Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009124.1 Hibiscus syriacus cultivar Beakdansim tig00112614_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: 858217
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:527328 original size:33 final size:33
Alignment explanation
Indices: 527286--527350 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
527276 GATGGAGGTA
*
527286 TTCTTTTTAAGCTGATGCTTATTGTACTTAAAC
1 TTCTTTTTAAGCTGATACTTATTGTACTTAAAC
*
527319 TTCTTTTTAAGCTGATACTTATTGTTCTTAAA
1 TTCTTTTTAAGCTGATACTTATTGTACTTAAA
527351 AATGCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.51
Consensus pattern (33 bp):
TTCTTTTTAAGCTGATACTTATTGTACTTAAAC
Found at i:529915 original size:18 final size:18
Alignment explanation
Indices: 529892--529927 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
529882 TAGACGATTG
529892 CATGTTAGAAGCATAGCT
1 CATGTTAGAAGCATAGCT
529910 CATGTTAGAAGCATAGCT
1 CATGTTAGAAGCATAGCT
529928 GAAACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
CATGTTAGAAGCATAGCT
Found at i:530895 original size:3 final size:3
Alignment explanation
Indices: 530889--530932 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
530879 CTTTGGATAA
*
530889 ATT ATT ATT ATT CTT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
530933 GTGTAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:552130 original size:13 final size:13
Alignment explanation
Indices: 552102--552143 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
552092 CAAACTATTA
*
552102 TATTTTTAATACAT
1 TATTTTTAA-ATAT
552116 TATTTTTAAATAT
1 TATTTTTAAATAT
*
552129 TA-TTTTAATTAT
1 TATTTTTAAATAT
552141 TAT
1 TAT
552144 ACGTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTAAATAT
Found at i:556596 original size:12 final size:12
Alignment explanation
Indices: 556579--556613 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
556569 AAGTGTTATA
556579 TAGCGGCGTTTC
1 TAGCGGCGTTTC
556591 TAGCGGCGTTTC
1 TAGCGGCGTTTC
556603 TAGCGGCGTTT
1 TAGCGGCGTTT
556614 TAAGGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.23, G:0.34, T:0.34
Consensus pattern (12 bp):
TAGCGGCGTTTC
Found at i:561222 original size:13 final size:13
Alignment explanation
Indices: 561204--561230 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
561194 ACAACTTCAT
561204 AGGAAATTGTGAG
1 AGGAAATTGTGAG
561217 AGGAAATTGTGAG
1 AGGAAATTGTGAG
561230 A
1 A
561231 CTCCACTACT
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:0.41, C:0.00, G:0.37, T:0.22
Consensus pattern (13 bp):
AGGAAATTGTGAG
Found at i:562085 original size:16 final size:16
Alignment explanation
Indices: 562039--562086 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
562029 TCTAATGTTA
562039 TCAATCCATTCGATTT
1 TCAATCCATTCGATTT
* *
562055 T-AATCCCTAAC-ATTT
1 TCAATCCAT-TCGATTT
562070 TCAATCCATTCGATTT
1 TCAATCCATTCGATTT
562086 T
1 T
562087 AGTCCATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (16 bp):
TCAATCCATTCGATTT
Found at i:564079 original size:25 final size:26
Alignment explanation
Indices: 564031--564081 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
564021 GCTAAGATTG
* *
564031 AAATTCGATAATTTTATTTATCTATA
1 AAATTCGATAATTTAACTTATCTATA
564057 AAATTCGATAATTTAACTT-TCTATA
1 AAATTCGATAATTTAACTTATCTATA
564082 TTCTTGCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (26 bp):
AAATTCGATAATTTAACTTATCTATA
Found at i:564650 original size:51 final size:52
Alignment explanation
Indices: 564590--564697 Score: 200
Period size: 52 Copynumber: 2.1 Consensus size: 52
564580 AGATATGCTG
*
564590 AAATATGAGTTTTT-TTTAGGTTTGCTAGTATATTTGACTTGTCAAATAAGT
1 AAATATGAGTTTTTATTGAGGTTTGCTAGTATATTTGACTTGTCAAATAAGT
564641 AAATATGAGTTTTTATTGAGGTTTGCTAGTATATTTGACTTGTCAAATAAGT
1 AAATATGAGTTTTTATTGAGGTTTGCTAGTATATTTGACTTGTCAAATAAGT
564693 AAATA
1 AAATA
564698 AGAGACTAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 14 0.25
52 41 0.75
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (52 bp):
AAATATGAGTTTTTATTGAGGTTTGCTAGTATATTTGACTTGTCAAATAAGT
Found at i:565577 original size:45 final size:45
Alignment explanation
Indices: 565524--565722 Score: 249
Period size: 45 Copynumber: 4.4 Consensus size: 45
565514 AAATCTATGA
* * *
565524 ATCGACATAAAATGTGCCACTCATGAAAATGAATAATGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGAATAACGGTGCATT
* *
565569 ATCTACATAAAATGTGCCACTAATGAAAAT-ACATAACGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGA-ATAACGGTGCATT
* * * * * *
565614 ATCGGCATGAAAGGTACCACTAATGACAATGCATAACAGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGAATAACGGTGCATT
* *
565659 ATCGACATAAAAGGTGCCACTAATGAAAATGCATGACGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGAATAACGGTGCATT
565704 ATC-AGCATAAAAGGTGCCA
1 ATCGA-CATAAAAGGTGCCA
565723 ATGCATAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.01
45 132 0.99
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (45 bp):
ATCGACATAAAAGGTGCCACTAATGAAAATGAATAACGGTGCATT
Found at i:565732 original size:62 final size:62
Alignment explanation
Indices: 565664--565781 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
565654 GCATTATCGA
* *
565664 CATAAAAGGTGCCACTAATGAAAATGCATGACGGTGCATTATCAGCATAAAAGGTGCCAATG
1 CATAAAAGGTGCCACTAATGAAAATGCATAACCGTGCATTATCAGCATAAAAGGTGCCAATG
*
565726 CATAAAAGGTGCCACTAATGAAAATGCATAACCGTGCATTATCGGCATAAAAGGTG
1 CATAAAAGGTGCCACTAATGAAAATGCATAACCGTGCATTATCAGCATAAAAGGTG
565782 TCACTCATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (62 bp):
CATAAAAGGTGCCACTAATGAAAATGCATAACCGTGCATTATCAGCATAAAAGGTGCCAATG
Found at i:571969 original size:20 final size:20
Alignment explanation
Indices: 571946--571987 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
571936 TTTTAAAATT
571946 ATATAATCTTATTTA-TTAAA
1 ATATAAT-TTATTTATTTAAA
* *
571966 ATATTATTTGTTTATTTAAA
1 ATATAATTTATTTATTTAAA
571986 AT
1 AT
571988 TTAAAACTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATAATTTATTTATTTAAA
Found at i:574173 original size:27 final size:25
Alignment explanation
Indices: 574143--574195 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
574133 TTTTATATTT
* *
574143 TTTAATAATTAATAATATTTTTAAAAG
1 TTTAATAATT--TAAAATTTTAAAAAG
574170 TTTAATAATTTAAAATTTTAAAAAG
1 TTTAATAATTTAAAATTTTAAAAAG
574195 T
1 T
574196 AAATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
27 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTAATAATTTAAAATTTTAAAAAG
Found at i:580825 original size:31 final size:31
Alignment explanation
Indices: 580787--580853 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
580777 AATAATTGAA
*
580787 CCCTAAACTTCAGCTGATTTAGCAATCGAAG
1 CCCTAAACTTCAGCGGATTTAGCAATCGAAG
* *
580818 CCCTAAACTTCCGCGGATTTAGCAATCGAGG
1 CCCTAAACTTCAGCGGATTTAGCAATCGAAG
580849 CCCTA
1 CCCTA
580854 CAAAAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (31 bp):
CCCTAAACTTCAGCGGATTTAGCAATCGAAG
Found at i:581720 original size:30 final size:31
Alignment explanation
Indices: 581671--581745 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
581661 AGTCAAAATG
581671 AACTTCG-AGAGCTAGGATGAACATCATAGAC
1 AACTTCGAAG-GCTAGGATGAACATCATAGAC
*
581702 AA-TTCGAAGGCTATGATGAACATCATAGAC
1 AACTTCGAAGGCTAGGATGAACATCATAGAC
*
581732 AACTTCGAGGGCTA
1 AACTTCGAAGGCTA
581746 AATTAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 26 0.65
31 14 0.35
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (31 bp):
AACTTCGAAGGCTAGGATGAACATCATAGAC
Found at i:583371 original size:21 final size:19
Alignment explanation
Indices: 583339--583377 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
583329 AGATGGTTTG
583339 ATTTTTTTTAAAAAAACAT
1 ATTTTTTTTAAAAAAACAT
*
583358 ATTTTATTATTAAAATAACA
1 ATTTT-TT-TTAAAAAAACA
583378 AATATCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTTTTTAAAAAAACAT
Found at i:584314 original size:13 final size:14
Alignment explanation
Indices: 584296--584324 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
584286 AATAATTTTA
584296 TTTTTAAAAAT-AT
1 TTTTTAAAAATCAT
584309 TTTTTAAAAATCAT
1 TTTTTAAAAATCAT
584323 TT
1 TT
584325 GTTCTCCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTAAAAATCAT
Found at i:592987 original size:21 final size:21
Alignment explanation
Indices: 592956--592998 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
592946 AATATATTTT
*
592956 ATAATATTTTTAATAAT-TAA
1 ATAATATTTTTAACAATATAA
592976 ATAATATTTTTTAACAATATAA
1 ATAATA-TTTTTAACAATATAA
592998 A
1 A
