Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_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: 1953294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1680185 original size:22 final size:22
Alignment explanation
Indices: 1680136--1680209 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
1680126 AATATAATAA
* *
1680136 TATATTTTTATTTTTTG-TAATT
1 TATATTTATA-TTTTTGATATTT
1680158 TA-ATTTATATTTTTGATATTT
1 TATATTTATATTTTTGATATTT
1680179 TATATTTACT-TTTTTGAATAATTT
1 TATATTTA-TATTTTTG-AT-ATTT
1680203 TATATTT
1 TATATTT
1680210 TAAATTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 6 0.13
21 12 0.27
22 13 0.29
23 3 0.07
24 11 0.24
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (22 bp):
TATATTTATATTTTTGATATTT
Found at i:1680695 original size:31 final size:31
Alignment explanation
Indices: 1680643--1680719 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
1680633 AGTTACATTG
* * *
1680643 GGGACCATATTGCAAATGGACTGAATGTTGA
1 GGGATCATATTGCAAACGGACTAAATGTTGA
* *
1680674 GGGATCATATTGTAAACGGACTAAATGTTGG
1 GGGATCATATTGCAAACGGACTAAATGTTGA
*
1680705 GGGATTATATTGCAA
1 GGGATCATATTGCAA
1680720 GTTTTAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (31 bp):
GGGATCATATTGCAAACGGACTAAATGTTGA
Found at i:1681496 original size:29 final size:29
Alignment explanation
Indices: 1681441--1681500 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
1681431 GCAAACGGAC
* * * * *
1681441 TAAATGTTGGGGGATTTTATTGTAAGTTT
1 TAAAAGTTGGGGGACTTAAATGAAAGTTT
1681470 TAAAAGTTGGGGGACTTAAATGAAAGTTT
1 TAAAAGTTGGGGGACTTAAATGAAAGTTT
1681499 TA
1 TA
1681501 GAAAAGTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.40
Consensus pattern (29 bp):
TAAAAGTTGGGGGACTTAAATGAAAGTTT
Found at i:1682662 original size:37 final size:37
Alignment explanation
Indices: 1682560--1682664 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1682550 CCTTTTCGTC
* *
1682560 CTACTAGGATTCAAACTCCTAAAAATAAGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
1682597 TTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
1682634 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1682665 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1683125 original size:2 final size:2
Alignment explanation
Indices: 1683118--1683144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1683108 CCTTATTATT
1683118 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
1683145 TAATTATATT
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:1683227 original size:2 final size:2
Alignment explanation
Indices: 1683220--1683263 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1683210 ATTTTCCTAT
1683220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1683261 TA T
1 TA T
1683264 TATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1683267 original size:8 final size:9
Alignment explanation
Indices: 1683217--1683269 Score: 72
Period size: 10 Copynumber: 5.7 Consensus size: 9
1683207 ATTATTTTCC
1683217 TATTATATA
1 TATTATATA
1683226 TATATATATA
1 TAT-TATATA
1683236 TATATATATA
1 TAT-TATATA
1683246 TATATATATA
1 TAT-TATATA
1683256 TATTATAT-
1 TATTATATA
1683264 TATTAT
1 TATTAT
1683270 TATTTTTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 6 0.14
9 8 0.19
10 29 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTATATA
Found at i:1683535 original size:21 final size:20
Alignment explanation
Indices: 1683483--1683535 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
1683473 TATATATATA
1683483 TATATTGTTTATTATTTTATT
1 TATATT-TTTATTATTTTATT
*
1683504 TATAATATTTATTTATTTTCA-T
1 TAT-ATTTTTA-TTATTTT-ATT
1683526 TATATTTTTA
1 TATATTTTTA
1683536 GTTTCTTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.48
22 13 0.48
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATATTTTTATTATTTTATT
Found at i:1684822 original size:19 final size:19
Alignment explanation
Indices: 1684798--1684834 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1684788 ACCTTACTAA
1684798 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
1684817 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
1684835 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:1688281 original size:23 final size:24
Alignment explanation
Indices: 1688255--1688322 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 24
1688245 AACAAAAAGG
1688255 GCAAAAAACAAAAAAGAAAAG-AA
1 GCAAAAAACAAAAAAGAAAAGAAA
*
1688278 GCAAAAAAGAATAAAA-AAAAGAAA
1 GCAAAAAACAA-AAAAGAAAAGAAA
*
1688302 GAACAAAAATC-AAAAAGAAAA
1 G--CAAAAAACAAAAAAGAAAA
1688323 AGGGACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 15 0.41
24 11 0.30
25 5 0.14
26 6 0.16
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (24 bp):
GCAAAAAACAAAAAAGAAAAGAAA
Found at i:1690029 original size:106 final size:106
Alignment explanation
Indices: 1689899--1691167 Score: 1910
Period size: 106 Copynumber: 12.0 Consensus size: 106
1689889 ATATCGTGCC
* * * * *
1689899 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* *
1689963 CAAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1690005 ACTCAAAACAACACAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1690070 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1690111 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1690176 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1690217 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1690282 AATTTCAAAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1690323 ACTCCAAACAACGCAAATTCAACTTCACGACGAAGCGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1690388 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1690429 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1690494 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1690535 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1690600 AATTTCGGAGCCAATTTCAACTTCACATCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1690641 ACTCCAGACAATGCAAGTTCAACTTCACTACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1690706 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1690747 ACTGCAGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1690812 AATTTCAGAGCCAATGTCAACTTCACAACGAAGGCTATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1690853 ACTCTAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATACCTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1690918 AATTTCAGAGCCAATTTCAACTTCACATCGAAGAATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1690959 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * **
1691024 AATTTCGGAGCCAATATCAACTTCACAACAAAGGATATTAA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1691065 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
1691130 GATTCCAGAGCCAATTTCAACTTCACGACGGAGGATAT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
1691168 CGAACTCGGA
Statistics
Matches: 1070, Mismatches: 92, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 1068 1.00
107 2 0.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1691977 original size:37 final size:37
Alignment explanation
Indices: 1691924--1692028 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
1691914 CCTTTTCGTC
*
1691924 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
1691961 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
** *
1691998 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
1692029 CCACAAGAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:1692625 original size:37 final size:38
Alignment explanation
Indices: 1692551--1692693 Score: 96
Period size: 39 Copynumber: 3.6 Consensus size: 38
1692541 TTTTTTTTGC
*
1692551 ATTATATTA-TATTATTTTCCTATTATATATATATATATATAT
1 ATTATATTATTATTATTTT--TATT-TATGT-T-TATATATAT
* *
1692593 ATTATATTATTATT-TTTTTATTTATGTTTATATTTTT
1 ATTATATTATTATTATTTTTATTTATGTTTATATATAT
* * ** *
1692630 ACTATATTTTTATTATATTTTCCTAATG-TTATATATAT
1 ATTATATTATTATTAT-TTTTATTTATGTTTATATATAT
*
1692668 ATATATATTCTTACTTCA-TTTTATTT
1 AT-TATATTATTA-TT-ATTTTTATTT
1692694 TATATTTCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
37 19 0.24
38 11 0.14
39 26 0.32
40 6 0.08
41 1 0.01
42 13 0.16
43 4 0.05
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (38 bp):
ATTATATTATTATTATTTTTATTTATGTTTATATATAT
Found at i:1692649 original size:11 final size:11
Alignment explanation
