Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009448.1 Hibiscus syriacus cultivar Beakdansim tig00113548_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: 757038
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 3 of 3
Found at i:569696 original size:21 final size:22
Alignment explanation
Indices: 569664--569706 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
569654 AAACAGATAC
569664 TTTGGTAGTATC-ACTCATTTG
1 TTTGGTAGTATCTACTCATTTG
*
569685 TTTGGTCA-TATCTATTCATTTG
1 TTTGGT-AGTATCTACTCATTTG
569707 GACACGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (22 bp):
TTTGGTAGTATCTACTCATTTG
Found at i:570507 original size:14 final size:14
Alignment explanation
Indices: 570490--570516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
570480 GTTTGTGTTT
570490 GTTTATGTTCATTC
1 GTTTATGTTCATTC
570504 GTTTATGTTCATT
1 GTTTATGTTCATT
570517 TACGATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTTATGTTCATTC
Found at i:570510 original size:34 final size:33
Alignment explanation
Indices: 570471--570549 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 33
570461 ATTATTTTCA
** *
570471 TTTATGTTCGTTTGTGTTTGTTTATGTTCATTCG
1 TTTATGTTCGTTTACGATTGTTTAT-TTCATTCG
* * *
570505 TTTATGTTCATTTACGATTGTTTATTTTATTTG
1 TTTATGTTCGTTTACGATTGTTTATTTCATTCG
570538 TTTATGTTCGTT
1 TTTATGTTCGTT
570550 CATTTGTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 17 0.45
34 21 0.55
ACGTcount: A:0.13, C:0.08, G:0.16, T:0.63
Consensus pattern (33 bp):
TTTATGTTCGTTTACGATTGTTTATTTCATTCG
Found at i:572157 original size:14 final size:14
Alignment explanation
Indices: 572134--572176 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
572124 TCGATAATCT
572134 ATTCATTTATATTC
1 ATTCATTTATATTC
* * *
572148 GTTTATTTATGTTC
1 ATTCATTTATATTC
*
572162 ATTCATTTATTTTC
1 ATTCATTTATATTC
572176 A
1 A
572177 GCACAATCTC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (14 bp):
ATTCATTTATATTC
Found at i:572224 original size:25 final size:25
Alignment explanation
Indices: 572195--572250 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
572185 TCCAAACTAA
*
572195 TTTAAAATATTAAGACCTAATAA-AT
1 TTTAAAATATTAA-ACCCAATAAGAT
*
572220 TTT--AATATTAAACCCATTAAGAT
1 TTTAAAATATTAAACCCAATAAGAT
572243 TTTAAAAT
1 TTTAAAAT
572251 CTAATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 7 0.27
23 13 0.50
25 6 0.23
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (25 bp):
TTTAAAATATTAAACCCAATAAGAT
Found at i:574342 original size:2 final size:2
Alignment explanation
Indices: 574335--574370 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
574325 CATGCGCCTG
574335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
574371 CATGCACGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:574415 original size:23 final size:22
Alignment explanation
Indices: 574389--574506 Score: 77
Period size: 23 Copynumber: 5.4 Consensus size: 22
574379 TGTGTGTATT
574389 TTATAATTTAAATTTAATATTTA
1 TTATAATTT-AATTTAATATTTA
* *
574412 TTATGATTTAATTT-ATTTTTA
1 TTATAATTTAATTTAATATTTA
* * * *
574433 TCAAACAATTT-AGTT-ATATCTA
1 T--TATAATTTAATTTAATATTTA
*
574455 -TATAATATAA-TTAATATATT-
1 TTATAATTTAATTTAATAT-TTA
574475 TTATAATTTAAATTTAATATTTA
1 TTATAATTT-AATTTAATATTTA
*
574498 TTATGATTT
1 TTATAATTT
574507 GATCAGTTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
19 7 0.10
20 5 0.07
21 15 0.21
22 17 0.24
23 28 0.39
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
TTATAATTTAATTTAATATTTA
Found at i:574906 original size:21 final size:21
Alignment explanation
Indices: 574880--574923 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
574870 ACCGTTACGG
*
574880 TGCTGATGTGTCAAT-TCACAA
1 TGCTGATGTGACAATCT-ACAA
574901 TGCTGATGTGACAATCTACAA
1 TGCTGATGTGACAATCTACAA
574922 TG
1 TG
574924 ATGACATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (21 bp):
TGCTGATGTGACAATCTACAA
Found at i:579256 original size:2 final size:2
Alignment explanation
Indices: 579249--579300 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
579239 GAAAAATTAA
* *
579249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
579291 AT AT GT AT AT
1 AT AT AT AT AT
579301 TACACTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:579409 original size:29 final size:30
Alignment explanation
Indices: 579374--579430 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
579364 ACCATCTATC
579374 CTATTTTCCTCACTCAACTTT-CAAATTTT
1 CTATTTTCCTCACTCAACTTTACAAATTTT
* * *
579403 CTATTTTGCTCGCTGAACTTTACAAATT
1 CTATTTTCCTCACTCAACTTTACAAATT
579431 GAATCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.46
Consensus pattern (30 bp):
CTATTTTCCTCACTCAACTTTACAAATTTT
Found at i:585019 original size:24 final size:24
Alignment explanation
Indices: 584957--585013 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
584947 TATATTTTGA
*
584957 GAACATAAACGAACGCAAATGAAT
1 GAACATAAACGAACACAAATGAAT
*
584981 GAACATACACGAACACAAATGAAT
1 GAACATAAACGAACACAAATGAAT
585005 GAACATAAA
1 GAACATAAA
585014 AAAACATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.56, C:0.18, G:0.14, T:0.12
Consensus pattern (24 bp):
GAACATAAACGAACACAAATGAAT
