Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 48 of 121
Found at i:8366648 original size:40 final size:42
Alignment explanation
Indices: 8366587--8366676 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
8366577 ATATATTATA
8366587 ATTTATCTGTTATTTAATTTTAATTT-A-TTTGTTAATTTTTTT
1 ATTTATC-GTTATTTAATTTT-ATTTGATTTTGTTAATTTTTTT
* * *
8366629 ATTTATC-TTATTTATTTTTATTTGATTTTTTTATTTTTTTT
1 ATTTATCGTTATTTAATTTTATTTGATTTTGTTAATTTTTTT
8366670 ATTTATC
1 ATTTATC
8366677 CGACTGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 4 0.09
40 12 0.28
41 20 0.47
42 7 0.16
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (42 bp):
ATTTATCGTTATTTAATTTTATTTGATTTTGTTAATTTTTTT
Found at i:8367016 original size:19 final size:19
Alignment explanation
Indices: 8366994--8367030 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8366984 AATTTCGGTT
*
8366994 AATTTTTCGACGGACATTG
1 AATTTTTCGACGAACATTG
*
8367013 AATTTTTTGACGAACATT
1 AATTTTTCGACGAACATT
8367031 TCGGCCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (19 bp):
AATTTTTCGACGAACATTG
Found at i:8367440 original size:5 final size:5
Alignment explanation
Indices: 8367416--8367579 Score: 59
Period size: 5 Copynumber: 30.8 Consensus size: 5
8367406 TCGTTCCAGG
*
8367416 TTTTT TTTTAA TTTTAA TTTTA TTTT- TATTTA -TTTA TTTTTA TTATTA
1 TTTTA TTTT-A TTTT-A TTTTA TTTTA T-TTTA TTTTA -TTTTA TT-TTA
** * * * * *
8367464 GATTA GGTTTA TTTAA TATTC TTTTA TCTTTA TTTTA TTTTTA TTTTTG
1 TTTTA -TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA -TTTTA -TTTTA
* * *
8367513 TTTTAA TTTTC TTTATT TTTTAA TTTT- TGTTTA TTTTCA CTTTTA TTTTG
1 TTTT-A TTTTA TTT-TA TTTT-A TTTTA T-TTTA TTTT-A -TTTTA TTTTA
8367563 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
8367580 CTTTAAATAA
Statistics
Matches: 123, Mismatches: 18, Indels: 36
0.69 0.10 0.20
Matches are distributed among these distances:
3 3 0.02
4 6 0.05
5 59 0.48
6 51 0.41
7 4 0.03
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:8367444 original size:6 final size:6
Alignment explanation
Indices: 8367416--8367579 Score: 56
Period size: 6 Copynumber: 27.5 Consensus size: 6
8367406 TCGTTCCAGG
* * *
8367416 TTTT-T TTTTAA TTTTAA TTTTAT TTTTATT TATTTAT TTTTAT TATTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T-TTTAT TTTTAT TTTTAT
** * * * * *
8367464 GATTAG GTTTAT TTAATATT CTTTTAT CTTTA- TTTTAT TTTTAT TTTT-G
1 TTTTAT TTTTAT TT-TTA-T -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * * * *
8367513 TTTTAA TTTTCT TTAT-T TTTTAA TTTT-T GTTTAT TTTCAC TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
8367559 TTTGT-T TTATTA- TTTTAT TTT
1 TTT-TAT TT-TTAT TTTTAT TTT
8367580 CTTTAAATAA
Statistics
Matches: 119, Mismatches: 25, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
5 26 0.22
6 75 0.63
7 9 0.08
8 7 0.06
9 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:8367505 original size:17 final size:16
Alignment explanation
Indices: 8367485--8367531 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
8367475 TTTAATATTC
8367485 TTTTATCTTTATTTTA
1 TTTTATCTTTATTTTA
* *
8367501 TTTTTATTTTTGTTTTA
1 -TTTTATCTTTATTTTA
*
8367518 ATTT-TCTTTATTTT
1 TTTTATCTTTATTTT
8367532 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 8 0.32
16 3 0.12
17 14 0.56
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATCTTTATTTTA
Found at i:8367555 original size:29 final size:29
Alignment explanation
Indices: 8367496--8367583 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
8367486 TTTATCTTTA
8367496 TTTTA-TTTTTATTTTTGTTTTAATTTTC
1 TTTTATTTTTTATTTTTGTTTTAATTTTC
8367524 -TTTATTTTTTAATTTTTG-TTT-ATTTTCAC
1 TTTTATTTTTT-ATTTTTGTTTTAATTTT--C
* *
8367553 TTTTATTTTGTT-TTATTATTTT-ATTTTC
1 TTTTATTTT-TTATTTTTGTTTTAATTTTC
8367581 TTT
1 TTT
8367584 AAATAAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
27 9 0.18
28 12 0.24
29 12 0.24
30 16 0.31
31 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTTATTTTTTATTTTTGTTTTAATTTTC
Found at i:8367576 original size:18 final size:17
Alignment explanation
Indices: 8367493--8367584 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 17
8367483 TCTTTTATCT
8367493 TTATTTTATTTTTATTT-
1 TTATTTTATTTTT-TTTA
* *
8367510 TTGTTTTAATTTTCTTTA
1 TTATTTT-ATTTTTTTTA
8367528 TT-TTTTAATTTTTGTTTA
1 TTATTTT-ATTTTT-TTTA
8367546 TTTTCACTTTTATTTTGTTTTA
1 --TT-A-TTTTATTTT-TTTTA
*
8367568 TTATTTTATTTTCTTTA
1 TTATTTTATTTTTTTTA
8367585 AATAAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
17 23 0.37
18 20 0.32
19 1 0.02
20 4 0.06
22 9 0.15
23 5 0.08
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTTTTTTA
Found at i:8367657 original size:57 final size:57
Alignment explanation
Indices: 8367596--8368035 Score: 446
Period size: 57 Copynumber: 7.7 Consensus size: 57
8367586 ATAAAATAAA
* *
8367596 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
* * * *
8367653 AAAAAAAATTTTTGAGG-GAAAGTTGAAAATATCAATTTTCCTCAAAATTAAAGTTTTC
1 AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAA-TTTTC
** * *
8367711 AAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-
1 -AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
* *** * * *
8367768 TAAAACGGTTTTTGAGGAAAAA-TTGAAAGTATCAATTTT-TTTCGAAATTAAAGTTTC
1 AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAAATTTTC
* * * *
8367825 AAAAGATA-TTTTGGGAGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
* * * *
8367882 AAAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTC
1 --AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
* * ** * *
8367941 AAAAGATA-TTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAGATTAAAATTTC
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
*
8367997 TAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 -AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
8368036 TTCTGCACAA
Statistics
Matches: 316, Mismatches: 51, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
55 7 0.02
56 86 0.27
57 120 0.38
58 13 0.04
59 83 0.26
60 5 0.02
61 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTTC
Found at i:8367733 original size:116 final size:113
Alignment explanation
Indices: 8367596--8368035 Score: 542
Period size: 116 Copynumber: 3.8 Consensus size: 113
8367586 ATAAAATAAA
* * *
8367596 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATA-TTTTGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * * *
8367661 TTTTTGAGGGAAAGTTGAAAATATCAATTTTCCTCAAAATTAAAGTTTTC
65 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAG-TTTC
* * * **
8367711 AAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-TAAAACG
1 -AAAAAATATTTTGGAAAAAAA-TTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* * *
8367775 GTTTTTGAGGAAAAATTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTC
64 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTC
* * *
8367825 AAAAGATATTTTGGGAGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTT-GGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAA
*
8367890 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTC
64 -ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTC
* * ** * * * *
8367941 AAAAGATATTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAGATTAAAATTTC-TAAAAAAT
1 AAAAAATATTTTGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAT
*
8368005 ATTTTGGGGAAAAGTTGAAAGTATCAATTTT
66 -TTTTGAGGAAAAGTTGAAAGTATCAATTTT
