TCGTATTGCGATT
1 TCGCATTGCGATT
111005 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:113059 original size:20 final size:19
Alignment explanation
Indices: 113036--113103 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
113026 GAAACTTAAA
113036 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
113056 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
113076 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
113095 ATCGCAACG
1 ATCGCAACG
113104 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:113111 original size:14 final size:14
Alignment explanation
Indices: 113092--113150 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
113082 ATGCGAAATG
113092 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
113106 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
113125 AAAATCGCAACGAC
1 AAAATCGCAACGAC
113139 AAAATCGCAACG
1 AAAATCGCAACG
113151 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:113166 original size:33 final size:33
Alignment explanation
Indices: 113076--113155 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
113066 GGAAATGGCT
113076 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
113109 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
113142 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
113156 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:113184 original size:19 final size:19
Alignment explanation
Indices: 113162--113258 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
113152 GAAACACAAA
113162 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
113181 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
113197 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
113214 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
113230 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
113247 TTGCATTGCGAT
1 TCGCATTGCGAT
113259 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 12 0.19
15 6 0.10
16 8 0.13
17 7 0.11
18 6 0.10
19 23 0.37
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:113203 original size:14 final size:14
Alignment explanation
Indices: 113184--113242 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
113174 TTTCATTTCG
113184 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
113198 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
113215 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
113231 CGTTGCGATTTT
1 CGTTGCGATTTT
113243 CATTTTGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:113209 original size:33 final size:33
Alignment explanation
Indices: 113167--113258 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
113157 ACAAATCGCA
*
113167 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
113200 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
113233 TTGCGATTTTCATTTTGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
113259 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:113277 original size:20 final size:20
Alignment explanation
Indices: 113252--113297 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
113242 TCATTTTGCA
113252 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
113272 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
113292 TTGCGA
1 TTGCGA
113298 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:113861 original size:18 final size:18
Alignment explanation
Indices: 113835--113879 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
113825 GTCGATCAGA
*
113835 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
113853 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
113871 TGATGGCTC
1 TGATGGCTC
113880 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:115247 original size:20 final size:20
Alignment explanation
Indices: 115199--115257 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
115189 AATAGTTTCT
** *
115199 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
115219 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
115239 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
115258 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:115851 original size:61 final size:61
Alignment explanation
Indices: 115786--115902 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
115776 GAAAGTCAGA
* *
115786 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGAATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTTGTATT
* * *
115847 ATCGCATTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTT
115903 CCCAATTCGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTTGTATT
Found at i:115899 original size:20 final size:20
Alignment explanation
Indices: 115765--115899 Score: 164
Period size: 20 Copynumber: 6.7 Consensus size: 20
115755 GATTATGTAT
*
115765 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
115785 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
115805 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * * *
115825 AATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
115846 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
115866 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
115886 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
115900 TTTCCCAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 83 0.84
21 11 0.11
22 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:115918 original size:61 final size:61
Alignment explanation
Indices: 115786--115920 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
115776 GAAAGTCAGA
* * ** *
115786 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGAATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTTCCAAT
* * *
115847 ATCGCATTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTT-CCAAT
115909 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
115921 TTACTTATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 62 0.97
62 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTTCCAAT
Found at i:115932 original size:20 final size:21
Alignment explanation
Indices: 115888--115939 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