Found at i:590057 original size:25 final size:25
Alignment explanation
Indices: 590024--590073 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
590014 TAAAAAAATA
590024 TTACTTTTATTCAATAAGAAATAAG
1 TTACTTTTATTCAATAAGAAATAAG
590049 TTACTTTTATTCAATAAGAAATAAG
1 TTACTTTTATTCAATAAGAAATAAG
590074 GATTTAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (25 bp):
TTACTTTTATTCAATAAGAAATAAG
Found at i:604451 original size:2 final size:2
Alignment explanation
Indices: 604446--604475 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
604436 ACACACACAC
604446 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
604476 GGTCTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:605151 original size:255 final size:255
Alignment explanation
Indices: 604699--605186 Score: 888
Period size: 255 Copynumber: 1.9 Consensus size: 255
604689 AGATCGAAGG
*
604699 ATGAAGAAATCGAAGAGTCAATCGTCGATTTGGGGAGATTGAGGTGTTTCTCAGTGAAACGAATG
1 ATGAAGAAATCGAAGAGTCAATCGTCGATTTGGGGAGATTGAGGTGTTTCCCAGTGAAACGAATG
* *
604764 CCAGAATTGTATTTAAGGGGTCGAAAAGGTACGAGTTTGGAAGTTTGGGCTTCATTAACCGACAT
66 CCAGAATTGTATTTAAGGGGTCGAAAAGGTACGAGATTGGAAGTTTGGGCTTCATTAACCGACAG
604829 ATACGACGGTCACGACTGTAGACACGGTGACCGACGAACCCGTCTGTTAAGTTTTTAACGACGAT
131 ATACGACGGTCACGACTGTAGACACGGTGACCGACGAACCCGTCTGTTAAGTTTTTAACGACGAT
* *
604894 ATACTAAAATGAAACAAAATTTAAATATTATATATGATTAAAAAAAAAATTAGATACTAAA
196 ATACTAAAATAAAACAAAA-TTAAATATTAGATATGATTAAAAAAAAAATTAGATACTAAA
*
604955 ATGAAGAAATCGAAGAGTCCATCGTCGATTTGGGGAGATTGAGGTGTTTCCCAGTGAAACGAATG
1 ATGAAGAAATCGAAGAGTCAATCGTCGATTTGGGGAGATTGAGGTGTTTCCCAGTGAAACGAATG
*
605020 CCAGAATTGTATTT-AGGGGTCGAAAAGGTACGAGATTGGAAGTTTGTGCTTCATTAACCGACAG
66 CCAGAATTGTATTTAAGGGGTCGAAAAGGTACGAGATTGGAAGTTTGGGCTTCATTAACCGACAG
*
605084 ATACGACGGTCACGACTGTAGACACGGTGACCGACGAACCCTTCTGTTAAGTTTTTAACGACGAT
131 ATACGACGGTCACGACTGTAGACACGGTGACCGACGAACCCGTCTGTTAAGTTTTTAACGACGAT
605149 ATACTAAAATAAAACAAAATTAAATATTAGATATGATT
196 ATACTAAAATAAAACAAAATTAAATATTAGATATGATT
605187 TTAAAATAAA
Statistics
Matches: 224, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
254 18 0.08
255 129 0.58
256 77 0.34
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (255 bp):
ATGAAGAAATCGAAGAGTCAATCGTCGATTTGGGGAGATTGAGGTGTTTCCCAGTGAAACGAATG
CCAGAATTGTATTTAAGGGGTCGAAAAGGTACGAGATTGGAAGTTTGGGCTTCATTAACCGACAG
ATACGACGGTCACGACTGTAGACACGGTGACCGACGAACCCGTCTGTTAAGTTTTTAACGACGAT
ATACTAAAATAAAACAAAATTAAATATTAGATATGATTAAAAAAAAAATTAGATACTAAA
Found at i:606842 original size:36 final size:37
Alignment explanation
Indices: 606798--606869 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
606788 ATTTTCATTA
* *
606798 TTATTATATTTTTCCTTTA-TTTA-TATATATATATT
1 TTATTATATTTTTACTTTATTTTATTATACATATATT
*
606833 TTATGTATATTTTTATTTTATTTTATTATACATATAT
1 TTAT-TATATTTTTACTTTATTTTATTATACATATAT
606870 ATATATACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.13
36 13 0.42
37 4 0.13
38 10 0.32
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (37 bp):
TTATTATATTTTTACTTTATTTTATTATACATATATT
Found at i:607095 original size:24 final size:25
Alignment explanation
Indices: 607034--607095 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 25
607024 TTTTTTTACA
*
607034 TCATTA-TCGTTTTCATTTTATTCT
1 TCATTATTCCTTTTCATTTTATTCT
* * *
607058 ACTTTATAT-TTTTTCATTTTATT-T
1 TCATTAT-TCCTTTTCATTTTATTCT
607082 TCATTATTCCTTTT
1 TCATTATTCCTTTT
607096 TTTTATGTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
25 13 0.45
26 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.02, T:0.66
Consensus pattern (25 bp):
TCATTATTCCTTTTCATTTTATTCT
Found at i:618494 original size:105 final size:105
Alignment explanation
Indices: 618312--619152 Score: 1438
Period size: 105 Copynumber: 8.0 Consensus size: 105
618302 AGGTTTTACC
* *
618312 CAGAGCCAATTTCAACTTCACAACGAGGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
618377 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTTAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
618417 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
618482 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
618522 CAG-GGCAATTTCAACTTCACAACGAAGGATA-TGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
618585 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
618625 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
618690 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
618730 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
618795 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
618835 CCGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
618900 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* * *
618941 CAGAGCCAATTTCAACTTCACATCGAA-TATA-TGGACTCAAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
619004 GCGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* *
619045 CAGAGCCAATTTCAACGTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
619110 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
619151 CA
1 CA
619153 ACTACACAAC
Statistics
Matches: 704, Mismatches: 27, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
103 75 0.11
104 150 0.21
