Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_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: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:580461 original size:21 final size:20
Alignment explanation
Indices: 580435--580477 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
580425 ATATTTGAAT
580435 AAAACTTAAAATAAAAAAGAA
1 AAAACTTAAAA-AAAAAAGAA
* *
580456 AAAACTTGAAAAGAAAAGAA
1 AAAACTTAAAAAAAAAAGAA
580476 AA
1 AA
580478 GAGAAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAACTTAAAAAAAAAAGAA
Found at i:590366 original size:18 final size:18
Alignment explanation
Indices: 590340--590383 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
590330 GTGAAGTATG
*
590340 AATGGTGTTGTCGTGGCA
1 AATGTTGTTGTCGTGGCA
*
590358 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGCA
*
590376 AGTGTTGT
1 AATGTTGT
590384 AAGGTTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.41
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGCA
Found at i:596772 original size:18 final size:18
Alignment explanation
Indices: 596746--596789 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
596736 GTGAAGTATG
*
596746 AATGGTGTTGTCGTGGCA
1 AATGTTGTTGTCGTGGCA
*
596764 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGCA
*
596782 AGTGTTGT
1 AATGTTGT
596790 AAGGTTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.41
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGCA
Found at i:602317 original size:36 final size:36
Alignment explanation
Indices: 602270--602341 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
602260 ATAAAAGTCA
602270 CGGGTTTGAACATTAGCGACTGTAGCAGGGTGATTG
1 CGGGTTTGAACATTAGCGACTGTAGCAGGGTGATTG
*
602306 CGGGTTTGAACATTAGCGACTGTAGCATGGTGATTG
1 CGGGTTTGAACATTAGCGACTGTAGCAGGGTGATTG
602342 AGTGTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (36 bp):
CGGGTTTGAACATTAGCGACTGTAGCAGGGTGATTG
Found at i:602877 original size:43 final size:43
Alignment explanation
Indices: 602816--602905 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
602806 GTGAATATTG
* * *
602816 ATTTTTGTTGAAAGGAGAAATAAGATTACGGTGATTTTTTACA
1 ATTTTTGTTGAAAGGAGAAACAAGATTACGGTGAGTTTTGACA
* *
602859 ATTTTTGTTGAAAGGAGAAACAAGATTGCGGTGGGTTTTGACA
1 ATTTTTGTTGAAAGGAGAAACAAGATTACGGTGAGTTTTGACA
602902 ATTT
1 ATTT
602906 ATCTCTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (43 bp):
ATTTTTGTTGAAAGGAGAAACAAGATTACGGTGAGTTTTGACA
Found at i:604348 original size:41 final size:41
Alignment explanation
Indices: 604271--604350 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
604261 TATGTATAAT
* * *
604271 GCGTACATGTTAATATTAATTTTTGAGAGAGGGAGAGAGAG
1 GCGTACAAGTCAATATTAATTTTTGAGAGAGAGAGAGAGAG
604312 GCGTACAAGTCAATA-TAGATTTTTGAGTA-AGAGAGAGAG
1 GCGTACAAGTCAATATTA-ATTTTTGAG-AGAGAGAGAGAG
604351 TCCCTCCTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 2 0.06
41 31 0.91
42 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (41 bp):
GCGTACAAGTCAATATTAATTTTTGAGAGAGAGAGAGAGAG
Found at i:605248 original size:14 final size:16
Alignment explanation
Indices: 605229--605265 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
605219 CTAAACAACT
605229 TTTAATATT-TT-AAA
1 TTTAATATTATTCAAA
605243 TTTAATATTATTCAAA
1 TTTAATATTATTCAAA
*
605259 TTAAATA
1 TTTAATA
605266 AATATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAATATTATTCAAA
Found at i:610734 original size:33 final size:33
Alignment explanation
Indices: 610692--610759 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
610682 CAAAGAAAAT
610692 AAAAGATGTGGGCATTGTAGAAACCTAGGCCAC
1 AAAAGATGTGGGCATTGTAGAAACCTAGGCCAC
*
610725 AAAAGATGTGGGCATTGTAGAAACTTAGGCCAC
1 AAAAGATGTGGGCATTGTAGAAACCTAGGCCAC
610758 AA
1 AA
610760 TAGAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (33 bp):
AAAAGATGTGGGCATTGTAGAAACCTAGGCCAC
Found at i:612031 original size:21 final size:21
Alignment explanation
Indices: 611983--612034 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
611973 ATCTTCAAGA
*
611983 AGTATCGATACCTAAGGATGT
1 AGTATCGATACCTAAGGATCT
* *
612004 AGCATCGATACC-AAGGGGTCT
1 AGTATCGATACCTAA-GGATCT
612025 AGTATCGATA
1 AGTATCGATA
612035 TCATTATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
AGTATCGATACCTAAGGATCT
Found at i:612878 original size:21 final size:21
Alignment explanation
Indices: 612847--613009 Score: 129
Period size: 21 Copynumber: 7.9 Consensus size: 21
612837 TCGAGGGCTC
*
612847 TATGTAGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
612868 TATGTGATCCTTTGGTACATA
1 TATGTGGTCCTTCGGGACATA
*
612889 TATGAGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
612910 TATTTGGTCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
* * *
612931 TATGTGGTCTTTAGGGACAATTT
1 TATGTGGTCCTTCGGGAC-A-TA
*
612954 TATGTGGTCATTCGGG--ATA
1 TATGTGGTCCTTCGGGACATA
* * *
612973 -A--TCGTCCTTTGGGACATC
1 TATGTGGTCCTTCGGGACATA
*
612991 TATGTGGTCCTTCGAGACA
1 TATGTGGTCCTTCGGGACA
613010 ATTTATATGG
Statistics
Matches: 108, Mismatches: 27, Indels: 14
0.72 0.18 0.09
Matches are distributed among these distances:
16 9 0.08
18 3 0.03
19 2 0.02
20 1 0.01
21 77 0.71
22 1 0.01
23 15 0.14
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:614183 original size:21 final size:21
Alignment explanation
Indices: 614113--614191 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
614103 ACCCTACGGT
* *
614113 GGTGGCATCTGAGCCGGCTGC
1 GGTGGCATCTGAACCGACTGC
* * *
614134 GATGGCATCTGAACCTACTAC
1 GGTGGCATCTGAACCGACTGC
** *
614155 GGCAGCATCTGAACCGATTGC
1 GGTGGCATCTGAACCGACTGC
*
614176 GGTGGCATTTGAACCG
1 GGTGGCATCTGAACCG
614192 GCGATCTAAC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (21 bp):
GGTGGCATCTGAACCGACTGC
Found at i:614782 original size:2 final size:2
Alignment explanation
Indices: 614775--614812 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
614765 AAACTAAAAC
614775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
614813 TCTTATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:615794 original size:18 final size:17
Alignment explanation
Indices: 615754--615798 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
615744 TCCTCTAATT
* *
615754 AAATAAATAGTATTAAA
1 AAATAAATAATACTAAA
*
615771 ATATAAACTAATACTAAA
1 AAATAAA-TAATACTAAA
615789 AAATAAATAA
1 AAATAAATAA
615799 AACATTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAATAATACTAAA
Found at i:616986 original size:15 final size:15
Alignment explanation
Indices: 616963--617005 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
616953 TTTTTAAATA
*
616963 ATTATTATATTTTAT
1 ATTAATATATTTTAT
616978 ATTAATATA-TTTAT
1 ATTAATATATTTTAT
*
616992 ATAAATATTATTTT
1 ATTAATA-TATTTT
617006 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATATATTTTAT
Found at i:617027 original size:34 final size:31
Alignment explanation
Indices: 616955--617043 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 31
616945 TTAGTATTTT
* *
616955 TTTAAATAATTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
*
616987 TTTATATAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
617021 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
617044 GAATTATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 8 0.16
32 14 0.29
33 3 0.06
34 24 0.49
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:617041 original size:19 final size:19
Alignment explanation
Indices: 616949--617043 Score: 57
Period size: 19 Copynumber: 5.5 Consensus size: 19
616939 TTTATGTTAG
* *
616949 TATTTTTTTAAATAATTAT
1 TATTTATTTATATAATTAT
616968 TA--TATTT-TAT-ATTA-
1 TATTTATTTATATAATTAT
* *
616982 -ATATATTTATATAAATAT
1 TATTTATTTATATAATTAT
* *
617000 TATTTTTTTAT-TAA--AA
1 TATTTATTTATATAATTAT
*
617016 TA-ATATTTATATAATTAT
1 TATTTATTTATATAATTAT
617034 TATTTATTTA
1 TATTTATTTA
617044 GAATTATTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 20
0.65 0.12 0.23
Matches are distributed among these distances:
13 1 0.02
15 15 0.27
16 11 0.20
17 7 0.12
18 6 0.11
19 16 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATTTATATAATTAT
Found at i:617217 original size:17 final size:17
Alignment explanation
Indices: 617191--617279 Score: 105
Period size: 17 Copynumber: 5.4 Consensus size: 17
