Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_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: 1136582
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:803833 original size:19 final size:19
Alignment explanation
Indices: 803811--803939 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
803801 AAAATCGCAA
803811 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
803830 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
803844 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
803863 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
803877 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
803896 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
803915 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
803935 TGCGA
1 TGCGA
803940 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:803853 original size:33 final size:33
Alignment explanation
Indices: 803811--803902 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
803801 AAAATCGCAA
803811 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
803844 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
803877 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
803903 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:804103 original size:93 final size:93
Alignment explanation
Indices: 803987--804548 Score: 1108
Period size: 93 Copynumber: 6.1 Consensus size: 93
803977 ATGGATTGCA
803987 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
804051 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804079 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
804144 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804172 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
804237 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804265 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
804330 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804358 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
804423 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804451 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
804516 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
804544 TTACT
1 TTACT
804549 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 464 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:806281 original size:33 final size:33
Alignment explanation
Indices: 806241--806315 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
806231 TCTTTTGGTT
806241 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
* *
806274 GAAATGAAAATCGCAACGAGAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
806307 GAAATGAAA
1 GAAATGAAA
806316 TCTAAGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATAGCAACGC
Found at i:806549 original size:22 final size:22
Alignment explanation
Indices: 806497--806551 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
806487 TGGTTGTGAG
**
806497 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
806519 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
806541 GGATTTCTTCG
1 GGATTTCTTCG
806552 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:806723 original size:20 final size:20
Alignment explanation
Indices: 806698--806891 Score: 196
Period size: 20 Copynumber: 9.7 Consensus size: 20
806688 CTTTAAATAT
806698 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
806718 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
806740 -TCGTTGCGATTTATC-GATA
1 CGCGTTGCGATTTA-CGGATA
*
806759 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
806779 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
806799 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
806819 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
806839 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
806859 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
806879 CGCGTTGCGATTT
1 CGCGTTGCGATTT
806892 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.02
20 123 0.86
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:806863 original size:60 final size:60
Alignment explanation
Indices: 806700--806871 Score: 229
Period size: 60 Copynumber: 2.9 Consensus size: 60
806690 TTAAATATCG
* ** *
806700 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTATCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTATCGATACA
* *** *
806761 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTA-CGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTATC-GATACA
*
806821 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
806872 TCATATTCGC
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.01
60 68 0.72
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTATCGATACA
Found at i:806885 original size:60 final size:60
Alignment explanation
Indices: 806697--807012 Score: 227
Period size: 60 Copynumber: 5.2 Consensus size: 60
806687 GCTTTAAATA
* **
806697 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTATCGATA-
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTT-TC-ATAT
* *** * * **
806759 -CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
* * *
806818 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
* * * * * * *
806878 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-ATAT
* * ** * *
806940 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTAT-T
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCATAT
806999 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
807013 TGTTGGTCAT
Statistics
Matches: 204, Mismatches: 38, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
58 1 0.00
59 17 0.08
60 86 0.42
61 78 0.38
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
Found at i:806908 original size:21 final size:20
Alignment explanation
Indices: 806858--806955 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
806848 ATTTATGTGT
* * * *
806858 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
806878 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
806899 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
806919 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
806940 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
806956 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:806931 original size:61 final size:60
Alignment explanation
Indices: 806858--807014 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
806848 ATTTATGTGT
*
806858 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
806919 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
806980 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
807015 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:806950 original size:41 final size:41
Alignment explanation
Indices: 806858--807014 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
806848 ATTTATGTGT
* * *
806858 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
806899 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
806940 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
806980 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
807015 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:807761 original size:16 final size:15
Alignment explanation
Indices: 807740--807791 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
807730 AGTTGGACCG
*
807740 AAAGCAACTCAAACCA
1 AAAGCAAC-CGAACCA
*
807756 AAAGCAACCTGAACAA
1 AAAGCAACC-GAACCA
807772 AAAGCAACCCGAACCA
1 AAAGCAA-CCGAACCA
807788 AAAG
1 AAAG
807792 TAATCTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.56, C:0.29, G:0.12, T:0.04
Consensus pattern (15 bp):
AAAGCAACCGAACCA
Found at i:807787 original size:32 final size:32
Alignment explanation
Indices: 807740--807814 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
807730 AGTTGGACCG
* *
807740 AAAGCAACTCAAACCAAAAGCAACCTGAA-CAA
1 AAAGCAACCCGAACCAAAAGCAACCTGAATC-A
* * *
807772 AAAGCAACCCGAACCAAAAGTAATCTGAATCG
1 AAAGCAACCCGAACCAAAAGCAACCTGAATCA
807804 AAAGCAACCCG
1 AAAGCAACCCG
807815 TATTTAGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.51, C:0.28, G:0.13, T:0.08
Consensus pattern (32 bp):
AAAGCAACCCGAACCAAAAGCAACCTGAATCA
Found at i:807916 original size:3 final size:3
Alignment explanation
Indices: 807908--807953 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
807898 ATTTATTCAT
