Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 96 of 356
Found at i:30269616 original size:47 final size:48
Alignment explanation
Indices: 30269506--30269721 Score: 175
Period size: 47 Copynumber: 4.7 Consensus size: 48
30269496 GTGTATACGT
* * ** *
30269506 GCTGATG-CATGTCCCAGACATGTCTTACACTTGC-ACGAAGCTT-A-
1 GCTGATGCCATGTCCCAGACACGTCTTACACTGGCTACTCATCTTGAC
*
30269550 GCTGATG-CGTGTCCCAGACACGTCTTACACTGGCTAC-CATCATTGA-
1 GCTGATGCCATGTCCCAGACACGTCTTACACTGGCTACTCATC-TTGAC
* * * *
30269596 GGTCGAT-CCATGTCCTAGACACGTCTTACACTAGC-ACTCATCTTTAC
1 GCT-GATGCCATGTCCCAGACACGTCTTACACTGGCTACTCATCTTGAC
* ** **
30269643 GCTGATGCCATGTCCCAGACACAGTCTTACACTGGCTA-TCGTAATGTG
1 GCTGATGCCATGTCCCAGACAC-GTCTTACACTGGCTACTCATCTTGAC
* *
30269691 GCTGAT-ACATGTCCCGGACACGTCTTACACT
1 GCTGATGCCATGTCCCAGACACGTCTTACACT
30269722 AGCCCTTGTC
Statistics
Matches: 141, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 33 0.23
45 4 0.03
46 21 0.15
47 60 0.43
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACACGTCTTACACTGGCTACTCATCTTGAC
Found at i:30269702 original size:94 final size:93
Alignment explanation
Indices: 30269459--30269769 Score: 272
Period size: 94 Copynumber: 3.3 Consensus size: 93
30269449 TTAAGTTGCC
* * * * * *
30269459 GATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACACGGTCTTACACTGGCTATC--GTA-ATGTGGCTGATACATGTCCCAG
* * * *
30269523 ACATGTCTTACACTTGCACGAAGC-TTAGCT
63 ACACGTCTTACACTAGCACTAATCTTTAGCT
* * * * * * *
30269553 GATG-CGTGTCCCAGACAC-GTCTTACACTGGCTACCATCAT-TGAGGTCGATCCATGTCCTAGA
1 GATGCCATGTCCCAGACACGGTCTTACACTGGCTATCGTAATGTG-GCT-GATACATGTCCCAGA
*
30269615 CACGTCTTACACTAGCACTCATCTTTACGCT
64 CACGTCTTACACTAGCACTAATCTTTA-GCT
* *
30269646 GATGCCATGTCCCAGACACAGTCTTACACTGGCTATCGTAATGTGGCTGATACATGTCCCGGACA
1 GATGCCATGTCCCAGACACGGTCTTACACTGGCTATCGTAATGTGGCTGATACATGTCCCAGACA
* ** ** *
30269711 CGTCTTACACTAGCCCTTGTCTCAATGCC
66 CGTCTTACACTAGCACTAATCTTTA-GCT
* *
30269740 GATGCCATTTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACACGGTCTTACACT
30269770 AGCTCTCACA
Statistics
Matches: 175, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 3 0.02
91 31 0.18
92 17 0.10
93 19 0.11
94 80 0.46
95 21 0.12
96 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACACGGTCTTACACTGGCTATCGTAATGTGGCTGATACATGTCCCAGACA
CGTCTTACACTAGCACTAATCTTTAGCT
Found at i:30271786 original size:22 final size:22
Alignment explanation
Indices: 30271748--30271792 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30271738 CAATGGTATT
* *
30271748 CAGACAAGTTGTCAGTAAGTTG
1 CAGACAAGTTCTCAGTAAATTG
30271770 CAGACAAGCTTCT-AGTAAATTG
1 CAGACAAG-TTCTCAGTAAATTG
30271792 C
1 C
30271793 GATATGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
CAGACAAGTTCTCAGTAAATTG
Found at i:30274422 original size:12 final size:12
Alignment explanation
Indices: 30274392--30274428 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30274382 GTTTTATGAG
30274392 TAAATTTAG-TTT
1 TAAA-TTAGATTT
30274404 T-AATTAGATTT
1 TAAATTAGATTT
30274415 TAAATTAGATTT
1 TAAATTAGATTT
30274427 TA
1 TA
30274429 TTTTCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.17
11 6 0.26
12 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
TAAATTAGATTT
Found at i:30277568 original size:21 final size:24
Alignment explanation
Indices: 30277543--30277586 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30277533 GGCACGTTAT
*
30277543 TTTTTGTT-TTGT-TTCTTCTTGG
1 TTTTGGTTCTTGTGTTCTTCTTGG
30277565 TTTTGGTTCTTGTGTTCTTCTT
1 TTTTGGTTCTTGTGTTCTTCTT
30277587 TTTACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.00, C:0.11, G:0.18, T:0.70
Consensus pattern (24 bp):
TTTTGGTTCTTGTGTTCTTCTTGG
Found at i:30278137 original size:22 final size:21
Alignment explanation
Indices: 30278110--30278166 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
30278100 TTAGGGATTC
**
30278110 CACACGGGCGTGTGTTTTGGAA
1 CACACGGGCGTGTGTAGTGG-A
* * *
30278132 CACACGGCCGTGTCTAGTGGC
1 CACACGGGCGTGTGTAGTGGA
30278153 CACACGGGCGTGTG
1 CACACGGGCGTGTG
30278167 AGACCCTCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTGTAGTGGA
Found at i:30278263 original size:21 final size:20
Alignment explanation
Indices: 30278238--30278287 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
30278228 CACAGCCTGA
30278238 TCACACGGCCA-TGCCTCTG
1 TCACACGGCCAGTGCCTCTG
*
30278257 TACCACACGGGCATGTGCCTCTG
1 T--CACACGGCCA-GTGCCTCTG
30278280 TCACACGG
1 TCACACGG
30278288 TCGTGTGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
21 16 0.62
23 9 0.35
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.20
Consensus pattern (20 bp):
TCACACGGCCAGTGCCTCTG
Found at i:30280253 original size:22 final size:22
Alignment explanation
Indices: 30280227--30280286 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
30280217 ACCCTACCAA
30280227 AGAGCACCGAAGTGCTAAAT-AG
1 AGAGCACCGAAGTGCT-AATCAG
*
30280249 AGAGCACACGAA-TGGTAATCAG
1 AGAGCAC-CGAAGTGCTAATCAG
30280271 AGAGCACCGAAGTGCT
1 AGAGCACCGAAGTGCT
30280287 GAACAAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.21
22 22 0.67
23 4 0.12
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.13
Consensus pattern (22 bp):
AGAGCACCGAAGTGCTAATCAG
Found at i:30280312 original size:44 final size:44
Alignment explanation
Indices: 30280227--30280314 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
30280217 ACCCTACCAA
* * *
30280227 AGAGCACCGAAGTGCTAAATAGAGAGCACACGAATGGTAATCAG
1 AGAGCACCGAAGTGCTAAACAAAGAGCACACGAATGCTAATCAG
* * *
30280271 AGAGCACCGAAGTGCTGAACAAAGATCATA-GATATGCTAATCAG
1 AGAGCACCGAAGTGCTAAACAAAGAGCACACGA-ATGCTAATCAG
30280315 TTAATAGGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (44 bp):
AGAGCACCGAAGTGCTAAACAAAGAGCACACGAATGCTAATCAG
Found at i:30281459 original size:22 final size:22
Alignment explanation
Indices: 30281413--30281453 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30281403 TTGGGTTTTA
*
30281413 TAATAAGTATAAATAATATACT
1 TAATAAGTATAAATAACATACT
30281435 TAATAAGT-TAAATAACATA
1 TAATAAGTATAAATAACATA
30281454 ATTTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATAAGTATAAATAACATACT
Found at i:30281647 original size:31 final size:31
Alignment explanation
Indices: 30281621--30281679 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
30281611 TAATAGCCGC
* * *
30281621 GAGAGTTAAATAAAAACTTTTAAATAGTTCA
1 GAGACTTAAATAAAAACTTTCAAATAGTCCA
*
30281652 GTGACTTAAATAAAAACTTTCAAATAGT
1 GAGACTTAAATAAAAACTTTCAAATAGT
30281680 TCAATAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (31 bp):
GAGACTTAAATAAAAACTTTCAAATAGTCCA
Found at i:30285307 original size:30 final size:30
Alignment explanation
Indices: 30285273--30285560 Score: 93
Period size: 30 Copynumber: 9.7 Consensus size: 30
30285263 TCTAACCCTA
30285273 TATATTTATTATTATTATATATATATTTTT
1 TATATTTATTATTATTATATATATATTTTT
* *
30285303 TATATTGTTATT-TGTATTATTTTTA-ACTTTATT
1 TATA-T-TTATTAT-TATTATATATATA-TTT-TT
*
30285336 T-T-TATATTATATATTATATGAT-TATTTTAT
1 TATATTTATTAT-TATTATAT-ATATATTTT-T
*
30285366 TATATATTATT-TATATTACTAT-TATTATTTAT
1 TATAT-TTATTAT-TATTA-TATATA-TATTTTT
* * * *
30285398 TATATATTATT-TT-TCACAAAT-TA-TTAT
1 TATAT-TTATTATTATTATATATATATTTTT
* *
30285425 TAT-TTTA-CATTATTATTTATATATTATTAT
1 TATATTTATTATTATTATATATATATT-TT-T
*
30285455 TATATTT-TTACTT-GTAT-TATATATTTATT
1 TATATTTATTA-TTATTATATATATATTT-TT
*
30285484 AATTATTTA-TATATATTATATAT-TATTTTT
1 TA-TATTTATTAT-TATTATATATATATTTTT
* * *
30285514 TACATATA-TACTT-TTATAT-TATA--TAT
1 TATATTTATTA-TTATTATATATATATTTTT
30285540 TATATTTATT-TTATTATATAT
1 TATATTTATTATTATTATATAT
30285561 CATTATGTCA
Statistics
Matches: 195, Mismatches: 27, Indels: 75
0.66 0.09 0.25
Matches are distributed among these distances:
25 7 0.04
26 19 0.10
27 12 0.06
28 11 0.06
29 18 0.09
30 46 0.24
31 23 0.12
32 44 0.23
33 15 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
TATATTTATTATTATTATATATATATTTTT
Found at i:30285308 original size:23 final size:23
Alignment explanation
Indices: 30285277--30285588 Score: 86
Period size: 21 Copynumber: 13.6 Consensus size: 23
30285267 ACCCTATATA
30285277 TTTATTATTATTATATATATATTT
1 TTTA-TATTATTATATATATATTT
* * *
30285301 TTTATATTGTTATTTGTATTATTT
1 TTTATATTATTATATATA-TATTT
* * *
30285325 TTAACT-TTATTTTTATATTATATAT
1 TTTA-TATTA-TTATATA-TATATTT
* * *
30285350 TATATGATTATTTTATTATATATTA
1 TTTAT-ATTATTATA-TATATATTT
*
30285375 TTTATATTACTAT-TAT-TATTT
1 TTTATATTATTATATATATATTT
* * * * **
30285396 ATTATA-TATTATTTTTCACAAAT
1 TTTATATTATTATATAT-ATATTT
* * * *
30285419 TAT-TATTATTTTACAT-TATTA
1 TTTATATTATTATATATATATTT
30285440 TTTATA-TATTAT-TAT-TATATT
1 TTTATATTATTATATATATAT-TT
* *
30285461 TTTA-CTT-GTAT-TATATATTT
1 TTTATATTATTATATATATATTT
*
30285481 ATTA-ATTATT-TATATATATTAT
1 TTTATATTATTATATATATATT-T
* * *
30285503 ATATTAT-TTTTTACATATATA-CT
1 -T-TTATATTATTATATATATATTT
30285526 TTTATATTA-TATAT-TATATTT
1 TTTATATTATTATATATATATTT
*
30285547 ATTT-TATTATATATCATTATGTCATTTT
1 -TTTATATTAT-TAT-A-TATAT-A-TTT
30285575 TTTATATTATTATA
1 TTTATATTATTATA
30285589 CATTTTTATC
Statistics
Matches: 205, Mismatches: 50, Indels: 64
0.64 0.16 0.20
Matches are distributed among these distances:
20 28 0.14
21 51 0.25
22 14 0.07
23 24 0.12
24 29 0.14
25 33 0.16
26 10 0.05
27 7 0.03
28 9 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTATATTATTATATATATATTT
Found at i:30285335 original size:53 final size:56
Alignment explanation
Indices: 30285277--30285411 Score: 140
Period size: 53 Copynumber: 2.5 Consensus size: 56
30285267 ACCCTATATA
* *
30285277 TTTATTATTATTATATATATATTTTTTA-TATTGTTATT-TGTATTATTT-T-TAAC
1 TTTATTATTATTATATATATATTTTTGATTATT-TTATTATATATTATTTATATAAC
* * *
30285330 TTTATTTTTA-TAT-TATATATTATATGATTATTTTATTATATATTATTTATATTAC
1 TTTATTATTATTATATATATATT-TTTGATTATTTTATTATATATTATTTATATAAC
30285385 TATTATTATTTATTATATAT-TATTTTT
1 T-TTATTA-TTATTATATATATATTTTT
30285412 CACAAATTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
51 8 0.12
52 11 0.17
53 22 0.33
54 1 0.02
55 4 0.06
56 5 0.08
57 5 0.08
58 7 0.11
59 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (56 bp):
TTTATTATTATTATATATATATTTTTGATTATTTTATTATATATTATTTATATAAC
Found at i:30285371 original size:25 final size:24
Alignment explanation
Indices: 30285335--30285611 Score: 109
Period size: 24 Copynumber: 11.8 Consensus size: 24
30285325 TTAACTTTAT
30285335 TTTTA-TATTATATATTATATGATTA
1 TTTTATTA-TATATATTATAT-ATTA
30285360 TTTTATTATATATTATT-TATATTA
1 TTTTATTATATA-TATTATATATTA
*
30285384 CTATTATTAT-T-TATTATATATTA
1 -TTTTATTATATATATTATATATTA
* *
30285407 TTTT-TCACA-A-ATTAT-TATTA
1 TTTTATTATATATATTATATATTA
30285427 TTTTACATTAT-TAT-TTATATATTA
1 TTTT--ATTATATATATTATATATTA
* * *
30285451 TTATTA-TATTTTTACTTGTAT-TATA
1 TT-TTATTATATATA-TTATATAT-TA
30285476 TATTTATTA-AT-TATT-TATATATA
1 T-TTTATTATATATATTATATAT-TA
* *
30285499 TTATATATTAT-T-TTTTACATATATA
1 TT-T-TATTATATATATTATATAT-TA
30285524 CTTTTA-TATTATATATTATAT-TTA
1 -TTTTATTA-TATATATTATATATTA
*
30285548 TTTTATTATATATCATTATGTCA-T-
1 TTTTATTATATAT-ATTATAT-ATTA
*
30285572 TTTT-TTATAT-TATTATACA-T-
1 TTTTATTATATATATTATATATTA