592999 GATAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATTTTTAACAATATAA
Found at i:592988 original size:32 final size:34
Alignment explanation
Indices: 592923--592988 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
592913 CCGAATATAT
592923 TAATATTTTAAAATAATTAAAATAATATATTTTA
1 TAATATTTTAAAATAATTAAAATAATATATTTTA
* *
592957 TAATATTTT-TAATAATT-AAATAATATTTTTTA
1 TAATATTTTAAAATAATTAAAATAATATATTTTA
592989 ACAATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.47
33 7 0.23
34 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TAATATTTTAAAATAATTAAAATAATATATTTTA
Found at i:593025 original size:2 final size:2
Alignment explanation
Indices: 593018--593047 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
593008 TTTAAAATCT
593018 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
593048 ACTAGGTTGG
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):
TA
Found at i:594516 original size:31 final size:31
Alignment explanation
Indices: 594444--594516 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
594434 CCAACTTAAG
* *
594444 GGGACAAAGTATAATTAATCATAGAAAATGA
1 GGGACAAAATATAATTAACCATAGAAAATGA
* *
594475 GAGGATAAAATATAATTAACCGTA-AAAATGAA
1 G-GGACAAAATATAATTAACCATAGAAAATG-A
594507 GGGACAAAAT
1 GGGACAAAAT
594517 CAAAATAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 15 0.43
32 20 0.57
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (31 bp):
GGGACAAAATATAATTAACCATAGAAAATGA
Found at i:599415 original size:21 final size:21
Alignment explanation
Indices: 599402--599461 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
599392 ACGAGAAGAG
*
599402 CATTCATCAAGACGAGAATGT
1 CATTCATCAAGACGAGAATGC
599423 CATTCATCAAGACGAGAATGC
1 CATTCATCAAGACGAGAATGC
599444 CATTCATCAAGACGAGAA
1 CATTCATCAAGACGAGAA
599462 GACCCTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (21 bp):
CATTCATCAAGACGAGAATGC
Found at i:599470 original size:21 final size:21
Alignment explanation
Indices: 599391--599487 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
599381 TCGTACCAAG
*
599391 GACGAGAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
599412 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
599433 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
* *
599454 GACGAGAAGACCCTTCATGAA
1 GACGAGAAGACCATTCATCAA
* *
599475 AATGAGAAGACCA
1 GACGAGAAGACCA
599488 CATCGCATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:603366 original size:30 final size:30
Alignment explanation
Indices: 603332--603395 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
603322 TCAGAACAAC
603332 AAATATTTTCGTGTGACCTGAGCACAAATA
1 AAATATTTTCGTGTGACCTGAGCACAAATA
603362 AAATATTTTCGTGTGACCTGAGCACAAATA
1 AAATATTTTCGTGTGACCTGAGCACAAATA
603392 AAAT
1 AAAT
603396 TTCAGGGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (30 bp):
AAATATTTTCGTGTGACCTGAGCACAAATA
Found at i:608151 original size:65 final size:64
Alignment explanation
Indices: 608016--608160 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 64
608006 TGCACTAAGG
* * *
608016 ATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCAGAGTGCGTCAATGCATGGAGA
1 ATGCATCGGTGCATGAAATGCATTCGATGTTTGAAAAATA-CCAGAGTGCATCAATGCATGGAGA
* * *
608081 GTGCATCGGTGCATGAAATGCATTCGATGTTT-AATTAAAT--CATAGGTGCATCGATGCATGGA
1 ATGCATCGGTGCATGAAATGCATTCGATGTTTGAA--AAATACCAGA-GTGCATCAATGCATGGA
*
608143 CTA
63 -GA
608146 ATGCATCGGTGCATG
1 ATGCATCGGTGCATG
608161 CCTTTGAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 17 0.25
65 44 0.65
66 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (64 bp):
ATGCATCGGTGCATGAAATGCATTCGATGTTTGAAAAATACCAGAGTGCATCAATGCATGGAGA
Found at i:610776 original size:24 final size:23
Alignment explanation
Indices: 610704--610784 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 23
610694 GCATGGTCTT
* *
610704 ATGCATCGATGCATATTCAAGGC
1 ATGCATCGATGCACATTCAAGGG
* *
610727 ATGCATCGGTG--CA-TCATGCGG
1 ATGCATCGATGCACATTCAAG-GG
610748 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
*
610772 ATGCACCGATGCA
1 ATGCATCGATGCA
610785 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
23 12 0.26
24 16 0.35
25 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:614659 original size:22 final size:21
Alignment explanation
Indices: 614617--614656 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
614607 GAGTTTATTT
*
614617 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
614638 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
614657 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:616676 original size:19 final size:19
Alignment explanation
Indices: 616652--616688 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
616642 AAAAATAGCC
616652 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
616671 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
616689 AAATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:617234 original size:32 final size:34
Alignment explanation
Indices: 617174--617239 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 34
617164 CCGAATATAT
617174 TAATATTTTAAAATAATTAAAATAATATATTTTA
1 TAATATTTTAAAATAATTAAAATAATATATTTTA
*
617208 TAATATTTT-TAATAATT-AAATAATATATTTTA
1 TAATATTTTAAAATAATTAAAATAATATATTTTA
617240 ACAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 15 0.48
33 7 0.23
34 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
TAATATTTTAAAATAATTAAAATAATATATTTTA
Found at i:618648 original size:14 final size:14
Alignment explanation
Indices: 618629--618658 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
618619 TCATTGTTAA
618629 AAATTGAGAGAGGG
1 AAATTGAGAGAGGG
618643 AAATTGAGAGAGGG
1 AAATTGAGAGAGGG
618657 AA
1 AA
618659 GACTACGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.13
Consensus pattern (14 bp):
AAATTGAGAGAGGG
Found at i:619159 original size:14 final size:14
Alignment explanation
Indices: 619137--619175 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
619127 CTGTCTATAA
*
619137 GCAGAGATTT-TTAC
1 GCAGGGATTTATT-C
619151 GCAGGGATTTATTC
1 GCAGGGATTTATTC
619165 GCAGGGATTTA
1 GCAGGGATTTA
619176 CTAACCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (14 bp):
GCAGGGATTTATTC
Found at i:620175 original size:29 final size:29
Alignment explanation
Indices: 620143--620252 Score: 103
Period size: 29 Copynumber: 3.6 Consensus size: 29
620133 ATTTTTATTT
*
620143 TAAGTACCTAAAGTATTTTTTTGTTAAAA
1 TAAGTACCTAAAGTATTTTTTAGTTAAAA
* * * *
620172 TAAGAACTTAAAGAAATCTTTTTGGTTAAAA
1 TAAGTACCTAAAG-TAT-TTTTTAGTTAAAA
*
620203 TAGGTAGGTACCTAAAGTATTTTTTAGTCAAAA
1 TA---A-GTACCTAAAGTATTTTTTAGTTAAAA
*
620236 TAATTACCTAAAGTATT
1 TAAGTACCTAAAGTATT
620253 GATTTTTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 24 0.37
30 3 0.05
31 14 0.22
33 13 0.20
34 3 0.05
35 8 0.12
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTAGTTAAAA
Found at i:623252 original size:55 final size:55
Alignment explanation
Indices: 623186--623303 Score: 236
Period size: 55 Copynumber: 2.1 Consensus size: 55
623176 AAAATCTTAG
623186 AACTATGGTATGCTTATGGATGTTACAGAAATTTACAGCACAACTTTGCATGAGT
1 AACTATGGTATGCTTATGGATGTTACAGAAATTTACAGCACAACTTTGCATGAGT
623241 AACTATGGTATGCTTATGGATGTTACAGAAATTTACAGCACAACTTTGCATGAGT
1 AACTATGGTATGCTTATGGATGTTACAGAAATTTACAGCACAACTTTGCATGAGT
623296 AACTATGG
1 AACTATGG
623304 CAGTTTACTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (55 bp):
AACTATGGTATGCTTATGGATGTTACAGAAATTTACAGCACAACTTTGCATGAGT
Found at i:624885 original size:19 final size:18
Alignment explanation
Indices: 624834--624886 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
624824 AAACTATTGA
624834 ATAATTAAAATA-ATCATT
1 ATAATTAAAATATAT-ATT
*
624852 ATAATGTACAA-ATATATT
1 ATAAT-TAAAATATATATT
624870 ACTAATTAAAATATATA
1 A-TAATTAAAATATATA
624887 AACAAGATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAATTAAAATATATATT
Found at i:625842 original size:29 final size:28
Alignment explanation
Indices: 625750--625842 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 28
625740 ATAAAATTGA
625750 AATGTTCAAAAAGTTTG-GGTACTAATTAG
1 AATGTTC-AAAAGTTTGAGG-ACTAATTAG
* * *
625779 AATGAATATC-ATAGTTTGAGGA-TGAAACTAA
1 AATG--T-TCAAAAGTTTGAGGACT--AATTAG
625810 AATGTTCAAAAGTTTGAGGACTAATTTAG
1 AATGTTCAAAAGTTTGAGGACTAA-TTAG
625839 AATG
1 AATG
625843 ATAATAATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
28 4 0.08
29 23 0.47
30 9 0.18
31 11 0.22
32 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (28 bp):
AATGTTCAAAAGTTTGAGGACTAATTAG
