Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1762280
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:243562 original size:69 final size:68
Alignment explanation
Indices: 243485--243625 Score: 194
Period size: 69 Copynumber: 2.1 Consensus size: 68
243475 AAATGAGATT
* *
243485 ATGATTTAAATATATTAAATTTTATGAACAAAAAATAGTGCTATTATAAAAAAA-TTGAAAGTGG
1 ATGATTTAAATATAGTAAATTTTATGAACAAAAAATAGTGATATTA-AAAAAAACTTGAAAGTGG
243549 AGAC
65 AGAC
** * **
243553 ATGATTTTAAATATAGTATTTTTTATTAACAAAAGTTAGTGATATTAAAAAAAACTTGAAAGTGG
1 ATGA-TTTAAATATAGTAAATTTTATGAACAAAAAATAGTGATATTAAAAAAAACTTGAAAGTGG
243618 AGAC
65 AGAC
243622 ATGA
1 ATGA
243626 GATTTTATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
68 11 0.17
69 53 0.83
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (68 bp):
ATGATTTAAATATAGTAAATTTTATGAACAAAAAATAGTGATATTAAAAAAAACTTGAAAGTGGA
GAC
Found at i:243655 original size:67 final size:68
Alignment explanation
Indices: 243485--243672 Score: 192
Period size: 69 Copynumber: 2.8 Consensus size: 68
243475 AAATGAGATT
* * ** * * *
243485 ATGATTTAAATATATTAAATTTTATGAACAAAAA-ATAGTGCTATTATAAAAAAATTGAAAGTGG
1 ATGATTTTAATATAATATTTTTTAT-TACAAAAAGTTAGTGATATTATAAAAAAATTGAAAGTGG
243549 AGAC
65 AGAC
*
243553 ATGATTTTAAATATAGTATTTTTTATTA-ACAAAAGTTAGTGATATTA-AAAAAAACTTGAAAGT
1 ATGATTTT-AATATAATATTTTTTATTACA-AAAAGTTAGTGATATTATAAAAAAA-TTGAAAGT
243616 GGAGAC
63 GGAGAC
*
243622 ATGAGATTTT-ATA-AATA-TTTTTATTACAAAAAGTTAGTGCT-TTATAAAAAA
1 AT--GATTTTAATATAATATTTTTTATTACAAAAAGTTAGTGATATTATAAAAAA
243673 TAAAAATTAA
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
66 3 0.03
67 28 0.27
68 23 0.22
69 43 0.42
71 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (68 bp):
ATGATTTTAATATAATATTTTTTATTACAAAAAGTTAGTGATATTATAAAAAAATTGAAAGTGGA
GAC
Found at i:243699 original size:17 final size:17
Alignment explanation
Indices: 243677--243727 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
243667 AAAAAATAAA
243677 AATTAATTAAATAATAT-
1 AATTAATTAAA-AATATG
*
243694 AATTAATTAAAAATGTG
1 AATTAATTAAAAATATG
*
243711 AATTAATATTAAAATAT
1 AATTAAT-TAAAAATAT
243728 AGTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 18 0.62
18 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
AATTAATTAAAAATATG
Found at i:257778 original size:21 final size:20
Alignment explanation
Indices: 257753--257791 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
257743 CATCAAGGTC
*
257753 TTTGTGGATGCCATGAAATCT
1 TTTGTGGAGGCCAT-AAATCT
*
257774 TTTGTTGAGGCCATAAAT
1 TTTGTGGAGGCCATAAAT
257792 TCCTGTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGTGGAGGCCATAAATCT
Found at i:266617 original size:16 final size:16
Alignment explanation
Indices: 266570--266608 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
266560 GCAGTATTTG
266570 ACTCGTTGCTCGTTAA
1 ACTCGTTGCTCGTTAA
*
266586 ATTCGTTGCTCGTTAA
1 ACTCGTTGCTCGTTAA
266602 ACTCGTT
1 ACTCGTT
266609 ACTCATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (16 bp):
ACTCGTTGCTCGTTAA
Found at i:267571 original size:43 final size:43
Alignment explanation
Indices: 267510--267601 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
267500 AAAGGACCGA
* * *
267510 TAATTCTAATAATTAATGATCACTTCACTAGTATCTATTTTTT
1 TAATTCTAATAATTAATGATCACATAACTAGCATCTATTTTTT
267553 TAATTCTAATAATTAATGATCACATAACTAGCATCTATTTTTT
1 TAATTCTAATAATTAATGATCACATAACTAGCATCTATTTTTT
267596 TCAATT
1 T-AATT
267602 GAGGAGTCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (43 bp):
TAATTCTAATAATTAATGATCACATAACTAGCATCTATTTTTT
Found at i:275571 original size:13 final size:13
Alignment explanation
Indices: 275553--275579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
275543 AAATACTTAA
275553 ATCCGAGATCTTT
1 ATCCGAGATCTTT
275566 ATCCGAGATCTTT
1 ATCCGAGATCTTT
275579 A
1 A
275580 CAGAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
ATCCGAGATCTTT
Found at i:278049 original size:25 final size:23
Alignment explanation
Indices: 278015--278068 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
278005 CTAGTTTGAC
*
278015 CCGACCCGGTCTGACTCGACCCAAA
1 CCGACCCGGTCCGACT-GA-CCAAA
*
278040 CCGACCCGGTCCGACTGACCAAC
1 CCGACCCGGTCCGACTGACCAAA
278063 CCGACC
1 CCGACC
278069 AGCGTTAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 10 0.37
24 2 0.07
25 15 0.56
ACGTcount: A:0.22, C:0.48, G:0.20, T:0.09
Consensus pattern (23 bp):
CCGACCCGGTCCGACTGACCAAA
Found at i:280308 original size:24 final size:24
Alignment explanation
Indices: 280177--280294 Score: 166
Period size: 24 Copynumber: 5.0 Consensus size: 24
280167 TCCAATTTGA
* * * *
280177 ATTCTGTTATGATACCTGACATGG
1 ATTCTGATCTGATACATGACCTGG
* *
280201 ATTTTGATATGATAC-TGACCTGG
1 ATTCTGATCTGATACATGACCTGG
280224 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACATGACCTGG
280248 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACATGACCTGG
*
280272 ATTCTGATCTGATACTTGACCTG
1 ATTCTGATCTGATACATGACCTG
280295 AATTATGTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 20 0.23
24 67 0.77
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (24 bp):
ATTCTGATCTGATACATGACCTGG
Found at i:284466 original size:24 final size:24
Alignment explanation
Indices: 284447--284555 Score: 148
Period size: 24 Copynumber: 4.6 Consensus size: 24
284437 AATTCTCTTA
*
284447 TGATACCTGACCTGGATTCTGATC
1 TGATACATGACCTGGATTCTGATC
*
284471 TGATAC-TGACATGGATTCTGATC
1 TGATACATGACCTGGATTCTGATC
*
284494 TGATACATGAACTGGATTCTGATC
1 TGATACATGACCTGGATTCTGATC
** *
284518 TGATACATGAATTGGATTCTGATA
1 TGATACATGACCTGGATTCTGATC
*
284542 TGATACTTGACCTG
1 TGATACATGACCTG
284556 AATTATGTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
23 22 0.29
24 54 0.71
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (24 bp):
TGATACATGACCTGGATTCTGATC
Found at i:284509 original size:47 final size:48
Alignment explanation
Indices: 284445--284547 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 48
284435 TGAATTCTCT
* *
284445 TATGATACCTGACCTGGATTCTGATCTGATAC-TGACA-TGGATTCTGA
1 TATGATACATGAACTGGATTCTGATCTGATACATGA-ATTGGATTCTGA
*
284492 TCTGATACATGAACTGGATTCTGATCTGATACATGAATTGGATTCTGA
1 TATGATACATGAACTGGATTCTGATCTGATACATGAATTGGATTCTGA
284540 TATGATAC
1 TATGATAC
284548 TTGACCTGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 30 0.60
48 20 0.40
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (48 bp):
TATGATACATGAACTGGATTCTGATCTGATACATGAATTGGATTCTGA
Found at i:297645 original size:23 final size:23
Alignment explanation
Indices: 297603--297721 Score: 125
Period size: 23 Copynumber: 5.3 Consensus size: 23
297593 CACCACAGCT
* *
297603 CATATA-AA-TGCACTGAAGTGC
1 CATATAGAATTGCACCGTAGTGC
297624 CATATAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
*** *
297647 CGCGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
297670 CATATAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
*** * *
297693 CGCGTAGAGTTGCACCGTAGTAC
1 CATATAGAATTGCACCGTAGTGC
297716 CATATA
1 CATATA
297722 ATAATGTCCA
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 6 0.08
22 2 0.03
23 70 0.90
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:297678 original size:46 final size:46
Alignment explanation
Indices: 297619--297721 Score: 197
Period size: 46 Copynumber: 2.2 Consensus size: 46
297609 AATGCACTGA
297619 AGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTGCACCGT
1 AGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTGCACCGT
297665 AGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTGCACCGT
1 AGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTGCACCGT
*
297711 AGTACCATATA
1 AGTGCCATATA
297722 ATAATGTCCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTGCACCGT
Found at i:297900 original size:101 final size:102
Alignment explanation
Indices: 297725--297948 Score: 398
Period size: 101 Copynumber: 2.2 Consensus size: 102
297715 CCATATAATA
297725 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
297789 GTCTCACCAGACTT-CACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACTTACACATGTTCCAAAGAATACATAT
297826 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTG
297891 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTT-ACACATGTTCCAAAGAATACATAT
* *
297929 ATGTCCCGAAGGACTACATA
1 ATGTCCCAAAGGACCACATA
297949 GACCATCGAA
Statistics
Matches: 118, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
101 74 0.63
102 3 0.03
103 41 0.35
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (102 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTG
TCTCACCAGACTTACACATGTTCCAAAGAATACATAT
Found at i:299402 original size:21 final size:21
Alignment explanation
Indices: 299376--299419 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
299366 ATTTTATTCG
* *
299376 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
299397 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
299418 CT
1 CT
299420 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:303201 original size:23 final size:23
Alignment explanation
Indices: 303159--303277 Score: 143
Period size: 23 Copynumber: 5.3 Consensus size: 23
303149 CACCACAGCT
*
303159 CATATA-AA-TGCACCGAAGTGC
1 CATATAGAATTGCACCGTAGTGC
*
303180 CATATAGAATTGCACTGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
*** *
303203 CGCGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
303226 CATATAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
** *
303249 CACGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
303272 CATATA
1 CATATA
303278 ATAATGTCCA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 6 0.08
22 2 0.03
23 72 0.90
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:303234 original size:46 final size:46
Alignment explanation
Indices: 303167--303277 Score: 195
Period size: 46 Copynumber: 2.4 Consensus size: 46
303157 CTCATATAAA
* * *
303167 TGCACCGAAGTGCCATATAGAATTGCACTGTAGTGCCGCGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
303213 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
303259 TGCACCGTAGTGCCATATA
1 TGCACCGTAGTGCCATATA
303278 ATAATGTCCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (46 bp):
TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
Found at i:303456 original size:101 final size:102
Alignment explanation
Indices: 303289--303504 Score: 398
Period size: 101 Copynumber: 2.1 Consensus size: 102
303279 TAATGTCCAT
303289 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
303354 GACTT-CACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTACACATGTTCCAAAGAATACATATATGTCCCG
303390 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
303455 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTT-ACACATGTTCCAAAGAATACATATATGTCCCG
* *
303493 AAAGACTACATA
1 AAGGACCACATA
303505 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
101 70 0.63
103 41 0.37
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (102 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:304968 original size:21 final size:21