Indices: 1692620--1692650 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1692610 TTATTTATGT
1692620 TTATATTTTTA
1 TTATATTTTTA
*
1692631 CTATATTTTTA
1 TTATATTTTTA
1692642 TTATATTTT
1 TTATATTTT
1692651 CCTAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:1692817 original size:2 final size:2
Alignment explanation
Indices: 1692805--1692836 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1692795 CATACATTTT
1692805 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1692837 TGTTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1692997 original size:25 final size:25
Alignment explanation
Indices: 1692965--1693035 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
1692955 ATATTTTATC
1692965 TTCA-TTTATTTTATT-TTATTCAA
1 TTCATTTTATTTTATTATTATTCAA
* * *
1692988 TTTCATTTTATTTTTTTGTTATCCAA
1 -TTCATTTTATTTTATTATTATTCAA
1693014 TT-ATTTTATGTTTATTATTATT
1 TTCATTTTAT-TTTATTATTATT
1693036 GGTTTCATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.28
25 21 0.54
26 7 0.18
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (25 bp):
TTCATTTTATTTTATTATTATTCAA
Found at i:1694165 original size:19 final size:19
Alignment explanation
Indices: 1694141--1694177 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1694131 ACCTTAATAA
1694141 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
1694160 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
1694178 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:1697624 original size:23 final size:24
Alignment explanation
Indices: 1697598--1697663 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
1697588 AACAAAAAGG
* *
1697598 GCAAAAAATAA-AAAAGAAAAGAA
1 GCAAAAAAGAAGAAAAAAAAAGAA
1697621 GCAAAAAAGAAGAAAAAAAAAGAA
1 GCAAAAAAGAAGAAAAAAAAAGAA
*
1697645 --AAAAAAGAAAGAACAAAAA
1 GCAAAAAAG-AAGAAAAAAAA
1697664 TCAAAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 7 0.18
23 20 0.53
24 11 0.29
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (24 bp):
GCAAAAAAGAAGAAAAAAAAAGAA
Found at i:1697636 original size:9 final size:10
Alignment explanation
Indices: 1697600--1697676 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
1697590 CAAAAAGGGC
1697600 AAAAAATAAA-
1 AAAAAA-AAAG
1697610 AAAGAAAAGAAG
1 AAA-AAAA-AAG
*
1697622 CAAAAAAGAAG
1 -AAAAAAAAAG
1697633 AAAAAAAAAG
1 AAAAAAAAAG
1697643 -AAAAAAAAG
1 AAAAAAAAAG
*
1697652 AAAGAACAAA-
1 AAA-AAAAAAG
**
1697662 AATCAAAAAG
1 AAAAAAAAAG
1697672 AAAAA
1 AAAAA
1697677 GGGACAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
9 13 0.25
10 20 0.38
11 13 0.25
12 3 0.06
13 3 0.06
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1697636 original size:10 final size:10
Alignment explanation
Indices: 1697614--1697654 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1697604 AATAAAAAAG
1697614 AAAAGAAGCAA
1 AAAAGAAG-AA
1697625 AAAAGAAGAA
1 AAAAGAAGAA
*
1697635 AAAAAAAGAA
1 AAAAGAAGAA
1697645 AAAA-AAGAA
1 AAAAGAAGAA
1697654 A
1 A
1697655 GAACAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 6 0.21
10 15 0.52
11 8 0.28
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAGAAGAA
Found at i:1697641 original size:13 final size:13
Alignment explanation
Indices: 1697623--1697676 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1697613 GAAAAGAAGC
1697623 AAAAAAGAAGAAA
1 AAAAAAGAAGAAA
1697636 AAAAAAGAA-AAA
1 AAAAAAGAAGAAA
*
1697648 AAAGAAAGAACAAA
1 AAA-AAAGAAGAAA
*
1697662 AATCAAA-AAGAAA
1 AA-AAAAGAAGAAA
1697675 AA
1 AA
1697677 GGGACAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 6 0.17
13 22 0.61
14 8 0.22
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAGAAA
Found at i:1697669 original size:23 final size:22
Alignment explanation
Indices: 1697623--1697670 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1697613 GAAAAGAAGC
*
1697623 AAAAAAGAAGAAAAAAAAAGAA
1 AAAAAAGAAGAAAAAAAAACAA
* *
1697645 AAAAAAGAAAGAACAAAAATCAA
1 AAAAAAG-AAGAAAAAAAAACAA
1697668 AAA
1 AAA
1697671 GAAAAAGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAGAAAAAAAAACAA
Found at i:1698528 original size:24 final size:21
Alignment explanation
Indices: 1698499--1698558 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 21
1698489 AAGAGATAAT
1698499 ATTTTCAAAACTTTTGATTAAAC
1 ATTTTCAAAACTTTT-ATT-AAC
* * *
1698522 ATTTTTCGAAACTCTTTATTGAT
1 A-TTTTCAAAACT-TTTATTAAC
1698545 ATTTTCAAAACTTT
1 ATTTTCAAAACTTT
1698559 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.32
23 3 0.10
24 13 0.42
25 3 0.10
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTTTCAAAACTTTTATTAAC
Found at i:1699386 original size:106 final size:106
Alignment explanation
Indices: 1699223--1700529 Score: 1954
Period size: 106 Copynumber: 12.3 Consensus size: 106
1699213 GCCATCCGCT
* * * * * *
1699223 ATTTCAACTCCAC-GACGGAGGATATTGTGCCACTCGAGAAAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAG-CGAAGGATATTG-G--ACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
1699287 AGGGACGGCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCCA
62 AGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1699332 ATTTCAACTTCACAGCAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1699397 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGTGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1699438 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGC
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1699503 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
1699544 ATTTCAACTTCACAGCGAAGGATATTGGACTCAATACAACGCAAGTTCAACTTCATGATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1699609 ATCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1699650 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1699715 ACCGCTGGTTGTTAACAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
1699756 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTTATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1699821 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
1699862 ATTTCAACTTCACAGCGAAGGACATTGGACTCGAGACAACGCAAGTTCAACTTCACAATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * *
1699927 ACCGCTGATTATCAACAAACAATTTCCTAATTTCGGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1699968 ATTTCAACTTCACAGCGAAAGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1700033 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1700074 ATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1700139 ACCGCTGGTTGTGAACAAACAACTTCTCAATTTTAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1700180 ATGTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
1700245 ATCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
1700286 ATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1700351 ACCGCTGGTTGTCAACAAAAAATTTCCCAAATTT-GGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCC-AATTTCAGAGCCA
* * * * *
1700392 ATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
1700457 ACGGCTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1700498 ATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 ATTTCAACTTCACAG-CGAAGGATATTGGACTC
1700530 AGAATAATGG
Statistics
Matches: 1092, Mismatches: 102, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
105 3 0.00
106 1060 0.97
107 5 0.00
108 1 0.00
109 22 0.02
110 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
Found at i:1701369 original size:37 final size:37
Alignment explanation
Indices: 1701280--1701383 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1701270 CTTTTCGTCA
* *
1701280 TACTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* *
1701317 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
** * *
1701354 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
1701384 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
Found at i:1704155 original size:60 final size:60
Alignment explanation
Indices: 1704082--1704198 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
1704072 CAAAACTCTG
* *
1704082 TTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAATAT-TCTCAAAAT
1 TTTCAAAAGAAACTATCTCAAGGGAGACAAAATTCGTTCCAAGGGAAA-ATGTCTCAAAAT
* * *
1704142 TTTCAAGAGAAACTATTTCAAGGGAGACAAAATTTGTTCCAAGGGAAAATGTCTCAA
1 TTTCAAAAGAAACTATCTCAAGGGAGACAAAATTCGTTCCAAGGGAAAATGTCTCAA
1704199 GTGAGACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (60 bp):