Found at i:625864 original size:60 final size:59
Alignment explanation
Indices: 625749--625884 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
625739 GATAAAATTG
* *
625749 AAATGTTCAAAAAGTTTGGGTACTAATTAGAATGAATATCATAGTTTGAGGATGAAACTA
1 AAATGTTC-AAAAGTTTGGGTACTAATTAGAATGAATATAATAGCTTGAGGATGAAACTA
* *
625809 AAATGTTCAAAAGTTTGAGG-ACTAATTTAGAATG-ATAATAATAGCTT-ATGTATGAAATTA
1 AAATGTTCAAAAGTTTG-GGTACTAA-TTAGAATGAAT-ATAATAGCTTGA-GGATGAAACTA
* *
625869 AAATATTTAAAAGTTT
1 AAATGTTCAAAAGTTT
625885 AATGACCGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 17 0.26
60 49 0.74
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (59 bp):
AAATGTTCAAAAGTTTGGGTACTAATTAGAATGAATATAATAGCTTGAGGATGAAACTA
Found at i:626150 original size:31 final size:29
Alignment explanation
Indices: 626107--626182 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 29
626097 ATTTTGACCT
626107 AAAATACTTTAGGTACCTATTTTAACCAA
1 AAAATACTTTAGGTACCTATTTTAACCAA
* * *
626136 AAATATAACTTTAGGTACTTATTTTGACTAA
1 AAA-AT-ACTTTAGGTACCTATTTTAACCAA
*
626167 AAAATACTTTAAGTAC
1 AAAATACTTTAGGTAC
626183 TTAAATGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.32
30 4 0.10
31 24 0.59
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (29 bp):
AAAATACTTTAGGTACCTATTTTAACCAA
Found at i:629495 original size:31 final size:31
Alignment explanation
Indices: 629459--629533 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
629449 TTAACTTATG
629459 GTGGTTATATTGAATCCTTTTAAACAGTTCA
1 GTGGTTATATTGAATCCTTTTAAACAGTTCA
* *
629490 GTGGTTTTATTGAATCCTTTTAAATAGTTCA
1 GTGGTTATATTGAATCCTTTTAAACAGTTCA
*
629521 ATGGTTATATTGA
1 GTGGTTATATTGA
629534 CACAAATTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (31 bp):
GTGGTTATATTGAATCCTTTTAAACAGTTCA
Found at i:637802 original size:29 final size:29
Alignment explanation
Indices: 637759--637841 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
637749 CTCACCTAAC
637759 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
637789 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
637818 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
637842 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:642564 original size:29 final size:29
Alignment explanation
Indices: 642521--642603 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
642511 CTCACCTAAC
642521 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
642551 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
642580 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
642604 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:647875 original size:4 final size:4
Alignment explanation
Indices: 647866--647904 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
647856 GTGCTTCAAG
*
647866 CATA CATA CATA CATA CATA CATA CATA CATG CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
647905 TTGATTTGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:648998 original size:16 final size:16
Alignment explanation
Indices: 648977--649007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
648967 TCTTCCATTT
648977 GAACTCAATCCGACCC
1 GAACTCAATCCGACCC
*
648993 GAACTCGATCCGACC
1 GAACTCAATCCGACC
649008 TGAAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.42, G:0.16, T:0.13
Consensus pattern (16 bp):
GAACTCAATCCGACCC
Found at i:649408 original size:29 final size:29
Alignment explanation
Indices: 649376--649432 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
649366 GCGACCTCCT
* * *
649376 AGGTCGCCATACACTCCGGGCGACCAAGG
1 AGGTCGCCATACACGCCCGACGACCAAGG
*
649405 AGGTCGCCATGCACGCCCGACGACCAAG
1 AGGTCGCCATACACGCCCGACGACCAAG
649433 CTTTTAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.37, G:0.30, T:0.09
Consensus pattern (29 bp):
AGGTCGCCATACACGCCCGACGACCAAGG
Found at i:651940 original size:24 final size:24
Alignment explanation
Indices: 651908--651953 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
651898 GGTTCATTAA
* *
651908 TGTTGTCGTCGTTATTATCGTTCT
1 TGTTATCGTCGTCATTATCGTTCT
*
651932 TGTTATCGTTGTCATTATCGTT
1 TGTTATCGTCGTCATTATCGTT
651954 GTCGTCGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.15, G:0.20, T:0.54
Consensus pattern (24 bp):
TGTTATCGTCGTCATTATCGTTCT
Found at i:652367 original size:21 final size:21
Alignment explanation
Indices: 652343--652386 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
652333 TCTAGTATTC
* *
652343 GAATTTGAGATTTCCATAGAT
1 GAATTTGAGATCTCCAGAGAT
652364 GAATTTGAGATCTCCAGAGAT
1 GAATTTGAGATCTCCAGAGAT
652385 GA
1 GA
652387 CAACCATCAA
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:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (21 bp):
GAATTTGAGATCTCCAGAGAT
Found at i:656119 original size:19 final size:19
Alignment explanation
Indices: 656049--656121 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
656039 TGTTGGACCC
* *
656049 AAAGTATCAAAACTTTAATG
1 AAAGTATCGAAACTAT-ATG
* *
656069 AAAGTTTTGAAACTAT-TG
1 AAAGTATCGAAACTATATG
*
656087 AGATAGTTTCGAAACTATATG
1 A-A-AGTATCGAAACTATATG
656108 AAAGTATCGAAACT
1 AAAGTATCGAAACT
656122 TTTTGGGCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 3 0.07
19 12 0.27
20 26 0.59
21 3 0.07
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (19 bp):
AAAGTATCGAAACTATATG
Found at i:658047 original size:6 final size:6
Alignment explanation
Indices: 658036--658060 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
658026 TTTAGGCCGT
658036 GGTAGA GGTAGA GGTAGA GGTAGA G
1 GGTAGA GGTAGA GGTAGA GGTAGA G
658061 AAGATGGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GGTAGA
Found at i:662854 original size:9 final size:9
Alignment explanation
Indices: 662840--662994 Score: 94
Period size: 9 Copynumber: 16.2 Consensus size: 9
662830 TTCAAACTCA
662840 CCCATGCCG
1 CCCATGCCG
662849 CCCATGCCG
1 CCCATGCCG
* *
662858 CCCATCATGTCA
1 -CC--CATGCCG
662870 CCCATGCCG
1 CCCATGCCG
* *
662879 CCCATCATGTCA
1 -CC--CATGCCG
* *
662891 CCCATACCA
1 CCCATGCCG
*
662900 CCCATTCCG
1 CCCATGCCG
*
662909 CCCATGCCA
1 CCCATGCCG
*
662918 CCCATTCCG
1 CCCATGCCG
*
662927 CCCATGCCA
1 CCCATGCCG
*
662936 CCCATTCCG
1 CCCATGCCG
*
662945 CCCATTCCG
1 CCCATGCCG
*
662954 CCCATGCCAC
1 CCCATGCC-G
*
662964 CCATCATGTCG
1 CC--CATGCCG
*
662975 CCCATACCG
1 CCCATGCCG
662984 CCCATGCCG
1 CCCATGCCG
662993 CC
1 CC
662995 GAAGTTCTGA
Statistics
Matches: 112, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
9 85 0.76
10 6 0.05
11 6 0.05
12 15 0.13
ACGTcount: A:0.17, C:0.53, G:0.13, T:0.17
Consensus pattern (9 bp):
CCCATGCCG
Found at i:662873 original size:21 final size:21
Alignment explanation
Indices: 662849--662904 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
662839 ACCCATGCCG
662849 CCCATGCCGCCCATCATGTCA
1 CCCATGCCGCCCATCATGTCA
662870 CCCATGCCGCCCATCATGTCA
1 CCCATGCCGCCCATCATGTCA
* *
662891 CCCATACCACCCAT
1 CCCATGCCGCCCAT
662905 TCCGCCCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.50, G:0.11, T:0.18
Consensus pattern (21 bp):
CCCATGCCGCCCATCATGTCA
Found at i:662922 original size:27 final size:27
Alignment explanation
Indices: 662884--662967 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
662874 TGCCGCCCAT
* * * * *
662884 CATGTCACCCATACCACCCATTCCGCC
1 CATGCCACCCATTCCGCCCATGCCACC
662911 CATGCCACCCATTCCGCCCATGCCACC
1 CATGCCACCCATTCCGCCCATGCCACC
* *
662938 CATTCCGCCCATTCCGCCCATGCCACC
1 CATGCCACCCATTCCGCCCATGCCACC
662965 CAT
1 CAT
662968 CATGTCGCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.19, C:0.54, G:0.10, T:0.18
Consensus pattern (27 bp):
CATGCCACCCATTCCGCCCATGCCACC
Found at i:662967 original size:18 final size:18
Alignment explanation
Indices: 662891--662949 Score: 109
Period size: 18 Copynumber: 3.3 Consensus size: 18
662881 CATCATGTCA
*
662891 CCCATACCACCCATTCCG
1 CCCATGCCACCCATTCCG
662909 CCCATGCCACCCATTCCG
1 CCCATGCCACCCATTCCG
662927 CCCATGCCACCCATTCCG
1 CCCATGCCACCCATTCCG
662945 CCCAT
1 CCCAT
662950 TCCGCCCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.19, C:0.56, G:0.08, T:0.17
Consensus pattern (18 bp):
CCCATGCCACCCATTCCG
Found at i:667563 original size:12 final size:12
Alignment explanation
Indices: 667546--667575 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
667536 CTCTAATTTC
*
667546 AATTATTAATTA
1 AATTATTAATCA
667558 AATTATTAATCA
1 AATTATTAATCA
667570 AATTAT
1 AATTAT
667576 ACATGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTATTAATCA
Found at i:668435 original size:16 final size:16
Alignment explanation