617181 TTAATATTTA
*
617191 AATTTAAATTTATTTTT
1 AATTTTAATTTATTTTT
617208 AATTTTAATTTATTTTT
1 AATTTTAATTTATTTTT
*
617225 AA-TTT-ATATTAATTTT
1 AATTTTAAT-TTATTTTT
617241 AATTTTAATTTATTTTT
1 AATTTTAATTTATTTTT
*
617258 AA-TTT-ATATTAATTTT
1 AATTTTAAT-TTATTTTT
617274 AATTTT
1 AATTTT
617280 TTATAATGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.06
16 24 0.38
17 33 0.52
18 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTAATTTATTTTT
Found at i:617241 original size:33 final size:33
Alignment explanation
Indices: 617204--617279 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
617194 TTAAATTTAT
617204 TTTTAATTTTAATTTATTTTTAATTTATATTAA
1 TTTTAATTTTAATTTATTTTTAATTTATATTAA
617237 TTTTAATTTTAATTTATTTTTAATTTATATTAA
1 TTTTAATTTTAATTTATTTTTAATTTATATTAA
617270 TTTTAATTTT
1 TTTTAATTTT
617280 TTATAATGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (33 bp):
TTTTAATTTTAATTTATTTTTAATTTATATTAA
Found at i:617286 original size:16 final size:16
Alignment explanation
Indices: 617181--617278 Score: 83
Period size: 17 Copynumber: 5.8 Consensus size: 16
617171 ATAATTAATG
*
617181 TTAATATTTAAATTTAAA
1 TTAAT-TTT-AATTTATA
*
617199 TTTATTTTTAATTT-TAA
1 -TTAATTTTAATTTAT-A
*
617216 TTTATTTTTAATTTATA
1 -TTAATTTTAATTTATA
617233 TTAATTTTAATTT-TAA
1 TTAATTTTAATTTAT-A
*
617249 TTTATTTTTAATTTATA
1 -TTAATTTTAATTTATA
617266 TTAATTTTAATTT
1 TTAATTTTAATTT
617279 TTTATAATGT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.01
16 25 0.36
17 34 0.49
18 5 0.07
19 4 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTAATTTATA
Found at i:621060 original size:20 final size:21
Alignment explanation
Indices: 621006--621068 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
620996 GATTCCCCTG
621006 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
621030 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
621050 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
621069 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:624882 original size:22 final size:21
Alignment explanation
Indices: 624840--624879 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
624830 GAGTTTATTT
*
624840 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
624861 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
624880 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:628380 original size:21 final size:21
Alignment explanation
Indices: 628350--628397 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
628340 GCAGGGGTAC
* *
628350 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
628371 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
628392 ATGCCA
1 ATGCCA
628398 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:628427 original size:21 final size:21
Alignment explanation
Indices: 628401--628473 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
628391 TATGCCATCT
*
628401 CCGCAGGGTTACATTCCAAGC
1 CCGCAGGGTTACATTCCTAGC
628422 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
628443 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
628464 CCGCAGGGTT
1 CCGCAGGGTT
628474 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:628792 original size:15 final size:15
Alignment explanation
Indices: 628772--628809 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
628762 AAGAACAAGT
628772 TCCACGAAGAAATCC
1 TCCACGAAGAAATCC
628787 TCCACGAAGAAATCC
1 TCCACGAAGAAATCC
628802 TCCACGAA
1 TCCACGAA
628810 ATAGACAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.34, G:0.13, T:0.13
Consensus pattern (15 bp):
TCCACGAAGAAATCC
Found at i:629114 original size:34 final size:34
Alignment explanation
Indices: 629009--629115 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
628999 ATAAATGTTT
*
629009 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* *
629043 TAAAAATAAAAATAATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* * *
629077 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
629111 TTAAA
1 TTAAA
629116 TTTCAACTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAAA
Found at i:629739 original size:128 final size:128
Alignment explanation
Indices: 629511--629989 Score: 886
Period size: 128 Copynumber: 3.7 Consensus size: 128
629501 ACAATCCATC
*
629511 TAGTGTCCCCGAGGGACATGAGTGACATAAGAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
629576 AGAAGGCGCACCCCTGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
629639 TAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
629704 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
629767 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
629832 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
629895 TAGTGTCCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
629960 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
629990 TGTAAATAGT
Statistics
Matches: 342, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 342 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:630083 original size:8 final size:8
Alignment explanation
Indices: 630070--630110 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
630060 TCACAAGCTT
630070 TCAAATTC
1 TCAAATTC
630078 TCAAATTC
1 TCAAATTC
* *
630086 CCAAACTC
1 TCAAATTC
630094 T-AAATTC
1 TCAAATTC
630101 TCAAATTC
1 TCAAATTC
630109 TC
1 TC
630111 TAAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:639838 original size:147 final size:151
Alignment explanation
Indices: 639601--639898 Score: 453
Period size: 150 Copynumber: 2.0 Consensus size: 151
639591 TATTCCATAT
* * *
639601 ATAAATCATAGAAAAATTATTAATTTTTTTAAAAATATAATTTTATTATTTTATCGAGGAAACAC
1 ATAAATCATAGAAAAATGATTAAATTTTGTAAAAATATAATTTTATTATTTTATCGAGGAAACAC
639666 TTTACATACAACTAAAACAGAATAAATA-T-AAAAAATTGAATACGTGTATGATACATAGATTGA
66 TTTACATACAACTAAAACAGAATAAATATTAAAAAAATTGAATACGTGTATGATACATAGATTGA
*
639729 TTTTGAATAATAAATAAATAC
131 TTCTGAATAATAAATAAATAC
* * *
639750 ATAAATCATAGAAAAATGATTAAATTTTGTGAAAATAT-TTTTTATTATTTTTATTGA-G-AACA
1 ATAAATCATAGAAAAATGATTAAATTTTGTAAAAATATAATTTTATTA-TTTTATCGAGGAAACA
* * *
639812 CTTTACATACAACTAAAAGAGAATAAATATTAAAAAAAATTGAATGCGTGTATGATACATAGCTT
65 CTTTACATACAACTAAAACAGAATAAATATT-AAAAAAATTGAATACGTGTATGATACATAGATT
639877 GATTCTGAATAATAAATAAATA
129 GATTCTGAATAATAAATAAATA
639899 AAAAGAATTG
Statistics
Matches: 135, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
147 32 0.24
148 10 0.07
149 42 0.31
150 51 0.38
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (151 bp):
ATAAATCATAGAAAAATGATTAAATTTTGTAAAAATATAATTTTATTATTTTATCGAGGAAACAC
TTTACATACAACTAAAACAGAATAAATATTAAAAAAATTGAATACGTGTATGATACATAGATTGA
TTCTGAATAATAAATAAATAC
Found at i:640222 original size:115 final size:113
Alignment explanation
Indices: 639991--640210 Score: 239
Period size: 115 Copynumber: 1.9 Consensus size: 113
639981 TTAAATTTAT
* * * *
639991 TTCAAATTGAATGAATGAATAAGAGAAATGGAAAAAGATGGTCAAAAACCAAACATTTTATGAAC
1 TTCAAATTGAATGAATGAATAAGAGAAATGGAAAAAAAGGGCCAAAAACCAAACATTTTATGAAA
* * * * **
640056 TTATAAAAGTTAGGGGTCGATTATAAATATAAAATATTGGTTAAATTTAA
66 TTATAAAACTGAGGGGTCAATTATAAATATAAAAAATTGG-T-AACCTAA
* * *
640106 TTCAAAGTTGGATGAATTAATAAGAGAAAT-GAAAAAAAGGGCCAAAAACTAAA-ATTTTATGAA
1 TTCAAA-TTGAATGAATGAATAAGAGAAATGGAAAAAAAGGGCCAAAAACCAAACATTTTATGAA
640169 ATTATAAAAAACTGA-GGGTACTAATTATAAATATAAAAAATT
65 ATTAT--AAAACTGAGGGGT-C-AATTATAAATATAAAAAATT
640211 AGGACCCTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
114 14 0.16
115 29 0.33
116 28 0.31
117 18 0.20
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.28
Consensus pattern (113 bp):
TTCAAATTGAATGAATGAATAAGAGAAATGGAAAAAAAGGGCCAAAAACCAAACATTTTATGAAA
TTATAAAACTGAGGGGTCAATTATAAATATAAAAAATTGGTAACCTAA
Found at i:640539 original size:39 final size:39
Alignment explanation
Indices: 640481--640560 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
640471 AACTTGCAGG
640481 CAAGGAAGGGTCTCATATTCGAATGAAAGAAGCTCAAGA
1 CAAGGAAGGGTCTCATATTCGAATGAAAGAAGCTCAAGA
*
640520 CAAGGAAGGGTCTCCTATTCGAATGAAAGAAGCTCAAGA
1 CAAGGAAGGGTCTCATATTCGAATGAAAGAAGCTCAAGA
640559 CA
1 CA
640561 TGTTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (39 bp):
CAAGGAAGGGTCTCATATTCGAATGAAAGAAGCTCAAGA
Found at i:667338 original size:20 final size:20