8368036 TTCTGCACAA
Statistics
Matches: 283, Mismatches: 35, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
112 2 0.01
113 79 0.28
114 11 0.04
115 93 0.33
116 98 0.35
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.37
Consensus pattern (113 bp):
AAAAAATATTTTGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTC
Found at i:8368036 original size:172 final size:171
Alignment explanation
Indices: 8367596--8368036 Score: 532
Period size: 172 Copynumber: 2.6 Consensus size: 171
8367586 ATAAAATAAA
* * * ** * * *
8367596 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAGATA-TTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAAAAATA
* * * *
8367661 TTTTTGAGGG-AAAGTTGAAAATATCAATTTTCCTCAAAATTAAAGTTTTCAAAAAAATATTTTT
65 -TTTTG-GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTCAAAAAAAGATTTTT
* *
8367725 GAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
128 GAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTC
* ** * *
8367769 AAAACGGT-TTTTGAGG-AAAAATTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTCAAAAGAT
1 AAAA-GATATTTTG-GGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAAAAAT
* *
8367832 ATTTTGGGAGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAAAGATTTT
64 ATTTTGGG-GAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC-AAAAAAAGATTTT
** * *
8367896 TGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAATTAAAGTTTC
127 TGAAAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAGTTTC
*
8367941 AAAAGATATTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAGATTAAAATTTCTAAAAAATA
1 AAAAGATATTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC-AAAAAATA
8368006 TTTTGGGGAAAAGTTGAAAGTATCAATTTTT
65 TTTTGGGGAAAAGTTGAAAGTATCAATTTTT
8368037 TCTGCACAAA
Statistics
Matches: 228, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
170 2 0.01
171 20 0.09
172 185 0.81
173 20 0.09
174 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (171 bp):
AAAAGATATTTTGGGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAAAAATAT
TTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTCAAAAAAAGATTTTTGAA
AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTC
Found at i:8373716 original size:25 final size:25
Alignment explanation
Indices: 8373687--8373738 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8373677 CTCTCTTTAA
8373687 CCCTTCCTTTCACCGATCATATTGT
1 CCCTTCCTTTCACCGATCATATTGT
8373712 CCCTTCCTTTCACCGATCATATTGT
1 CCCTTCCTTTCACCGATCATATTGT
8373737 CC
1 CC
8373739 AAACTTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (25 bp):
CCCTTCCTTTCACCGATCATATTGT
Found at i:8375931 original size:2 final size:2
Alignment explanation
Indices: 8375924--8375976 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
8375914 ACTGCCCCTA
8375924 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
8375965 AC AC -C AC AC AC A
1 AC AC AC AC AC AC A
8375977 ACCATTAGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8389619 original size:3 final size:3
Alignment explanation
Indices: 8389611--8389663 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8389601 CTAAATGATC
8389611 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8389659 ATA AT
1 ATA AT
8389664 GATATTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8392772 original size:12 final size:12
Alignment explanation
Indices: 8392755--8392780 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8392745 TAGTTAAGTT
8392755 TTAATTTATTGA
1 TTAATTTATTGA
8392767 TTAATTTATTGA
1 TTAATTTATTGA
8392779 TT
1 TT
8392781 TGATTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTAATTTATTGA
Found at i:8394305 original size:2 final size:2
Alignment explanation
Indices: 8394300--8394330 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8394290 TATATATGTT
8394300 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8394331 ACAACTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8397191 original size:23 final size:23
Alignment explanation
Indices: 8397165--8397211 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8397155 TCTTATTTGC
8397165 TCATGATATTTGATGGAATTTAG
1 TCATGATATTTGATGGAATTTAG
8397188 TCATGATATTTGATGGAATTTAG
1 TCATGATATTTGATGGAATTTAG
8397211 T
1 T
8397212 TTTTGTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
TCATGATATTTGATGGAATTTAG
Found at i:8398948 original size:13 final size:15
Alignment explanation
Indices: 8398918--8398951 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
8398908 CGTCATCACA
8398918 AATTTTTATTTAATT
1 AATTTTTATTTAATT
8398933 AATTTTT-TTT-ATT
1 AATTTTTATTTAATT
8398946 AATTTT
1 AATTTT
8398952 AAAAAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 3 0.16
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTAATT
Found at i:8399779 original size:6 final size:6
Alignment explanation
Indices: 8399765--8399841 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
8399755 GCCGTCAGTG
* ** *
8399765 TTTTT- TTTTTC TTTTT- TTCTTC TTCCTC -TTTTC TTTTT- TTTTCC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
8399809 TTTTCC CTTTTC TTTTTC TCTTTTT TTTTTC TT
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TT
8399842 CCCTCCATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
5 16 0.28
6 36 0.63
7 5 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:8399802 original size:23 final size:22
Alignment explanation
Indices: 8399771--8399825 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
8399761 AGTGTTTTTT
8399771 TTTTC-TTTTTTT-CTTCTTCCTC
1 TTTTCTTTTTTTTCCTT-TTCC-C
8399793 TTTTCTTTTTTTTTCCTTTTCCC
1 TTTTC-TTTTTTTTCCTTTTCCC
8399816 TTTTCTTTTT
1 TTTTCTTTTT
8399826 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.33
23 6 0.20
24 11 0.37
25 3 0.10
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTTTTTTTTCCTTTTCCC
Found at i:8399803 original size:24 final size:23
Alignment explanation
Indices: 8399776--8399825 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 23
8399766 TTTTTTTTTC
8399776 TTTTTTT-CTTCTTCCTCTTTTCTT
1 TTTTTTTCCTT-TTCC-CTTTTCTT
8399800 TTTTTTTCCTTTTCCCTTTTCTT
1 TTTTTTTCCTTTTCCCTTTTCTT
8399823 TTT
1 TTT
8399826 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 11 0.44
24 11 0.44
25 3 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTCCTTTTCCCTTTTCTT
Found at i:8399834 original size:22 final size:22
Alignment explanation
Indices: 8399771--8399834 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
8399761 AGTGTTTTTT
*
8399771 TTTTCTTTTTT-TCTTCTTCCTC
1 TTTTCTTTTTTCT-TTTTTCCTC
*
8399793 TTTTCTTTTTTTTTCCTTTTCC-C
1 TTTTCTTTTTTCTT--TTTTCCTC
8399816 TTTTCTTTTTCTCTTTTTT
1 TTTTCTTTTT-TCTTTTTT
8399835 TTTTCTTCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 16 0.44
23 12 0.33
24 8 0.22
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTTTTCCTC
Found at i:8399835 original size:23 final size:22
Alignment explanation
Indices: 8399771--8399835 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 22
8399761 AGTGTTTTTT
* *
8399771 TTTTCTTTTTTTCTTCTTCCTC
1 TTTTCTTTTTTTTTTTTTCCTC
8399793 TTTTCTTTTTTTTTCCTTTTCC-C
1 TTTTCTTTTTTTTT--TTTTCCTC
8399816 TTTTCTTTTTCTCTTTTTTT
1 TTTTCTTTTT-T-TTTTTTT
8399836 TTTCTTCCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 13 0.35
23 15 0.41
24 6 0.16
25 3 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCTTTTTTTTTTTTTCCTC
Found at i:8399837 original size:18 final size:18
Alignment explanation
Indices: 8399779--8399836 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
8399769 TTTTTTCTTT
*
8399779 TTTTCTTCTTCCTCTTTTC
1 TTTTCTT-TTTCTCTTTTC
8399798 TTTT-TTTTTC-CTTTTCCC
1 TTTTCTTTTTCTCTTTT--C
8399816 TTTTCTTTTTCTCTTTT-
1 TTTTCTTTTTCTCTTTTC
8399833 TTTT
1 TTTT
8399837 TTCTTCCCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 7 0.21
19 10 0.29
20 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTTCTCTTTTC
Found at i:8401200 original size:3 final size:3
Alignment explanation
Indices: 8401192--8401258 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
8401182 GTTAATTTTA
*
8401192 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8401240 AAT AAT AAC AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
8401259 AATTTAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8401754 original size:22 final size:21
Alignment explanation
Indices: 8401724--8401832 Score: 110
Period size: 22 Copynumber: 5.0 Consensus size: 21
8401714 ATCTAGAAGA
*
8401724 CTTAAAGATTATGCCTGAAAGT
1 CTTAGAGATTATGCCT-AAAGT
*
8401746 CTTAGAGATTATGCCCAAAGGT
1 CTTAGAGATTATGCCTAAA-GT
* *
8401768 CTTTAAAGATTATGCCTAGAGTT
1 C-TTAGAGATTATGCCTAAAG-T
*
8401791 CTTAGAGATGATGCCTAGAAGT
1 CTTAGAGATTATGCCTA-AAGT
**
8401813 CTTAGAGATTACACCTAAAG
1 CTTAGAGATTATGCCTAAAG
8401833 GTTTTACAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
21 6 0.08
22 47 0.65
23 19 0.26
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (21 bp):
CTTAGAGATTATGCCTAAAGT
Found at i:8401815 original size:45 final size:44
Alignment explanation
Indices: 8401716--8401823 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 44
8401706 CAAATCTAAT
* *
8401716 CTAGAAGACTTAAAGATTATGCCTGAAAGTCTTAGAGATTATGC
1 CTAGAAGTCTTAAAGATTATGCCTGAAAGTCTTAGAGATGATGC
* *
8401760 CCA-AAGGTCTTTAAAGATTATGCCT-AGAGTTCTTAGAGATGATGC
1 CTAGAA-GTC-TTAAAGATTATGCCTGAAAG-TCTTAGAGATGATGC
*
8401805 CTAGAAGTCTTAGAGATTA
1 CTAGAAGTCTTAAAGATTA
8401824 CACCTAAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.04
44 16 0.30
45 34 0.63
46 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (44 bp):
CTAGAAGTCTTAAAGATTATGCCTGAAAGTCTTAGAGATGATGC
Found at i:8402059 original size:126 final size:126
Alignment explanation
Indices: 8401884--8402167 Score: 331
Period size: 126 Copynumber: 2.3 Consensus size: 126
8401874 AAGTAGTAAG
* ** *
8401884 AATTTAAAATGTTTTACCTGGAAATCTTACAAATTATGCCTGGTGGTCTTAGGGATTATGCTCAA
1 AATTTAAAATGTTTTACCTGGAAATCTTACAAATTATACCTCATGGTCTTAGAGATTATGCTCAA
* * *
8401949 AGGTCTTACAAATTTCAAAATCTTTGAATGCTCCTCGTAACAAAGGCATT-AAAGCTTTAAA
66 AGGTCTTACAAATCTCAAAATCTATAAATGCTCCTCGTAACAAAGGCATTGAAA-CTTTAAA
** * *
8402010 AATTTAAAATGTTTTACCTGGAGGTCTTACAGATTATACC-CATAGGTCTTAGAGATTATGCTCG
1 AATTTAAAATGTTTTACCTGGAAATCTTACAAATTATACCTCAT-GGTCTTAGAGATTATGCTCA
* * * ** **
8402074 GAGGTTTTACAAATCTCAAAATCTATAAATGTTCCTCGTAGTAAAGGTGTTGAAACTTTAAA
65 AAGGTCTTACAAATCTCAAAATCTATAAATGCTCCTCGTAACAAAGGCATTGAAACTTTAAA
* * *
8402136 AATTTTAAATGTTTT-GCTCGAAAGTCTTACAA
1 AATTTAAAATGTTTTACCTGGAAA-TCTTACAA
8402168 GCTATACCCA
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
125 5 0.04
126 123 0.94
127 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (126 bp):
AATTTAAAATGTTTTACCTGGAAATCTTACAAATTATACCTCATGGTCTTAGAGATTATGCTCAA
AGGTCTTACAAATCTCAAAATCTATAAATGCTCCTCGTAACAAAGGCATTGAAACTTTAAA
Found at i:8402078 original size:22 final size:22
Alignment explanation
Indices: 8402024--8402084 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
8402014 TAAAATGTTT
*
8402024 TACCTGGAGGTCTTACAGATTA
1 TACCCGGAGGTCTTACAGATTA
** *
8402046 TACCCATAGGTCTTAGAGATTA
1 TACCCGGAGGTCTTACAGATTA
* * *
8402068 TGCTCGGAGGTTTTACA
1 TACCCGGAGGTCTTACA
8402085 AATCTCAAAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (22 bp):
TACCCGGAGGTCTTACAGATTA
Found at i:8404331 original size:18 final size:20
Alignment explanation
Indices: 8404296--8404337 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
8404286 AAGGCACATG
8404296 TTTTCCTTTGTTTGCTTTTT
1 TTTTCCTTTGTTTGCTTTTT
8404316 TTTTCCTTT-TTT-CTTTTT
1 TTTTCCTTTGTTTGCTTTTT
8404334 TTTT
1 TTTT
8404338 TTACTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
19 3 0.14
20 9 0.41
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTCCTTTGTTTGCTTTTT
Found at i:8404333 original size:19 final size:19
Alignment explanation
Indices: 8404296--8404352 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
8404286 AAGGCACATG
8404296 TTTTCCTTTGTTTGC-TTTTT
1 TTTTCCTTT-TTT-CTTTTTT
8404316 TTTTCCTTTTTTCTTTTTTT
1 TTTTCCTTTTTTC-TTTTTT
*
8404336 TTTTAC-TTTTTCTTTTT
1 TTTTCCTTTTTTCTTTTT
8404353 ATGGACACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 19 0.56
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.81
Consensus pattern (19 bp):
TTTTCCTTTTTTCTTTTTT
Found at i:8404338 original size:20 final size:19
Alignment explanation
Indices: 8404311--8404352 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
8404301 CTTTGTTTGC
*
8404311 TTTTTTTTTCCTTTTTTCTT
1 TTTTTTTTTAC-TTTTTCTT
8404331 TTTTTTTTTACTTTTTCTT
1 TTTTTTTTTACTTTTTCTT
8404350 TTT
1 TTT
8404353 ATGGACACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTACTTTTTCTT
Found at i:8404353 original size:13 final size:13
Alignment explanation
Indices: 8404315--8404353 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
8404305 GTTTGCTTTT
*
8404315 TTTTTCCTTTTTTC
1 TTTTT-CTTTTTAC
*
8404329 TTTTTTTTTTTAC
1 TTTTTCTTTTTAC
8404342 TTTTTCTTTTTA
1 TTTTTCTTTTTA
8404354 TGGACACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTAC
Found at i:8413424 original size:21 final size:20
Alignment explanation
Indices: 8413400--8413449 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
8413390 TTTTCACTTT
8413400 TTTAATTTTTAT-TTTTAGTAA
1 TTTAATTTTT-TGTTTT-GTAA
8413421 TTT-ATTTCTTTGTTTTGTAA
1 TTTAATTT-TTTGTTTTGTAA
*
8413441 TCTAATTTT
1 TTTAATTTT
8413450 AATTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTAATTTTTTGTTTTGTAA
Found at i:8416410 original size:19 final size:20
Alignment explanation
Indices: 8416372--8416410 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
8416362 ATTTGAACCT
8416372 ATTGCAAAGAGTAAAGAAAAC
1 ATTGCAAAGAGT-AAGAAAAC
8416393 ATTGCAAAGAGT-AGAAAA
1 ATTGCAAAGAGTAAGAAAA
8416411 AATATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (20 bp):
ATTGCAAAGAGTAAGAAAAC
Found at i:8424945 original size:21 final size:21
Alignment explanation
Indices: 8424900--8424945 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8424890 TGCTCAAATT
* *
8424900 TTTTGTCAAAATATCAAAAAT
1 TTTTGCCAAAATATCAAAAAA
* *
8424921 TTTTGCCAAAATTTTAAAAAA
1 TTTTGCCAAAATATCAAAAAA
8424942 TTTT
1 TTTT
8424946 CCTTGAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (21 bp):
TTTTGCCAAAATATCAAAAAA
Found at i:8425617 original size:19 final size:19
Alignment explanation
Indices: 8425581--8425631 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
8425571 ATTGTATTCC
*
8425581 AAAATAAAAGTTAAGAAAAT
1 AAAATAAAA-TAAAGAAAAT
8425601 AAAATAAAATAAAGAAAAT
1 AAAATAAAATAAAGAAAAT
8425620 -AAATAAAATAAA
1 AAAATAAAATAAA
8425632 TTGAAGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 12 0.40
19 9 0.30
20 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (19 bp):
AAAATAAAATAAAGAAAAT