115878 ATAGTCAGTA
*
115888 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTACCAAT
**
115909 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTACCAAT
*
115929 TCGCATTGCGA
1 TCGCGTTGCGA
115940 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTACCAAT
Found at i:115939 original size:81 final size:81
Alignment explanation
Indices: 115744--115922 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 81
115734 GCACTTTGAA
* * *
115744 AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
1 AATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
*
115809 GCGTTGCGAAAGTCAG
66 GCGTTGCGAAAGTCAC
* * * *
115825 AATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATC
1 AATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
*** *
115890 GCGTTGCGATTTTCCC
66 GCGTTGCGAAAGTCAC
115906 AATTCGCGTTGCGATTT
1 AA-TCGCGTTGCGATTT
115923 ACTTATTCGC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 71 0.85
82 13 0.15
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (81 bp):
AATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
GCGTTGCGAAAGTCAC
Found at i:116010 original size:21 final size:21
Alignment explanation
Indices: 115970--116010 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
115960 ACTGTAGACC
** *
115970 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
115991 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
116011 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:120558 original size:57 final size:57
Alignment explanation
Indices: 120497--120616 Score: 138
Period size: 56 Copynumber: 2.1 Consensus size: 57
120487 TAAAGTACAT
* * * *
120497 AAATGGTTCT-TTGACTAT-AGAGTGTTTTATTAAGTCTTTTAACTATTAAAAGTTATA
1 AAATGGTTCTCTCGACTATAAGA-TGATTT-TTAAGTCCTCTAACTATTAAAAGTTATA
* * *
120554 AAAT-GATCTCTCGACTATAAGATGATTTTTAAGTCCTCTGAGTATTAAAAGTTATA
1 AAATGGTTCTCTCGACTATAAGATGATTTTTAAGTCCTCTAACTATTAAAAGTTATA
120610 AAATGGT
1 AAATGGT
120617 CACTTGACGA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
56 32 0.62
57 17 0.33
58 3 0.06
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (57 bp):
AAATGGTTCTCTCGACTATAAGATGATTTTTAAGTCCTCTAACTATTAAAAGTTATA
Found at i:121085 original size:20 final size:21
Alignment explanation
Indices: 121054--121096 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
121044 TTGTTGTACT
*
121054 ATATTGGAATTTAATGTTTGA
1 ATATTGGAATTTAATGTTAGA
*
121075 ATATT-GAATTTGATGTTAGA
1 ATATTGGAATTTAATGTTAGA
121095 AT
1 AT
121097 GTGCAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (21 bp):
ATATTGGAATTTAATGTTAGA
Found at i:121264 original size:11 final size:11
Alignment explanation
Indices: 121245--121283 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
121235 TAAACCCCAT
121245 TTATTTTATT-
1 TTATTTTATTA
121255 TTATTTTTATGTA
1 TTA-TTTTAT-TA
121268 TTATTTTATTA
1 TTATTTTATTA
121279 TTATT
1 TTATT
121284 ATATAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 3 0.12
11 13 0.50
12 7 0.27
13 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:122818 original size:17 final size:18
Alignment explanation
Indices: 122786--122827 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
122776 TTGAATTTAT
*
122786 TTTTATTTTAAAATATTA
1 TTTTGTTTTAAAATATTA
122804 TTTTGTTTT-AAATATTA
1 TTTTGTTTTAAAATATTA
*
122821 ATTTGTT
1 TTTTGTT
122828 GAGTCTTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTGTTTTAAAATATTA
Found at i:124029 original size:43 final size:43
Alignment explanation
Indices: 123981--124071 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
123971 CGGGACACCT
*
123981 AAAGTGACAACGTTTGTAACGTTAGACACCT-ATATGAATTGAA
1 AAAGTGACAACGTTTGTAACGTTAGACACCTGA-ATGAATTAAA
124024 AAAGTGACAACGTTTGTAACGTTAGACACCTGAATGAATTAAA
1 AAAGTGACAACGTTTGTAACGTTAGACACCTGAATGAATTAAA
124067 AAAGT
1 AAAGT
124072 TTAGGCACCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAGTGACAACGTTTGTAACGTTAGACACCTGAATGAATTAAA
Found at i:132728 original size:4 final size:4
Alignment explanation
Indices: 132719--132744 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
132709 ACATAGTCCT
132719 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
132745 CTGAGACGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:133530 original size:18 final size:19
Alignment explanation
Indices: 133495--133531 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
133485 CACGGAATGT
133495 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
133515 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
133532 GGATTACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:137716 original size:150 final size:150
Alignment explanation
Indices: 137531--137833 Score: 480
Period size: 150 Copynumber: 2.0 Consensus size: 150
137521 AATTGTTTAT
* * * * *
137531 ATGGAAAGGTGTCAAAGACCAGAAGGCATTGGAGCTAGCATTTTGTAAGAAAATAGAGAACAGGG
1 ATGGAAAGATGTCAAAGACCAGAAGGCATTAGAGCTAGCATTTAGTAAGAAAATAGAAAACAGGA
* *
137596 GGAAAGAATACCTATTAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAATTTAATTCTA
66 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAATTTAATTCTA
137661 GATTCTAGATTGTGAAATTC
131 GATTCTAGATTGTGAAATTC
* * **
137681 ATGGAAATATGTCAAAGACCGGAAGGCATTAGAGCTAGCATTTAGTAAGAAAATAGAAAACATTA
1 ATGGAAAGATGTCAAAGACCAGAAGGCATTAGAGCTAGCATTTAGTAAGAAAATAGAAAACAGGA
* **
137746 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAATAAAAAATTTGGTTCTA
66 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAATTTAATTCTA
137811 GATTCTAGATTGTGAAATTC
131 GATTCTAGATTGTGAAATTC
137831 ATG
1 ATG
137834 ATTTTTTAGT
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
150 139 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (150 bp):
ATGGAAAGATGTCAAAGACCAGAAGGCATTAGAGCTAGCATTTAGTAAGAAAATAGAAAACAGGA
GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAATTTAATTCTA
GATTCTAGATTGTGAAATTC
Found at i:162065 original size:31 final size:31
Alignment explanation
Indices: 162029--162087 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
162019 AACTTAAAAG
* *
162029 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
162060 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