807908 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
807954 CTCTTTTTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:808230 original size:2 final size:2
Alignment explanation
Indices: 808223--808248 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
808213 GAATGTGACA
808223 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
808249 TCACATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:808616 original size:21 final size:20
Alignment explanation
Indices: 808579--808617 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
808569 TCCCTAAACC
*
808579 TAAATCAAAACATATTAACA
1 TAAATCAAAACAAATTAACA
*
808599 TAAATCCAAACAAAATTAA
1 TAAATCAAAAC-AAATTAA
808618 TGTACCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAATCAAAACAAATTAACA
Found at i:816848 original size:34 final size:31
Alignment explanation
Indices: 816768--816864 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 31
816758 TTAGTATTTT
* * *
816768 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
816800 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
816834 TTTATATAATTATTATTTATTTA-TAAT-TA
1 TTTATATAATTATTATTTTTTTATTAATATA
816863 TT
1 TT
816865 AATTTTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
29 4 0.07
31 11 0.20
32 12 0.22
33 4 0.07
34 23 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:818612 original size:21 final size:21
Alignment explanation
Indices: 818582--818629 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
818572 GCAGGGGTAC
* *
818582 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
818603 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
818624 ATGCCA
1 ATGCCA
818630 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:818659 original size:21 final size:21
Alignment explanation
Indices: 818633--818700 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
818623 TATGCCATCT
*
818633 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
818654 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
818675 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
818696 CCGCA
1 CCGCA
818701 CCATATGGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:819320 original size:34 final size:34
Alignment explanation
Indices: 819215--819321 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
819205 ATAAATGTTT
819215 TTAAAATATAAATTATATTATTCGAAATTTAAAA
1 TTAAAATATAAATTATATTATTCGAAATTTAAAA
* * *
819249 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATATAAATTATATTATTCGAAATTTAAAA
** * *
819283 TTAAAATATAAATTATAGAATTCGAAAATTAACA
1 TTAAAATATAAATTATATTATTCGAAATTTAAAA
819317 TTAAA
1 TTAAA
819322 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
TTAAAATATAAATTATATTATTCGAAATTTAAAA
Found at i:826154 original size:29 final size:29
Alignment explanation
Indices: 826121--826189 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
826111 GCATGCTTGA
*
826121 AGGTCGCCATGCACGCCCTGCTGAAATGG
1 AGGTCGCCATGCACGCCCTGCTGAAATAG
826150 AGGTCGCCATGCACGCCCTGCTGAAATAG
1 AGGTCGCCATGCACGCCCTGCTGAAATAG
*
826179 AGGTCTCCATG
1 AGGTCGCCATG
826190 TTTCAGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCTGCTGAAATAG
Found at i:830286 original size:11 final size:11
Alignment explanation
Indices: 830270--830330 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
830260 ATGACATGAT
830270 ATATTTTATTA
1 ATATTTTATTA
830281 ATA-TTT-TT-
1 ATATTTTATTA
*
830289 A-A-TCTATTA
1 ATATTTTATTA
*
830298 ATGTTTTATTA
1 ATATTTTATTA
830309 ATATTTTATTA
1 ATATTTTATTA
*
830320 TTATTATTATT
1 ATATT-TTATT
830331 CACCTCATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 3 0.08
10 3 0.08
11 23 0.57
12 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
ATATTTTATTA
Found at i:830760 original size:57 final size:57
Alignment explanation
Indices: 830685--830862 Score: 266
Period size: 57 Copynumber: 3.1 Consensus size: 57
830675 CCTTCACTGC
*
830685 ATAATCAGCAGTAAATCTCACAAATTTTGTCTCCACCTCCCACGCCTCTTACCCAACA
1 ATAA-CAGCAGTAAATCTCACAAATTTTGTCTTCACCTCCCACGCCTCTTACCCAACA
* * *
830743 ATAACAGTAGTAAATCTCACAAATTTTGCCTTCACCTCCCACGCCTCATACCCAACA
1 ATAACAGCAGTAAATCTCACAAATTTTGTCTTCACCTCCCACGCCTCTTACCCAACA
* ** * *
830800 ATAACAACAGTAAATCTCGTAAATTTTATCTTCACCTCCCACGCCTCTTACCTAACA
1 ATAACAGCAGTAAATCTCACAAATTTTGTCTTCACCTCCCACGCCTCTTACCCAACA
830857 ATAACA
1 ATAACA
830863 ACATCAACAA
Statistics
Matches: 108, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 104 0.96
58 4 0.04
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (57 bp):
ATAACAGCAGTAAATCTCACAAATTTTGTCTTCACCTCCCACGCCTCTTACCCAACA
Found at i:831468 original size:16 final size:15
Alignment explanation
Indices: 831447--831489 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
831437 ATCAAATAAC
831447 TAAATTTAATAAAAT
1 TAAATTTAATAAAAT
*
831462 ATAAATTTAA-GAAAT
1 -TAAATTTAATAAAAT
831477 TAAATTATAATAA
1 TAAATT-TAATAA
831490 CTTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TAAATTTAATAAAAT
Found at i:842237 original size:37 final size:37
Alignment explanation
Indices: 842164--842238 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
842154 GTTGGAAAAT
*
842164 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
842201 ATTTATATAATTTT-TTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
842238 A
1 A
842239 AGTTTAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:847382 original size:19 final size:19
Alignment explanation
Indices: 847347--847392 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
847337 ATTCTATTAG
*
847347 AATAAATATATTATAAATT
1 AATAAATATATTATAAAAT
*
847366 AATAAATAT-GTATTAAAAT
1 AATAAATATATTA-TAAAAT
847385 AA-AAATAT
1 AATAAATAT
847393 TATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AATAAATATATTATAAAAT
Found at i:850264 original size:21 final size:21
Alignment explanation
Indices: 850240--850285 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
850230 CAAAATACTC
850240 CTTTGTTTTCAACCAAAAGTA
1 CTTTGTTTTCAACCAAAAGTA
850261 CTTTGTTTTCAACCAAAAGTA
1 CTTTGTTTTCAACCAAAAGTA
850282 CTTT
1 CTTT
850286 TTCTTCCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (21 bp):
CTTTGTTTTCAACCAAAAGTA
Found at i:850383 original size:43 final size:43
Alignment explanation
Indices: 850317--850399 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
850307 ACACCCTCCT
850317 TAATATTTCTGTCCTTATGGTAAATGTGAATTAGATTCATTTG
1 TAATATTTCTGTCCTTATGGTAAATGTGAATTAGATTCATTTG
*
850360 TAATATTTCTGTCCTTATTGTAAATGTGAATTAGATTCAT
1 TAATATTTCTGTCCTTATGGTAAATGTGAATTAGATTCAT
850400 CTGTTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (43 bp):
TAATATTTCTGTCCTTATGGTAAATGTGAATTAGATTCATTTG
Found at i:856097 original size:24 final size:24
Alignment explanation
Indices: 856070--856126 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
856060 CATCACAGCT
*
856070 CGTATAAATTGCACCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCG
* *
856094 CGTAGAAATTGCTCCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCG
*
856118 CATAGAAAT
1 CGTAGAAAT
856127 GTCCAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCG
Found at i:856141 original size:23 final size:23
Alignment explanation
Indices: 856115--856162 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
856105 CTCCGAAGTG
856115 CCACATAGAAATGTCCAGAAGGA
1 CCACATAGAAATGTCCAGAAGGA
* * *
856138 CCACATAGTATTGTCCCGAAGGA
1 CCACATAGAAATGTCCAGAAGGA
856161 CC
1 CC
856163 GCGTAGAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATGTCCAGAAGGA
Found at i:856558 original size:19 final size:19
Alignment explanation
Indices: 856534--856582 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
856524 CCACATAGAT
*
856534 CATGTAACATAAAGTATAA
1 CATGTAACACAAAGTATAA
856553 CATGTAACACAAAGTATAA
1 CATGTAACACAAAGTATAA
856572 CATGTAACACA
1 CATGTAACACA
856583 TAGCTCATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.22
Consensus pattern (19 bp):
CATGTAACACAAAGTATAA
Found at i:859052 original size:14 final size:14
Alignment explanation
Indices: 859033--859060 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
859023 CAATGATCAT
859033 ACAAAGAACATGAA
1 ACAAAGAACATGAA
859047 ACAAAGAACATGAA
1 ACAAAGAACATGAA
859061 TAAGAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
ACAAAGAACATGAA
Found at i:865910 original size:20 final size:20
Alignment explanation
Indices: 865771--865921 Score: 89
