Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_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: 1170587
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:825650 original size:31 final size:30
Alignment explanation
Indices: 825549--825694 Score: 90
Period size: 29 Copynumber: 4.8 Consensus size: 30
825539 TAATATAATA
* * *
825549 TTATATTTTTAATATTATATAA-AATAATCGA
1 TTATA-TTTTAATAATATATAATAAAAATC-T
* * *
825580 TTATATTATAATAATATA-AGATATTATAT-T
1 TTATATTTTAATAATATATA-ATA-AAAATCT
825610 TT-TATTTTAATAATATATAATAAAAATCT
1 TTATATTTTAATAATATATAATAAAAATCT
**
825639 TTATATATTTAATAATGA-ATAAT-ATTAT-T
1 TTATAT-TTTAATAAT-ATATAATAAAAATCT
*
825668 TATATATTTTAATAATATTTTAATAAA
1 T-TATATTTTAATAATA-TATAATAAA
825695 GATATTTAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.04
29 32 0.36
30 30 0.33
31 21 0.23
32 3 0.03
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (30 bp):
TTATATTTTAATAATATATAATAAAAATCT
Found at i:825651 original size:28 final size:29
Alignment explanation
Indices: 825620--825683 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
825610 TTTATTTTAA
*
825620 TAATATAT-AATAAAAATCTTTATATA-TT
1 TAATA-ATGAATAAAAATATTTATATATTT
* *
825648 TAATAATGAATAATATTATTTATATATTT
1 TAATAATGAATAAAAATATTTATATATTT
825677 TAATAAT
1 TAATAAT
825684 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 20 0.65
29 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TAATAATGAATAAAAATATTTATATATTT
Found at i:825663 original size:19 final size:19
Alignment explanation
Indices: 825641--825693 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
825631 AAAAATCTTT
825641 ATATATTTAATAATGAATA
1 ATATATTTAATAATGAATA
* *
825660 ATATTATTTATATATTTTAATA
1 ATA-TATTTA-ATA-ATGAATA
825682 ATAT-TTTAATAA
1 ATATATTTAATAA
825694 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATATTTAATAATGAATA
Found at i:825665 original size:60 final size:59
Alignment explanation
Indices: 825535--825694 Score: 159
Period size: 60 Copynumber: 2.7 Consensus size: 59
825525 ATTAGTATTT
* * *
825535 ATAATAATATAATA-TTATATTTTTAATATTATATAA-AATAATCGATTATATTATAATA
1 ATAATAATATTATATTTATA-TTTTAATAATATATAATAAAAATCGATTATATTATAATA
* * *
825593 AT-ATAAGATATTATATTTTTATTTTAATAATATATAATAAAAATC-TTTATATATTTAATA
1 ATAAT-A-ATATTATATTTATATTTTAATAATATATAATAAAAATCGATTATAT-TATAATA
*
825653 ATGAATAATATTAT-TTATATATTTTAATAATATTTTAATAAA
1 AT-AATAATATTATATT-TATATTTTAATAATA-TATAATAAA
825695 GATATTTAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
57 2 0.02
58 3 0.04
59 30 0.35
60 39 0.46
61 9 0.11
62 2 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (59 bp):
ATAATAATATTATATTTATATTTTAATAATATATAATAAAAATCGATTATATTATAATA
Found at i:825701 original size:14 final size:11
Alignment explanation
Indices: 825656--825693 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
825646 TTTAATAATG
825656 AATAATATTATT
1 AATAATATT-TT
*
825668 TAT-ATATTTT
1 AATAATATTTT
825678 AATAATATTTT
1 AATAATATTTT
825689 AATAA
1 AATAA
825694 AGATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 4 0.17
11 17 0.74
12 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATAATATTTT
Found at i:825924 original size:21 final size:20
Alignment explanation
Indices: 825894--825967 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 20
825884 ATTATTACTA
825894 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAA-T
*
825915 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTT-CCAAT
*
825936 TCGCATTGCGATTTTCTCAAT
1 TCGCAATGCGATTTTC-CAAT
825957 TCGCAATGCGA
1 TCGCAATGCGA
825968 ATAAGTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.90
22 4 0.08
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (20 bp):
TCGCAATGCGATTTTCCAAT
Found at i:826000 original size:21 final size:20
Alignment explanation
Indices: 825957--826008 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
825947 TTTTCTCAAT
*
825957 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
825977 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
825998 TCGAAATGCGA
1 TCGCAATGCGA
826009 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:826021 original size:41 final size:41
Alignment explanation
Indices: 825994--826131 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 41
825984 GCGAATTTGG
825994 AAAATCGA-AATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATC-ACAATGCGATACTGACTATCGCAACGCGATAATAC
* * *
826035 AAAATCACAATGCGATACTGACTTTCGCAACACGATACTTAC
1 AAAATCACAATGCGATACTGACTATCGCAACGCGATA-ATAC
** * * * *
826077 --TTTCGCAACT-AGATACTGACTTTCGCAACGAGATAATAC
1 AAAATCACAA-TGCGATACTGACTATCGCAACGCGATAATAC
* *
826116 ATAATCGCAATGCGAT
1 AAAATCACAATGCGAT
826132 TTTCAAAACG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
39 3 0.04
40 29 0.37
41 43 0.55
42 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (41 bp):
AAAATCACAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:826028 original size:20 final size:20
Alignment explanation
Indices: 826005--826111 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
825995 AAATCGAAAT
*
826005 GCGATACTGACTATCGCAAC
1 GCGATACTGACTTTCGCAAC
* ** * *
826025 GCGATAAT-ACAAAATCACAAT
1 GCGATACTGAC--TTTCGCAAC
826046 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
* *
826066 ACGATACTTACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
**
826086 TAGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
*
826106 GAGATA
1 GCGATA
826112 ATACATAATC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.75
21 13 0.19
22 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (20 bp):
GCGATACTGACTTTCGCAAC
Found at i:826326 original size:22 final size:22
Alignment explanation
Indices: 826298--826341 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
826288 CACTCTCTCA
826298 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
826320 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
826342 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:826643 original size:20 final size:20
Alignment explanation
Indices: 826606--826662 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 20
826596 TATTCTCTCG
* **
826606 TTGCGATAGTCAAATTCGCA
1 TTGCGATTGTCATTTTCGCA
**
826626 TTGCGATTGTCATTTTCGTG
1 TTGCGATTGTCATTTTCGCA
* *
826646 TTGTGATTTTCATTTTC
1 TTGCGATTGTCATTTTC
826663 AGAAACTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (20 bp):
TTGCGATTGTCATTTTCGCA
Found at i:828028 original size:18 final size:18
Alignment explanation
Indices: 827982--828030 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
827972 TCCACTTCGG
*
827982 GAGCCATCACCTCACCCA
1 GAGCTATCACCTCACCCA
828000 GAGCTATCACCTCACCCA
1 GAGCTATCACCTCACCCA
828018 GA-CTATACACCTC
1 GAGCTAT-CACCTC
828031 CACAACGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.29, C:0.45, G:0.10, T:0.16
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:828603 original size:19 final size:20
Alignment explanation
Indices: 828549--828615 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
828539 TAGTTTACTT
* *
828549 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
828569 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
828589 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
828608 TCGCAACG
1 TCGCAACG
828616 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:828623 original size:14 final size:14
Alignment explanation
Indices: 828604--828662 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
828594 ATGCGAAATG
828604 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
828618 AAAATCGCAATACGAAATG
1 AAAATCGC-A-ACG--A-C
828637 AAAATCGCAACGAC
1 AAAATCGCAACGAC
828651 AAAATCGCAACG
1 AAAATCGCAACG
828663 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 20 0.53
15 2 0.05
16 3 0.08
17 3 0.08
18 2 0.05
19 8 0.21
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:828634 original size:33 final size:33
Alignment explanation
Indices: 828588--828679 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
828578 GGAAATGGCT
828588 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
828621 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
828654 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
828680 TGCGAAATGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:828677 original size:85 final size:86
Alignment explanation
Indices: 828568--828731 Score: 285
Period size: 85 Copynumber: 1.9 Consensus size: 86
828558 GAAAATGACT
***
828568 ATCGCAACGCGGAAATGGCTATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATACGA
1 ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATACGA
828633 AATGAAAATCGCAACGACAAA
66 AATGAAAATCGCAACGACAAA
*
828654 ATCGCAACGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGA
1 ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATACGA
828718 AATGAAAATCGCAA
66 AATGAAAATCGCAA
828732 TGCGATTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 64 0.86
86 10 0.14
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (86 bp):
ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATACGA
AATGAAAATCGCAACGACAAA
Found at i:828733 original size:52 final size:52
Alignment explanation
Indices: 828618--828736 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
828608 TCGCAACGAC
*
828618 AAAATCGCAATACGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATG
*
828670 AAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATG
828722 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
828737 TTTGTGTTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (52 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATG
Found at i:828765 original size:14 final size:14
Alignment explanation
Indices: 828743--828787 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
828733 GCGATTTGTG
*
828743 TTTGGCGTTGCGAT
1 TTTGTCGTTGCGAT
828757 TTTGTCGTTGCGAT
1 TTTGTCGTTGCGAT
* *
828771 TTTCTCGTTGTGAT
1 TTTGTCGTTGCGAT
828785 TTT
1 TTT
828788 CATTTCGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.07, C:0.13, G:0.27, T:0.53
Consensus pattern (14 bp):
TTTGTCGTTGCGAT
Found at i:828788 original size:14 final size:14
Alignment explanation
Indices: 828748--828788 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
828738 TTGTGTTTGG
*
828748 CGTTGCGATTTTGT
1 CGTTGCGATTTTCT
828762 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
*
828776 CGTTGTGATTTTC
1 CGTTGCGATTTTC
828789 ATTTCGCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.17, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:828836 original size:20 final size:20
Alignment explanation
Indices: 828790--828862 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
828780 GTGATTTTCA
* *
828790 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGTCAT
828810 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* *
828830 TTTCGCGTTGGGAAAGT-AT
1 TTTCGCGTTGCGATAGTCAT
*
828849 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
828863 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:829262 original size:21 final size:20
Alignment explanation
Indices: 829210--829265 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
829200 GACTCACCTG
*
829210 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGGCCCCT
* **
829230 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGGCCCCT
829251 ATCATCCCTCAAGAG
1 -TCATCCCTCAAGAG
829266 TCTCCCCCCA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGGCCCCT
Found at i:829281 original size:42 final size:42
Alignment explanation
Indices: 829210--829298 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
829200 GACTCACCTG
* *
829210 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* *
829252 TCATCCCTCAAGAGTCTCCC-CCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTC-CCCTCCAACCGTTCAAGAGGCCACTA
829294 TCATC
1 TCATC
829299 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:829318 original size:42 final size:41
Alignment explanation
Indices: 829210--829328 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
829200 GACTCACCTG
* * *
829210 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGT-CCCTCCCACCGTTCAAGAGGCCACTA
* *
829252 TCATCCCTCAAGAGTCTCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTC-CCTCCCACCGTTCAAGAGGCCACTA
** * * *
829294 TCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TCATCCCTCAAGA-GTCCCTCCCACCGTTCAAGAG
829329 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.94
43 3 0.05
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:830869 original size:19 final size:19
Alignment explanation
Indices: 830845--830990 Score: 115
Period size: 19 Copynumber: 8.3 Consensus size: 19
830835 GCAACGAGAG
*
830845 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
830864 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
830883 AATCGCAATGCG--A-G--
1 AATCGCAACGCGAAATGAA
*
830897 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAA
*
830916 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAATGAA
830930 AATCGCAACGCGAAACT--A
1 AATCGCAACGCGAAA-TGAA
830948 AATCGCAACGCGAAACT--A
1 AATCGCAACGCGAAA-TGAA
830966 AATCGCAACGCGAAACT-AA
1 AATCGCAACGCGAAA-TGAA
830985 AATCGC
1 AATCGC
830991 GTTGCGATTT
Statistics
Matches: 111, Mismatches: 4, Indels: 24
0.80 0.03 0.17
Matches are distributed among these distances:
14 20 0.18
15 1 0.01
16 4 0.04
17 3 0.03
18 37 0.33
19 46 0.41
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:830934 original size:33 final size:33
Alignment explanation
Indices: 830861--830990 Score: 133
Period size: 33 Copynumber: 3.8 Consensus size: 33
830851 AATGCGAAAT
* *
830861 GAAAATCGCAATGCGAAATGAAAATCGCAATGC
1 GAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
830894 GAGAATCGCAACGTGAAATGAAAATCGCAACGAC
1 GAAAATCGCAACGCGAAATGAAAATCGCAACG-C
830928 -AAAATCGCAACGCGAAACT--AAATCGCAACGC
1 GAAAATCGCAACGCGAAA-TGAAAATCGCAACGC
830959 GAAACTAAATCGCAACGCGAAACT-AAAATCGC
1 G--A--AAATCGCAACGCGAAA-TGAAAATCGC
830991 GTTGCGATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.01
32 11 0.13
33 43 0.52
34 3 0.04
36 18 0.22
37 7 0.08
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
GAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:830997 original size:19 final size:18
Alignment explanation
Indices: 830929--830990 Score: 115
Period size: 18 Copynumber: 3.4 Consensus size: 18
830919 CGCAACGACA
830929 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
830947 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
830965 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
830983 AAAATCGC
1 -AAATCGC
830991 GTTGCGATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 36 0.84
19 7 0.16
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAAACT
Found at i:831009 original size:19 final size:19
Alignment explanation
Indices: 830987--831050 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
830977 GAAACTAAAA
830987 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
831006 TCGCTTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
831020 CCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
831039 TCGCATTGCGAT
1 TCGCGTTGCGAT
831051 GGTCAAATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
14 8 0.24
16 3 0.09
17 3 0.09
19 19 0.58
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:832092 original size:24 final size:24
Alignment explanation
Indices: 832041--832094 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
832031 GTATTCGAAA
* *
832041 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
832065 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
832089 TTTGAT
1 TTTGAT
832095 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:834578 original size:19 final size:18
Alignment explanation
Indices: 834554--834683 Score: 86
Period size: 19 Copynumber: 7.6 Consensus size: 18
834544 TCATTTGACC
834554 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
834573 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
834587 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
834606 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
834620 ATCGCAACGCGAAATAAAA
1 ATCGCAA-GCGAAATGAAA
**
834639 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
834653 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
834672 ATCGCAACGCGA
1 ATCGCAA-GCGA
834684 TTTTAGTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
14 26 0.31
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 37 0.44
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:834591 original size:14 final size:14
Alignment explanation
Indices: 834572--834628 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
834562 GCGAAATGAA
834572 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
834586 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
834605 AATCGCAACGAGAG
1 AATCGCAACGAGAG
834619 AATCGCAACG
1 AATCGCAACG
834629 CGAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:834596 original size:33 final size:33
Alignment explanation
Indices: 834554--834680 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
834544 TCATTTGACC
834554 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
834587 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
834620 ATCGCAACGCGAAATAAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
834653 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
834681 CGATTTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:834702 original size:19 final size:19
Alignment explanation
Indices: 834680--834774 Score: 98
Period size: 19 Copynumber: 5.3 Consensus size: 19
834670 AAATCGCAAC
834680 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
834699 GCGA-TTTAGTTTCACGTT
1 GCGATTTTAGTTTCGCGTT
834717 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
834731 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
834750 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
834769 GCGATT
1 GCGATT
834775 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
14 12 0.18
16 1 0.01
17 1 0.01
18 18 0.27
19 35 0.52
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:834755 original size:33 final size:32
Alignment explanation
Indices: 834695--834757 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
834685 TTTAGTTTCG
834695 CGTTGCGATTTAGTTTCACGTTGCGATTTTGT
1 CGTTGCGATTTAGTTTCACGTTGCGATTTTGT
*
834727 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTT
1 CGTTGCGA-TTT-AGTTTCACGTTGCGATTTT
834758 CATTTCGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 8 0.29
33 19 0.68
34 1 0.04
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.48
Consensus pattern (32 bp):
CGTTGCGATTTAGTTTCACGTTGCGATTTTGT
Found at i:834789 original size:52 final size:52
Alignment explanation
Indices: 834680--834806 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 52
834670 AAATCGCAAC
* * *
834680 GCGATTTT-AGTTTCGCGTTGCGA-TTTAGTTTCACGTTGCGATTTTGTCGTT
1 GCGATTTTCA-TTTCGCGTTGCGATTTTAGTTTCACATTGCGATTCTCTCGTT
*
834731 GCGATTTTCATTTCGCGTTGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTTT-AGTTTCACATTGCGATTCTCTCGTT
*
834783 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
834807 AGTAATTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
51 21 0.31
52 46 0.68
53 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (52 bp):
GCGATTTTCATTTCGCGTTGCGATTTTAGTTTCACATTGCGATTCTCTCGTT
Found at i:834805 original size:19 final size:19
Alignment explanation
Indices: 834729--834806 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
834719 GATTTTGTCG
*
834729 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
834748 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
834767 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
834781 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
834800 TTGCGAT
1 TTGCGAT
834807 AGTAATTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 7 0.14
19 31 0.61
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:834932 original size:14 final size:14
Alignment explanation
Indices: 834913--834949 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
834903 CATCAATTAA
834913 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
834927 ACAAATCATCTTTT
1 ACAAATCAACTTTT
834941 ACAAATCAA
1 ACAAATCAA
834950 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:836366 original size:21 final size:21
Alignment explanation
Indices: 836300--836366 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
836290 GTGAATCGGG
*
836300 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
836320 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
836342 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
836363 CTCT
1 CTCT
836367 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:836865 original size:94 final size:94
Alignment explanation
Indices: 836704--836918 Score: 367
Period size: 94 Copynumber: 2.3 Consensus size: 94
836694 GAATAGTTTC
* * *
836704 AATTGACAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTC
* * *
836769 ACAGTGTTAAAGAATACACAGTTTAGTAG
66 ACAGTGTTAAAGAACACACAGTTTAGCAA
836798 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTC
836863 ACAGTGTTAAAGAACACACAGTTTAGCAA
66 ACAGTGTTAAAGAACACACAGTTTAGCAA
*
836892 AATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAACAAATTTACT
836919 AAGCAATCTA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAACACACAGTTTAGCAA
Found at i:838651 original size:19 final size:19
Alignment explanation
Indices: 838605--838716 Score: 144
Period size: 19 Copynumber: 6.1 Consensus size: 19
838595 TCTTTTGGTT
*
838605 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
838624 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
838644 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
838661 G--A-GATAATCGCAACGT
1 GAAATGAAAATCGCAACGC
838677 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
838696 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
838715 GA
1 GA
838717 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 1 0.01
17 2 0.02
18 1 0.01
19 48 0.59
20 18 0.22
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:838675 original size:33 final size:35
Alignment explanation
Indices: 838605--838694 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 35
838595 TCTTTTGGTT
838605 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAGAAT--AAATCGCAACGC
*
838644 GAAATGAAAATCGCAACGAG-AT-AATCGCAACGT
1 GAAATGAAAATCGCAACGAGAATAAATCGCAACGC
838677 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
838695 CGAAATGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
33 28 0.56
36 2 0.04
37 3 0.06
39 17 0.34
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGAATAAATCGCAACGC
Found at i:838747 original size:14 final size:14
Alignment explanation
Indices: 838728--838783 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
838718 TTTGGTTTCG
838728 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
838742 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
838761 CGTTGCGATTATCT
1 CGTTGCGATTATCT
838775 CGTTGCGAT
1 CGTTGCGAT
838784 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:838760 original size:33 final size:33
Alignment explanation
Indices: 838712--838792 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
838702 AAAATCGCAA
**
838712 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
838745 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
838778 TGCGATAGTCATTTC
1 TGCGATTTTCATTTC
838793 CGCATTTCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:839362 original size:20 final size:20
Alignment explanation
Indices: 839335--839545 Score: 115
Period size: 20 Copynumber: 10.3 Consensus size: 20
839325 GCTATGTAAA
*
839335 TCGCATTGCGATATACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
839355 TTGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
839376 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
*
839396 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * * * *
839416 TCGCATAGCGAATTATGAAAA
1 TCGCATTGCGATTTACG-TAT
** * *
839437 TCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
*
839457 TCGCATTGCGATTT-TGTATT
1 TCGCATTGCGATTTACGTA-T
* *
839477 ATCGCGTTGCGATAGT-CAGTA-
1 -TCGCATTGCGAT-TTAC-GTAT
* **
839498 TCGCATTGCGATTTTTCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
839519 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
839539 TCGCATT
1 TCGCATT
839546 ACGAATTGGG
Statistics
Matches: 143, Mismatches: 37, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
19 1 0.01
20 86 0.60
21 52 0.36
22 1 0.01
23 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:839405 original size:41 final size:40
Alignment explanation
Indices: 839335--839426 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 40
839325 GCTATGTAAA
* * *
839335 TCGCATTGCGATATACGTATTTGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATATACGTAATCGCATTGCGATTTACCT-AT
* * * *
839376 TCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATATACGTAATCGCATTGCGATTTACCTAT
*
839416 TCGCATAGCGA
1 TCGCATTGCGA
839427 ATTATGAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 12 0.28
41 31 0.72
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
TCGCATTGCGATATACGTAATCGCATTGCGATTTACCTAT
Found at i:839481 original size:21 final size:22
Alignment explanation
Indices: 839456--839532 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 22
839446 GAATACGTAA
*
839456 ATCGCATTGCGATTTTGT-ATT
1 ATCGCATTGCGATTTTGTCAGT
* *
839477 ATCGCGTTGCGA--TAGTCAGT
1 ATCGCATTGCGATTTTGTCAGT
*
839497 ATCGCATTGCGATTTT-TCA-A
1 ATCGCATTGCGATTTTGTCAGT
839517 ATTCGCATTGCGATTT
1 A-TCGCATTGCGATTT
839533 ACTTATTCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.07
20 14 0.30
21 28 0.61