162088 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:162138 original size:22 final size:22
Alignment explanation
Indices: 162112--162154 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
162102 TAATAAATTA
162112 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
162134 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
162155 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:162163 original size:22 final size:22
Alignment explanation
Indices: 162114--162162 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
162104 ATAAATTATT
**
162114 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
162136 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
162159 TAAA
1 TAAA
162163 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:162166 original size:54 final size:54
Alignment explanation
Indices: 162102--162936 Score: 568
Period size: 54 Copynumber: 15.4 Consensus size: 54
162092 ACAACTACAA
162102 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
162156 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
162213 TTTTAAAATAAAT-CAATCCATACAAATGAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * **
162268 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * ** * *
162323 -AATCCA-TATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
162381 T-AT--A-T-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
162430 AAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
162485 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
162539 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
162592 T-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
162651 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * * ** * *
162699 AAATAAATTATTTAATATAAATCAATCCATA--CT--AATAAAT-TATTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * **
162748 TAAATAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 T-AATAAA-T--TA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** *
162808 -AATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
162861 TAATAAATTATTTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
162915 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
162937 TATTTTAAAA
Statistics
Matches: 615, Mismatches: 101, Indels: 130
0.73 0.12 0.15
Matches are distributed among these distances:
48 51 0.08
49 10 0.02
50 18 0.03
51 2 0.00
52 13 0.02
53 20 0.03
54 313 0.51
55 79 0.13
56 19 0.03
57 20 0.03
58 56 0.09
59 8 0.01
60 2 0.00
61 3 0.00
62 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:162172 original size:32 final size:31
Alignment explanation
Indices: 162134--162936 Score: 416
Period size: 32 Copynumber: 29.4 Consensus size: 31
162124 CAATCCATAT
162134 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
162166 TTTAAAATAAATCAATTCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
162196 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
162214 TTTAAAATAAATCAATCCATACAAATGAATTA
1 TTTAAAATAAATCAATCCATACTAAT-AAATA
162246 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162278 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162310 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
162332 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162364 TTTAAAATAAATC-A---AT-CT-AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
162386 TTTAAAATAAATCAATCC--A----T--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
162408 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162440 TTTAAAATAAATCAATCCATAC-------T-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
162463 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162495 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
162517 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
162549 TTTAAAATAAATCAATTCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
162579 --T--AATAAATCAATCTATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
162604 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
162629 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
162659 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
162677 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
162709 TTTAATATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
162741 TTTAAAATAAAT-AA---AT--TCAT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
162763 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162795 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
162817 TTTAAAATAAATCAATCCATA-T--------
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
162839 TTTAAAATAAATCAATCCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
162871 TTTTAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
162893 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
162925 TTTAAAATAAAT
1 TTTAAAATAAAT
162937 TATTTTAAAA
Statistics
Matches: 618, Mismatches: 29, Indels: 248
0.69 0.03 0.28
Matches are distributed among these distances:
20 2 0.00
22 171 0.28
23 41 0.07
24 12 0.02
25 5 0.01
26 61 0.10
27 2 0.00
28 20 0.03
30 8 0.01
31 20 0.03
32 276 0.45
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:162207 original size:80 final size:80
Alignment explanation
Indices: 162117--162515 Score: 290
Period size: 80 Copynumber: 4.9 Consensus size: 80
162107 AATTATTTAA
*
162117 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
162182 TCATACAACTACAAT
66 CCATACAACTACAAT
*
162197 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATGAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
162262 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
* * * ** * * *
162281 AAAATAAATCAATCCATA--CT--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT---TA-TTTAAAATAA
* *
162342 ATCAATCAATACTAA-TAAATTATTT
60 ATCAATCCATAC-AACTACA--A--T
*
162367 AAAATAAATCAATCTATATTTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
* *
162422 ATCCATACAAATAAATTATTT
64 ATCCATACAACTACA--A--T
* *
162443 AAAATAAATCAATCCATACTTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATC
1 --AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATC
162508 AATCCATA
63 AATCCATA