TTTCAAAAGAAACTATCTCAAGGGAGACAAAATTCGTTCCAAGGGAAAATGTCTCAAAAT
Found at i:1704205 original size:36 final size:36
Alignment explanation
Indices: 1704145--1704285 Score: 129
Period size: 36 Copynumber: 3.8 Consensus size: 36
1704135 TCAAAATTTT
* * * *
1704145 CAAGAGAAACTATTTCAAGGGAGACAAAATTTGTTC
1 CAAGGGAAAATATCTCAAGCGAGACAAAATTTGTTC
* * *
1704181 CAAGGGAAAATGTCTCAAGTGAGACAAAATTTGTTT
1 CAAGGGAAAATATCTCAAGCGAGACAAAATTTGTTC
* * * *
1704217 CAAGGGAAACTATCTCAAGCGAGATAAAATCTTTTATTT
1 CAAGGGAAAATATCTCAAGCGAGACAAAA---TTTGTTC
* * *
1704256 CGAGGGAAACTATCTCAAGCGAGATAAAAT
1 CAAGGGAAAATATCTCAAGCGAGACAAAAT
1704286 CTTTTATTTC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 56 0.62
39 34 0.38
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
CAAGGGAAAATATCTCAAGCGAGACAAAATTTGTTC
Found at i:1704220 original size:21 final size:20
Alignment explanation
Indices: 1704157--1704221 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
1704147 AGAGAAACTA
1704157 TTTCAAGGGAGACAAAATTTG
1 TTTCAA-GGAGACAAAATTTG
*
1704178 TTCCAAGG-G--AAAA--TG
1 TTTCAAGGAGACAAAATTTG
*
1704193 TCTCAAGTGAGACAAAATTTG
1 TTTCAAG-GAGACAAAATTTG
1704214 TTTCAAGG
1 TTTCAAGG
1704222 GAAACTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 5 0.15
19 5 0.15
20 3 0.09
21 13 0.38
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (20 bp):
TTTCAAGGAGACAAAATTTG
Found at i:1704361 original size:40 final size:39
Alignment explanation
Indices: 1704212--1704415 Score: 255
Period size: 39 Copynumber: 5.2 Consensus size: 39
1704202 AGACAAAATT
** *
1704212 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTTGAGCGAGATAAAATCTTC
* * ** *
1704251 TATTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTTGAGCGAGATAAAATCTTC
* *
1704290 TATTTCGAGGGAAACTATCTTGAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTTGAGCGAGATAAAATCTTC
* * *
1704329 TGTTTCAAGGAAAAACAATCTTGAGCGAGATAAAATTTTC
1 TGTTTCAAGG-GAAACTATCTTGAGCGAGATAAAATCTTC
* *
1704369 TGTTTCAAGGAAAAACAATCTTGAGCGAGATAAAATCTTC
1 TGTTTCAAGG-GAAACTATCTTGAGCGAGATAAAATCTTC
1704409 TGTTTCA
1 TGTTTCA
1704416 CCACAGCAAC
Statistics
Matches: 153, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 81 0.53
40 72 0.47
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTTGAGCGAGATAAAATCTTC
Found at i:1705589 original size:136 final size:136
Alignment explanation
Indices: 1705329--1705823 Score: 699
Period size: 136 Copynumber: 3.7 Consensus size: 136
1705319 TGTTGATCTG
* * * ** * *
1705329 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATTGGATGAATTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGACGAGTTCTTCTCATTAT
* * *
1705393 GAACTCTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCG
66 GAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGCCGTGAATCG
1705458 AGTGAT
131 AGTGAT
* * * *
1705464 AGGTCGATCAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGACGAGTTCTTCTCATTAT
* *
1705529 GAAATCTCAATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTCGTGAATCG
66 GAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGCCGTGAATCG
1705594 AGTGAT
131 AGTGAT
* * *
1705600 ATGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCTGTCAGACGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGACGAGTTCTTCTCATTAT
* * * *
1705665 GAACTCTCAATTGGAAATATCAATACCTCAAGCGAGGTATCACTGATTCAAAATACCGTGAATCG
66 GAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGCCGTGAATCG
1705730 AGTGAT
131 AGTGAT
* * * *
1705736 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATC-GTTAGACGAGTTATTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGACGAGTTCTTCTCATTAT
** *
1705800 GAACTCTGTACTGG-AATGTCAATC
66 GAACTCTCAATTGGAAATGTCAATC
1705824 TGTTTATCTT
Statistics
Matches: 322, Mismatches: 37, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
134 8 0.02
135 68 0.21
136 246 0.76
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGACGAGTTCTTCTCATTAT
GAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGCCGTGAATCG
AGTGAT
Found at i:1706142 original size:61 final size:61
Alignment explanation
Indices: 1706077--1706237 Score: 259
Period size: 61 Copynumber: 2.6 Consensus size: 61
1706067 AGAGAAGCTC
* *
1706077 TCTCAAGTGAGATAAATTTTGCTTCGAAGGAAAATTGTCTCAAGGGTTTTAAAAAAAACCA
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAATTGTCTCAAGGGTTTTAAAAAAAACCA
* ** *
1706138 TCTCAAATGAGATAAATTTTGTTTCAAAGGAAAACCGTCTCAAGGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAATTGTCTCAAGGGTTTTAAAAAAAACCA
1706199 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAAATTGT
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGG-AAAATTGT
1706238 AAGGTAATTA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 84 0.93
62 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (61 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAATTGTCTCAAGGGTTTTAAAAAAAACCA
Found at i:1706632 original size:40 final size:40
Alignment explanation
Indices: 1706569--1706787 Score: 402
Period size: 40 Copynumber: 5.5 Consensus size: 40
1706559 CAAATTTTCA
*
1706569 TGAGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
* *
1706609 TGAGAGAGATAAAATCTTATGTTTCAAGGAAAAACAATCT
1 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
*
1706649 TGAGTGAGATAAAATTTTCTGTTTCAAGGAAAAACAATCT
1 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1706689 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1706729 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1 TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
1706769 TGAGTGAGATAAAATCTTC
1 TGAGTGAGATAAAATCTTC
1706788 CGTATTAAAT
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.30
Consensus pattern (40 bp):
TGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCT
Found at i:1706727 original size:23 final size:23
Alignment explanation
Indices: 1706701--1706769 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
1706691 AGTGAGATAA
1706701 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
** * *
1706724 AATC-T-TGAGT-GA-G-ATAA-
1 AATCTTCTGTTTCAAGGAAAAAC
1706741 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
1706764 AATCTT
1 AATCTT
1706770 GAGTGAGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 4 0.12
20 2 0.06
21 4 0.12
22 4 0.12
23 10 0.31
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:1709018 original size:1 final size:1
Alignment explanation
Indices: 1709012--1709083 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
1709002 CTTCTTCTTC
* * ** ** * ** *
1709012 TTTTTTTCTTTTTATTTTTTTTTTGCTTTTTGCTTTTTGTTTTTTTGCTTTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1709077 TTTTTTT
1 TTTTTTT
1709084 ACAAAATATC
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:1709048 original size:15 final size:14
Alignment explanation
Indices: 1709031--1709082 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 14
1709021 TTTTATTTTT
*
1709031 TTTTTGCTTTTTGC
1 TTTTTGTTTTTTGC
1709045 TTTTTGTTTTTTTGC
1 TTTTTG-TTTTTTGC
1709060 TTTTT-TTTTTT--
1 TTTTTGTTTTTTGC
1709071 TTTTTGTTTTTT
1 TTTTTGTTTTTT
1709083 TACAAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 5 0.14
12 6 0.17
13 6 0.17
14 6 0.17
15 12 0.34
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTTGC
Found at i:1709057 original size:22 final size:19
Alignment explanation
Indices: 1709012--1709083 Score: 80
Period size: 18 Copynumber: 3.8 Consensus size: 19
1709002 CTTCTTCTTC
*
1709012 TTTTTTT-C-TTTTTATTT
1 TTTTTTTGCTTTTTTTTTT
1709029 TTTTTTTGCTTTTTGCTTTTT
1 TTTTTTTGCTTTTT--TTTTT
1709050 GTTTTTTTGC-TTTTTTTTT
1 -TTTTTTTGCTTTTTTTTTT
1709069 TTTTTTTG-TTTTTTT
1 TTTTTTTGCTTTTTTT
1709084 ACAAAATATC
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 7 0.15
18 15 0.31
19 9 0.19
21 8 0.17
22 9 0.19
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (19 bp):
TTTTTTTGCTTTTTTTTTT
Found at i:1710565 original size:2 final size:2
Alignment explanation
Indices: 1710558--1710627 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
1710548 ACAACAACGA
1710558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1710600 AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1710628 GGATAAATGA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1717045 original size:17 final size:17
Alignment explanation
Indices: 1717023--1717070 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
1717013 CAGATTTTGA