Indices: 668414--668446 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
668404 TTTAGAATGA
668414 TTAAATGTTGAATAAT
1 TTAAATGTTGAATAAT
668430 TTAAATGTTGAATAAT
1 TTAAATGTTGAATAAT
668446 T
1 T
668447 CAGAGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (16 bp):
TTAAATGTTGAATAAT
Found at i:670657 original size:21 final size:21
Alignment explanation
Indices: 670633--670794 Score: 135
Period size: 21 Copynumber: 7.9 Consensus size: 21
670623 TTGAAAATCG
670633 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * *
670654 CGTTGCGAT--TTTTCA-TTT
1 CGTTGCGATAGTCTACAGTGT
670672 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
* * *
670695 CGTTGCGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
670713 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
670736 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * *
670757 CGTTGCGACT-TTCCA-AAT-T
1 CGTTGCGA-TAGTCTACAGTGT
670776 CGTTGCGATAGTCTACAGT
1 CGTTGCGATAGTCTACAGT
670795 AAATTAAAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
18 5 0.05
19 20 0.18
20 22 0.20
21 50 0.45
22 9 0.08
23 4 0.04
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:670679 original size:20 final size:20
Alignment explanation
Indices: 670654--670723 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
670644 TCTACAGTGT
*
670654 CGTTGCGATTTTTCATTTCG
1 CGTTGCGATTTTACATTTCG
* *
670674 CGTTGCGATAGTCTACA-GT-G
1 CGTTGCGAT--TTTACATTTCG
*
670694 TCGTTGCGATTTTCCATTTCG
1 -CGTTGCGATTTTACATTTCG
670715 CGTTGCGAT
1 CGTTGCGAT
670724 AGTCTACAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
21 11 0.28
22 4 0.10
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTACATTTCG
Found at i:670679 original size:41 final size:41
Alignment explanation
Indices: 670630--670744 Score: 221
Period size: 41 Copynumber: 2.8 Consensus size: 41
670620 TAGTTGAAAA
*
670630 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
670671 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
670712 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT
670745 AGTCTACAGT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
Found at i:670740 original size:62 final size:61
Alignment explanation
Indices: 670674--670794 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 61
670664 TTTCATTTCG
* *
670674 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGTCGTTGCGACTTTCCAAATT--CGTTGCGATAGTCTACAGTGT
670736 CGTTGCGATAGTCTACAGTGTCGTTGCGACTTTCCAAATTCGTTGCGATAGTCTACAGT
1 CGTTGCGATAGTCTACAGTGTCGTTGCGACTTTCCAAATTCGTTGCGATAGTCTACAGT
670795 AAATTAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 19 0.34
62 34 0.61
63 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (61 bp):
CGTTGCGATAGTCTACAGTGTCGTTGCGACTTTCCAAATTCGTTGCGATAGTCTACAGTGT
Found at i:671533 original size:41 final size:41
Alignment explanation
Indices: 671487--671617 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
671477 TTTTTAATTT
*
671487 GCGAAATGGAAAATCGCAACGACACTGTACACTGTCGCAAC
1 GCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAAC
*
671528 GCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAAC
1 GCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAAC
* * *
671569 GCGAAAAGGAAAATCGCAACG-CGA-TTTTCAACTATCGCAAC
1 GCGAAATGGAAAATCGCAACGAC-ACTGTAC-ACTATCGCAAC
671610 GCGAAATG
1 GCGAAATG
671618 CAGCGCGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 3 0.04
41 78 0.96
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.15
Consensus pattern (41 bp):
GCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAAC
Found at i:671546 original size:20 final size:20
Alignment explanation
Indices: 671521--671592 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
671511 CTGTACACTG
671521 TCGCAACGCGAAATGGAAAA
1 TCGCAACGCGAAATGGAAAA
* **
671541 TCGCAA--CGACACTGTAGACTA
1 TCGCAACGCGA-AATG--GAAAA
*
671562 TCGCAACGCGAAAAGGAAAA
1 TCGCAACGCGAAATGGAAAA
671582 TCGCAACGCGA
1 TCGCAACGCGA
671593 TTTTCAACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 20 0.50
21 9 0.22
22 2 0.05
23 3 0.08
ACGTcount: A:0.40, C:0.25, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAATGGAAAA
Found at i:679162 original size:23 final size:23
Alignment explanation
Indices: 679136--679179 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
679126 TATTATGTAC
**
679136 CGCTTATATAATGTAATAGGTAG
1 CGCTTATATAATAAAATAGGTAG
679159 CGCTTATATAATAAAATAGGT
1 CGCTTATATAATAAAATAGGT
679180 TAATTACTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (23 bp):
CGCTTATATAATAAAATAGGTAG
Found at i:679307 original size:23 final size:23
Alignment explanation
Indices: 679280--679369 Score: 153
Period size: 23 Copynumber: 3.9 Consensus size: 23
679270 TAACCTATTT
*
679280 TATAAGCGCTACCTATTAAATTA
1 TATAAGCGCTACCTATTACATTA
679303 TATAAGCGCTACCTATTACATTA
1 TATAAGCGCTACCTATTACATTA
*
679326 TATAAGCGTTACCTATTACATTA
1 TATAAGCGCTACCTATTACATTA
*
679349 TATAATCGCTACCTATTACAT
1 TATAAGCGCTACCTATTACAT
679370 CATAGTTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
TATAAGCGCTACCTATTACATTA
Found at i:680041 original size:274 final size:275
Alignment explanation
Indices: 679552--680103 Score: 1034
Period size: 274 Copynumber: 2.0 Consensus size: 275
679542 GTTTCAAAAT
*
679552 TTTTTAATATTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1 TTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
679617 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATTTTAACCAA
66 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAA
* *
679682 ATATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAA
131 AGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCGTAA
679747 CATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAA-A
196 CATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAGA
679811 TAACATAACCAGTTA
261 TAACATAACCAGTTA
* *
679826 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCGTTTACACAAAAAA
1 TTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
679891 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAA
66 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAA
679956 AGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCGTAA
131 AGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCGTAA
680021 CATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAGA
196 CATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAGA
*
680086 TAACATAACCGGTTA
261 TAACATAACCAGTTA
680101 TTT
1 TTT
680104 ACTTGAAACA
Statistics
Matches: 270, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
274 252 0.93
275 18 0.07
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (275 bp):
TTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCGTAA
CATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAGA
TAACATAACCAGTTA
Found at i:692596 original size:35 final size:35
Alignment explanation
Indices: 692546--692657 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 35
692536 AGTTACGCCT
* * * *
692546 AAATGATTTTCAAAGTTTGATAAATGTTTTTTTAA
1 AAATGGTTTTTAAAGTTTGGTAAATGTTTTTTGAA
* *
692581 AAATGGTTTTTAAAGTTGGGTAAATATTTCTTTGAA
1 AAATGGTTTTTAAAGTTTGGTAAATGTTT-TTTGAA
* * *
692617 AAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTGAA
1 AAATGGTTTTT-AAAGTTTGGTAAATGTTTTTTGAA
692653 AAATG
1 AAATG
692658 ATAATGAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 24 0.38
36 24 0.38
37 15 0.24
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.45
Consensus pattern (35 bp):
AAATGGTTTTTAAAGTTTGGTAAATGTTTTTTGAA
Found at i:692626 original size:36 final size:35
Alignment explanation
Indices: 692552--692656 Score: 120
Period size: 36 Copynumber: 2.9 Consensus size: 35
692542 GCCTAAATGA
* * * *
692552 TTTTCAAAGTTTGATAAATGTTTTTTTAAAAATGG
1 TTTTTAAAGTTTGGTAAATGTTTTTTGAAAAATAG
* *
692587 TTTTTAAAGTTGGGTAAATATTTCTTTGAAAAATAG
1 TTTTTAAAGTTTGGTAAATGTTT-TTTGAAAAATAG
* *
692623 TTTTTCAAAGTTTGGTAGATGTTTGTTGAAAAAT
1 TTTTT-AAAGTTTGGTAAATGTTTTTTGAAAAAT
692657 GATAATGAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 19 0.33
36 24 0.41
37 15 0.26
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (35 bp):
TTTTTAAAGTTTGGTAAATGTTTTTTGAAAAATAG
Found at i:696754 original size:6 final size:6
Alignment explanation
Indices: 696743--696769 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
696733 GTGCGAGCGA
696743 GAGAGG GAGAGG GAGAGG GAGAGG GAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAG
696770 GCCTGGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:698558 original size:3 final size:3