162516 TTTTAAAATA
Statistics
Matches: 270, Mismatches: 22, Indels: 47
0.80 0.06 0.14
Matches are distributed among these distances:
75 2 0.01
76 48 0.18
77 17 0.06
78 1 0.00
80 71 0.26
81 3 0.01
82 20 0.07
83 2 0.01
84 4 0.01
85 3 0.01
86 68 0.25
87 21 0.08
88 1 0.00
90 9 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:162361 original size:22 final size:22
Alignment explanation
Indices: 162312--162424 Score: 64
Period size: 22 Copynumber: 4.7 Consensus size: 22
162302 ATAAATTATT
* **
162312 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
162334 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
* *
162357 TAAATTATTTAAAATAAATCAATCTATATTT
1 TAAA--A--T-AAATCAATCAA--TATA--A
* **
162388 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
162410 TAAAATAAATCAATC
1 TAAAATAAATCAATC
162425 CATACAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
22 34 0.47
23 5 0.07
24 3 0.04
25 1 0.01
26 9 0.12
27 2 0.03
28 10 0.14
29 3 0.04
30 2 0.03
31 4 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:162405 original size:76 final size:77
Alignment explanation
Indices: 162246--162479 Score: 344
Period size: 76 Copynumber: 2.9 Consensus size: 77
162236 AAATGAATTA
*
162246 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC-A---AT-CT-AT--ACT-T
162311 TTAAAATAAATCAATCCATAT
57 TTAAAATAAATCAATCCATAT
*
162332 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCTATA-TTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACTTTTAAAATAA
162396 ATCAATCCATAT
66 ATCAATCCATAT
* *
162408 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACTTTTAAAATAA
162473 ATCAATC
66 ATCAATC
162480 TATACTAATA
Statistics
Matches: 143, Mismatches: 4, Indels: 11
0.91 0.03 0.07
Matches are distributed among these distances:
76 72 0.50
77 19 0.13
78 1 0.01
80 2 0.01
81 2 0.01
82 2 0.01
85 1 0.01
86 44 0.31
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (77 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACTTTTAAAATAA
ATCAATCCATAT
Found at i:162437 original size:22 final size:22
Alignment explanation
Indices: 162366--162436 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
162356 ATAAATTATT
* ***
162366 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATAAAA
***
162388 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATAAAA
162410 TAAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATA-AAA
162433 TAAA
1 TAAA
162437 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 40 0.91
23 4 0.09
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAATCAATCCATAAAA
Found at i:162491 original size:23 final size:23
Alignment explanation
Indices: 162442--162491 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
162432 ATAAATTATT
**
162442 TAAAATAAATCAATCCATACTTT
1 TAAAATAAATCAATCCATACTAA
*
162465 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATACTAA
162488 TAAA
1 TAAA
162492 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:162521 original size:22 final size:22
Alignment explanation
Indices: 162495--162537 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
162485 TAATAAATTA
162495 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
162517 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
162538 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:162546 original size:22 final size:22
Alignment explanation
Indices: 162497--162545 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
162487 ATAAATTATT
**
162497 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
162519 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
162542 TAAA
1 TAAA
162546 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:162608 original size:80 final size:80
Alignment explanation
Indices: 162500--162891 Score: 578
Period size: 80 Copynumber: 4.9 Consensus size: 80
162490 AATTATTTAA
162500 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
162565 TCATACAACTACAAT
66 CCATACAACTACAAT
*
162580 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
162645 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
162660 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAATATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
162725 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
* *
162744 AAAATAAATAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
* **
162809 ATCCAT---ATTTTAA-
64 ATCCATACAACTACAAT
* *
162822 AATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAATTATTTTAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
162887 CCATA
66 CCATA
162892 TTTTAAAATA
Statistics
Matches: 287, Mismatches: 16, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
76 65 0.23
80 149 0.52
81 3 0.01
82 2 0.01
83 2 0.01
84 1 0.00
86 65 0.23
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:162706 original size:22 final size:22
Alignment explanation
Indices: 162633--162706 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
162623 AAATTATTTA
*
162633 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
162658 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
162680 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
162703 AAAT
1 AAAT
162707 TATTTAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:162736 original size:18 final size:18
Alignment explanation
Indices: 162659--162738 Score: 51
Period size: 22 Copynumber: 4.4 Consensus size: 18
162649 ACAACTACAA
*
162659 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA--C
162679 TAAAATAAATCAATCCATAC
1 T--AATAAATCAATCCATAC
* * * *
162699 AAATAAAT-TAT--TTAA
1 TAATAAATCAATCCATAC
162714 T-ATAAATCAATCCATAC
1 TAATAAATCAATCCATAC
162731 TAATAAAT
1 TAATAAAT
162739 TATTTAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
17 5 0.11
18 13 0.29
20 1 0.02
22 16 0.36
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAAATCAATCCATAC
Found at i:162767 original size:22 final size:22
Alignment explanation
Indices: 162741--162971 Score: 102
Period size: 22 Copynumber: 9.5 Consensus size: 22
162731 TAATAAATTA
*
162741 TTTAAAATAAATAAATTCATAT
1 TTTAAAATAAATAAATCCATAT
*