105 375 0.53
106 104 0.15
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:620564 original size:17 final size:17
Alignment explanation
Indices: 620544--620582 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
620534 TTTTCCTTTA
620544 TTTATATATATATATAT
1 TTTATATATATATATAT
* * *
620561 TTTATGTATATTTTTAT
1 TTTATATATATATATAT
620578 TTTAT
1 TTTAT
620583 TTTATTATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATATATATATATAT
Found at i:620571 original size:38 final size:39
Alignment explanation
Indices: 620525--620600 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
620515 ATTTTCATTA
* *
620525 TTATTATATTTTTCCTTTA-TTTA-TATATATATATATT
1 TTATTATATTTTTACTTTATTTTATTATACATATATATT
*
620562 TTATGTATATTTTTATTTTATTTTATTATACATATATAT
1 TTAT-TATATTTTTACTTTATTTTATTATACATATATAT
620601 ACACATAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 4 0.12
38 13 0.39
39 4 0.12
40 12 0.36
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (39 bp):
TTATTATATTTTTACTTTATTTTATTATACATATATATT
Found at i:620579 original size:44 final size:42
Alignment explanation
Indices: 620499--620601 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 42
620489 TAGTCCCTAC
620499 TATTAT-TATATACTATATTTTCATTATTATTATATTTT-TCCTT
1 TATTATATATATA-TATATTTTCATTATTATTATATTTTAT--TT
*
620542 TATTTATATATATATATATTTT-ATGTA-TATTTTTATTTTATTT
1 TA-TTATATATATATATATTTTCAT-TATTA-TTATATTTTATTT
*
620585 TATTATACATATATATA
1 TATTATATATATATATA
620602 CACATAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
42 14 0.26
43 10 0.19
44 22 0.42
45 7 0.13
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (42 bp):
TATTATATATATATATATTTTCATTATTATTATATTTTATTT
Found at i:620811 original size:24 final size:24
Alignment explanation
Indices: 620751--620811 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 24
620741 TTTTTTTACA
620751 TCATTA-TCGTTTTCATTTTATTCT
1 TCATTATTC-TTTTCATTTTATTCT
* *
620775 ACTTTATAT-TTTTCATTTTATT-T
1 TCATTAT-TCTTTTCATTTTATTCT
620798 TCATTATTCCTTTT
1 TCATTATT-CTTTT
620812 TTTATATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
22 1 0.03
23 6 0.21
24 21 0.72
26 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.02, T:0.66
Consensus pattern (24 bp):
TCATTATTCTTTTCATTTTATTCT
Found at i:620935 original size:27 final size:27
Alignment explanation
Indices: 620864--620944 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
620854 TTTTGTAGTT
*
620864 TTTATTTATTTATTACTATTATATATATC
1 TTTA-TTA-TTATTACCATTATATATATC
* * * *
620893 TTT-TTATTTTTTCCATTGTTTATATC
1 TTTATTATTATTACCATTATATATATC
*
620919 TTTATTATTATTACCATCATATATAT
1 TTTATTATTATTACCATTATATATAT
620945 TATTTTTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 18 0.44
27 20 0.49
29 3 0.07
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTATTATTATTACCATTATATATATC
Found at i:621419 original size:2 final size:2
Alignment explanation
Indices: 621412--621457 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
621402 TTTTATGTGA
621412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
621453 AT AT A
1 AT AT A
621458 AATACTCATG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:626461 original size:87 final size:87
Alignment explanation
Indices: 626315--626490 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
626305 AGTAATCATG
626315 TTAAAAATCAACTTAGACAACCGATAATTTTTAACAAAAAATGATGAGTATGGAACATAATGAAT
1 TTAAAAATCAACTTAGACAACCGATAATTTTTAACAAAAAATGATGAGTATGGAACATAATGAAT
626380 AATCAGATGACTATTTTGTAAC
66 AATCAGATGACTATTTTGTAAC
626402 TTAAAAATCAACTTAGACAACCGATAATTTTTAACAAAAAATGATGAGTATGGAACATAATGAAT
1 TTAAAAATCAACTTAGACAACCGATAATTTTTAACAAAAAATGATGAGTATGGAACATAATGAAT
626467 AATCAGATGACTATTTTGTAAC
66 AATCAGATGACTATTTTGTAAC
626489 TT
1 TT
626491 TTAATAGTCG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (87 bp):
TTAAAAATCAACTTAGACAACCGATAATTTTTAACAAAAAATGATGAGTATGGAACATAATGAAT
AATCAGATGACTATTTTGTAAC
Found at i:626587 original size:60 final size:60
Alignment explanation
Indices: 626473--626587 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
626463 GAATAATCAG
* * * **
626473 ATGACTATTTTGTAACTTTTAATAGTCGAGAGACTTAATAAAGTAATATTCTATAATTAT
1 ATGACTATTTTATAACTTTTAATAATCGAGAGACTTAATAAAGCAATACCCTATAATTAT
* * *
626533 ATGATTATTTTATAACTTTTAATAATCGA-ATGACTTATTGAAGCAATACCCTATA
1 ATGACTATTTTATAACTTTTAATAATCGAGA-GACTTAATAAAGCAATACCCTATA
626588 GTAGGGAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (60 bp):
ATGACTATTTTATAACTTTTAATAATCGAGAGACTTAATAAAGCAATACCCTATAATTAT
Found at i:627490 original size:29 final size:29
Alignment explanation
Indices: 627453--627514 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
627443 ATTCACATTA
627453 ATTTCAATAAGGTAAGACCCTTCTGTAAG
1 ATTTCAATAAGGTAAGACCCTTCTGTAAG
*
627482 ATTTGAATAAGGTAAGACCCTTCTGTAAG
1 ATTTCAATAAGGTAAGACCCTTCTGTAAG
627511 ATTT
1 ATTT
627515 TACTTGTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (29 bp):
ATTTCAATAAGGTAAGACCCTTCTGTAAG
Found at i:635958 original size:17 final size:17
Alignment explanation
Indices: 635938--635976 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
635928 TAACATGCCT
*
635938 GGTTCGCTAACTGGTCC
1 GGTTCGCTAACCGGTCC