Alignment explanation
Indices: 698550--698587 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
698540 GACGTGTGAC
698550 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
698588 ATATATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:703178 original size:2 final size:2
Alignment explanation
Indices: 703173--703201 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
703163 AATATTTTCT
703173 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
703202 TATTAAGGGA
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:707893 original size:29 final size:29
Alignment explanation
Indices: 707856--707928 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
707846 CGTTTGAAAC
*
707856 TTTAAACACCTAAATTGACTGAAAAATAA
1 TTTAGACACCTAAATTGACTGAAAAATAA
707885 TTTAGACACCTAAATTGACTGAAAAATAA
1 TTTAGACACCTAAATTGACTGAAAAATAA
707914 TTTAGACACCTAAAT
1 TTTAGACACCTAAAT
707929 GAGAAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (29 bp):
TTTAGACACCTAAATTGACTGAAAAATAA
Found at i:707948 original size:31 final size:29
Alignment explanation
Indices: 707856--707953 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
707846 CGTTTGAAAC
* ***
707856 TTTAAACACCTAAATTGACTGAAAAATAA
1 TTTAGACACCTAAATTGAAAAAAAAATAA
***
707885 TTTAGACACCTAAATTGACTGAAAAATAA
1 TTTAGACACCTAAATTGAAAAAAAAATAA
707914 TTTAGACACCTAAA-TGAGAAAAAATATATAA
1 TTTAGACACCTAAATTGA-AAAAAA-A-ATAA
*
707945 TTTAAACAC
1 TTTAGACAC
707954 TTATTTTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
28 3 0.05
29 45 0.74
30 1 0.02
31 12 0.20
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (29 bp):
TTTAGACACCTAAATTGAAAAAAAAATAA
Found at i:710418 original size:251 final size:247
Alignment explanation
Indices: 709915--710475 Score: 621
Period size: 251 Copynumber: 2.2 Consensus size: 247
709905 ATTTTTATTC
* *
709915 AATATATGAATTAGAAACCCGACCCGACACGACACAAAATAATAAAAAAATTATTTTTATTCAAT
1 AATATATGAATTAGAAA-CCGACCCG--AC--C-CGAAATAATAAAAAAAATATTTTTATTCAAT
* *
709980 AAAAACATTGACTTAATTGGAAAAATATATATATAGAGAAGGGTATTATTGTAATTATTCATAAA
60 AAAAACAGTGACTTAATTGGAAAAATATATATATAGAGAAGGGTATTATTATAATTATTCATAAA
* * * * * *
710045 TATATAAGGTAAAATTATATATTTTTTTAGGGTCGGGTCCGGTTTTTTTCACCCTAAACCTGAAC
125 TATATAAGGTAAAATCATATATATATTT---GTCGGGTCCGGGTATTTTCACCCTAAACCCGAAC
* *
710110 ATGACTCGAATATCACACTTAAAAAACCCGACCCGGACAAAATAAAGTTTCACCCGACCCG
187 ATGACTCGAATATCACACTTAAAAAAACAGACCCGGACAAAATAAAGTTTCACCCGACCCG
710171 AATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATAAAAA
1 AATATATGAATTAGAAA-CCGACCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATAAAAA
* * *
710236 CAGTGACTTAATT-GAAAAA-AT-TATATATAGATGGGTATTATTATAATTATTCCTAAATATAT
65 CAGTGACTTAATTGGAAAAATATATATATAGAGAAGGGTATTATTATAATTATTCATAAATATAT
*
710298 AAGTTAAAATCATA-A-ATATTT-TCGGGT-CGGGTATTTTCACCCTAAACCCGAAC-TCGACTC
130 AAGGTAAAATCATATATATATTTGTCGGGTCCGGGTATTTTCACCCTAAACCCGAACAT-GA--C
* * *
710358 GATCCGAATATTACACTTAAAAAAACAGA-TCTGACCAAAATAAAGTTTCACCCGACCCGACCCG
192 --T-CGAATATCACACTTAAAAAAACAGACCCGGA-CAAAATAAAGTTT----C-ACCCGACCCG
* * *
710422 AATATATAAATTAG-AA---ACCTGACTCGAAATAAT--AAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAAACCGACCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATA
710476 TATGAATAAG
Statistics
Matches: 270, Mismatches: 23, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
240 1 0.00
241 25 0.09
242 6 0.02
243 1 0.00
244 21 0.08
245 4 0.01
246 54 0.20
247 1 0.00
248 49 0.18
249 2 0.01
250 9 0.03
251 69 0.26
252 1 0.00
254 2 0.01
256 25 0.09
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (247 bp):
AATATATGAATTAGAAACCGACCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATAAAAAC
AGTGACTTAATTGGAAAAATATATATATAGAGAAGGGTATTATTATAATTATTCATAAATATATA
AGGTAAAATCATATATATATTTGTCGGGTCCGGGTATTTTCACCCTAAACCCGAACATGACTCGA
ATATCACACTTAAAAAAACAGACCCGGACAAAATAAAGTTTCACCCGACCCG
Found at i:723346 original size:87 final size:87
Alignment explanation
Indices: 723200--723358 Score: 273
Period size: 87 Copynumber: 1.8 Consensus size: 87
723190 AATATCCTGA
* *
723200 TGTTGCATTCCAATTGATTCAGAGTGCTTATGTTTCTGCAGAATCTCAATTCCTCCAACAGCTGA
1 TGTTGCATTCCAATTGATTCAGAGTGCTTACGTTCCTGCAGAATCTCAATTCCTCCAACAGCTGA
723265 GGCATCATCAGTTAAATCATGT
66 GGCATCATCAGTTAAATCATGT
* * *
723287 TGTTGCATTCCAATTGGTTCAGCGTGTTTACGTTCCTGCAGAATCTCAATTCCTCCAACAGCTGA
1 TGTTGCATTCCAATTGATTCAGAGTGCTTACGTTCCTGCAGAATCTCAATTCCTCCAACAGCTGA
723352 GGCATCA
66 GGCATCA
723359 ACTGTTAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (87 bp):
TGTTGCATTCCAATTGATTCAGAGTGCTTACGTTCCTGCAGAATCTCAATTCCTCCAACAGCTGA
GGCATCATCAGTTAAATCATGT
Found at i:724266 original size:25 final size:25
Alignment explanation
Indices: 724238--724286 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
724228 ACCCGCTAAT
724238 GTGCACCCAAAGAAAACCCACTATC
1 GTGCACCCAAAGAAAACCCACTATC
* * *
724263 GTGCACCTAGAGAAAACCCGCTAT
1 GTGCACCCAAAGAAAACCCACTAT
724287 TGGGATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.33, G:0.16, T:0.14
Consensus pattern (25 bp):
GTGCACCCAAAGAAAACCCACTATC
Found at i:726753 original size:23 final size:23
Alignment explanation
Indices: 726722--726786 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
726712 CTTATATGGT
726722 ACTTCGGTGCATTTCTACGTGGC
1 ACTTCGGTGCATTTCTACGTGGC
* *
726745 ACTTAGGTGCAATTCTACGTGGC
1 ACTTCGGTGCATTTCTACGTGGC
*
726768 ACTTCGGTGCATTTATACG
1 ACTTCGGTGCATTTCTACG
726787 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACGTGGC
Found at i:731814 original size:23 final size:23
Alignment explanation
Indices: 731784--731852 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
731774 ACATCTTATA
731784 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
731807 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
731830 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
731853 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:732239 original size:2 final size:2
Alignment explanation
Indices: 732232--732294 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
732222 ATGCAATAAG
732232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
732274 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
732295 GTTTGGATGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:733175 original size:30 final size:29
Alignment explanation
Indices: 733118--733175 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
733108 AATTTGACTA
**
733118 GTGACTAAGATGTAAATTTTTAAAGTTTT
1 GTGACTAAGATGTAAATTTGAAAAGTTTT
733147 GTGACTATAG-TGTAAACTTTGAAAAGTTT
1 GTGACTA-AGATGTAAA-TTTGAAAAGTTT
733176 AGGGACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (29 bp):
GTGACTAAGATGTAAATTTGAAAAGTTTT
Found at i:734399 original size:22 final size:22
Alignment explanation
Indices: 734357--734402 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
734347 ATGGTGTGTT
734357 AATGCTGAATTTTAATATTAGA
1 AATGCTGAATTTTAATATTAGA
*
734379 AATGCTAGAATTTTAA-GTTAGA
1 AATGCT-GAATTTTAATATTAGA
734401 AA
1 AA
734403 GTTGATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (22 bp):
AATGCTGAATTTTAATATTAGA
Found at i:736545 original size:19 final size:17
Alignment explanation
Indices: 736503--736537 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
736493 GAAAGTTATG
736503 AAATATGTTCGAATGAA
1 AAATATGTTCGAATGAA
736520 AAATATG-TCAGAATGAA
1 AAATATGTTC-GAATGAA
736537 A
1 A
736538 GGAATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (17 bp):
AAATATGTTCGAATGAA
Found at i:737451 original size:60 final size:60
Alignment explanation
Indices: 737352--737486 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 60
737342 ATATCATATG
* * * * * * *
737352 TCCCTAAACTATAACTTTCATTTTAAATTATTCCTTAAACTTTTAAATATTTTAATTTCA
1 TCCCTAAACTATGACTCTCATTCTAAAATATTCCTTAAACTTTTAAACATTCTAATTCCA
*
737412 TCCCCAAACTATGACTCTCATTCTAAAATAGTT-CTTAAACTTTTAAACATTCTAATTCCA
1 TCCCTAAACTATGACTCTCATTCTAAAATA-TTCCTTAAACTTTTAAACATTCTAATTCCA
*
737472 TCCCTAAACCATGAC
1 TCCCTAAACTATGAC
737487 CCATTTCCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 62 0.97
61 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (60 bp):
TCCCTAAACTATGACTCTCATTCTAAAATATTCCTTAAACTTTTAAACATTCTAATTCCA
Found at i:737512 original size:60 final size:60
Alignment explanation
Indices: 737388--737515 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
737378 ATTATTCCTT
* * * * * **
737388 AAACTTTTAAATATTTTAATTTCATCCCCAAACTATGACTCTCATTCTAAAATAGTTCTT
1 AAACTTTTAAACATTCTAATTCCATCCCCAAACCATGACTCTCATTCTAAAATAGTCCAC