22 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (22 bp):
ATCGCATTGCGATTTTGTCAGT
Found at i:839571 original size:21 final size:21
Alignment explanation
Indices: 839547--839612 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
839537 ATTCGCATTA
839547 CGAATTGGGAAAATCGCAATG
1 CGAATTGGGAAAATCGCAATG
839568 CGAATTGGGAAAATCGCAATG
1 CGAATTGGGAAAATCGCAATG
* *
839589 AGAAATT-GGAAAATCGCATTG
1 CG-AATTGGGAAAATCGCAATG
839610 CGA
1 CGA
839613 TAGTAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.02
21 36 0.88
22 4 0.10
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAATTGGGAAAATCGCAATG
Found at i:840127 original size:14 final size:14
Alignment explanation
Indices: 840093--840133 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
840083 AAATGTAATT
*
840093 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
840107 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
* *
840121 CGTTTTCCAGAAA
1 CATTTTCCGGAAA
840134 TGTAATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:840160 original size:20 final size:20
Alignment explanation
Indices: 840123--840161 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
840113 CCGGAAAACG
**
840123 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
840143 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
840162 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:840171 original size:15 final size:15
Alignment explanation
Indices: 840135--840207 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
840125 TTCCAGAAAT
**
840135 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
840150 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
*
840164 GTAATTCATTTTTCAGTTCCA
1 GTAATTCA------AATTCCA
840185 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
840200 GTAATTCA
1 GTAATTCA
840208 TTTTTCGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 12 0.26
15 21 0.45
21 14 0.30
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:840192 original size:36 final size:35
Alignment explanation
Indices: 840145--840213 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 35
840135 GTAATTCATT
840145 TTCCAGAATTCAAATTCCAGTAATTCATTTTTCAG
1 TTCCAGAATTCAAATTCCAGTAATTCATTTTTCAG
840180 TTCCAGTAATTCAAATTCCAGTAATTCATTTTTC
1 TTCCAG-AATTCAAATTCCAGTAATTCATTTTTC
840214 GGAAAACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (35 bp):
TTCCAGAATTCAAATTCCAGTAATTCATTTTTCAG
Found at i:840201 original size:21 final size:21
Alignment explanation
Indices: 840159--840201 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
840149 AGAATTCAAA
** *
840159 TTCCAGTAATTCATTTTTCAG
1 TTCCAGTAATTCAAATTCCAG
840180 TTCCAGTAATTCAAATTCCAG
1 TTCCAGTAATTCAAATTCCAG
840201 T
1 T
840202 AATTCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (21 bp):
TTCCAGTAATTCAAATTCCAG
Found at i:840741 original size:17 final size:18
Alignment explanation
Indices: 840708--840741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
840698 TCGCTACTAG
840708 TGAACCGGTCGGAACCGC
1 TGAACCGGTCGGAACCGC
*
840726 TGAACCGTTC-GAACCG
1 TGAACCGGTCGGAACCG
840742 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCGGAACCGC
Found at i:845934 original size:20 final size:20
Alignment explanation
Indices: 845905--845943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
845895 ATTTTACCAC
*
845905 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
845925 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
845944 TATGAGCTCT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:847917 original size:2 final size:2
Alignment explanation
Indices: 847907--847976 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
847897 AATTGAAAAA
*
847907 AT AT A- AT AT AT AT AT AT AT AT A- AT AT A- AA AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
847945 AA ACT AT AT TT AT AT -T AT AA ACT AT AT AT AT A
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT A
847977 AATTATATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
1 5 0.09
2 47 0.87
3 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:847929 original size:17 final size:17
Alignment explanation
Indices: 847913--848074 Score: 76
Period size: 18 Copynumber: 8.6 Consensus size: 17
847903 AAAAATATAA
847913 TATATATATATATATAA-
1 TATATATATATATA-AAC
*
847930 TATAAAATTATATATAAAC
1 TAT-ATA-TATATATAAAC
*
847949 TATATTTATATTATAAAC
1 TATATATATA-TATAAAC
* **
847967 TATATATATAAATTATATT
1 TATATATATATA-TA-AAC
847986 TATGTGAACTATATATATAAAC
1 TA--T--A-TATATATATAAAC
*
848008 TATGTATATAAAATTATAAAC
1 TA--TATAT-ATA-TATAAAC
*
848029 TATATTTATATTATAAAC
1 TATATATATA-TATAAAC
*
848047 TATATA-ATTATTATAAGC
1 TATATATA-TA-TATAAAC
848065 TATATATATA
1 TATATATATA
848075 AATTATGTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 29
0.72 0.09 0.18
Matches are distributed among these distances:
17 9 0.08
18 55 0.48
19 22 0.19
20 3 0.03
21 10 0.09
22 6 0.05
23 3 0.03
24 7 0.06
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATATATATATAAAC
Found at i:847976 original size:13 final size:13
Alignment explanation
Indices: 847912--848122 Score: 106
Period size: 13 Copynumber: 15.2 Consensus size: 13
847902 AAAAAATATA
*
847912 ATATATATATA-T
1 ATATATATAAACT
*
847924 ATATAATATAAAAT
1 ATAT-ATATAAACT
847938 -TATATATAAACTAT
1 ATATATATAAAC--T
847952 ATTTATATTATAAACT
1 A--TATA-TATAAACT
*
847968 ATATATATAAATT
1 ATATATATAAACT
* *
847981 ATATTTATGTGAACT
1 ATA--TATATAAACT
847996 ATATATATAAACT
1 ATATATATAAACT
* *
848009 ATGTATATAAAAT
1 ATATATATAAACT
* *
848022 -TATAAACTATA-T
1 ATATATA-TAAACT
*
848034 TTATATTATAAACT
1 ATATA-TATAAACT
848048 ATATAATTATTATAAGCT
1 ATAT-A-TA-TA-AA-CT
*
848066 ATATATATAAATT
1 ATATATATAAACT
* * *
848079 ATGTTTATGTGAACT
1 A--TATATATAAACT
848094 ATATATATAAACT
1 ATATATATAAACT
*
848107 ATGTATATAAACT
1 ATATATATAAACT
848120 ATA
1 ATA
848123 AAAAGTGTAT
Statistics
Matches: 153, Mismatches: 26, Indels: 39
0.70 0.12 0.18
Matches are distributed among these distances:
12 16 0.10
13 73 0.48
14 13 0.08
15 25 0.16
16 6 0.04
17 7 0.05
18 13 0.08
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATATATAAACT
Found at i:848038 original size:21 final size:18
Alignment explanation
Indices: 847995--848074 Score: 83
Period size: 18 Copynumber: 4.3 Consensus size: 18
847985 TTATGTGAAC
847995 TATATA-TATAAACTATGTA
1 TATATATTATAAACTA--TA
*
848014 TATAAAATTATAAACTATA
1 TAT-ATATTATAAACTATA
*
848033 TTTATATTATAAACTATA
1 TATATATTATAAACTATA
*
848051 TA-ATTATTATAAGCTATA
1 TATA-TATTATAAACTATA
848069 TATATA
1 TATATA
848075 AATTATGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
17 1 0.02
18 32 0.62
19 8 0.15
20 2 0.04
21 9 0.17
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
TATATATTATAAACTATA
Found at i:848051 original size:98 final size:97
Alignment explanation
Indices: 847937--848117 Score: 310
Period size: 98 Copynumber: 1.9 Consensus size: 97
847927 TAATATAAAA
*
847937 TTATATATAAACTATAT-TTATATTATAAACTATATATATAAATTATATTTATGTGAACTATATA
1 TTATATATAAACTATATAAT-TATTATAAACTATATATATAAATTATATTTATGTGAACTATATA
848001 TATAAACTATGTATATAAAATTATAAACTATAT
65 TATAAACTATGTATATAAAATTATAAACTATAT
* *
848034 TTATATTATAAACTATATAATTATTATAAGCTATATATATAAATTATGTTTATGTGAACTATATA
1 TTATA-TATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACTATATA
848099 TATAAACTATGTATATAAA
65 TATAAACTATGTATATAAA
848118 CTATAAAAAG
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
97 5 0.06
98 73 0.92
99 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (97 bp):
TTATATATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACTATATAT
ATAAACTATGTATATAAAATTATAAACTATAT
Found at i:848135 original size:18 final size:18
Alignment explanation
Indices: 848109--848151 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
848099 TATAAACTAT
848109 GTATATAAACTATAAAAA
1 GTATATAAACTATAAAAA
*
848127 GTGTATAAACTATAAAAA
1 GTATATAAACTATAAAAA
848145 GTATATA
1 GTATATA
848152 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (18 bp):
GTATATAAACTATAAAAA
Found at i:848173 original size:98 final size:99
Alignment explanation
Indices: 847957--848234 Score: 282
Period size: 98 Copynumber: 2.8 Consensus size: 99
847947 ACTATATTTA
* *
847957 TATTATAAACTATATATATAAATTATATTTATGTGAACTATATATATAAACTATGTATATAAAAT
1 TATTATAAACTATATATATAAATTATGTTTATGTGAACTATATATATAAACTATGTATATAAACT
* ** * *
848022 -TATAAACTATATTTATATTATAAACTATATAAT
66 ATAAAAACTATATAAATATTAAAAACTATATAAG
*
848055 TATTATAAGCTATATATATAAATTATGTTTATGTGAACTATATATATAAACTATGTATATAAACT
1 TATTATAAACTATATATATAAATTATGTTTATGTGAACTATATATATAAACTATGTATATAAACT
* * *
848120 ATAAAAAGTGTATAAACTA-TAAAAAGTATAT-AG