1717023 TTTATTTTCTTTCAA-CT
1 TTTATTTTCTTT-AAGCT
*
1717040 TTTATTTTTACTTTAAGTT
1 TTTA-TTTT-CTTTAAGCT
1717059 TTTATTTTCTTT
1 TTTATTTTCTTT
1717071 TCAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 10 0.37
19 9 0.33
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATTTTCTTTAAGCT
Found at i:1717919 original size:13 final size:13
Alignment explanation
Indices: 1717901--1717925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1717891 ATAAGTAAAT
1717901 AGAAAAAAATGAG
1 AGAAAAAAATGAG
1717914 AGAAAAAAATGA
1 AGAAAAAAATGA
1717926 AAGGAAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AGAAAAAAATGAG
Found at i:1735568 original size:21 final size:21
Alignment explanation
Indices: 1735543--1735598 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
1735533 CAGAACCCCA
*
1735543 GGGGGTATCGATTCCCCT-GT
1 GGGGGTATCGATTCCCCTCAT
* *
1735563 GGGGGGAATCGGTT-CCCTCAT
1 -GGGGGTATCGATTCCCCTCAT
1735584 GGGGGTATCGATTCC
1 GGGGGTATCGATTCC
1735599 ATCTGTACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.27
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCTCAT
Found at i:1742246 original size:34 final size:33
Alignment explanation
Indices: 1742208--1742291 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
1742198 GTAATAAACA
*
1742208 AAATTAACCAAAATATATTAACAA-AAAGTCCAA-C
1 AAATTAA-CAAAATAAATTAA-AATAAA-TCCAACC
1742242 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
1742276 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
1742292 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:1742291 original size:33 final size:34
Alignment explanation
Indices: 1742204--1742280 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
1742194 AATGGTAATA
* *
1742204 AACAAAATTAACCAAAATATATTAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAAGTCC
1742239 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAAGTCC
1742272 AACCAAATT
1 AA-CAAATT
1742281 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.61, C:0.16, G:0.01, T:0.22
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAAGTCC
Found at i:1744596 original size:11 final size:11
Alignment explanation
Indices: 1744577--1744609 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1744567 TATCTGCAAA
1744577 AAAAATTAAAT
1 AAAAATTAAAT
*
1744588 AAAATTTAAA-
1 AAAAATTAAAT
1744598 AAAAATTAAAT
1 AAAAATTAAAT
1744609 A
1 A
1744610 CTTATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:1747728 original size:3 final size:3
Alignment explanation
Indices: 1747720--1747744 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1747710 TATTTTTTCC
1747720 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
1747745 CATTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1748513 original size:60 final size:59
Alignment explanation
Indices: 1748398--1748538 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 59
1748388 GTTTGGGGAT
* * ** * * * *
1748398 TAATTTAGAAAGAGTGTCATTTTTTAGGGTTGAAATTCTAATGTTCAAAATTTTAAGGAC
1 TAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTCGAATATTCAAAAGTTTAAGG-C
* * *
1748458 TAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTGGAATATTTAAAAGTTTAAGGT
1 TAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTCGAATATTCAAAAGTTTAAGGC
* *
1748517 TGAATTTAAAATGAGGGTCATA
1 T-AATTTAGAATGAGAGTCATA
1748539 ATTTTAGGAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
59 1 0.01
60 66 0.99
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (59 bp):
TAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTCGAATATTCAAAAGTTTAAGGC
Found at i:1749431 original size:18 final size:18
Alignment explanation
Indices: 1749410--1749465 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
1749400 AAAATTAATA
1749410 AATAATATAAATTTTATT
1 AATAATATAAATTTTATT
* *
1749428 AATAATTTATTATATATTATT
1 AATAA--TA-TAAATTTTATT
1749449 AA-AATATAATATTTTAT
1 AATAATATAA-ATTTTAT
1749466 ATTATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.07
18 13 0.43
20 4 0.13
21 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATAATATAAATTTTATT
Found at i:1749493 original size:22 final size:22
Alignment explanation
Indices: 1749463--1749509 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1749453 TATAATATTT
*
1749463 TATATTATTATATTATTAAAAA
1 TATAGTATTATATTATTAAAAA
1749485 TATAGTATTATATTATTAAAAA
1 TATAGTATTATATTATTAAAAA
1749507 TAT
1 TAT
1749510 TAATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAGTATTATATTATTAAAAA
Found at i:1749496 original size:30 final size:29
Alignment explanation
Indices: 1749435--1749521 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
1749425 ATTAATAATT
*
1749435 TATTA-TATATTATTAAAATATAATATTTTA
1 TATTATTATATTATTAAAA-AT-ATATATTA
1749465 TATTATTATATTATTAAAAATATAGTATTA
1 TATTATTATATTATTAAAAATATA-TATTA
* *
1749495 TATTATTAAAAATATTAATAAATATAT
1 TATTATT-ATATTATTAA-AAATATAT
1749522 TTTAAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.06
30 18 0.36
31 22 0.44
32 7 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TATTATTATATTATTAAAAATATATATTA
Found at i:1749526 original size:23 final size:24
Alignment explanation
Indices: 1749469--1749546 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 24
1749459 ATTTTATATT
*
1749469 ATTATATTATTAAAAATA-TAGT-
1 ATTATATTATTAAAAATATTAATA
1749491 ATTATATTATTAAAAATATTAATA
1 ATTATATTATTAAAAATATTAATA
* * *
1749515 AATATATT-TTAAATATTTTAATA
1 ATTATATTATTAAAAATATTAATA
1749538 ATTAATATT
1 ATT-ATATT
1749547 TTGATTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 18 0.38
23 18 0.38
24 12 0.25
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATTATTAAAAATATTAATA
Found at i:1751113 original size:14 final size:14
Alignment explanation
Indices: 1751094--1751133 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1751084 AAATACAAAC
*
1751094 CTTAAATCCTAAAT
1 CTTAAACCCTAAAT
1751108 CTTAAACCCTAAAT
1 CTTAAACCCTAAAT
*
1751122 GTTAAACCCTAA
1 CTTAAACCCTAA
1751134 CCCCTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (14 bp):
CTTAAACCCTAAAT
Found at i:1751599 original size:26 final size:25
Alignment explanation
Indices: 1751556--1751611 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
1751546 ATCCAGGTGA
*
1751556 TCCCCTTCTTTTCCTTCATCCATCT
1 TCCCCTTCCTTTCCTTCATCCATCT
1751581 TCCCCTCTCCTTTCCTTCATCCATCT
1 TCCCCT-TCCTTTCCTTCATCCATCT
1751607 TCCCC
1 TCCCC
1751612 CTCAAAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.07, C:0.50, G:0.00, T:0.43
Consensus pattern (25 bp):
TCCCCTTCCTTTCCTTCATCCATCT
Found at i:1752216 original size:26 final size:26
Alignment explanation
Indices: 1752187--1752239 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1752177 AGTTTCCCCA
*
1752187 TCTTGTTCACCCAAGAACATGAAATT
1 TCTTGTTCACCCAAGAACAAGAAATT
1752213 TCTTGTTCACCCAAGAACAAGAAATT
1 TCTTGTTCACCCAAGAACAAGAAATT
1752239 T
1 T
1752240 AAATTAGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (26 bp):
TCTTGTTCACCCAAGAACAAGAAATT
Found at i:1756069 original size:24 final size:24
Alignment explanation
Indices: 1756037--1756102 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
1756027 TGGTAGTGGA
*
1756037 AAAGGTGATACAAAATGTTATTCT
1 AAAGGTGATACAAAAGGTTATTCT
1756061 AAAGGTGATACAAAAGGTTATTCT
1 AAAGGTGATACAAAAGGTTATTCT
* * *
1756085 AAATGTGATCCTAAAGGT
1 AAAGGTGATACAAAAGGT
1756103 GATGCCTTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAGGTGATACAAAAGGTTATTCT
Found at i:1756104 original size:12 final size:12
Alignment explanation
Indices: 1756037--1756105 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 12
1756027 TGGTAGTGGA
*
1756037 AAAGGTGATACA
1 AAAGGTGATACT
* * *
1756049 AAATGTTATTCT
1 AAAGGTGATACT
*
1756061 AAAGGTGATACA
1 AAAGGTGATACT
* *
1756073 AAAGGTTATTCT
1 AAAGGTGATACT
* *
1756085 AAATGTGATCCT
1 AAAGGTGATACT
1756097 AAAGGTGAT
1 AAAGGTGAT
1756106 GCCTTGCTTG
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (12 bp):
AAAGGTGATACT
Found at i:1756262 original size:33 final size:33
Alignment explanation
Indices: 1756214--1756283 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1756204 TATTTTATTT
* * *
1756214 TTTTCTTCTTGTGGTGGCTTCCATGCCTTGTAC
1 TTTTCTCCTTATGGTGGCTTCCACGCCTTGTAC
*
1756247 TTTTCTCCTTATGGTGGCTTCCACGTCTTGTAC
1 TTTTCTCCTTATGGTGGCTTCCACGCCTTGTAC
1756280 TTTT
1 TTTT
1756284 ATTTATTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.07, C:0.24, G:0.19, T:0.50