Period size: 20 Copynumber: 7.6 Consensus size: 20
865761 AAATGACCAA
*
865771 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * * *
865791 CAATTTCTCAAC-CTAGTTTT
1 CAAATTCGCAACGCGA-ATTT
* *
865811 CAATTTCTCAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
** *
865833 -AAA-TCGCATTGCGATTTT
1 CAAATTCGCAACGCGAATTT
*
865851 CTAAATTCGCAACGCG-ATAGT
1 C-AAATTCGCAACGCGAAT-TT
*
865872 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
*
865891 CAAATTTGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
865911 -AATTTCGCAAC
1 CAAATTCGCAAC
865922 AGGTTTTAGT
Statistics
Matches: 99, Mismatches: 22, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
18 1 0.01
19 25 0.25
20 57 0.58
21 15 0.15
22 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.31
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:866838 original size:24 final size:24
Alignment explanation
Indices: 866811--866864 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
866801 GTATTCGAAA
866811 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
866835 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
866859 TTTGAT
1 TTTGAT
866865 GATGTGATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:869480 original size:20 final size:20
Alignment explanation
Indices: 869432--869481 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
869422 ATGTTGCGAT
869432 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
869452 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
869472 CAATGCGAAA
1 CAACGCGAAA
869482 TAAGCGTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:870027 original size:24 final size:24
Alignment explanation
Indices: 870000--870050 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
869990 TTTCATATGT
870000 AATTAGAGTTTGAATTTAAATTTC
1 AATTAGAGTTTGAATTTAAATTTC
* * *
870024 AATTTGAGTTTGAGTTTGAATTTC
1 AATTAGAGTTTGAATTTAAATTTC
870048 AAT
1 AAT
870051 ATAAATTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (24 bp):
AATTAGAGTTTGAATTTAAATTTC
Found at i:870403 original size:39 final size:39
Alignment explanation
Indices: 870360--870446 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
870350 TCTGATGCTC
870360 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
870399 ATCAAAATCCAAATCTCATATGGTGTCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
870438 ATCAAAATC
1 ATCAAAATC
870447 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:870648 original size:20 final size:20
Alignment explanation
Indices: 870620--870682 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
870610 ATGTTGCGAT
870620 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
870640 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
870660 CAACGCAAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
870680 CAA
1 CAA
870683 ACCGAAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:872350 original size:21 final size:21
Alignment explanation
Indices: 872326--872421 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
872316 GGCGAGACCA
*
872326 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGAGAGGGGCCT
* *
872347 CTTGAACGATGGGAGGGGCTT
1 CTTGAACGATGAGAGGGGCCT
*
872368 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAACGATGAGAGGGGCCT
* *
872389 ATTGAACGAT-AGGAGGCGCCT
1 CTTGAACGATGA-GAGGGGCCT
* *
872410 ATTGAATGATGA
1 CTTGAACGATGA
872422 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:872419 original size:42 final size:42
Alignment explanation
Indices: 872327--872421 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
872317 GCGAGACCAC
* * * * * *
872327 TTGAACGATGACAGGGGCCTCTTGAACGATGGGAGGGGCTTC
1 TTGAATGATGACAGGGGCCTATTGAACGATAGGAGGCGCCTA
*
872369 TTCG-ATGATGAGAGGGGCCTATTGAACGATAGGAGGCGCCTA
1 TT-GAATGATGACAGGGGCCTATTGAACGATAGGAGGCGCCTA
872411 TTGAATGATGA
1 TTGAATGATGA
872422 TAGGTGCATC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 42 0.95
43 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.23
Consensus pattern (42 bp):
TTGAATGATGACAGGGGCCTATTGAACGATAGGAGGCGCCTA
Found at i:874266 original size:21 final size:24
Alignment explanation
Indices: 874215--874267 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
874205 TACAAAAACA
874215 ATAAACATACCAAATTAGATATACC
1 ATAAACATACCAAATTA-ATATACC
* *
874240 AAAAAC-TA-CAAATT-ATATACT
1 ATAAACATACCAAATTAATATACC
874261 ATAAACA
1 ATAAACA
874268 GACATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 11 0.46
23 6 0.25
24 2 0.08
25 5 0.21
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.25
Consensus pattern (24 bp):
ATAAACATACCAAATTAATATACC
Found at i:874594 original size:20 final size:20
Alignment explanation
Indices: 874571--874608 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
874561 AGAAGTTTCT
*
874571 GAAACTGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACGC
874591 GAAAATGAAAATCGCAAC
1 GAAAATGAAAATCGCAAC
874609 ACGATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:874834 original size:14 final size:14
Alignment explanation
Indices: 874817--874864 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
874807 AATTTCAAAA
874817 TAAAAATAAGAGAT
1 TAAAAATAAGAGAT
* * *
874831 TAAAAA-AACTAAAA
1 TAAAAATAA-GAGAT
874845 TAAAAATAAGAGAT
1 TAAAAATAAGAGAT
874859 TAAAAA
1 TAAAAA
874865 AACTAACCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAATAAGAGAT
Found at i:874835 original size:28 final size:28
Alignment explanation
Indices: 874813--874870 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
874803 CAAAAATTTC
874813 AAAATAAAAATAAGAGATTAAAAAAACT
1 AAAATAAAAATAAGAGATTAAAAAAACT
874841 AAAATAAAAATAAGAGATTAAAAAAACT
1 AAAATAAAAATAAGAGATTAAAAAAACT
874869 AA
1 AA
874871 CCATCGGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (28 bp):
AAAATAAAAATAAGAGATTAAAAAAACT
Found at i:874986 original size:22 final size:23
Alignment explanation
Indices: 874938--874989 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
874928 AGATGAAGAC
* *
874938 AGACGGATTTTGTCGGAAATAGG
1 AGACGGATTTCGTCAGAAATAGG
*
874961 -GACGGATTTCGTCAGAGAT-GG
1 AGACGGATTTCGTCAGAAATAGG
874982 AGACGGAT
1 AGACGGAT
874990 GTCGCCGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.23
Consensus pattern (23 bp):
AGACGGATTTCGTCAGAAATAGG
Found at i:875142 original size:20 final size:20
Alignment explanation
Indices: 875117--875160 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
875107 GCGTAAAAAT
* * *
875117 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCACGTTGCAA
875137 ATTTGACTATCACGTTGCAA
1 ATTTGACTATCACGTTGCAA
875157 ATTT
1 ATTT
875161 AGAAAATCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTTGACTATCACGTTGCAA
Found at i:877023 original size:6 final size:6
Alignment explanation
Indices: 877001--877041 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
876991 GTATATCCAT
*
877001 CTCAT- CTCATG -TCATG CTCATG CTGATG CTCATG CTCATG C
1 CTCATG CTCATG CTCATG CTCATG CTCATG CTCATG CTCATG C
877042 ATGCCAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (6 bp):
CTCATG
Found at i:878525 original size:2 final size:2
Alignment explanation
Indices: 878518--878544 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
878508 ATCTAATAAT
878518 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
878545 GGGTTAGGAT
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:880336 original size:13 final size:13
Alignment explanation
Indices: 880320--880383 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
880310 TGTGTAAATG
880320 TATTAAATATTTT
1 TATTAAATATTTT
*
880333 TATTTAATATTTTT
1 TATTAAATA-TTTT
**
880347 TGAACAAATATTTT
1 T-ATTAAATATTTT
* *
880361 TATTTAATATTAT
1 TATTAAATATTTT
880374 T-TT-AATATTT
1 TATTAAATATTT
880384 AAACGGTGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
11 6 0.15
12 2 0.05
13 17 0.43
14 10 0.25
15 5 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTAAATATTTT
Found at i:880885 original size:24 final size:24
Alignment explanation
Indices: 880858--880919 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 24
880848 GAAATTTATT
* *
880858 TTCGTCCTCTTAAAATTTTTTAAG
1 TTCGTCCTCTTAAAATTCTATAAG
*
880882 TTCGTCTCTCCTTTAAAGTTCTATAAG
1 TTCGTC-CT-C-TTAAAATTCTATAAG
880909 TTCGCTCCTCT
1 TTCG-TCCTCT
880920 AACATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 6 0.19
25 3 0.10