66 ATAAAAACTATATAAA-TATTAAAAACTATATAAG
* * * * * *
848153 T-TTATAAAATATTATTTATAATAATATAGTATATAT-ATA-TATATATATAAACTATATATGTA
1 TATTATAAACTA-TATATATAA-ATTAT-GTTTATGTGA-ACTATATATATAAACTATGTA--TA
848215 TAAACTATATAAAA-TATATA
60 TAAACTATA-AAAACTATATA
848235 GTTTATATGT
Statistics
Matches: 152, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
97 8 0.05
98 72 0.47
99 43 0.28
100 9 0.06
101 16 0.11
102 4 0.03
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (99 bp):
TATTATAAACTATATATATAAATTATGTTTATGTGAACTATATATATAAACTATGTATATAAACT
ATAAAAACTATATAAATATTAAAAACTATATAAG
Found at i:848189 original size:2 final size:2
Alignment explanation
Indices: 848176--848273 Score: 55
Period size: 2 Copynumber: 50.0 Consensus size: 2
848166 ATTTATAATA
* * *
848176 AT AT AGT AT AT AT AT AT AT AT AT AT AA ACT AT AT AT GT AT AA ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T
* * * *
848221 AT AT A- AA AT AT AT AGT TT AT AT GT -T AT A- AT TT AT AT -T A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
848259 AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT
848274 GTATGCATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
1 6 0.08
2 63 0.85
3 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:848208 original size:15 final size:15
Alignment explanation
Indices: 848176--848225 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
848166 ATTTATAATA
*
848176 ATATAGTATATATA-T
1 ATATA-TATATAAACT
848191 ATATATATATAAACT
1 ATATATATATAAACT
*
848206 ATATATGTATAAACT
1 ATATATATATAAACT
848221 ATATA
1 ATATA
848226 AAATATATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 7 0.22
15 25 0.78
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATATATATAAACT
Found at i:848433 original size:16 final size:17
Alignment explanation
Indices: 848380--848452 Score: 85
Period size: 16 Copynumber: 4.2 Consensus size: 17
848370 TAATTTACTT
848380 TATATAGTTTATATATA
1 TATATAGTTTATATATA
* *
848397 TATATAG-GTATATCTA
1 TATATAGTTTATATATA
848413 TATATAGTTTATATATAA
1 TATATAGTTTATATAT-A
*
848431 TATACATGGTTTATATATA
1 TAT--ATAGTTTATATATA
848450 TAT
1 TAT
848453 TAGGGTTTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
16 14 0.30
17 13 0.28
18 4 0.09
19 4 0.09
20 12 0.26
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (17 bp):
TATATAGTTTATATATA
Found at i:848434 original size:20 final size:20
Alignment explanation
Indices: 848411--848449 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
848401 TAGGTATATC
*
848411 TATATATAGTTTATATATAA
1 TATACATAGTTTATATATAA
*
848431 TATACATGGTTTATATATA
1 TATACATAGTTTATATATA
848450 TATTAGGGTT
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:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (20 bp):
TATACATAGTTTATATATAA
Found at i:848448 original size:33 final size:33
Alignment explanation
Indices: 848380--848452 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
848370 TAATTTACTT
* *
848380 TATATAGTTTATATATATATATAGGTATATCTA
1 TATATAGTTTATATATATATACAGGTATATATA
*
848413 TATATAGTTTATATATAATATACATGGTTTATATA
1 TATATAGTTTATATAT-ATATACA-GGTATATATA
848448 TATAT
1 TATAT
848453 TAGGGTTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 16 0.46
34 6 0.17
35 13 0.37
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (33 bp):
TATATAGTTTATATATATATACAGGTATATATA
Found at i:848459 original size:18 final size:18
Alignment explanation
Indices: 848380--848461 Score: 84
Period size: 18 Copynumber: 4.7 Consensus size: 18
848370 TAATTTACTT
848380 TATATA-GTTTATATATA
1 TATATAGGTTTATATATA
*
848397 TATATAGG--TATATCTA
1 TATATAGGTTTATATATA
848413 TATATA-GTTTATATATAA
1 TATATAGGTTTATATAT-A
*
848431 TATACATGGTTTATATATA
1 TATATA-GGTTTATATATA
848450 TAT-TAGGGTTTA
1 TATATA-GGTTTA
848462 GGGTTTAAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
15 1 0.02
16 13 0.24
17 12 0.22
18 14 0.26
19 4 0.07
20 10 0.19
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (18 bp):
TATATAGGTTTATATATA
Found at i:848799 original size:17 final size:17
Alignment explanation
Indices: 848777--848811 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
848767 CACACAAAAA
848777 TCTTTCTTTCAAAAAGT
1 TCTTTCTTTCAAAAAGT
*
848794 TCTTTCTTTTAAAAAGT
1 TCTTTCTTTCAAAAAGT
848811 T
1 T
848812 TTCTCCCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (17 bp):
TCTTTCTTTCAAAAAGT
Found at i:848841 original size:2 final size:2
Alignment explanation
Indices: 848834--848903 Score: 112
Period size: 2 Copynumber: 37.0 Consensus size: 2
848824 TCACTTTGAG
848834 TA TA TA TA TA TA TA TA TA TA TA -A 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
848875 TA TA TA TA TA TA TA TA T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848904 ATTAAACATA
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.06
2 60 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:849357 original size:2 final size:2
Alignment explanation
Indices: 849350--849394 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
849340 TATGTTTAAT
* *
849350 TA TA TA TA TA TA TA TA TG TA TA TA CT- TT 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
849392 TA T
1 TA T
849395 TATTCAAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.95
3 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:849500 original size:11 final size:11
Alignment explanation
Indices: 849466--849502 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
849456 TATTTTATTT
849466 GGGAATTTAGA
1 GGGAATTTAGA
*
849477 GGGAAATT-G-
1 GGGAATTTAGA
849486 GGGAATTTAGA
1 GGGAATTTAGA
849497 GGGAAT
1 GGGAAT
849503 AGAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (11 bp):
GGGAATTTAGA
Found at i:850299 original size:16 final size:16
Alignment explanation
Indices: 850267--850321 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
850257 CGGATCATTT
* *
850267 ACAGGTTAGGTTAAAA
1 ACAGGTCAGGTTGAAA
* *
850283 ATAGGTCATGTTGAAA
1 ACAGGTCAGGTTGAAA
*
850299 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
850315 ACAGGTC
1 ACAGGTC
850322 GGGTAATACC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:852587 original size:24 final size:22
Alignment explanation
Indices: 852558--852645 Score: 106
Period size: 22 Copynumber: 3.9 Consensus size: 22
852548 AGTCAATGGT
852558 TACACAGGTCCTTTGGGACATAA
1 TACACAGGTCCTTTGGGACAT-A
852581 TGACACAGGT-CTTTCGGGACATA
1 T-ACACAGGTCCTTT-GGGACATA
* *
852604 TACAGAGGTCCTTCGGGACATA
1 TACACAGGTCCTTTGGGACATA
* *
852626 TACAGAGGTCATTTGGGACA
1 TACACAGGTCCTTTGGGACA
852646 AATTTCACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
22 33 0.57
23 10 0.17
24 15 0.26
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (22 bp):
TACACAGGTCCTTTGGGACATA
Found at i:861229 original size:14 final size:14
Alignment explanation
Indices: 861210--861248 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
861200 TTCAATAATA
861210 TGTTTGTTTATATT
1 TGTTTGTTTATATT
861224 TGTTTGTTTATATT
1 TGTTTGTTTATATT
861238 TGTTTGTTTAT
1 TGTTTGTTTAT
861249 GTTCAACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (14 bp):
TGTTTGTTTATATT
Found at i:861482 original size:24 final size:24
Alignment explanation
Indices: 861449--861525 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
861439 ACGTTCGTTC
* * *
861449 GTTTATGCTCATTCGATTGTGTTT
1 GTTTACGCTCGTTCGTTTGTGTTT
*
861473 ATTTACGCTCGTTCGTTTGTGTTT
1 GTTTACGCTCGTTCGTTTGTGTTT
861497 GTTTACGCTCGTTCGTTTGTGTTT
1 GTTTACGCTCGTTCGTTTGTGTTT
861521 GTTTA
1 GTTTA
861526 TCATTTTAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.09, C:0.14, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTTACGCTCGTTCGTTTGTGTTT
Found at i:863639 original size:2 final size:2
Alignment explanation
Indices: 863632--863668 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
863622 AAAATAAAAT
863632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
863669 TTGTGTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:866305 original size:2 final size:2
Alignment explanation
Indices: 866298--866329 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
866288 GCATTAGAAC
866298 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
866330 CTGAAAGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:867870 original size:110 final size:110
Alignment explanation
Indices: 867677--867898 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 110
867667 TATAAACATT
867677 TTAGATTTAACGTAAATTGTAATGACATTATCTATACTTAATCTACATGTTTTAAAATGCTACAT
1 TTAGATTTAACGTAAATTGTAATGACATTATCTATACTTAATCTACATGTTTTAAAATGCTACAT
867742 ATTCAAGGGAAAAATTAAGATTGAACTTTGGAAGGGATCAAATTG