Alignment explanation
Indices: 304942--304985 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
304932 ATTTTATTCG
* *
304942 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
304963 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
304984 CT
1 CT
304986 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:306429 original size:2 final size:2
Alignment explanation
Indices: 306422--306455 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
306412 AAGATTTTTA
*
306422 CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
306456 TTATTCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:307496 original size:55 final size:55
Alignment explanation
Indices: 307370--307511 Score: 169
Period size: 55 Copynumber: 2.6 Consensus size: 55
307360 TCTTCGAATG
* *
307370 ACGGGTTCGCTCCCTTTTCCTTCAGGGAGTATAAAACTCGAACTATCTTCAGCAA
1 ACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAAAACTCGAACAATCTTCAGCAA
** * * * *
307425 ACATG-TCTGCTCCCTATTCGTTCAGGGAGTATAAGAGTCGAACAATTTTCAGCAA
1 ACGGGTTC-GCTCCCTATTCCTTCAGGGAGTATAAAACTCGAACAATCTTCAGCAA
* * *
307480 ACGGGTTCGTTTCCTATTCTTTCAGGGAGTAT
1 ACGGGTTCGCTCCCTATTCCTTCAGGGAGTAT
307512 TAGATTTGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 2 0.03
55 68 0.94
56 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (55 bp):
ACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAAAACTCGAACAATCTTCAGCAA
Found at i:307648 original size:37 final size:37
Alignment explanation
Indices: 307542--307650 Score: 159
Period size: 37 Copynumber: 2.9 Consensus size: 37
307532 AAAATTAGTC
* *
307542 TGCTTCACTATTC-TTCTGTGAAGGCTTATAGA-TGATT
1 TGCTTCACTACTCTTTC-GTGAAGGCTTA-AGATTGAAT
307579 TGCTTCACTACTCTTTCGTGAAGGCTTAAGATTGAAT
1 TGCTTCACTACTCTTTCGTGAAGGCTTAAGATTGAAT
*
307616 TGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGA
1 TGCTTCACTACTCTTTCGTGAAGGCTTAAGATTGA
307651 CTTGTTTCGA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 3 0.04
37 61 0.91
38 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (37 bp):
TGCTTCACTACTCTTTCGTGAAGGCTTAAGATTGAAT
Found at i:308908 original size:7 final size:7
Alignment explanation
Indices: 308887--309030 Score: 91
Period size: 7 Copynumber: 19.7 Consensus size: 7
308877 CTCCTTTTTA
308887 TTTTC-T
1 TTTTCTT
308893 TTTTC-T
1 TTTTCTT
308899 TTTTCTT
1 TTTTCTT
308906 TTTT-TT
1 TTTTCTT
308912 CTTTTC-T
1 -TTTTCTT
308919 TTTTCATT
1 TTTTC-TT
308927 TTTTCATT
1 TTTTC-TT
308935 TCTTAT-TT
1 T-TT-TCTT
*
308943 GTTTTCCCT
1 -TTTT-CTT
308952 TTTTCATT
1 TTTTC-TT
* *
308960 TTTCCCCT
1 TTT-TCTT
*
308968 TTTTCAT
1 TTTTCTT
308975 TTTTCTCT
1 TTTTCT-T
*
308983 TTTTCAT
1 TTTTCTT
308990 TTTTCTCT
1 TTTTCT-T
*
308998 TTTTCAT
1 TTTTCTT
*
309005 TTTTCTC
1 TTTTCTT
309012 TTTTCTT
1 TTTTCTT
309019 TTTTCTT
1 TTTTCTT
309026 TTTTC
1 TTTTC
309031 ATTCTTATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 27
0.74 0.09 0.18
Matches are distributed among these distances:
6 18 0.16
7 49 0.44
8 38 0.34
9 5 0.05
10 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTCTT
Found at i:308916 original size:14 final size:15
Alignment explanation
Indices: 308882--309022 Score: 69
Period size: 15 Copynumber: 9.4 Consensus size: 15
308872 GATACCTCCT
308882 TTTTATTTTCTTTTTC
1 TTTT-TTTTCTTTTTC
308898 ---TTTTTCTTTTT-
1 TTTTTTTTCTTTTTC
*
308909 TTTCTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
* *
308924 -ATTTTTTCATTTCTTA
1 TTTTTTTTC-TTT-TTC
*
308940 TTTGTTTTCCCTTTTTC
1 TTT-TTTT-TCTTTTTC
***
308957 ATTTTTCCCCTTTTTC
1 -TTTTTTTTCTTTTTC
* *
308973 ATTTTTCTCTTTTTC
1 TTTTTTTTCTTTTTC
* *
308988 ATTTTTCTCTTTTTC
1 TTTTTTTTCTTTTTC
* *
309003 ATTTTTCTC-TTTTC
1 TTTTTTTTCTTTTTC
309017 TTTTTT
1 TTTTTT
309023 CTTTTTTCAT
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
12 10 0.10
13 1 0.01
14 26 0.25
15 39 0.38
16 10 0.10
17 5 0.05
18 10 0.10
19 1 0.01
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:309002 original size:30 final size:30
Alignment explanation
Indices: 308944--309033 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 30
308934 TTCTTATTTG
* *
308944 TTTTCCCTTTTTCATTTTTCCCCTTTTTCAT
1 TTTTCTCTTTTTCATTTTT-CTCTTTTTCAT
308975 TTTTCTCTTTTTCATTTTTCTCTTTTTCAT
1 TTTTCTCTTTTTCATTTTTCTCTTTTTCAT
*
309005 TTTTCTC-TTTTCTTTTTTCT-TTTTTCAT
1 TTTTCTCTTTTTCATTTTTCTCTTTTTCAT
309033 T
1 T
309034 CTTATTCAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 9 0.16
29 12 0.21
30 17 0.30
31 18 0.32
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (30 bp):
TTTTCTCTTTTTCATTTTTCTCTTTTTCAT
Found at i:316558 original size:18 final size:18
Alignment explanation
Indices: 316535--316575 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
316525 GCCTCAAGTT
316535 GACTCACTTGTTTATTCA
1 GACTCACTTGTTTATTCA
*
316553 GACTCACTTGTTTCTTCA
1 GACTCACTTGTTTATTCA
316571 GACTC
1 GACTC
316576 TCAACCTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (18 bp):
GACTCACTTGTTTATTCA
Found at i:318620 original size:45 final size:45
Alignment explanation
Indices: 318561--318647 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
318551 ACATAAAAAC
* *
318561 CCTAACCACGTGATATCTAATTCGTATGCTTATTCGAAAAATAAA
1 CCTAACCACATGATATCTAATTCGCATGCTTATTCGAAAAATAAA
* *
318606 CCTAACCGCATGATATCTAGTTCGCATGCTTATTCGAAAAAT
1 CCTAACCACATGATATCTAATTCGCATGCTTATTCGAAAAAT
318648 GAAAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (45 bp):
CCTAACCACATGATATCTAATTCGCATGCTTATTCGAAAAATAAA
Found at i:323592 original size:3 final size:3
Alignment explanation
Indices: 323584--323613 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
323574 TTATCATGTC
323584 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
323614 TTTAAGAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:342189 original size:1 final size:1
Alignment explanation
Indices: 342183--342244 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
342173 TATTACGCCT
* * * * * * * *
342183 AAAAAAAGAAAAAAGAAAAAGAAAAAATAAAAAATAAAAAATAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
342245 GGAGAGGTTC
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (1 bp):
A
Found at i:342196 original size:7 final size:7
Alignment explanation
Indices: 342184--342245 Score: 90
Period size: 7 Copynumber: 9.0 Consensus size: 7
342174 ATTACGCCTA
342184 AAAAAAG
1 AAAAAAG
342191 AAAAAAG
1 AAAAAAG
342198 -AAAAAG
1 AAAAAAG
*
342204 AAAAAAT
1 AAAAAAG
*
342211 AAAAAAT
1 AAAAAAG
*
342218 AAAAAAT
1 AAAAAAG
342225 AAAAAAG
1 AAAAAAG
342232 AAAAAAG
1 AAAAAAG
342239 AAAAAAG
1 AAAAAAG
342246 GAGAGGTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
6 6 0.12
7 46 0.88
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:343038 original size:44 final size:44
Alignment explanation
Indices: 342973--343696 Score: 324
Period size: 44 Copynumber: 16.4 Consensus size: 44
342963 TTAAATTTTT
* * *
342973 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGATATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* * * **
343017 GTTCGATTCCATCACAGAAGGAGGTAGATCAACAT-TTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATA-TTTC
* * * * * * *
343061 GCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACT-TTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGA-TATTTC
* * ** * *
343105 GCTCGATTCTATCACAGAATGAGGTAAATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* * * ***
343149 GTTCGATTCAATCACAGAAAGAGGTGGATC-GACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGATA-TTTC
* * ** * ** *
343194 GCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATTAACT-TTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGA-TATTTC
* * * *
343238 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* * * ***
343282 GTTCGATTCAATCACAGAATGAGGTGGATC-GACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGATA-TTTC
* * * ** * * * *
343327 TCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACT-TTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGA-TATTTC
* * * *
343371 GCTCGATTCTATCACAGAATGAGAATGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAG-A--AG---GAGGTGGATCAGCATCGATATTTC
* *
343421 GTTCGATTCAATCACAGAAGGAGGTGGATC-G-A-C-AT-TTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* * ** * * * *
343460 GCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACT-TTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGA-TATTTC
* * * * * *
343504 GCTCGATTCTATCACAGAATGAGTTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* * *** *
343548 GTTCGATTCCATCACGGAAGGAGGTGGATC-GACATTTTTATTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGATA-TTTC
* * * * * * * *
343593 GCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAACT-TTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGA-TATTTC
* * * * * *
343637 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
* *
343681 GTTCAATTCCATCACA
1 GCTCGATTCCATCACA
343697 TACGGAGTTG
Statistics
Matches: 486, Mismatches: 163, Indels: 62
0.68 0.23 0.09
Matches are distributed among these distances:
39 26 0.05
40 2 0.00
41 1 0.00
42 2 0.00
43 7 0.01
44 322 0.66
45 84 0.17
46 6 0.01
47 4 0.01
49 1 0.00
50 31 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGATATTTC
Found at i:343255 original size:133 final size:133
Alignment explanation
Indices: 342968--343696 Score: 1130
Period size: 133 Copynumber: 5.5 Consensus size: 133
342958 CTTGTTTAAA
* * *
342968 TTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGATATCTCGTTCGATTCCATCACA
1 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
* * *
343033 GAAGGAGGTAGATCAACA-TTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTC
66 GAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
343097 AAC
131 AAC
* *
343100 TTTTAGCTCGATTCTATCACAGAATGAGGTAAATCAGCATCGACATCTCGTTCGATTCAATCACA
1 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
* * *
343165 GAAAGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATT
66 GAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
343230 AAC
131 AAC
343233 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
1 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
* *
343298 GAATGAGGTGGATCGACATTTTTATTTTCTCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
66 GAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
343363 AAC
131 AAC
343366 TTTTAGCTCGATTCTATCACAGAATGAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCA
1 TTTTAGCTCGATTCTATCACAG-A--AG---GAGGTAGATCAGCATCGACATCTCGTTCGATTCA
343431 ATCACAGAAGGAGGTGGATCGAC------ATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
60 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATC
343490 AGCGTCAAC
125 AGCGTCAAC
* * * *
343499 TTTTAGCTCGATTCTATCACAGAATGAGTTAGATCAGCATCGACATCTCGTTCGATTCCATCACG
1 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
* * *
343564 GAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTC
66 GAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
343629 AAC
131 AAC
* * * * *
343632 TTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCAATTCCATCACA
1 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
343697 TACGGAGTTG
Statistics
Matches: 551, Mismatches: 33, Indels: 25
0.90 0.05 0.04
Matches are distributed among these distances:
127 54 0.10
130 1 0.00
132 76 0.14
133 361 0.66
134 1 0.00
136 2 0.00
139 56 0.10
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (133 bp):
TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCAATCACA
GAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTC
AAC
Found at i:352705 original size:8 final size:8
Alignment explanation
Indices: 352692--352732 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
352682 CTCATTTTCA
352692 GAGAATTT
1 GAGAATTT
352700 GAGAATTT
1 GAGAATTT
*
352708 -AGAGTTT
1 GAGAATTT
*
352715 GGGAATTT
1 GAGAATTT
352723 GAGAATTT
1 GAGAATTT
352731 GA
1 GA
352733 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:354505 original size:33 final size:34
Alignment explanation
Indices: 354437--354511 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
354427 TTATTTTAAT
* *
354437 AAAAAAATAATATTTACATAAATATATTAATATA
1 AAAAAAATAATATTTACATAAATATACTAACATA
354471 AAAAATAATAACTATTTA-A-AAA-ATACTAACATA
1 AAAAA-AATAA-TATTTACATAAATATACTAACATA
*
354504 AAATAAAT
1 AAAAAAAT
354512 TTCTTACCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.08
33 13 0.36
34 8 0.22
35 6 0.17
36 6 0.17
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (34 bp):
AAAAAAATAATATTTACATAAATATACTAACATA
Found at i:355097 original size:23 final size:23
Alignment explanation
Indices: 355071--355118 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
355061 ATAAAGTACA
*
355071 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
355094 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
355117 AT
1 AT
355119 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:355571 original size:23 final size:23
Alignment explanation
Indices: 355545--355607 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
355535 ATATAACCAC
355545 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
355568 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
355591 TACCTATTACATCATAT
1 TACCTATTACATTATAT
355608 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:355997 original size:23 final size:23
Alignment explanation
Indices: 355971--356033 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
355961 ATATAACCAC
355971 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
355994 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
356017 TACCTATTACATCATAT
1 TACCTATTACATTATAT
356034 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:356424 original size:23 final size:23
Alignment explanation
Indices: 356398--356460 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
356388 ATATAACCAC
356398 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
356421 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
356444 TACCTATTACATCATAT
1 TACCTATTACATTATAT
356461 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:356859 original size:23 final size:23
Alignment explanation
Indices: 356833--356891 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
356823 AACCACTACC
356833 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
356856 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
356879 TATTACATCATAT
1 TATTACATTATAT
356892 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:357276 original size:23 final size:23
Alignment explanation
Indices: 357250--357312 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
357240 ATATAACCAC
357250 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
357273 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
357296 TACCTATTACATCATAT
1 TACCTATTACATTATAT
357313 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:357364 original size:852 final size:859
Alignment explanation
Indices: 355185--358295 Score: 5813
Period size: 852 Copynumber: 3.6 Consensus size: 859
355175 TATTACATTA
355185 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA-
*
355250 TTATGTTTCAATTTTTTTTAAAAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
65 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
355315 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
355380 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATC
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
355445 TTAAAACTCACTCAAAAGATAATCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
355510 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
355575 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
**
355640 TTTATAAAAATAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGT
455 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
355704 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
520 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
355769 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATATCGTAACGT-AA
585 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
355831 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
650 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
*
355896 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAAACACTTTACA
715 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
*
355961 ATATAACCACTACCTATTACATTATATAAACGATACCTATTATATTATATAAGCGCTACCTATTA
780 ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
356026 CATCATATTTTTACC
845 CATCATATTTTTACC
356041 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA-
356106 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTC
65 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
356170 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
356234 ATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
356298 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
356363 TTATAAAAAGGATAGACACTTTACGATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
356428 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
356493 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
455 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
356558 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
520 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
356623 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATACATAATATATATCGTAACGTAA
585 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA-ATAATATATATCGTAACGTAA
356688 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
649 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
*
356753 TTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTAC
714 TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTAC
* *
356818 GATATAACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATT
779 AATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
356883 ACATCATATTTTTACC
844 ACATCATATTTTTACC
356899 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT-A-
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
356962 TATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC-ATATTAATTTAATAATTTCA
66 TATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
357026 TTTGCAC-AAAAATTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
357089 TAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
196 TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
* *
357151 TAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGAATGGACACTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
* *
357216 TATAAAAAGGATATATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
357281 ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
357346 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
456 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
* * *
357411 TTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTAATTGT
521 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT-A
357476 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
585 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
*
357541 AAATAAATCATTAGACGCATAT-ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
650 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
357605 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
715 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
357670 ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
780 ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
357735 CATCATATTTTTACC
845 CATCATATTTTTACC
*
357750 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA-
357815 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
65 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
357880 ATTTGCACAAAAAATTATTTTATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
357945 ATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
358010 TTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
358075 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
358140 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
358205 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
455 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
*
358270 GTTTCATGTTTTCCATCTACAATATT
520 GTTTCATGTTTTCCACCTACAATATT
358296 TGATTTTTTG
Statistics
Matches: 2206, Mismatches: 33, Indels: 28
0.97 0.01 0.01
Matches are distributed among these distances:
851 245 0.11
852 417 0.19
853 326 0.15
854 280 0.13
855 141 0.06
856 145 0.07
857 46 0.02
858 270 0.12
859 13 0.01
860 323 0.15
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (859 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTAT
TTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAA
AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
AAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAA
TATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTAC
ATCATATTTTTACC
Found at i:357690 original size:430 final size:430
Alignment explanation
Indices: 355185--358295 Score: 5833
Period size: 430 Copynumber: 7.3 Consensus size: 430
355175 TATTACATTA
355185 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
355250 TTATGTTTCAATTTTTTTTAAAAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
355315 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
355380 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
355445 TTAAAACTCACTCAAAAGATAATCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
355510 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
355575 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
**
355615 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATAATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
355680 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
355744 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