Consensus pattern (33 bp):
TTTTCTCCTTATGGTGGCTTCCACGCCTTGTAC
Found at i:1757906 original size:23 final size:23
Alignment explanation
Indices: 1757863--1757907 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1757853 ATACTTCATT
*
1757863 ATGTCATCTAATTCTTCTTGGTA
1 ATGTCATCTAATTCTTATTGGTA
*
1757886 ATGTC-TCTAATTTTTTATTGGT
1 ATGTCATCTAA-TTCTTATTGGT
1757908 GAGAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
ATGTCATCTAATTCTTATTGGTA
Found at i:1759362 original size:46 final size:44
Alignment explanation
Indices: 1759310--1759415 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 44
1759300 TGCACATACC
*
1759310 ATGCATCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTAA-GATATTT-TG-AAACATCGAATGCACTTG
* *
1759356 ATGCATCGATGCACTTTAGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCAC-TAAGATATTTTGAAACATCGAATGCACTTG
*
1759401 AAGCATCGATGCACT
1 ATGCATCGATGCACT
1759416 CTTAGTGCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
44 1 0.02
45 30 0.56
46 18 0.33
47 5 0.09
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
ATGCATCGATGCACTAAGATATTTTGAAACATCGAATGCACTTG
Found at i:1759414 original size:17 final size:18
Alignment explanation
Indices: 1759380--1759415 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1759370 TTTAGCTATT
1759380 TTGAAACATCGAATGCAC
1 TTGAAACATCGAATGCAC
*
1759398 TTGAAGCATCG-ATGCAC
1 TTGAAACATCGAATGCAC
1759415 T
1 T
1759416 CTTAGTGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (18 bp):
TTGAAACATCGAATGCAC
Found at i:1766839 original size:21 final size:21
Alignment explanation
Indices: 1766797--1766840 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1766787 ACTCCGAGAG
* *
1766797 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
1766818 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
1766839 CT
1 CT
1766841 CCTCCTCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:1767219 original size:29 final size:30
Alignment explanation
Indices: 1767187--1767246 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
1767177 GGATGTTTAA
1767187 ATTTGATGGTTGT-TGGA-TATTTTGAACTT
1 ATTTG-TGGTTGTATGGATTATTTTGAACTT
* * *
1767216 ATTTGTTGTTTTATGGATTTTTTTGAACTT
1 ATTTGTGGTTGTATGGATTATTTTGAACTT
1767246 A
1 A
1767247 ATATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (30 bp):
ATTTGTGGTTGTATGGATTATTTTGAACTT
Found at i:1767993 original size:64 final size:63
Alignment explanation
Indices: 1767914--1768039 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 63
1767904 ATGCACCAAT
1767914 CCATGCATCGATGCACCATGA-ATTAAATTG-AACATCGAATGCATTTCATGCATCGATGCACAT
1 CCATGCATCGATGCA-C-TGAGATTAAA-TGAAACATCGAATGCATTTCATGCATCGATGCACAT
1767977 A
63 A
* ** *
1767978 CCATTCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCAC
1 CCATGCATCGATGCACTGA-GATTAAATG-AAACATCGAATGCATTTCATGCATCGATGCAC
1768040 TCTAGCTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.06
63 3 0.06
64 18 0.33
65 30 0.56
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (63 bp):
CCATGCATCGATGCACTGAGATTAAATGAAACATCGAATGCATTTCATGCATCGATGCACATA
Found at i:1768034 original size:46 final size:45
Alignment explanation
Indices: 1767983--1768086 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
1767973 ACATACCATT
*
1767983 CATCGATGCACT-GAGGAT-TTTATGAAAACATCGAATGCATTTGATG
1 CATCGATGCACTCGA-GATATTT-TG-AAACATCGAATGCACTTGATG
* *
1768029 CATCGATGCACTCTAGCTATTTTGAAACATCGAATGCACTTGATG
1 CATCGATGCACTCGAGATATTTTGAAACATCGAATGCACTTGATG
*
1768074 CATCAATGCACTC
1 CATCGATGCACTC
1768087 TTAGTGCACC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 32 0.62
46 16 0.31
47 4 0.08
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (45 bp):
CATCGATGCACTCGAGATATTTTGAAACATCGAATGCACTTGATG
Found at i:1770878 original size:36 final size:38
Alignment explanation
Indices: 1770824--1770897 Score: 125
Period size: 36 Copynumber: 2.0 Consensus size: 38
1770814 GCTAGGAGAG
*
1770824 AACTAATTCTCTTTTAAGTTTTCTTTAGTAAATAGTGA
1 AACTAATTCTCTTTTAAGTTTTCTTTAGCAAATAGTGA
1770862 AACTAA-T-TCTTTTAAGTTTTCTTTAGCAAATAGTGA
1 AACTAATTCTCTTTTAAGTTTTCTTTAGCAAATAGTGA
1770898 GATTTCGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 28 0.80
37 1 0.03
38 6 0.17
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (38 bp):
AACTAATTCTCTTTTAAGTTTTCTTTAGCAAATAGTGA
Found at i:1775336 original size:14 final size:14
Alignment explanation
Indices: 1775317--1775364 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1775307 TAAACGTTCG
1775317 GTTATGTTCGATCA
1 GTTATGTTCGATCA
1775331 GTTATGTTC-AT--
1 GTTATGTTCGATCA
* *
1775342 -TTATATTCGTTCA
1 GTTATGTTCGATCA
1775355 GTTATGTTCG
1 GTTATGTTCG
1775365 TTTATGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
10 7 0.26
11 1 0.04
13 2 0.07
14 17 0.63
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (14 bp):
GTTATGTTCGATCA
Found at i:1775339 original size:24 final size:24
Alignment explanation
Indices: 1775312--1775386 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
1775302 GTTCGTAAAC
*
1775312 GTTCGGTTATGTTCGATCAGTTAT
1 GTTCGTTTATGTTCGATCAGTTAT
* * *
1775336 GTTCATTTATATTCGTTCAGTTAT
1 GTTCGTTTATGTTCGATCAGTTAT
*
1775360 GTTCGTTTATGTTC-ATTCATTTAT
1 GTTCGTTTATGTTCGA-TCAGTTAT
1775384 GTT
1 GTT
1775387 TAACCCAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGATCAGTTAT
Found at i:1776744 original size:23 final size:23
Alignment explanation
Indices: 1776718--1776762 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1776708 CACCACAGCT
*
1776718 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
1776741 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1776763 ATATAATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1777275 original size:2 final size:2
Alignment explanation
Indices: 1777262--1777306 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1777252 ATACCAAATC
*
1777262 AT AT AA AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1777303 AT AT
1 AT AT
1777307 TTATGCAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1779807 original size:11 final size:11
Alignment explanation
Indices: 1779791--1779819 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1779781 CTGGGCAATG
1779791 TCGAGCTTGAA
1 TCGAGCTTGAA
1779802 TCGAGCTTGAA
1 TCGAGCTTGAA
1779813 TCGAGCT
1 TCGAGCT
1779820 CGAGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:1780072 original size:16 final size:16
Alignment explanation
Indices: 1780050--1780127 Score: 111
Period size: 16 Copynumber: 4.9 Consensus size: 16
1780040 ACGTTTATGT
*
1780050 TCGTTTATGTTCGTGT
1 TCGTTTATGTTCGTGC
* *
1780066 TCATTTATCTTCGTGC
1 TCGTTTATGTTCGTGC
1780082 TCGTTTATGTTCGTGC
1 TCGTTTATGTTCGTGC
*
1780098 GCGTTTATGTTCGTGC
1 TCGTTTATGTTCGTGC
*
1780114 GCGTTTATGTTCGT
1 TCGTTTATGTTCGT
1780128 TATTATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 56 1.00
ACGTcount: A:0.08, C:0.18, G:0.24, T:0.50
Consensus pattern (16 bp):
TCGTTTATGTTCGTGC
Found at i:1780214 original size:16 final size:16
Alignment explanation
Indices: 1780193--1780223 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1780183 AATAAAATTT
1780193 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1780209 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
1780224 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1783068 original size:21 final size:21
Alignment explanation
Indices: 1783042--1783095 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1783032 ATTTCCAGAT
*
1783042 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
1783063 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
1783084 TCGCAATGCGAA
1 TCGCAATGCGAA
1783096 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:1783134 original size:21 final size:21
Alignment explanation
Indices: 1783104--1783175 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
1783094 AATATGTAAA
*
1783104 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1783125 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
1783146 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1783167 TCGCGTTGC
1 TCGCATTGC
1783176 AATTTATTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:1783280 original size:42 final size:42
Alignment explanation
Indices: 1783222--1783319 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
1783212 CATATTCGTA