635955 GGTTCGCTAACCGGTCC
1 GGTTCGCTAACCGGTCC
635972 GGTTC
1 GGTTC
635977 TGAAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.31, G:0.31, T:0.28
Consensus pattern (17 bp):
GGTTCGCTAACCGGTCC
Found at i:638176 original size:21 final size:21
Alignment explanation
Indices: 638136--638176 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
638126 TAATCACTTC
*
638136 ATTAAAAACTAATGAAAATTA
1 ATTAAAAACTAATAAAAATTA
638157 ATTAAAAA-TAATAAACAATT
1 ATTAAAAACTAATAAA-AATT
638177 TAACCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
ATTAAAAACTAATAAAAATTA
Found at i:641129 original size:13 final size:13
Alignment explanation
Indices: 641111--641140 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
641101 ATCAGCTTCG
641111 TTCGAAGCATTCT
1 TTCGAAGCATTCT
641124 TTCGAAGCATTCT
1 TTCGAAGCATTCT
641137 TTCG
1 TTCG
641141 GGTAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (13 bp):
TTCGAAGCATTCT
Found at i:642509 original size:24 final size:24
Alignment explanation
Indices: 642458--642509 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
642448 TACATCTACT
* *
642458 TTTCGGATTTATCGGTTACGTAGC
1 TTTCGGATTTATCGCTCACGTAGC
* *
642482 TTTCGGATTTATCGCTCACTTAGG
1 TTTCGGATTTATCGCTCACGTAGC
642506 TTTC
1 TTTC
642510 AAAATTACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.44
Consensus pattern (24 bp):
TTTCGGATTTATCGCTCACGTAGC
Found at i:644869 original size:14 final size:16
Alignment explanation
Indices: 644840--644871 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
644830 CGTTTGTGAA
644840 CGTTCAATTATATGTT
1 CGTTCAATTATATGTT
644856 CGTTC-ATT-TATGTT
1 CGTTCAATTATATGTT
644870 CG
1 CG
644872 AACAGAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (16 bp):
CGTTCAATTATATGTT
Found at i:645154 original size:14 final size:14
Alignment explanation
Indices: 645126--645165 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
645116 TGTTTTTTGT
645126 GTTTGTGTT-GTTC
1 GTTTGTGTTCGTTC
*
645139 GTTTATGTTCGTTC
1 GTTTGTGTTCGTTC
645153 GTTTGTGTTCGTT
1 GTTTGTGTTCGTT
645166 TACGTTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.03, C:0.10, G:0.28, T:0.60
Consensus pattern (14 bp):
GTTTGTGTTCGTTC
Found at i:648264 original size:16 final size:16
Alignment explanation
Indices: 648243--648330 Score: 54
Period size: 16 Copynumber: 5.4 Consensus size: 16
648233 CAACATTCCA
648243 GTAATCATATTCCCTG
1 GTAATCATATTCCCTG
* **
648259 GTAATCTTACATT-CCAA
1 GTAATC--ATATTCCCTG
* *
648276 GTAATCTTATTCTCTG
1 GTAATCATATTCCCTG
* *
648292 GTAATCTTACATTCCC-A
1 GTAATC--ATATTCCCTG
*
648309 GTAATCCTATTCCCTG
1 GTAATCATATTCCCTG
648325 GTAATC
1 GTAATC
648331 TTACATTCCC
Statistics
Matches: 51, Mismatches: 15, Indels: 12
0.65 0.19 0.15
Matches are distributed among these distances:
15 9 0.18
16 19 0.37
17 14 0.27
18 9 0.18
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (16 bp):
GTAATCATATTCCCTG
Found at i:648281 original size:17 final size:17
Alignment explanation
Indices: 648259--648314 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
648249 ATATTCCCTG
648259 GTAATCTTACATTCCAA
1 GTAATCTTACATTCCAA
**
648276 GTAATCTT--ATTCTCTG
1 GTAATCTTACATTC-CAA
*
648292 GTAATCTTACATTCCCA
1 GTAATCTTACATTCCAA
648309 GTAATC
1 GTAATC
648315 CTATTCCCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 4 0.12
16 9 0.28
17 15 0.47
18 4 0.12
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (17 bp):
GTAATCTTACATTCCAA
Found at i:648340 original size:33 final size:33
Alignment explanation
Indices: 648235--648341 Score: 171
Period size: 33 Copynumber: 3.3 Consensus size: 33
648225 ACAAAATACA
648235 ACATT-CCAGTAATCATATTCCCTGGTAATCTT
1 ACATTCCCAGTAATCATATTCCCTGGTAATCTT
* * *
648267 ACATTCCAAGTAATCTTATTCTCTGGTAATCTT
1 ACATTCCCAGTAATCATATTCCCTGGTAATCTT
*
648300 ACATTCCCAGTAATCCTATTCCCTGGTAATCTT
1 ACATTCCCAGTAATCATATTCCCTGGTAATCTT
648333 ACATTCCCA
1 ACATTCCCA
648342 CTAGTAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 5 0.07
33 63 0.93
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (33 bp):
ACATTCCCAGTAATCATATTCCCTGGTAATCTT
Found at i:648597 original size:13 final size:13
Alignment explanation
Indices: 648579--648604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
648569 GAATCCCTAA
648579 AATTTTATAATTT
1 AATTTTATAATTT
648592 AATTTTATAATTT
1 AATTTTATAATTT
648605 TTTGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTTTATAATTT
Found at i:659527 original size:24 final size:25
Alignment explanation
Indices: 659494--659545 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
659484 TTTAGTAATT
*
659494 TAATTTAATATATAA-ATTTATTA-A
1 TAATTAAATATATAATA-TTATTATA
659518 TAATTAAATATATAATATTATTATA
1 TAATTAAATATATAATATTATTATA
659543 TAA
1 TAA
659546 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATTAAATATATAATATTATTATA
Found at i:659532 original size:12 final size:12
Alignment explanation
Indices: 659494--659545 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
659484 TTTAGTAATT
659494 TAATTTAATATA
1 TAATTTAATATA
*
659506 TAAATTTATTA-A
1 T-AATTTAATATA
*
659518 TAATTAAATATA
1 TAATTTAATATA
*
659530 TAATATTATTATA
1 TAAT-TTAATATA
659543 TAA