355809 ATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
355871 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
355936 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
356001 TATATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
356041 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
356106 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
356170 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
356234 ATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
356298 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
356363 TTATAAAAAGGATAGACACTTTACGATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
356428 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
356468 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
356533 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
356598 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
356663 ATACATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 ATA-ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
356728 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* *
356793 TTTATAAAAAGGATAGACACTTTACGATATAACCACTACCTATTACATTATATAAACGATACATA
325 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
356858 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
356899 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT-A-
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
356962 -TATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC-ATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
357025 ATTTGCAC-AAAAATTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
357088 ATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
357150 TTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGAATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
357215 TTATAAAAAGGATATATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
357280 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
357320 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
357385 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
357450 ATTTGCACAAAAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
357515 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCATAT-ATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
357579 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
357644 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
325 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
357709 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
357750 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
357815 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
357880 ATTTGCACAAAAAATTATTTTATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
357945 ATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
358010 TTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
358075 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
358140 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
358180 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
358245 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCATCTACAATATT
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT
358296 TGATTTTTTG
Statistics
Matches: 2625, Mismatches: 38, Indels: 36
0.97 0.01 0.01
Matches are distributed among these distances:
421 267 0.10
422 15 0.01
423 1 0.00
424 45 0.02
425 87 0.03
426 376 0.14
427 436 0.17
428 125 0.05
429 238 0.09
430 740 0.28
431 295 0.11
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:357706 original size:23 final size:23
Alignment explanation
Indices: 357680--357742 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
357670 ATATAACCAC
357680 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
357703 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
357726 TACCTATTACATCATAT
1 TACCTATTACATTATAT
357743 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:358140 original size:23 final size:23
Alignment explanation
Indices: 358114--358172 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
358104 AACCACTACC
358114 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
358137 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
358160 TATTACATCATAT
1 TATTACATTATAT
358173 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:358571 original size:39 final size:39
Alignment explanation
Indices: 358517--358602 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
358507 CAAGTTGTAG
* *
358517 ATTTTGATTTCCTTTTGCTTGGCATCATATGATATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
358556 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
358595 ATTTTGAT
1 ATTTTGAT
358603 GAGCATCTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:359352 original size:23 final size:23
Alignment explanation
Indices: 359326--359388 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
359316 ATATAACCAC
359326 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
359349 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
359372 TACCTATTACATCATAT
1 TACCTATTACATTATAT
359389 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:359790 original size:25 final size:25
Alignment explanation
Indices: 359733--359798 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
359723 AACTCAAAAG
*
359733 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*** *
359758 ACAAACATACATAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
359783 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
359799 TTAATGATAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:360833 original size:21 final size:23
Alignment explanation
Indices: 360809--360854 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
360799 ATTGTTGGTG
360809 TCAATCA-T-CACCATAACACAA
1 TCAATCATTCCACCATAACACAA
360830 TCAATCATTGCCACCATAACACAA
1 TCAATCATT-CCACCATAACACAA
360854 T
1 T
360855 TGTGTTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
24 14 0.64
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (23 bp):
TCAATCATTCCACCATAACACAA
Found at i:362664 original size:183 final size:181
Alignment explanation
Indices: 362264--362746 Score: 780
Period size: 179 Copynumber: 2.7 Consensus size: 181
362254 TTAAAATTAC
*
362264 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
1 ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
* * *
362329 TATAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT--AATCGGTATATTTATACCGGTTATA
66 TAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATA
362392 TTACAAAATTATCTATTACATTATAATATGGGTTCCGATGTGTAAATGTCG
131 TTACAAAATTATCTATTACATTATAATATGGGTTCCGATGTGTAAATGTCG
* *
362443 ATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATAT
1 ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
* *
362508 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGAGCATAAAACCGGTATATTTTTACCGGTTAT
66 T-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
*
362573 ATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCG
130 ATTACAAAATTATCTATTACATTATAA-TATGGGTTCCGATGTGTAAATGTCG
* * * *
362626 ACACTTTTTAACAAT-GTATCGACACATTTTTTTTCCAATCTGGACATAAAGTATCGACACAAGA
1 ACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
362690 TTAAAAGTGTCG--ATA-GTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
362747 ATAGCATTGC
Statistics
Matches: 282, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
179 103 0.37
180 37 0.13
182 58 0.21
183 81 0.29
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (181 bp):
ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
TAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATA
TTACAAAATTATCTATTACATTATAATATGGGTTCCGATGTGTAAATGTCG
Found at i:362828 original size:21 final size:22
Alignment explanation
Indices: 362785--362828 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
362775 TAATATGTTG
*
362785 AAAGTATCCATACTTTTTATAA
1 AAAGGATCCATACTTTTTATAA
*
362807 AAAGGATCGATACTTTTT-TAA
1 AAAGGATCCATACTTTTTATAA
362828 A
1 A
362829 GATATGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
AAAGGATCCATACTTTTTATAA
Found at i:366565 original size:200 final size:200
Alignment explanation
Indices: 365452--366996 Score: 2576
Period size: 200 Copynumber: 7.9 Consensus size: 200
365442 TTTAAATTAG
365452 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
365517 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
365582 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
365647 AAAAA
196 AAAAA
365652 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
365717 CTTGTACCGGTTAGATTGAAAAAGTACATATTACATTATAGTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
365781 TCGACAC-TTTTATATATGGATCGACACTTTATGGGTG-ACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
365844 AAAAA
196 AAAAA
365849 TATCGACACAAACT-AATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
365913 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
365978 TCGATAC-TTTTATATATGGATCGACAC-TTATGGGTGCA-CCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
366040 AAAAA
196 AAAAA
366045 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
366110 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * *
366175 TCGACACTTTTTATATATGGATCGACACTTTATTGGTGTACCATGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
366240 -AAAA
196 AAAAA
366244 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGA-ATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
366308 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
366372 TCGACACTTTTTATATATGGATCGACACTTTATGGGGTGCACCCTGTTTTCCATTCATTCTGGAA
131 TCGACACTTTTTATATATGGATCGACACTTTAT-GGGTGCACCCTGTTTTCCATTCATTCTGGAA
366437 CAAAAA
195 CAAAAA
*
366443 TATCTACACAAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTAA
1 TATCGACAC-AAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
366507 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
366572 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
366637 CAAAAA
195 CAAAAA
*
366643 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGCAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
366708 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * * *
366773 TCGACAC----T-T-TATGGGT-GCACCCTGTT-T---T----CC---ATT-CATTC--T-GGAA
131 TCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
366816 CA-AAAATA
194 -ACAAAA-A
* *
366824 TCGA-C-ACA-AAC-TAAATTAGTGTCGACACATTATTTAGACAAATTCTCTCATAAAACCGGTA
1 T--ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
366885 AACTTGTACCGGTTAGATTGAAAAATTAC--ATTACATTATACTTTTGGTTTTCTATGTTTTTGG
64 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
* *
366948 GATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
366997 GGCCATATTG
Statistics
Matches: 1281, Mismatches: 28, Indels: 79
0.92 0.02 0.06
Matches are distributed among these distances:
177 41 0.03
179 77 0.06
180 8 0.01
181 8 0.01
182 4 0.00
183 17 0.01
184 3 0.00
186 1 0.00