Found at i:8425632 original size:9 final size:9
Alignment explanation
Indices: 8425582--8425632 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
8425572 TTGTATTCCA
8425582 AAATAAAAGT
1 AAATAAAA-T
* *
8425592 TAAGAAAAT
1 AAATAAAAT
8425601 AAAATAAAAT
1 -AAATAAAAT
*
8425611 AAAGAAAAT
1 AAATAAAAT
8425620 AAATAAAAT
1 AAATAAAAT
8425629 AAAT
1 AAAT
8425633 TGAAGTGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 21 0.62
10 13 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:8428567 original size:21 final size:19
Alignment explanation
Indices: 8428535--8428576 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
8428525 TAACAACTCT
8428535 ATTAATATAATATATAATAAA
1 ATTAATATAATA-ATAA-AAA
8428556 ATTAAGTA-AATAATAAAAA
1 ATTAA-TATAATAATAAAAA
8428575 AT
1 AT
8428577 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 9 0.45
22 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTAATATAATAATAAAAA
Found at i:8428796 original size:4 final size:4
Alignment explanation
Indices: 8428787--8428837 Score: 59
Period size: 4 Copynumber: 12.0 Consensus size: 4
8428777 ATAAAGTCTA
8428787 AAAT AAAT AAAT AAAT AAAT CAAA- AAAT AAAAT AAAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT -AAAT -AAAT AAAT
8428834 AAAT
1 AAAT
8428838 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.07
4 24 0.55
5 17 0.39
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:8437231 original size:6 final size:6
Alignment explanation
Indices: 8437220--8437253 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
8437210 ATAAAATATA
*
8437220 ATAATT ATAATT ATGATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
8437254 AAACTCTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:8441603 original size:51 final size:52
Alignment explanation
Indices: 8441484--8441631 Score: 147
Period size: 51 Copynumber: 2.9 Consensus size: 52
8441474 ACCTTAATTG
* * * ** **
8441484 AGAGATTTTTTAGATTTAATTTTAGAATCAATTGGCATTAAAGATGATGTGAA
1 AGAGATTTTTGAGATTTAATTTCACAATCAATTCACATTAAA-ATGATGAAAA
* * * *
8441537 A-AGATTGTTGGGATTTAATTCCACAATCGATTCACATTAAAATGAT-AAAA
1 AGAGATTTTTGAGATTTAATTTCACAATCAATTCACATTAAAATGATGAAAA
* * *
8441587 AGAGATTTTTGAGATTTGATTTCATAATCAATTCTCATTAAAATG
1 AGAGATTTTTGAGATTTAATTTCACAATCAATTCACATTAAAATG
8441632 GAAATCAAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
50 3 0.04
51 41 0.54
52 31 0.41
53 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.38
Consensus pattern (52 bp):
AGAGATTTTTGAGATTTAATTTCACAATCAATTCACATTAAAATGATGAAAA
Found at i:8442152 original size:20 final size:19
Alignment explanation
Indices: 8442124--8442172 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8442114 TTTCACTCTA
* *
8442124 TTTTCTATTTTGATTCTATT
1 TTTTTTATTTTGATT-TACT
*
8442144 TTTTTTATTTTTATTTACT
1 TTTTTTATTTTGATTTACT
*
8442163 TTTATTATTT
1 TTTTTTATTT
8442173 CTTATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTTGATTTACT
Found at i:8442160 original size:10 final size:10
Alignment explanation
Indices: 8442129--8442179 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
8442119 CTCTATTTTC
*
8442129 TATTTTGATT
1 TATTTTTATT
8442139 CTATTTTT-TT
1 -TATTTTTATT
8442149 TATTTTTATT
1 TATTTTTATT
*
8442159 TACTTTTA-T
1 TATTTTTATT
8442168 TATTTCTTATT
1 TATTT-TTATT
8442179 T
1 T
8442180 TAAATTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 12 0.35
10 14 0.41
11 8 0.24
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (10 bp):
TATTTTTATT
Found at i:8454058 original size:21 final size:21
Alignment explanation
Indices: 8454034--8454074 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8454024 TAATGATGTT
*
8454034 GTTAATCTTATTTTTATTGTC
1 GTTAATCTTATTGTTATTGTC
* *
8454055 GTTATTGTTATTGTTATTGT
1 GTTAATCTTATTGTTATTGT
8454075 TATAAGAGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (21 bp):
GTTAATCTTATTGTTATTGTC
Found at i:8458172 original size:21 final size:21
Alignment explanation
Indices: 8458115--8458162 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8458105 CAATAACAAT
*
8458115 GACATTTAAAAATTTACCAAC
1 GACATCTAAAAATTTACCAAC
8458136 GACATCTAAAAATTTACCAAC
1 GACATCTAAAAATTTACCAAC
8458157 GACATC
1 GACATC
8458163 AAATCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (21 bp):
GACATCTAAAAATTTACCAAC
Found at i:8458797 original size:30 final size:30
Alignment explanation
Indices: 8458762--8458824 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
8458752 GCAACCACAC
*
8458762 TTTTTTCATTCTTGTCCTCTTATGTTTCAT
1 TTTTTTCATTCCTGTCCTCTTATGTTTCAT
8458792 TTTTTTCATTCCTGTCCTCTTATGTTTCAT
1 TTTTTTCATTCCTGTCCTCTTATGTTTCAT
8458822 TTT
1 TTT
8458825 CTCTACATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.10, C:0.21, G:0.06, T:0.63
Consensus pattern (30 bp):
TTTTTTCATTCCTGTCCTCTTATGTTTCAT
Found at i:8460797 original size:20 final size:20
Alignment explanation
Indices: 8460761--8460798 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8460751 ATTTATTTAT
* *
8460761 TAATTAATAATATTAAAAAA
1 TAATTAATAAAAATAAAAAA
8460781 TAATTAATAAAAATAAAA
1 TAATTAATAAAAATAAAA
8460799 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATTAATAAAAATAAAAAA
Found at i:8460864 original size:2 final size:2
Alignment explanation
Indices: 8460857--8460884 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8460847 GTGGTTATCT
8460857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8460885 AAGCATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8462644 original size:2 final size:2
Alignment explanation
Indices: 8462639--8462680 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
8462629 CAACACAGAA
* * *
8462639 AT AT AT AT AT AT AT AT AT AT AT AT TT AT GT AT GT 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
8462681 CAGCTAGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8465628 original size:22 final size:22
Alignment explanation
Indices: 8465598--8465640 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8465588 ATCTGTATAT
8465598 ATTTGTATCCCTAAAATTAAGA
1 ATTTGTATCCCTAAAATTAAGA
* * *
8465620 ATTTTTATCTCTAGAATTAAG
1 ATTTGTATCCCTAAAATTAAG
8465641 GATAGAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (22 bp):
ATTTGTATCCCTAAAATTAAGA
Found at i:8468134 original size:2 final size:2
Alignment explanation
Indices: 8468127--8468158 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8468117 ATTAGATTTC
8468127 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8468159 TATATATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8470227 original size:2 final size:2
Alignment explanation
Indices: 8470220--8470249 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8470210 AGTTTCCTTG
8470220 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
8470250 CAGGGTTGAG
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:8473360 original size:77 final size:77
Alignment explanation
Indices: 8473212--8473361 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 77
8473202 TAATCATTGC
* * * * *
8473212 AGAACATTATCACTTCTATTCGAACAGGTTCTTTAGCATAAAAAGGTAATTTTTTAATTGCCTCA
1 AGAACATTACCACTTCTATTCGAACAGGTTCTTTAGCACAAAAAGGTAATTTTCTAAGTACCTCA
8473277 AATGTAAACTGT
66 AATGTAAACTGT
* * *
8473289 AGAACATTACCACTTCTATTTGAATAGGTAT-TTTAGCACAAAAAGGTAATTTTCTAAGTACCTT
1 AGAACATTACCACTTCTATTCGAACAGGT-TCTTTAGCACAAAAAGGTAATTTTCTAAGTACCTC
*
8473353 AAGTGTAAA
65 AAATGTAAA
