Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold303
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: 793834
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 19247 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:708384 original size:73 final size:73
Alignment explanation
Indices: 708284--708438 Score: 172
Period size: 73 Copynumber: 2.1 Consensus size: 73
708274 TTTGAAAAAA
* *
708284 CGCCACTAATAACATAGACAAAACGGCA-ACGTTTCAATAAATATTAAAACATTTTTGCGGCATT
1 CGCCACTAATAACATAGACAAAACGGCACA-GTTTCAATAAATACTAAAACATTTTTGCGGC-GT
708348 TTAAGGAAAG
64 TTAAGGAAAG
* ** * * *
708358 CGCCACTAATAACA-ATG-GAAAACGGCACAGTTTCCTTAACTCCTAATACATTTTTGCGGCGTT
1 CGCCACTAATAACATA-GACAAAACGGCACAGTTTCAATAAATACTAAAACATTTTTGCGGCGTT
* *
708421 TATGTAAAG
65 TAAGGAAAG
708430 CGCCACTAA
1 CGCCACTAA
708439 AAGCAAAGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
72 18 0.26
73 35 0.51
74 16 0.23
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (73 bp):
CGCCACTAATAACATAGACAAAACGGCACAGTTTCAATAAATACTAAAACATTTTTGCGGCGTTT
AAGGAAAG
Found at i:709090 original size:22 final size:22
Alignment explanation
Indices: 709065--709114 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
709055 CCTTAAATCC
* *
709065 TAAATCCCTAACTCTTAACCCT
1 TAAACCCCTAACTCCTAACCCT
*
709087 TAAACCCCTAATTCCTAACCAC-
1 TAAACCCCTAACTCCTAACC-CT
709109 TAAACC
1 TAAACC
709115 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCCCTAACTCCTAACCCT
Found at i:709133 original size:21 final size:21
Alignment explanation
Indices: 709109--709183 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
709099 TCCTAACCAC
709109 TAAACCTTAAATCCCAACCCA
1 TAAACCTTAAATCCCAACCCA
* * *
709130 TAAACCAT-AATCCTTAATCCA
1 TAAACCTTAAATCC-CAACCCA
* * *
709151 TAATCCCTAAAT-CCATACTCCC
1 TAAACCTTAAATCCCA-AC-CCA
709173 TAAACCTTAAA
1 TAAACCTTAAA
709184 ATAGTAGCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
20 6 0.15
21 20 0.50
22 14 0.35
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCTTAAATCCCAACCCA
Found at i:709165 original size:15 final size:15
Alignment explanation
Indices: 709130--709176 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
709120 TCCCAACCCA
709130 TAAA-CCATAAT-CC
1 TAAATCCATAATCCC
*
709143 TTAATCCATAATCCC
1 TAAATCCATAATCCC
*
709158 TAAATCCATACTCCC
1 TAAATCCATAATCCC
709173 TAAA
1 TAAA
709177 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 3 0.10
14 7 0.24
15 19 0.66
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:711197 original size:23 final size:23
Alignment explanation
Indices: 711171--711222 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
711161 TGATTTCTAA
*
711171 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
711194 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
711217 ATTTAG
1 ATTTAG
711223 GAAAATCCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:711198 original size:13 final size:13
Alignment explanation
Indices: 711180--711222 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
711170 AATTTTGAAT
711180 TATTTAGTGATAA
1 TATTTAGTGATAA
*
711193 TATTTA--GA-AT
1 TATTTAGTGATAA
711203 TATTTAGTGATAA
1 TATTTAGTGATAA
711216 TATTTAG
1 TATTTAG
711223 GAAAATCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:716537 original size:23 final size:23
Alignment explanation
Indices: 716511--716562 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
716501 TGATTTTTAA
*
716511 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
716534 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
716557 ATTTAG
1 ATTTAG
716563 GAAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:716538 original size:13 final size:13
Alignment explanation