66 ATTCAAGGGAAAAATTAAGATTGAACTTTGGAAGGGATCAAATTG
867787 TTAGATTTAACGTAAATTGTAATGACATTATCTATACTTAATCTACATGTTTTAAAATGCTACAT
1 TTAGATTTAACGTAAATTGTAATGACATTATCTATACTTAATCTACATGTTTTAAAATGCTACAT
*
867852 ATTCAAGGGCAAAATTAAGATTGAACTTTGGAAGGGATCAAATTG
66 ATTCAAGGGAAAAATTAAGATTGAACTTTGGAAGGGATCAAATTG
867897 TT
1 TT
867899 TAACTTGAAA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (110 bp):
TTAGATTTAACGTAAATTGTAATGACATTATCTATACTTAATCTACATGTTTTAAAATGCTACAT
ATTCAAGGGAAAAATTAAGATTGAACTTTGGAAGGGATCAAATTG
Found at i:871021 original size:21 final size:21
Alignment explanation
Indices: 870940--871018 Score: 140
Period size: 21 Copynumber: 3.7 Consensus size: 21
870930 AGGGTGTCAA
870940 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
870961 AGTGCATCCATGCACCCCCTGC
1 AGTGCATCCATGCA-CCCCTGC
*
870983 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACCCCTGC
871004 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
871019 TCCATTTCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
21 35 0.62
22 21 0.38
ACGTcount: A:0.20, C:0.41, G:0.19, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:871212 original size:21 final size:21
Alignment explanation
Indices: 871183--871235 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
871173 TTTGAGTAGA
871183 AAAATCATCCCCAAATGGCTCC
1 AAAA-CATCCCCAAATGGCTCC
871205 AAAACATCCCCAAATGGCTCC
1 AAAACATCCCCAAATGGCTCC
871226 AAAACATCCC
1 AAAACATCCC
871236 AACGACTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAACATCCCCAAATGGCTCC
Found at i:881476 original size:18 final size:18
Alignment explanation
Indices: 881449--881483 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
881439 CAATCCGAAA
*
881449 AAATATAATTAAAAACAC
1 AAATAGAATTAAAAACAC
881467 AAATAGAATTAAAAACA
1 AAATAGAATTAAAAACA
881484 AACTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAGAATTAAAAACAC
Found at i:882074 original size:19 final size:19
Alignment explanation
Indices: 882047--882085 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
882037 TACGGATTCT
* *
882047 AGTACAAAATATAATTAAC
1 AGTAAAAAATATAATAAAC
882066 AGTAAAAAATATAATAAAC
1 AGTAAAAAATATAATAAAC
882085 A
1 A
882086 AAATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (19 bp):
AGTAAAAAATATAATAAAC
Found at i:882725 original size:20 final size:21
Alignment explanation
Indices: 882700--882741 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
882690 TCAACTTACA
882700 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
882720 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
882741 A
1 A
882742 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:890267 original size:88 final size:88
Alignment explanation
Indices: 890168--890392 Score: 305
Period size: 88 Copynumber: 2.6 Consensus size: 88
890158 AATAGAAATA
* *
890168 TTTTTAACCTAAAATAAAATATTGAGGGCTAAAATACTCTTAAAAAAAGAATAAGAGACAAAGTG
1 TTTTTACCCTAAAATAAAATATTGAGGGCTAAAATACTCTTAAAAAAA-AATAAGAGAAAAAGTG
890233 ATTATTTTGACAAATATTATGAG-
65 ATTATTTTGACAAATATTATGAGT
* * *
890256 TTTTTACCCTAAAATGAAATATTGAGGGTTAAAATATTC-TAGAAAAAAAATAAGAGAAAAAGTG
1 TTTTTACCCTAAAATAAAATATTGAGGGCTAAAATACTCTTA-AAAAAAAATAAGAGAAAAAGTG
890320 ATTATTTTGACAAATATTATGAGTT
65 ATTATTTTGACAAATATTATGAG-T
* * * *
890345 TTTTTACTCTAAAATAAAATGTT-AGAAGCTAAAATACT-TCAAAAAAAA
1 TTTTTACCCTAAAATAAAATATTGAG-GGCTAAAATACTCTTAAAAAAAA
890393 TAGAATAGGA
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
87 40 0.33
88 50 0.42
89 30 0.25
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (88 bp):
TTTTTACCCTAAAATAAAATATTGAGGGCTAAAATACTCTTAAAAAAAAATAAGAGAAAAAGTGA
TTATTTTGACAAATATTATGAGT
Found at i:890392 original size:87 final size:85
Alignment explanation
Indices: 890168--890394 Score: 280
Period size: 87 Copynumber: 2.6 Consensus size: 85
890158 AATAGAAATA
* * *
890168 TTTTTAACCTAAAATAAAATATTGAGGGCTAAAATACTCTTAAAAAAAGAATAAGAGACAAAGTG
1 TTTTTTACCTAAAATAAAATATTGAGGGCTAAAATA--CTTCAAAAAA-AATAAGAGAAAAAGTG
890233 ATTATTTTGACAAATATTATGAG
63 ATTATTTTGACAAATATTATGAG
* *
890256 -TTTTTACCCTAAAATGAAATATTGAGGGTTAAAATA-TTCTAGAAAAAAAATAAGAGAAAAAGT
1 TTTTTTA-CCTAAAATAAAATATTGAGGGCTAAAATACTTC---AAAAAAAATAAGAGAAAAAGT
890319 GATTATTTTGACAAATATTATGAG
62 GATTATTTTGACAAATATTATGAG
* *
890343 TTTTTTTACTCTAAAATAAAATGTT-AGAAGCTAAAATACTTCAAAAAAAATA
1 -TTTTTTAC-CTAAAATAAAATATTGAG-GGCTAAAATACTTCAAAAAAAATA
890395 GAATAGGAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
85 2 0.02
87 53 0.44
88 36 0.30
89 27 0.22
90 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.32
Consensus pattern (85 bp):
TTTTTTACCTAAAATAAAATATTGAGGGCTAAAATACTTCAAAAAAAATAAGAGAAAAAGTGATT
ATTTTGACAAATATTATGAG
Found at i:893763 original size:2 final size:2
Alignment explanation
Indices: 893756--893782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
893746 TTTCTCCAGG
893756 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
893783 GCTTCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:895575 original size:30 final size:30
Alignment explanation
Indices: 895489--895554 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
895479 TCCTAATGGA
*
895489 CTAAATAAAAAAGCCATTATCTTTATTGGG
1 CTAAATCAAAAAGCCATTATCTTTATTGGG
*
895519 CTAAATCAAAAAGCCATTCTCTTTATTGGG
1 CTAAATCAAAAAGCCATTATCTTTATTGGG
895549 CTAAAT
1 CTAAAT
895555 GATGTAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (30 bp):
CTAAATCAAAAAGCCATTATCTTTATTGGG
Found at i:909029 original size:20 final size:21
Alignment explanation
Indices: 908992--909030 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
908982 ATAAAATTAA
*
908992 AAGACTTTTACCTTGTATAAC
1 AAGACTTTTACCTCGTATAAC
*
909013 AAGA-TTTTATCTCGTATA
1 AAGACTTTTACCTCGTATA
909031 TATATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
AAGACTTTTACCTCGTATAAC
Found at i:912349 original size:20 final size:20
Alignment explanation
Indices: 912308--912370 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
912298 AATCAGATTG
912308 CCCAGGGGGTACAGATTACCC
1 CCCAGGGGGTACAGATT-CCC
912329 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
* *
912349 CCTAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
912369 CC
1 CC
912371 TGTCTAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.16
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:915626 original size:20 final size:20
Alignment explanation
Indices: 915601--915663 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
915591 AATCAGATTG
915601 CCCAGGGGGTAAAGATTCCC
1 CCCAGGGGGTAAAGATTCCC
*
915621 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTAAAGATTCCC
915641 CCCAGGGGG-AACAGATTCCC
1 CCCAGGGGGTAA-AGATTCCC
915661 CCC
1 CCC
915664 TGTCTAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.13
Consensus pattern (20 bp):
CCCAGGGGGTAAAGATTCCC
Found at i:920580 original size:62 final size:62
Alignment explanation
Indices: 920483--920606 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
920473 TATGAGAAAT
920483 TGTTTTTAAAATATAAAAATGATGTTTCAAAATTGAAAAATGAAAATAAACTCATATCCAAA
1 TGTTTTTAAAATATAAAAATGATGTTTCAAAATTGAAAAATGAAAATAAACTCATATCCAAA
920545 TGTTTTTAAAATATAAAAATGATGTTTCAAAATTGAAAAATGAAAATAAACTCATATCCAAA
1 TGTTTTTAAAATATAAAAATGATGTTTCAAAATTGAAAAATGAAAATAAACTCATATCCAAA
920607 ACCAACAACG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (62 bp):
TGTTTTTAAAATATAAAAATGATGTTTCAAAATTGAAAAATGAAAATAAACTCATATCCAAA
Found at i:924406 original size:20 final size:20
Alignment explanation
Indices: 924381--924441 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
924371 TTTTGGTGCA
*
924381 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
924401 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
924422 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
924442 CACAGGGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:929613 original size:181 final size:182
Alignment explanation
Indices: 929252--929724 Score: 732
Period size: 181 Copynumber: 2.6 Consensus size: 182
929242 GATCCAAATT
* * * **
929252 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
929317 AAACCGGTAAAGCGGTATCAGATATATTTAAAGTATCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
929382 GTTAATTTAAAAGAGTAGCAGTTTTAGCAACTATAAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCAACTATAAAGTGTCGATACTTTAA
* * *
929434 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAATCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
929499 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
**
929563 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCAACTATAAAGTGTCGATACTTTAA
* *
929615 AAAAATGTATCGATTCACAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
929680 AAACCGGTAAAACGCTACAAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGATACTTT
929725 CTTAAGTATG
Statistics
Matches: 264, Mismatches: 27, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
181 169 0.64
182 95 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCAACTATAAAGTGTCGATACTTTAA
Found at i:929659 original size:20 final size:19
Alignment explanation
Indices: 929633--929691 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
929623 ATCGATTCAC
* *
929633 AATGATATAACAGGTAAAA
1 AATGATAAAACCGGTAAAA
*
929652 ATATGATAAAACCGGTATCAA
1 A-ATGATAAAACCGGTA-AAA
929673 AATGATAAAACCGGTAAAA
1 AATGATAAAACCGGTAAAA
929692 CGCTACAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (19 bp):
AATGATAAAACCGGTAAAA
Found at i:931971 original size:21 final size:21
Alignment explanation
Indices: 931945--932009 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
931935 AAGATAATCA
*
931945 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
931966 AGAGTCGAAGAGAAACTTAAG
1 AGAGTCGAAGAGAAACTTGAG
* *
931987 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
932008 AG
1 AG
932010 GCATAATGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:932080 original size:33 final size:33
Alignment explanation
Indices: 932043--932108 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
932033 AAATAGATGG
*
932043 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
932076 AGTGGTTAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
932109 TTTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:932334 original size:33 final size:33
Alignment explanation
Indices: 932295--932373 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
932285 AAAAATATGA
932295 AGAAGAAAAGAGGGAGGAAGAAGAAGAAGAGAT
1 AGAAGAAAAGAGGGAGGAAGAAGAAGAAGAGAT
* *
932328 GGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGAT
1 AGAAGAAAAGAGGGAGGAAGAAGAAGAAGAGAT
*
932361 AGAAGAAATGAGG
1 AGAAGAAAAGAGG
932374 ATGAAGGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.54, C:0.00, G:0.42, T:0.04
Consensus pattern (33 bp):
AGAAGAAAAGAGGGAGGAAGAAGAAGAAGAGAT
Found at i:932382 original size:33 final size:33
Alignment explanation
Indices: 932295--932383 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
932285 AAAAATATGA
932295 AGAAGAAAAGAGGGAGGAA-GAAGAAGAAGAGAT
1 AGAAGAAAAGAGGGA-GAAGGAAGAAGAAGAGAT
* *
932328 GGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGAT
1 AGAAGAAAAGAGGGAGAAGGAAGAAGAAGAGAT
*
932361 AGAAGAAATGA-GGATGAAGGAAG
1 AGAAGAAAAGAGGGA-GAAGGAAG
932384 TCGATGTCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 5 0.10
33 44 0.90
ACGTcount: A:0.54, C:0.00, G:0.42, T:0.04
Consensus pattern (33 bp):
AGAAGAAAAGAGGGAGAAGGAAGAAGAAGAGAT
Found at i:933346 original size:4 final size:4
Alignment explanation
Indices: 933337--933361 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
933327 TAAGAGATTG
933337 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
933362 AAAGGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:940104 original size:20 final size:20
Alignment explanation
Indices: 940059--940116 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
940049 CCCCCCTTGA
*
940059 GGGAACCGATTCCCCTTTAAAG
1 GGGAACCGATTCCCC--CAAAG
*
940081 GGGAACCGATTCCCCCACAG
1 GGGAACCGATTCCCCCAAAG
* *
940101 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
940117 CTGGGTTCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (20 bp):
GGGAACCGATTCCCCCAAAG
Found at i:944858 original size:20 final size:20
Alignment explanation
Indices: 944833--944881 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
944823 CTTTACAATA
944833 TAATAGGTAAAAATATGATG
1 TAATAGGTAAAAATATGATG
944853 TAATAGGTAAAAATATGATG
1 TAATAGGTAAAAATATGATG
944873 TAATAGGTA
1 TAATAGGTA
944882 GCGCTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (20 bp):
TAATAGGTAAAAATATGATG
Found at i:945422 original size:111 final size:112
Alignment explanation
Indices: 945340--945807 Score: 787
Period size: 113 Copynumber: 4.2 Consensus size: 112
945330 TAATAAAACT
* * *
945340 GGTTTTGTCATTTTTTTACATGTTATATTATAAAGTATCTATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
*
945405 TTTCAATATATTAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTTACC
66 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTA-TTTTTTTACC
* *
945453 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATTGATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
945518 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
66 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
*
945565 GGTTTTGTTATTTTTTTTACATGTTATATTGTAAAGTATCGATCTTTTTTATAAAAGGATCGATA
1 GGTTTTGTTA-TTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* *
945630 CTTTCAATATATCAGGTAAAGCGCTATCGGTTTTTTTA-TTTTTTACC
65 CTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
945677 GGTTTTGTTATTTTTTTAC-TGGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
1 GGTTTTGTTATTTTTTTACAT-GTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
** *
945741 CTTTCAATATATTTGGTAAAGCGCTACCGGTTTTATTATTTTTTTACC
65 CTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
945789 GGTTTTGTTATTTTTTTAC
1 GGTTTTGTTATTTTTTTAC
945808 CGGTTTTACC
Statistics
Matches: 336, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
110 1 0.00
111 85 0.25
112 67 0.20
113 183 0.54
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.49
Consensus pattern (112 bp):
GGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
Found at i:945472 original size:20 final size:21
Alignment explanation
Indices: 945428--945469 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
945418 GGTAAAGCGC
945428 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
945449 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
945470 ACCTGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.14, T:0.67
Consensus pattern (21 bp):
TACCGGTTTTGTTATTTTTTT
Found at i:945584 original size:21 final size:20
Alignment explanation
Indices: 945541--945581 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
945531 GGTAAAGCGC
945541 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
945561 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
945581 T
1 T
945582 TACATGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.66
Consensus pattern (20 bp):
TACCGGTTTTGTTATTTTTT
Found at i:945725 original size:224 final size:226
Alignment explanation
Indices: 945340--945805 Score: 796
Period size: 224 Copynumber: 2.1 Consensus size: 226
945330 TAATAAAACT
* *
945340 GGTTTTGTCA-TTTTTTTACATGTTATATTATAAAGTATCTATCCTTTTTATAAAAGGATCGATA
1 GGTTTTGTTATTTTTTTTACATGTTATATTATAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* *
945404 CTTTCAATATATTAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTTACCGGTTTTGTTATTTTTT
66 CTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATATTTTTTACCGGTTTTGTTATTTTTT
*
945469 TACCTGTTATATTGTAAAGTATTGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGT
131 TACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGT
*
945534 AAAGCGCTACCGGTTTTGTTATTTTTTTACC
196 AAAGCGCTACCGGTTTTATTATTTTTTTACC
* *
945565 GGTTTTGTTATTTTTTTTACATGTTATATTGTAAAGTATCGATCTTTTTTATAAAAGGATCGATA
1 GGTTTTGTTATTTTTTTTACATGTTATATTATAAAGTATCGATCCTTTTTATAAAAGGATCGATA
*
945630 CTTTCAATATATCAGGTAAAGCGCTATCGGTTTT-TT-TATTTTTTACCGGTTTTGTTATTTTTT
66 CTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATATTTTTTACCGGTTTTGTTATTTTTT
**
945693 TA-CTGGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATTTGG
131 TACCT-GTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGG
945757 TAAAGCGCTACCGGTTTTATTATTTTTTTACC
195 TAAAGCGCTACCGGTTTTATTATTTTTTTACC
945789 GGTTTTGTTATTTTTTT
1 GGTTTTGTTATTTTTTT
945806 ACCGGTTTTA
Statistics
Matches: 228, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
223 2 0.01
224 132 0.58
225 11 0.05
226 83 0.36
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (226 bp):
GGTTTTGTTATTTTTTTTACATGTTATATTATAAAGTATCGATCCTTTTTATAAAAGGATCGATA
CTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATATTTTTTACCGGTTTTGTTATTTTTT
TACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGT
AAAGCGCTACCGGTTTTATTATTTTTTTACC
Found at i:945790 original size:20 final size:20
Alignment explanation
Indices: 945765--945815 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
945755 GGTAAAGCGC
945765 TACCGGTTTTATTATTTTTT
1 TACCGGTTTTATTATTTTTT
*
945785 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTATTATTTTTT
945805 TACCGGTTTTA