30285592 TTTTATCTATATATTATTAT
1 TTTTAT-TATATA-TATTAT
30285612 CATTAAAGGT
Statistics
Matches: 200, Mismatches: 16, Indels: 73
0.69 0.06 0.25
Matches are distributed among these distances:
20 15 0.08
21 13 0.06
22 20 0.10
23 43 0.22
24 47 0.23
25 45 0.22
26 17 0.09
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTTATTATATATATTATATATTA
Found at i:30285472 original size:152 final size:146
Alignment explanation
Indices: 30285283--30285556 Score: 342
Period size: 152 Copynumber: 1.8 Consensus size: 146
30285273 TATATTTATT
* * *
30285283 ATTATTATATATATATTTTTTATATTGTTATTTGTATTAT-T-TTTAACTTTATTTTTATATTAT
1 ATTATTATATATATATTTTTTATATTGTTACTTGTATTATATATTT-A-TTAATTATT-TA-TAT
* *
30285346 ATATTATATGATTATTTTATTATATAT-TA-TTTATATTA-CTATTATTATTTATTATATATTAT
62 ATATTATAT-ATTATTTT-TTACATATATACTTTATATTATATATTA-TATTTATT-T-TATTAT
30285408 TTTTCACAAATTATTATTATTTTAC
122 TTTTCACAAATTATTATTATTTTAC
* *
30285433 ATTATTATTTATATATTATTATTATATTTTTACTTGTATTATATATTTATTAATTATTTATATAT
1 ATTATTATATATATATT-TT-TTATATTGTTACTTGTATTATATATTTATTAATTATTTATATAT
30285498 ATTATATATTATTTTTTACATATATACTTTTATATTATATATTATATTTATTTTATTAT
64 ATTATATATTATTTTTTACATATATAC-TTTATATTATATATTATATTTATTTTATTAT
30285557 ATATCATTAT
Statistics
Matches: 109, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
148 7 0.06
149 16 0.15
150 29 0.27
151 21 0.19
152 31 0.28
153 2 0.02
154 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (146 bp):
ATTATTATATATATATTTTTTATATTGTTACTTGTATTATATATTTATTAATTATTTATATATAT
TATATATTATTTTTTACATATATACTTTATATTATATATTATATTTATTTTATTATTTTTCACAA
ATTATTATTATTTTAC
Found at i:30285542 original size:102 final size:104
Alignment explanation
Indices: 30285335--30285566 Score: 255
Period size: 102 Copynumber: 2.2 Consensus size: 104
30285325 TTAACTTTAT
* *
30285335 TTTTATATTATATATTATATGATTATTTTATTATATATTATTTATATTACTATTATTATTTATTA
1 TTTTATATTAT-TATTATATGATTATTGTATTATATATTATTTATATTACTATTATTATATATTA
*
30285400 TATATTATTTTTCACAAATTATTATTATTTTACATTATTA
65 TATATTATTTTTCACAAATTATTATTATATTACATTATTA
**
30285440 TTTATATATTATTATTATATTTTTACTTGTATTATATATT-TATTA-ATTA-T-TTA-TATATAT
1 TTT-TATATTATTATTATATGATTA-TTGTATTATATATTAT-TTATATTACTATTATTATATAT
* * *
30285500 TATATATTATTTTTTACATATATACTT-TTATATTATA-TATTA
63 TATATATTATTTTTCACAAAT-TA-TTATTATATTACATTATTA
* *
30285542 TATTTATTTTATTA-TATATCATTAT
1 T-TTTATATTATTATTATATGATTAT
30285567 GTCATTTTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
100 1 0.01
101 8 0.07
102 40 0.36
103 15 0.14
104 3 0.03
105 19 0.17
106 24 0.22
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (104 bp):
TTTTATATTATTATTATATGATTATTGTATTATATATTATTTATATTACTATTATTATATATTAT
ATATTATTTTTCACAAATTATTATTATATTACATTATTA
Found at i:30285575 original size:24 final size:22
Alignment explanation
Indices: 30285490--30285615 Score: 81
Period size: 23 Copynumber: 5.8 Consensus size: 22
30285480 TATTAATTAT
*
30285490 TTATATATATTATATATTATTT-
1 TTATATATATTATACATT-TTTA
*
30285512 TT-TACATA-TATAC--TTTTA
1 TTATATATATTATACATTTTTA
**
30285530 -TATTATATATTATATTTATTTTA
1 TTA-TATATATTATACAT-TTTTA
*
30285553 TTATATATCATTATGTCATTTTT-
1 TTATATAT-ATTAT-ACATTTTTA
30285576 TTATAT-TATTATACATTTTTA
1 TTATATATATTATACATTTTTA
30285597 TCTATATATTATTAT-CATT
1 T-TATATA-TATTATACATT
30285616 AAAGGTTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
17 4 0.05
18 1 0.01
19 5 0.06
20 15 0.18
21 11 0.13
22 8 0.10
23 20 0.24
24 17 0.21
25 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATATATATTATACATTTTTA
Found at i:30285580 original size:21 final size:20
Alignment explanation
Indices: 30285471--30285608 Score: 79
Period size: 21 Copynumber: 6.7 Consensus size: 20
30285461 TTTACTTGTA
*
30285471 TTATATAT-TTATTA-ATTAT
1 TTATATATATTA-TACATTTT
*
30285490 TTATATATATTATATATTATT
1 TTATATATATTATACATT-TT
* *
30285511 TTTTACATA-TATAC-TTTT
1 TTATATATATTATACATTTT
* *
30285529 ATATTATATATTATATTTATTTT
1 TTA-TATATATTATA--CATTTT
*
30285552 ATTATATATCATTATGTCATTTT
1 -TTATATAT-ATTAT-ACATTTT
30285575 TT-TATATTATTATACATTTT
1 TTATATA-TATTATACATTTT
*
30285595 TATCTATATATTAT
1 T-TATATATATTAT
30285609 TATCATTAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
18 3 0.03
19 17 0.18
20 21 0.23
21 24 0.26
22 7 0.08
23 14 0.15
24 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (20 bp):
TTATATATATTATACATTTT
Found at i:30285896 original size:17 final size:15
Alignment explanation
Indices: 30285860--30285910 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
30285850 CAATATATTT
*
30285860 TATATTTTTTTATAA
1 TATATTTTCTTATAA
30285875 T-TATTATTCTTATAAA
1 TATATT-TTCTTAT-AA
*
30285891 TATATTTT-TTATTA
1 TATATTTTCTTATAA
30285905 TATATT
1 TATATT
30285911 ACATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 11 0.35
15 11 0.35
16 5 0.16
17 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATTTTCTTATAA
Found at i:30285928 original size:26 final size:26
Alignment explanation
Indices: 30285894--30285943 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30285884 TTATAAATAT
* * *
30285894 ATTTTTTATTATATATTACATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
30285920 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
30285944 TTTTATGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:30291441 original size:87 final size:86
Alignment explanation
Indices: 30291344--30291597 Score: 265
Period size: 87 Copynumber: 2.9 Consensus size: 86
30291334 CTAGATAATG
* * *
30291344 GTACGCAGCAAAGCTGACGTACGTACAGTACAGTGCGGTAAACCGCTATACGAATAAGTTGCAGT
1 GTACGCAGCAAAGCTGACGTACGTGC-GTACAGTGCAGTAAACCGCTGTACGAATAAGTTGCAGT
** *
30291409 AAAATTGTTAGATCAGACAATA
65 AAAATTGCCAGATCAAACAATA
* * * * *
30291431 GTACGTAGCAAAGCTGATGTACATGCGATACAGTGCAGTAAACCACTGTACGAATAAGTTGTAGT
1 GTACGCAGCAAAGCTGACGTACGTGCG-TACAGTGCAGTAAACCGCTGTACGAATAAGTTGCAGT
* * * * *
30291496 AAAACTACCAGATCAAATATTG
65 AAAATTGCCAGATCAAACAATA
* * * * * * *
30291518 GTAAGCAGCAAAGCTGACGTACGTGTGGTATAGTGCAATACACCGTTGTACAAATAAGTTGCAGT
1 GTACGCAGCAAAGCTGACGTACGTG-CGTACAGTGCAGTAAACCGCTGTACGAATAAGTTGCAGT
*
30291583 AAAATTGCCATATCA
65 AAAATTGCCAGATCA
30291598 TATCAGAATC
Statistics
Matches: 134, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
86 1 0.01
87 132 0.99
88 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (86 bp):
GTACGCAGCAAAGCTGACGTACGTGCGTACAGTGCAGTAAACCGCTGTACGAATAAGTTGCAGTA
AAATTGCCAGATCAAACAATA
Found at i:30294778 original size:47 final size:44
Alignment explanation
Indices: 30294664--30294792 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 44
30294654 TCATTTGTGT
* *
30294664 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGAAA
* * * *
30294710 GCCATTGTAAGACCATTTCTGGGACATGGCATTGG-CATTGAAACGAAA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT---ACGAAA
*
30294758 GCTAGTGTAAGACATGTCTGGGACATACATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
30294793 TCGCAACATA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
45 4 0.06
46 15 0.23
47 27 0.41
48 20 0.30
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGAAA
Found at i:30297219 original size:17 final size:16
Alignment explanation
Indices: 30297185--30297228 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
30297175 ATAACTATGA
*
30297185 TAATAAA-AATAATCC
1 TAATAAATAATAATAC
30297200 TAATAAATACATAATAC
1 TAATAAATA-ATAATAC
30297217 TAATAAATAATA
1 TAATAAATAATA
30297229 TAATAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 15 0.58
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATAAATAATAATAC
Found at i:30297278 original size:16 final size:16
Alignment explanation
Indices: 30297253--30297283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30297243 AAACAACATA
30297253 ATTAAAAATAAATAAT
1 ATTAAAAATAAATAAT
*
30297269 ATTAATAATAAATAA
1 ATTAAAAATAAATAA
30297284 ATACAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAAATAAATAAT
Found at i:30298292 original size:21 final size:22
Alignment explanation
Indices: 30298267--30298307 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30298257 GTTTTTCAAA
*
30298267 AAAAATTAAAGTAA-TAAATAT
1 AAAAATGAAAGTAATTAAATAT
*
30298288 AAAAATGAATGTAATTAAAT
1 AAAAATGAAAGTAATTAAAT
30298308 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAAAATGAAAGTAATTAAATAT
Found at i:30310030 original size:42 final size:40
Alignment explanation
Indices: 30309918--30310034 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 40
30309908 CATAAATAAT
* *
30309918 TGATGTTTGCTTCAGGGGTTATTGAGACTTGATCTTGGAAA
1 TGAT-TTTGCTTCAAGGGTCATTGAGACTTGATCTTGGAAA
* * * * *
30309959 TGAGTTTGGATCCAAGGGTC-TTCAAGACTTGATCTTGGATGGA
1 TGA-TTTTGCTTCAAGGGTCATT-GAGACTTGATCTTGGA--AA
30310002 TGATTTTGCTTCAAGGGTCATTGAGACTTGATC
1 TGATTTTGCTTCAAGGGTCATTGAGACTTGATC
30310035 CTTAAAATGG
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.03
41 28 0.47
42 24 0.40
43 6 0.10
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (40 bp):
TGATTTTGCTTCAAGGGTCATTGAGACTTGATCTTGGAAA
Found at i:30312533 original size:27 final size:27
Alignment explanation
Indices: 30312503--30312682 Score: 236
Period size: 27 Copynumber: 6.7 Consensus size: 27
30312493 TTAGTTTACC
*
30312503 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
30312530 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
30312557 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
30312584 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
*
30312611 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* **
30312638 AAATTACTAAAATA-CCCTTTTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
*
30312664 AAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
30312683 ATAGGGTAGA
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.16
27 111 0.84
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:30312568 original size:54 final size:54
Alignment explanation
Indices: 30312503--30312682 Score: 299
Period size: 54 Copynumber: 3.4 Consensus size: 54
30312493 TTAGTTTACC
*
30312503 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
30312557 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
30312611 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTT-TTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
30312664 AAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
30312683 ATAGGGTAGA
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 23 0.20
54 94 0.80
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:30312695 original size:27 final size:27
Alignment explanation
Indices: 30312665--30313013 Score: 428
Period size: 27 Copynumber: 13.3 Consensus size: 27
30312655 TTTTTTATAA
*
30312665 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30312692 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30312719 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30312746 AA-T-------TACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30312765 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30312792 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30312819 AATTACCGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30312846 AATTAACGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30312873 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30312900 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30312927 AATTATCGCAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