Indices: 716520--716562 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
716510 AATTTTGAAT
716520 TATTTAGTGATAA
1 TATTTAGTGATAA
*
716533 TATTTA--GA-AT
1 TATTTAGTGATAA
716543 TATTTAGTGATAA
1 TATTTAGTGATAA
716556 TATTTAG
1 TATTTAG
716563 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:717475 original size:25 final size:27
Alignment explanation
Indices: 717407--717475 Score: 65
Period size: 29 Copynumber: 2.6 Consensus size: 27
717397 TTTATCCATA
*
717407 TATT-TTATTTT-TTCTTTTTCGAATC
1 TATTCTTATTTTATTATTTTTCGAATC
* *
717432 TATTTTTATTTTATTTTATTTTTCGTAT-
1 TATTCTTATTTTA--TTATTTTTCGAATC
717460 T-TTCTTATTTTATTAT
1 TATTCTTATTTTATTAT
717476 CTTAATCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 8 0.22
26 7 0.19
27 10 0.27
28 1 0.03
29 11 0.30
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (27 bp):
TATTCTTATTTTATTATTTTTCGAATC
Found at i:718116 original size:7 final size:7
Alignment explanation
Indices: 718104--718134 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
718094 TTAAAAAATT
718104 AAATTTA
1 AAATTTA
718111 AAATTTA
1 AAATTTA
718118 AAATTTA
1 AAATTTA
718125 AAATTTA
1 AAATTTA
718132 AAA
1 AAA
718135 AAATTTTAAA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTTA
Found at i:718795 original size:20 final size:20
Alignment explanation
Indices: 718758--718795 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
718748 CCTTAAATTG
*
718758 TTTTATTTACAATATTATCA
1 TTTTATTTAAAATATTATCA
718778 TTTTATTTATAAAT-TTAT
1 TTTTATTTA-AAATATTAT
718796 TATTCTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATTTAAAATATTATCA
Found at i:718875 original size:20 final size:20
Alignment explanation
Indices: 718850--718888 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
718840 TATTAATTTA
718850 TTTATAAATATTTTTATAAT
1 TTTATAAATATTTTTATAAT
**
718870 TTTATATGTATTTTTATAA
1 TTTATAAATATTTTTATAA
718889 AATTTGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATAAATATTTTTATAAT
Found at i:719194 original size:29 final size:30
Alignment explanation
Indices: 719121--719199 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
719111 GATTTAACGG
* * * *
719121 ATGAGCGATTAAAACATTAAATTTTGTCAAC
1 ATGAGTGACTAAAACA-GAAATTTTGTAAAC
* *
719152 ATTAGTGACTAAAATAGAAATTTT-TAAAC
1 ATGAGTGACTAAAACAGAAATTTTGTAAAC
719181 ATGAGTGA-TCAAAACAGAA
1 ATGAGTGACT-AAAACAGAA
719200 TCACGCTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.03
29 19 0.49
30 7 0.18
31 12 0.31
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (30 bp):
ATGAGTGACTAAAACAGAAATTTTGTAAAC
Found at i:719505 original size:24 final size:25
Alignment explanation
Indices: 719468--719515 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
719458 AATTATATAT
* *
719468 TAATTTTGAGATG-AATTCATTAAA
1 TAATTTTGAAATGAAATTAATTAAA
*
719492 TAATTTTTAAATGAAATTAATTAA
1 TAATTTTGAAATGAAATTAATTAA
719516 TTATCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TAATTTTGAAATGAAATTAATTAAA
Found at i:719628 original size:18 final size:19
Alignment explanation
Indices: 719601--719638 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
719591 AAGATTCAAC
719601 TAAAAGTT-AATATATAAT
1 TAAAAGTTAAATATATAAT
* *
719619 TAAAATTTAAATATTTAAT
1 TAAAAGTTAAATATATAAT
719638 T
1 T
719639 TGCATTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAAAGTTAAATATATAAT
Found at i:726809 original size:18 final size:18
Alignment explanation
Indices: 726786--726822 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
726776 TAGTTCTTTC
726786 TTTCTATTCTATTAGTAT
1 TTTCTATTCTATTAGTAT
*
726804 TTTCTATTCTATTGGTAT
1 TTTCTATTCTATTAGTAT
726822 T
1 T
726823 AGATTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTCTATTCTATTAGTAT
Found at i:726835 original size:27 final size:27
Alignment explanation
Indices: 726796--726860 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
726786 TTTCTATTCT
* *
726796 ATTAGTATTTTCTATTCTATTGGTATTAG
1 ATTAGTA--TTCTATTATATTAGTATTAG
726825 ATTAGTATTCTATTATATTAGTATTAG
1 ATTAGTATTCTATTATATTAGTATTAG
*
726852 ATTAATATT
1 ATTAGTATT
726861 AGTTAGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 26 0.79
29 7 0.21
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.54
Consensus pattern (27 bp):
ATTAGTATTCTATTATATTAGTATTAG
Found at i:726844 original size:16 final size:16
Alignment explanation
Indices: 726819--726863 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
726809 ATTCTATTGG
* *
726819 TATTAGATTAGTATTC
1 TATTATATTAGTATTA
726835 TATTATATTAGTATTA
1 TATTATATTAGTATTA
*
726851 GATTAATATTAGT
1 TATT-ATATTAGT
726864 TAGTGATCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (16 bp):
TATTATATTAGTATTA
Found at i:728887 original size:29 final size:28
Alignment explanation
Indices: 728833--728893 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
728823 ACCTTTTAAG
* * *
728833 TTATTTTCATATTTTAAATATAAAATAT
1 TTATTTTCATATTATAAAAATAAAATAA
*
728861 TTATTTTTATATTATAAAAATAAAAATAA
1 TTATTTTCATATTATAAAAAT-AAAATAA
728890 TTAT
1 TTAT
728894 AAATTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATTTTCATATTATAAAAATAAAATAA
Found at i:729425 original size:23 final size:21
Alignment explanation
Indices: 729398--729458 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
729388 TGTAAAAGGG
729398 TTTTTTATATATTTTTTAAGTT
1 TTTTTTATATATTTTTT-AGTT
* *
729420 TATTTTTATATACTCTTTAGTT
1 T-TTTTTATATATTTTTTAGTT
729442 TTTTTT-TATACTTTTTT
1 TTTTTTATATA-TTTTTT
729459 GAGATGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 6 0.18
23 14 0.42
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTTATATATTTTTTAGTT
Found at i:729699 original size:18 final size:18
Alignment explanation
Indices: 729676--729712 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
729666 GTCAATTAGA
*
729676 TTTTTCAGTGCATTATTT
1 TTTTTCAATGCATTATTT
729694 TTTTTCAATGCATTATTT
1 TTTTTCAATGCATTATTT
729712 T
1 T
729713 CGAACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTTCAATGCATTATTT
Found at i:731085 original size:24 final size:24
Alignment explanation
Indices: 731045--731091 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
731035 TTTAGTTATA
*
731045 TATACTATTAATTTATAAGTCAAC
1 TATACTAATAATTTATAAGTCAAC
*
731069 TATACTAAT-ATTATATAATTCAA
1 TATACTAATAATT-TATAAGTCAA
731092 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
TATACTAATAATTTATAAGTCAAC
Found at i:731950 original size:64 final size:64
Alignment explanation
Indices: 731849--731981 Score: 248
Period size: 64 Copynumber: 2.1 Consensus size: 64
731839 AACGCGCTTA
* *
731849 CAAGTGTGTGGTTCAATTTACACCCCTCACCTATAAGGGCCACGTTCAAAAATCTCGCATCTCT
1 CAAGTGTGGGGTTCAATTTACACCCCTCACCCATAAGGGCCACGTTCAAAAATCTCGCATCTCT
731913 CAAGTGTGGGGTTCAATTTACACCCCTCACCCATAAGGGCCACGTTCAAAAATCTCGCATCTCT
1 CAAGTGTGGGGTTCAATTTACACCCCTCACCCATAAGGGCCACGTTCAAAAATCTCGCATCTCT
731977 CAAGT
1 CAAGT
731982 AGGGTTCGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (64 bp):
CAAGTGTGGGGTTCAATTTACACCCCTCACCCATAAGGGCCACGTTCAAAAATCTCGCATCTCT
Found at i:732729 original size:87 final size:86
Alignment explanation
Indices: 732560--732734 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 86
732550 TCCATTTGGA
* * *
732560 AGTGTTTTCATTATTTTGGCATATTCGCGTAATTTTACAAAAAACCAAGCTAATCCAATAAATAT
1 AGTGTTTTCATTATTTCGGCATATTCCCGTAATTTTACAAAAAACCAAACTAATCCAATAAATA-
** *
732625 TTTTTAAAAAAATGAGATTTTT
65 TTTAAAAAAAAAGGAGATTTTT
* *