Alignment explanation
Indices: 667313--667362 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
667303 AATTGTTCCA
667313 AAGGACCTATATATGTCCCG
1 AAGGACCTATATATGTCCCG
* * *
667333 AAGGACCTCTGTATGTCCTG
1 AAGGACCTATATATGTCCCG
*
667353 AAAGACCTAT
1 AAGGACCTAT
667363 GAACCCTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (20 bp):
AAGGACCTATATATGTCCCG
Found at i:668079 original size:95 final size:95
Alignment explanation
Indices: 667971--668169 Score: 389
Period size: 95 Copynumber: 2.1 Consensus size: 95
667961 TTCACATGAC
667971 TCTTATAATACTCTTTCATAAAGCTTTGTAGTTCTTATTTTTATAACTCTTATACCATAGTTTCC
1 TCTTATAATACTCTTTCATAAAGCTTTGTAGTTCTTATTTTTATAACTCTTATACCATAGTTTCC
668036 TTTAATTATAAATCTTCCCTATATCCCTTA
66 TTTAATTATAAATCTTCCCTATATCCCTTA
*
668066 TCTTATAATACTCTTTCATAAAGCTTTGTAGTTTTTATTTTTATAACTCTTATACCATAGTTTCC
1 TCTTATAATACTCTTTCATAAAGCTTTGTAGTTCTTATTTTTATAACTCTTATACCATAGTTTCC
668131 TTTAATTATAAATCTTCCCTATATCCCTTA
66 TTTAATTATAAATCTTCCCTATATCCCTTA
668161 TCTTATAAT
1 TCTTATAAT
668170 TTTGTATCAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (95 bp):
TCTTATAATACTCTTTCATAAAGCTTTGTAGTTCTTATTTTTATAACTCTTATACCATAGTTTCC
TTTAATTATAAATCTTCCCTATATCCCTTA
Found at i:680789 original size:20 final size:18
Alignment explanation
Indices: 680743--680790 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 18
680733 GAACCGACTA
*
680743 AAAATCGGTAAAACCGGG
1 AAAATCGGTAAAACCGGC
*
680761 ATGAATCGGCTGAAAACCGGC
1 A-AAATCGG-T-AAAACCGGC
680782 AAAATCGGT
1 AAAATCGGT
680791 TTGAATCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 7 0.29
21 9 0.38
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.15
Consensus pattern (18 bp):
AAAATCGGTAAAACCGGC
Found at i:681569 original size:10 final size:10
Alignment explanation
Indices: 681556--681586 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
681546 TATATAAAAT
681556 CCGATTGAAC
1 CCGATTGAAC
681566 CCGATTGAAC
1 CCGATTGAAC
681576 CCGATTGAAC
1 CCGATTGAAC
681586 C
1 C
681587 AGTGAATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (10 bp):
CCGATTGAAC
Found at i:684494 original size:21 final size:22
Alignment explanation
Indices: 684465--684505 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
684455 CCGAACACTC
**
684465 TTCTATTTCTTTTTCTTTTTTT
1 TTCTATTTCTTCATCTTTTTTT
684487 TTCT-TTTCTTCATCTTTTT
1 TTCTATTTCTTCATCTTTTT
684506 CAAATGTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTATTTCTTCATCTTTTTTT
Found at i:685344 original size:21 final size:21
Alignment explanation
Indices: 685319--685363 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
685309 ACCTAGGGTT
685319 GAGTATAAATACTTCCCATAA
1 GAGTATAAATACTTCCCATAA
**
685340 GAGTATCGATACTTCCCATAA
1 GAGTATAAATACTTCCCATAA
685361 GAG
1 GAG
685364 AATCGATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
GAGTATAAATACTTCCCATAA
Found at i:685368 original size:21 final size:21
Alignment explanation
Indices: 685327--685375 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
685317 TTGAGTATAA
*
685327 ATACTTCCCATAAGAGTATCG
1 ATACTTCCCATAAGAGAATCG
685348 ATACTTCCCATAAGAGAATCG
1 ATACTTCCCATAAGAGAATCG
685369 ATACTTC
1 ATACTTC
685376 TCATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (21 bp):
ATACTTCCCATAAGAGAATCG
Found at i:687689 original size:18 final size:18
Alignment explanation
Indices: 687658--687692 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
687648 AGCAGGTAAA
687658 TGAGCTATTCTTTCTTTT
1 TGAGCTATTCTTTCTTTT
687676 TGAGTCTATT-TTTCTTT
1 TGAG-CTATTCTTTCTTT
687693 AATTACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.63
Consensus pattern (18 bp):
TGAGCTATTCTTTCTTTT
Found at i:688641 original size:45 final size:45
Alignment explanation
Indices: 688592--688681 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
688582 TTGAAAAAGC
* *
688592 CTGAGTGCATCGATACATGCCT-TGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCAATACATG-CTATGTGCATCGATGCATAAAATGCA
* *
688637 CTGAGTGCATCAATGCATGGTATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCAATACATGCTATGTGCATCGATGCATAAAATGCA
688682 TTTGATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
CTGAGTGCATCAATACATGCTATGTGCATCGATGCATAAAATGCA
Found at i:688726 original size:20 final size:20
Alignment explanation
Indices: 688701--688738 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
688691 TGAAAAATTA
688701 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
688721 ATTGGTGCATCGATGCAT
1 ATTGGTGCATCGATGCAT
688739 CAATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:695285 original size:22 final size:21
Alignment explanation
Indices: 695260--695310 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
695250 CTGAATTTTT
695260 ATTTTCAAACTCTTCTAGTTTG
1 ATTTTCAAA-TCTTCTAGTTTG
* * *
695282 ATTTGCAAATCTTTTATTTTG
1 ATTTTCAAATCTTCTAGTTTG
*
695303 ACTTTCAA
1 ATTTTCAA
695311 GATCGTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTTTCAAATCTTCTAGTTTG
Found at i:695302 original size:21 final size:22
Alignment explanation
Indices: 695254--695303 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
695244 GCAAATCTGA
* *
695254 ATTTTTATTTTCAAACTCTTCT
1 ATTTTGATTTGCAAACTCTTCT
* *
695276 AGTTTGATTTGCAAA-TCTTTT
1 ATTTTGATTTGCAAACTCTTCT
695297 ATTTTGA
1 ATTTTGA
695304 CTTTCAAGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTTTGATTTGCAAACTCTTCT
Found at i:695385 original size:22 final size:21
Alignment explanation
Indices: 695343--695382 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
695333 GAGTTTATTT
*
695343 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
695364 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
695383 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:697354 original size:18 final size:19
Alignment explanation
Indices: 697308--697354 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
697298 GGACTCTCAG
*
697308 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
697327 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
697344 TGCATTCGATG
1 TGCA-TCGATG
697355 TTTTGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:697444 original size:45 final size:46
Alignment explanation
Indices: 697367--697457 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
697357 TTGAAAAATT
* * * *
697367 CTGAGTGCATTGATGTATAGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
*
697413 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
697458 GTCGGTGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 22 0.55
46 18 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
Found at i:700912 original size:20 final size:20
Alignment explanation
Indices: 700880--700917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
700870 AAATCAATAT
700880 AAACTAATCAAACCAAATTC
1 AAACTAATCAAACCAAATTC
700900 AAAC-AATCAAAACCAAAT
1 AAACTAATC-AAACCAAAT
700918 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACTAATCAAACCAAATTC
Found at i:703994 original size:30 final size:30
Alignment explanation
Indices: 703960--704039 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
703950 CAAAATGATT
*
703960 TTTGGACTTGAATTGAATTTACAAAACGTA
1 TTTGGACTTGAATTGAATTTACAAAACGAA
*
703990 TTTGGACTTGAATTGAATTTACAAAATGAA
1 TTTGGACTTGAATTGAATTTACAAAACGAA
704020 TTTGGACTT-AATTGAATTTA
1 TTTGGACTTGAATTGAATTTA
704040 TTCAAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 11 0.23
30 37 0.77
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (30 bp):
TTTGGACTTGAATTGAATTTACAAAACGAA
Found at i:704138 original size:19 final size:19
Alignment explanation
Indices: 704110--704154 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
704100 TTTTATGAAT
*
704110 AGTAATTTACTATTTAAAC
1 AGTAAATTACTATTTAAAC
*
704129 AGTAAATTACTATTTGAAC
1 AGTAAATTACTATTTAAAC
704148 AGTAAAT
1 AGTAAAT
704155 CAATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (19 bp):
AGTAAATTACTATTTAAAC
Found at i:704163 original size:19 final size:19
Alignment explanation
Indices: 704120--704170 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
704110 AGTAATTTAC
* * *
704120 TATTTAAACAGTAAATTAC
1 TATTTGAACAGTAAATCAA
704139 TATTTGAACAGTAAATCAA
1 TATTTGAACAGTAAATCAA
*
704158 TGTTTGAACAGTA