*
1783222 TTGCGATAGTCCAAGTTTGCATTACGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCATTACGATTTATTCCAAATTCG
* * *
1783264 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCATTACGATTTATTCCAAATTCG
*
1783306 TTGTGATAGTCCAA
1 TTGCGATAGTCCAA
1783320 AATCGCAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCATTACGATTTATTCCAAATTCG
Found at i:1783307 original size:21 final size:21
Alignment explanation
Indices: 1783246--1783308 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1783236 GTTTGCATTA
1783246 CGATTTATTCCAAATTCGTTG
1 CGATTTATTCCAAATTCGTTG
* * *
1783267 CGA--TAGTCGAAGTTCGCGTTG
1 CGATTTATTCCAAATT--CGTTG
1783288 CGATTTATTCCAAATTCGTTG
1 CGATTTATTCCAAATTCGTTG
1783309 TGATAGTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 8 0.25
21 16 0.50
23 8 0.25
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (21 bp):
CGATTTATTCCAAATTCGTTG
Found at i:1783320 original size:19 final size:19
Alignment explanation
Indices: 1783254--1783320 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
1783244 TACGATTTAT
1783254 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* * *
1783273 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGCGA--TAG
*
1783296 TCCAAATTCGTTGTGATAG
1 TCCAAATTCGTTGCGATAG
1783315 TCCAAA
1 TCCAAA
1783321 ATCGCAACGA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 14 0.38
21 15 0.41
23 8 0.22
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:1783424 original size:6 final size:6
Alignment explanation
Indices: 1783415--1783475 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
1783405 TATTACCATA
1783415 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1783463 ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACC
1783476 CGAGACGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.31, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1784317 original size:21 final size:21
Alignment explanation
Indices: 1784291--1784334 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1784281 ATTCTGGGCT
* *
1784291 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
1784312 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
1784333 AG
1 AG
1784335 CGAATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:1784404 original size:23 final size:22
Alignment explanation
Indices: 1784360--1784404 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1784350 AATGTCATGG
*
1784360 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
1784382 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
1784405 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:1784851 original size:21 final size:21
Alignment explanation
Indices: 1784827--1784894 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
1784817 TATATGAATA
1784827 TATGAATATAACGTGTAACTT
1 TATGAATATAACGTGTAACTT
** **
1784848 TATGAGGATAATATG-ATA-TT
1 TATGAATATAACGTGTA-ACTT
1784868 ATATGAATATAACGTGTAACTT
1 -TATGAATATAACGTGTAACTT
1784890 TATGA
1 TATGA
1784895 GGAAGAATTG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (21 bp):
TATGAATATAACGTGTAACTT
Found at i:1784875 original size:42 final size:40
Alignment explanation
Indices: 1784818--1784897 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 40
1784808 ATGTGATATT
1784818 ATATGAATATATGAATATAACGTGTAACTTTATGAGGATA
1 ATATGAATATATGAATATAACGTGTAACTTTATGAGGATA
1784858 ATATGATATTATATGAATATAACGTGTAACTTTATGAGGA
1 ATATGA-A-TATATGAATATAACGTGTAACTTTATGAGGA
1784898 AGAATTGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 6 0.16
41 1 0.03
42 31 0.82
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.36
Consensus pattern (40 bp):
ATATGAATATATGAATATAACGTGTAACTTTATGAGGATA
Found at i:1785533 original size:103 final size:103
Alignment explanation
Indices: 1785349--1785566 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1785339 GTCGAGGGTC
* *
1785349 TATGTTGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1785414 TTGATCCTTGACATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
1785452 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1785517 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
1785555 TATGTGGTCCTT
1 TATGTGGTCCTT
1785567 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
Found at i:1785650 original size:23 final size:23
Alignment explanation
Indices: 1785582--1785642 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1785572 CATTATTATA
*
1785582 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
1785605 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1785628 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1785643 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1789404 original size:21 final size:21
Alignment explanation
Indices: 1789378--1789421 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1789368 TTCTGGGGCT
*
1789378 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
1789399 AGGGGAATCGATACCCCTTCA
1 AGGGGAATCGATACCCATTCA
1789420 AG
1 AG
1789422 CGAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:1789492 original size:23 final size:22
Alignment explanation
Indices: 1789448--1789492 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1789438 AATGTCATGG
*
1789448 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
1789470 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
1789493 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:1790823 original size:103 final size:103
Alignment explanation
Indices: 1790598--1790815 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
1790588 GTCGGGGGTC
*
1790598 TATGTTGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1790663 TTGATCCTTGACATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTAGACATATGTATATGATTCTTAAGGAATGA
1790701 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1790766 TTGATCCCTAG-TATATGTATATGATTCTTAAGGAATGA
66 TTGAT-CCTAGACATATGTATATGATTCTTAAGGAATGA
1790804 TATGTGGTCCTT
1 TATGTGGTCCTT
1790816 ATGGACATTA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 107 0.96
104 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTAGACATATGTATATGATTCTTAAGGAATGA
Found at i:1790899 original size:23 final size:23
Alignment explanation
Indices: 1790831--1790891 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1790821 CATTATTATA
*
1790831 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
1790854 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1790877 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1790892 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1794656 original size:21 final size:21
Alignment explanation
Indices: 1794630--1794673 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1794620 ATTCTGGGCT
* *
1794630 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
1794651 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
1794672 AG
1 AG
1794674 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:1794744 original size:23 final size:22
Alignment explanation
Indices: 1794700--1794744 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1794690 AATGTCATGG
*
1794700 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
1794722 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
1794745 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:1796178 original size:103 final size:103
Alignment explanation
Indices: 1795850--1796170 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
1795840 GTCGAGGGTC
*
1795850 TATGTTGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1795915 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
1795953 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAA
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1796018 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1796056 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1796121 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1796159 TATGTGGTCCTT
1 TATGTGGTCCTT
1796171 ATGGACATTA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1796254 original size:23 final size:23
Alignment explanation
Indices: 1796186--1796246 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1796176 CATTATTATA
*
1796186 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