732647 AGTGTTTTTATTATTTCGGTC-TATTCCCGTAATTTTACAAAAAACCAAACTAATTCAATAAATA
1 AGTGTTTTCATTATTTCGG-CATATTCCCGTAATTTTACAAAAAACCAAACTAATCCAATAAATA
732711 -TTAAAAAAAGAGAGGAGATTTTT
65 TTTAAAAAAA-A-AGGAGATTTTT
732734 A
1 A
732735 TGTAACTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
85 7 0.09
86 1 0.01
87 68 0.88
88 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (86 bp):
AGTGTTTTCATTATTTCGGCATATTCCCGTAATTTTACAAAAAACCAAACTAATCCAATAAATAT
TTAAAAAAAAAGGAGATTTTT
Found at i:734608 original size:18 final size:18
Alignment explanation
Indices: 734577--734682 Score: 86
Period size: 18 Copynumber: 5.9 Consensus size: 18
734567 CATCGCCAAG
* * *
734577 TACGGGTCCTCCTGCAAG
1 TACGGATCCACCTGCAAC
* *
734595 TACAGATGCACCTGCAAC
1 TACGGATCCACCTGCAAC
*
734613 TATGGATCCACCTGCAAC
1 TACGGATCCACCTGCAAC
*
734631 TACGGATCCACCTACAAC
1 TACGGATCCACCTGCAAC
* * * * *
734649 AACTGATCCGCCTACAAG
1 TACGGATCCACCTGCAAC
* *
734667 TACAGAGCCACCTGCA
1 TACGGATCCACCTGCA
734683 GGTGATGTAG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (18 bp):
TACGGATCCACCTGCAAC
Found at i:736585 original size:81 final size:80
Alignment explanation
Indices: 736486--736704 Score: 206
Period size: 81 Copynumber: 2.7 Consensus size: 80
736476 GAAAATTCCA
* ** *
736486 AAGCAAAGCCACTGTCACAAGAGTCCCCACCTTTAAAGAAAGAGAGTGAAGAAGCTTCCAAAAAT
1 AAGCAAACCCACCATCACAAGAGT-CCCACCATTAAAGAAAGAGAGTGAAGAAGCTTCCAAAAAT
* *
736551 GAAGTCGAAG-TTCCTG
65 GAAATAGAAGATT-CTG
* * * * * * * *
736567 AAGCCAACCCAGCTTCACAAGAAGTTCCACCATTGAAGAAAGATAGTGAAGAAGCTTGCAAAACT
1 AAGCAAACCCACCATCACAAG-AGTCCCACCATTAAAGAAAGAGAGTGAAGAAGCTTCCAAAAAT
736632 GAAATAGAAGATTCTG
65 GAAATAGAAGATTCTG
* *** * * *
736648 AAGCAAAGCCACCATCACAAGAAGTTGAACCAGTAAAGAAAGATAGTGAACAAGCTT
1 AAGCAAACCCACCATCACAAG-AGTCCCACCATTAAAGAAAGAGAGTGAAGAAGCTT
736705 TGAAAACTGT
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 109 0.96
82 5 0.04
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (80 bp):
AAGCAAACCCACCATCACAAGAGTCCCACCATTAAAGAAAGAGAGTGAAGAAGCTTCCAAAAATG
AAATAGAAGATTCTG
Found at i:736711 original size:81 final size:81
Alignment explanation
Indices: 736519--736713 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
736509 TCCCCACCTT
* ** * * * * * *
736519 TAAAGAAAGAGAGTGAAGAAGCTTCCAAAAATGAAGTCGAAGTTCCTGAAGCCAACCCAGCTTCA
1 TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATAGAAGTTCCTGAAGCAAACCCACCATCA
* *
736584 CAAGAAGTTCCACCAT
66 CAAGAAGTTCAACCAG
* *
736600 TGAAGAAAGATAGTGAAGAAGC-TTGCAAAACTGAAATAGAAGATT-CTGAAGCAAAGCCACCAT
1 TAAAGAAAGATAGTGAAGAAGCTTTG-AAAACTGAAATAGAAG-TTCCTGAAGCAAACCCACCAT
*
736663 CACAAGAAGTTGAACCAG
64 CACAAGAAGTTCAACCAG
*
736681 TAAAGAAAGATAGTGAACAAGCTTTGAAAACTG
1 TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTG
736714 TCGCCAAGGA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 89 0.94
82 5 0.05
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (81 bp):
TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATAGAAGTTCCTGAAGCAAACCCACCATCA
CAAGAAGTTCAACCAG
Found at i:749419 original size:18 final size:18
Alignment explanation
Indices: 749398--749446 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
749388 ATAAATAATA
749398 ATAAAATAATAAGAGCTT
1 ATAAAATAATAAGAGCTT
* *
749416 ATAAATACAATATTGAGCTT
1 ATAAA-ATAATA-AGAGCTT
749436 AT-AAATAATAA
1 ATAAAATAATAA
749447 AAATTAAGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 8 0.32
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (18 bp):
ATAAAATAATAAGAGCTT
Found at i:749422 original size:22 final size:20
Alignment explanation
Indices: 749397--749443 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
749387 AATAAATAAT
749397 AATAAAATAATAAGAGCTTATA