30312954 AATTACTAAAATACTCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
30312981 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
30313007 AATTACC
1 AATTACC
30313014 ATTTTGCCCC
Statistics
Matches: 284, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
19 17 0.06
20 1 0.00
26 16 0.06
27 250 0.88
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30312754 original size:19 final size:19
Alignment explanation
Indices: 30312730--30312771 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
30312720 ATTATCGAAA
30312730 TACCCCTATAGGGTAGAAT
1 TACCCCTATAGGGTAGAAT
*
30312749 TACCCCTGTAGGGTAGAAT
1 TACCCCTATAGGGTAGAAT
30312768 TACC
1 TACC
30312772 GAAATACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (19 bp):
TACCCCTATAGGGTAGAAT
Found at i:30314811 original size:40 final size:39
Alignment explanation
Indices: 30314748--30314959 Score: 273
Period size: 40 Copynumber: 5.3 Consensus size: 39
30314738 TCTTCGGAAT
* *
30314748 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
30314787 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
30314827 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
30314867 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
30314907 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
30314947 TTAGCCCGGATAT
1 TTAGCCCGGATAT
30314960 CATTCAAATG
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 10 0.07
40 133 0.89
41 7 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:30314875 original size:80 final size:80
Alignment explanation
Indices: 30314748--30314959 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 80
30314738 TCTTCGGAAT
* * * * *
30314748 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
30314812 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
30314827 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
30314892 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
30314907 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
30314960 CATTCAAATG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 117 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
AAATGCCTTCGGGTC
Found at i:30316764 original size:22 final size:22
Alignment explanation
Indices: 30316712--30316776 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
30316702 TTAAAGCCTT
* *
30316712 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30316734 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
30316756 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
30316777 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30316974 original size:27 final size:27
Alignment explanation
Indices: 30316942--30317063 Score: 156
Period size: 27 Copynumber: 4.5 Consensus size: 27
30316932 TAAGCAGCTT
* * *
30316942 TGCCACATTATCTGTTTCTGGTGGCTA
1 TGCCACAATATCTGTATCTGGTGGCTC
30316969 TGCCACAAATATCTGT-TCTGGTGGCTC
1 TGCCAC-AATATCTGTATCTGGTGGCTC
*
30316996 TTCCACAATATCTGTATCTGGTGGCTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
30317023 TGACACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
**
30317050 TGTTACAATATCTG
1 TGCCACAATATCTG
30317064 ATAACTGAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.11
27 68 0.80
28 8 0.09
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:30317251 original size:31 final size:31
Alignment explanation
Indices: 30317200--30317341 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
30317190 TTGCATTCAC
* *
30317200 ATTCTGATTTTTTATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
* *
30317232 ATTCTGATTTTGATTCTGTTACCTAATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
30317263 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
30317294 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
30317325 ATTTTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
30317342 AGTTCTGATA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 92 0.93
32 7 0.07
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:30317294 original size:6 final size:6
Alignment explanation
Indices: 30317261--30317350 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
30317251 TACCTAATAT
* *
30317261 TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* * *
30317310 TG-TCACC TGATTC TGATTT TGATTT TGATTC T-AGTTC TGAT
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
30317351 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.17, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:30319327 original size:27 final size:27
Alignment explanation
Indices: 30319296--30319476 Score: 238
Period size: 27 Copynumber: 6.6 Consensus size: 27
30319286 TTACTTTACC
*
30319296 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
30319323 AAATT-CCTAAAATACCCTTGGTTTAAA
1 AAATTACC-AAAATACCCTTGGTTTATA
* * *
30319350 AAATCACCAAAATACCCCTGGTTTTGTA
1 AAATTACCAAAATACCCTTGG-TTTATA
*
30319378 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
30319405 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
30319432 AAATTACTAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCC-TTGGTTTATA
30319460 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
30319477 CTGTAGGGTA
Statistics
Matches: 132, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
26 2 0.02
27 82 0.62
28 48 0.36
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:30319435 original size:82 final size:82
Alignment explanation
Indices: 30319296--30319476 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 82
30319286 TTACTTTACC
** *
30319296 AAATTACCAAAATACCCTTGGTTTGTAAAATTCCTAAAATACCCTTGGTTTAAAAAATCACCAAA
1 AAATTACCAAAATACCCTTGGTTTACAAAATTCCTAAAATACCCCTGGTTTAAAAAATCACCAAA
*
30319361 ATACCCCTGGT-TTTGTA
66 ATA-CCCTGGTGTTTATA
** * *
30319378 AAATTACCAAAATACCCTTGGTTTACAAAATTACC-AAAATACCCCTGGTTTGTAAAATTACTAA
1 AAATTACCAAAATACCCTTGGTTTACAAAATT-CCTAAAATACCCCTGGTTTAAAAAATCACCAA
**
30319442 AATACCCTTTTGTTTATA
65 AATACCCTGGTGTTTATA
30319460 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
30319477 CTGTAGGGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 5 0.06
82 80 0.92
83 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (82 bp):
AAATTACCAAAATACCCTTGGTTTACAAAATTCCTAAAATACCCCTGGTTTAAAAAATCACCAAA
ATACCCTGGTGTTTATA
Found at i:30319494 original size:55 final size:54
Alignment explanation
Indices: 30319296--30319479 Score: 287
Period size: 55 Copynumber: 3.4 Consensus size: 54
30319286 TTACTTTACC
* * *
30319296 AAATTACCAAAATACCCTTGGTTTGTAAAATTCCTAAAATACCCTTGGTTTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
30319350 AAATCACCAAAATACCCCTGGTTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGG-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
30319405 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC-TTGGTTTATA
30319460 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
30319480 TAGGGTAGAA
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
54 41 0.34
55 78 0.66
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:30319500 original size:27 final size:27
Alignment explanation
Indices: 30319461--30319836 Score: 500
Period size: 27 Copynumber: 14.3 Consensus size: 27
30319451 TTGTTTATAA
*
30319461 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
30319488 AATTACTGGAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
30319515 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30319542 AA-T-------TACCCCTGTAGCGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30319561 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30319588 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30319615 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30319642 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30319669 AATTAACGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30319696 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30319723 AATGACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
30319750 AATTATTGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30319777 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30319804 AATTACCGAGATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
30319830 AATTACC
1 AATTACC
30319837 ATTTTGCCCC
Statistics
Matches: 307, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
19 17 0.06
20 1 0.00
26 18 0.06
27 271 0.88
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30319501 original size:55 final size:55
Alignment explanation
Indices: 30319296--30319547 Score: 239
Period size: 55 Copynumber: 4.6 Consensus size: 55
30319286 TTACTTTACC
* ** * *
30319296 AAATTACCAAAATACCCTTGGT-TTGTAAAATTCCTAAAATACCCTTGGTTTAAA
1 AAATTACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCTTGGTTTATA
* *** * *
30319350 AAATCACCAAAATACCCCTGGTTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCTTGGTTTATA
** *
30319405 AAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCC-TTGGTTTATA
* ** *
30319460 AAATTACCAAAATACCCCT-GTAGGGTAGAATTACTGGAATACCCCTATAGG---GTA
1 AAATTACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATA-CCCT-T-GGTTTATA
* *
30319514 AAATTACCGAAATACCCCT-GTAGGGTAGAATTAC
1 AAATTACCAAAATACCCCTGGTAGGGTAAAATTAC
30319548 CCCTGTAGCG
Statistics
Matches: 175, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
54 78 0.45
55 92 0.53
56 4 0.02
57 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (55 bp):
AAATTACCAAAATACCCCTGGTAGGGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:30319550 original size:19 final size:19
Alignment explanation
Indices: 30319526--30319567 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
30319516 ATTACCGAAA
*
30319526 TACCCCTGTAGGGTAGAAT
1 TACCCCTGTAGCGTAGAAT
30319545 TACCCCTGTAGCGTAGAAT
1 TACCCCTGTAGCGTAGAAT
30319564 TACC
1 TACC
30319568 GGAATACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (19 bp):
TACCCCTGTAGCGTAGAAT
Found at i:30320315 original size:22 final size:22
Alignment explanation
Indices: 30320263--30320327 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
30320253 TTAAAGCCTT
* *
30320263 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30320285 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
30320307 CTGATTATGGCTGTGTACCAA
1 CTGATTATGGCTCTGTGCCAA
30320328 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30320516 original size:27 final size:26
Alignment explanation
Indices: 30320486--30320587 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
30320476 ATTCTGTTAA
* *
30320486 GTGGCTTTGCCACATTATCTGTTCCTG
1 GTGGCTATGCCACAATATCTGTT-CTG
**
30320513 GTGGCTATGCCACAAATATCTAATCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
30320540 GTGGCTCTGCCATAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * **
30320567 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