* *
737448 AAACTTTTAAACATTCTAATTCCATCCCTAAACCATGAC-C-CATTTCCTAAATTAGTCCAC
1 AAACTTTTAAACATTCTAATTCCATCCCCAAACCATGACTCTCA-TT-CTAAAATAGTCCAC
737508 AAACTTTT
1 AAACTTTT
737516 GAATATTCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 2 0.04
59 3 0.05
60 52 0.91
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (60 bp):
AAACTTTTAAACATTCTAATTCCATCCCCAAACCATGACTCTCATTCTAAAATAGTCCAC
Found at i:742077 original size:18 final size:19
Alignment explanation
Indices: 742054--742089 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
742044 AAGTGATATA
742054 AATATC-AAACAACTTAAC
1 AATATCTAAACAACTTAAC
*
742072 AATATCTAAACAATTTAA
1 AATATCTAAACAACTTAA
742090 AATCATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
AATATCTAAACAACTTAAC
Found at i:742214 original size:20 final size:21
Alignment explanation
Indices: 742189--742234 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
742179 CTTATGATTT
742189 TATCAAAACCATGATAAAC-A
1 TATCAAAACCATGATAAACAA
*
742209 TATCAAAGCCATGATAAACAA
1 TATCAAAACCATGATAAACAA
742230 TATCA
1 TATCA
742235 TACATAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.22
Consensus pattern (21 bp):
TATCAAAACCATGATAAACAA
Found at i:742313 original size:13 final size:13
Alignment explanation
Indices: 742297--742343 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
742287 CATTTCTTAT
742297 TTTCATAATTCAC
1 TTTCATAATTCAC
*
742310 TTTCAT-ATCCAC
1 TTTCATAATTCAC
* * *
742322 TTTCACATTTCAT
1 TTTCATAATTCAC
742335 TTTCATAAT
1 TTTCATAAT
742344 CAGTACTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTCATAATTCAC
Found at i:744331 original size:30 final size:30
Alignment explanation
Indices: 744297--744354 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
744287 ATCAACCTCA
* *
744297 TAACTTTTA-AAAATTATCAAATAGGTCCCC
1 TAACTTTCACAAAATTA-CAAAAAGGTCCCC
744327 TAACTTTCACAAAATTACAAAAAGGTCC
1 TAACTTTCACAAAATTACAAAAAGGTCC
744355 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (30 bp):
TAACTTTCACAAAATTACAAAAAGGTCCCC
Found at i:745615 original size:31 final size:31
Alignment explanation
Indices: 745547--745636 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
745537 GGTGTTACAG
* * *
745547 TTACAAAATAGTCATTAAAATTTACCAAACTG
1 TTACAAAATAGTC-TTTAAATTTATCAAACTA
* * *
745579 CTACAAAATAGTCTTTAAATTTATCATATTA
1 TTACAAAATAGTCTTTAAATTTATCAAACTA
* *
745610 TTACAAAAT-GATCCTTAAAATTATCAA
1 TTACAAAATAG-TCTTTAAATTTATCAA
745637 CATTTATTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
30 1 0.02
31 34 0.72
32 12 0.26
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (31 bp):
TTACAAAATAGTCTTTAAATTTATCAAACTA
Found at i:746925 original size:21 final size:21
Alignment explanation
Indices: 746899--746943 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
746889 GATTTCTGGG
* *
746899 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
746920 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
746941 CAA
1 CAA
746944 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:747589 original size:23 final size:24
Alignment explanation
Indices: 747546--747592 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
747536 ATATGGCATG
*
747546 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
747570 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
747593 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:747808 original size:31 final size:31
Alignment explanation
Indices: 747770--747925 Score: 217
Period size: 31 Copynumber: 5.0 Consensus size: 31
747760 AGGGTCGAGG
*
747770 GTTTACCTATGTTCTTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
747801 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
747832 GATTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
747863 GTTTACCTAT-TTCCTTCGGGACATATGGACT
1 GTTTACCTATGTT-CTTCGGGACATATGGACT
* * *
747894 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
747925 G
1 G
747926 GTCCTTCGGG
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
30 2 0.02
31 107 0.96
32 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:747924 original size:62 final size:62
Alignment explanation
Indices: 747772--747925 Score: 242
Period size: 62 Copynumber: 2.5 Consensus size: 62
747762 GGTCGAGGGT
747772 TTACCTATGTTCTTCTGG-ACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTC-GGAACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
*
747834 TTACCTATGTTCTTCGGAACATACGGACTGTTTACCTAT-TTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTT-CTTCGGGACATATGGACTGA
*
747896 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
747926 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
61 4 0.05
62 81 0.94
63 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:750777 original size:21 final size:21
Alignment explanation
Indices: 750751--750795 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
750741 GATTTCTGGG
* *
750751 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
750772 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
750793 CAA
1 CAA
750796 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:751441 original size:23 final size:24
Alignment explanation
Indices: 751398--751444 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
751388 ATATGGCATG
*
751398 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
751422 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
751445 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:751660 original size:31 final size:31
Alignment explanation
Indices: 751622--751777 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
751612 AGGGTCGAGG
*
751622 GTTTACCTATGTTCTTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
751653 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
751684 GATTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
751715 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
751746 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
751777 G
1 G
751778 GTCCTTCGGG
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
31 111 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:751776 original size:62 final size:62
Alignment explanation
Indices: 751624--751777 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 62
751614 GGTCGAGGGT
*
751624 TTACCTATGTTCTTCTGG-ACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTC-GGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
751686 TTACCTATGTTCTTCGGAACATACGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
751748 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
751778 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 2 0.02
62 83 0.97
63 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
Found at i:762433 original size:17 final size:15
Alignment explanation
Indices: 762401--762435 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
762391 GGATATATTC
762401 AAATTATTTTATTTT
1 AAATTATTTTATTTT
762416 AAATTAATTTTAATTTT
1 AAATT-ATTTT-ATTTT
762433 AAA
1 AAA
762436 AATATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTATTTTATTTT
Found at i:764466 original size:150 final size:151
Alignment explanation
Indices: 764010--764670 Score: 905
Period size: 153 Copynumber: 4.4 Consensus size: 151
764000 CATTTTCTGT
* * * * * * * *
764010 TTGTGGTTGGTAGATTGGTTTCGTGCTGTAGCTAGGCTTTTCGGTCTCTTCTGGCATTGGTTTTT
1 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTTT
* * * * * * *
764075 CCATGTCTT-CTGGCCGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTTTCTTCCTT
66 CCTTCTCTTACTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCCTG
*
764139 CTTTGACTCTGGCTTTCCTTG
131 CTTTGACTCTGGCTTTCCTGG
*
764160 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTCT
1 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTTT
* *
764225 CTTTCTCTTGACCTGGCTGTGGTTTGTAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCC
66 CCTTCTCTT-A-CTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCC
*
764290 TGCTTTGACTCTGGCTTTTCTGG
129 TGCTTTGACTCTGGCTTTCCTGG
* * * *
764313 TTGTGGTTGATAGGCTGGTTTTGTGCTATAACCTGGCTTTTCTGTCTCTTCAGGCATTGGTTTTT
1 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTTT
* * * *
764378 CCTTGTCTT-CTGGCTGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTTTCTTCCTG
66 CCTTCTCTTACTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCCTG
*
764442 CTTTGACTCTGGCTTTCCTTG
131 CTTTGACTCTGGCTTTCCTGG
*
764463 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTGTCTCTTCTGGCATTGGCTTTT