162763 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATAAATCCATA-T
**
162786 AATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAA--A--T-AAAT-AA---ATCCATAT
*
162817 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
162839 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
162861 TAATAAATTATTTTAAATAAATCAATCCATAT
1 T-TTAAA--A---TAAAT--A--AATCCATAT
*
162893 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATAAATCCATA-T
** * ** **
162916 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-AAATCCA-TAT
*
162940 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
162962 TTTATAATAA
1 TTTAAAATAA
162972 TTTATTTTAA
Statistics
Matches: 157, Mismatches: 29, Indels: 46
0.68 0.12 0.20
Matches are distributed among these distances:
22 70 0.45
23 21 0.13
24 12 0.08
25 5 0.03
26 9 0.06
27 2 0.01
28 9 0.06
29 3 0.02
31 9 0.06
32 17 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:162945 original size:15 final size:15
Alignment explanation
Indices: 162916--163064 Score: 96
Period size: 15 Copynumber: 9.5 Consensus size: 15
162906 AATCCATACT
162916 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
162930 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
162945 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
162967 AATAATTTATTTTAA
1 AATAAATTATTTTAA
162982 AATAAATTATTTTATAATAAA
1 AATAAATTA--TT-T--T-AA
163003 TAATAAATTATTTTAA
1 -AATAAATTATTTTAA
163019 AATAAATTATTTT--
1 AATAAATTATTTTAA
*
163032 -AT--A-GATTTTAA
1 AATAAATTATTTTAA
163043 AATAAATTATTTTAA
1 AATAAATTATTTTAA
163058 AATAAAT
1 AATAAAT
163065 AACCTTATTA
Statistics
Matches: 108, Mismatches: 6, Indels: 41
0.70 0.04 0.26
Matches are distributed among these distances:
9 5 0.05
10 1 0.01
12 4 0.04
14 10 0.09
15 50 0.46
16 2 0.02
17 4 0.04
18 3 0.03
19 4 0.04
20 4 0.04
21 2 0.02
22 19 0.18
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:162977 original size:37 final size:37
Alignment explanation
Indices: 162925--163064 Score: 174
Period size: 37 Copynumber: 3.7 Consensus size: 37
162915 TAATAAATTA
* * **
162925 TTTAAAATAAATTATTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATTATTTTAAAATAAATTATTTTATAT
* *
162962 TTTATAATAATTTATTTTAAAATAAATTATTTTATA-
1 TTTAAAATAAATTATTTTAAAATAAATTATTTTATAT
* *
162998 ATAAATAATAAATTATTTTAAAATAAATTATTTTATAGAT
1 TTTAA-AATAAATTATTTTAAAATAAATTATTTTAT--AT
163038 TTTAAAATAAATTATTTTAAAATAAAT
1 TTTAAAATAAATTATTTTAAAATAAAT
163065 AACCTTATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 2 0.02
37 59 0.68
39 23 0.26
40 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (37 bp):
TTTAAAATAAATTATTTTAAAATAAATTATTTTATAT
Found at i:163003 original size:52 final size:52
Alignment explanation
Indices: 162836--163032 Score: 198
Period size: 52 Copynumber: 3.8 Consensus size: 52
162826 AATCAATCCA
*
162836 TATTTTAAAATAAATCAATCCATA---T-TAATAAATTATTTTAAATAAATCAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTT--A-AAATAAAT
*
162887 CCATATTTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAAATAAAT
1 ---TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
*
162937 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
* ** *
162989 TATTTTATAATAAAT-AATAAATTATTTTAAAATAAATTATTTTA
1 TATTTTAAAATAAATCAATCCA-TATTTTATAATAAATTATTTTA
163033 TAGATTTTAA
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
47 24 0.19
50 7 0.05
51 14 0.11
52 46 0.36
53 3 0.02
54 34 0.27
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (52 bp):
TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
Found at i:163010 original size:22 final size:22
Alignment explanation
Indices: 162982--163025 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
162972 TTTATTTTAA
*
162982 AATAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
163004 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
163026 TATTTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAATTATTTTAAAATAAAT
Found at i:164983 original size:25 final size:25
Alignment explanation
Indices: 164954--165001 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
164944 TGATTGACAT
164954 AATGTTAGAAAAATATCTCTAACAA
1 AATGTTAGAAAAATATCTCTAACAA
164979 AATGTTAGAAAAATATCTCTAAC
1 AATGTTAGAAAAATATCTCTAAC
165002 GTGTAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (25 bp):
AATGTTAGAAAAATATCTCTAACAA
Found at i:167038 original size:151 final size:151
Alignment explanation
Indices: 166758--167062 Score: 475
Period size: 151 Copynumber: 2.0 Consensus size: 151
166748 AATTTTTTAT
* * ** * *
166758 ATGGAAAGGTGTCAAAGACCAGAAGGTATTGGAGCTAGCATTTTGTAAGAAAATAGAGAACAAGA
1 ATGGAAAGATGTCAAAGACCAGAAGGCATTAAAGCTAACATTTAGTAAGAAAATAGAGAACAAGA
*
166823 GGAAAGAATACCTATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAAAATTAATTCT
66 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAAAATTAATTCT
*
166888 AGATTCTAGATTGTGAAATTC
131 AGATTCTAGAATGTGAAATTC
* * * *
166909 ATGGAAATATGTCATAGACCGGAAGGCATTAAAGCTAACATTTAGTAAGAAAATAGAGAACAATA
1 ATGGAAAGATGTCAAAGACCAGAAGGCATTAAAGCTAACATTTAGTAAGAAAATAGAGAACAAGA
* *
166974 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAAATTTGATTCT
66 GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAAAATTAATTCT
*
167039 AGATTCTAGAATGTTAAATTC
131 AGATTCTAGAATGTGAAATTC
167060 ATG
1 ATG
167063 ATTTTTTAGT
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 139 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.29
Consensus pattern (151 bp):
ATGGAAAGATGTCAAAGACCAGAAGGCATTAAAGCTAACATTTAGTAAGAAAATAGAGAACAAGA
GGAAAGAATACATATGAGGTTTTAACATAGTTGTATAGTTCATGCTAACAAAAAAAATTAATTCT
AGATTCTAGAATGTGAAATTC
Found at i:168958 original size:150 final size:150
Alignment explanation
Indices: 168687--168986 Score: 537
Period size: 150 Copynumber: 2.0 Consensus size: 150
168677 TGTAAGATAA
*
168687 CACTGTCAGGAAACACACCTGTAACAGTCTGAGAAATCAGATAAGGAAGCCTACTAATGGGTCTG
1 CACTGTCAGGAAACACACCTGTAACAGTCTGAGAAATCAGATAAGAAAGCCTACTAATGGGTCTG
*
168752 TCGATCACGCTCTGCTGCAACACTAGATCCTACGAATTGGAAAAATCCATATTGGAATCCTAATA
66 TCGATCACGCTCTGCTGCAACACTAGATCCTACGAATTGAAAAAATCCATATTGGAATCCTAATA
168817 TAAATAATCTTAATCTTTAT