1 AATAAAAT-AT-AGAGCTTATA
* *
749419 AATACAATATTGAGCTTATA
1 AATAAAATATAGAGCTTATA
749439 AATAA
1 AATAA
749444 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (20 bp):
AATAAAATATAGAGCTTATA
Found at i:750378 original size:18 final size:19
Alignment explanation
Indices: 750345--750405 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
750335 TATAAGTTAC
* *
750345 TAATATTATAATCATTTTTA
1 TAATTTTAT-ATCATTTTAA
*
750365 T-ATTTTTTATCATTTTAA
1 TAATTTTATATCATTTTAA
*
750383 TAATTTTATATAATTTTCAA
1 TAATTTTATATCATTTT-AA
750403 TAA
1 TAA
750406 CTGTTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.29
19 18 0.53
20 6 0.18
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTTTATATCATTTTAA
Found at i:750470 original size:10 final size:10
Alignment explanation
Indices: 750377--750471 Score: 56
Period size: 10 Copynumber: 9.5 Consensus size: 10
750367 TTTTTTATCA
750377 TTTTAATAA-
1 TTTTAATAAT
750386 TTTTATATAAT
1 TTTTA-ATAAT
*
750397 TTTCAATAACT
1 TTTTAATAA-T
*
750408 GTTTAA-AAT
1 TTTTAATAAT
**
750417 TTTTAAATGCT
1 TTTT-AATAAT
*
750428 TTTTTATAAT
1 TTTTAATAAT
*
750438 TTCT-A-AAT
1 TTTTAATAAT
750446 TTTT-ATAAAT
1 TTTTAAT-AAT
750456 ATTTTAATAAT
1 -TTTTAATAAT
750467 TTTTA
1 TTTTA
750472 GGCTTAAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.11
9 10 0.15
10 26 0.39
11 21 0.32
12 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:751083 original size:20 final size:20
Alignment explanation
Indices: 751060--751124 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
751050 TTTTGTAAGG
*
751060 TTTTGAGTTTTTTTATATATT
1 TTTTAAGTTTTTTTATATA-T
* *
751081 TTTTAAG-TTTATTATATCT
1 TTTTAAGTTTTTTTATATAT
*
751100 TTTTTAGTTTTTTTATAATAT
1 TTTTAAGTTTTTTTAT-ATAT
751121 TTTT
1 TTTT
751125 TAGAGGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 7 0.19
20 16 0.44
21 13 0.36
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (20 bp):
TTTTAAGTTTTTTTATATAT
Found at i:755507 original size:16 final size:15
Alignment explanation
Indices: 755486--755515 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
755476 TGGAGAAGAT
755486 GCATAATGGGTGGGAG
1 GCATAATGGG-GGGAG
755502 GCATAATGGGGGGA
1 GCATAATGGGGGGA
755516 TACATCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.07, G:0.50, T:0.17
Consensus pattern (15 bp):
GCATAATGGGGGGAG
Found at i:768204 original size:43 final size:43
Alignment explanation
Indices: 768103--768429 Score: 309
Period size: 43 Copynumber: 7.6 Consensus size: 43
768093 TTATGTGAAA
* * * *
768103 AAACGCCACTATAGAATATGATCTTTAGCGGCGCTTTT-TCGA-
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC-AC
* **
768145 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
768188 GAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * **
768231 GAACACCGCTAAAGATTATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * * *
768274 AAACGCCGCTAAATATCTTTGACCTTTCGCAGCACTTTTATCAC
1 AAACGCCGCTAAAGAAC-ATGACCTTTAGCGGCGCTTTTATCAC
* * *
768318 AAACGCCGCTAAAGATCTTGACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * * * * ** *
768361 AAACGCCGCTAAAGATCGTGGCATTTAACAGCGCTTCTCGCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
768404 AAACGCCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
768430 AAAAAAATTA
Statistics
Matches: 239, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
42 42 0.18
43 159 0.67
44 38 0.16
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:768329 original size:130 final size:128
Alignment explanation
Indices: 768119--768429 Score: 322
Period size: 130 Copynumber: 2.4 Consensus size: 128
768109 CACTATAGAA
* * ** *
768119 TATGATCTTTAGCGGCGCTTTTTCGAAAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTC
1 TATGACCTTTAGCGGCGCTTTTTCGAAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTA
* * * *
768184 CCACGAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACGAACACCGCTAAAGAT
66 CCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAT
* * * *
768247 TATGACCTTTAGCGGCGCTTTTATC-ACAAACGCCGCTAAATATCTTTGACCTTTCGCAGCACTT
1 TATGACCTTTAGCGGCGCTTTT-TCGA-AAACGCCGCTAAAGAAC-ATGACCTTTAGCAGCACTT
* * * * *
768311 TTATCACAAACGCCGCTAAAGATCTTGACCTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGA
63 TTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGA
768376 T
128 T
** * * * * * *
768377 CGTGGCATTTAACAGCGC-TTCTCGCAAAAACGCCGCTAAA-AACATAACCTTTA
1 TATGACCTTTAGCGGCGCTTTTTCG--AAAACGCCGCTAAAGAACATGACCTTTA
768430 AAAAAAATTA
Statistics
Matches: 148, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
128 31 0.21
129 21 0.14
130 95 0.64
131 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (128 bp):
TATGACCTTTAGCGGCGCTTTTTCGAAAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTA
CCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAT
Found at i:768342 original size:87 final size:86
Alignment explanation
Indices: 768103--768375 Score: 300
Period size: 87 Copynumber: 3.2 Consensus size: 86
768093 TTATGTGAAA
* * * * * * * *
768103 AAACGCCACTATAGAATATGATCTTTAGCGGCGCTTTT-TCGA-AAACGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTATC-ACAAACGCCGCTAAAGATCTTGA
**
768166 CCTTTAGCGGTGCTTTTCCCAC
65 CCTTTAGCGGTGCTTTTATCAC
* * * * * * *
768188 GAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACGAACACCGCTAAAGAT-TATGA
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTATCACAAACGCCGCTAAAGATCT-TGA
*
768252 CCTTTAGCGGCGCTTTTATCAC
65 CCTTTAGCGGTGCTTTTATCAC
* * * *
768274 AAACGCCGCTAAATATCTTTGACCTTTCGCAGCACTTTTATCACAAACGCCGCTAAAGATCTTGA
1 AAACGCCGCTAAAGAAC-ATGACCTTTAGCAGCACTTTTATCACAAACGCCGCTAAAGATCTTGA
768339 CCTTTAGCGGTGCTTTTATCAC
65 CCTTTAGCGGTGCTTTTATCAC
768361 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
768376 TCGTGGCATT
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
85 33 0.21
86 50 0.32
87 73 0.46
88 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTATCACAAACGCCGCTAAAGATCTTGAC
CTTTAGCGGTGCTTTTATCAC
Found at i:768736 original size:43 final size:43
Alignment explanation
Indices: 768664--768754 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
768654 CACATTGCAA
* * * *
768664 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACACTTACTTAATCAAGGAAATCTT
* *
768707 GGTAATAAAAGATATAATACACTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACACTTACTTAATCAAGGAAATCTT
768750 -GTAAT
1 GGTAAT
768755 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACACTTACTTAATCAAGGAAATCTT
Found at i:773032 original size:14 final size:14
Alignment explanation
Indices: 773015--773056 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
773005 AACTATTAAA
*
773015 CCATAATCCCTAAT
1 CCATAATCCCTAAC
773029 CCATAATCCCTAAAC
1 CCATAATCCCT-AAC
*
773044 CCATACTCCCTAA
1 CCATAATCCCTAA
773057 ACCTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (14 bp):
CCATAATCCCTAAC
Found at i:773053 original size:15 final size:15
Alignment explanation
Indices: 773011--773059 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
773001 TCTCAACTAT
773011 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
*
773025 T-AATCCATAATCCC
1 TAAACCCATAATCCC
*
773039 TAAACCCATACTCCC
1 TAAACCCATAATCCC
773054 TAAACC
1 TAAACC
773060 TTAAAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 17 0.55
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:773149 original size:18 final size:18
Alignment explanation