26 2 0.06
27 18 0.58
28 2 0.06
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (24 bp):
TTCGTCCTCTTAAAATTCTATAAG
Found at i:892574 original size:13 final size:13
Alignment explanation
Indices: 892556--892582 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
892546 TTACATAAGC
892556 GCATATGAAGACT
1 GCATATGAAGACT
892569 GCATATGAAGACT
1 GCATATGAAGACT
892582 G
1 G
892583 TTCAACGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:895722 original size:21 final size:20
Alignment explanation
Indices: 895698--895741 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
895688 TTATGCATTT
*
895698 TTAAAAGTAATAAAATAACTA
1 TTAAAAGTAATAAAA-AAATA
* *
895719 TTAAAATTACTAAAAAAATA
1 TTAAAAGTAATAAAAAAATA
895739 TTA
1 TTA
895742 TATTTTCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAAGTAATAAAAAAATA
Found at i:900861 original size:2 final size:2
Alignment explanation
Indices: 900854--900879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
900844 GAGATGTCTG
900854 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
900880 ACTTATTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:904352 original size:2 final size:2
Alignment explanation
Indices: 904345--904371 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
904335 TCCTTCATCC
904345 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
904372 CTGATAGTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:914817 original size:23 final size:23
Alignment explanation
Indices: 914789--914832 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
914779 GGGTTTGAAT
914789 CATTAGTAAAATGGAAAACTAAC
1 CATTAGTAAAATGGAAAACTAAC
914812 CATTAGTAAAATGGAAAACTA
1 CATTAGTAAAATGGAAAACTA
914833 TAAAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (23 bp):
CATTAGTAAAATGGAAAACTAAC
Found at i:927148 original size:30 final size:30
Alignment explanation
Indices: 927112--927171 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
927102 GAAAGGATAA
927112 TATAAAACAAGATTTCATTTCTTTTGTGCC
1 TATAAAACAAGATTTCATTTCTTTTGTGCC
927142 TATAAAACAAGATTTCATTTCTTTTGTGCC
1 TATAAAACAAGATTTCATTTCTTTTGTGCC
927172 ACACATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (30 bp):
TATAAAACAAGATTTCATTTCTTTTGTGCC
Found at i:931348 original size:19 final size:19
Alignment explanation
Indices: 931316--931354 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
931306 AACATTAAAA
931316 ATAAAAAATATTTAAAATT
1 ATAAAAAATATTTAAAATT
931335 ATAATAAAAT-TTTAAAATT
1 ATAA-AAAATATTTAAAATT
931354 A
1 A
931355 AACATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAAATATTTAAAATT
Found at i:936032 original size:22 final size:22
Alignment explanation
Indices: 936004--936046 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
935994 TCCATCATAA
936004 ATATTAAATAAATAAAAAACAT
1 ATATTAAATAAATAAAAAACAT
936026 ATATTAAATAAATAAAAAACA
1 ATATTAAATAAATAAAAAACA
936047 AAGGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
ATATTAAATAAATAAAAAACAT
Found at i:936089 original size:5 final size:4
Alignment explanation
Indices: 936008--936159 Score: 74
Period size: 4 Copynumber: 35.5 Consensus size: 4
935998 TCATAAATAT
* * * * *
936008 TAAA TAAA TAAA AAACA TATAT TAAA TAAA TAAA -AAA CAAA GGAAA AAAA
1 TAAA TAAA TAAA TAA-A TA-AA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA
* * *
936058 TAAA CACAA TAAA AAAA TAAA GTAAA TGAAA TAAA TAAA AAGAA TATACA
1 TAAA TA-AA TAAA TAAA TAAA -TAAA T-AAA TAAA TAAA TA-AA TA-A-A
* * * *
936108 TATAA TAATA TTAA TAAA AAAA TAAA AAAA TAAA AAAA TTAAA -AAA TAAA
1 TA-AA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TAAA
936158 TA
1 TA
936160 TATATATGTA
Statistics
Matches: 114, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
3 6 0.05
4 71 0.62
5 31 0.27
6 6 0.05
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:946756 original size:23 final size:23
Alignment explanation
Indices: 946726--946777 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
946716 TCGATCGCTT
946726 GCTTCTTAAACCCATCTACAATA
1 GCTTCTTAAACCCATCTACAATA
946749 GCTTCTTAAACCCATCTACAATA
1 GCTTCTTAAACCCATCTACAATA
946772 GCTTCT
1 GCTTCT
946778 AACTCAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (23 bp):
GCTTCTTAAACCCATCTACAATA
Found at i:949592 original size:14 final size:15
Alignment explanation
Indices: 949573--949605 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
949563 TAAATATGAT
949573 AAATAAAGG-AAAAG
1 AAATAAAGGTAAAAG
*
949587 AAATAAAGGTACAAG
1 AAATAAAGGTAAAAG
949602 AAAT
1 AAAT
949606 TGAAGACACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.12
Consensus pattern (15 bp):
AAATAAAGGTAAAAG
Found at i:950859 original size:12 final size:12
Alignment explanation
Indices: 950842--950883 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
950832 TATGTTTAAT
950842 ATAATTTAGTTA
1 ATAATTTAGTTA
*
950854 ATAATTTA-AT-
1 ATAATTTAGTTA
950864 ATAATTTAGTTA
1 ATAATTTAGTTA
*
950876 ATAGTTTA
1 ATAATTTA
950884 ATATGTATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 15 0.60
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
ATAATTTAGTTA
Found at i:950861 original size:22 final size:22
Alignment explanation
Indices: 950836--950887 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
950826 TAAAATTATG
950836 TTTAATATAATTTAGTTAATAA
1 TTTAATATAATTTAGTTAATAA
*
950858 TTTAATATAATTTAGTTAATAG
1 TTTAATATAATTTAGTTAATAA
950880 TTTAATAT
1 TTTAATAT
950888 GTATGGCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAATATAATTTAGTTAATAA
Found at i:954516 original size:43 final size:43
Alignment explanation
Indices: 954455--954541 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
954445 CCTGCTCATT
954455 CTAGCCAGTATGAGAAGCCACTCACAATCATTGTTCGTATCAA
1 CTAGCCAGTATGAGAAGCCACTCACAATCATTGTTCGTATCAA
954498 CTAGCCAGTATGAGAAGCCACTCACAATCATTGTTCGTATCAA
1 CTAGCCAGTATGAGAAGCCACTCACAATCATTGTTCGTATCAA
954541 C
1 C
954542 AAGCTGTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CTAGCCAGTATGAGAAGCCACTCACAATCATTGTTCGTATCAA
Found at i:959207 original size:125 final size:125
Alignment explanation
Indices: 958980--959301 Score: 457
Period size: 125 Copynumber: 2.6 Consensus size: 125
958970 AAGTTAGGAT
* * * * **
958980 ATGTTGGGGCGCGACTGAACCCATATTATGTTGAGATGATAACTTTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAA
* * *
959045 GAATGAGCCTTACAATTTGAGGTGATGGGGTATTTTGAAGGCCCGTACTAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATA
*
959105 ATGTGGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAA
**
959170 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCTTGTACCAGTAAAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATA
* * * ** * *
959230 AGGTTGGGGCACGACTGAACCCACATCATGATGATAAAACAAGATTCAGACCAAGAAGTCATTG-
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCA-TGA
959294 AGAATGAG
65 AGAATGAG
959302 TCTCGCAACT
Statistics
Matches: 176, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 174 0.99
126 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATA
Found at i:960087 original size:36 final size:36
Alignment explanation
Indices: 960029--960219 Score: 194
Period size: 36 Copynumber: 5.3 Consensus size: 36
960019 GGGCAAGTCA
* * *
960029 ATCTTAAGCCTTCACTAGAGAGTAGTGAAGCGATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
* *
960065 AT-TTGAAGCATTCACCAAAGAGTAGTGAAACAAT-C
1 ATCTT-AAGCCTTCACCAAAGAGTAGTGAAGCAATCC
* * * * * *
960100 ATCTTAAGCCTTCACCGAAGAATGGTAAAGCAAACA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
960136 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-A-CC
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAATCC
* *
960170 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAG-CAATCC
960207 ATCTGTAAGCCTT
1 ATCT-TAAGCCTT
960220 TAGAGCAAGA
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
34 28 0.22
35 30 0.24
36 54 0.43
37 6 0.05
38 8 0.06
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
Found at i:960110 original size:71 final size:70
Alignment explanation
Indices: 960029--960199 Score: 195
Period size: 71 Copynumber: 2.4 Consensus size: 70
960019 GGGCAAGTCA
* * * *
960029 ATCTTAAGCCTTCA-CTAGAGAGTAGTGAAGCGATCCAT-TTGAAGCATTCACCA-AAGAGTAGT
1 ATCTTAAGCCTTCACCGA-AGAGTAGTGAAGCAAACAATCTT-AAGCATTCA-CAGAAGAGTAGT
*
960091 GAAACAATC
63 GAAAC-ACC
* * * *