1 TATTTGAACAGTA
704171 CCCCGAGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (19 bp):
TATTTGAACAGTAAATCAA
Found at i:704303 original size:21 final size:21
Alignment explanation
Indices: 704277--704318 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
704267 ATTTGAATAT
*
704277 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
704298 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
704319 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:704642 original size:34 final size:32
Alignment explanation
Indices: 704603--704672 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
704593 TTTTGTAAAG
* * *
704603 GGGAAATGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
*
704637 GGGAAAGGTTATAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
704669 GGGA
1 GGGA
704673 GTTTGTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:712541 original size:38 final size:38
Alignment explanation
Indices: 712490--712567 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
712480 CGATTTACGG
*
712490 CTCGTACTGAATTAGAATATTACAATTAGATGAAAGAC
1 CTCGTACTGAATTAGAACATTACAATTAGATGAAAGAC
712528 CTCGTACTGAATTAGAACATTACAATTAGATGAAAGAC
1 CTCGTACTGAATTAGAACATTACAATTAGATGAAAGAC
712566 CT
1 CT
712568 GAAACTCGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (38 bp):
CTCGTACTGAATTAGAACATTACAATTAGATGAAAGAC
Found at i:713181 original size:12 final size:12
Alignment explanation
Indices: 713164--713514 Score: 548
Period size: 12 Copynumber: 29.4 Consensus size: 12
713154 GAACCATATC
*
713164 TCTATCTATCCA
1 TCTATCCATCCA
713176 TCTATCCATCCA
1 TCTATCCATCCA
*
713188 TCCATCCATCCA
1 TCTATCCATCCA
713200 TCTATCCATCCA
1 TCTATCCATCCA
713212 TCTATCCATCCA
1 TCTATCCATCCA
713224 TCTATCCATCCA
1 TCTATCCATCCA
713236 TCTATCCATCCA
1 TCTATCCATCCA
713248 TCTATCCATCCA
1 TCTATCCATCCA
713260 TCTATCCATCCA
1 TCTATCCATCCA
713272 TCTATCCATCCA
1 TCTATCCATCCA
713284 TCTATCCATCCA
1 TCTATCCATCCA
713296 TCTATCCATCCA
1 TCTATCCATCCA
713308 TCTATCCATCCA
1 TCTATCCATCCA
713320 TCTATCCATCCA
1 TCTATCCATCCA
713332 TCTAT-C-T--A
1 TCTATCCATCCA
*
713340 TCCATCCATCCA
1 TCTATCCATCCA
*
713352 TCCATCCATCCA
1 TCTATCCATCCA
713364 TCTATCCATCCA
1 TCTATCCATCCA
713376 TCTATCCATCCA
1 TCTATCCATCCA
713388 TCTATCCATCCA
1 TCTATCCATCCA
713400 TCTATCCATCCA
1 TCTATCCATCCA
713412 TCTATCCATCCA
1 TCTATCCATCCA
713424 TCTATCCATCCA
1 TCTATCCATCCA
713436 TCTATCCATCCA
1 TCTATCCATCCA
713448 TCTATCCATCCA
1 TCTATCCATCCA
* *
713460 TCTCTATCTATCTA
1 --TCTATCCATCCA
* *
713474 TCTATCTATCTA
1 TCTATCCATCCA
* *
713486 TCTATCTATCTA
1 TCTATCCATCCA
* *
713498 TCTATCTATCTA
1 TCTATCCATCCA
713510 TCTAT
1 TCTAT
713515 GGGTCTTATT
Statistics
Matches: 326, Mismatches: 7, Indels: 12
0.94 0.02 0.03
Matches are distributed among these distances:
8 5 0.02
9 1 0.00
10 2 0.01
11 1 0.00
12 307 0.94
14 10 0.03
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTATCCATCCA
Found at i:713543 original size:4 final size:4
Alignment explanation
Indices: 713534--713568 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
713524 TTGATTAAAG
* *
713534 ATTT ATTT ATTA ATTT ATTT ATTA ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
713569 AGGGTATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:713549 original size:12 final size:12
Alignment explanation
Indices: 713534--713646 Score: 84
Period size: 12 Copynumber: 9.0 Consensus size: 12
713524 TTGATTAAAG
713534 ATTTATTTATTA
1 ATTTATTTATTA
713546 ATTTATTTATTA
1 ATTTATTTATTA
713558 ATTTATTTATTA
1 ATTTATTTATTA
*** *
713570 GGGTATCTATCT-
1 ATTTATTTAT-TA
* * **
713582 ATCTATCTATGG
1 ATTTATTTATTA
*
713594 GTCTTATTTGATTAAA
1 AT-TTATTT-ATT--A
713610 GATTTATTTATTA
1 -ATTTATTTATTA
713623 ATTTATTTATTA
1 ATTTATTTATTA
713635 ATTTATTTATTA
1 ATTTATTTATTA
713647 GGGTTTCGTA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
12 62 0.77
13 6 0.08
14 2 0.03
15 3 0.04
16 6 0.08
17 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.58
Consensus pattern (12 bp):
ATTTATTTATTA
Found at i:713581 original size:77 final size:77
Alignment explanation
Indices: 713496--713650 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
713486 TCTATCTATC
713496 TATCTATCTATCTATCTATGGGTCTTATTTGATTAAAGATTTATTTATTAATTTATTTATTAATT
1 TATCTATCTATCTATCTATGGGTCTTATTTGATTAAAGATTTATTTATTAATTTATTTATTAATT
713561 TATTTATTAGGG
66 TATTTATTAGGG
713573 TATCTATCTATCTATCTATGGGTCTTATTTGATTAAAGATTTATTTATTAATTTATTTATTAATT
1 TATCTATCTATCTATCTATGGGTCTTATTTGATTAAAGATTTATTTATTAATTTATTTATTAATT
713638 TATTTATTAGGG
66 TATTTATTAGGG
713650 T
1 T
713651 TTCGTAATAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.06, G:0.10, T:0.55
Consensus pattern (77 bp):
TATCTATCTATCTATCTATGGGTCTTATTTGATTAAAGATTTATTTATTAATTTATTTATTAATT
TATTTATTAGGG
Found at i:713620 original size:4 final size:4
Alignment explanation
Indices: 713611--713645 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
713601 TTGATTAAAG
* *
713611 ATTT ATTT ATTA ATTT ATTT ATTA ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
713646 AGGGTTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:723361 original size:17 final size:17
Alignment explanation
Indices: 723339--723379 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
723329 TCACTTTACA
723339 TGTTTCTTTGAGTGTTG
1 TGTTTCTTTGAGTGTTG
723356 TGTTTCTTTGAGTGTTG
1 TGTTTCTTTGAGTGTTG
723373 TGTTTCT
1 TGTTTCT
723380 CAGGATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.05, C:0.07, G:0.27, T:0.61
Consensus pattern (17 bp):
TGTTTCTTTGAGTGTTG
Found at i:727019 original size:2 final size:2
Alignment explanation
Indices: 727014--727060 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
727004 TACGAGATTT
*
727014 TA TA TA TA TA TA TA TA TA TA GA 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
727056 TA TA T
1 TA TA T
727061 CTCACCTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:727861 original size:30 final size:30
Alignment explanation
Indices: 727825--727896 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
727815 CCCGAATGAC
*
727825 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
*
727855 CTATCCAGAGGTCATAAAGATCCTTGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
727885 CTGTCCATAGGT
1 CTATCCAGAGGT
727897 TCCGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:727921 original size:31 final size:31
Alignment explanation
Indices: 727883--728007 Score: 103
Period size: 31 Copynumber: 4.0 Consensus size: 31
727873 GATCCTTGGC
*
727883 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
* **
727914 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
* *
727945 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTTC-CGAAGA-ACATAGGTA
** * *
727976 ATTTGGTCCAAAAGTTCC-ATAGAACATAGGTA
1 AACT-GTCCATAGGTTCCGA-AGAACATAGGTA
728008 TACCCTCGAC
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
30 3 0.04
31 52 0.68
32 18 0.24
33 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (31 bp):
AACTGTCCATAGGTTCCGAAGAACATAGGTA
Found at i:729275 original size:64 final size:64
Alignment explanation
Indices: 729123--729279 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
729113 CAATAAGGGT
* * ** *
729123 ATGCATCGATGCACTA-TTGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACTTG-TGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
* * * *
729187 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCA-TAAAATACATTCGATG-TTCTATTATTAAAG
729248 AG
63 AG
729250 AGTGCATCGATGCACTACTTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
729280 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
63 3 0.04
64 63 0.83
65 10 0.13
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
Found at i:732454 original size:30 final size:30
Alignment explanation
Indices: 732418--732489 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
732408 CCCGAAGGAC
732418 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
732448 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
732478 CTGTCCATAGGT
1 CTATCCAGAGGT
732490 TCCGAAGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:732596 original size:32 final size:32
Alignment explanation
Indices: 732480--732600 Score: 115