1 TAA
659546 AAAAATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.22
12 8 0.25
13 17 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATTTAATATA
Found at i:663063 original size:15 final size:16
Alignment explanation
Indices: 663045--663074 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
663035 TCTTTTCAAT
663045 TTTTTTGT-TTTTTTG
1 TTTTTTGTCTTTTTTG
663060 TTTTTTGTCTTTTTT
1 TTTTTTGTCTTTTTT
663075 ATTATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (16 bp):
TTTTTTGTCTTTTTTG
Found at i:667783 original size:49 final size:49
Alignment explanation
Indices: 667708--667808 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
667698 CCATCCTTAA
*
667708 TTAGGGATCATTGTACTATATAAAAGTGATCATTTTAGTCGATTGATTT
1 TTAGGGATCATTGTACTATATAAAAGTGATCATTTTAGTCGATAGATTT
* **
667757 TTAGGGATCATTGTACTATATTAAAGTGATTGTTTTAGTCGATAGATTT
1 TTAGGGATCATTGTACTATATAAAAGTGATCATTTTAGTCGATAGATTT
667806 TTA
1 TTA
667809 ATGTTACAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.45
Consensus pattern (49 bp):
TTAGGGATCATTGTACTATATAAAAGTGATCATTTTAGTCGATAGATTT
Found at i:667880 original size:32 final size:31
Alignment explanation
Indices: 667816--667913 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
667806 TTAATGTTAC
* * *
667816 AAAACAATCATTAAATTTCTCAAATGATTAT
1 AAAACAATAATTAAATTTATCAAATTATTAT
* *
667847 AAAACAATAATTAAAATTTATCTAATTACTAT
1 AAAACAATAATT-AAATTTATCAAATTATTAT
* *
667879 AAAATAATTAA-TAAATTTATCAAAATATTAT
1 AAAACAA-TAATTAAATTTATCAAATTATTAT
667910 AAAA
1 AAAA
667914 TGGTCTTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 31 0.55
32 22 0.39
33 3 0.05
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (31 bp):
AAAACAATAATTAAATTTATCAAATTATTAT
Found at i:672891 original size:18 final size:18
Alignment explanation
Indices: 672868--672902 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
672858 GACCCGATCC
672868 AAAATAATATATTTATTA
1 AAAATAATATATTTATTA
* *
672886 AAAATATTATTTTTATT
1 AAAATAATATATTTATT
672903 CAATAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATAATATATTTATTA
Found at i:674444 original size:14 final size:15
Alignment explanation
Indices: 674422--674454 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
674412 ATGTAAATTG
*
674422 AAATTAAATA-TTTA
1 AAATAAAATATTTTA
674436 AAATAAAATATTTTA
1 AAATAAAATATTTTA
674451 AAAT
1 AAAT
674455 TCAACGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATAAAATATTTTA
Found at i:675104 original size:10 final size:10
Alignment explanation
Indices: 675089--675129 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
675079 TTCATCACAC
675089 CAAATTCTCT
1 CAAATTCTCT
*
675099 CAAATTTTCT
1 CAAATTCTCT
*
675109 CAATTTCTCT
1 CAAATTCTCT
*
675119 CAAATACTCT
1 CAAATTCTCT
675129 C
1 C
675130 TTTGTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:675208 original size:17 final size:18
Alignment explanation
Indices: 675171--675211 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
675161 ATATTATGTA
*
675171 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
675189 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
675206 TTTACT
1 TTTACT
675212 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:677254 original size:12 final size:12
Alignment explanation
Indices: 677237--677262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
677227 ATCTTCTCAG
677237 GACGACGATGAC
1 GACGACGATGAC
677249 GACGACGATGAC
1 GACGACGATGAC
677261 GA
1 GA
677263 TGGTGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.35, T:0.08
Consensus pattern (12 bp):
GACGACGATGAC
Found at i:677463 original size:26 final size:24
Alignment explanation
Indices: 677392--677463 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
677382 TTATATTTGT
677392 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
677417 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
677439 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
677464 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:681214 original size:51 final size:51
Alignment explanation
Indices: 681159--681265 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
681149 TATACGCTAT
** *
681159 ACGCTATA-CACACGTGTAAC-CCATGTCAGCGTATAGCGCGGTACAGGGGGC
1 ACGCTATACCACACGTG--ACGCCAAATCAGCATATAGCGCGGTACAGGGGGC
* *
681210 ACGCTATACCTCACGTGACGCCAAATCAGCATATAGCGCGGTGCAGGGGGC
1 ACGCTATACCACACGTGACGCCAAATCAGCATATAGCGCGGTACAGGGGGC
*
681261 GCGCT
1 ACGCT
681266 TTACTGCTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.04
51 39 0.81
52 7 0.15
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.17
Consensus pattern (51 bp):
ACGCTATACCACACGTGACGCCAAATCAGCATATAGCGCGGTACAGGGGGC
Found at i:681719 original size:60 final size:59
Alignment explanation
Indices: 681627--681739 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
681617 TGGTTCTTAA
* *
681627 ATTTTTTAAACATTTAAATTTCATCATTAAACCAT-GA-CTTTCATTCTAAATTAATCCTT
1 ATTTTTTAAACATTTAAATTTCATAATCAAACCATAGATC-TT-ATTCTAAATTAATCCTT
* * *
681686 ATTTTTTAAAATATTTTAATTTTATAATCAAACCATAGATCTTATTCTAAATTA
1 ATTTTTT-AAACATTTAAATTTCATAATCAAACCATAGATCTTATTCTAAATTA
681740 TTCATCAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 7 0.15