960100 ATCTTAAGCCTTCACCGAAGAATGGTAAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAAGCATTCACAGAAGAGTAGTGAA
*
960165 GCACC
66 ACACC
960170 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG
960200 TAAATCCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
70 31 0.37
71 49 0.58
72 4 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (70 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAAGCATTCACAGAAGAGTAGTGAA
ACACC
Found at i:960450 original size:41 final size:42
Alignment explanation
Indices: 960343--960527 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 42
960333 TTCACAATTT
* * *
960343 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
960385 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
960426 ATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
960468 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
*
960509 ACAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
960528 CATAAGACCT
Statistics
Matches: 115, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
41 48 0.42
42 67 0.58
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
Found at i:960482 original size:83 final size:83
Alignment explanation
Indices: 960343--960527 Score: 352
Period size: 83 Copynumber: 2.2 Consensus size: 83
960333 TTCACAATTT
960343 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
960408 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
960426 ATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
960491 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
960509 ACAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
960528 CATAAGACCT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 99 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:960706 original size:42 final size:41
Alignment explanation
Indices: 960640--960824 Score: 199
Period size: 42 Copynumber: 4.5 Consensus size: 41
960630 ATCACAATTT
* *
960640 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * * * *
960681 CTTAACTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * * *
960723 ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * * * * *
960764 ATTAAATCCTTAGGGTCGTCTGTAAGCCTTTTGAGCAAGATG
1 A-TAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
960806 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
960825 CATAAGACCT
Statistics
Matches: 112, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
41 47 0.42
42 65 0.58
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
Found at i:960780 original size:83 final size:83
Alignment explanation
Indices: 960640--960824 Score: 307
Period size: 83 Copynumber: 2.2 Consensus size: 83
960630 ATCACAATTT
* * * *
960640 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAACTCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGTA
960705 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* *
960723 ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCGTCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGTA
*
960788 AGCCTTTTGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
960806 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
960825 CATAAGACCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:960794 original size:297 final size:297
Alignment explanation
Indices: 960232--961030 Score: 1266
Period size: 297 Copynumber: 2.7 Consensus size: 297
960222 GAGCAAGATG
* * * *
960232 ATAAGTCCTTCGGGTAGAATGTTTTCACATGAATTTGAAAATGAAAAAATTATGTTTTAAGAAGA
1 ATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGA
*
960297 TGAAATTTTTGAAAACTAAGAATGCG-TTTTCAAATTTTCACAATTTATAAGTCCTTCGGGCCAT
66 TGAAATTTTTGAAAACTAAGAATGCGATTTTCAAA--ATCACAATTTATAAGTCCTTCGGGCCAT
960361 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
129 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * *
960426 ATAAG-TCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
194 ATAAGTTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGT
960490 AAGCCTTTAGAGCAAGATGACAAGTCCTTCGGGCCATCC
259 AAGCCTTTAGAGCAAGATGACAAGTCCTTCGGGCCATCC
* * *
960529 ATAAGACCTTTGGGTAGGATGTCTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAT
1 ATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAG
960594 ATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATCACAATTTATAAGTCCTTCGGGCCATC
65 ATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATCACAATTTATAAGTCCTTCGGGCCATC
*
960659 AGTAAGTCTTTCGAGCATGATGCTTAACTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
130 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
*
960724 TAAGTTC-TTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCGTCTGTA
195 TAAGTTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGTA
* *
960788 AGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCC
260 AGCCTTTAGAGCAAGATGACAAGTCCTTCGGGCCATCC
* * *
960826 ATAAGACCTTCAGGTAGGATGTTTTCAAAGGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGA
1 ATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGA
* * * * * *
960891 TGAAATTTTTGAAAACTATGAATGTGATTTCCAAAATCAC-ACTTAGTAAGTCATTCAGGCCATC
66 TGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATCACAATTTA-TAAGTCCTTCGGGCCATC
* * * * *
960955 AATAAGTCTTTTGAACATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAGCAAGACGA
130 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
961020 TAAG-TCATTCG
195 TAAGTTCATTCG
961031 AGCTATCCAT
Statistics
Matches: 464, Mismatches: 33, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
295 6 0.01
296 140 0.30
297 262 0.56
298 48 0.10
299 8 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (297 bp):
ATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGA
TGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATCACAATTTATAAGTCCTTCGGGCCATCA
GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGAT
AAGTTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTAGGGTCATCTGTAA
GCCTTTAGAGCAAGATGACAAGTCCTTCGGGCCATCC
Found at i:961333 original size:37 final size:37
Alignment explanation
Indices: 961288--961476 Score: 279
Period size: 37 Copynumber: 5.1 Consensus size: 37
961278 CCTCCGGGCT
*
961288 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * *
961325 ATCTTAAGCCTTCATCGAAGAGTAATGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * * * *
961362 ATTTTAAGTCTTCACTGAAGAGTAGTGAAACAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* *
961399 ATTTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
961436 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
961473 ATCT
1 ATCT
961477 CGAGTCTTAT
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 136 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
Found at i:961333 original size:78 final size:78
Alignment explanation
Indices: 961184--961337 Score: 188
Period size: 78 Copynumber: 2.0 Consensus size: 78
961174 AAGTCTTTCG
* * * *
961184 AGCATGATAATTAAATCCTTCGGGTAATTTGTAAGCCTTCCGAAGAGTAGGGAAGCAAATCCATC
1 AGCATGATAATTAAATCCTCCGGGTAATCTGTAAGCCTTCCAAAGAGTAGGGAAGCAAATCAATC
961249 AATAAGCCTTCCA
66 AATAAGCCTTCCA
* * *
961262 AGCATGATGATTAAGTCCTCCGGGCT-ATCT-TAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 AGCATGATAATTAAATCCTCCGGG-TAATCTGTAAGCCTT--CCAAAGAGTAGGGAAGCAAATCA
*
961325 ATC-TTAAGCCTTC
63 ATCAATAAGCCTTC
961338 ATCGAAGAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 8 0.12
78 33 0.51
79 24 0.37
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (78 bp):
AGCATGATAATTAAATCCTCCGGGTAATCTGTAAGCCTTCCAAAGAGTAGGGAAGCAAATCAATC
AATAAGCCTTCCA
Found at i:964357 original size:18 final size:18
Alignment explanation
Indices: 964329--964370 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
964319 TAATTATTAT
*
964329 TATATAATATAATCTATAA
1 TATA-AATATAATATATAA
*
964348 TATAAATATATTATATAA
1 TATAAATATAATATATAA
964366 TATAA
1 TATAA
964371 TATCAGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAATATAATATATAA
Found at i:970653 original size:21 final size:21
Alignment explanation
Indices: 970619--970668 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
970609 TGATTGCGGC
** *
970619 CGTCGCGGGTGCTATTGCGAT
1 CGTCGCGGACGCTATTACGAT
970640 CGTCGCGGACGCTATTACGAT
1 CGTCGCGGACGCTATTACGAT
*
970661 TGTCGCGG
1 CGTCGCGG
970669 GTAACTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.36, T:0.26
Consensus pattern (21 bp):
CGTCGCGGACGCTATTACGAT
Found at i:971373 original size:12 final size:12