Period size: 31 Copynumber: 3.8 Consensus size: 32
732470 CTTGGTAACT
* * *
732480 GTCCATAGGTTCCGA-AGAACCTAGGTAA-ACT
1 GTCCATATGTTCC-ATAGAACATAGGTAATACG
* *
732511 GTCCATATGTTCCTTAGAACATAGGT-ATACT
1 GTCCATATGTTCCATAGAACATAGGTAATACG
* * *
732542 GTCCATATGTCTCGAAAG-ACATAGGTAATTCG
1 GTCCATATGT-TCCATAGAACATAGGTAATACG
*
732574 GTCCAAATGTTCCATAGAACATAGGTA
1 GTCCATATGTTCCATAGAACATAGGTA
732601 TACACTCGAC
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
30 1 0.01
31 48 0.65
32 25 0.34
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (32 bp):
GTCCATATGTTCCATAGAACATAGGTAATACG
Found at i:737485 original size:40 final size:40
Alignment explanation
Indices: 737414--737490 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
737404 TTTCAATTTT
*
737414 TAACATTAACAATAGTTTTCCTAGGGAGTTTATTTCTCTC
1 TAACATTAACAATAGTTTGCCTAGGGAGTTTATTTCTCTC
* * *
737454 TAACATTAACAAT-GATTTGCTTAGTGTGTTTATTTCT
1 TAACATTAACAATAG-TTTGCCTAGGGAGTTTATTTCT
737491 TCACAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (40 bp):
TAACATTAACAATAGTTTGCCTAGGGAGTTTATTTCTCTC
Found at i:738437 original size:17 final size:18
Alignment explanation
Indices: 738401--738467 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
738391 GGACAATTTC
738401 ATTAAATGACGTAGTTTT
1 ATTAAATGACGTAGTTTT
*
738419 ATTAAATGAC-TATTTTT
1 ATTAAATGACGTAGTTTT
* *
738436 ATTCTCTAAACGGCGTAGTTTT
1 A---T-TAAATGACGTAGTTTT
738458 ATTAAATGAC
1 ATTAAATGAC
738468 TCTTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
17 7 0.18
18 16 0.42
19 1 0.03
20 1 0.03
21 6 0.16
22 7 0.18
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (18 bp):
ATTAAATGACGTAGTTTT
Found at i:738484 original size:39 final size:39
Alignment explanation
Indices: 738410--738484 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
738400 CATTAAATGA
** *
738410 CGTAGTTTTATTAAATGACTATTTTTATTCTCTAAACGG
1 CGTAGTTTTATTAAATGACTATTTTTAAACCCTAAACGG
*
738449 CGTAGTTTTATTAAATGACTCTTTTTAAACCCTAAA
1 CGTAGTTTTATTAAATGACTATTTTTAAACCCTAAA
738485 ATGACTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (39 bp):
CGTAGTTTTATTAAATGACTATTTTTAAACCCTAAACGG
Found at i:746435 original size:13 final size:15
Alignment explanation
Indices: 746417--746448 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
746407 TTTGAAGTAT
746417 TAATTATT-TTTTG-
1 TAATTATTCTTTTGA
746430 TAATTATTCTTTTGA
1 TAATTATTCTTTTGA
746445 TAAT
1 TAAT
746449 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 5 0.29
15 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (15 bp):
TAATTATTCTTTTGA
Found at i:747320 original size:30 final size:31
Alignment explanation
Indices: 747286--747345 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
747276 AATACTTACA
*
747286 TTATTTTATATCTTGC-ACATAATTATTTAG
1 TTATTTTATATCTTGCAAAATAATTATTTAG
* * *
747316 TTATTTTGTTTCTTTCAAAATAATTATTTA
1 TTATTTTATATCTTGCAAAATAATTATTTA
747346 AAATATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (31 bp):
TTATTTTATATCTTGCAAAATAATTATTTAG
Found at i:754531 original size:19 final size:19
Alignment explanation
Indices: 754509--754556 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
754499 AATGTTGAAT
*
754509 GAAAAAAAAGCAG-TTGTTC
1 GAAAAAAAAG-AGACTGTTC
*
754528 GAAAAAAGAGAGACTGTTC
1 GAAAAAAAAGAGACTGTTC
754547 GAAAGAAAAA
1 GAAA-AAAAA
754557 AAGAACACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAAAAAAAGAGACTGTTC
Found at i:756599 original size:19 final size:19
Alignment explanation
Indices: 756584--756628 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
756574 CACAGTAAAA
756584 AGAAAAAACACAAGTATAG
1 AGAAAAAACACAAGTATAG
*
756603 AGAAAAAACGCAAGTATAG
1 AGAAAAAACACAAGTATAG
756622 AGAAAAA
1 AGAAAAA
756629 TCTACTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (19 bp):
AGAAAAAACACAAGTATAG
Found at i:758849 original size:184 final size:184
Alignment explanation
Indices: 758499--758886 Score: 620
Period size: 184 Copynumber: 2.1 Consensus size: 184
758489 TTTTATAATT
* * * * *
758499 TATATAA-AAATTAAATATTTTATAATTAAAAAAATAGTTTATAATTAATTTAAATAATATACAA
1 TATATAATATATTTAATATTTTATAATTAAAAAAACAATTTACAATTAATTTAAATAATATACAA
758563 TTATAAAATAAAAATTTATATAATTTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTATT
66 TTATAAAATAAAAATTTATATAATTTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTATT
*
758628 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 GGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
* * * *
758682 TTTATAATATATTTAATATTTTTTAATTTAGAAAAACAATTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAA-TTAAAAAAACAATTTACAATTAATTTAAATAATATACA
*
758747 ATTATAAAATAAAAATTTTATATAA-TTTTTTAATTAATTAATATTGATTTAGG-TTAAAAGTTA
65 ATTATAAAATAAAAA-TTTATATAATTTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
*
758810 TTGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCTCATATGTTA
129 TTGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
*
758866 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
758887 AAAATTTTAT
Statistics
Matches: 188, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
183 6 0.03
184 98 0.52
185 75 0.40
186 9 0.05
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTATAATTAAAAAAACAATTTACAATTAATTTAAATAATATACAA
TTATAAAATAAAAATTTATATAATTTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTGAGCCCATATGTTA
Found at i:760591 original size:16 final size:17
Alignment explanation
Indices: 760570--760603 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
760560 TTTTATTATT
*
760570 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
760586 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
760603 A
1 A
760604 ATTAGAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:760964 original size:11 final size:11
Alignment explanation
Indices: 760948--760973 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
760938 AAGATGAAAT
760948 GATTCAGTCGA
1 GATTCAGTCGA
760959 GATTCAGTCGA
1 GATTCAGTCGA
760970 GATT
1 GATT
760974 TAAGACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (11 bp):
GATTCAGTCGA
Found at i:762365 original size:51 final size:51
Alignment explanation
Indices: 762306--762410 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
762296 TGTGCAAGGG
762306 AAGAAGAACAGTATAAATAGTAGTGATGACAAGAATAATATTCAATGAATT
1 AAGAAGAACAGTATAAATAGTAGTGATGACAAGAATAATATTCAATGAATT
762357 AAGAAGAACAGTATAAATAGTAGTGATGACAAGAATAATATTCAATGAATT
1 AAGAAGAACAGTATAAATAGTAGTGATGACAAGAATAATATTCAATGAATT
762408 AAG
1 AAG
762411 TGACAATTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (51 bp):
AAGAAGAACAGTATAAATAGTAGTGATGACAAGAATAATATTCAATGAATT
Found at i:768976 original size:23 final size:23
Alignment explanation
Indices: 768943--768987 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
768933 ATTATTATAT
*
768943 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
768966 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
768988 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:775763 original size:67 final size:67
Alignment explanation
Indices: 775608--775763 Score: 204
Period size: 67 Copynumber: 2.3 Consensus size: 67
775598 GCTCGGCTTG
* * *
775608 ACTCGTTGCTCGTTAAGCTCATGAAAATTTTGCTCAACTCATGCTCTTTAAAAAAATTTGTTGCT
1 ACTCGTTGCTCGTTAAACTCATGAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTTGTTACT
775673 CA
66 CA
* * ** * * *
775675 ACTCATTTCTTATTAAACTCATTAAAATTTTGCTCGACTCATGCTCGTTAAGAAAATTTGTTACT
1 ACTCGTTGCTCGTTAAACTCATGAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTTGTTACT
*
775740 CT
66 CA
*
775742 ACTCGTTGCTCGTTAATCTCAT
1 ACTCGTTGCTCGTTAAACTCAT
775764 CGCTCGTCTC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (67 bp):
ACTCGTTGCTCGTTAAACTCATGAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTTGTTACT
CA
Found at i:775770 original size:16 final size:16
Alignment explanation
Indices: 775749--775798 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
775739 TCTACTCGTT
775749 GCTCGTTAATCTCATC
1 GCTCGTTAATCTCATC
* *
775765 GCTCG----TCTCGTT
1 GCTCGTTAATCTCATC
775777 GCTCGTTAATCTCATC
1 GCTCGTTAATCTCATC
775793 GCTCGT
1 GCTCGT
775799 CTCGTTGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 10 0.38
16 16 0.62
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.38