131 TAAATAATCTTAATCTTTAT
*
168837 CACTGTTAGGAAACACACCTGTAACAGTCTGAGAAATCAGATAAGAAAGCCTACTAATGGGTCTG
1 CACTGTCAGGAAACACACCTGTAACAGTCTGAGAAATCAGATAAGAAAGCCTACTAATGGGTCTG
* * * *
168902 TCGATCACGCTTTGCTGCAGCGCTAGATCTTACGAATTGAAAAAATCCATATTGGAATCCTAATA
66 TCGATCACGCTCTGCTGCAACACTAGATCCTACGAATTGAAAAAATCCATATTGGAATCCTAATA
168967 TAAATAATCTTAATCTTTAT
131 TAAATAATCTTAATCTTTAT
168987 TAAAATAATA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 143 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (150 bp):
CACTGTCAGGAAACACACCTGTAACAGTCTGAGAAATCAGATAAGAAAGCCTACTAATGGGTCTG
TCGATCACGCTCTGCTGCAACACTAGATCCTACGAATTGAAAAAATCCATATTGGAATCCTAATA
TAAATAATCTTAATCTTTAT
Found at i:169498 original size:29 final size:30
Alignment explanation
Indices: 169465--169532 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
169455 CATTTTACAG
* *
169465 AAATAACACCCT-TTTTAAATTAATTTCTA
1 AAATAACACCCTATTTCAAATTAATTACTA
* *
169494 AAATAGCA-CCTATTTCGAATTAATTACTA
1 AAATAACACCCTATTTCAAATTAATTACTA
169523 AAATAACACC
1 AAATAACACC
169533 GATCAACGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.09
29 28 0.88
30 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATAACACCCTATTTCAAATTAATTACTA
Found at i:176374 original size:21 final size:21
Alignment explanation
Indices: 176348--176392 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
176338 GATTTCTGGG
* *
176348 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
176369 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
176390 CAA
1 CAA
176393 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:177253 original size:2 final size:2
Alignment explanation
Indices: 177246--177286 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
177236 AATCTTGAGA
177246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
177287 GATGGATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:178348 original size:149 final size:148
Alignment explanation
Indices: 177922--178383 Score: 813
Period size: 149 Copynumber: 3.1 Consensus size: 148
177912 GAGTCGAGGG
* * *
177922 TCTACGCGGTCCTTCGGGACATATGTATATTCTT-TGGAACATGTGAGAAGTCTTGAAAGACACA
1 TCTACGCGGTCCTTCGGGA-ATATATATATT-TTGTGGAACATGTGTGAAGTCTTGAGAGACACA
177986 TA-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTAT
64 TACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTAT
*
178050 TATATGGCACTACAGTGCAAT
128 TATATGGCACTACGGTGCAAT
178071 TCTACGCGGTCCTTCGGG-ATATATATATTTTGTGGAACATGTGTGAAGTCTTGAGAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTTTGTGGAACATGTGTGAAGTCTTGAGAGACACATA
178135 CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTAT
178200 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
178218 TCTACGCGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTTTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
*
178283 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
65 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
178348 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
*
178367 TCTACGCGGTACTTCGG
1 TCTACGCGGTCCTTCGG
178384 TGCAATTATA
Statistics
Matches: 303, Mismatches: 6, Indels: 8
0.96 0.02 0.03
Matches are distributed among these distances:
146 2 0.01
147 138 0.46
148 1 0.00
149 162 0.53
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTTTGTGGAACATGTGTGAAGTCTTGAGAGACACATA
CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:181565 original size:21 final size:21
Alignment explanation
Indices: 181539--181583 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
181529 GATTTCTGGG
*
181539 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCATT
*
181560 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
181581 CAA
1 CAA
181584 ACGAACAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:182448 original size:2 final size:2
Alignment explanation
Indices: 182441--182478 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
182431 AATCTTGAGA
182441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
182479 GGATATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:183541 original size:151 final size:149
Alignment explanation
Indices: 183111--183576 Score: 819
Period size: 149 Copynumber: 3.1 Consensus size: 149
183101 GAGTCGAGGG
* * * * *
183111 TCTACGCAGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
183176 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
183240 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
*
183260 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGAGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
183325 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
183390 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
183409 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACAC
1 TCTACGCGGTCCTTCGGG--ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACAC
*
183474 ATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCAT
64 ATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTAT
183539 TATATGGCACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
183560 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
183577 TGCAATTATA
Statistics
Matches: 305, Mismatches: 8, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
149 159 0.52
150 2 0.01
151 144 0.47
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:183577 original size:23 final size:23
Alignment explanation
Indices: 183544--183588 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
183534 ATCATTATAT
*
183544 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
183567 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
183589 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:184344 original size:42 final size:42
Alignment explanation
Indices: 184281--184464 Score: 239
Period size: 42 Copynumber: 4.4 Consensus size: 42
184271 CTGTGCAAAA
*
184281 AGCAAA-GGAGCCTAGGAAAACTATAAGGTTTATCCTT-GCACAC
1 AGCAAAGGGA-CCT-GGAAAACTATAAGGCTTA-CCTTCGCACAC
*
184324 AGCAAAGGGACCTGGAAAACTGTAAGGCTTACTCTT-GCACAC
1 AGCAAAGGGACCTGGAAAACTATAAGGCTTAC-CTTCGCACAC
* * *
184366 ATCAAAGGGACCTGGTAAACTGTAAGGCTTACCTTCGCACAC