1796209 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1796232 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1796247 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1797361 original size:6 final size:5
Alignment explanation
Indices: 1797315--1797357 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
1797305 TCTCGTCTCA
1797315 GGTCG GGTCG GGTCG GGTCG GGTCG TGGTCG TGGTCG TGGTCG
1 GGTCG GGTCG GGTCG GGTCG GGTCG -GGTCG -GGTCG -GGTCG
1797358 TGGTAATACG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 20 0.54
6 17 0.46
ACGTcount: A:0.00, C:0.19, G:0.56, T:0.26
Consensus pattern (5 bp):
GGTCG
Found at i:1797480 original size:21 final size:21
Alignment explanation
Indices: 1797454--1797563 Score: 111
Period size: 21 Copynumber: 5.3 Consensus size: 21
1797444 ATTTTGGACT
1797454 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
1797475 ATCGCAATGAACTTGGACT--
1 ATCGCAACGAATTTGGAATAA
*
1797494 ACCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
1797515 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
1797536 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
1797557 ATCGCAA
1 ATCGCAA
1797564 TGCGAACTTA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
19 24 0.35
21 36 0.52
23 9 0.13
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:1797542 original size:42 final size:41
Alignment explanation
Indices: 1797450--1797586 Score: 213
Period size: 42 Copynumber: 3.3 Consensus size: 41
1797440 TGCAATTTTG
* *
1797450 GACTATCGCAACGAATTTGGAATAAATCGCAA-TGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAAGCGAACTTA
* *
1797490 GACTACCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAA-GCGAACTTA
1797532 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTA
1 GACTATCGCAACGAATTTGGAATAAATCGCAA-GCGAACTTA
1797574 GACTATCGCAACG
1 GACTATCGCAACG
1797587 CGAACTTCGA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 31 0.35
42 58 0.65
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAAGCGAACTTA
Found at i:1797581 original size:21 final size:21
Alignment explanation
Indices: 1797483--1797653 Score: 120
Period size: 21 Copynumber: 8.1 Consensus size: 21
1797473 AAATCGCAAT
*
1797483 GAACTTGGACTACCGCAA--C
1 GAACTTGGACTATCGCAACGC
* *
1797502 GAATTTGGAATAAATCGCAACGC
1 GAACTTGGACT--ATCGCAACGC
*
1797525 GAACTTCGACTATCGCAA--C
1 GAACTTGGACTATCGCAACGC
* * *
1797544 GAATTTGGAATAAATCGCAATGC
1 GAACTTGGACT--ATCGCAACGC
*
1797567 GAACTTAGACTATCGCAACGC
1 GAACTTGGACTATCGCAACGC
* *
1797588 GAACTTCGACTATCGCAA--T
1 GAACTTGGACTATCGCAACGC
*
1797607 GAACTTGGAATAAATCGCAACGC
1 GAACTTGGACT--ATCGCAACGC
* * *
1797630 GAACTTGGATTATAGCAATGC
1 GAACTTGGACTATCGCAACGC
1797651 GAA
1 GAA
1797654 TATGTAAATC
Statistics
Matches: 119, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
19 27 0.23
21 64 0.54
23 28 0.24
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
GAACTTGGACTATCGCAACGC
Found at i:1797584 original size:63 final size:63
Alignment explanation
Indices: 1797515--1797653 Score: 215
Period size: 63 Copynumber: 2.2 Consensus size: 63
1797505 TTTGGAATAA
* *
1797515 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTAGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACT
* * *
1797578 ATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTGGATT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACT
* *
1797641 ATAGCAATGCGAA
1 ATCGCAACGCGAA
1797654 TATGTAAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (63 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTAGACT
Found at i:1797603 original size:42 final size:42
Alignment explanation
Indices: 1797450--1797653 Score: 149
Period size: 42 Copynumber: 4.9 Consensus size: 42
1797440 TGCAATTTTG
* *
1797450 GACTATCGCAA--CGAATTTGGAATAAATCGCAAT--GAACTTG
1 GACTATCGCAACGCGAACTTGGAAT--ATCGCAATGCGAACTTA
* * * *
1797490 GACTACCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTGGAAT--ATCGCAATGCGAACTTA
*
1797532 GACTATCGCAA--CGAATTTGGAATAAATCGCAATGCGAACTTA
1 GACTATCGCAACGCGAACTTGGAAT--ATCGCAATGCGAACTTA
* * *
1797574 GACTATCGCAACGCGAACTTCGACTATCGCAAT--GAACTTG
1 GACTATCGCAACGCGAACTTGGAATATCGCAATGCGAACTTA
* * *
1797614 GAATAAATCGCAACGCGAACTTGGATTATAGCAATGCGAA
1 GACT--ATCGCAACGCGAACTTGGAATATCGCAATGCGAA
1797654 TATGTAAATC
Statistics
Matches: 142, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
40 40 0.28
42 90 0.63
44 12 0.08
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGCGAACTTGGAATATCGCAATGCGAACTTA
Found at i:1797929 original size:2 final size:2
Alignment explanation
Indices: 1797922--1797955 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1797912 AACTATTCAA
1797922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1797956 TAAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1798042 original size:15 final size:15
Alignment explanation
Indices: 1798009--1798043 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1797999 AAAATAGAAT
1798009 AAAATATGTAATTAC
1 AAAATATGTAATTAC
1798024 AAAATGATGTAATTA-
1 AAAAT-ATGTAATTAC
1798039 AAAAT
1 AAAAT
1798044 TTAGAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (15 bp):
AAAATATGTAATTAC
Found at i:1800334 original size:11 final size:11
Alignment explanation
Indices: 1800314--1800342 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1800304 CAGCAGCAGC
1800314 AAAAAA-AAAA
1 AAAAAAGAAAA
1800324 AAAAAAGAAAA
1 AAAAAAGAAAA
1800335 AAAAAAGA
1 AAAAAAGA
1800343 GAGAGAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:1801999 original size:36 final size:37
Alignment explanation
Indices: 1801927--1802000 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
1801917 GTTGAAAAAT
* * *
1801927 ATTTATATATTTTCTTTTAAAAATTTAAATTCATAAA
1 ATTTATATAATTTCTTTTAAAAATTGAAAATCATAAA
1801964 ATTTATATAATTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATAATTTCTTTTA-AAAATTGAAAATCATAAA
1802000 A
1 A
1802001 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 11 0.33
37 22 0.67
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATAATTTCTTTTAAAAATTGAAAATCATAAA
Found at i:1802641 original size:23 final size:25
Alignment explanation
Indices: 1802614--1802669 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
1802604 AAATATTATT
*
1802614 AAATTATTA-TGAT-TTAATTTTAA
1 AAATTATTATTGATATAAATTTTAA
*
1802637 AAATTA-TATTTATATAAATTTTAA
1 AAATTATTATTGATATAAATTTTAA
1802661 AGAATTATT
1 A-AATTATT
1802670 TTATTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.07
23 9 0.33
24 10 0.37
25 5 0.19
26 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AAATTATTATTGATATAAATTTTAA
Found at i:1807625 original size:2 final size:2
Alignment explanation
Indices: 1807620--1807644 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1807610 TTAAAAAATA
1807620 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 A
1807645 AATGTGACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1814793 original size:29 final size:30
Alignment explanation
Indices: 1814759--1814840 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
1814749 AGCATATCCC
1814759 TAATAACAAATATTGAAAAAATT-GGACC-A
1 TAATAACAAATATTGAAAAAATTAGG-CCTA
* * * * *
1814788 TGATAATAAGTATTAAAAAAATTAGGCCTT
1 TAATAACAAATATTGAAAAAATTAGGCCTA
1814818 TAATAACAAATATTAGAAAAAAT
1 TAATAACAAATATT-GAAAAAAT
1814841 ATTGACAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 21 0.51
30 13 0.32
31 7 0.17
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (30 bp):
TAATAACAAATATTGAAAAAATTAGGCCTA
Found at i:1814892 original size:28 final size:29
Alignment explanation
Indices: 1814837--1814916 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
1814827 ATATTAGAAA
* *
1814837 AAATATTGACAAAAAATTGAA-TACTTATAC
1 AAATATT-ACAAAAAA-TAAATTATTTATAC
* *
1814867 AAATATTA-TAAAAATAAATTATTTATAT
1 AAATATTACAAAAAATAAATTATTTATAC
1814895 AAATATTACAAAAAATAAATTA
1 AAATATTACAAAAAATAAATTA
1814917 AAAAAATAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 3 0.07
28 20 0.47
29 13 0.30
30 7 0.16
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATATTACAAAAAATAAATTATTTATAC
Found at i:1814949 original size:28 final size:29
Alignment explanation
Indices: 1814913--1814977 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
1814903 CAAAAAATAA
* * * *
1814913 ATTAAAAAAATAGACCCCTTATAA-AAAT
1 ATTAAAAAAATAAACACATAATAATAAAT
1814941 ATTAAAAAAATAAACACATAATAATAAAT
1 ATTAAAAAAATAAACACATAATAATAAAT
1814970 ATTAAAAA
1 ATTAAAAA