Consensus pattern (16 bp):
GCTCGTTAATCTCATC
Found at i:775818 original size:28 final size:28
Alignment explanation
Indices: 775743--775812 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
775733 TGTTACTCTA
775743 CTCGTTGCTCGTTAATCTCATCGCTCGT
1 CTCGTTGCTCGTTAATCTCATCGCTCGT
775771 CTCGTTGCTCGTTAATCTCATCGCTCGT
1 CTCGTTGCTCGTTAATCTCATCGCTCGT
*
775799 CTCGTTGTTCGTTA
1 CTCGTTGCTCGTTA
775813 CGCTCACCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.10, C:0.30, G:0.19, T:0.41
Consensus pattern (28 bp):
CTCGTTGCTCGTTAATCTCATCGCTCGT
Found at i:780565 original size:22 final size:22
Alignment explanation
Indices: 780535--780600 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
780525 TTTTATTTCA
780535 TTTGTTTTATTTATTATTATTAT
1 TTTG-TTTATTTATTATTATTAT
*
780558 TTTGTTTATATATTATTATTAT
1 TTTGTTTATTTATTATTATTAT
* *
780580 TAT-ATTATATTATTATTATTA
1 TTTGTTTAT-TTATTATTATTA
780601 AATAAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 4 0.11
22 30 0.79
23 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTATTTATTATTATTAT
Found at i:780573 original size:19 final size:19
Alignment explanation
Indices: 780539--780599 Score: 79
Period size: 19 Copynumber: 3.1 Consensus size: 19
780529 ATTTCATTTG
780539 TTTTATTTAT-TATTATTA
1 TTTTATTTATATATTATTA
*
780557 TTTTGTTTATATATTATTA
1 TTTTATTTATATATTATTA
780576 TTATTATATTATATTATTATTA
1 TT-TTAT-TTATA-TATTATTA
780598 TT
1 TT
780600 AAATAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.24
19 10 0.27
20 3 0.08
21 5 0.14
22 10 0.27
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATTTATATATTATTA
Found at i:780620 original size:3 final size:3
Alignment explanation
Indices: 780545--780600 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
780535 TTTGTTTTAT
*
780545 TTA TTA TTA TTA TT- TTGT TTA TATA TTA TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TT-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA
780589 TTA TTA TTA TTA
1 TTA TTA TTA TTA
780601 AATAAATAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:781106 original size:18 final size:18
Alignment explanation
Indices: 781083--781145 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
781073 GATCCTGCAA
781083 AACAAAGAAGAAAGAGAG
1 AACAAAGAAGAAAGAGAG
*
781101 AACAAAAGAAAAAAGAG-G
1 AAC-AAAGAAGAAAGAGAG
* *
781119 GACAAAGACG-AAGAGAG
1 AACAAAGAAGAAAGAGAG
*
781136 AGC-AAGAAGA
1 AACAAAGAAGA
781146 GCGAGTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
16 10 0.29
17 7 0.20
18 6 0.17
19 12 0.34
ACGTcount: A:0.63, C:0.08, G:0.29, T:0.00
Consensus pattern (18 bp):
AACAAAGAAGAAAGAGAG
Found at i:781236 original size:20 final size:18
Alignment explanation
Indices: 781198--781236 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
781188 AGACGAAGAG
*
781198 ATACTCACCGGAGCCTTC
1 ATACTCACCGGAACCTTC
781216 ATACGTCACCGGAAACCTTC
1 ATAC-TCACCGG-AACCTTC
781236 A
1 A
781237 AAAACCGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (18 bp):
ATACTCACCGGAACCTTC
Found at i:781951 original size:3 final size:3
Alignment explanation
Indices: 781938--781996 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
781928 TTATTTGCAA
* * *
781938 TAT TAT T-T TAT TAT TAT TAT TGCT T-T AAT TAT TAT T-T CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
781981 TAT TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT T
781997 TATAAATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
4 2 0.04
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:781994 original size:26 final size:28
Alignment explanation
Indices: 781938--781996 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
781928 TTATTTGCAA
*
781938 TATTATTTTATTATTATTATTGCTTTAAT
1 TATTATTTCATTATTATTATT-CTTTAAT
781967 TATTATTTCATTATTATTATT-TTT-AT
1 TATTATTTCATTATTATTATTCTTTAAT
781993 TATT
1 TATT
781997 TATAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 3 0.10
29 20 0.69
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTATTTCATTATTATTATTCTTTAAT
Found at i:782189 original size:15 final size:17
Alignment explanation
Indices: 782156--782190 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
782146 TGTTTTCTGA
782156 TATTTTTACTAATATCC
1 TATTTTTACTAATATCC
782173 TATTTTTA-TAA-ATCC
1 TATTTTTACTAATATCC
782188 TAT
1 TAT
782191 ATTAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 8 0.44
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTTTACTAATATCC
Found at i:782849 original size:26 final size:27
Alignment explanation
Indices: 782797--782854 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
782787 TAATTCTTTC
*
782797 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
782825 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
782851 TTTT
1 TTTT
782855 ATGTTTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:784524 original size:20 final size:20
Alignment explanation
Indices: 784465--784530 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
784455 TACATTCACA
*
784465 TATTTACATTTGCAT-TTTG
1 TATTTACATTTTCATGTTTG
* * *
784484 CATATTTGCATTTTTACGTTTG
1 --TATTTACATTTTCATGTTTG
784506 TATTTACATTTTCATGTTTG
1 TATTTACATTTTCATGTTTG
*
784526 CATTT
1 TATTT
784531 GCATCTTTGC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 21 0.58
21 11 0.31
22 4 0.11
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.58
Consensus pattern (20 bp):
TATTTACATTTTCATGTTTG
Found at i:787356 original size:7 final size:7
Alignment explanation
Indices: 787344--787439 Score: 68
Period size: 7 Copynumber: 12.3 Consensus size: 7
787334 TCCAGTAAAG
787344 AAAGAAA
1 AAAGAAA
787351 AAAGAAA
1 AAAGAAA
787358 AATCCAGCAAA
1 AA---AG-AAA
787369 GAAAGAAAA
1 -AAAG-AAA
787378 AAAGAAA
1 AAAGAAA
787385 AAAGATGAA
1 AAAGA--AA
787394 AAAGGAAA
1 AAA-GAAA
787402 AATGAGAAA
1 AA--AGAAA
*
787411 AAAGGAA
1 AAAGAAA
787418 AAA-AAA
1 AAAGAAA
*
787424 AAGGAAA
1 AAAGAAA
787431 AAAGAAA
1 AAAGAAA
787438 AA
1 AA
787440 GGGGAGAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
6 4 0.05
7 35 0.48
8 8 0.11
9 16 0.22
10 5 0.07
11 3 0.04
12 2 0.03
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:787369 original size:26 final size:27
Alignment explanation
Indices: 787333--787386 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
787323 TCTTATACTC
*
787333 ATCCAGTAAAGAAAG-AAAAAAGAAAA
1 ATCCAGCAAAGAAAGAAAAAAAGAAAA
787359 ATCCAGCAAAGAAAGAAAAAAAGAAAA
1 ATCCAGCAAAGAAAGAAAAAAAGAAAA
787386 A
1 A
787387 AGATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.70, C:0.09, G:0.15, T:0.06
Consensus pattern (27 bp):
ATCCAGCAAAGAAAGAAAAAAAGAAAA
Found at i:787397 original size:16 final size:16
Alignment explanation
Indices: 787370--787439 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 16
787360 TCCAGCAAAG
*
787370 AAAGA-AAAAAAGAAA
1 AAAGAGAAAAAGGAAA
787385 AAAGATGAAAAAGGAAA
1 AAAGA-GAAAAAGGAAA
*
787402 AATGAGAAAAAAGG--A
1 AAAGAG-AAAAAGGAAA
787417 AAA-A-AAAAAGGAAA
1 AAAGAGAAAAAGGAAA
787431 AAAGA-AAAA
1 AAAGAGAAAA
787440 GGGGAGAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 7 0.15
14 5 0.11
15 13 0.28
16 1 0.02
17 20 0.43
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAAAGGAAA
Found at i:787401 original size:17 final size:17
Alignment explanation
Indices: 787372--787421 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
787362 CAGCAAAGAA
*
787372 AGAAAAAAAGAAAAAAG
1 AGAAAAAAGGAAAAAAG
*
787389 ATG-AAAAAGGAAAAATG
1 A-GAAAAAAGGAAAAAAG
787406 AGAAAAAAGGAAAAAA
1 AGAAAAAAGGAAAAAA
787422 AAAAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 1 0.04
17 26 0.93
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (17 bp):
AGAAAAAAGGAAAAAAG
Found at i:787425 original size:12 final size:12
Alignment explanation
Indices: 787408--787438 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
787398 GAAAAATGAG
787408 AAAAAAGGAAAA
1 AAAAAAGGAAAA
787420 AAAAAAGGAAAA
1 AAAAAAGGAAAA
787432 AAGAAAA
1 AA-AAAA
787439 AGGGGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGGAAAA
Found at i:789809 original size:113 final size:114
Alignment explanation
Indices: 789603--789827 Score: 353
Period size: 113 Copynumber: 2.0 Consensus size: 114
789593 AAGTGCCACG
* *