8473362 ACTAGAGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 62 0.98
78 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (77 bp):
AGAACATTACCACTTCTATTCGAACAGGTTCTTTAGCACAAAAAGGTAATTTTCTAAGTACCTCA
AATGTAAACTGT
Found at i:8475018 original size:317 final size:317
Alignment explanation
Indices: 8474438--8475077 Score: 1235
Period size: 317 Copynumber: 2.0 Consensus size: 317
8474428 GTTCCTACCC
*
8474438 TCACCTTCGAATCATCTTGTCTATTCACATTAAAGTGTTTGGATGCACTGCATTTGTTTTTACCA
1 TCACGTTCGAATCATCTTGTCTATTCACATTAAAGTGTTTGGATGCACTGCATTTGTTTTTACCA
*
8474503 GCCAACAAAACCAGAGCAAATTAGATCCCAAATCCATCAAATGCATATTTCTTGGATACTTCCTG
66 GCCAACAAAACCAGAGCAAATTAGATCCCAAATCCATCAAATGCATATTTCTTGGATACTTCCCG
8474568 AATAAAAAAGGATACAAGTGTTACTCATCAATAACAAAGAAATTCTACCATTCCATGAATGCTAC
131 AATAAAAAAGGATACAAGTGTTACTCATCAATAACAAAGAAATTCTACCATTCCATGAATGCTAC
8474633 CTTTTTTGAAAATCAACCTTACTTTCCCAAAACTGCCATTTAGAGAAGAATCCAATCACATGGGA
196 CTTTTTTGAAAATCAACCTTACTTTCCCAAAACTGCCATTTAGAGAAGAATCCAATCACATGGGA
8474698 ATATCAACTTTGGGAAGATCCTATTACTGAACCACCAAACACTTCTCAAACTCCTTT
261 ATATCAACTTTGGGAAGATCCTATTACTGAACCACCAAACACTTCTCAAACTCCTTT
8474755 TCACGTTCGAATCATCTTGTCTATTCACATTAAAGTGTTTGGATGCACTGCATTTGTTTTTACCA
1 TCACGTTCGAATCATCTTGTCTATTCACATTAAAGTGTTTGGATGCACTGCATTTGTTTTTACCA
*
8474820 GCCAACAAAACCAGAGCAAATTAGATCCCAAATCCATCAAATGCATATTTCTTGTATACTTCCCG
66 GCCAACAAAACCAGAGCAAATTAGATCCCAAATCCATCAAATGCATATTTCTTGGATACTTCCCG
8474885 AATAAAAAAGGATACAAGTGTTACTCATCAATAACAAAGAAATTCTACCATTCCATGAATGCTAC
131 AATAAAAAAGGATACAAGTGTTACTCATCAATAACAAAGAAATTCTACCATTCCATGAATGCTAC
*
8474950 CTTTTTTGAAAATCAACCTTACTTTCCCAAAACTGCCTTTTAGAGAAGAATCCAATCACATGGGA
196 CTTTTTTGAAAATCAACCTTACTTTCCCAAAACTGCCATTTAGAGAAGAATCCAATCACATGGGA
*
8475015 ATATCAACTTTGGGAAGATCCTATTACTGAACCACCAAACACTTCTTAAACTCCTTT
261 ATATCAACTTTGGGAAGATCCTATTACTGAACCACCAAACACTTCTCAAACTCCTTT
8475072 TCACGT
1 TCACGT
8475078 CCAAAACATC
Statistics
Matches: 318, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
317 318 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (317 bp):
TCACGTTCGAATCATCTTGTCTATTCACATTAAAGTGTTTGGATGCACTGCATTTGTTTTTACCA
GCCAACAAAACCAGAGCAAATTAGATCCCAAATCCATCAAATGCATATTTCTTGGATACTTCCCG
AATAAAAAAGGATACAAGTGTTACTCATCAATAACAAAGAAATTCTACCATTCCATGAATGCTAC
CTTTTTTGAAAATCAACCTTACTTTCCCAAAACTGCCATTTAGAGAAGAATCCAATCACATGGGA
ATATCAACTTTGGGAAGATCCTATTACTGAACCACCAAACACTTCTCAAACTCCTTT
Found at i:8489088 original size:22 final size:23
Alignment explanation
Indices: 8489061--8489104 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8489051 CCCTAGGCCT
* *
8489061 TTTCTC-TTTTTTTTTTTTTTTC
1 TTTCTCATTTTCTTTATTTTTTC
8489083 TTTCTCATTTTCTTTATTTTTT
1 TTTCTCATTTTCTTTATTTTTT
8489105 ACTGACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTCTCATTTTCTTTATTTTTTC
Found at i:8489187 original size:20 final size:18
Alignment explanation
Indices: 8489153--8489189 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
8489143 TTTACCTTCT
8489153 TTTTTCCTTTTTTTCTTA
1 TTTTTCCTTTTTTTCTTA
8489171 TTTTTCCTATTTCTTTCTT
1 TTTTTCCT-TTT-TTTCTT
8489190 CTCTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCCTTTTTTTCTTA
Found at i:8490431 original size:21 final size:21
Alignment explanation
Indices: 8490389--8490432 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8490379 ATCTGCTGTC
*
8490389 TTTTTACTCATTTTTTATTTT
1 TTTTTACTCATTTTTTAATTT
*
8490410 TTTTTAC-CTTTTTTGTAATTT
1 TTTTTACTCATTTTT-TAATTT
8490431 TT
1 TT
8490433 AATTAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTACTCATTTTTTAATTT
Found at i:8490754 original size:18 final size:19
Alignment explanation
Indices: 8490731--8490775 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
8490721 CAAATCATTT
8490731 GAATAAAGCACAAA-AATC-
1 GAATAAAGC-CAAACAATCG
8490749 GAATAAAGCCAAATCAATCG
1 GAATAAAGCCAAA-CAATCG
8490769 GAATAAA
1 GAATAAA
8490776 ATTAGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 4 0.17
20 7 0.29
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (19 bp):
GAATAAAGCCAAACAATCG
Found at i:8491444 original size:42 final size:43
Alignment explanation
Indices: 8491385--8491561 Score: 134
Period size: 43 Copynumber: 4.2 Consensus size: 43
8491375 ATTTAGAGCT
* * *
8491385 TTTAAAAATTT-AAAAAGCTC-CTCTAAATAGAGG-TCGACAAC
1 TTTAAAATTTTGAAAAAGCTCATTC-AAATAGAGGCTCAACAAC
*
8491426 TTTAAAATTTTGAAAAAGCTCATTCAAATAGAGGCTCAATAAC
1 TTTAAAATTTTGAAAAAGCTCATTCAAATAGAGGCTCAACAAC
* * * * ** *
8491469 TTTAAAAATTT-AGAAAAGTTCGTTTAAATA-AGGCTGGACAAT
1 TTTAAAATTTTGA-AAAAGCTCATTCAAATAGAGGCTCAACAAC
* * *
8491511 TTTAGAAA-CTTGAAAAAGTTTC-TTAAAATAGAGGCTCAACAAC
1 TTTA-AAATTTTGAAAAAG-CTCATTCAAATAGAGGCTCAACAAC
8491554 TTTGAAAA
1 TTT-AAAA
8491562 CTTAATCTAG
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
41 10 0.09
42 45 0.41
43 54 0.49
44 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (43 bp):
TTTAAAATTTTGAAAAAGCTCATTCAAATAGAGGCTCAACAAC
Found at i:8491486 original size:43 final size:42
Alignment explanation
Indices: 8491385--8491561 Score: 139
Period size: 42 Copynumber: 4.2 Consensus size: 42
8491375 ATTTAGAGCT
* *
8491385 TTTAAAAATTTA-AAAAGCTCCTCTAAATAGAGG-TCGACAAC
1 TTTAAAAATTTAGAAAAGCTCTTC-AAATAGAGGCTCAACAAC
* *
8491426 TTT-AAAATTTTGAAAAAGCTCATTCAAATAGAGGCTCAATAAC
1 TTTAAAAATTTAG-AAAAGCTC-TTCAAATAGAGGCTCAACAAC
* * ** *
8491469 TTTAAAAATTTAGAAAAGTTCGTTTAAATA-AGGCTGGACAAT
1 TTTAAAAATTTAGAAAAGCTC-TTCAAATAGAGGCTCAACAAC
* * * *
8491511 TTTAGAAACTT-GAAAAAGTTTCTTAAAATAGAGGCTCAACAAC
1 TTTAAAAATTTAG-AAAAG-CTCTTCAAATAGAGGCTCAACAAC
*
8491554 TTTGAAAA
1 TTTAAAAA
8491562 CTTAATCTAG
Statistics
Matches: 108, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
40 7 0.06
41 4 0.04
42 46 0.43
43 43 0.40
44 8 0.07
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (42 bp):
TTTAAAAATTTAGAAAAGCTCTTCAAATAGAGGCTCAACAAC
Found at i:8491527 original size:85 final size:84
Alignment explanation
Indices: 8491385--8491566 Score: 208
Period size: 85 Copynumber: 2.2 Consensus size: 84
8491375 ATTTAGAGCT
*
8491385 TTTAAAAATTTAAAAAGCTCCTCTAAATAGAGGTCGACAACTTTAAAATTTTGAAAAAG-CTCAT
1 TTTAAAAATTTAAAAAGCTCCTCTAAATAGAGGTCGACAACTTTAAAATCTTGAAAAAGTCTC-T
* *
8491449 TCAAATAGAGGCTCAATAAC
65 TAAAATAGAGGCTCAACAAC
* * * * * *
8491469 TTTAAAAATTTAGAAAAGTTCGTTTAAATA-AGGCTGGACAATTTTAGAAA-CTTGAAAAAGTTT
1 TTTAAAAATTTA-AAAAGCTCCTCTAAATAGAGG-TCGACAACTTTA-AAATCTTGAAAAAGTCT
8491532 CTTAAAATAGAGGCTCAACAAC
63 CTTAAAATAGAGGCTCAACAAC
* *
8491554 TTTGAAAACTTAA
1 TTTAAAAATTTAA
8491567 TCTAGAAACA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
84 16 0.19
85 62 0.75
86 5 0.06
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (84 bp):
TTTAAAAATTTAAAAAGCTCCTCTAAATAGAGGTCGACAACTTTAAAATCTTGAAAAAGTCTCTT
AAAATAGAGGCTCAACAAC
Found at i:8491564 original size:43 final size:42
Alignment explanation
Indices: 8491409--8491564 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
8491399 AAGCTCCTCT
* * * *
8491409 AAATAGAGG-TCGACAACTTTAAAATTTTGAAAAAGCTCATTC
1 AAATAGAGGCTCAACAACTTTAAAA-CTTGAAAAAGTTCATTA
* * * * *
8491451 AAATAGAGGCTCAATAACTTTAAAAATTTAGAAAAGTTCGTTT
1 AAATAGAGGCTCAACAACTTTAAAACTTGA-AAAAGTTCATTA
** *
8491494 AAATA-AGGCTGGACAATTTTAGAAACTTGAAAAAGTTTC-TTA
1 AAATAGAGGCTCAACAACTTTA-AAACTTGAAAAAG-TTCATTA
8491536 AAATAGAGGCTCAACAACTTTGAAAACTT
1 AAATAGAGGCTCAACAACTTT-AAAACTT
8491565 AATCTAGAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 36 0.40