187 2 0.00
190 2 0.00
191 1 0.00
193 1 0.00
194 11 0.01
195 3 0.00
196 157 0.12
197 242 0.19
198 159 0.12
199 124 0.10
200 367 0.29
201 53 0.04
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
AAAAA
Found at i:366891 original size:179 final size:177
Alignment explanation
Indices: 366591--366959 Score: 684
Period size: 179 Copynumber: 2.1 Consensus size: 177
366581 TTTTATATAT
366591 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
*
366656 TAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGCAAACTTGTACCGGTTA
66 TAAATTAGTGTCGACACATTATTTAGACAAATTCTCTCATAAAACCGGCAAACTTGTACCGGTTA
366721 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
131 GATTGAAAAATTAC--ATTACATTATACTTTTGGTTTTCGATGTTTTTG
366770 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
*
366835 TAAATTAGTGTCGACACATTATTTAGACAAATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
66 TAAATTAGTGTCGACACATTATTTAGACAAATTCTCTCATAAAACCGGCAAACTTGTACCGGTTA
*
366900 GATTGAAAAATTACATTACATTATACTTTTGGTTTTCTATGTTTTTG
131 GATTGAAAAATTACATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
366947 GGATTGACACTTT
1 GGATCGACACTTT
366960 TTATATATGG
Statistics
Matches: 186, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
177 44 0.24
179 142 0.76
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (177 bp):
GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
TAAATTAGTGTCGACACATTATTTAGACAAATTCTCTCATAAAACCGGCAAACTTGTACCGGTTA
GATTGAAAAATTACATTACATTATACTTTTGGTTTTCGATGTTTTTG
Found at i:367141 original size:18 final size:17
Alignment explanation
Indices: 367115--367160 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 17
367105 TTATATTCAC
367115 ATACAAAAATATAAATCGT
1 ATAC-AAAATATAAATC-T
367134 ATACAAAATTATAAATCT
1 ATACAAAA-TATAAATCT
367152 ATACAAAAT
1 ATACAAAAT
367161 TAACCCTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 12 0.46
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (17 bp):
ATACAAAATATAAATCT
Found at i:367161 original size:18 final size:19
Alignment explanation
Indices: 367115--367162 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
367105 TTATATTCAC
*
367115 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
367134 ATACAAAATTATAAATC-T
1 ATACAAAATTATAAATCGT
367152 ATACAAAATTA
1 ATACAAAATTA
367163 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:368982 original size:33 final size:32
Alignment explanation
Indices: 368928--368992 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
368918 CATCTTAATA
368928 TCACCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCTTAACACCCCAACTTCTTTCACCACT
* *
368960 TCACCCTTCAACACCTCTACTTCTTTCACCACT
1 TCACCCTT-AACACCCCAACTTCTTTCACCACT
368993 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (32 bp):
TCACCCTTAACACCCCAACTTCTTTCACCACT
Found at i:369050 original size:21 final size:21
Alignment explanation
Indices: 369025--369068 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
369015 CCCCTTATGC
369025 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
369046 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
369067 CT
1 CT
369069 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:371285 original size:17 final size:18
Alignment explanation
Indices: 371263--371305 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
371253 ATATATCCGG
371263 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
371280 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
371300 TATCAT
1 TATCAT
371306 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:371493 original size:19 final size:18
Alignment explanation
Indices: 371449--371508 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 18
371439 TCCGGTAACG
*
371449 TTTTACCGGTTTTATCATT
1 TTTTACCGG-TTTATCGTT
371468 TTGTTACCGGTTTATCGTAT
1 TT-TTACCGGTTTATCGT-T
*
371488 TTTTACCTGGTATATCGTT
1 TTTTACC-GGTTTATCGTT
371507 TT
1 TT
371509 AATATTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (18 bp):
TTTTACCGGTTTATCGTT
Found at i:372868 original size:19 final size:19
Alignment explanation
Indices: 372840--372884 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
372830 AAAAGTAGTC
372840 AATATCACAGTTTACTATA
1 AATATCACAGTTTACTATA
*
372859 AATATTACAGTTTACTATA
1 AATATCACAGTTTACTATA
*
372878 AAAATCA
1 AATATCA
372885 AGGACATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (19 bp):
AATATCACAGTTTACTATA
Found at i:373145 original size:36 final size:38
Alignment explanation
Indices: 373104--373187 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 38
373094 ATAAAAATTT
* *
373104 AAAATTTTAAATGATTCAACATA-TAAATTAA-TTATA
1 AAAATTTAAAAAGATTCAACATATTAAATTAATTTATA
* *
373140 AAAATTTAAAAAGATTTAACATATTAATTTAATTTATA
1 AAAATTTAAAAAGATTCAACATATTAAATTAATTTATA
373178 AAAATTTAAA
1 AAAATTTAAA
373188 GGTAAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 20 0.48
37 7 0.17
38 15 0.36
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
AAAATTTAAAAAGATTCAACATATTAAATTAATTTATA
Found at i:375007 original size:3 final size:3
Alignment explanation
Indices: 374999--375031 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
374989 TTCAATAACT
*
374999 TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
375032 CTTTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:376241 original size:229 final size:227
Alignment explanation
Indices: 375836--376284 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
375826 GTAAATTATC
* * *
375836 TATCTTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
375901 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
375966 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
376030 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
376064 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
376129 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
376193 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
376258 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
376285 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:376372 original size:20 final size:19
Alignment explanation
Indices: 376349--376394 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
376339 CGATATACCA
376349 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
376369 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
376389 GGTAAA
1 GGTAAA
376395 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:376539 original size:20 final size:20
Alignment explanation
Indices: 376516--376562 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
376506 CGATATAACA
376516 GGTAAAAATATGAT-AAAACC
1 GGTAAAAA-ATGATAAAAACC
** *
376536 GGTATCAAATGATAAAAACG
1 GGTAAAAAATGATAAAAACC
376556 GGTAAAA
1 GGTAAAA
376563 TGATACCGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (20 bp):
GGTAAAAAATGATAAAAACC
Found at i:378894 original size:33 final size:33
Alignment explanation
Indices: 378852--378917 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
378842 AAATAGATGG
*
378852 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
378885 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
378918 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:380749 original size:19 final size:19
Alignment explanation
Indices: 380705--380748 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
380695 AATGTCGAGT
380705 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
380724 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
380743 T-ATTTT
1 TAATTTT
380749 TTATGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:381200 original size:199 final size:199
Alignment explanation
Indices: 380830--381987 Score: 2096
Period size: 198 Copynumber: 5.8 Consensus size: 199
380820 TTAAGGGTCA
*
380830 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* **
380895 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAACTGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
380960 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
381025 TAATG
195 TAATG
*
381030 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
381095 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
381160 TAATCTGTAAGTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
381225 AATG
196 AATG
381229 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
381294 -ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
381358 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGG-TTTATGAGAGAATATGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
381422 TAATG
195 TAATG
*
381427 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
381492 CATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
381556 TAATATGTAATTTTTTAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
381621 AATG
196 AATG
381625 TGTCGACACTAATATAGTTTGTGTCG--A-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
381687 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
381752 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
381817 AATG
196 AATG
* *
381821 TGTCGACACTAATATAGTTTGTTTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
381885 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
381950 TAATATGTAATTTTTCAATCTAACCGGTACAATTATAC
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATAC
381988 ACATCTTGGG
Statistics
Matches: 931, Mismatches: 21, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
195 54 0.06
196 137 0.15
197 83 0.09
198 302 0.32
199 271 0.29
200 84 0.09
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
AATG
Found at i:382974 original size:18 final size:18
Alignment explanation
Indices: 382953--383020 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
382943 AGCGGTCGCA
382953 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
382971 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
382992 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
383013 GAAGATGA
1 GAAGATGA
383021 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:382977 original size:6 final size:6
Alignment explanation
Indices: 382953--383050 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
382943 AGCGGTCGCA
* * * * * *
382953 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
383001 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
383049 GA
1 GA
383051 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:382988 original size:3 final size:3
Alignment explanation
Indices: 382968--383054 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
382958 TGAAGCTGAC
* * * * * ** *
382968 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
383016 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
383055 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:383003 original size:42 final size:42
Alignment explanation
Indices: 382956--383046 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
382946 GGTCGCAGAA
*
382956 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