Alignment explanation
Indices: 971356--971387 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
971346 CTTAATCTTT
971356 AATTTACCTTGA
1 AATTTACCTTGA
971368 AATTTACCTTGA
1 AATTTACCTTGA
971380 AATTTACC
1 AATTTACC
971388 CTTTAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (12 bp):
AATTTACCTTGA
Found at i:971501 original size:14 final size:15
Alignment explanation
Indices: 971485--971565 Score: 83
Period size: 16 Copynumber: 5.2 Consensus size: 15
971475 CCTCTTTTTT
971485 TATTTATATTATAT-
1 TATTTATATTATATA
*
971499 TATTTTTATTATATA
1 TATTTATATTATATA
*
971514 TCTTATATCATTATATA
1 TATT-TAT-ATTATATA
*
971531 TATATATATATATATA
1 TATTTATAT-TATATA
*
971547 TATATATATATATATA
1 TATTTATAT-TATATA
971563 TAT
1 TAT
971566 ATAATAGATG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
14 13 0.22
15 5 0.09
16 30 0.52
17 10 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:971530 original size:2 final size:2
Alignment explanation
Indices: 971508--971568 Score: 90
Period size: 2 Copynumber: 31.0 Consensus size: 2
971498 TTATTTTTAT
*
971508 TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
971549 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
971569 ATAGATGTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:971628 original size:17 final size:16
Alignment explanation
Indices: 971597--971731 Score: 50
Period size: 17 Copynumber: 8.1 Consensus size: 16
971587 CTCCATTTAC
971597 TATATATATATTTTTTCT
1 TATAT-TATA-TTTTTCT
971615 TAATATTATATTTTATACGT
1 T-ATATTATATTTT-T-C-T
*
971635 T-TTTATATATATTTTCT
1 TATAT-TATAT-TTTTCT
* *
971652 TAATATTCTATTTTTGT
1 T-ATATTATATTTTTCT
*
971669 T-T-TTAT-TTATTTAT
1 TATATTATATT-TTTCT
971683 ATATATTATATTTTTACT
1 -TATATTATATTTTT-CT
*
971701 T-TATTTTA-TTTT-T
1 TATATTATATTTTTCT
* *
971714 TCTATTATTTTTTTCT
1 TATATTATATTTTTCT
971730 TA
1 TA
971732 ATATCATGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 36
0.65 0.08 0.26
Matches are distributed among these distances:
13 4 0.04
14 12 0.13
15 10 0.11
16 9 0.10
17 20 0.22
18 16 0.18
19 13 0.15
20 5 0.06
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (16 bp):
TATATTATATTTTTCT
Found at i:971680 original size:32 final size:36
Alignment explanation
Indices: 971601--971674 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
971591 ATTTACTATA
*
971601 TATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTCTTAATATTATATTTTATA-GTTTT
*
971638 TATATATATTTTCTTAATATTCTATTTT-T-GTTTT
1 TATATATATTTTCTTAATATTATATTTTATAGTTTT
971672 TAT
1 TAT
971675 TTATTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 8 0.23
36 1 0.03
37 26 0.74
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (36 bp):
TATATATATTTTCTTAATATTATATTTTATAGTTTT
Found at i:971710 original size:16 final size:17
Alignment explanation
Indices: 971674--971724 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
971664 TTTGTTTTTA
*
971674 TTTATTTATA-TA-TAT
1 TTTATTTTTACTATTAT
*
971689 TATATTTTTACT-TTAT
1 TTTATTTTTACTATTAT
*
971705 TTTATTTTTTCTATTAT
1 TTTATTTTTACTATTAT
971722 TTT
1 TTT
971725 TTTCTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.28
16 14 0.48
17 7 0.24
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTTACTATTAT
Found at i:971845 original size:10 final size:9
Alignment explanation
Indices: 971830--971874 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
971820 GTACACATTA
971830 TTTTTATTCT
1 TTTTTATT-T
971840 TTTTTAATTT
1 TTTTT-ATTT
971850 TTTTTATCTT
1 TTTTTAT-TT
*
971860 TTTTAATTT
1 TTTTTATTT
971869 TTTTTA
1 TTTTTA
971875 CTCAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 9 0.29
10 19 0.61
11 3 0.10
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:971851 original size:9 final size:9
Alignment explanation
Indices: 971839--971872 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
971829 ATTTTTATTC
971839 TTTTTTAAT
1 TTTTTTAAT
*
971848 TTTTTTTAT
1 TTTTTTAAT
971857 CTTTTTTAAT
1 -TTTTTTAAT
971867 TTTTTT
1 TTTTTT
971873 TACTCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:971852 original size:19 final size:19
Alignment explanation
Indices: 971830--971874 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
971820 GTACACATTA
971830 TTTTTATTCTTTTTTAATTT
1 TTTTTA-TCTTTTTTAATTT
971850 TTTTTATCTTTTTTAATTT
1 TTTTTATCTTTTTTAATTT
971869 TTTTTA
1 TTTTTA
971875 CTCAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATCTTTTTTAATTT
Found at i:971883 original size:18 final size:19
Alignment explanation
Indices: 971843--971889 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
971833 TTATTCTTTT
***
971843 TTAATTTTTTTTATCTTTT
1 TTAATTTTTTTTATCTCAA
971862 TTAATTTTTTTTA-CTCAA
1 TTAATTTTTTTTATCTCAA
971880 TTAATTTTTT
1 TTAATTTTTT
971890 CCCTTTATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (19 bp):
TTAATTTTTTTTATCTCAA
Found at i:971956 original size:19 final size:19
Alignment explanation
Indices: 971919--971960 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
971909 TTTTTTAACA
971919 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTTTGTTTAT
*
971938 TTTTATT-ATTTTTTATTAT
1 TTTTATTCATTTTGT-TTAT
971957 TTTT
1 TTTT
971961 TACGTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTCATTTTGTTTAT
Found at i:971962 original size:10 final size:10
Alignment explanation
Indices: 971919--971962 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
971909 TTTTTTAACA
971919 TTTTATTCATT
1 TTTTATT-ATT
*
971930 TTGT-TTA-T
1 TTTTATTATT
971938 TTTTATTATT
1 TTTTATTATT
971948 TTTTATTATT
1 TTTTATTATT
971958 TTTTA
1 TTTTA
971963 CGTGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 18 0.62
11 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTATTATT
Found at i:971983 original size:26 final size:27
Alignment explanation
Indices: 971954--972007 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
971944 TATTTTTTAT
971954 TATTTTTTACGTGTTTT-TTTATT-TTC
1 TATTTTTT-CGTGTTTTATTTATTATTC
*
971980 TATTTTTTCTTGTTTTATTTATTATTC
1 TATTTTTTCGTGTTTTATTTATTATTC
972007 T
1 T
972008 CACGTTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.74
Consensus pattern (27 bp):
TATTTTTTCGTGTTTTATTTATTATTC
Found at i:972004 original size:29 final size:28
Alignment explanation
Indices: 971928--972005 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 28
971918 ATTTTATTCA
*
971928 TTTTGTTTATTTTTATTATTTTTTATTATT
1 TTTTG-TT-TTTTTATTATTTTCTATTATT
*
971958 TTTTACGTGTTTTT-TTATTTTCTATT-TT
1 TTTT--GTTTTTTTATTATTTTCTATTATT
971986 TTCTTGTTTTATTTATTATT
1 TT-TTGTTTT-TTTATTATT
972006 CTCACGTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.10
28 7 0.17
29 18 0.45
30 9 0.22
31 1 0.03
32 1 0.03
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (28 bp):
TTTTGTTTTTTTATTATTTTCTATTATT
Found at i:975162 original size:25 final size:23
Alignment explanation
Indices: 975121--975166 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
975111 ATCAGAACAA
*
975121 AAAGAGAAAAAATAGAAAAAAGC
1 AAAGAGAAAAAAAAGAAAAAAGC
975144 AAAGAGAAAATAAAAAGAAAAAA
1 AAAGAG-AAA-AAAAAGAAAAAA
975167 AAAAACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAGAGAAAAAAAAGAAAAAAGC
Found at i:975169 original size:11 final size:11
Alignment explanation
Indices: 975119--975170 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
975109 CAATCAGAAC
*
975119 AAAAAGAGAAA
1 AAAAAGAAAAA
*
975130 AAATAGAAAAA
1 AAAAAGAAAAA
*
975141 AGCAAAGAGAAAAT
1 A--AAA-AGAAAAA
975155 AAAAAGAAAAA
1 AAAAAGAAAAA
975166 AAAAA
1 AAAAA
975171 ACAAAGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 21 0.64
12 3 0.09
13 2 0.06
14 7 0.21
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:975366 original size:69 final size:69
Alignment explanation
Indices: 975254--975388 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
975244 GATTTAAACT
* * *
975254 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCCAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTACAAGATCATAGAGCA
975319 TCAA
66 TCAA
* * * * *
975323 ATGAGATTGATCAAGTACAATCATTTCTAAATCATTGAGTCACTCCACTAGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTACAAGATCATAGAGCA
975388 T
66 T
975389 TAAGAGAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTACAAGATCATAGAGCA
TCAA
Found at i:976378 original size:32 final size:31
Alignment explanation
Indices: 976326--976411 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