1 AGCAAAGGGACCTGGAAAACTATAAGGCTTACCTTCGCACAC
* *
184408 AGCAAAGGGACCTGGGAAACTATAAGGCTTACCTTCGCACAA
1 AGCAAAGGGACCTGGAAAACTATAAGGCTTACCTTCGCACAC
*
184450 AGCAAAGGGAGCTGG
1 AGCAAAGGGACCTGG
184465 TAATACTTCC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
41 4 0.03
42 113 0.88
43 9 0.07
44 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (42 bp):
AGCAAAGGGACCTGGAAAACTATAAGGCTTACCTTCGCACAC
Found at i:184406 original size:84 final size:84
Alignment explanation
Indices: 184260--184467 Score: 253
Period size: 84 Copynumber: 2.5 Consensus size: 84
184250 AATACACCAG
* * *
184260 TAAGGCTTAACCTGT-GCAAAAAGCAAA-GGAGCCTAGGAAAACTATAAGGTTTATCCTTGCACA
1 TAAGGCTT-ACCT-TCGCACAAAGCAAAGGGA-CCT-GGTAAACTATAAGGCTTATCCTTGCACA
*
184323 CAGCAAAGGGACCTGGAAAACTG
62 CAGCAAAGGGACCTGGAAAACTA
* * *
184346 TAAGGCTTACTCTT-GCACACATCAAAGGGACCTGGTAAACTGTAAGGCTTA-CCTTCGCACACA
1 TAAGGCTTAC-CTTCGCACAAAGCAAAGGGACCTGGTAAACTATAAGGCTTATCCTT-GCACACA
*
184409 GCAAAGGGACCTGGGAAACTA
64 GCAAAGGGACCTGGAAAACTA
*
184430 TAAGGCTTACCTTCGCACAAAGCAAAGGGAGCTGGTAA
1 TAAGGCTTACCTTCGCACAAAGCAAAGGGACCTGGTAA
184468 TACTTCCTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
83 7 0.07
84 72 0.67
85 15 0.14
86 13 0.12
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (84 bp):
TAAGGCTTACCTTCGCACAAAGCAAAGGGACCTGGTAAACTATAAGGCTTATCCTTGCACACAGC
AAAGGGACCTGGAAAACTA
Found at i:185509 original size:22 final size:22
Alignment explanation
Indices: 185481--185528 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
185471 CGGTCAACGA
185481 TCGGGTCGGGTCAACGGTCGGG
1 TCGGGTCGGGTCAACGGTCGGG
185503 TCGGGTCGGGTCAACGGTCGGG
1 TCGGGTCGGGTCAACGGTCGGG
185525 TCGG
1 TCGG
185529 ATTGGAACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (22 bp):
TCGGGTCGGGTCAACGGTCGGG
Found at i:185528 original size:17 final size:17
Alignment explanation
Indices: 185472--185509 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
185462 ATCGGTCAAC
185472 GGTCAACGATCGGGTCG
1 GGTCAACGATCGGGTCG
*
185489 GGTCAACGGTCGGGTCG
1 GGTCAACGATCGGGTCG
185506 GGTC
1 GGTC
185510 GGGTCAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCG
Found at i:185643 original size:12 final size:12
Alignment explanation
Indices: 185626--185666 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
185616 TAAGTGTCGG
185626 AAAATTTACAGA
1 AAAATTTACAGA
*
185638 AAAATTT-C-TA
1 AAAATTTACAGA
185648 AAAATTTACAGA
1 AAAATTTACAGA
185660 AAAATTT
1 AAAATTT
185667 CTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 15 0.60
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (12 bp):
AAAATTTACAGA
Found at i:185652 original size:10 final size:10
Alignment explanation
Indices: 185637--185675 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
185627 AAATTTACAG
185637 AAAAATTTCT
1 AAAAATTTCT
*
185647 AAAAATTTACAG
1 AAAAATTT-C-T
185659 AAAAATTTCT
1 AAAAATTTCT
185669 AAAAATT
1 AAAAATT
185676 ATTCTGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 15 0.60
11 2 0.08
12 8 0.32
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTTCT
Found at i:185653 original size:22 final size:22
Alignment explanation
Indices: 185626--185675 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
185616 TAAGTGTCGG
185626 AAAATTTACAGAAAAATTTCTA
1 AAAATTTACAGAAAAATTTCTA
185648 AAAATTTACAGAAAAATTTCTA
1 AAAATTTACAGAAAAATTTCTA
185670 AAAATT
1 AAAATT
185676 ATTCTGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAATTTACAGAAAAATTTCTA
Found at i:190765 original size:19 final size:19
Alignment explanation
Indices: 190741--190806 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
190731 AAGATTAACA
190741 ACTATGAAACAAACACAAT
1 ACTATGAAACAAACACAAT
190760 ACTATGAAACAAACACAAT
1 ACTATGAAACAAACACAAT
190779 AC--T-AAACAAACACAAT
1 ACTATGAAACAAACACAAT
190795 ACTATGAAACAA
1 ACTATGAAACAA
190807 TAACTCGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.34
17 1 0.02
18 1 0.02
19 27 0.61
ACGTcount: A:0.59, C:0.21, G:0.05, T:0.15
Consensus pattern (19 bp):
ACTATGAAACAAACACAAT
Found at i:190787 original size:16 final size:16
Alignment explanation
Indices: 190747--190798 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
190737 AACAACTATG
190747 AAACAAACACAATACTAT
1 AAACAAACACAATAC--T
190765 GAAACAAACACAATACT
1 -AAACAAACACAATACT
190782 AAACAAACACAATACT
1 AAACAAACACAATACT
190798 A
1 A
190799 TGAAACAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 17 0.52
17 1 0.03
19 15 0.45
ACGTcount: A:0.62, C:0.23, G:0.02, T:0.13
Consensus pattern (16 bp):
AAACAAACACAATACT
Found at i:191931 original size:18 final size:18
Alignment explanation
Indices: 191908--191946 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
191898 TACCCATCCC
191908 TAACCTTAACTCATTTAA
1 TAACCTTAACTCATTTAA
191926 TAACCTTAACTCATTTAA
1 TAACCTTAACTCATTTAA
191944 TAA
1 TAA
191947 AATAGAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (18 bp):
TAACCTTAACTCATTTAA
Found at i:192490 original size:2 final size:2
Alignment explanation
Indices: 192483--192553 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
192473 ACTCCAAAAC
192483 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
192554 TATTTTTACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:195173 original size:6 final size:6
Alignment explanation
Indices: 195158--195192 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
195148 AGTTCCATCA
*
195158 AGCAAT AGCAAC AGCAAC AGCAAC AGCAAC AGCAA
1 AGCAAC AGCAAC AGCAAC AGCAAC AGCAAC AGCAA
195193 TAGTAGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.29, G:0.17, T:0.03
Consensus pattern (6 bp):
AGCAAC
Found at i:196219 original size:21 final size:21
Alignment explanation
Indices: 196177--196220 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
196167 AAGATATTAT
*
196177 ATTATATTTTAATAATATATA
1 ATTATATTTTAATAATAGATA
*
196198 ATTA-ATTATTAATAATGGATA
1 ATTATATT-TTAATAATAGATA
196219 AT
1 AT
196221 ATTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTATATTTTAATAATAGATA
Found at i:196223 original size:49 final size:50
Alignment explanation
Indices: 196148--196261 Score: 139