382998 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
383040 GATGAAG
1 GATGAAG
383047 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:383054 original size:18 final size:18
Alignment explanation
Indices: 382953--383050 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
382943 AGCGGTCGCA
* *
382953 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
382971 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
382989 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
383007 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
383025 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
383043 GAAGATGA
1 GAAGATGA
383051 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:385010 original size:184 final size:184
Alignment explanation
Indices: 384519--385188 Score: 1254
Period size: 184 Copynumber: 3.7 Consensus size: 184
384509 CTTTCAACAT
** *
384519 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTC-TATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
384583 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
384648 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCAT-
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
384701 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
384766 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
384831 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
384885 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
384950 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
385015 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
385069 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
385134 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
385189 CCATTTAAAA
Statistics
Matches: 475, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
182 49 0.10
183 128 0.27
184 298 0.63
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:387774 original size:23 final size:23
Alignment explanation
Indices: 387743--387806 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
387733 ATAGGTAAAC
*
387743 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
387766 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
387789 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
387807 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:387813 original size:23 final size:23
Alignment explanation
Indices: 387743--387815 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
387733 ATAGGTAAAC
* **
387743 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
387766 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
387789 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
387812 ATAT
1 ATAT
387816 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:388205 original size:23 final size:23
Alignment explanation
Indices: 388174--388237 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
388164 ATAGGTAAAC
*
388174 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
388197 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
388220 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
388238 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:388244 original size:23 final size:23
Alignment explanation
Indices: 388174--388246 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
388164 ATAGGTAAAC
* **
388174 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
388197 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
388220 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
388243 ATAT
1 ATAT
388247 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:388447 original size:431 final size:431
Alignment explanation
Indices: 387644--388667 Score: 2003
Period size: 431 Copynumber: 2.4 Consensus size: 431
387634 AATTCGCAGT
387644 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
387709 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
387774 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
387839 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
387904 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
387969 ATTAAATTAAAAATTCTAAATAATATTGAAAAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTGAAAAAAATATAAAAACAATCAAATAATTTTTTGTGCA
388034 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388075 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
388140 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
388205 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
388270 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
388335 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
** *
388400 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTGAAAAAAATATAAAAACAATCAAATAATTTTTTGTGCA
388465 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388506 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
388571 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
388636 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
388668 TCTATCTCGC
Statistics
Matches: 588, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
431 588 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTGAAAAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:388668 original size:23 final size:23
Alignment explanation
Indices: 388605--388669 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
388595 ATAGGTAAAC
* *
388605 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
388628 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
388651 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
388670 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:388894 original size:18 final size:18
Alignment explanation
Indices: 388873--388909 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
388863 GTAATTGGAG
388873 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
388891 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
388909 T
1 T
388910 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:388917 original size:24 final size:24
Alignment explanation
Indices: 388865--388911 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
388855 TTTCATATGT
* *
388865 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
388889 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
388912 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:394262 original size:13 final size:13
Alignment explanation
Indices: 394244--394273 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
394234 GGGTATAATG
394244 CGAAAACCCGACT
1 CGAAAACCCGACT
*
394257 CGAAAACTCGACT
1 CGAAAACCCGACT
394270 CGAA
1 CGAA
394274 TTGCCCCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.33, G:0.17, T:0.10
Consensus pattern (13 bp):
CGAAAACCCGACT
Found at i:395812 original size:91 final size:90
Alignment explanation
Indices: 395701--396060 Score: 506
Period size: 91 Copynumber: 4.0 Consensus size: 90
395691 AATCACCCAA
* * * *
395701 GTTGAACAAGTTCTTATCATTATGAACTTATTCTCCCTCATTGGATGGGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAA
* * *
395766 CTCACCGCTGGAAATGTTGATGCAAG
66 CTCACCACTGGAAATCTTGA-ACAAG
* * *
395792 GTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTCTTTTGGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTC-ATTGGATGAGTTCTTCTCATTATGA
*
395857 ACTCTCCACTGGAAATCTTGAACTAAG
65 ACTCACCACTGGAAATCTTGAAC-AAG
* * **
395884 GTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAA
*
395949 CTCCCCACTGGAAATCTTGAACCAAG
66 CTCACCACTGGAAATCTTGAA-CAAG
395975 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCT-AGTTGGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCA-TTGGATGAGTTCTTCTCATTATGA
* *
396039 ACTCTCCACTAGAAATCTTGAA
65 ACTCACCACTGGAAATCTTGAA
396061 TGGTTTATCT
Statistics
Matches: 242, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
91 163 0.67
92 79 0.33
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (90 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAA
CTCACCACTGGAAATCTTGAACAAG
Found at i:405169 original size:14 final size:15
Alignment explanation
Indices: 405150--405179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
405140 CCGTGGGTAG
405150 CGGGTA-TGAACTGT
1 CGGGTACTGAACTGT
405164 CGGGTACTGAACTGT
1 CGGGTACTGAACTGT
405179 C
1 C
405180 TGAGTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (15 bp):
CGGGTACTGAACTGT
Found at i:408162 original size:18 final size:17
Alignment explanation
Indices: 408126--408188 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 17
408116 ATTACAAAAT
* *
408126 AAATTAAATAAATACTA
1 AAATTAAAAAAATAATA
408143 AAATTAAACAAAATAATAA
1 AAATTAAA-AAAATAAT-A
* *
408162 AAATTACAAATAATAAAGA
1 AAATTA-AAAAAAT-AATA
408181 AAATTAAA
1 AAATTAAA
408189 GTACAAAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 8 0.21
18 8 0.21
19 18 0.47
20 4 0.11
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATTAAAAAAATAATA
Found at i:409379 original size:21 final size:20
Alignment explanation
Indices: 409351--409391 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
409341 ATGTGTTTAG
409351 TTGTAAAATAAAAAAAATAT
1 TTGTAAAATAAAAAAAATAT
**
409371 TTGTGAAAATATGAAAAATAT
1 TTGT-AAAATAAAAAAAATAT
409392 AAAAAGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGTAAAATAAAAAAAATAT
Found at i:423892 original size:21 final size:22
Alignment explanation
Indices: 423866--423919 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
423856 AAATATAATT
423866 TAATATAATAAT-ATTTATTTA-
1 TAATATAATAATGATTTA-TTAC
*
423887 TAATATAA-ATTGATTTATTAC
1 TAATATAATAATGATTTATTAC
423908 TAACTATAATAA
1 TAA-TATAATAA
423920 AAATTTGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 5 0.19
23 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (22 bp):
TAATATAATAATGATTTATTAC
Found at i:428593 original size:8 final size:8
Alignment explanation
Indices: 428580--428615 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
428570 TATTTCTTTC
428580 TTTTATTT
1 TTTTATTT
428588 TTTTATTT
1 TTTTATTT
428596 TTTTATTT
1 TTTTATTT
428604 TTTTATTT
1 TTTTATTT
428612 TTTT
1 TTTT
428616 TTCTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:439629 original size:48 final size:48
Alignment explanation
Indices: 439577--439681 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
439567 AAATATTTTA
* *
439577 TCTGATTTCCGA-CTTGAATTATGTTCTGATA-CATTACCTAAATTCTGT
1 TCTGATTTCCGATCTAG-ATTATGTTCTGATATC-TGACCTAAATTCTGT
* * * *
439625 TCTGATTTCTGATCTAGATTCTGTTCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTAGATTATGTTCTGATATCTGACCTAAATTCTGT
*
439673 TTTGATTTC
1 TCTGATTTC
439682 TGATATCTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 44 0.92
49 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTAGATTATGTTCTGATATCTGACCTAAATTCTGT
Found at i:439645 original size:24 final size:24
Alignment explanation
Indices: 439617--439685 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
439607 ACATTACCTA