60 34 0.74
61 4 0.09
62 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (59 bp):
ATTTTTTAAACATTTAAATTTCATAATCAAACCATAGATCTTATTCTAAATTAATCCTT
Found at i:681996 original size:60 final size:60
Alignment explanation
Indices: 681916--682071 Score: 190
Period size: 60 Copynumber: 2.6 Consensus size: 60
681906 GGGAAGAAAT
* *
681916 TGAAATGTTTAAAAAGTTTGAGGACTGATTTAGAATGA-AGATCATAGTTTGGGGATAAAAA
1 TGAAATGTTT-AAAAGTTTGAGGACTAATTTAGAATGATAG-TCATAGTTTAGGGATAAAAA
* * *
681977 TGAAATGTTTAAAAGTTTGAGGATTAATTTAGAATGATAGTCATAGTTTAGGGATGAAAT
1 TGAAATGTTTAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTTAGGGATAAAAA
* * **
682037 TAAAATGTTTAAAGGTTTTTGGA-TCAATTTAGAAT
1 TGAAATGTTTAAAAGTTTGAGGACT-AATTTAGAAT
682072 AAGGTTATAA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
59 1 0.01
60 71 0.85
61 12 0.14
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (60 bp):
TGAAATGTTTAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTTAGGGATAAAAA
Found at i:693573 original size:18 final size:18
Alignment explanation
Indices: 693550--693590 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
693540 GGAATGTAAG
693550 ATTACAAGCAGGAATAAA
1 ATTACAAGCAGGAATAAA
* * *
693568 ATTACAGGCGGGAATAAG
1 ATTACAAGCAGGAATAAA
693586 ATTAC
1 ATTAC
693591 TGTGAATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (18 bp):
ATTACAAGCAGGAATAAA
Found at i:700223 original size:15 final size:15
Alignment explanation
Indices: 700181--700223 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
700171 GTAATGAAAA
700181 TAATTTTATTAATTTT
1 TAATTTTATT-ATTTT
*
700197 T-ATGTTATTATTTT
1 TAATTTTATTATTTT
*
700211 TAATTTTAGTATT
1 TAATTTTATTATT
700224 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.26
15 16 0.70
16 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
TAATTTTATTATTTT
Found at i:709985 original size:51 final size:49
Alignment explanation
Indices: 709909--710007 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 49
709899 AACAATGTCG
709909 CATATCTTGCCTGTCAAGTTTCCCATATATATATATATAAATAAGTTCATT
1 CATATCTTGCCTGTCAAGTTTCCCATATATATATATAT--ATAAGTTCATT
709960 CATATCTTGCAC-GTCAAGTTTCCCATATATATATATATATAAGTTCAT
1 CATATCTTGC-CTGTCAAGTTTCCCATATATATATATATATAAGTTCAT
710008 GCTTTGTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
49 10 0.21
51 36 0.77
52 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (49 bp):
CATATCTTGCCTGTCAAGTTTCCCATATATATATATATATAAGTTCATT
Found at i:712334 original size:17 final size:17
Alignment explanation
Indices: 712314--712346 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
712304 ATATTTATTT
*
712314 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
712331 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
712347 TACAATCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:713102 original size:21 final size:20
Alignment explanation
Indices: 713078--713125 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
713068 ATTGTTGGTT
713078 AATTTTTATTAAATTTCA-TAA
1 AATTTTT-TTAAATTT-ATTAA
*
713099 AATTCTCTTTAAATTTATTAA
1 AATT-TTTTTAAATTTATTAA
713120 AATTTT
1 AATTTT
713126 AATATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTTTTTAAATTTATTAA
Found at i:713857 original size:17 final size:17
Alignment explanation
Indices: 713835--713888 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 17
713825 CTAACTTTAA
713835 TTATTATTGTTTAAAAT
1 TTATTATTGTTTAAAAT
*
713852 TTATTATTG-GTAAAA-
1 TTATTATTGTTTAAAAT
*
713867 ATA-TATT-TTTAAAAT
1 TTATTATTGTTTAAAAT
*
713882 TAATTAT
1 TTATTAT
713889 ATAAAATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.31
15 3 0.10
16 8 0.28
17 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATTATTGTTTAAAAT
Found at i:714019 original size:18 final size:18
Alignment explanation
Indices: 713996--714031 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
713986 AATAGAAAAT
713996 ACATATAAAAAATTTAAA
1 ACATATAAAAAATTTAAA
* *
714014 ACATATGAAAATTTTAAA
1 ACATATAAAAAATTTAAA
714032 TTTTTGAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (18 bp):
ACATATAAAAAATTTAAA
Found at i:714336 original size:61 final size:61
Alignment explanation
Indices: 714236--714362 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
714226 TAAATTTAAT
*
714236 TATATGTATTTACAATATTATGATATTATATCATTGTAATTTAAACGACTTTCTATAACTA
1 TATACGTATTTACAATATTATGATATTATATCATTGTAATTTAAACGACTTTCTATAACTA
714297 TATACGTATTTACAATATTATGATATTATATCATTGTAATTTAAACGACTTTCTATAACTA
1 TATACGTATTTACAATATTATGATATTATATCATTGTAATTTAAACGACTTTCTATAACTA
714358 TATAC
1 TATAC
714363 AATAAATATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (61 bp):
TATACGTATTTACAATATTATGATATTATATCATTGTAATTTAAACGACTTTCTATAACTA
Found at i:714339 original size:31 final size:31
Alignment explanation
Indices: 714243--714339 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
714233 AATTATATGT
714243 ATTTACAATATTATGATATTATATCATTGTA
1 ATTTACAATATTATGATATTATATCATTGTA
* * * *
714274 ATTTA-AACGACTT-T-CTATAACTAT-ATACGT-
1 ATTTACAA-TA-TTATGATATTA-TATCAT-TGTA
714304 ATTTACAATATTATGATATTATATCATTGTA
1 ATTTACAATATTATGATATTATATCATTGTA
714335 ATTTA
1 ATTTA