43 54 0.59
44 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (42 bp):
AAATAGAGGCTCAACAACTTTAAAACTTGAAAAAGTTCATTA
Found at i:8491637 original size:21 final size:21
Alignment explanation
Indices: 8491611--8491657 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
8491601 TTAAAAGAGC
* *
8491611 TTTTTTT-CCTTCCTTAAAAG
1 TTTTTTTCCCTTCCTGAAAAA
8491631 TTTTTTTCCCTTCCTGAAAAA
1 TTTTTTTCCCTTCCTGAAAAA
8491652 TTTTTT
1 TTTTTT
8491658 CTTTTTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTTTCCCTTCCTGAAAAA
Found at i:8492132 original size:39 final size:33
Alignment explanation
Indices: 8492082--8492159 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 33
8492072 CATTCACCCA
8492082 TTTC-TTCATCATTCATCACTTTTATTTTCCATTCATT
1 TTTCATTCATCATTCATCA-TTTT-TTTT---TTCATT
*
8492119 TTTCATTCTATCATTCATTATTTTTTTTTTCATT
1 TTTCATTC-ATCATTCATCATTTTTTTTTTCATT
8492153 TTTCATT
1 TTTCATT
8492160 TTATTCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
34 13 0.34
37 8 0.21
38 7 0.18
39 10 0.26
ACGTcount: A:0.18, C:0.19, G:0.00, T:0.63
Consensus pattern (33 bp):
TTTCATTCATCATTCATCATTTTTTTTTTCATT
Found at i:8492207 original size:17 final size:15
Alignment explanation
Indices: 8492187--8492221 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
8492177 CAATCTCATT
8492187 TTTCATTCAATTTTTCA
1 TTTCATTC-A-TTTTCA
8492204 TTTCATTCATTTTCA
1 TTTCATTCATTTTCA
8492219 TTT
1 TTT
8492222 TTTCGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATTCATTTTCA
Found at i:8492324 original size:31 final size:33
Alignment explanation
Indices: 8492266--8492327 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
8492256 CCACTAATTG
*
8492266 TTTTATTTCATTTTTTTCATCATTCATTCATAT
1 TTTTATTTCATTTCTTTCATCATTCATTCATAT
8492299 TTTTATTT-A-TTCTTTCACTCA-TCATTCAT
1 TTTTATTTCATTTCTTTCA-TCATTCATTCAT
8492328 CATTATCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 15 0.56
32 4 0.15
33 8 0.30
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (33 bp):
TTTTATTTCATTTCTTTCATCATTCATTCATAT
Found at i:8492412 original size:20 final size:19
Alignment explanation
Indices: 8492372--8492412 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8492362 CATTTTTTGA
* *
8492372 TTTCATTCATTTTTCAGTT
1 TTTCATTCATTGTTCACTT
8492391 TTTCATTCACTTGTTCACTT
1 TTTCATTCA-TTGTTCACTT
8492411 TT
1 TT
8492413 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTCATTCATTGTTCACTT
Found at i:8492566 original size:32 final size:33
Alignment explanation
Indices: 8492515--8492605 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
8492505 ATTCTAGCTT
* * *
8492515 GGTGCCAACTAACCAGGGTTTAAATCTCATCT-
1 GGTGCCACCTAAACTGGGTTTAAATCTCATCTA
* *
8492547 GGTGCCACCTAAATTGGGTTTAAATCTCATTTA
1 GGTGCCACCTAAACTGGGTTTAAATCTCATCTA
**
8492580 GGTGCCAGTTAAACT-GGTTTAAATCT
1 GGTGCCACCTAAACTGGGTTTAAATCT
8492606 TATCGTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
32 38 0.76
33 12 0.24
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (33 bp):
GGTGCCACCTAAACTGGGTTTAAATCTCATCTA
Found at i:8492964 original size:14 final size:13
Alignment explanation
Indices: 8492947--8492981 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
8492937 TTTAAAGACC
8492947 TTTATTTTTCTTCT
1 TTTATTTTTCTT-T
8492961 TTTATTTTTCTTT
1 TTTATTTTTCTTT
8492974 TTT-TTTTT
1 TTTATTTTT
8492982 ACTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 4 0.19
14 12 0.57
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTCTTT
Found at i:8496417 original size:142 final size:141
Alignment explanation
Indices: 8496161--8496443 Score: 521
Period size: 142 Copynumber: 2.0 Consensus size: 141
8496151 ATGTAAAATG
8496161 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
* *
8496226 AGAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTGTTATACTTTTTTATTTATTAATC
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATAC-TTTTTATTTATTAATC
8496291 TTATTATTAATA
130 TTATTATTAATA
*
8496303 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCTAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
8496368 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCTCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
8496433 TATTATTAATA
131 TATTATTAATA
8496444 TGAATTATGA
Statistics
Matches: 137, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 28 0.20
142 109 0.80
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (141 bp):
AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
TATTATTAATA
Found at i:8496593 original size:16 final size:15
Alignment explanation
Indices: 8496572--8496629 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
8496562 TTTTTCGGAC
8496572 TTTGGACTTTAAGGAT
1 TTTGGA-TTTAAGGAT
* *
8496588 TTTGGATTTCGAGCGGT
1 TTTGGATTT-AAG-GAT
8496605 TTTGGATTTAATGGAT
1 TTTGGATTTAA-GGAT
8496621 TTTGGATTT
1 TTTGGATTT
8496630 TTAAGGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 3 0.09
16 20 0.57
17 12 0.34
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.48
Consensus pattern (15 bp):
TTTGGATTTAAGGAT
Found at i:8497132 original size:12 final size:12
Alignment explanation
Indices: 8497115--8497162 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
8497105 TCTGACCGGT
8497115 TCGGCGGTTGGA
1 TCGGCGGTTGGA
*
8497127 TCGGCGGTTCGA
1 TCGGCGGTTGGA
*
8497139 TTCGGTCTGGTTGGT
1 -TCGG-C-GGTTGGA
8497154 TCGGCGGTT
1 TCGGCGGTT
8497163 CAGTATCGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 15 0.50
13 5 0.17
14 5 0.17
15 5 0.17
ACGTcount: A:0.04, C:0.19, G:0.44, T:0.33
Consensus pattern (12 bp):
TCGGCGGTTGGA
Found at i:8498132 original size:5 final size:5
Alignment explanation
Indices: 8498124--8498177 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
8498114 GTTTGTTTAC
* *
8498124 TTGTT TTGTTT TTTTT TCTGTT TTGTT TT-TT TT-CT TT-TT TTGTT TTGTT
1 TTGTT TTG-TT TTGTT T-TGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT
8498173 TTGTT
1 TTGTT
8498178 AAATATTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 10 0.24
5 24 0.57
6 8 0.19
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (5 bp):
TTGTT
Found at i:8498132 original size:17 final size:17
Alignment explanation
Indices: 8498110--8498174 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
8498100 TTTCTTTTTT
*
8498110 TTTTGTTTGTTTACTTG
1 TTTTGTTTGTTTTCTTG
*
8498127 TTTTGTTT-TTTTTTCTG
1 TTTTGTTTGTTTTCT-TG
* *
8498144 TTTTGTTTTTTTTCTTT
1 TTTTGTTTGTTTTCTTG
8498161 TTTTGTTTTGTTTT
1 TTTTG-TTTGTTTT
8498175 GTTAAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.10
17 24 0.60
18 12 0.30
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.82
Consensus pattern (17 bp):
TTTTGTTTGTTTTCTTG
Found at i:8498135 original size:22 final size:20
Alignment explanation
Indices: 8498100--8498174 Score: 67
Period size: 17 Copynumber: 4.0 Consensus size: 20
8498090 CCTTGACTTC
8498100 TTTCTT-TTTT-TTTTGTTT
1 TTTCTTGTTTTGTTTTGTTT
8498118 GTTTACTTGTTTTG-TTT-TTT
1 -TTT-CTTGTTTTGTTTTGTTT
8498138 TTTC-TGTTTTG--TT-TTT
1 TTTCTTGTTTTGTTTTGTTT
*
8498154 TTTCTTTTTTTGTTTTGTTT
1 TTTCTTGTTTTGTTTTGTTT
8498174 T
1 T
8498175 GTTAAATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
16 9 0.19
17 13 0.27
18 1 0.02
19 8 0.17
20 10 0.21
21 7 0.15
ACGTcount: A:0.01, C:0.05, G:0.11, T:0.83
Consensus pattern (20 bp):
TTTCTTGTTTTGTTTTGTTT
Found at i:8498165 original size:34 final size:34
Alignment explanation