439617 AATTCTGTTCTGATTTCTGATCT-
1 AATTCTGTTCTGATTTCTGATCTG
*
439640 AGATTCTGTTCTGATATCTGATCTG
1 A-ATTCTGTTCTGATTTCTGATCTG
*
439665 AATTCTGTTTTGATTTCTGAT
1 AATTCTGTTCTGATTTCTGAT
439686 ATCTCTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (24 bp):
AATTCTGTTCTGATTTCTGATCTG
Found at i:439646 original size:12 final size:11
Alignment explanation
Indices: 439618--439685 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 11
439608 CATTACCTAA
*
439618 ATTCTGTTCTG
1 ATTCTGATCTG
439629 ATTTCTGATCTAG
1 A-TTCTGATCT-G
*
439642 ATTCTGTTCTG
1 ATTCTGATCTG
439653 ATATCTGATCTG
1 AT-TCTGATCTG
* *
439665 AATTCTGTTTTG
1 -ATTCTGATCTG
439677 ATTTCTGAT
1 A-TTCTGAT
439686 ATCTCTGTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.11
12 37 0.80
13 4 0.09
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (11 bp):
ATTCTGATCTG
Found at i:439852 original size:2 final size:2
Alignment explanation
Indices: 439845--439873 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
439835 GATGGAGGTG
439845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
439874 TATTAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:442827 original size:16 final size:16
Alignment explanation
Indices: 442806--442845 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
442796 CTTAATTAAA
442806 AAAATAAAAA-AAAAGT
1 AAAATAAAAACAAAA-T
*
442822 AAAATAAAAACAACAT
1 AAAATAAAAACAAAAT
442838 AAAATAAA
1 AAAATAAA
442846 CATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAATAAAAACAAAAT
Found at i:442839 original size:11 final size:11
Alignment explanation
Indices: 442806--442854 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
442796 CTTAATTAAA
*
442806 AAAATAAA-AA
1 AAAATAAACAT
442816 AAAAGTAAA-AT
1 AAAA-TAAACAT
442827 AAAA-ACAACAT
1 AAAATA-AACAT
442838 AAAATAAACAT
1 AAAATAAACAT
442849 AAAATA
1 AAAATA
442855 TGAAAACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 1 0.03
10 6 0.18
11 26 0.76
12 1 0.03
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAATAAACAT
Found at i:444156 original size:15 final size:15
Alignment explanation
Indices: 444110--444159 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
444100 TTAATTAAAA
444110 AAAT-AAAACAA-AT
1 AAATAAAAACAACAT
444123 -AATAAAAA-AACAGT
1 AAATAAAAACAACA-T
444137 AAAATAAAAACAACAT
1 -AAATAAAAACAACAT
444153 AAATAAA
1 AAATAAA
444160 CATAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 1 0.03
15 7 0.23
16 9 0.29
17 4 0.13
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (15 bp):
AAATAAAAACAACAT
Found at i:445724 original size:41 final size:41
Alignment explanation
Indices: 445438--445859 Score: 236
Period size: 41 Copynumber: 10.1 Consensus size: 41
445428 TAACATTAAC
* * * *
445438 GGCGTTTTTCA-ACAAACGCTGTTAAAA-CTCGAACTTTAGT
1 GGCGTTTTT-AGACAAACGCCGCTAAAACCTAGTACTTTAGT
* * *
445478 GGCATTTATTTGACAAACGCTGCTAAAGA--TAAGTACTTTAGT
1 GGCGTTT-TTAGACAAACGCCGCTAAA-ACCT-AGTACTTTAGT
* * * * * *
445520 GGTGTTTGTAAACAAACGCCGTCATAGAATC-A-TTCTTTAGT
1 GGCGTTTTTAGACAAACGCCG-C-TAAAACCTAGTACTTTAGT
* * ** *
445561 GGCGTTTTTAAACAAACGCCGC-AATA--GGGTACATTTATAGC
1 GGCGTTTTTAGACAAACGCCGCTAAAACCTAGTAC--TT-TAGT
* *
445602 GGCGTTTTTAGAAGAAAAAATGCCGCTAAAACCTAGTACTTTAGT
1 GGCGTTTTT---AG-ACAAACGCCGCTAAAACCTAGTACTTTAGT
* * * * * *
445647 GGCATTTTAAGCAAAAACGCTGCTAAATA-CTCGTACTTTATT
1 GGCGTTTTTAG-ACAAACGCCGCTAAA-ACCTAGTACTTTAGT
*
445689 AGCGTTTTTAGACAAACGCCGCTAAAACCTAGTACTTTAGT
1 GGCGTTTTTAGACAAACGCCGCTAAAACCTAGTACTTTAGT
** ** * *
445730 GGTTTTTTTTTACAAACGTCGCTAAATA-CTCGTACTTTAGT
1 GGCGTTTTTAGACAAACGCCGCTAAA-ACCTAGTACTTTAGT
*
445771 GGCGTTTTTAGATAAACGCCGCTAAAACCTAGTACTTTAGT
1 GGCGTTTTTAGACAAACGCCGCTAAAACCTAGTACTTTAGT
* ** * * * * *
445812 GGTGTTTTTTTTATAAACACTGCTAAAAACTTGTACTTTAGT
1 GGCG-TTTTTAGACAAACGCCGCTAAAACCTAGTACTTTAGT
445854 GGCGTT
1 GGCGTT
445860 CTAAGCAAAA
Statistics
Matches: 294, Mismatches: 63, Indels: 49
0.72 0.16 0.12
Matches are distributed among these distances:
38 4 0.01
40 11 0.04
41 159 0.54
42 87 0.30
43 4 0.01
44 1 0.00
45 19 0.06
46 5 0.02
48 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (41 bp):
GGCGTTTTTAGACAAACGCCGCTAAAACCTAGTACTTTAGT
Found at i:445776 original size:82 final size:82
Alignment explanation
Indices: 445623--445859 Score: 323
Period size: 82 Copynumber: 2.9 Consensus size: 82
445613 AAGAAAAAAT
* **** *
445623 GCCGCTAAAACCTAGTACTTTAGTGGCATTTTAAGCAAAAACGCTGCTAAATACTCGTACTTTAT
1 GCCGCTAAAACCTAGTACTTTAGTGG-TTTTTTTTTAAAAACGCTGCTAAATACTCGTACTTTAG
*
445688 TAGCGTTTTTAGACAAAC
65 TGGCGTTTTTAGACAAAC
*
445706 GCCGCTAAAACCTAGTACTTTAGTGGTTTTTTTTTACAAACG-TCGCTAAATACTCGTACTTTAG
1 GCCGCTAAAACCTAGTACTTTAGTGGTTTTTTTTTAAAAACGCT-GCTAAATACTCGTACTTTAG
*
445770 TGGCGTTTTTAGATAAAC
65 TGGCGTTTTTAGACAAAC
* * * *
445788 GCCGCTAAAACCTAGTACTTTAGTGGTGTTTTTTTTATAAACACTGCTAAAAACTTGTACTTTAG
1 GCCGCTAAAACCTAGTACTTTAGTGGT-TTTTTTTTAAAAACGCTGCTAAATACTCGTACTTTAG
445853 TGGCGTT
65 TGGCGTT
445860 CTAAGCAAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
81 1 0.01
82 72 0.52
83 64 0.46
84 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (82 bp):
GCCGCTAAAACCTAGTACTTTAGTGGTTTTTTTTTAAAAACGCTGCTAAATACTCGTACTTTAGT
GGCGTTTTTAGACAAAC
Found at i:445877 original size:42 final size:41
Alignment explanation
Indices: 445617--445889 Score: 206
Period size: 41 Copynumber: 6.6 Consensus size: 41
445607 TTTTAGAAGA
* * * * *
445617 AAAAATGCCGCTAAAACCTAGTACTTTAGTGGCATTTTAAG
1 AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
* * * *
445658 CAAAAACGCTGCTAAATACTCGTACTTTATTAGCGTTTTTAG
1 -AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
* * * ** **
445700 ACAAACGCCGCTAAAACCTAGTACTTTAGTGGTTTTTTTTT
1 AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
* * *
445741 ACAAACG-TCGCTAAATACTCGTACTTTAGTGGCGTTTTTAG
1 AAAAACGCT-GCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
* * * * **
445782 ATAAACGCCGCTAAAACCTAGTACTTTAGTGGTGTTTTTTTT
1 AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCG-TTTTTAG
* * * * *
445824 ATAAACACTGCTAAAAACTTGTACTTTAGTGGCGTTCTAAG
1 AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
* * *
445865 CAAAAACTCTGCTAAATACTCGTAC
1 -AAAAACGCTGCTAAAAACTAGTAC
445890 ATTTTTTATT
Statistics
Matches: 178, Mismatches: 49, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
41 92 0.52
42 86 0.48
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (41 bp):
AAAAACGCTGCTAAAAACTAGTACTTTAGTGGCGTTTTTAG
Found at i:450093 original size:42 final size:42
Alignment explanation
Indices: 450002--450371 Score: 400
Period size: 43 Copynumber: 8.7 Consensus size: 42
449992 AAAAAAATGT
* * * *
450002 CGCTATAGATCTAACCTTTTGCGGCGTTTGTATCCAAAAATGT
1 CGCTATAGATATGACCTTTTGCGGCGTTTGT-TCCAAAAACGC
* *
450045 CGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAATGC
1 CGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
*
450087 CGCTATAGATATGACCTTTTGTGGCGTTTGTTCCAAAAACGC
1 CGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
* ** *
450129 CGCTATAGATATGACATTTTGTAGCGTTAGTATCCAAAAACGC
1 CGCTATAGATATGACCTTTTGCGGCGTTTGT-TCCAAAAACGC
* * * * **
450172 TGTTATAGATCTGACCTTTTCCGGCGTTTGTTCTGAAAACG-
1 CGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
* **
450213 CGCTATAGATATCGACCTTTTGCTGCGTTTGTTCTTAAAACGC
1 CGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAAACGC
* * * * *
450256 CGCTATAGATCTCAACTTTTTGCAGCATTTGTTCCAAAAACGC
1 CGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAAACGC
* * *
450299 CGCTATAGATATCGACCTTTTGTGGTGTTTGTTCCAAAAACGT
1 CGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAAACGC
* * *
450342 CGCGATAGATCTTGACCTATTGCGGCGTTT
1 CGCTATAGAT-ATGACCTTTTGCGGCGTTT
450372 TTTGTTCTCA
Statistics
Matches: 277, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
41 9 0.03
42 111 0.40
43 156 0.56
44 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
CGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
Found at i:450230 original size:127 final size:127
Alignment explanation
Indices: 450002--450371 Score: 424
Period size: 127 Copynumber: 2.9 Consensus size: 127
449992 AAAAAAATGT
* * *
450002 CGCTATAGATCTAACCTTTTGCGGCGTTTGTATCCAAAAATG-TCGCTATAGATATGACCTTTTA
1 CGCTATAGATCTAACATTTTGCAGCGTTTGTATCCAAAAACGCT-GCTATAGATATGACCTTTTA
*
450066 CGGCGTTTGTTCCAAAAATGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCCAAAAACGC
65 CGGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCCAAAAACGC
* * * * * * *
450129 CGCTATAGATATGACATTTTGTAGCGTTAGTATCCAAAAACGCTGTTATAGATCTGACCTTTTCC
1 CGCTATAGATCTAACATTTTGCAGCGTTTGTATCCAAAAACGCTGCTATAGATATGACCTTTTAC
** **
450194 GGCGTTTGTTCTGAAAACG-CGCTATAGATATCGACCTTTTGCT-GCGTTTGTTCTTAAAACGC
66 GGCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTTG-TGGCGTTTGTTCCAAAAACGC
* * *
450256 CGCTATAGATCTCAACTTTTTGCAGCATTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
1 CGCTATAGATCT-AACATTTTGCAGCGTTTGTATCCAAAAACGCTGCTATAGATAT-GACCTTTT
** * * * * * *
450320 GTGGTGTTTGTTCCAAAAACGTCGCGATAGATCTTGACCTATTGCGGCGTTT
64 ACGGCGTTTGTTCCAAAAACGCCGCTATAGAT-ATGACCTTTTGTGGCGTTT
450372 TTTGTTCTCA
Statistics
Matches: 202, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
126 12 0.06
127 126 0.62
128 40 0.20
129 23 0.11
130 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (127 bp):
CGCTATAGATCTAACATTTTGCAGCGTTTGTATCCAAAAACGCTGCTATAGATATGACCTTTTAC
GGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCCAAAAACGC
Found at i:450444 original size:27 final size:27
Alignment explanation
Indices: 450414--450469 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
450404 CTGGTATGGC
* *
450414 CGACGCTTCTTATGACGTTTTTCCTAT
1 CGACACTTCTTACGACGTTTTTCCTAT
* *
450441 CGACACTTCTTGCGACGTTTTTCTTAT
1 CGACACTTCTTACGACGTTTTTCCTAT
450468 CG
1 CG
450470 CCGCAAGTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.14, C:0.27, G:0.16, T:0.43
Consensus pattern (27 bp):
CGACACTTCTTACGACGTTTTTCCTAT
Found at i:455416 original size:58 final size:58
Alignment explanation
Indices: 455326--455450 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 58
455316 GATATTCTGA
* * * *
455326 GAAATATTTCGATAAAGGTGACATTTTGGGAATGT-TTTTGAAAAAAGTGACATTATGG
1 GAAATATTTCGAAAAAGGTAACATATTGGGAAT-TATTTTGAAAAAAGTGACACTATGG
* * * *
455384 GAAATATTTTGAAAAAGGTAACATATTGGGAATTATTTTGTAAAAGGTGACACTCTGG
1 GAAATATTTCGAAAAAGGTAACATATTGGGAATTATTTTGAAAAAAGTGACACTATGG
*
455442 GAATTATTT
1 GAAATATTT
455451 AAAAAAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.02
58 56 0.98
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (58 bp):
GAAATATTTCGAAAAAGGTAACATATTGGGAATTATTTTGAAAAAAGTGACACTATGG
Found at i:455457 original size:29 final size:29
Alignment explanation
Indices: 455339--455476 Score: 118
Period size: 29 Copynumber: 4.7 Consensus size: 29
455329 ATATTTCGAT
455339 AAAGGTGACATTTTGGGAATGT-TTTTGAAA
1 AAAGGTGACATTTTGGGAAT-TATTTT-AAA
* * *
455369 AAA-GTGACATTATGGGAAATATTTTGAA