30320588 ATAATTGAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.11
27 47 0.77
28 7 0.11
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:30320764 original size:6 final size:6
Alignment explanation
Indices: 30320753--30320865 Score: 79
Period size: 6 Copynumber: 18.3 Consensus size: 6
30320743 TTACCTCATA
* * *
30320753 CTGATT CTGATT TTGATT CTG-TT ACTTGATA CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT -C-TGATT CTGATT CTGATT CTGATT
* * * *
30320802 CTG-TT ACCTGATA CTGATT CCGATT CTGATT CTG-TCAC CTAATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
*
30320852 CTGATT TTGATT CT
1 CTGATT CTGATT CT
30320866 AGTTTTGATA
Statistics
Matches: 82, Mismatches: 16, Indels: 18
0.71 0.14 0.16
Matches are distributed among these distances:
5 5 0.06
6 66 0.80
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:30320775 original size:31 final size:31
Alignment explanation
Indices: 30320724--30320865 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
30320714 TTGCTTTCAC
* *
30320724 ATTCTGATTTTTTATTCTGTTACCTCATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
30320756 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
30320787 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
30320818 ATTCCGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
30320849 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
30320866 AGTTTTGATA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 92 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:30326470 original size:31 final size:31
Alignment explanation
Indices: 30326432--30326493 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
30326422 GGTCTTTCCT
*
30326432 AGTTAGAATATCCCTCTATCATAATTTAATA
1 AGTTAGAATATCACTCTATCATAATTTAATA
30326463 AGTTAGAATATCACTCTATCATAATTTAATA
1 AGTTAGAATATCACTCTATCATAATTTAATA
30326494 GCACAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (31 bp):
AGTTAGAATATCACTCTATCATAATTTAATA
Found at i:30326508 original size:31 final size:31
Alignment explanation
Indices: 30326438--30326501 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
30326428 TCCTAGTTAG
* * *
30326438 AATATCCCTCTATCATAATTTAATAAGTTAG
1 AATATCACTCTATCATAATTTAATAAGTCAC
30326469 AATATCACTCTATCATAATTTAAT-AG-CAC
1 AATATCACTCTATCATAATTTAATAAGTCAC
30326498 AATA
1 AATA
30326502 AATCACTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 5 0.17
30 2 0.07
31 23 0.77
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (31 bp):
AATATCACTCTATCATAATTTAATAAGTCAC
Found at i:30327333 original size:39 final size:40
Alignment explanation
Indices: 30327288--30327371 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
30327278 ACTTCATAAA
* *
30327288 ATCAACATGG-AAAGGAAAAATTAATT-CTAAATTTGCAAT
1 ATCAACATGGTAAA-GAAAAATCAATTCCGAAATTTGCAAT
* *
30327327 ATCAACATGGTAAAGAAAGATCAATTCCGAACTTTGCAAT
1 ATCAACATGGTAAAGAAAAATCAATTCCGAAATTTGCAAT
30327367 ATCAA
1 ATCAA
30327372 TATTGAGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
39 20 0.51
40 19 0.49
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (40 bp):
ATCAACATGGTAAAGAAAAATCAATTCCGAAATTTGCAAT
Found at i:30328220 original size:46 final size:46
Alignment explanation
Indices: 30328161--30328253 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
30328151 TAGCCACATC
* *
30328161 ATTTTGAAAGAACAGTTTAGGCTTATGATTAAGAGCATCATCATTT
1 ATTTTGAAAGAACAGTTTAAGCTCATGATTAAGAGCATCATCATTT
* * * * * *
30328207 ATTTTGGATGAACAGTTTAAGCTCGTGCTTAGGAGCATCATCGTTT
1 ATTTTGAAAGAACAGTTTAAGCTCATGATTAAGAGCATCATCATTT
30328253 A
1 A
30328254 GGCTAAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (46 bp):
ATTTTGAAAGAACAGTTTAAGCTCATGATTAAGAGCATCATCATTT
Found at i:30339413 original size:47 final size:47
Alignment explanation
Indices: 30339356--30339485 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
30339346 GTGTGAATAA
* * * *
30339356 TACCTTGATTTGGCTACGGGCCATGTTGTAGGTA-TTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAG-GAGAAGT
** * *
30339403 TACCTTGATTTGGCTATAGGCCATGGTACAGGTACTCCAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGT
30339450 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
30339486 TATCAATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 67 0.94
48 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGT
Found at i:30354302 original size:13 final size:14
Alignment explanation
Indices: 30354271--30354302 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30354261 ATTTTTAAAG
30354271 ACTTTTTATTTTCT
1 ACTTTTTATTTTCT
30354285 A-TTTTTATTTTC-
1 ACTTTTTATTTTCT
30354297 ACTTTT
1 ACTTTT
30354303 ATCTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 15 0.88
14 1 0.06
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (14 bp):
ACTTTTTATTTTCT
Found at i:30362024 original size:46 final size:46
Alignment explanation
Indices: 30361971--30362107 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
30361961 TATATATACA
* * * *
30361971 CATCTCATACATATCTCATATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGTATTAGCCATTCGGCTTTACCACATATC
* * * *
30362017 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGTATTAGCCATTCGGCTTTACCACATATC
* *
30362063 TATCTCATACACATTTCGTATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGTATTAGCCATTCGGCTTTACCACATAT
30362108 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGTATTAGCCATTCGGCTTTACCACATATC
Found at i:30362141 original size:47 final size:47
Alignment explanation
Indices: 30362086--30362369 Score: 397
Period size: 47 Copynumber: 6.0 Consensus size: 47
30362076 TTTCGTATTA
* * * *
30362086 GCCATTCGGCCTTACCACATATATACATGTTCACGTTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
30362133 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30362180 GCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30362227 GCCATTCGGCCTTATTACGCATATATATACAGGTTCACATTCATCACATTG
1 GCCATTCGGCCTTA-T---CACATATATGCATGTTCACATTCATCACATTG
*
30362278 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30362325 GCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
30362370 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 169 0.80
48 1 0.00
50 1 0.00
51 40 0.19
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:30362273 original size:145 final size:145
Alignment explanation
Indices: 30362104--30362369 Score: 487
Period size: 145 Copynumber: 1.8 Consensus size: 145
30362094 GCCTTACCAC
* * *
30362104 ATATATACATGTTCACGTTTATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
*
30362169 TCATCACATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
30362234 GGCCTTATTACGCAT
131 GGCCTTATTACGCAT
30362249 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
*
30362314 TCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACAT
66 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
30362370 AAAATCCTAA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 116 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (145 bp):
ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
GGCCTTATTACGCAT
Found at i:30362287 original size:98 final size:95
Alignment explanation
Indices: 30362086--30362369 Score: 376
Period size: 98 Copynumber: 3.0 Consensus size: 95
30362076 TTTCGTATTA
* * * * *
30362086 GCCATTCGGCCTTACCACATATATACATGTTCACGTTTATCACATTGGCCATTCGGCCTTA-TCT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATTCG
* *
30362150 CATATATGCATGTTCACATTCATCACATTG
66 CATATATACAGGTTCACATTCATCACATTG
* * *
30362180 GCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATTAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATT-C
30362245 GCATATATATACAGGTTCACATTCATCACATTG
65 GC--ATATATACAGGTTCACATTCATCACATTG
* *
30362278 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCA
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATTCG
* **
30362342 CACATACGC-GTGTTCACATTCATCACAT
66 CATATATACAG-GTTCACATTCATCACAT
30362370 AAAATCCTAA
Statistics
Matches: 168, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
93 1 0.01
94 76 0.45
95 1 0.01
96 4 0.02
97 1 0.01
98 85 0.51
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (95 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATTCG
CATATATACAGGTTCACATTCATCACATTG
Found at i:30365616 original size:40 final size:40
Alignment explanation
Indices: 30365558--30365829 Score: 454
Period size: 40 Copynumber: 6.8 Consensus size: 40
30365548 CCAGCATGAT
*
30365558 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
30365598 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
30365638 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
30365678 TGCTCTTTGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
30365718 TGATCTTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
30365758 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
30365798 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
30365830 CTCAATTCTC
Statistics
Matches: 221, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:30367369 original size:46 final size:46
Alignment explanation
Indices: 30367316--30367452 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
30367306 TATATATACA
* * * *
30367316 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
30367362 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
30367408 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
30367453 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:30367490 original size:47 final size:47
Alignment explanation
Indices: 30367426--30367714 Score: 382
Period size: 47 Copynumber: 6.1 Consensus size: 47
30367416 ACACATTTCG
* * * *
30367426 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30367473 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
30367520 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
30367567 CATTGGCCATTCGGCCTTATTACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-T---CACATATATGCATGTTCACATTCATCA
*
30367618 CATTGGCCATTCGAG-CTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCG-GCCTTATCACATATATGCATGTTCACATTCATCA
* * *
30367665 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
30367712 CAT
1 CAT
30367715 AAAATCCTAA
Statistics
Matches: 212, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
46 1 0.00
47 170 0.80
48 1 0.00
50 1 0.00
51 38 0.18
52 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:30367617 original size:145 final size:141
Alignment explanation
Indices: 30367426--30367714 Score: 472
Period size: 145 Copynumber: 2.0 Consensus size: 141
30367416 ACACATTTCG
* *
30367426 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACGTTCATCACATTGGCCATTC-AGCCT
1 CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGAG-CT
*
30367490 TATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCGCACATACGCATGT
65 TATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
30367555 TCACATTCATCA
130 TCACATTCATCA
* *
30367567 CATTGGCCATTCGGCCTTATTACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGA
1 CATTAGCCATTCGGCC---TTAC-CACATATATACAGGTTCACATTCATCACATTGGCCATTCGA
*
30367632 GCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCG
62 GCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
30367697 TGTTCACATTCATCA
127 TGTTCACATTCATCA
30367712 CAT
1 CAT
30367715 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
141 15 0.11
144 4 0.03
145 116 0.85
146 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (141 bp):
CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGAGCTT
ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCA
Found at i:30367637 original size:98 final size:95
Alignment explanation
Indices: 30367426--30367714 Score: 343
Period size: 98 Copynumber: 3.0 Consensus size: 95
30367416 ACACATTTCG
* * * * ** * *
30367426 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACGTTCATCACATTGGCCATTCAGCCTT
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
30367491 A-TCTCATATATGCATGTTCACATTCATCA
66 ATTCGCATATATACAGGTTCACATTCATCA
30367520 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
30367585 ATTACGCATATATATACAGGTTCACATTCATCA
66 ATT-CGC--ATATATACAGGTTCACATTCATCA
* * *
30367618 CATTGGCCATTCGAG-CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCG-GCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
* * **
30367682 TA-TCACACATACGC-GTGTTCACATTCATCA
65 TATTCGCATATATACAG-GTTCACATTCATCA
30367712 CAT
1 CAT
30367715 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
93 1 0.01
94 80 0.47
95 1 0.01
96 4 0.02
97 1 0.01
98 83 0.49
99 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (95 bp):
CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATTCGCATATATACAGGTTCACATTCATCA
Found at i:30372316 original size:31 final size:31
Alignment explanation
Indices: 30372275--30372351 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
30372265 CATGTAAGCG
*
30372275 ACACAAGCGTGTGGGTCGACACGGGTAGCCC
1 ACACAGGCGTGTGGGTCGACACGGGTAGCCC
* * *
30372306 ACATAGGCGTGTAGGTCGACACGGGTAGTCC
1 ACACAGGCGTGTGGGTCGACACGGGTAGCCC
*
30372337 ACACGGGCGTGTGGG
1 ACACAGGCGTGTGGG
30372352 ATTTTGGGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.39, T:0.16
Consensus pattern (31 bp):
ACACAGGCGTGTGGGTCGACACGGGTAGCCC
Found at i:30372441 original size:31 final size:31
Alignment explanation
Indices: 30372406--30372466 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
30372396 GGCAGTATGG
30372406 GCCACACGAGCGTGTGAGCCCACACGGGCAA
1 GCCACACGAGCGTGTGAGCCCACACGGGCAA
* * * *
30372437 GCCACATGGGTGTGTGGGCCCACACGGGCA
1 GCCACACGAGCGTGTGAGCCCACACGGGCA
30372467 GGGAGCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.21, C:0.33, G:0.36, T:0.10
Consensus pattern (31 bp):
GCCACACGAGCGTGTGAGCCCACACGGGCAA
Found at i:30376840 original size:6 final size:6
Alignment explanation
Indices: 30376829--30376863 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
30376819 ATGTGCCGAC
30376829 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
30376864 ATTCGACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:30376891 original size:45 final size:45
Alignment explanation
Indices: 30376841--30376945 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
30376831 CTGTTACTGT
** *
30376841 TACTGTTACTGTTACTGTTA-CTGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCATTATC-GATTCAACACTTTGTGTGTCGAA
*
30376886 TACTGTTACTGTTACCATTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCATTATCGATTCAACACTTTGTGTGTCGAA
* *
30376931 TATTGTTACTATTAC
1 TACTGTTACTGTTAC
30376946 AGATTTGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACCATTATCGATTCAACACTTTGTGTGTCGAA
Found at i:30377186 original size:72 final size:73
Alignment explanation
Indices: 30377049--30377334 Score: 210
Period size: 72 Copynumber: 3.8 Consensus size: 73
30377039 AAAGGTATAA
* * * *
30377049 AATAACTGATTATTACTGAATAATTGA-CTGTTACCGAATAATTGACTGTTACT-AGAT-AATAG
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAATTGATTGTTACTGA-ATAAATAG
*
30377111 ACTGTTACTG
64 ACTGCTACTG
* *
30377121 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATAAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTTACTGAATAAATAGAC
*
30377185 TGCTATTG
66 TGCTACTG
* * * *
30377193 AATAACTTAAT-TGCTACTGAAT-ATCTGAT-TTTACTAAATAATTGATTGTTACTGGATAACCG
1 AATAACTGAATAT--TACTGAATAAT-TGATCATTACTGAATAATTGATTGTTACTGAATAA---
*
30377255 ATCAATTGA-TCGATACTG
60 AT--A--GACT-GCTACTG
** * ** * * *
30377273 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAAGTGACTGTTACTGAATAAATA
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTTACTGAATAAATA
30377335 ATTGTTTTAA
Statistics
Matches: 170, Mismatches: 26, Indels: 33
0.74 0.11 0.14
Matches are distributed among these distances:
71 1 0.01
72 93 0.55
73 17 0.10
75 3 0.02
77 2 0.01
79 12 0.07
80 41 0.24
81 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (73 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTTACTGAATAAATAGAC
TGCTACTG
Found at i:30377340 original size:18 final size:18
Alignment explanation
Indices: 30377049--30377331 Score: 167
Period size: 18 Copynumber: 15.3 Consensus size: 18
30377039 AAAGGTATAA
*
30377049 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* * *
30377067 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* *
30377085 AATAATTGACTGTTACT-
1 AATAACTGATTGTTACTG
*
30377102 AGATAA-TAGACTGTTACTG
1 A-ATAACT-GATTGTTACTG
* *
30377121 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
30377139 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
*
30377157 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* * * *
30377175 AATAAATGACTGCTATTG
1 AATAACTGATTGTTACTG
* *
30377193 AATAACTTAATTGCTACTG
1 AATAAC-TGATTGTTACTG
* *
30377212 AATATCTGATT-TTACTA
1 AATAACTGATTGTTACTG
*
30377229 AATAATTGATTGTTACTG
1 AATAACTGATTGTTACTG
* *
30377247 GATAACCGATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
30377273 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
30377291 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
* *
30377309 AATAAGTGACTGTTACTG
1 AATAACTGATTGTTACTG
30377327 AATAA
1 AATAA
30377332 ATAATTGTTT
Statistics
Matches: 205, Mismatches: 46, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
17 15 0.07
18 154 0.75
19 16 0.08
21 2 0.01
22 6 0.03
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:30382369 original size:18 final size:19
Alignment explanation
Indices: 30382348--30382395 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
30382338 TTATTTTTTT
30382348 AAAAATAAAAATTA-TGAA
1 AAAAATAAAAATTATTGAA
*
30382366 AAAAATAAAAATTATTTAA
1 AAAAATAAAAATTATTGAA
*
30382385 AAATATAAAAA
1 AAAAATAAAAA
30382396 ATTCCAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATAAAAATTATTGAA
Found at i:30382862 original size:17 final size:17
Alignment explanation
Indices: 30382814--30382864 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
30382804 AAATTTAAAA
30382814 AATTATTTTTTATTTTTG
1 AATT-TTTTTTATTTTTG
****
30382832 AATTTTAAACATTTTTG
1 AATTTTTTTTATTTTTG
30382849 AATTTTTTTTATTTTT
1 AATTTTTTTTATTTTT
30382865 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (17 bp):
AATTTTTTTTATTTTTG
Found at i:30432396 original size:106 final size:109
Alignment explanation
Indices: 30432268--30432472 Score: 292
Period size: 106 Copynumber: 1.9 Consensus size: 109
30432258 TTTTTATTGT
* * *
30432268 AATTTTTATGTTGCTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CT-ATTA-TAAATTGTT
1 AATTTTTATGTTGCTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATATGATTAGTAAAGTATT
30432330 TGTTTAATTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTA
66 TGTTTAATTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTA
* *
30432374 AATTTTTATGTT-TTTTTAAATTTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTAAG
1 AATTTTTATGTTGCTTTT-AATTTATTTTAAAGTTATTTTGTTAGTAA--TATGATTA-GTAAAG
*
30432438 TATTTGTTTAGTTTAATGTTTATTGTGATTTGTTA
62 TATTTGTTTAATTTAATGTTTATTGTGATTTGTTA
30432473 TGAATGTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
105 4 0.05
106 41 0.48
109 1 0.01
110 4 0.05
112 36 0.42
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (109 bp):
AATTTTTATGTTGCTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATATGATTAGTAAAGTATT
TGTTTAATTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTA
Found at i:30432484 original size:106 final size:102
Alignment explanation
Indices: 30432265--30432504 Score: 274
Period size: 106 Copynumber: 2.3 Consensus size: 102
30432255 TAGTTTTTAT
* * * *
30432265 TGTAATTTTTATGTTGCTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTGTT
1 TGTAATTTTTATGTT-TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAATATTATAAAGTATT
30432330 TGTTTAATTTAATGTTTATTGTGATTTGTTAAGTTATGAA
65 TGTTTAATTTAATGTTTATTGTGA-TTGTT-AGTTATGAA
*
30432370 TGTAAATTTTTATGTTTTTTTAAATTTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTT
1 TGT-AATTTTTATGTTTTTTT-AATTTATTTTAAAGTTATTTTGTTAGTAA---AT-ATTA--TA
*
30432435 AAGTATTTGTTTAGTTTAATGTTTATTGTGA-T-TT-GTTATGAA
58 AAGTATTTGTTTAATTTAATGTTTATTGTGATTGTTAGTTATGAA
*
30432477 TGTAATTTTT-T-TTGTTTTTGATTTATTT
1 TGTAATTTTTATGTT-TTTTTAATTTATTT
30432505 GACAATTTTT
Statistics
Matches: 119, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
104 10 0.08
105 13 0.11
106 48 0.40
107 11 0.09
109 3 0.03
110 5 0.04
112 29 0.24
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.60
Consensus pattern (102 bp):
TGTAATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAATATTATAAAGTATTT
GTTTAATTTAATGTTTATTGTGATTGTTAGTTATGAA
Found at i:30433460 original size:21 final size:22
Alignment explanation
Indices: 30433418--30433461 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
30433408 TGTGTACAAT
* * *
30433418 AAAAATGAATAAATTTGTGTTA
1 AAAAATGAACAAAATAGTGTTA
30433440 AAAAATGAACAAAATAG-GTTA
1 AAAAATGAACAAAATAGTGTTA
30433461 A
1 A
30433462 TAAGGTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAAATGAACAAAATAGTGTTA
Found at i:30438477 original size:16 final size:16
Alignment explanation
Indices: 30438443--30438479 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
30438433 AATTTTTTTG
30438443 AAAA-TAATGAAATAA
1 AAAATTAATGAAATAA
30438458 AAAATTAAT-AAATAA
1 AAAATTAATGAAATAA
30438473 TAAAATT
1 -AAAATT
30438480 GTATTTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAATTAATGAAATAA
Found at i:30444363 original size:43 final size:42
Alignment explanation
Indices: 30444305--30444414 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
30444295 AAATGCCAAC
* * * * * *
30444305 GTCCTAGACGTGGTCTTACATGTAATCAAATATTGATGCCGCT
1 GTCCCAGACATGGTCTTACACGTAATCAAATA-CGATACCGAT
*
30444348 GTCCCAGACATGGTCTTACACGAAATCAAATACGATACCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATACGATACCGAT
* *
30444390 GTCTCAGATATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
30444415 ATCTCAAATC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATACGATACCGAT
Found at i:30444417 original size:43 final size:44
Alignment explanation
Indices: 30444305--30444417 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 44
30444295 AAATGCCAAC
* * * * * *
30444305 GTCCTAGACGTGGTCTTACATGT-AATCAAATATTGATGCCGCT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCGAT
30444348 GTCCCAGACATGGTCTTACACG-AAATCAAATA-CGATACCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCGAT
* *
30444390 GTCTCAGATATGGTCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
30444418 TCAAATCGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCGAT
Found at i:30451665 original size:42 final size:41
Alignment explanation
Indices: 30451562--30451720 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 41
30451552 TACAATACCA
* **
30451562 ATGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCC
1 ATGTCCCAGACATGGTCTTACACAAAATCAAATA-CGATGCC
*
30451604 ATTGTCCCAGACATGGTCTTACACAAAATCAAATACGACGCC
1 A-TGTCCCAGACATGGTCTTACACAAAATCAAATACGATGCC
30451646 GATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CGATGCC
1 -ATGTCCCAGACATGGTCTTACACA-AAA--TCAAATACGATGCC
** * * *
30451690 AACATCCCGGACACGATCTTACACAAAATCA
1 -ATGTCCCAGACATGGTCTTACACAAAATCA
30451721 CACATCAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.03
42 30 0.30
43 37 0.37
44 25 0.25
45 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (41 bp):
ATGTCCCAGACATGGTCTTACACAAAATCAAATACGATGCC
Found at i:30451717 original size:86 final size:85
Alignment explanation
Indices: 30451562--30451720 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 85
30451552 TACAATACCA
* * *** * *
30451562 ATGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCATTGTCCCAGACATGGTCTTACA
1 ATGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCAACATCCCAGACACGATCTTACA
30451627 CAAAATCAAATACGACGCCG
66 CAAAATCAAATACGACGCCG
* *
30451647 ATGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCGATGCCAACATCCCGGACACGATCTTA
1 ATGTCCCAGACATGGTCTTACACAT-AATC-AAATATCGATGCCAACATCCCAGACACGATCTTA
30451711 CACAAAATCA
64 CACAAAATCA
30451721 CACATCAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 23 0.37
86 38 0.60
87 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCAACATCCCAGACACGATCTTACA
CAAAATCAAATACGACGCCG
Found at i:30458593 original size:20 final size:21
Alignment explanation
Indices: 30458568--30458606 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30458558 CTCTTGAAAC
30458568 AGGGC-ACACGCCCATGTGAA
1 AGGGCAACACGCCCATGTGAA
*
30458588 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCATGTG
30458607 GTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGAA
Found at i:30464268 original size:73 final size:73
Alignment explanation
Indices: 30464098--30464256 Score: 246
Period size: 73 Copynumber: 2.2 Consensus size: 73
30464088 GCATCTAGGG
* ** * *
30464098 ACACACCCGTGTCCTGTGGCCGTGGGAATTAAATTCCAAATTTGAACCTACAGGAGTTTTCACAC
1 ACACGCCCGTGTCCCATGCCCGTGTGAATTAAATTCCAAATTTGAACCTACAGGAGTTTTCACAC
*
30464163 TGCCTGAC
66 GGCCTGAC
*
30464171 ACACGCCCGTGTCCCATGCCCGTGTGAATTAAATTCTAAATTTGAACCTACAGGAGTTTTCACAC
1 ACACGCCCGTGTCCCATGCCCGTGTGAATTAAATTCCAAATTTGAACCTACAGGAGTTTTCACAC
30464236 GGCCTGAC
66 GGCCTGAC
*
30464244 ACACGTCCGTGTC
1 ACACGCCCGTGTC
30464257 TATTGCCCGT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (73 bp):
ACACGCCCGTGTCCCATGCCCGTGTGAATTAAATTCCAAATTTGAACCTACAGGAGTTTTCACAC
GGCCTGAC
Found at i:30474247 original size:47 final size:46
Alignment explanation
Indices: 30474115--30474252 Score: 149
Period size: 47 Copynumber: 3.0 Consensus size: 46
30474105 ATAATACACC
*
30474115 AAATTTGTGAATAGTGTCACAATAATGCAGATAAACTGCCACATAAT
1 AAATTAGTGAATAGTGTCAC-ATAATGCAGATAAACTGCCACATAAT
* * *
30474162 AAATTATTGACA-A--GTCACCAAAATCGCAGATATACTGCCACATAAT
1 AAATTAGTGA-ATAGTGTCA-CATAAT-GCAGATAAACTGCCACATAAT
*
30474208 CAAA-TCGTGAATAGTGTCACATTAATGCAGATAAACTGCCACATA
1 -AAATTAGTGAATAGTGTCACA-TAATGCAGATAAACTGCCACATA
30474253 TTTCCACCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
45 9 0.12
46 26 0.35
47 32 0.43
48 8 0.11
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (46 bp):
AAATTAGTGAATAGTGTCACATAATGCAGATAAACTGCCACATAAT
Found at i:30481654 original size:38 final size:38
Alignment explanation
Indices: 30481488--30481817 Score: 464
Period size: 38 Copynumber: 8.5 Consensus size: 38
30481478 ACAAAGCATG
* * *
30481488 CGGGACTTTGAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATAT-ACACCAGCACGAATGCCTT
30481528 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATAT-ACACCAGCACGAATGCCTT
30481568 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATAT-ACACCAGCACGAATGCCTT
* * ** *
30481607 CGGGACTTAGCCCGGATATACATCATCATAAATACCTT
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTT
*
30481645 CGGGACTTAGCCCGGATATACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTT
30481683 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATAT-ACACCAGCACGAATGCCTT
* *
30481722 CGGGACTTAGCCCGGATATACACCTGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTT
* *
30481760 CAGAACTTAGCCCGGATATACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTT
*
30481798 CGGGACTTAGCCCAGATATA
1 CGGGACTTAGCCCGGATATA
30481818 ATTCTCCATT
Statistics
Matches: 266, Mismatches: 22, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
38 135 0.51
39 110 0.41
40 21 0.08
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTT
Found at i:30481679 original size:115 final size:115
Alignment explanation
Indices: 30481528--30481818 Score: 485
Period size: 115 Copynumber: 2.5 Consensus size: 115
30481518 ACAAAGCCTG
30481528 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACC
1 CGGGAC-TTAGCCCGGATAT-ACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACC
30481593 AGCACGAATGCCTTCGGGACTTAGCCCGGATATACATCAT-CATAAATACCTT
64 AGCACGAATGCCTTCGGGACTTAGCCCGGATATACA-CATGCATAAATACCTT
*
30481645 CGGGACTTAGCCCGGATATACACCAGCATGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
* * *
30481710 CACGAATGCCTTCGGGACTTAGCCCGGATATACACCTGCATGAATGCCTT
66 CACGAATGCCTTCGGGACTTAGCCCGGATATACACATGCATAAATACCTT
* * *
30481760 CAGAACTTAGCCCGGATATACACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAA
1 CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
30481819 TTCTCCATTA
Statistics
Matches: 165, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
114 2 0.01
115 144 0.87
116 13 0.08
117 6 0.04
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (115 bp):
CGGGACTTAGCCCGGATATACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
CACGAATGCCTTCGGGACTTAGCCCGGATATACACATGCATAAATACCTT
Found at i:30488904 original size:15 final size:15
Alignment explanation
Indices: 30488884--30488913 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30488874 TTCATATGGC
30488884 AATTTAGCCATAATT
1 AATTTAGCCATAATT
30488899 AATTTAGCCATAATT
1 AATTTAGCCATAATT
30488914 GTAATAGTGA
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:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AATTTAGCCATAATT
Found at i:30489753 original size:30 final size:29
Alignment explanation
Indices: 30489713--30489769 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
30489703 ATTGGGTGAG
*
30489713 AAAAATGATATATGAAATGGTTGTATGGA
1 AAAAATGATATATGAAATGGTTATATGGA
*
30489742 AAAATATGATATATGTAATGGTTATATG
1 AAAA-ATGATATATGAAATGGTTATATG
30489770 AATCAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (29 bp):
AAAAATGATATATGAAATGGTTATATGGA
Found at i:30493133 original size:17 final size:18
Alignment explanation
Indices: 30493094--30493140 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
30493084 TTTCTCAAAA
30493094 TATT-AATT-AATTAATT
1 TATTCAATTAAATTAATT
*
30493110 TATTCAATTAAATTATTT
1 TATTCAATTAAATTAATT
*
30493128 TA-TCAACTAAATT
1 TATTCAATTAAATT
30493141 CTAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 4 0.15
17 14 0.52
18 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCAATTAAATTAATT
Found at i:30498900 original size:50 final size:49
Alignment explanation
Indices: 30498843--30499017 Score: 212
Period size: 50 Copynumber: 3.6 Consensus size: 49
30498833 GATATGTGTC
* * *
30498843 AGTGTAAGACCATGTCTGAGACATGGCATCG-GTATCGACAGGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TCGA-ATGTGAGAGCT
* *
30498893 AGTGTAAGACCATGTCTGGGACATGGAATCGACTTCGATATATGAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGA-ATGTGAGAGCT
* * * *
30498942 CAGTGTAAGACAATGTCTGGGACATGGCATTGACTTTG-ATGTGTGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAATGTGAGAGCT
30498991 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
30499018 GTCGGTATCT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
48 33 0.30
49 2 0.02
50 73 0.67
51 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAATGTGAGAGCT
Found at i:30509330 original size:19 final size:19
Alignment explanation
Indices: 30509306--30509343 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30509296 TGGGCCACGA
30509306 TGGGCCAAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
30509325 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
30509344 AGCCCCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:30520849 original size:33 final size:33
Alignment explanation
Indices: 30520812--30520891 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
30520802 GAATGCCCTA
* * * *
30520812 TTAAAATTAAGGCTCACCTATCCTTTTAGCCTC
1 TTAAAACTAAGGCTCACCCATCATTGTAGCCTC
* *
30520845 TTAAAGCTAAGGCTGACCCATCATTGTAGCCTC
1 TTAAAACTAAGGCTCACCCATCATTGTAGCCTC
* *
30520878 TTAAATCCAAGGCT
1 TTAAAACTAAGGCT
30520892 TGTCTTATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
TTAAAACTAAGGCTCACCCATCATTGTAGCCTC
Found at i:30522093 original size:42 final size:42
Alignment explanation
Indices: 30522046--30522130 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
30522036 GTTTAGTGAC
30522046 TAAATTTTACAAAAGTTAAAATGTTAGGGGTAAATTCATAAT
1 TAAATTTTACAAAAGTTAAAATGTTAGGGGTAAATTCATAAT
30522088 TAAATTTTACAAAAGTTAAAATGTTAGGGGTAAATTCATAAT
1 TAAATTTTACAAAAGTTAAAATGTTAGGGGTAAATTCATAAT
30522130 T
1 T
30522131 TGACATTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (42 bp):
TAAATTTTACAAAAGTTAAAATGTTAGGGGTAAATTCATAAT
Found at i:30538400 original size:21 final size:21
Alignment explanation
Indices: 30538363--30538402 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30538353 AGTACATTCT
30538363 TGTTTAATTATCATATTTATA
1 TGTTTAATTATCATATTTATA
30538384 TGTTTGAATTATC-TATTTA
1 TGTTT-AATTATCATATTTA
30538403 ATGGATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TGTTTAATTATCATATTTATA
Found at i:30539026 original size:56 final size:56
Alignment explanation
Indices: 30538940--30539059 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
30538930 ACAAGGGATG
30538940 ATGGGCAAAACATGACATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGACATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
30538996 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGACATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
30539052 ATGGGCAA
1 ATGGGCAA
30539060 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGACATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:30540417 original size:40 final size:40
Alignment explanation
Indices: 30540186--30540410 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
30540176 TCGAATGATG
* * * *
30540186 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