714340 AACGACTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
29 2 0.04
30 20 0.41
31 25 0.51
32 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.46
Consensus pattern (31 bp):
ATTTACAATATTATGATATTATATCATTGTA
Found at i:716075 original size:20 final size:20
Alignment explanation
Indices: 716033--716077 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
716023 TTTAAGTTTA
* * * *
716033 TTTTAAAATCTATGTTTACT
1 TTTTAAAATATATATATAAT
716053 TTTTAAAATATATATATAAT
1 TTTTAAAATATATATATAAT
716073 TTTTA
1 TTTTA
716078 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAAAATATATATATAAT
Found at i:716216 original size:30 final size:29
Alignment explanation
Indices: 716180--716237 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
716170 TTAAGTTACA
*
716180 AAATAAAATATTAAACACTA-AACTGAAACG
1 AAAT-AAACATTAAACAC-AGAACTGAAACG
*
716210 AAATAAACATTAAATACAGAACTGAAAC
1 AAATAAACATTAAACACAGAACTGAAAC
716238 TAGAGATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 20 0.80
30 4 0.16
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (29 bp):
AAATAAACATTAAACACAGAACTGAAACG
Found at i:717429 original size:21 final size:22
Alignment explanation
Indices: 717386--717429 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
717376 TATTATTAAC
* * *
717386 TTTATTTTAAAATCTTTTATTT
1 TTTATTTAAAAATATGTTATTT
717408 TTTATTTAAAAATATGTT-TTT
1 TTTATTTAAAAATATGTTATTT
717429 T
1 T
717430 GTGTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTATTTAAAAATATGTTATTT
Found at i:719588 original size:32 final size:31
Alignment explanation
Indices: 719532--719660 Score: 159
Period size: 32 Copynumber: 4.1 Consensus size: 31
719522 GAGTCGAGGG
* * *
719532 TTACCTAAGTTCTTCGGGATATATGGACAGGA
1 TTACCTATGTTCTTCGAGACATATGGACA-GA
*
719564 TTACATATGTTCTTCGAGACATATGGACAGGA
1 TTACCTATGTTCTTCGAGACATATGGACA-GA
* * * *
719596 TTACCTATGTTCTTCGGGATATATGGATAGT
1 TTACCTATGTTCTTCGAGACATATGGACAGA
*
719627 TTACCTATGTTCTTCGAAACATATGGACAGA
1 TTACCTATGTTCTTCGAGACATATGGACAGA
719658 TTA
1 TTA
719661 TTATACGAGT
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 30 0.36
32 53 0.64
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTTCGAGACATATGGACAGA
Found at i:719608 original size:64 final size:62
Alignment explanation
Indices: 719532--719660 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 62
719522 GAGTCGAGGG
*
719532 TTACCTAAGTTCTTCGGGATATATGGACAGGATTACATATGTTCTTCGAGACATATGGACAGGA
1 TTACCTAAGTTCTTCGGGATATATGGACA-GATTACATATGTTCTTCGAAACATATGGACA-GA
* * * *
719596 TTACCTATGTTCTTCGGGATATATGGATAGTTTACCTATGTTCTTCGAAACATATGGACAGA
1 TTACCTAAGTTCTTCGGGATATATGGACAGATTACATATGTTCTTCGAAACATATGGACAGA
719658 TTA
1 TTA
719661 TTATACGAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 5 0.08
63 28 0.47
64 27 0.45
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (62 bp):
TTACCTAAGTTCTTCGGGATATATGGACAGATTACATATGTTCTTCGAAACATATGGACAGA
Found at i:722490 original size:21 final size:21
Alignment explanation
Indices: 722466--722517 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
722456 AGGTGAAGAT
* *
722466 TTTAAATTTTAGTATTTTAAA
1 TTTAAATTTTAATATTTCAAA
* *
722487 TTTAAGA-TATAATATTTCAAT
1 TTTAA-ATTTTAATATTTCAAA
722508 TTTAAATTTT
1 TTTAAATTTT
722518 TGAATTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAAATTTTAATATTTCAAA
Found at i:725146 original size:26 final size:27
Alignment explanation
Indices: 725116--725177 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
725106 TTTATTTTTG
* *
725116 TTTTTTTATTCATTACTATTATTATTA
1 TTTTTTTATTAATTACTATTACTATTA
* *
725143 TTTTATTTTAATAATTATTATTACTATTA
1 -TTT-TTTTATTAATTACTATTACTATTA
725172 TTTTTT
1 TTTTTT
725178 ATACCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 6 0.21
29 20 0.69
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTTTATTAATTACTATTACTATTA
Found at i:726672 original size:39 final size:39
Alignment explanation
Indices: 726629--726724 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
726619 TTTATGACTT
726629 GTAAGTCCTTACCGCAAGCTCATTGGCTTTGTGC-TCAGG
1 GTAAGTCCTTACCGCAAGCTCATTGGCTTTGTGCAT-AGG
* * *
726668 GTAAGTCCTTACCGCATGCTCCTTTGCTTTGTGCATAGG
1 GTAAGTCCTTACCGCAAGCTCATTGGCTTTGTGCATAGG
* *
726707 GCAAGTCCTTACTGCAAG
1 GTAAGTCCTTACCGCAAG
726725 TCCTTATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 49 0.98
40 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAAGCTCATTGGCTTTGTGCATAGG
Found at i:728871 original size:23 final size:24
Alignment explanation
Indices: 728826--728875 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
728816 ACGTGTATTT
728826 TCTAAATGTATTATTATGTCATTGG
1 TCTAAATGTATTA-TATGTCATTGG
728851 TCTAAATGTATTA-ATGTCATTGG
1 TCTAAATGTATTATATGTCATTGG
728874 TC
1 TC
728876 ACATCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 12 0.48
25 13 0.52
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (24 bp):
TCTAAATGTATTATATGTCATTGG
Found at i:730278 original size:17 final size:17
Alignment explanation
Indices: 730244--730278 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
730234 CGACATGATA
**
730244 TAAAATAATGATTTAAT
1 TAAAATAATGATAAAAT
730261 TAAAATAATGATAAAAT