789603 TTCTCGTAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
* * * * * *
789668 TGGTTTAGTATGAACCCCAAAACTAATCATTGGATTTGAAAGATGAATT
66 TCGTTCAGTAGGAACCCCAAAACCAATCATTGAAATTGAAAGATGAATT
789717 TTCTCATAGTAGAAATAAGAAGA-CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
* *
789781 TCGTTCGGTAGGAACCCCAGAACCAATCATTGAAATTGAAAGATGAA
66 TCGTTCAGTAGGAACCCCAAAACCAATCATTGAAATTGAAAGATGAA
789828 CTGCATGATC
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 79 0.78
114 22 0.22
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (114 bp):
TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
TCGTTCAGTAGGAACCCCAAAACCAATCATTGAAATTGAAAGATGAATT
Found at i:791026 original size:73 final size:72
Alignment explanation
Indices: 790906--791140 Score: 292
Period size: 73 Copynumber: 3.2 Consensus size: 72
790896 AGAAAATATC
* *
790906 GGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAAAATATTAAAATATTCTGAATATTTATCAG
1 GGGGCATGCTGAAAACCC-TTTCAATCAGAATCAAAAATGTTGAAATATTCTGAATATTTATCAG
790971 CAAATGTT
65 CAAATGTT
790979 GGGGCATGCTGAAAACCCTTGTCAATCAGAATCAAAAATGTTGAAATATTCTGAATATTTATCAG
1 GGGGCATGCTGAAAACCCTT-TCAATCAGAATCAAAAATGTTGAAATATTCTGAATATTTATCAG
*
791044 CAAAATGCT
65 C-AAATGTT
* * * *** *
791053 GGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAACTGTTGATGCA-TCTTGAACACTTGTAT
1 GGGGCATGCTGAAAACCC-TTTCAATCAGAATCAAAAATGTTGAAATATTC-TGAATA-TT-TAT
* *
791117 TAGCCAATGTT
62 CAGCAAATGTT
791128 GGGGCATGCTGAA
1 GGGGCATGCTGAA
791141 GGCCCACAAC
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
72 2 0.01
73 63 0.44
74 50 0.35
75 22 0.15
76 6 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (72 bp):
GGGGCATGCTGAAAACCCTTTCAATCAGAATCAAAAATGTTGAAATATTCTGAATATTTATCAGC
AAATGTT
Found at i:792022 original size:54 final size:54
Alignment explanation
Indices: 791955--792058 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
791945 CCAGAAATCC
* *
791955 GAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCT
1 GAGCAGAAACCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAACATCT
*
792009 GAGCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 GAGCAGAAACCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
792059 CTACTATTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (54 bp):
GAGCAGAAACCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAACATCT
Found at i:792456 original size:22 final size:22
Alignment explanation
Indices: 792427--792481 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
792417 ATCTACACTC
*
792427 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
792449 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
792471 TTCAAAGATGA
1 TTCAAAGATGA
792482 AATCTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:792958 original size:23 final size:24
Alignment explanation
Indices: 792928--792975 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
792918 AGTTCATAAT
792928 AAGAAGAA-CTCAT-ATGAAGAAGA
1 AAGAAGAAGCTCATAATG-AGAAGA
*
792951 AAGAAGAAGTTCATAATGAGAAGA
1 AAGAAGAAGCTCATAATGAGAAGA
792975 A
1 A
792976 CTTGTTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 11 0.50
25 3 0.14
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (24 bp):
AAGAAGAAGCTCATAATGAGAAGA
Found at i:793064 original size:113 final size:112
Alignment explanation
Indices: 792917--794004 Score: 1463
Period size: 113 Copynumber: 9.7 Consensus size: 112
792907 ATTTCAGGTT
* * *
792917 GAGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * *
792982 CAACTTTTCGCTTAAATTCATCATTTGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAGG-A
*
793030 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
793095 CAACTTTTCGCTTGAATTCATCATTCGATGGATCATCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAGG-A
793143 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
793208 CAATTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAGG-A
* *
793256 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTT-TT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
793320 CAACCTTTT-GCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
66 CAA-CTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAG-GA
* * *
793368 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
793433 CAACTTGTT-GTTTGAATTCATCACTCGATGGATCAACTTTTCAAGAGA
66 CAACTT-TTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAG-GA
* * *
793481 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
793546 CAACCTTTT-GCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
66 CAA-CTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAG-GA
* * *
793594 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
793659 CAAGTTTTTGTTTGAATTCATCACTCGATGGA-CTAACTTTTCCAGAGA
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATC-AGCTTTTCCAG-GA
* * *
793707 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGACGTTAATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
793772 CAACTTTTCGCTTGAATTCATCATTCGATGGATC-GACATTGCCAGGTA
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATCAG-CTTTTCCAGG-A
*
793820 GAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * * *
793885 CAACTTTTTACTCGAATTCATCACTCGATGGATCAACTTTTCCAAAGA
66 CAACTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCC-AGGA
793933 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT--GAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
793996 CAATCTTTT
66 CAA-CTTTT
794005 GCATGATTCT
Statistics
Matches: 885, Mismatches: 77, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
111 15 0.02
112 105 0.12
113 759 0.86
114 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (112 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCACTCGATGGATCAGCTTTTCCAGGA
Found at i:794379 original size:22 final size:22
Alignment explanation
Indices: 794349--794411 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
794339 TTTTATTTCA
794349 TTTGTTTTTATTATTATTATTAT
1 TTTG-TTTTATTATTATTATTAT
*
794372 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTATTATTATTATTAT
* * *
794394 ATTATATTATTATTATTA
1 TTTGTTTTATTATTATTA
794412 AATAAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTATTATTATTATTAT
Found at i:794387 original size:19 final size:19
Alignment explanation
Indices: 794363--794431 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
794353 TTTTTATTAT
* * *
794363 TATTATTATTTTGTTTTAA
1 TATTATTATTATATTATAA
*
794382 TATTATTATTATATTATAT
1 TATTATTATTATATTATAA
* *
794401 TATTATTATTAAATAAATAA
1 TATTATTATTATAT-TATAA
794421 T-TTATTATTAT
1 TATTATTATTAT
794432 TACAGGCCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 37 0.90
20 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATTATTATATTATAA
Found at i:794431 original size:3 final size:3
Alignment explanation
Indices: 794356--794411 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
794346 TCATTTGTTT
* *
794356 TTA TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
794400 TTA TTA TTA TTA
1 TTA TTA TTA TTA
794412 AATAAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:795528 original size:2 final size:2
Alignment explanation
Indices: 795521--795555 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
795511 CCTTATCAGC
795521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
795556 GGTAAATATC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:795832 original size:16 final size:16
Alignment explanation
Indices: 795795--795849 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
795785 AATATTTTTT
* *
795795 TATTATTATTGCTTTA
1 TATTATTATTTCATTA
795811 -ATTATTATTTCATTA
1 TATTATTATTTCATTA
*
795826 TATTATT-TTTTATT-
1 TATTATTATTTCATTA
795840 T-TTATTATTT
1 TATTATTATTT
795850 ATAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.15
14 4 0.12
15 19 0.56
16 6 0.18
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATTATTTCATTA
Found at i:799177 original size:10 final size:10
Alignment explanation
Indices: 799124--799220 Score: 65
Period size: 10 Copynumber: 9.9 Consensus size: 10
799114 GGCTGCTGGA
799124 AACCGG-TTT
1 AACCGGTTTT
*
799133 AACCGATTTT
1 AACCGGTTTT
* *
799143 CAACCGCTTCT
1 -AACCGGTTTT
*
799154 GACCGG-TTT
1 AACCGGTTTT
*
799163 GACCGGTTTT
1 AACCGGTTTT