Indices: 773126--773162 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
773116 CCAAAAACCC
773126 TTAACAAATTTATTATTA
1 TTAACAAATTTATTATTA
773144 TTAACAAATTTATTATTA
1 TTAACAAATTTATTATTA
773162 T
1 T
773163 CTCTTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACAAATTTATTATTA
Found at i:773284 original size:14 final size:14
Alignment explanation
Indices: 773265--773298 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
773255 AACCTTAAAT
* *
773265 CCCTAACTTTTAAC
1 CCCTAACGTCTAAC
773279 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
773293 CCCTAA
1 CCCTAA
773299 ACCCATAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.41, G:0.03, T:0.26
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:773794 original size:41 final size:41
Alignment explanation
Indices: 773713--773804 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
773703 AGCGGCGCTT
* * *
773713 TTAAATCCCCCAGTATTAGCGGCGCTTTTTCAAAAACGCCG
1 TTAAAGCCCCCAGCATTAGCGGCACTTTTTCAAAAACGCCG
* ** *
773754 TTAAAGCCCCGAGCATTAGCGGCACTTTTTTGAAATCGCCG
1 TTAAAGCCCCCAGCATTAGCGGCACTTTTTCAAAAACGCCG
*
773795 CTAAAGCCCC
1 TTAAAGCCCC
773805 AAAAGGTAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (41 bp):
TTAAAGCCCCCAGCATTAGCGGCACTTTTTCAAAAACGCCG
Found at i:780688 original size:42 final size:41
Alignment explanation
Indices: 780642--780860 Score: 167
Period size: 42 Copynumber: 5.2 Consensus size: 41
780632 AGCTCTCACA
* *
780642 AGCTTCTGTTTAACTCATATTAGTTTTCT-TTCAGCTC-TATTG
1 AGCTTCTGTTTAAC-CATA-TGGGTTTCTGTTCAGCTCTTA-TG
* * *
780684 AGCTTCTATTTAACCCTGATGGGTTTCTGTTCAGCTCTTACG
1 AGCTTCTGTTTAACCAT-ATGGGTTTCTGTTCAGCTCTTATG
*
780726 AGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATG
1 AGCTTCTGTTTAA-CCATATGGGTTTCTGTTCAGCTCTTATG
* * * * * *
780768 AGCTTCCGTTCAGCTCTTATGAGCTTTC-GTTTAGCTCTTATG
1 AGCTTCTGTTTAAC-CATATG-GGTTTCTGTTCAGCTCTTATG
* * * * * *
780810 AGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTATG
1 AGCTTCTGTTTAA-CCATATGGGTTTCTGTTCAGCTCTTATG
*
780852 TGC-TCTGTT
1 AGCTTCTGTT
780861 CAGCCTTCAG
Statistics
Matches: 150, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
41 19 0.13
42 120 0.80
43 11 0.07
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (41 bp):
AGCTTCTGTTTAACCATATGGGTTTCTGTTCAGCTCTTATG
Found at i:780734 original size:21 final size:21
Alignment explanation
Indices: 780708--780864 Score: 138
Period size: 21 Copynumber: 7.5 Consensus size: 21
780698 CCTGATGGGT
*
780708 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * * *
780729 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
780750 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
780771 TTCCGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
780792 TT-TCGTTTAGCTCTTATGAGC
1 TTCT-GTTCAGCTCTTATGAGC
* * * * *
780813 TTCCGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
* * * *
780834 TTTTGTTTAGCACTTATGTGC
1 TTCTGTTCAGCTCTTATGAGC
780855 -TCTGTTCAGC
1 TTCTGTTCAGC
780865 CTTCAGGCTT
Statistics
Matches: 105, Mismatches: 29, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
20 8 0.08
21 97 0.92
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:780773 original size:84 final size:84
Alignment explanation
Indices: 780624--780851 Score: 228
Period size: 84 Copynumber: 2.7 Consensus size: 84
780614 CATGTTTACT
* * * * * *
780624 TTTCGTTTAGCTCTCACAAGCTTCTGTTTAACTCATATTAGTTTTCT-TTCAGCTC-TATTGAGC
1 TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTA-TGGGTTTCTGTTCAGCTCTTA-TGAGC
* * *
780687 TTCTATTTAACCCTGATG-GG
64 TTCCATTCAACCCTGATGAGC
*
780707 TTTCTGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCT
1 TTTC-GTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCT
* * * *
780772 TCCGTTCAGCTCTTATGAGC