1 TACCGGTTTTA
945816 CCGAAAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.61
Consensus pattern (20 bp):
TACCGGTTTTATTATTTTTT
Found at i:946189 original size:24 final size:24
Alignment explanation
Indices: 946162--946230 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
946152 AGCATTAAAT
946162 ACAATAAAATAATATTATTTATTA
1 ACAATAAAATAATATTATTTATTA
946186 ACAA-AATAATAATATTATTT-TTA
1 ACAATAA-AATAATATTATTTATTA
*
946209 AAATATTAAAATAAT-TTATTTA
1 ACA-A-TAAAATAATATTATTTA
946231 ATATTATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 7 0.18
24 24 0.62
25 6 0.15
26 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
ACAATAAAATAATATTATTTATTA
Found at i:947423 original size:3 final size:3
Alignment explanation
Indices: 947417--947456 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
947407 TATTAGCATG
947417 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
947457 CTTTTAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:948261 original size:50 final size:50
Alignment explanation
Indices: 948201--948326 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
948191 AGCAGAAAAT
* *
948201 CGCGCTCCCTGCACCGCGCTATATGCTGATTTGGCATCACGAGGGTATAG
1 CGCGCTCCCTGCACCGCGCTATACGCTGATCTGGCATCACGAGGGTATAG
* * * * * * *
948251 CGCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGTCATGTGGGTATAG
1 CGCGCTCCCTGCACCGCGCTATACGCTGATCTGGCATCACGAGGGTATAG
948301 CGCGCTCCCTG-ATCCGCGCTATACGC
1 CGCGCTCCCTGCA-CCGCGCTATACGC
948327 CAAGTAGGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.15, C:0.34, G:0.29, T:0.22
Consensus pattern (50 bp):
CGCGCTCCCTGCACCGCGCTATACGCTGATCTGGCATCACGAGGGTATAG
Found at i:952123 original size:18 final size:18
Alignment explanation
Indices: 952097--952158 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
952087 TTCTGACTCC
*
952097 TCGTTGTCATCATCATCA
1 TCGTCGTCATCATCATCA
952115 TCGTCGTCATCATCATCA
1 TCGTCGTCATCATCATCA
* *
952133 TCGTCGTCACCATCGTCA
1 TCGTCGTCATCATCATCA
952151 TCGTCGTC
1 TCGTCGTC
952159 GTCCTGAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.18, C:0.34, G:0.15, T:0.34
Consensus pattern (18 bp):
TCGTCGTCATCATCATCA
Found at i:952126 original size:15 final size:15
Alignment explanation
Indices: 952106--952149 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
952096 CTCGTTGTCA
952106 TCATCATCATCGTCG
1 TCATCATCATCGTCG
*
952121 TCATCATCATCATCG
1 TCATCATCATCGTCG
* *
952136 TCGTCACCATCGTC
1 TCATCATCATCGTC
952150 ATCGTCGTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.32
Consensus pattern (15 bp):
TCATCATCATCGTCG
Found at i:952155 original size:15 final size:15
Alignment explanation
Indices: 952102--952152 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
952092 ACTCCTCGTT
952102 GTCATCATCATCATC
1 GTCATCATCATCATC
*
952117 GTCGTCATCATCATC
1 GTCATCATCATCATC
* * * *
952132 ATCGTCGTCACCATC
1 GTCATCATCATCATC
952147 GTCATC
1 GTCATC
952153 GTCGTCGTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.12, T:0.31
Consensus pattern (15 bp):
GTCATCATCATCATC
Found at i:952523 original size:18 final size:18
Alignment explanation
Indices: 952500--952575 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
952490 AAAGGCGATG
*
952500 GCGGCATCATATATGGTT
1 GCGGCATCATATATGGCT
952518 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
*
952536 GCGGCATAATATATGGCT
1 GCGGCATCATATATGGCT
* *
952554 ACGGCATCATATATGGTT
1 GCGGCATCATATATGGCT
952572 GCGG
1 GCGG
952576 TGGCTGCTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:954231 original size:111 final size:111
Alignment explanation
Indices: 954083--954304 Score: 367
Period size: 111 Copynumber: 2.0 Consensus size: 111
954073 ATTACAAAAA
* *
954083 TTAATTATTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
954148 AATTAAAACGTTAAAATGTTA-TCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACT-GTATCAACAAAGTGTAGAGATAT
*
954194 TTAATTCTTAATCTAATAATCATGCA-TATAATAAATCAACTAAATATTACTAATAATTTAAATT
1 TTAATTATTAATCTAATAATCATGCATTA-AATAAATCAACTAAATATTACTAATAATTTAAATT
954258 AAATTAAAACGTTAAAATGTTACTGTATCAACAAAGTGTAGAGATAT
65 AAATTAAAACGTTAAAATGTTACTGTATCAACAAAGTGTAGAGATAT
954305 ATGATTTCCA
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
110 2 0.02
111 101 0.97
112 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACTGTATCAACAAAGTGTAGAGATAT
Found at i:954442 original size:12 final size:10
Alignment explanation
Indices: 954428--954468 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
954418 ACCTTAAAAA
*
954428 GAGAGTATTT
1 GAGAGAATTT
954438 GAGAGAAATTT
1 GAGAG-AATTT
954449 -AGAGAATTT
1 GAGAGAATTT
954458 GAGAGAATTT
1 GAGAGAATTT
954468 G
1 G
954469 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:958835 original size:30 final size:30
Alignment explanation
Indices: 958774--958870 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
958764 CTAAGGAATA
* * ***
958774 TATGGACAGCTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
958805 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* * *
958835 TCTGGATAGTTACCGAGGATCTCTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
958865 TCTGGA
1 TATGGA
958871 TAGGTCCTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 49 0.84
31 9 0.16
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:958871 original size:30 final size:30
Alignment explanation
Indices: 958801--958873 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
958791 GGTTCTTCGG
* * *
958801 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTCTAT
958831 GACCTCTGGATAGTTACCGAGGATCTCTAT
1 GACCTCTGGATAGTTACCGAGGATCTCTAT
958861 GACCTCTGGATAG
1 GACCTCTGGATAG
958874 GTCCTTCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTCTAT
Found at i:960887 original size:34 final size:37
Alignment explanation
Indices: 960818--960908 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 37
960808 AAATTTAAAT
*
960818 ATATAATAA-TTATATAAAT-ATTATTTTAATAAAAAA
1 ATATAATAACTT-TTTAAATAATTATTTTAATAAAAAA
*
960854 CATA-ACATTA-TTTTTAAATAATTA-TTT-AT-AAAAA
1 -ATATA-ATAACTTTTTAAATAATTATTTTAATAAAAAA
960888 ATATAATAACTTTTTAAATAA
1 ATATAATAACTTTTTAAATAA
960909 AATATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
33 6 0.13
34 17 0.36
35 2 0.04
36 10 0.21
37 12 0.26
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (37 bp):
ATATAATAACTTTTTAAATAATTATTTTAATAAAAAA
Found at i:960896 original size:22 final size:21
Alignment explanation
Indices: 960870--960930 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
960860 ATTATTTTTA
960870 AATAATTATTTATAA-AAAATAT
1 AATAATT-TTTA-AATAAAATAT
960892 AATAACTTTTTAAATAAAATAT
1 AATAA-TTTTTAAATAAAATAT
* **
960914 ATTAATTTAAAAATAAA
1 AATAATTTTTAAATAAA
960931 TTTTTCACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 12 0.35
22 20 0.59
23 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAATTTTTAAATAAAATAT
Found at i:963511 original size:106 final size:106
Alignment explanation
Indices: 963326--963800 Score: 736
Period size: 106 Copynumber: 4.5 Consensus size: 106
963316 TGTATTGTTC
* * * * * *
963326 CGAGTCCAACATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
* *
963391 ACCAGCCATCCCTTCGCTATGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
* *
963432 CGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
* * *
963497 ACCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
66 ACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
* * * **
963538 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAATTAGGAAATTGTTTAATGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
* *
963603 ACCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
66 ACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
*
963644 CGAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
*
963709 ACCAGTCACCCCTTCGCTGTGAAGTTGAGA-TTGTGTTGTCT
66 ACCAGCCACCCCTTCGCTGTGAAGTTGA-ACTTGTGTTGTCT
963750 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAG
963801 GCCCCTTCAT
Statistics
Matches: 337, Mismatches: 31, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
106 337 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
ACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
Found at i:968076 original size:20 final size:20
Alignment explanation
Indices: 968030--968076 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
968020 TATATGAAAA
*
968030 AAAATAATAGAAAAAATATT
1 AAAATAATAGAAAAAATAAT
* *
968050 AATATAATA-ATAATAATAAT
1 AAAATAATAGA-AAAAATAAT
968070 AAAATAA
1 AAAATAA
968077 GATAGATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATAATAGAAAAAATAAT
Done.