1 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTTT
* *
764528 CTTTCTCTTGACCTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCT
66 CCTTCTCTT-A-CTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCC
*
764593 TGTTTTGACTCTGGC-TTCTCTGG
129 TGCTTTGACTCTGGCTTTC-CTGG
* * * * * *
764616 TTGTAGCTGATAGGCTGGTTTTGTGCTATAACTAGACTTTCCTGTCTCTTCTGGC
1 TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGC
764671 TGTGGTTTGT
Statistics
Matches: 453, Mismatches: 51, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
150 199 0.44
152 3 0.01
153 251 0.55
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (151 bp):
TTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGCTTTTCTGTCTCTTCTGGCATTGGCTTTT
CCTTCTCTTACTGGCTGTGGTTTATAGTAATATGGCTTGGTGCCATAATCAGGCTTTTCTTCCTG
CTTTGACTCTGGCTTTCCTGG
Found at i:764549 original size:303 final size:303
Alignment explanation
Indices: 764002--764666 Score: 1116
Period size: 303 Copynumber: 2.2 Consensus size: 303
763992 CTTTTCTTCA
* * ** * * * * *
764002 TTTTCTGTTTGTGGTTGGTAGATTGGTTTCGTGCTGTAGCTAGGCTTTTCGGTCTCTTCTGGCAT
1 TTTTCTGGTTGTGGTTGATAGGCTGGTTTTGTGCTATAACTAGGCTTTTCTGTCTCTTCAGGCAT
764067 TGGTTTTTCCATGTCTTCTGGCCGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTTT
66 TGGTTTTTCCATGTCTTCTGGCCGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTTT
* *
764132 CTTCCTTCTTTGACTCTGGCTTTCCTTGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGGC
131 CTTCCTGCTTTGACTCTGGCTTTCCTTGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGAC
*
764197 TTTTCTGTCTCTTCTGGCATTGGCTTCTCTTTCTCTTGACCTGGCTGTGGTTTGTAGTAATATGG
196 TTTTCTGTCTCTTCTGGCATTGGCTTCTCTTTCTCTTGACCTGGCTGTGGTTTATAGTAATATGG
764262 CTTGGTGCCATAATCAGGCTTTTCTTCCTGCTTTGACTCTGGC
261 CTTGGTGCCATAATCAGGCTTTTCTTCCTGCTTTGACTCTGGC
764305 TTTTCTGGTTGTGGTTGATAGGCTGGTTTTGTGCTATAACCT-GGCTTTTCTGTCTCTTCAGGCA
1 TTTTCTGGTTGTGGTTGATAGGCTGGTTTTGTGCTATAA-CTAGGCTTTTCTGTCTCTTCAGGCA
* *
764369 TTGGTTTTTCCTTGTCTTCTGGCTGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTT
65 TTGGTTTTTCCATGTCTTCTGGCCGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTT
764434 TCTTCCTGCTTTGACTCTGGCTTTCCTTGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGA
130 TCTTCCTGCTTTGACTCTGGCTTTCCTTGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGA
*
764499 CTTTTCTGTCTCTTCTGGCATTGGCTTTTCTTTCTCTTGACCTGGCTGTGGTTTATAGTAATATG
195 CTTTTCTGTCTCTTCTGGCATTGGCTTCTCTTTCTCTTGACCTGGCTGTGGTTTATAGTAATATG
* *
764564 GCTTGGTGCCATAATCAGGCTTTTCTTCTTGTTTTGACTCTGGC
260 GCTTGGTGCCATAATCAGGCTTTTCTTCCTGCTTTGACTCTGGC
* * * * *
764608 TTCTCTGGTTGTAGCTGATAGGCTGGTTTTGTGCTATAACTAGACTTTCCTGTCTCTTC
1 TTTTCTGGTTGTGGTTGATAGGCTGGTTTTGTGCTATAACTAGGCTTTTCTGTCTCTTC
764667 TGGCTGTGGT
Statistics
Matches: 338, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
302 2 0.01
303 334 0.99
304 2 0.01
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (303 bp):
TTTTCTGGTTGTGGTTGATAGGCTGGTTTTGTGCTATAACTAGGCTTTTCTGTCTCTTCAGGCAT
TGGTTTTTCCATGTCTTCTGGCCGTGGTTTATAGTAATTTGGCTTTGTTCCATAATCAGGCTTTT
CTTCCTGCTTTGACTCTGGCTTTCCTTGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGAC
TTTTCTGTCTCTTCTGGCATTGGCTTCTCTTTCTCTTGACCTGGCTGTGGTTTATAGTAATATGG
CTTGGTGCCATAATCAGGCTTTTCTTCCTGCTTTGACTCTGGC
Found at i:769417 original size:59 final size:59
Alignment explanation
Indices: 769350--769489 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 59
769340 TAAGTTTATT
**
769350 GACTATTAAAAGTTACAAAATATCCTTTGACTATAAAGTATTACTTTGTTGAACTCTTTC
1 GACTATTAAAAGTTACAAAATATCCTTTGACTATAAAGTATTACTTTGTTGAAC-CCCTC
* * * *
769410 -AGTATTAAAAGTTACAAAATATCCTTTGACTATGAAGTGTTACTTTGTTGAGCCCCTC
1 GACTATTAAAAGTTACAAAATATCCTTTGACTATAAAGTATTACTTTGTTGAACCCCTC
769468 GACTATTAAAAGTTACAAAATA
1 GACTATTAAAAGTTACAAAATA
769490 GTCAACTGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
58 3 0.04
59 69 0.96
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (59 bp):
GACTATTAAAAGTTACAAAATATCCTTTGACTATAAAGTATTACTTTGTTGAACCCCTC
Found at i:774265 original size:7 final size:6
Alignment explanation
Indices: 774248--774358 Score: 71
Period size: 7 Copynumber: 16.3 Consensus size: 6
774238 TATGTTTTGG
*
774248 GGTTTA TGGTTTTA GGTTTA GGGTTTA GGTTTTA TAGTTTA GGGTATT-
1 GGTTTA -GG-TTTA GGTTTA -GGTTTA GG-TTTA -GGTTTA -GGT-TTA
774296 GGATTTA GAGTTTA GAGTTTA GGGTTTA GGTTTA GGATTTA TGGTTTA
1 GG-TTTA G-GTTTA G-GTTTA -GGTTTA GGTTTA GG-TTTA -GGTTTA
*
774344 GGTTTTA GGGTTA GG
1 GG-TTTA GGTTTA GG
774359 GTTCATTACA
Statistics
Matches: 88, Mismatches: 4, Indels: 25
0.75 0.03 0.21
Matches are distributed among these distances:
6 25 0.28
7 52 0.59
8 11 0.12
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (6 bp):
GGTTTA
Found at i:774273 original size:21 final size:21
Alignment explanation
Indices: 774247--774355 Score: 109
Period size: 21 Copynumber: 5.2 Consensus size: 21
774237 TTATGTTTTG
774247 GGGTTTATGGTTTTAGGTTTA
1 GGGTTTATGGTTTTAGGTTTA
*
774268 GGGTTTA-GGTTTTATAGTTTA
1 GGGTTTATGGTTTTA-GGTTTA
* *
774289 GGGTAT-TGGATTTAGAGTTTA
1 GGGTTTATGGTTTTAG-GTTTA
* *
774310 GAGTTTA-GGGTTTAGGTTTA
1 GGGTTTATGGTTTTAGGTTTA
*
774330 GGATTTATGG-TTTAGGTTTTA
1 GGGTTTATGGTTTTAGG-TTTA
774351 GGGTT
1 GGGTT
774356 AGGGTTCATT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
20 23 0.32
21 49 0.68
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (21 bp):
GGGTTTATGGTTTTAGGTTTA
Found at i:774350 original size:14 final size:14
Alignment explanation
Indices: 774236--774361 Score: 100
Period size: 14 Copynumber: 9.1 Consensus size: 14
774226 TATAATCGGA
* *
774236 TTTATGTTTTGGGG
1 TTTATGGTTTAGGG
774250 TTTATGGTTTTA-GG
1 TTTATGG-TTTAGGG
* *
774264 TTTAGGGTTTAGGT
1 TTTATGGTTTAGGG
*
774278 TTTATAGTTTAGGG
1 TTTATGGTTTAGGG
* *
774292 TAT-TGGATTTAGAG
1 TTTATGG-TTTAGGG
774306 TTTA-GAGTTTAGGG
1 TTTATG-GTTTAGGG
*
774320 TTTA-GGTTTAGGA
1 TTTATGGTTTAGGG
*
774333 TTTATGGTTTAGGT
1 TTTATGGTTTAGGG
*
774347 TTTA-GGGTTAGGG
1 TTTATGGTTTAGGG
774360 TT
1 TT
774362 CATTACAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
13 26 0.29
14 60 0.67
15 4 0.04
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:774495 original size:11 final size:11
Alignment explanation
Indices: 774481--774543 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
774471 GTATTATAGA
774481 ATTTTTAATAT
1 ATTTTTAATAT
774492 ATTTTTAA-A-
1 ATTTTTAATAT
774501 ATTTTATAAT-T
1 ATTTT-TAATAT
** **
774512 ATTAATAATGC
1 ATTTTTAATAT
*
774523 ATTTTTAAAAT
1 ATTTTTAATAT
774534 ATTTTTAATA
1 ATTTTTAATA
774544 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:774668 original size:20 final size:20
Alignment explanation
Indices: 774641--774684 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
774631 GGGATAATAT
774641 ATATATATAGATGGATGGATGG
1 ATATAT-TA-ATGGATGGATGG
*
774663 ATATATTAATGGGTGGATGG
1 ATATATTAATGGATGGATGG
774683 AT
1 AT
774685 GATGCGGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (20 bp):
ATATATTAATGGATGGATGG
Found at i:775471 original size:12 final size:11
Alignment explanation
Indices: 775446--775505 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
775436 TAAAAACTAG
*
775446 TATTTAAAATA
1 TATTTAATATA
775457 TATTTATATATA
1 TATTTA-ATATA
*
775469 TATTTAGTAT-
1 TATTTAATATA
775479 T-TTTAATATA
1 TATTTAATATA
*
775489 TATTTTA-ATA
1 TATTTAATATA
775499 TATTTAA
1 TATTTAA
775506 ATACCAGCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 7 0.17
10 11 0.27
11 13 0.32
12 10 0.24
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTTAATATA
Found at i:775477 original size:30 final size:29
Alignment explanation
Indices: 775443--775504 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
775433 TTCTAAAAAC
775443 TAGTA-TTTAAAATATATTTATATATATATT
1 TAGTATTTTAAAATATATTT-TA-ATATATT
*
775473 TAGTATTTTTAATATATATTTTAATATATT
1 TAGTA-TTTTAAAATATATTTTAATATATT
775503 TA
1 TA
775505 AATACCAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 14 0.48
31 2 0.07
32 13 0.45
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
TAGTATTTTAAAATATATTTTAATATATT
Found at i:775489 original size:22 final size:21
Alignment explanation
Indices: 775453--775505 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
775443 TAGTATTTAA
775453 AATATATTT-ATATATATATTT
1 AATATATTTAATATATAT-TTT
* *
775474 AGTATTTTTAATATATATTTT
1 AATATATTTAATATATATTTT
775495 AATATATTTAA
1 AATATATTTAA
775506 ATACCAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATATATTTAATATATATTTT
Found at i:775678 original size:67 final size:67
Alignment explanation