**
799173 AACCGGTTCG
1 AACCGGTTTT
799183 AACCGG-TTT
1 AACCGGTTTT
* *
799192 GACCGGTTTC
1 AACCGGTTTT
**
799202 AACCGGTTCG
1 AACCGGTTTT
799212 AACCGGTTT
1 AACCGGTTT
799221 GACCGATCTG
Statistics
Matches: 67, Mismatches: 17, Indels: 7
0.74 0.19 0.08
Matches are distributed among these distances:
9 19 0.28
10 40 0.60
11 8 0.12
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:799177 original size:19 final size:19
Alignment explanation
Indices: 799155--799246 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
799145 ACCGCTTCTG
*
799155 ACCGGTTTGACCGGTTTTA
1 ACCGGTTTGACCGGTTTGA
*
799174 ACCGGTTCGAACCGGTTTG-
1 ACCGGTTTG-ACCGGTTTGA
* *
799193 ACCGGTTTCAACCGGTTCGA
1 ACCGGTTT-GACCGGTTTGA
* *
799213 ACCGGTTTGACCGATCTGA
1 ACCGGTTTGACCGGTTTGA
*
799232 GCCGGTTTGACCGGT
1 ACCGGTTTGACCGGT
799247 CTGACCCGAC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 43 0.73
20 16 0.27
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTTGA
Found at i:799238 original size:29 final size:29
Alignment explanation
Indices: 799124--799225 Score: 143
Period size: 29 Copynumber: 3.5 Consensus size: 29
799114 GGCTGCTGGA
* * *
799124 AACCGGTTTAACCGATTTTCAACCGCTTCTG
1 AACCGGTTTGACCG-GTTTCAACCGGTTC-G
*
799155 -ACCGGTTTGACCGGTTTTAACCGGTTCG
1 AACCGGTTTGACCGGTTTCAACCGGTTCG
799183 AACCGGTTTGACCGGTTTCAACCGGTTCG
1 AACCGGTTTGACCGGTTTCAACCGGTTCG
799212 AACCGGTTTGACCG
1 AACCGGTTTGACCG
799226 ATCTGAGCCG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.02
29 52 0.80
30 12 0.18
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (29 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:799271 original size:7 final size:7
Alignment explanation
Indices: 799259--799289 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
799249 GACCCGACCC
799259 GACCGTT
1 GACCGTT
799266 GACCGTT
1 GACCGTT
799273 GACCGTT
1 GACCGTT
799280 GACCGTT
1 GACCGTT
799287 GAC
1 GAC
799290 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:800225 original size:32 final size:30
Alignment explanation
Indices: 800154--800228 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
800144 CTAATGTGAC
* *
800154 TCTTAGGTAGGCTCTGCGGCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCTAAGATCAT
* **
800184 TCTTGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGG-CCTAAGAT-CAT
800216 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
800229 TCACGGCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 17 0.46
31 7 0.19
32 13 0.35
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (30 bp):
TCTTAGGTAGGCCCTGCGGCCTAAGATCAT
Found at i:800236 original size:32 final size:31
Alignment explanation
Indices: 800183--800277 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 31
800173 CCTGAGATCA
*
800183 TTCTTGGGTAGGCC-CTGCGGCCCTAAGATGT
1 TTCTTGGGTAGGCCTC-ACGGCCCTAAGATGT
* * *
800214 GTTCTTAGGTAGGCCTCACGGCCCCGAA-ATCT
1 -TTCTTGGGTAGGCCTCACGG-CCCTAAGATGT
*
800246 ATCTTGGGTAGGCTCTCA-GGCCCTAAGATGT
1 TTCTTGGGTAGGC-CTCACGGCCCTAAGATGT
800277 T
1 T
800278 CCCTTAGGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 16 0.32
32 23 0.46
33 6 0.12
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (31 bp):
TTCTTGGGTAGGCCTCACGGCCCTAAGATGT
Found at i:806428 original size:19 final size:18
Alignment explanation
Indices: 806404--806453 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
806394 CCGGTTTTCA
806404 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
806423 ACCGGTCTGAGCCGGTTTG
1 ACCGGTCTGA-CCGGTTTG
806442 ACCGGTCTGACC
1 ACCGGTCTGACC
806454 CGACCCGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.23
19 23 0.77
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.26
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:806452 original size:9 final size:9
Alignment explanation
Indices: 806404--806453 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
806394 CCGGTTTTCA
806404 ACCGGTTCTG
1 ACCGG-TCTG
*
806414 ACCGGTTTG
1 ACCGGTCTG
806423 ACCGGTCTG
1 ACCGGTCTG
*
806432 AGCCGGTTTG
1 A-CCGGTCTG
806442 ACCGGTCTG
1 ACCGGTCTG
806451 ACC
1 ACC
806454 CGACCCGACC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 22 0.63
10 13 0.37
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.26
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:806471 original size:17 final size:18
Alignment explanation
Indices: 806449--806488 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
806439 TTGACCGGTC
806449 TGACCCGAC-CCGACCGT
1 TGACCCGACGCCGACCGT
**
806466 TGACCCGACGTTGACCGT
1 TGACCCGACGCCGACCGT
806484 TGACC
1 TGACC
806489 GTTGACTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.40, G:0.25, T:0.17
Consensus pattern (18 bp):
TGACCCGACGCCGACCGT
Found at i:807417 original size:62 final size:63
Alignment explanation
Indices: 807344--807466 Score: 146
Period size: 62 Copynumber: 2.0 Consensus size: 63
807334 CTAATGTGAC
* * *
807344 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTG
807406 T
63 T
* *
807407 TCTTA-GTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
807467 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
61 1 0.02
62 42 0.81
63 9 0.17
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:808982 original size:23 final size:21
Alignment explanation
Indices: 808932--808983 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
808922 TAACATTTTT
808932 TTTAAAAAAATAAAAAATTAAA
1 TTTAAAAAAAT-AAAAATTAAA
808954 TATTAAAAAAACT-AAAATTAATA
1 T-TTAAAAAAA-TAAAAATTAA-A
808977 GTTTAAA
1 -TTTAAA
808984 TATTAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 9 0.35
23 15 0.58
24 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TTTAAAAAAATAAAAATTAAA
Found at i:809798 original size:21 final size:21
Alignment explanation
Indices: 809769--809821 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
809759 ATTCTGACTA
809769 TCGCATTGCGA-TTTCCTAAAT
1 TCGCATTGCGATTTTCCT-AAT
*
809790 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
*
809811 TCGCAATGCGA
1 TCGCATTGCGA
809822 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:809841 original size:41 final size:40
Alignment explanation
Indices: 809811--809941 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 40
809801 TTTTCCTAAT
* *
809811 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCG-ATTACGTAAA
**
809852 TCGCAATGCGGTTACGTAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAA
* * *
809892 TCGCAATGCGAATTA-GAAAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACG-TAAATCGCAATGCG-ATTACGTAAA
809934 TCGCAATG
1 TCGCAATG
809942 AGATTCTGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 19 0.24
41 43 0.55
42 16 0.21
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAA
Found at i:809854 original size:21 final size:21
Alignment explanation
Indices: 809811--809941 Score: 171
Period size: 21 Copynumber: 6.4 Consensus size: 21
809801 TTTTCCTAAT
*
809811 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
809831 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
809852 TCGCAATGCG-GTTACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
809872 TCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGAAAA
809892 TCGCAATGCGAATTA-GAAAAA
1 TCGCAATGCGAATTACG-AAAA
*
809913 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
809934 TCGCAATG
1 TCGCAATG
809942 AGATTCTGAC
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
20 49 0.49
21 50 0.50
22 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:809882 original size:61 final size:62
Alignment explanation
Indices: 809811--809941 Score: 210
Period size: 61 Copynumber: 2.1 Consensus size: 62
809801 TTTTCCTAAT
* * *
809811 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCG-GTTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGAAAAATCGCAATGCGAATTACGAAAA
* *
809872 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGAAAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGAAAAATCGCAATGCGAATTACGAAAA
809934 TCGCAATG
1 TCGCAATG
809942 AGATTCTGAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
61 49 0.77
62 15 0.23
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (62 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGAAAAATCGCAATGCGAATTACGAAAA
Done.