1814978 TTTAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.25
Consensus pattern (29 bp):
ATTAAAAAAATAAACACATAATAATAAAT
Found at i:1814983 original size:29 final size:28
Alignment explanation
Indices: 1814933--1815001 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
1814923 TAGACCCCTT
*
1814933 ATAAAAATATTAAAAAAATAAACA-CATA
1 ATAAAAATATTAAAAAAATAAA-ATAATA
**
1814961 ATAATAAATATTAAAAATTTAAAATAATA
1 ATAA-AAATATTAAAAAAATAAAATAATA
1814990 ATAAAAAATATT
1 AT-AAAAATATT
1815002 TCAAATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.14
29 28 0.80
30 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (28 bp):
ATAAAAATATTAAAAAAATAAAATAATA
Found at i:1822884 original size:34 final size:34
Alignment explanation
Indices: 1822825--1822891 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
1822815 TTCTTGAGAG
*
1822825 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTAATC-AGAGAGAAGTTGTTA
1822859 TTGTTTTCTCCTTGTTAAATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-AATCAGAGAGAAGTTGT
1822892 AATTCTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTAATCAGAGAGAAGTTGTTA
Found at i:1830489 original size:2 final size:2
Alignment explanation
Indices: 1830484--1830513 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1830474 ACACACACAC
1830484 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
1830514 GAACTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1832203 original size:15 final size:15
Alignment explanation
Indices: 1832176--1832214 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
1832166 GTATTTTATT
1832176 TATTTATTTATTCATA
1 TATTTA-TTATTCATA
1832192 TATTTATTATTCATA
1 TATTTATTATTCATA
*
1832207 TTTTTATT
1 TATTTATT
1832215 CACTAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATTATTCATA
Found at i:1833054 original size:24 final size:23
Alignment explanation
Indices: 1833014--1833063 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
1833004 TTAATTTATA
*
1833014 ATTTTTTTATATATATACATATT
1 ATTTTTATATATATATACATATT
* *
1833037 ATTTTTATAGTATTTATATATATT
1 ATTTTTATA-TATATATACATATT
1833061 ATT
1 ATT
1833064 AATATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTATATATATATACATATT
Found at i:1834687 original size:14 final size:14
Alignment explanation
Indices: 1834668--1834720 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
1834658 TTTTAAATAA
*
1834668 TTTACATTTACATT
1 TTTACATTTGCATT
*
1834682 TTTACATTTGCATA
1 TTTACATTTGCATT
1834696 TTTACATTTGGCATT
1 TTTACATTT-GCATT
*
1834711 TTTGCATTTG
1 TTTACATTTG
1834721 TATTGCACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:1840496 original size:114 final size:114
Alignment explanation
Indices: 1840291--1840513 Score: 374
Period size: 114 Copynumber: 2.0 Consensus size: 114
1840281 TGCCAGGTGA
1840291 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
* * * *
1840356 TTTGGTATGAACCCCAAAACTAATCATTGGATTTAAAAGATGAATTTGC
66 TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGC
*
1840405 TCATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
* * *
1840470 TTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
1840514 CTGCATGATC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGC
Found at i:1843068 original size:22 final size:22
Alignment explanation
Indices: 1843040--1843223 Score: 287
Period size: 22 Copynumber: 8.4 Consensus size: 22
1843030 ATCTACATTC
1843040 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1843062 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1843084 TTCAAAGATGATATATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
1843106 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1843128 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1843150 TTCAAAGATGATATATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
*
1843172 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1843194 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1843216 TTCAAAGA
1 TTCAAAGA
1843224 CGAAAGCTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 146 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1843144 original size:66 final size:66
Alignment explanation
Indices: 1843038--1843223 Score: 354
Period size: 66 Copynumber: 2.8 Consensus size: 66
1843028 ACATCTACAT
1843038 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATATATTCT
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATATATTCT
1843103 C
66 C
1843104 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATATATTCT
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATATATTCT
1843169 C
66 C
* *
1843170 TCTTCAAAGATGATAAATTCTCTTTTTAAAGATGACAGATTCTCTTTTCAAAGA
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGA
1843224 CGAAAGCTTT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 118 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (66 bp):
TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATATATTCT
C
Found at i:1844027 original size:76 final size:76
Alignment explanation
Indices: 1843901--1844082 Score: 292
Period size: 76 Copynumber: 2.4 Consensus size: 76
1843891 CTATTTCCCA
*
1843901 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
*
1843966 AGCCTTAGGGT
66 AACCTTAGGGT
*
1843977 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
*
1844042 AACCTTCGGGT
66 AACCTTAGGGT
* * * *
1844053 CAGCTATAAGCCCTACAGTGCATAATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
1844083 TTTCTTAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 98 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
AACCTTAGGGT
Found at i:1844299 original size:111 final size:113
Alignment explanation
Indices: 1844093--1844508 Score: 704
Period size: 111 Copynumber: 3.8 Consensus size: 113
1844083 TTTCTTAAAA
*
1844093 CATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1 CATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1844158 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
*
1844206 CATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAG-ATGAAGAAGAAGTTCATAATAA
1 CATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1844269 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
* *
1844317 CATTTCCA-GAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1844381 GAAGAACTTGTTCAACC-TTTGCTTGAATTC-TCATTCGATGGATCAG
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
* ** *
1844427 CATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG-AGG-AGAAG-AGTTCATAATGA
1 CATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1844489 GAAGAACTTGTTCAACCTTT
66 GAAGAACTTGTTCAACCTTT
1844509 GCATGACTCT
Statistics
Matches: 291, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
108 29 0.10
109 7 0.02
110 26 0.09
111 152 0.52
112 69 0.24
113 8 0.03
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (113 bp):
CATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAG
Found at i:1845800 original size:4 final size:4
Alignment explanation
Indices: 1845791--1845828 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
1845781 TTTAAATTAG
* *
1845791 TATT TATT TATT TATT TATT CATA TATT TA-T TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
1845829 ATTTTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:1846903 original size:22 final size:23
Alignment explanation
Indices: 1846859--1846905 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1846849 TATTTAAAAT
*
1846859 TATAAAAAAAACAAATAACATAA
1 TATAAAAAAAACAAATAAAATAA
* *
1846882 TATAAAAAGAATAAA-AAAATAA
1 TATAAAAAAAACAAATAAAATAA
1846904 TA
1 TA
1846906 ATCATCAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (23 bp):
TATAAAAAAAACAAATAAAATAA
Found at i:1847997 original size:22 final size:22
Alignment explanation
Indices: 1847972--1848018 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1847962 TGTACATTAA
*
1847972 AACTTTAGACACCTAAAAATGG
1 AACTGTAGACACCTAAAAATGG
1847994 AACTGTAGACACCTAAAAATGG
1 AACTGTAGACACCTAAAAATGG
1848016 AAC
1 AAC
1848019 GAAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (22 bp):
AACTGTAGACACCTAAAAATGG
Found at i:1850534 original size:2 final size:2
Alignment explanation
Indices: 1850527--1850552 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1850517 TATTGTATTC
1850527 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
1850553 TAGGGTTAGT
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
Done.