1 TAAAATAATGATAAAAT
730278 T
1 T
730279 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
TAAAATAATGATAAAAT
Found at i:737543 original size:18 final size:17
Alignment explanation
Indices: 737507--737550 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
737497 TATCTAGATG
737507 TTTTTAAAAATAAAATA
1 TTTTTAAAAATAAAATA
***
737524 TTTTTTAAAAATATTTTA
1 -TTTTTAAAAATAAAATA
737542 TTTTTAAAA
1 TTTTTAAAA
737551 TCGGAACGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTTAAAAATAAAATA
Found at i:738215 original size:23 final size:23
Alignment explanation
Indices: 738185--738262 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
738175 CTTTGCGAAT
738185 TTCCAAATTCGCGTTGCGATTTA
1 TTCCAAATTCGCGTTGCGATTTA
*
738208 TTCCAAATT--TGTTGCGA--TA
1 TTCCAAATTCGCGTTGCGATTTA
* *
738227 GTCCAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGCGTTGCGATTTA
* *
738250 TTACAAAATCGCG
1 TTCCAAATTCGCG
738263 ACTATCGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
19 9 0.21
21 14 0.33
23 20 0.47
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (23 bp):
TTCCAAATTCGCGTTGCGATTTA
Found at i:738242 original size:21 final size:21
Alignment explanation
Indices: 738151--738246 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
738141 ACTTCGACTA
* * *
738151 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAAT
* *
738172 TCGCTTTGCGA-ATTTCCAAAT
1 TCGCGTTGCGATA-GTCCAAAT
*
738193 TCGCGTTGCGATTTATTCCAAAT
1 TCGCGTTGCGA--TAGTCCAAAT
* *
738216 T--TGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAAT
738235 TCGCGTTGCGAT
1 TCGCGTTGCGAT
738247 TTATTACAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.15
20 1 0.02
21 40 0.67
23 9 0.15
24 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAAT
Found at i:738319 original size:21 final size:23
Alignment explanation
Indices: 738266--738313 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
738256 AATCGCGACT
738266 ATCGCAA--CGAATTTAGAATAA
1 ATCGCAACGCGAATTTAGAATAA
738287 ATCGCAACGCGAATTT-GAA-AA
1 ATCGCAACGCGAATTTAGAATAA
738308 ATCGCA
1 ATCGCA
738314 TTGCGATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.60
22 3 0.12
23 7 0.28
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.21
Consensus pattern (23 bp):
ATCGCAACGCGAATTTAGAATAA
Found at i:738510 original size:11 final size:12
Alignment explanation
Indices: 738488--738516 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
738478 ATTTTCTCAT
738488 TAAAATATAATA
1 TAAAATATAATA
738500 TAAAA-ATAATA
1 TAAAATATAATA
738511 TAAAAT
1 TAAAAT
738517 TTTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:743789 original size:15 final size:15
Alignment explanation
Indices: 743771--743802 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
743761 TCCCGACTGG
743771 GGGACTCCATCGAGT
1 GGGACTCCATCGAGT
743786 GGGACTCCATCGAGT
1 GGGACTCCATCGAGT
743801 GG
1 GG
743803 TTCGACGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.38, T:0.19
Consensus pattern (15 bp):
GGGACTCCATCGAGT
Found at i:751499 original size:180 final size:181
Alignment explanation
Indices: 751192--751547 Score: 464
Period size: 180 Copynumber: 2.0 Consensus size: 181
751182 CAATTCGCCG
* * * **
751192 CGCCTCAAAATCGTAGCCTTCTCTATTCCGACATTGTTGTTCCTCACCACCTTCAACTTATCGTT
1 CGCCTCAAAATCGTAACCTTCTCTATCCCAACA-T-TTGTTCCTCACCACCACCAACTTATCGTT
*
751257 GGAGCTAGATCTCTTCGAAACAGCATGATCCGAGCCGATCCGCTTCATCTGAACGGGCTTCTTGT
64 GGAGCTAGATCTCTTCGAAACAGCATGATCCGAGCCGACCCGCTTCATCTGAACGGGCTTCTTGT
*
751322 TAAACCTACCGTTTCCGTAATAACTAGGGCTAAATCCGCCGTTTCCCCCGCTT
129 TAAACCTACCGTTTCCGTAATAACTAGGGCTAAATCCACCGTTTCCCCCGCTT
751375 CGCCTCAAAATCGTAACCTTCTCTATCCCAACA-TTGTTCCTCACCACCACCAACTTATCGTTGG
1 CGCCTCAAAATCGTAACCTTCTCTATCCCAACATTTGTTCCTCACCACCACCAACTTATCGTTGG
* * * * * * * *
751439 AGCTTGATCTCTTCGAAGCCGCCTGATCTGA-CCTGACCCGCTTCTTCTGAACGTGCTTCTTTTT
66 AGCTAGATCTCTTCGAAACAGCATGATCCGAGCC-GACCCGCTTCATCTGAACGGGCTTCTTGTT
* * * * ** * *
751503 ACATCTTCCGTTTCTGTGGTAACTAGGGTTAACTCCACCGTTTCC
130 AAACCTACCGTTTCCGTAATAACTAGGGCTAAATCCACCGTTTCC
751548 GTATCTCCAG
Statistics
Matches: 149, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
179 2 0.01
180 117 0.79
183 30 0.20
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.31
Consensus pattern (181 bp):
CGCCTCAAAATCGTAACCTTCTCTATCCCAACATTTGTTCCTCACCACCACCAACTTATCGTTGG
AGCTAGATCTCTTCGAAACAGCATGATCCGAGCCGACCCGCTTCATCTGAACGGGCTTCTTGTTA
AACCTACCGTTTCCGTAATAACTAGGGCTAAATCCACCGTTTCCCCCGCTT
Found at i:753331 original size:2 final size:2
Alignment explanation
Indices: 753326--753360 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
753316 TCTCTCTCTC
753326 TA TA TA 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 TA TA TA T
753361 TACGGTGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:755600 original size:24 final size:24
Alignment explanation
Indices: 755568--755615 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
755558 GCATGCCTAC
755568 AATATAGTGTTAATAATTATCTAT
1 AATATAGTGTTAATAATTATCTAT
755592 AATATAGTGTTAATAATTATCTAT
1 AATATAGTGTTAATAATTATCTAT
755616 GTTAGTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
AATATAGTGTTAATAATTATCTAT
Done.