Indices: 8498110--8498174 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
8498100 TTTCTTTTTT
*
8498110 TTTTGTTTGTTTACTTGTTTTGTTTTTTTTTCTG
1 TTTTGTTTGTTTACTTGTTTTGTTTTGTTTTCTG
* * *
8498144 TTTTGTTTTTTTTCTTTTTTTGTTTTGTTTT
1 TTTTGTTTGTTTACTTGTTTTGTTTTGTTTT
8498175 GTTAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.82
Consensus pattern (34 bp):
TTTTGTTTGTTTACTTGTTTTGTTTTGTTTTCTG
Found at i:8499439 original size:20 final size:20
Alignment explanation
Indices: 8499414--8499452 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8499404 CAATATATCC
*
8499414 ATCAATATCAAAGCATCATT
1 ATCAATATCAAAACATCATT
8499434 ATCAATATCAAAACATCAT
1 ATCAATATCAAAACATCAT
8499453 CAGATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAATATCAAAACATCATT
Found at i:8499469 original size:18 final size:18
Alignment explanation
Indices: 8499446--8499483 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8499436 CAATATCAAA
*
8499446 ACATCATCAGATTTTCAT
1 ACATCATCAAATTTTCAT
*
8499464 ACATCATTAAATTTTCAT
1 ACATCATCAAATTTTCAT
8499482 AC
1 AC
8499484 CAATGTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (18 bp):
ACATCATCAAATTTTCAT
Found at i:8499620 original size:15 final size:15
Alignment explanation
Indices: 8499600--8499628 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8499590 ACACACCAAT
8499600 GTCACAAGCCACAAA
1 GTCACAAGCCACAAA
8499615 GTCACAAGCCACAA
1 GTCACAAGCCACAA
8499629 GAGAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.14, T:0.07
Consensus pattern (15 bp):
GTCACAAGCCACAAA
Found at i:8508193 original size:17 final size:17
Alignment explanation
Indices: 8508159--8508205 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
8508149 AAGCTTTAGG
* *
8508159 CTTTTTTTTTTTCCTTC
1 CTTTTTTTTTCTCATTC
8508176 CTTTTTTTTTCTCATTC
1 CTTTTTTTTTCTCATTC
*
8508193 CTCTTATTTTTCT
1 CT-TTTTTTTTCT
8508206 TCTTTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (17 bp):
CTTTTTTTTTCTCATTC
Found at i:8511593 original size:18 final size:19
Alignment explanation
Indices: 8511562--8511601 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8511552 ATTTTTATTT
* *
8511562 TATAAAAATTTAAAATATA
1 TATAAAAATCTAAAAAATA
8511581 TATAAAAA-CTAAAAAATA
1 TATAAAAATCTAAAAAATA
8511599 TAT
1 TAT
8511602 GTAATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Found at i:8511977 original size:27 final size:25
Alignment explanation
Indices: 8511914--8511977 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 25
8511904 ATATCACCTT
8511914 ATTAATACTTA-AAATTTTTTAAAA
1 ATTAATACTTATAAATTTTTTAAAA
** * *
8511938 ATTTAATTTTTATATATTTATTTTAAAG
1 A-TTAATACTTATA-AATT-TTTTAAAA
8511966 ATTAATACTTAT
1 ATTAATACTTAT
8511978 TCATTAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
24 1 0.03
25 8 0.27
26 1 0.03
27 12 0.40
28 8 0.27
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTAATACTTATAAATTTTTTAAAA
Found at i:8516297 original size:2 final size:2
Alignment explanation
Indices: 8516290--8516320 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8516280 TAAGAGTGGG
8516290 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8516321 CATACTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8517905 original size:139 final size:139
Alignment explanation
Indices: 8517655--8517934 Score: 560
Period size: 139 Copynumber: 2.0 Consensus size: 139
8517645 GGACAATACA
8517655 CATGCAAGGGATGCATGAAATAGAATATATTTCAACACCTGTGAGAAATTAATCAATTAGCATAA
1 CATGCAAGGGATGCATGAAATAGAATATATTTCAACACCTGTGAGAAATTAATCAATTAGCATAA
8517720 ATTTCAACTTCACTGTTTTGTAGCTTGAAAAAATCAATCCCTAAAACAAAACAAAATTCAAGCTA
66 ATTTCAACTTCACTGTTTTGTAGCTTGAAAAAATCAATCCCTAAAACAAAACAAAATTCAAGCTA
8517785 CAAGTGTTG
131 CAAGTGTTG
8517794 CATGCAAGGGATGCATGAAATAGAATATATTTCAACACCTGTGAGAAATTAATCAATTAGCATAA
1 CATGCAAGGGATGCATGAAATAGAATATATTTCAACACCTGTGAGAAATTAATCAATTAGCATAA
8517859 ATTTCAACTTCACTGTTTTGTAGCTTGAAAAAATCAATCCCTAAAACAAAACAAAATTCAAGCTA
66 ATTTCAACTTCACTGTTTTGTAGCTTGAAAAAATCAATCCCTAAAACAAAACAAAATTCAAGCTA
8517924 CAAGTGTTG
131 CAAGTGTTG
8517933 CA
1 CA
8517935 ATCAAATCAG
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 141 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (139 bp):
CATGCAAGGGATGCATGAAATAGAATATATTTCAACACCTGTGAGAAATTAATCAATTAGCATAA
ATTTCAACTTCACTGTTTTGTAGCTTGAAAAAATCAATCCCTAAAACAAAACAAAATTCAAGCTA
CAAGTGTTG
Found at i:8523262 original size:71 final size:71
Alignment explanation
Indices: 8523179--8523314 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
8523169 ACAACTGATT
* *
8523179 TATATTCTTTGAATTTATCAAAAGCTTCATCTTTTTTTCTCATTAGATATACAAAAGTATAACGA
1 TATATTCTTTGAATTTATCAAAAGCTTCATCTTTTTTTCTCATTAAATACACAAAAGTATAACGA
8523244 TAATGA
66 TAATGA
* *
8523250 TATATTCTTTGAATTTATTAAAAGCTTCATCTTTTTTTCTCATTAAATACATAAAAGTATAACGA
1 TATATTCTTTGAATTTATCAAAAGCTTCATCTTTTTTTCTCATTAAATACACAAAAGTATAACGA
8523315 GAACTATCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.43
Consensus pattern (71 bp):
TATATTCTTTGAATTTATCAAAAGCTTCATCTTTTTTTCTCATTAAATACACAAAAGTATAACGA
TAATGA
Found at i:8525743 original size:25 final size:24
Alignment explanation
Indices: 8525715--8525772 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
8525705 CTCTCTATTC
* *
8525715 TCTCTTCTTCCTCTGGTCTTTCTG
1 TCTCTTCTTCATCTGGTCTTTCTA
8525739 T-TC-TCTTCATCTGGTCTTTCTA
1 TCTCTTCTTCATCTGGTCTTTCTA
*
8525761 TTCTTTTCTTCA
1 -TCTCTTCTTCA
8525773 AGTTCGTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.61
23 3 0.11
24 2 0.07
25 6 0.21
ACGTcount: A:0.05, C:0.29, G:0.09, T:0.57
Consensus pattern (24 bp):
TCTCTTCTTCATCTGGTCTTTCTA
Found at i:8527383 original size:27 final size:27
Alignment explanation
Indices: 8527352--8527407 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
8527342 AATGCAACTG
*
8527352 TAGAAACATCTTCCATCATAGCAAAAT
1 TAGAAACATCTTCCATCATAGAAAAAT
*
8527379 TAGAAACATCTTCCGTCATAGAAAAAT
1 TAGAAACATCTTCCATCATAGAAAAAT
8527406 TA
1 TA
8527408 TTACCAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.27
Consensus pattern (27 bp):
TAGAAACATCTTCCATCATAGAAAAAT
Found at i:8530509 original size:17 final size:18
Alignment explanation
Indices: 8530489--8530529 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
8530479 TTTAAATTGT
* *
8530489 ATAAATTTTTATGAAT-A
1 ATAAATTTTGATAAATAA
8530506 AT-AATTTTGATAAATAA
1 ATAAATTTTGATAAATAA
8530523 ATAAATT
1 ATAAATT
8530530 ATCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
ATAAATTTTGATAAATAA
Found at i:8531280 original size:17 final size:18
Alignment explanation
Indices: 8531258--8531291 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8531248 TTAGTAAAAT
8531258 TAAGAAA-AACAAAATAG
1 TAAGAAAGAACAAAATAG
*
8531275 TAAGAAAGAAGAAAATA
1 TAAGAAAGAACAAAATA
8531292 TGGCTTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (18 bp):
TAAGAAAGAACAAAATAG
Found at i:8539758 original size:16 final size:17
Alignment explanation
Indices: 8539737--8539769 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8539727 ATCCCTATCT
8539737 CTTTAT-TTTGATTATA
1 CTTTATATTTGATTATA
*
8539753 CTTTATATTTGCTTATA
1 CTTTATATTTGATTATA
8539770 GTTCATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTATATTTGATTATA
Found at i:8546221 original size:2 final size:2
Alignment explanation
Indices: 8546214--8546242 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8546204 GTTGGGATAC