976316 AACAATGAGG
* * *
976326 GCATCTTTAAAGATTAAACATCAAATGTTGGA
1 GCATCTTT-GAGATTCAACATCAAATATTGGA
* * *
976358 GCATTTTTTGAGATTCAACATCGAATATTGGG
1 GCA-TCTTTGAGATTCAACATCAAATATTGGA
*
976390 GCATCTTTGGGAATTCAACATC
1 GCATCTTTGAG-ATTCAACATC
976412 CTGATGCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.14
32 34 0.77
33 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (31 bp):
GCATCTTTGAGATTCAACATCAAATATTGGA
Found at i:977199 original size:106 final size:106
Alignment explanation
Indices: 977032--977236 Score: 331
Period size: 106 Copynumber: 1.9 Consensus size: 106
977022 ATATCGTGCC
* ** *
977032 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGTTGGTTATCAAAAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
977097 AATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCGA-AGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
977138 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
*
977203 AATTTCGAAGCCAATTTCAACTTCACAGCGAAGG
66 AATTTCGAAGCCAATTTCAACTTCACAACGAAGG
977237 GGCGGCTGGC
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 90 0.99
107 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
AATTTCGAAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:977278 original size:63 final size:62
Alignment explanation
Indices: 977155--977291 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 62
977145 ACAACACAAG
* * *
977155 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCGAAGCCAAT
1 TTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTT-CCAAGTTCCAAGCCAAT
* * *
977218 TTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAATTT-CATAGTTCCAGAGCCAAT
1 TTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTTCCA-AGTTCCA-AGCCAAT
*
977281 TTTAACTTCAC
1 TTCAACTTCAC
977292 TGTGGAGGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 2 0.03
62 5 0.08
63 58 0.89
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (62 bp):
TTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTTCCAAGTTCCAAGCCAAT
Found at i:977548 original size:37 final size:36
Alignment explanation
Indices: 977490--977576 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 36
977480 TTTGAATCTG
*
977490 TTTTC-TTTGAAACTAATTTTGTCTCCCTTGAGACA
1 TTTTCTTTTGAAACAAATTTTGTCTCCCTTGAGACA
977525 TTTTCTTTTGAAACGAAATTTTGTCTCCCTTGAGACA
1 TTTTCTTTTGAAAC-AAATTTTGTCTCCCTTGAGACA
* *
977562 ATTTCTCTTGAAACA
1 TTTTCTTTTGAAACA
977577 TAAATATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 5 0.11
36 9 0.19
37 33 0.70
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (36 bp):
TTTTCTTTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:977667 original size:37 final size:36
Alignment explanation
Indices: 977592--977668 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
977582 ATTGAAAATA
* *
977592 TTTCCCTTGAAATAAATTTTATCTCGCTTGGGGAAG
1 TTTCCCTTGAAAAAAATTTTATCTCGCTTGGAGAAG
* *
977628 TTTCCCTTGAAACAAAATTTTGTCTCTCTT-GAGACAG
1 TTTCCCTTGAAA-AAAATTTTATCTCGCTTGGAGA-AG
977665 TTTC
1 TTTC
977669 TATTGAGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 15 0.43
37 20 0.57
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAAAAAATTTTATCTCGCTTGGAGAAG
Found at i:977676 original size:15 final size:15
Alignment explanation
Indices: 977656--977689 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
977646 TTTGTCTCTC
977656 TTGAGACAGTTTCTA
1 TTGAGACAGTTTCTA
*
977671 TTGAGACAGTTTCTC
1 TTGAGACAGTTTCTA
977686 TTGA
1 TTGA
977690 AACATAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (15 bp):
TTGAGACAGTTTCTA
Found at i:977685 original size:117 final size:117
Alignment explanation
Indices: 977554--977791 Score: 352
Period size: 117 Copynumber: 2.0 Consensus size: 117
977544 TTTGTCTCCC
* *
977554 TTGAGACAATTTCTCTTGAAACATAAATATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGC
1 TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
* *
977619 TTGGGGA-AGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTA
66 -TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
* * * * *
977671 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTC
1 TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
* * *
977736 TGGATATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTC
66 TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
977788 TTGA
1 TTGA
977792 AATATAAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
116 4 0.04
117 104 0.96
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (117 bp):
TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
Found at i:977756 original size:36 final size:36
Alignment explanation
Indices: 977709--977795 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 36
977699 ATTGAAAACA
* * * *
977709 TTTCCTTTGAAATTAATTTTGTCTCTCTGGATATAG
1 TTTCCCTTGAAATAAATTTTGTCTCCCTGGAGATAG
* *
977745 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCCCTGGAGATAG
*
977782 TTTCTCTTGAAATA
1 TTTCCCTTGAAATA
977796 TAAACCTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCCCTGGAGATAG
Found at i:977770 original size:37 final size:37
Alignment explanation
Indices: 977723--977793 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
977713 CTTTGAAATT
* *
977723 AATTTTGTCTCTCTGGATATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAACAA
* *
977760 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAA
1 AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAA
977794 TATAAACCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (37 bp):
AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAACAA
Found at i:978035 original size:36 final size:36
Alignment explanation
Indices: 977940--978056 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 36
977930 TATCTTTTCC
*
977940 TTGAAACAAATTTCGTCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTT
* **
977976 TT-AGAACTAAGTTTTGTATCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
*
978013 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
978049 TTGAAACA
1 TTGAAACA
978057 TAAAAAAACC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
35 1 0.01
36 39 0.57
37 28 0.41
38 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:979353 original size:20 final size:20
Alignment explanation
Indices: 979281--979353 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 20
979271 ATTTCGTCCC
*
979281 TTATA-TATATTTTTTTA-A
1 TTATATTATTTTTTTTTATA
979299 TTATATT-TTTTATTTATT-TA
1 TTATATTATTTT-TTT-TTATA
* *
979319 CTATATTCCTCTTTTTTTTATA
1 TTATATT-AT-TTTTTTTTATA
979341 TTATATTATTTTT
1 TTATATTATTTTT
979354 ATTATATATC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.19
19 4 0.09
20 13 0.30
21 3 0.07
22 12 0.28
23 3 0.07
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATATTATTTTTTTTTATA
Found at i:979468 original size:33 final size:33
Alignment explanation
Indices: 979431--979523 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
979421 TTACTATGTA
*
979431 TATATT-TTTCTTAATATTATATTTATACGTTTT
1 TATATTATTTATTAATATTATATTT-TACGTTTT
* * *
979464 TATATATATTTTTTAATATTCTATTTT-TGTTTT
1 TATAT-TATTTATTAATATTATATTTTACGTTTT
979497 TAT-TTATTTATATATATATTATATTTT
1 TATATTATTTAT-TA-ATATTATATTTT
979524 TACTTTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 6 0.12
32 3 0.06
33 24 0.47
34 2 0.04
35 16 0.31
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (33 bp):
TATATTATTTATTAATATTATATTTTACGTTTT
Found at i:979541 original size:18 final size:18
Alignment explanation
Indices: 979515--979552 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
979505 TATATATATA
979515 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
979533 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
979551 TT
1 TT
979553 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:979780 original size:19 final size:19
Alignment explanation
Indices: 979743--979784 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
979733 TTTTTTAACA
979743 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTTTGTTTAT
*
979762 TTTTATT-ATTTTTTATTAT
1 TTTTATTCATTTTGT-TTAT
979781 TTTT
1 TTTT
979785 TACGTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTCATTTTGTTTAT
Found at i:979786 original size:10 final size:10
Alignment explanation
Indices: 979743--979786 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