1 AAAGGTGACATTTTGGGAATTATTTTAAA
* * **
455397 AAAGGTAACATATTGGGAATTATTTTGTA
1 AAAGGTGACATTTTGGGAATTATTTTAAA
* * *
455426 AAAGGTGACACTCTGGGAATTATTTAAAAA
1 AAAGGTGACATTTTGGGAATTATTT-TAAA
* * *
455456 AAAAGTGATATTTTGAGAATT
1 AAAGGTGACATTTTGGGAATT
455477 TTCAAATGTT
Statistics
Matches: 85, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
28 6 0.07
29 59 0.69
30 20 0.24
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (29 bp):
AAAGGTGACATTTTGGGAATTATTTTAAA
Found at i:464735 original size:21 final size:21
Alignment explanation
Indices: 464709--464748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
464699 CCCCCTTTGA
*
464709 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
464730 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
464749 TGGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:470655 original size:23 final size:23
Alignment explanation
Indices: 470629--470697 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
470619 CACCACAGCT
*
470629 CATATAAATGCACCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* * *
470652 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
* * * *
470675 CGTAGCATTGCACCGTAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
470698 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:470884 original size:103 final size:103
Alignment explanation
Indices: 470713--471033 Score: 581
Period size: 103 Copynumber: 3.1 Consensus size: 103
470703 TAATGTCCAT
* * *
470713 AAGGACTACATATCATTCCTTAAGAATCATATACATAT-ACTAGAGATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAG-GATCAAGTATGTGTCTCACC
470777 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
470816 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
470881 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
470919 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
470984 GGCTTCACACATATTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
471022 AAGGACCACATA
1 AAGGACCACATA
471034 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
103 209 0.99
104 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:472641 original size:21 final size:21
Alignment explanation
Indices: 472617--472661 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
472607 CCATGTTCGT
* *
472617 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
472638 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
472659 TTG
1 TTG
472662 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.31, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:475886 original size:23 final size:24
Alignment explanation
Indices: 475852--475912 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
475842 CTCATATAAA
*
475852 TGCACCGAAGTGCCAG-ATAGAAT
1 TGCACCGTAGTGCCAGCATAGAAT
* * *
475875 TGTACCGTAGTGCC-GCGTAGCAT
1 TGCACCGTAGTGCCAGCATAGAAT
475898 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
475913 TATAATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (24 bp):
TGCACCGTAGTGCCAGCATAGAAT
Found at i:476101 original size:103 final size:103
Alignment explanation
Indices: 475935--476248 Score: 540
Period size: 103 Copynumber: 3.0 Consensus size: 103
475925 TATAAGAACT
* *
475935 ACATATCATTCCTTAAGAATCATATACATAT-ACTAGGGATCAAGTATGTGTCTCACCATACTTC
1 ACATATCATTCCTTAAGAATCATATACATATGAC-AAGGATCAAGTATGTGTCTCACCAGACTTC
*
475999 ACACATGTTCCAAAGAATACATATATGTCTCGAAGGACC
65 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
*
476038 ACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATGACAAGGATCAAGTATGTGTCTCACCAGACTTCA
476103 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
66 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
* * *
476141 ACACATCATTCCTTAAGAATCATATGCATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATGACAAGGATCAAGTATGTGTCTCACCAGACTTCA
*
476206 CACATGTTCCAAAGAATACATATATGTCCCAAAGGACC
66 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
476244 ACATA
1 ACATA
476249 GACCCTCGAA
Statistics
Matches: 201, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 200 1.00
104 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
ACATATCATTCCTTAAGAATCATATACATATGACAAGGATCAAGTATGTGTCTCACCAGACTTCA
CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
Found at i:477854 original size:21 final size:21
Alignment explanation
Indices: 477830--477874 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
477820 CCATGTTCGT
* * *
477830 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
477851 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
477872 TTG
1 TTG
477875 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:484396 original size:2 final size:2
Alignment explanation
Indices: 484389--484436 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
484379 AAAGTTTAAG
484389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
484431 AT AT AT
1 AT AT AT
484437 TTCTCTGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:489927 original size:28 final size:30
Alignment explanation
Indices: 489872--489932 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
489862 CTTATTTTTT
*
489872 ATATAATATAATAATTAAACTAATAAACTA
1 ATATAATATAATAATTAAACTAACAAACTA
*
489902 ATATAATAT-A-ACTTAAACTAACAAACTA
1 ATATAATATAATAATTAAACTAACAAACTA
489930 ATA
1 ATA
489933 ATTATACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.66
29 1 0.03
30 9 0.31
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (30 bp):
ATATAATATAATAATTAAACTAACAAACTA
Found at i:489956 original size:28 final size:27
Alignment explanation
Indices: 489875--489957 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
489865 ATTTTTTATA
*
489875 TAATAT-A-ATAATTAAACTAATAAAC
1 TAATATAATATAACTAAACTAATAAAC
*
489900 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAAC-TAAACTAATAAAC
* *
489928 TAATAATTATACTAAC-AAACTAATTAAC
1 TAAT-ATAATA-TAACTAAACTAATAAAC
489956 TA
1 TA
489958 GATTTTAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 4 0.08
28 28 0.58
29 5 0.10
30 4 0.08
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (27 bp):
TAATATAATATAACTAAACTAATAAAC
Found at i:490604 original size:29 final size:29
Alignment explanation
Indices: 490562--490681 Score: 231
Period size: 29 Copynumber: 4.1 Consensus size: 29
490552 AAATACACAC
*
490562 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
490591 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
490620 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
490649 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
490678 AGGT
1 AGGT
490682 TACTGTAGAA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:493852 original size:20 final size:20
Alignment explanation
Indices: 493827--493871 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
493817 CTACAGATGC
493827 AGTTTTGAAAGTTGGGAGAA
1 AGTTTTGAAAGTTGGGAGAA
* *
493847 AGTTTTGAAATTTTGGAGAA
1 AGTTTTGAAAGTTGGGAGAA
493867 AGTTT
1 AGTTT
493872 CAAAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (20 bp):
AGTTTTGAAAGTTGGGAGAA
Found at i:493994 original size:4 final size:4
Alignment explanation
Indices: 493985--494977 Score: 1687
Period size: 4 Copynumber: 251.8 Consensus size: 4
493975 AGTTTAAGGG
493985 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494033 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494081 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTGT TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-A TGTA TGTA TGTA
494130 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494178 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494226 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494274 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494322 TGTA TGTA TGTA TGTA TGTA TGTA TGTC TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494370 TGTAA GGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 TGT-A TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494417 T-TA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494462 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494509 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTC TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494557 TGTA TGTA TGTA TGTA TGTA TGGTA TGTA TGTA TGTA -GTA -GTA TGTA
1 TGTA TGTA TGTA TGTA TGTA T-GTA TGTA TGTA TGTA TGTA TGTA TGTA
494604 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494650 TGTA TGTA TGTA TGTA TGTA TGTA TGT- CGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494697 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA CGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * *
494745 CGTA -CTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494792 TGTA TGTA TGTA -GTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
494837 TTTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494883 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
494931 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
494978 GGGGGTTAGA
Statistics
Matches: 952, Mismatches: 18, Indels: 38
0.94 0.02 0.04
Matches are distributed among these distances:
2 8 0.01
3 25 0.03
4 909 0.95
5 10 0.01
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:495454 original size:32 final size:30
Alignment explanation
Indices: 495418--495483 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
495408 ACTTTTTAGA
495418 AAAAAATATAA-ACTAAACCCTTTGCAATTTTT
1 AAAAAATATAATA-TAAA-CCTTTG-AATTTTT
* *
495450 AAAAATTTTAATATAAACCTTTGAATTTTT
1 AAAAAATATAATATAAACCTTTGAATTTTT
495480 AAAA
1 AAAA
495484 TTTTCAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 11 0.35
31 6 0.19
32 13 0.42
33 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAAAATATAATATAAACCTTTGAATTTTT
Found at i:504630 original size:33 final size:33
Alignment explanation
Indices: 504588--504654 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
504578 TAACTTAATA
504588 AATGAATATAAATTGATATTATACAAATGACTC
1 AATGAATATAAATTGATATTATACAAATGACTC
504621 AATGAATATAAATTGATATTATACAAATGACTC
1 AATGAATATAAATTGATATTATACAAATGACTC
504654 A
1 A
504655 CGAACATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (33 bp):
AATGAATATAAATTGATATTATACAAATGACTC
Found at i:511695 original size:13 final size:13
Alignment explanation
Indices: 511641--511695 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
511631 TGCGTCATAA
* *
511641 ATTTATAACGCGT
1 ATTTATGACGCGC
*
511654 ATTTATGACACGC
1 ATTTATGACGCGC
*
511667 ATTTATGACCCGC
1 ATTTATGACGCGC
*
511680 ATTTATGACGCTC
1 ATTTATGACGCGC
511693 ATT
1 ATT
511696 GCGCGTCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:519869 original size:2 final size:2
Alignment explanation
Indices: 519862--519914 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
519852 GATATTAAGC
519862 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
519903 AT AT AT AT AT AT
1 AT AT AT AT AT AT
519915 GTGTGTGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.