30540226 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
30540266 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30540305 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30540345 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30540386 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30540411 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30544362 original size:32 final size:32
Alignment explanation
Indices: 30544317--30544389 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 32
30544307 ATACAGCTTT
* * *
30544317 AAGCCTTCAGTAACAGTCTTAT-TATTGGCACA
1 AAGCCATCAGTAACAGTATTATGT-TAGGCACA
* *
30544349 AAGCCATCGGTAACTGTATTATGTTAGGCACA
1 AAGCCATCAGTAACAGTATTATGTTAGGCACA
*
30544381 TAGCCATCA
1 AAGCCATCA
30544390 ACTAGAGTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTATTATGTTAGGCACA
Found at i:30544523 original size:22 final size:22
Alignment explanation
Indices: 30544498--30544551 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30544488 TGGTACACAA
* *
30544498 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGCTGGCACAAAG
*
30544520 CCAT-ATGTAGGCTGGCACAAAG
1 CCATAAT-CAGGCTGGCACAAAG
30544542 CCATAATCAG
1 CCATAATCAG
30544552 AATAATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (22 bp):
CCATAATCAGGCTGGCACAAAG
Found at i:30545063 original size:27 final size:26
Alignment explanation
Indices: 30544992--30545259 Score: 157
Period size: 27 Copynumber: 9.9 Consensus size: 26
30544982 GGTAAATCTA
* * *
30544992 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTT-TGTAATTTTT
* *
30545019 C-AAGCTAATGGTATTTTTGTAATTTTT
1 CAAATC-AAGGGTA-TTTTGTAATTTTT
*
30545046 GAAATTCAAGGGTATTTTTGTAATTTTGT
1 CAAA-TCAAGGGTA-TTTTGTAATTTT-T
* *
30545075 -AAATTAGGGGTATTTCTGTAA-TTTT
1 CAAATCAAGGGTATTT-TGTAATTTTT
* *
30545100 CTAAATCAAGGGTATTTCGATAATTTTC
1 C-AAATCAAGGGTATTTTG-TAATTTTT
* *
30545128 CAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTT-GTAATTTTT
* **
30545155 CAAATCAAGGGTATTTCAGTAATTTCA
1 CAAATCAAGGGTATTT-TGTAATTTTT
* * * * *
30545182 AAAATTAGGGGTATTTTGGTAATCTTA
1 CAAATCAAGGGTATTTT-GTAATTTTT
* * *
30545209 CAGA-CTAGGGGTATTTTGGTAATTTTA
1 CAAATC-AAGGGTATTTT-GTAATTTTT
*
30545236 CAAATCAGGGGTATTTTAGTAATT
1 CAAATCAAGGGTATTTT-GTAATT
30545260 CTATCATACA
Statistics
Matches: 195, Mismatches: 31, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.01
26 10 0.05
27 149 0.76
28 33 0.17
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
CAAATCAAGGGTATTTTGTAATTTTT
Found at i:30545177 original size:81 final size:79
Alignment explanation
Indices: 30544973--30545259 Score: 256
Period size: 81 Copynumber: 3.5 Consensus size: 79
30544963 CACCCTACAA
* * * * * *
30544973 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGC-AAGCTAATGGTATTTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTT-CAAATC-AAGGGTA-TTTT
** *
30545037 GTAATTTTTGAAATTCAA
63 GTAATTTTACAAA-TCAG
* ** * * * *
30545055 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTCTAAATCAAGGGTATTTCGA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTC-AAATCAAGGGTATTTTG-
*
30545120 TAATTTTCCAAATCAG
64 TAATTTTACAAATCAG
* *
30545136 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAA-TTTCAAAAATTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTC--AAATCAAGGGTATTTT-
* *
30545200 GTAATCTTACAGA-CTAG
63 GTAATTTTACAAATC-AG
* *
30545217 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATT
30545260 CTATCATACA
Statistics
Matches: 167, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
80 5 0.03
81 106 0.63
82 53 0.32
83 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTCAAATCAAGGGTATTTTGTA
ATTTTACAAATCAG
Found at i:30545278 original size:27 final size:27
Alignment explanation
Indices: 30545248--30545350 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
30545238 AATCAGGGGT
* *
30545248 ATTTTAGTAATTCTATCATACAAGGGC
1 ATTTCAGTAATTCTATCCTACAAGGGC
30545275 ATTTCAGTAATTCTATCCTACAAGGGC
1 ATTTCAGTAATTCTATCCTACAAGGGC
* * * *
30545302 ATTTCAATAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTATCCTACAAGGGC
* *
30545329 ATTTCAGTAATACTAGCCTACA
1 ATTTCAGTAATTCTATCCTACA
30545351 GATATGAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (27 bp):
ATTTCAGTAATTCTATCCTACAAGGGC
Found at i:30545285 original size:54 final size:54
Alignment explanation
Indices: 30544973--30545286 Score: 225
Period size: 54 Copynumber: 5.8 Consensus size: 54
30544963 CACCCTACAA
* * * * *
30544973 GGGTGTTTTGGTAAATCTA-CAAACCAAGGGTATTTCAGTAATTTTGC-AAGCTAA
1 GGGTATTTTGGTAATTCTATCAAA-CAAGGGTATTTCAGTAATTTTACAAATC-AG
* * * * ** ** *
30545027 TGGTATTTTTGTAATT-TTTGAAATTCAAGGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTCTATCAAA--CAAGGGTATTTCAGTAATTTTACAAATCAG
*
30545082 GGGTATTTCT-GTAATT-T-TCTAAATCAAGGGTATTTC-GATAATTTTCCAAATCAG
1 GGGTATTT-TGGTAATTCTATC-AAA-CAAGGGTATTTCAG-TAATTTTACAAATCAG
* * * *
30545136 GGGTATTTTGGTAATTTTA-CAAATCAAGGGTATTTCAGTAATTTCAAAAATTAG
1 GGGTATTTTGGTAATTCTATCAAA-CAAGGGTATTTCAGTAATTTTACAAATCAG
* * **
30545190 GGGTATTTTGGTAA-TCT-TACAGACTAGGGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTCTAT-CAAAC-AAGGGTATTTCAGTAATTTTACAAATCAG
* * *
30545244 GGGTATTTTAGTAATTCTATCATACAAGGGCATTTCAGTAATT
1 GGGTATTTTGGTAATTCTATCAAACAAGGGTATTTCAGTAATT
30545287 CTATCCTACA
Statistics
Matches: 208, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
53 6 0.03
54 150 0.72
55 48 0.23
56 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTCTATCAAACAAGGGTATTTCAGTAATTTTACAAATCAG
Found at i:30545285 original size:81 final size:81
Alignment explanation
Indices: 30545055--30545285 Score: 209
Period size: 81 Copynumber: 2.9 Consensus size: 81
30545045 TGAAATTCAA
* ** * * * * *
30545055 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTC-TAAATCAAGGGTATTTC-
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAA-TTTCAAAAATCAAGGGCATTTCA
* * *
30545118 GATAATTTTCCA-AATCAG
65 G-TAATCTTACAGACT-AG
* * * **
30545136 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCAAAAATTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCAAAAATCAAGGGCATTTCAG
30545201 TAATCTTACAGACTAG
66 TAATCTTACAGACTAG
* * * **
30545217 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAA-TTCTATCATACAAGGGCATTTCA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCAAAAAT-CAAGGGCATTTCA
30545281 GTAAT
65 GTAAT
30545286 TCTATCCTAC
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 10 0.08
81 110 0.89
82 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCAAAAATCAAGGGCATTTCAG
TAATCTTACAGACTAG
Found at i:30547358 original size:41 final size:41
Alignment explanation
Indices: 30547311--30547406 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
30547301 ATTACTCGTT
* * **
30547311 AACTTGTGTGAGTAGCACCGTGTAGCTATGTTTTGACCGTC
1 AACTTGTGTGAGCAGCACCATGTAGCTACATTTTGACCGTC
* *
30547352 AGCTTGTGTGAGCAGCACCATGTAGCTACATTTTGACCGTT
1 AACTTGTGTGAGCAGCACCATGTAGCTACATTTTGACCGTC
30547393 AACTTGTGTGAGCA
1 AACTTGTGTGAGCA
30547407 AACCCAATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (41 bp):
AACTTGTGTGAGCAGCACCATGTAGCTACATTTTGACCGTC
Found at i:30551587 original size:20 final size:20
Alignment explanation
Indices: 30551562--30551602 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30551552 TGAAAGTTAG
30551562 TTCAAATATGGTAAGTGTGA
1 TTCAAATATGGTAAGTGTGA
30551582 TTCAAATATGGTAAGTGTGA
1 TTCAAATATGGTAAGTGTGA
30551602 T
1 T
30551603 ATGAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (20 bp):
TTCAAATATGGTAAGTGTGA
Found at i:30552651 original size:21 final size:20
Alignment explanation
Indices: 30552627--30552665 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30552617 GAGTATTTTG
30552627 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
30552648 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
30552666 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:30555902 original size:20 final size:20
Alignment explanation
Indices: 30555877--30555916 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30555867 AGAACTTGGC
30555877 AAAGAAAAATGAAAAGCTAA
1 AAAGAAAAATGAAAAGCTAA
30555897 AAAGAAAAATGAAAAGCTAA
1 AAAGAAAAATGAAAAGCTAA
30555917 CTTTGAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAGAAAAATGAAAAGCTAA
Found at i:30558590 original size:40 final size:40
Alignment explanation
Indices: 30558453--30558598 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
30558443 GCTACTCGTT
* * * *
30558453 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGAAT-TAGTAACTCGCA
** *
30558493 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGAATTAGTAACTCGCA
*
30558533 CAAATGCCTTCGGATCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGAATTAGTAACTCGCA
*
30558573 CAAATGCCTTCGAATCTTAGTCCGGA
1 CAAATGCCTTCGGATCTTAGTCCGGA
30558599 TATGGTCACT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 3 0.03
40 88 0.93
41 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGAATTAGTAACTCGCA
Found at i:30558598 original size:80 final size:82
Alignment explanation
Indices: 30558420--30558638 Score: 204
Period size: 80 Copynumber: 2.7 Consensus size: 82
30558410 AAATCACGTA
* * ** * * *
30558420 CCTTCGGAATTTAA-CCGGATATAGCT-AC-TCGTTCAAATGCCTTCGGGTCATAGCCCGG-TTA
1 CCTTCGGAACTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGATCTTAGCCCGGAATA
30558481 TAGTAACTCGCACAAATG
65 TAGTAACTCGCACAAATG
* * * *
30558499 CCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGAAT-T
1 CCTTCGGAACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGATCTTAGCCCGGAATAT
*
30558562 AGTATCTCGCACAAATG
66 AGTAACTCGCACAAATG
** * *
30558579 CCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CCTTCGGAA-CTTAACCCGGATATAGTAACTTAGCACAAATGCCTTC-GGATCTTAGCCCGGA
30558639 CATCATTCGA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
79 15 0.13
80 89 0.77
81 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (82 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGATCTTAGCCCGGAATAT
AGTAACTCGCACAAATG
Found at i:30558632 original size:40 final size:40
Alignment explanation
Indices: 30558434--30558638 Score: 174
Period size: 40 Copynumber: 5.1 Consensus size: 40
30558424 CGGAATTTAA
** * *
30558434 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGATCTTAGC
* *
30558474 CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGA-CTTAAC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTC-GGATCTTAGC
* *
30558514 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGATCTTAGC
* *
30558554 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTCGAATCTTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGATCTTAGC
* *
30558594 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTC-GGATCTTAGC
30558634 CCGGA
1 CCGGA
30558639 CATCATTCGA
Statistics
Matches: 139, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
39 5 0.04
40 119 0.86
41 14 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGATCTTAGC
Found at i:30559832 original size:56 final size:56
Alignment explanation
Indices: 30559765--30559884 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