979733 TTTTTTAACA
979743 TTTTATTCATT
1 TTTTATT-ATT
*
979754 TTGT-TTA-T
1 TTTTATTATT
979762 TTTTATTATT
1 TTTTATTATT
979772 TTTTATTATT
1 TTTTATTATT
979782 TTTTA
1 TTTTA
979787 CGTGTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 18 0.62
11 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTATTATT
Found at i:981540 original size:23 final size:23
Alignment explanation
Indices: 981508--981567 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
981498 CAAACGATCG
* * *
981508 AAAATATATCATAAAGATAGAGA
1 AAAATTTATCATAAAAATAAAGA
981531 AAAATTTATCATAAAAATAAAGA
1 AAAATTTATCATAAAAATAAAGA
*
981554 AAAACTTATCATAA
1 AAAATTTATCATAA
981568 TTGCAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATTTATCATAAAAATAAAGA
Found at i:982251 original size:16 final size:17
Alignment explanation
Indices: 982216--982252 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
982206 TATGGGATGA
982216 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
982233 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
982249 AAAA
1 AAAA
982253 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:988973 original size:28 final size:28
Alignment explanation
Indices: 988933--988994 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
988923 ACCAGGCCCG
988933 AACTACCCGATCTGCCAACCCGATGAAA
1 AACTACCCGATCTGCCAACCCGATGAAA
988961 AACTACCCGATCTGCCAACCCGATGAAA
1 AACTACCCGATCTGCCAACCCGATGAAA
988989 AACTAC
1 AACTAC
988995 TGGGTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (28 bp):
AACTACCCGATCTGCCAACCCGATGAAA
Found at i:994519 original size:24 final size:25
Alignment explanation
Indices: 994466--994519 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
994456 TTGAGGAAAA
994466 ACGGCGGCGAACGGATGACGGAGTG
1 ACGGCGGCGAACGGATGACGGAGTG
* *
994491 -TGGCGGCGAACGGATGACGGTG-G
1 ACGGCGGCGAACGGATGACGGAGTG
994514 ACGGCG
1 ACGGCG
994520 ATGAAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.20, C:0.20, G:0.50, T:0.09
Consensus pattern (25 bp):
ACGGCGGCGAACGGATGACGGAGTG
Found at i:997852 original size:21 final size:21
Alignment explanation
Indices: 997826--997963 Score: 149
Period size: 21 Copynumber: 6.7 Consensus size: 21
997816 CATATTTGCA
*
997826 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
997847 TTGCGATAGTCTAAGTTCGCA
1 TTGCGATAGTCCAAGTTCGCG
997868 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
997889 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* *
997908 TTGCGATAGTCGAAGTTAGCG
1 TTGCGATAGTCCAAGTTCGCG
*
997929 TTGCGATTTATTCCAAGTT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
997950 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
997964 AATCGCAACG
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
19 22 0.22
21 68 0.69
23 9 0.09
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:997871 original size:42 final size:40
Alignment explanation
Indices: 997826--997960 Score: 180
Period size: 42 Copynumber: 3.3 Consensus size: 40
997816 CATATTTGCA
* *
997826 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCTAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAGTTCG
* * *
997866 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 --TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAGTTCG
*
997908 TTGCGATAGTCGAAGTTAGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA--TATTCCAAGTTCG
997950 TTGCGATAGTC
1 TTGCGATAGTC
997961 CAAAATCGCA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 25 0.30
42 57 0.70
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAGTTCG
Found at i:998578 original size:6 final size:6
Alignment explanation
Indices: 998562--998599 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
998552 TCTCGTCTCG
998562 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
998600 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:998712 original size:19 final size:19
Alignment explanation
Indices: 998689--998763 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
998679 CGTTGCGATT
*
998689 TTGGACTATCGCAACTAAT
1 TTGGACTATCGCAACTAAC
*
998708 TTGGAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAAC-T-AAC
* * * *
998731 TTCGCCTATTGCAACGAAC
1 TTGGACTATCGCAACTAAC
998750 TTGGACTATCGCAA
1 TTGGACTATCGCAA
998764 TGCGAATATG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 20 0.48
21 15 0.36
22 1 0.02
23 6 0.14
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (19 bp):
TTGGACTATCGCAACTAAC
Found at i:998843 original size:20 final size:20
Alignment explanation
Indices: 998818--998931 Score: 108
Period size: 20 Copynumber: 5.6 Consensus size: 20
998808 ACTTCGACTA
998818 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
998838 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
*
998859 TCGCATTGCGATAGT-CGA-AT
1 TCGCATTGCGAT-TTAC-ATAT
998879 ATCGCATTGCGATTTACATAT
1 -TCGCATTGCGATTTACATAT
* *
998900 TCGCATTACGATTTACATAG
1 TCGCATTGCGATTTACATAT
*
998920 TCGCGTTGCGAT
1 TCGCATTGCGAT
998932 AGCCGAAGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
20 45 0.56
21 36 0.44
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:998863 original size:21 final size:21
Alignment explanation
Indices: 998837--999110 Score: 233
Period size: 21 Copynumber: 13.2 Consensus size: 21
998827 GATTTACATA
998837 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
998858 TTCGCATTGCGATAGTCGAA-
1 TTCGCATTGCGATAGTCCAAG
* *
998878 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
* * *
998899 TTCGCATTACGAT-TTACATAG
1 TTCGCATTGCGATAGTCCA-AG
*
998920 -TCGCGTTGCGATAG-CCGAAG
1 TTCGCATTGCGATAGTCC-AAG
* *
998940 TTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
998961 TTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
998982 TTCGCACTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* * *
999002 TATCGCATTGTGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
999023 TTCACATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
999044 TTCGCATTGCGACAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
999065 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
999086 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
999107 TTCG
1 TTCG
999111 TGTTACGAAT
Statistics
Matches: 214, Mismatches: 27, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
20 48 0.22
21 164 0.77
22 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:998917 original size:82 final size:82
Alignment explanation
Indices: 998818--998973 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 82
998808 ACTTCGACTA
* *
998818 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCC-AAGTTCGCATTGCGATAGTCGAA-TAT
1 TCGCATTACGATTTACATAGTCGCATTGCGATAG-CCGAAGTTCGCATTGCGATAGTCGAAGT-T
998881 CGCATTGCGATTTACATAT
64 CGCATTGCGATTTACATAT
* *
998900 TCGCATTACGATTTACATAGTCGCGTTGCGATAGCCGAAGTTCGCGTTGCGATAGTCGAAGTTCG
1 TCGCATTACGATTTACATAGTCGCATTGCGATAGCCGAAGTTCGCATTGCGATAGTCGAAGTTCG
*
998965 CGTTGCGAT
66 CATTGCGAT
998974 AGTCGAAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 2 0.03
82 64 0.96
83 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (82 bp):
TCGCATTACGATTTACATAGTCGCATTGCGATAGCCGAAGTTCGCATTGCGATAGTCGAAGTTCG
CATTGCGATTTACATAT
Found at i:999061 original size:104 final size:106
Alignment explanation
Indices: 998837--999104 Score: 370
Period size: 104 Copynumber: 2.6 Consensus size: 106
998827 GATTTACATA
* *
998837 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAA-TATCGCATTGCGAT--T-TACAT
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGT-TCGCATTGCGATAGTCGACAT
* *
998898 ATTCGCATTACGATTTACATAGTCGCGTTGCGATAGCCGAAG
65 ATTCGCATTACGATTTACATAGTCACATTGCGATAGCCGAAG
* * *
998940 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCACTGCGATAGTCGAC-TA
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACATA
** *
999004 -TCGCATTGTGATTTACATATTCACATTGCGATAGTCC-AAG
66 TTCGCATTACGATTTACATAGTCACATTGCGATAG-CCGAAG
*
999044 TTCGCATTGCGACAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGA
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGA
999105 AGTTCGTGTT
Statistics
Matches: 146, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
103 49 0.34
104 90 0.62
105 5 0.03
106 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (106 bp):
TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACATA
TTCGCATTACGATTTACATAGTCACATTGCGATAGCCGAAG
Done.