Period size: 49 Copynumber: 2.3 Consensus size: 50
196138 AATTATGATC
*
196148 AATTATATTA-TAATAATGTAAGATATTATATTATAT-TTTAATAAT-ATAT
1 AATTA-ATTATTAATAATGGAAGATATTAT-TTATATATTTAATAATAATAT
*
196197 AATTAATTATTAATAATGGATA-ATATTATTTATATATTTAATAGTAATAT
1 AATTAATTATTAATAATGGA-AGATATTATTTATATATTTAATAATAATAT
196247 AA-TAATTTATTAATA
1 AATTAA-TTATTAATA
196262 TTTTAATAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
48 10 0.17
49 32 0.55
50 16 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (50 bp):
AATTAATTATTAATAATGGAAGATATTATTTATATATTTAATAATAATAT
Found at i:196439 original size:24 final size:24
Alignment explanation
Indices: 196412--196481 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 24
196402 AATTATAAAA
*
196412 ATAATATTTTAATAATAAATTATT
1 ATAATATTTTAATAATAAATTAAT
* *
196436 ATAATATTTCAAAAAT-AA-TAAT
1 ATAATATTTTAATAATAAATTAAT
196458 ATAAGT-TTTT-ATAATAAA-TAAT
1 ATAA-TATTTTAATAATAAATTAAT
196480 AT
1 AT
196482 TATTTATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.10
22 18 0.46
23 3 0.08
24 14 0.36
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAATATTTTAATAATAAATTAAT
Found at i:196857 original size:4 final size:4
Alignment explanation
Indices: 196848--196881 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
196838 CCATTAATAT
*
196848 ATCC ATCC ATCC ATCC ATTC ATCC ATCC ATCC AT
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC AT
196882 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (4 bp):
ATCC
Found at i:196861 original size:20 final size:20
Alignment explanation
Indices: 196828--196891 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
196818 CACCCGCAAC
* *
196828 ATCCATCTACCCATTAATAT
1 ATCCATCCATCCATTAATAT
**
196848 ATCCATCCATCCATCCAT-T
1 ATCCATCCATCCATTAATAT
196867 CATCCATCCATCCATATATATAT
1 -ATCCATCCATCCAT-TA-ATAT
196890 AT
1 AT
196892 ATTAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 28 0.82
22 4 0.12
23 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (20 bp):
ATCCATCCATCCATTAATAT
Found at i:197238 original size:17 final size:17
Alignment explanation
Indices: 197189--197238 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
197179 TTGTTCATGT
197189 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
197206 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
197220 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
197237 TT
1 TT
197239 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:203685 original size:119 final size:120
Alignment explanation
Indices: 203470--203731 Score: 348
Period size: 119 Copynumber: 2.2 Consensus size: 120
203460 ATGGGTAAAG
* * * * *
203470 TACACAAATGGTCCTCCGACTATAGGATATTATTTTATTATGTCTCATGACTATTAAAAGTTACA
1 TACA-AAATGGTCATCCGACTATAGAATATCATTTTATTAAGTCTCATGACTATTAAAAGTCACA
* * * *
203535 AAATTATTATTTGACTATAGAATATCATTTTATTAAATCCCTCGACTATTAAAACT
65 AAATTATCATATGACTATAGAATATCATTTTATTAAATCACTCAACTATTAAAACT
* * * *
203591 TACAAAATGGTCATCTGGCTATAGAATATCATTTTTTTAAGTC-CATCGACTATTATAAGTCA-A
1 TACAAAATGGTCATCCGACTATAGAATATCATTTTATTAAGTCTCAT-GACTATTAAAAGTCACA
* * *
203654 AAATTATCATATGACTATAGAATATCGTTTTATTAAGTCACTCAACTATTAAAAGT
65 AAATTATCATATGACTATAGAATATCATTTTATTAAATCACTCAACTATTAAAACT
203710 TACAAAATGGTCATCCGACTAT
1 TACAAAATGGTCATCCGACTAT
203732 TCATTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
119 73 0.60
120 45 0.37
121 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (120 bp):
TACAAAATGGTCATCCGACTATAGAATATCATTTTATTAAGTCTCATGACTATTAAAAGTCACAA
AATTATCATATGACTATAGAATATCATTTTATTAAATCACTCAACTATTAAAACT
Found at i:203690 original size:59 final size:60
Alignment explanation
Indices: 203487--203717 Score: 270
Period size: 60 Copynumber: 3.9 Consensus size: 60
203477 ATGGTCCTCC
* * * * *
203487 GACTATAGGATATTATTTTATTATGTCTCAT-GACTATTAAAAGTTACAAAATTATTATTT
1 GACTATAGAATATCATTTTATTAAGTC-CATCGACTATTAAAAGTTACAAAATTATCATAT
* * * ** *
203547 GACTATAGAATATCATTTTATTAAATCCCTCGACTATTAAAACTTACAAAATGGTCATCT
1 GACTATAGAATATCATTTTATTAAGTCCATCGACTATTAAAAGTTACAAAATTATCATAT
* * * *
203607 GGCTATAGAATATCATTTTTTTAAGTCCATCGACTATTATAAGTCA-AAAATTATCATAT
1 GACTATAGAATATCATTTTATTAAGTCCATCGACTATTAAAAGTTACAAAATTATCATAT
* *
203666 GACTATAGAATATCGTTTTATTAAGT-CACTCAACTATTAAAAGTTACAAAAT
1 GACTATAGAATATCATTTTATTAAGTCCA-TCGACTATTAAAAGTTACAAAAT
203718 GGTCATCCGA
Statistics
Matches: 142, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
58 2 0.01
59 49 0.35
60 91 0.64
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (60 bp):
GACTATAGAATATCATTTTATTAAGTCCATCGACTATTAAAAGTTACAAAATTATCATAT
Found at i:205818 original size:21 final size:20
Alignment explanation
Indices: 205732--205889 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
205722 AAATGACCAA
**
205732 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
205751 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
205771 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
205791 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
205812 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
205833 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
205853 CCAAAATCGCAACGTGAATAT
1 -CAAAATCGCAACGCGATTTT
*
205874 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
205890 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:205942 original size:60 final size:60
Alignment explanation
Indices: 205856--206125 Score: 285
Period size: 60 Copynumber: 4.5 Consensus size: 60
205846 CGATTTTCCA
* ** * * *
205856 AAATCGCAACGTGAATATGAAAATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGAGAATC-CGTAAATCGCAACGCGTATCCGT
* * * *
205916 AAATCGCAACGTGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* * * * * *
205976 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* * *
206036 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACG-TGTATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGT-ATCCGT
* * * *
206096 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGTATCCGTAAATCGCAAC
206126 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
60 176 0.99
61 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
Done.