Indices: 775597--775728 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
775587 CAGTAAATGT
*
775597 AAAAGAAAACTAAATATTAAATTTAGTTTAAAAATATACATATTTTAAATTT-AAATTTTGAAGG
1 AAAAGAAAAATAAATATTAAATTTAGTTTAAAAA-ATACATATTTTAAATTTAAAATTTTGAAGG
775661 TAA
65 TAA
*
775664 AAAAGAAAAATAAATATTAAATTTAGTTTAAAAAATACATATTTTAATTTTAAAATTTTGAAGGT
1 AAAAGAAAAATAAATATTAAATTTAGTTTAAAAAATACATATTTTAAATTTAAAATTTTGAAGGT
775729 GACATTAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 16 0.26
67 46 0.74
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (67 bp):
AAAAGAAAAATAAATATTAAATTTAGTTTAAAAAATACATATTTTAAATTTAAAATTTTGAAGGT
AA
Found at i:777395 original size:36 final size:36
Alignment explanation
Indices: 777324--777396 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
777314 GTTGGAAAAT
*
777324 ATTTATATATTTTTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTTTTAAAAAAATTAAAGTCATAAA
*
777360 ATTTATATAATTTTTTT-ACAAAATTGAAAGT-ATAAA
1 ATTTATAT-ATTTTTTTAAAAAAATT-AAAGTCATAAA
777396 A
1 A
777397 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 21 0.64
37 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (36 bp):
ATTTATATATTTTTTTAAAAAAATTAAAGTCATAAA
Found at i:778016 original size:20 final size:20
Alignment explanation
Indices: 777991--778046 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
777981 ATCCTATTCC
777991 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
778011 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
778031 CTGGTAATCTTACATT
1 CTGGTAATCTTACATT
778047 TCATGAACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.38
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:778674 original size:21 final size:21
Alignment explanation
Indices: 778633--778677 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
778623 TTGAAATAAA
**
778633 AAATAAATAAATATTTTCATT
1 AAATAAATAAATATTACCATT
*
778654 AAATAAATAAATGTTACCATT
1 AAATAAATAAATATTACCATT
778675 AAA
1 AAA
778678 AGGAAACAAT
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:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAAATAAATATTACCATT
Found at i:780986 original size:59 final size:60
Alignment explanation
Indices: 780914--781049 Score: 132
Period size: 60 Copynumber: 2.3 Consensus size: 60
780904 AGTAAAGGGT
* ** ** * *
780914 AAAG-TACACAAATGGTCCT-TAATTATAGGGTACTATTTTATTAAGTCTTTCGACTATTA
1 AAAGTTACA-AAATGGTCCTCTAAATATAGAATACTATTTTATTAAGTCCATCCACAATTA
* * ** * *
780973 AAAGTTACAAAATGATACTCTAAATATAGAATGTTGTTTTGTTAAGTCCATCCACAATTA
1 AAAGTTACAAAATGGTCCTCTAAATATAGAATACTATTTTATTAAGTCCATCCACAATTA
781033 AAAGTTACAAAATGGTC
1 AAAGTTACAAAATGGTC
781050 ACCTAACTAT
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
59 12 0.20
60 48 0.80
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCTCTAAATATAGAATACTATTTTATTAAGTCCATCCACAATTA
Found at i:784986 original size:2 final size:2
Alignment explanation
Indices: 784979--785011 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
784969 ATCATTTCAT
784979 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 T
785012 TAAGTTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:786642 original size:40 final size:40
Alignment explanation
Indices: 786585--786661 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
786575 ACAGTTAAGG
* *
786585 GTGTTTGGGTGAGAGTAGTACTAGGATGGGTGACCTCAGC
1 GTGTTTGGGTGAAAGTAGTACTAAGATGGGTGACCTCAGC
786625 GTGTTTGGGCT-AAAGTAGTACTAAGATGGGTGACCTC
1 GTGTTTGGG-TGAAAGTAGTACTAAGATGGGTGACCTC
786662 CTAGGAAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.36, T:0.29
Consensus pattern (40 bp):
GTGTTTGGGTGAAAGTAGTACTAAGATGGGTGACCTCAGC
Found at i:787901 original size:29 final size:29
Alignment explanation
Indices: 787840--787901 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
787830 TAATAAAGTT
* *
787840 TAATATTTTATAATTTTATTTTATTATAA
1 TAATATTTTAAAATTTTATTTTATTAAAA
787869 -AATATTTTACAAATTTTATTTT-TTAAAA
1 TAATATTTTA-AAATTTTATTTTATTAAAA
787897 TAATA
1 TAATA
787902 CATTAACTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATATTTTAAAATTTTATTTTATTAAAA
Found at i:788963 original size:20 final size:19
Alignment explanation
Indices: 788927--788995 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
788917 CTATTTTTGT
*
788927 TATCGATACC-GGTAGGGG
1 TATCGATACCAAGTAGGGG
788945 TATCGATACCAAAGTAGGGTAG
1 TATCGATACC-AAGTAGGG--G
* *
788967 TATCGATACCATGATAAGGG
1 TATCGATACCAAG-TAGGGG
788987 TATCGATAC
1 TATCGATAC
788996 AAAACAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 10 0.23
20 16 0.37
21 2 0.05
22 15 0.35
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (19 bp):
TATCGATACCAAGTAGGGG
Found at i:789044 original size:95 final size:95
Alignment explanation
Indices: 788867--789070 Score: 250
Period size: 95 Copynumber: 2.1 Consensus size: 95
788857 ATATCGATGA
* * * * * *
788867 GGTAGTATTGATACCATGATAAGGGGTATCGATACCAAGCAACTTCGAATCTATTTTTGTTATCG
1 GGTAGTATCGATACCATGATAAGGGGTATCGATACAAAACAACATCGAAACTATTTTTGGTATCG
***
788932 ATACCGGTAGGGGTATCGATACCAAAGTAG
66 ATACCCAAAGGGGTATCGATACCAAAGTAG
788962 GGTAGTATCGATACCATGATAA-GGGTATCGATACAAAACAACATC-AAACATATTTTTGGTATC
1 GGTAGTATCGATACCATGATAAGGGGTATCGATACAAAACAACATCGAAAC-TATTTTTGGTATC
* * *
789025 GATACCCAAAGGGAGTATCGGTACCATAGTAT
65 GATACCCAAAGGG-GTATCGATACCAAAGTAG
* *
789057 AGAAGTATCGATAC
1 GGTAGTATCGATAC
789071 TAGGGTAGTA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
93 3 0.03
94 42 0.45
95 48 0.52
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGGGTATCGATACAAAACAACATCGAAACTATTTTTGGTATCG
ATACCCAAAGGGGTATCGATACCAAAGTAG
Found at i:789381 original size:2 final size:2
Alignment explanation
Indices: 789376--789406 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
789366 ATATATTGTA
789376 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
789407 TAATACTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:789510 original size:55 final size:55
Alignment explanation
Indices: 789426--789745 Score: 473
Period size: 55 Copynumber: 5.8 Consensus size: 55
789416 GTGTGCTACT
*
789426 GGCACTTCATGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
1 GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
* *
789481 GGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCATCGTACA
1 GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
*
789536 GGCACTTCGTGTGCATATTCTCAGAATTCATCATGAGTTGATGAATCACCGTACA
1 GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
* *
789591 TGCACTTCGTGTGCATATTCACAAAATTCATCATGAGTTGATGAATCACCGTACA
1 GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
* * * * *
789646 GACACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCGTACA
1 GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
* *** *
789701 TGCACTAT-GTGTGCA-GCCCACGGAATTCATCATGAGTTGATGAAT
1 GGCACT-TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAAT
789746 TCTCGTATAG
Statistics
Matches: 244, Mismatches: 20, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
54 28 0.11
55 215 0.88
56 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
GGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACA
Found at i:794300 original size:20 final size:20
Alignment explanation
Indices: 794275--794338 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
794265 ATTAACATAA
*
794275 ACGAATTTGATTTTTGTGTT
1 ACGAATTTGATTTATGTGTT
* *
794295 ACGAATTT-AATTATCTCGTT
1 ACGAATTTGATTTATGT-GTT
*
794315 ACGAATTTGACTTATGTGTT
1 ACGAATTTGATTTATGTGTT
794335 ACGA
1 ACGA
794339 TTTATAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.70
21 6 0.16
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (20 bp):
ACGAATTTGATTTATGTGTT
Found at i:794680 original size:31 final size:31
Alignment explanation
Indices: 794645--794703 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
794635 TATAAGATAC
794645 AATCACTTTCGTTTTTATTTAATTAAGAAAT
1 AATCACTTTCGTTTTTATTTAATTAAGAAAT
794676 AATCACTTTCGTTTTTATTTAATTAAGA
1 AATCACTTTCGTTTTTATTTAATTAAGA
794704 TGTGGTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (31 bp):
AATCACTTTCGTTTTTATTTAATTAAGAAAT
Found at i:797149 original size:3 final size:3
Alignment explanation
Indices: 797141--797207 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
797131 GAATCGAGTT
* * * * * * * *
797141 TTA TTA TTA TTA ATA TTA ATA ATA ATA ATA ATA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
797189 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
797208 AGTTGTCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Done.