30559755 TATTAGTTTA
30559765 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
30559821 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
30559877 TTGCCCAT
1 TTGCCCAT
30559885 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:30565712 original size:43 final size:43
Alignment explanation
Indices: 30565662--30565812 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
30565652 TATCCTAGAT
* * *
30565662 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* ** * * *
30565705 AGGGTCTTACACAAAATCATATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
*
30565748 ATGGTCTTACACGTAATCACAATAT-AATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-ATATCGATGCCAATGTCCCAGAC
* *
30565791 ATGGTTTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
30565813 CTAGGTAACT
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.02
43 84 0.94
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:30580498 original size:11 final size:11
Alignment explanation
Indices: 30580482--30580512 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
30580472 CATCAAATTC
30580482 CAAAAAAAAAA
1 CAAAAAAAAAA
*
30580493 CAAAAAAACAA
1 CAAAAAAAAAA
30580504 CAAAAAAAA
1 CAAAAAAAA
30580513 GAAAAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:30581212 original size:20 final size:21
Alignment explanation
Indices: 30581187--30581234 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
30581177 AAATCAGAAT
*
30581187 AAAAAAGAGAAATAA-AAAGA
1 AAAAAAGAGAAAAAAGAAAGA
*
30581207 AAAAAA-ATAAAAAAGAAAGA
1 AAAAAAGAGAAAAAAGAAAGA
*
30581227 AAGAAAGA
1 AAAAAAGA
30581235 ATCAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAGAAAGA
Found at i:30582432 original size:64 final size:64
Alignment explanation
Indices: 30582358--30582551 Score: 298
Period size: 64 Copynumber: 3.0 Consensus size: 64
30582348 TATCATTCAT
** * *
30582358 ATCACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAATC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
* *
30582422 ATCACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAACATCCTAATTATTTAACATAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
* * * *
30582486 ATCACATTTAGTTAAGAGTATTTGATTCATTTTGATCATAACATCCTAATTATTTGTCATAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
30582550 AT
1 AT
30582552 GATACATGAA
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (64 bp):
ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
Found at i:30583282 original size:147 final size:148
Alignment explanation
Indices: 30583046--30583430 Score: 567
Period size: 147 Copynumber: 2.6 Consensus size: 148
30583036 TAGCCACTGG
* * * *
30583046 CCTTATCTCTCTGAGGAAGCAAGAAAGTAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* *
30583111 AGGAAGCAGACTGAAGATTAAAGATTGGAAGAGGCAAATCTTATATCCATGTACCGGCAATGGAG
66 AGGAAGCAGACTGAAGATTAAAGATTGGAAGACGCAAATCTTATATACATGTACCGGCAATGGAG
30583176 CA-AGTTTAAGCCTCAAGA
131 CAGA-TTTAAGCCTCAAGA
* *
30583194 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTG-AGTCTTACCTTTCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* * * * * **
30583258 AGAAAGCATACTGAAGATTGAAGATTGGAGGACGCAAATCTTATCTACATGTATTGGCAATGGAG
66 AGGAAGCAGACTGAAGATTAAAGATTGGAAGACGCAAATCTTATATACATGTACCGGCAATGGAG
30583323 CAGATTTAAGCCTCAAGA
131 CAGATTTAAGCCTCAAGA
* * *
30583341 CCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAAATTGTAGTATTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* *
30583406 AGGAAGCAGACCGAAGATTACAGAT
66 AGGAAGCAGACTGAAGATTAAAGAT
30583431 CTTATTTCCC
Statistics
Matches: 211, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
147 133 0.63
148 78 0.37
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (148 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
AGGAAGCAGACTGAAGATTAAAGATTGGAAGACGCAAATCTTATATACATGTACCGGCAATGGAG
CAGATTTAAGCCTCAAGA
Found at i:30583711 original size:180 final size:179
Alignment explanation
Indices: 30583294--30583950 Score: 712
Period size: 180 Copynumber: 3.7 Consensus size: 179
30583284 GGAGGACGCA
* * * * * *
30583294 AATCTTATCTACATGTATTGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAAGTA
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACAAG-CCTTATCTCTCTGAGGTA
* * * *
30583359 GCAAGAGAGCAGGTTGAAA-ATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACCGAAGA
65 GCAAGAGAGCAGGTTGAAAGAGTG-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
* * * * ** * *
30583423 TT-ACAGATCTTATTTCCCT-AGGTAGTTGTGGAGCAGA--TTGAGGATGGCG
129 TTGA-AGATTTTATCTCCCTGAGATTGCAGCGGAGCAGATCTTGA-GATGGTG
* * ***
30583472 AGTCTTATCTCCATGTATC-AGCAATGGAGCAGATTTTAGCTATTGGCCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGA-CAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTA
*
30583536 GCAAGAGAGCAAGTTGAAAGA-TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAAT
65 GCAAGAGAGCAGGTTGAAAGAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAAT
30583600 TGAAGATTTTATCTCCCTGAGATTGCAGCGGAGCAGATCTTTGCAGATGGTG
130 TGAAGATTTTATCTCCCTGAGATTGCAGCGGAGCAGATC-TTG-AGATGGTG
* * * *
30583652 AATCTTATTTCCATGTATCGACAATGGAACAGATTTTA-CCACCAAGCCTTATTTCTCTGACGTA
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCA-CAAGCCTTATCTCTCTGAGGTA
* * * * **
30583716 GCAAGAGAGCAGGTTG-AAGAATGAGTTTTATTTTCCTGAGGTAGCAAGGAAGCAGAATGGGAAT
65 GCAAGAGAGCAGGTTGAAAGAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAAT
30583780 TGAAGATTTTATCTCCCTGA-AGTTGCAGCGGAGCAGATC--GAGAATGGTG
130 TGAAGATTTTATCTCCCTGAGA-TTGCAGCGGAGCAGATCTTGAG-ATGGTG
* * * * * * * *
30583829 AATCCTATCTTCATGTATCGGCAATGGAGTAGATTTTA-CCACTAGCCTTATTTCTTTGAGGTGG
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAG
* * * *
30583893 CAAGAGAGCAGGTT-AAAAAGGGAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTG
66 CAAGAGAGCAGGTTGAAAGAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
30583951 TAGACTGAAA
Statistics
Matches: 409, Mismatches: 56, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
176 122 0.30
177 93 0.23
178 36 0.09
179 7 0.02
180 149 0.36
181 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (179 bp):
AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGAAAGAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATT
GAAGATTTTATCTCCCTGAGATTGCAGCGGAGCAGATCTTGAGATGGTG
Found at i:30583936 original size:356 final size:358
Alignment explanation
Indices: 30583294--30583950 Score: 844
Period size: 356 Copynumber: 1.8 Consensus size: 358
30583284 GGAGGACGCA
* * * *
30583294 AATCTTATCTACATGTATTGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAAGTA
1 AATCTTATCTACATGTATCGACAATGGAACAGATTTAAGCCCCAAGACCTTATCTCTCTGAAGTA
30583359 GCAAGAGAGCAGGTTGAAAATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACCGAAGAT
66 GCAAGAGAGCAGGTTGAAAATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACCGAAGAT
* * ** * * * * *
30583424 TACAGATCTTATTTCCCTAGGTAGTTGTGGAGCAGATTGAGGATGGCGAGTCTTATCTCCATGTA
131 TACAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTCCATGTA
* * * *
30583489 TCAGCAATGGAGCAGATTTTAGCTATTGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAA
196 TCAGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAA
* *
30583554 AGATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCTG
261 AGAGGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCTG
30583619 AGATTGCAGCGGAGCAGATCTTTGCAGATGGTG
326 AGATTGCAGCGGAGCAGATCTTTGCAGATGGTG
* * * * *
30583652 AATCTTATTTCCATGTATCGACAATGGAACAGATTTTA-CCACCAAG-CCTTATTTCTCTGACGT
1 AATCTTATCTACATGTATCGACAATGGAACAGATTTAAGCC-CCAAGACCTTATCTCTCTGAAGT
* * ** *
30583715 AGCAAGAGAGCAGGTTGAAGAA-TG-AGTTTTATTTTCCTGAGGTAGCAAGGAAGCAGAATG-GG
65 AGCAAGAGAGCAGGTTGAA-AATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACCGAAG
* * * *
30583777 AATTGA-AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAGAATGGTGAATCCTATCTTC
129 -ATT-ACAGATCTTATCTCCCT-AAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTCC
* * * * * *
30583841 ATGTATCGGCAATGGAGTAGATTTTA-CCACTAGCCTTATTTCTTTGAGGTGGCAAGAGAGCAGG
191 ATGTATCAGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAG
*
30583905 TTAAAA-AGGGAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTG
256 TTAAAAGA-GGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTG
30583951 TAGACTGAAA
Statistics
Matches: 253, Mismatches: 40, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
355 2 0.01
356 119 0.47
357 94 0.37
358 38 0.15
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (358 bp):
AATCTTATCTACATGTATCGACAATGGAACAGATTTAAGCCCCAAGACCTTATCTCTCTGAAGTA
GCAAGAGAGCAGGTTGAAAATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACCGAAGAT
TACAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTCCATGTA
TCAGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAA
AGAGGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCTG
AGATTGCAGCGGAGCAGATCTTTGCAGATGGTG
Found at i:30585600 original size:31 final size:31
Alignment explanation
Indices: 30585565--30585627 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30585555 TCATTGATTG
30585565 TGATATTTTGTATTATTCTGATAGCCGAATT
1 TGATATTTTGTATTATTCTGATAGCCGAATT
30585596 TGATATTTTGTATTATTCTGATAGCCGAATT
1 TGATATTTTGTATTATTCTGATAGCCGAATT
30585627 T
1 T
30585628 TGTAATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (31 bp):
TGATATTTTGTATTATTCTGATAGCCGAATT
Found at i:30588418 original size:29 final size:30
Alignment explanation
Indices: 30588369--30588440 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
30588359 GGTTTCATTT
* *
30588369 CAGTCACCCAACTTTTGAAAAA-TAAC-AAA
1 CAGTCA-CCAACTTATAAAAAAGTAACAAAA
*
30588398 CAGTCACCAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCAAC-TTATAAAAAAGTAACAAAA
*
30588429 CAGTCACTAACT
1 CAGTCACCAACT
30588441 AATAGTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.14
29 14 0.39
30 4 0.11
31 13 0.36
ACGTcount: A:0.47, C:0.24, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGTCACCAACTTATAAAAAAGTAACAAAA
Found at i:30588497 original size:21 final size:21
Alignment explanation
Indices: 30588471--30588511 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30588461 TAACAGAACC
30588471 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
30588492 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
30588512 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:30588551 original size:11 final size:11
Alignment explanation
Indices: 30588537--30588569 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
30588527 AAAAATTGAA
30588537 AAAAAAACCCT
1 AAAAAAACCCT
30588548 AAAAAAACCCT
1 AAAAAAACCCT
30588559 AAAAAAACCCT
1 AAAAAAACCCT
30588570 TTTAACAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.27, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAAACCCT
Found at i:30588584 original size:3 final size:3
Alignment explanation
Indices: 30588578--30588614 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
30588568 CTTTTAACAG
* *
30588578 AGA AGA AGA AGA AGA AGA AGG AGA AAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
30588615 CAGTCACTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Done.