65 TCCATTCAACCCTGATGAGC
* * * * * *
780792 TTTCGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTATG
1 TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATG
780852 TGCTCTGTTC
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
83 11 0.09
84 102 0.85
85 7 0.06
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (84 bp):
TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTT
CCATTCAACCCTGATGAGC
Found at i:789181 original size:42 final size:41
Alignment explanation
Indices: 789135--789353 Score: 167
Period size: 42 Copynumber: 5.2 Consensus size: 41
789125 AGCTCTCACA
* *
789135 AGCTTCTGTTTAACTCATATTAGTTTTCT-TTCAGCTC-TATTG
1 AGCTTCTGTTTAAC-CATA-TGGGTTTCTGTTCAGCTCTTA-TG
* * *
789177 AGCTTCTATTTAACCCTGATGGGTTTCTGTTCAGCTCTTACG
1 AGCTTCTGTTTAACCAT-ATGGGTTTCTGTTCAGCTCTTATG
*
789219 AGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATG
1 AGCTTCTGTTTAA-CCATATGGGTTTCTGTTCAGCTCTTATG
* * * * * *
789261 AGCTTCCGTTCAGCTCTTATGAGCTTTC-GTTTAGCTCTTATG
1 AGCTTCTGTTTAAC-CATATG-GGTTTCTGTTCAGCTCTTATG
* * * * * *
789303 AGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTATG
1 AGCTTCTGTTTAA-CCATATGGGTTTCTGTTCAGCTCTTATG
*
789345 TGC-TCTGTT
1 AGCTTCTGTT
789354 CAGCCTTCAG
Statistics
Matches: 150, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
41 19 0.13
42 120 0.80
43 11 0.07
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (41 bp):
AGCTTCTGTTTAACCATATGGGTTTCTGTTCAGCTCTTATG
Found at i:789227 original size:21 final size:21
Alignment explanation
Indices: 789201--789357 Score: 138
Period size: 21 Copynumber: 7.5 Consensus size: 21
789191 CCTGATGGGT
*
789201 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * * *
789222 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
789243 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
789264 TTCCGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
789285 TT-TCGTTTAGCTCTTATGAGC
1 TTCT-GTTCAGCTCTTATGAGC
* * * * *
789306 TTCCGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
* * * *
789327 TTTTGTTTAGCACTTATGTGC
1 TTCTGTTCAGCTCTTATGAGC
789348 -TCTGTTCAGC
1 TTCTGTTCAGC
789358 CTTCAGGCTT
Statistics
Matches: 105, Mismatches: 29, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
20 8 0.08
21 97 0.92
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:789266 original size:84 final size:84
Alignment explanation
Indices: 789117--789344 Score: 228
Period size: 84 Copynumber: 2.7 Consensus size: 84
789107 CATGTTTACT
* * * * * *
789117 TTTCGTTTAGCTCTCACAAGCTTCTGTTTAACTCATATTAGTTTTCT-TTCAGCTC-TATTGAGC
1 TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTA-TGGGTTTCTGTTCAGCTCTTA-TGAGC
* * *
789180 TTCTATTTAACCCTGATG-GG
64 TTCCATTCAACCCTGATGAGC
*
789200 TTTCTGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCT
1 TTTC-GTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCT
* * * *
789265 TCCGTTCAGCTCTTATGAGC
65 TCCATTCAACCCTGATGAGC
* * * * * *
789285 TTTCGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTATG
1 TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATG
789345 TGCTCTGTTC
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
83 11 0.09
84 102 0.85
85 7 0.06
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (84 bp):
TTTCGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTT
CCATTCAACCCTGATGAGC
Found at i:793770 original size:9 final size:9
Alignment explanation
Indices: 793756--793782 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
793746 AATAAGGTAG
793756 TTAACCGAA
1 TTAACCGAA
793765 TTAACCGAA
1 TTAACCGAA
793774 TTAACCGAA
1 TTAACCGAA
793783 AAATATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (9 bp):
TTAACCGAA
Done.