8546214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8546243 AGGAGGACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8546377 original size:8 final size:8
Alignment explanation
Indices: 8546364--8546396 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8546354 AACTCAAACC
8546364 AAACAAAA
1 AAACAAAA
8546372 AAACAAAA
1 AAACAAAA
8546380 AAACAAAA
1 AAACAAAA
8546388 AAA-AAAA
1 AAACAAAA
8546395 AA
1 AA
8546397 CCAGTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAACAAAA
Found at i:8552607 original size:28 final size:31
Alignment explanation
Indices: 8552572--8552644 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
8552562 AACTTAATTA
*
8552572 TATATAAATATGATTTT-TTATTA-AATAAG
1 TATATAAATATGATTTTATTAATATAATAAG
* *
8552601 TAT-TAAATAATAATTTTATTAATATAATATG
1 TATATAAAT-ATGATTTTATTAATATAATAAG
8552632 TATATAAATATGA
1 TATATAAATATGA
8552645 ATTAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.14
29 10 0.28
30 5 0.14
31 11 0.31
32 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (31 bp):
TATATAAATATGATTTTATTAATATAATAAG
Found at i:8553158 original size:21 final size:22
Alignment explanation
Indices: 8553125--8553177 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8553115 AAAATTTATT
*
8553125 AATAAATAAATAAGTTTTAA-AA
1 AATAAATAAATAA-ATTTAATAA
*
8553147 AATAAA-ATATAAATTTAATAA
1 AATAAATAAATAAATTTAATAA
8553168 AATAAATAAA
1 AATAAATAAA
8553178 AAAAAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAATAAATAAATTTAATAA
Found at i:8554243 original size:20 final size:20
Alignment explanation
Indices: 8554218--8554255 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8554208 AACTTTATAT
**
8554218 ATTTTAATTTTTATATATTG
1 ATTTTAATAGTTATATATTG
8554238 ATTTTAATAGTTATATAT
1 ATTTTAATAGTTATATAT
8554256 ATTTAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTTAATAGTTATATATTG
Found at i:8561627 original size:30 final size:30
Alignment explanation
Indices: 8561562--8561629 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
8561552 TTTATTGTAA
* *
8561562 TTAAATAATTTTTTAATTTTTAATTTACAT
1 TTAAATAATTCTTTAATTTTTAATATACAT
* **
8561592 CTAAATAATTCTTTAATTTTTAATATATTT
1 TTAAATAATTCTTTAATTTTTAATATACAT
8561622 TTAAATAA
1 TTAAATAA
8561630 GCTCTTAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAAATAATTCTTTAATTTTTAATATACAT
Found at i:8562274 original size:19 final size:19
Alignment explanation
Indices: 8562186--8562284 Score: 119
Period size: 19 Copynumber: 5.3 Consensus size: 19
8562176 CTAAAAACTA
* *
8562186 AAACCCTAAACCCAAAATA
1 AAACCCTAAACCCTAAATC
* *
8562205 AAACCATAAACCC-AAACC
1 AAACCCTAAACCCTAAATC
*
8562223 TAACCCTAAACCCTAAATC
1 AAACCCTAAACCCTAAATC
*
8562242 AAAACCTAAACCCTAAATC
1 AAACCCTAAACCCTAAATC
* *
8562261 AAACCCTGAACCCTAAACC
1 AAACCCTAAACCCTAAATC
8562280 AAACC
1 AAACC
8562285 TTAGACCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
18 14 0.21
19 54 0.79
ACGTcount: A:0.51, C:0.36, G:0.01, T:0.12
Consensus pattern (19 bp):
AAACCCTAAACCCTAAATC
Found at i:8562297 original size:38 final size:38
Alignment explanation
Indices: 8562186--8562297 Score: 113
Period size: 38 Copynumber: 3.0 Consensus size: 38
8562176 CTAAAAACTA
* * *
8562186 AAACCCTAAACCCAAAAT-AAAACCATAAACC-CAAACC
1 AAACCCTAAACCCTAAATCAAAACC-TAAACCATAAATC
* *
8562223 TAACCCTAAACCCTAAATCAAAACCTAAACCCTAAATC
1 AAACCCTAAACCCTAAATCAAAACCTAAACCATAAATC
* * *
8562261 AAACCCTGAACCCTAAA-CCAAACCTTAGACCATAAAT
1 AAACCCTAAACCCTAAATCAAAACC-TAAACCATAAAT
8562298 TCCTAAACTC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
37 28 0.44
38 35 0.56
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (38 bp):
AAACCCTAAACCCTAAATCAAAACCTAAACCATAAATC
Found at i:8562369 original size:66 final size:67
Alignment explanation
Indices: 8562227--8562441 Score: 176
Period size: 66 Copynumber: 3.2 Consensus size: 67
8562217 CAAACCTAAC
* * *
8562227 CCTAAACCCTAAATCAAAACC-TAAACCCTAAAT-C-AAACCCTGAACCCTAAACCAAACCTTAG
1 CCTAAACCCTAAA-CAAAACCTTAAATCCTAAATACTAAA-CC-AAACCCT--A--AAACC-TAA
*
8562289 ACCATAAATT
58 ACCCTAAATT
* * * * *
8562299 CCTAAACTCTAAACCAAACCTTAACT-TTAAATACTAAAACCAAACCCTAAACCCTAAACCCTAA
1 CCTAAACCCTAAACAAAACCTTAAATCCTAAATACT-AAACCAAACCCTAAAACCTAAACCCTAA
8562363 A-T
65 ATT
* ** *
8562365 CCTAAACCCTAAACAAAACCTTAAATCCTAAATCCTAAACCAAGTCCTAAAACCTAAA-CCTAAC
1 CCTAAACCCTAAACAAAACCTTAAATCCTAAATACTAAACCAAACCCTAAAACCTAAACCCTAAA
8562429 TT
66 TT
8562431 --TAAACCCTAAA
1 CCTAAACCCTAAA
8562442 TGAAACTCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
64 11 0.09
65 5 0.04
66 44 0.37
67 16 0.13
68 4 0.03
70 1 0.01
71 11 0.09
72 22 0.18
73 2 0.02
74 3 0.03
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (67 bp):
CCTAAACCCTAAACAAAACCTTAAATCCTAAATACTAAACCAAACCCTAAAACCTAAACCCTAAA
TT
Found at i:8562390 original size:26 final size:26
Alignment explanation
Indices: 8562332--8562424 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
8562322 ACTTTAAATA
* *
8562332 CTAAAACC-AAACCCTAAACCCTAAACC
1 CTAAATCCTAAACCCTAAA--CAAAACC
8562359 CTAAATCCTAAACCCTAAACAAAACC
1 CTAAATCCTAAACCCTAAACAAAACC
* * * **
8562385 TTAAATCCTAAATCCTAAACCAAGTC
1 CTAAATCCTAAACCCTAAACAAAACC
*
8562411 CTAAAACCTAAACC
1 CTAAATCCTAAACC
8562425 TAACTTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 38 0.69
27 7 0.13
28 10 0.18
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (26 bp):
CTAAATCCTAAACCCTAAACAAAACC
Found at i:8562503 original size:7 final size:6
Alignment explanation
Indices: 8562205--8562499 Score: 101
Period size: 7 Copynumber: 46.0 Consensus size: 6
8562195 ACCCAAAATA
* * * *
8562205 AAACCAT AAACCC AAACCT AACCCT AAACCCT AAATCA AAACCT AAACCCT
1 AAACC-T AAACCT AAACCT AAACCT AAA-CCT AAACCT AAACCT AAA-CCT
* * *
8562256 AAATC- AAACCCT GAACCCT AAACC- AAACCTT AGACCAT AAATTCCT
1 AAACCT AAA-CCT -AAACCT AAACCT AAACC-T AAACC-T AAA--CCT
* * *
8562302 AAACTCT AAACC- AAACCT TAACTTT AAATACT AAAACC- AAACCCT AAACCCT
1 AAAC-CT AAACCT AAACCT AAAC-CT AAA-CCT -AAACCT AAA-CCT AAA-CCT
*
8562354 AAACCCT AAATCCT AAACCCT AAA-CA AAACCTT AAATCCT AAATCCT
1 AAA-CCT AAA-CCT AAA-CCT AAACCT AAACC-T AAA-CCT AAA-CCT
* *
8562401 AAACC- AAGTCCT AAAACCT AAACCT -AACTTT AAACCCT AAA--T GAAACTCT
1 AAACCT AA-ACCT -AAACCT AAACCT AAAC-CT AAA-CCT AAACCT -AAAC-CT
*
8562451 AAACCAT ATACC- AAATCCT AAACC- AAACTCT AAACCCT AAA-CT AAACCT
1 AAACC-T AAACCT AAA-CCT AAACCT AAAC-CT AAA-CCT AAACCT AAACCT
8562500 TAAATAAAAA
Statistics
Matches: 221, Mismatches: 31, Indels: 73
0.68 0.10 0.22
Matches are distributed among these distances:
4 1 0.00
5 39 0.18
6 53 0.24
7 110 0.50
8 16 0.07
9 2 0.01
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (6 bp):
AAACCT
Found at i:8562503 original size:19 final size:19
Alignment explanation
Indices: 8562211--8562497 Score: 107
Period size: 19 Copynumber: 14.9 Consensus size: 19
8562201 AATAAAACCA
* *
8562211 TAAACCC-AAACCTAACCC
1 TAAACCCTAAACCAAACTC
*
8562229 TAAACCCTAAATCAAAAC-C
1 TAAACCCTAAA-CCAAACTC
* *
8562248 TAAACCCTAAATCAAACCC
1 TAAACCCTAAACCAAACTC
*
8562267 TGAACCCTAAACCAAAC-C
1 TAAACCCTAAACCAAACTC
* *
8562285 TTAGACCATAAATTCCTAAACTC
1 -TAAACCCTAAA--CC-AAACTC
* *
8562308 TAAA-CC-AAACCTTAACTT
1 TAAACCCTAAACC-AAACTC
** *
8562326 TAAATACTAAAACCAAACCC
1 TAAACCCT-AAACCAAACTC
8562346 TAAACCCTAAACCCTAAA-TCC
1 TAAACCCTAAA-CC-AAACT-C
*
8562367 TAAACCCTAAACAAAAC-C
1 TAAACCCTAAACCAAACTC
*
8562385 TTAAATCCTAAATCCTAAACCAAGTCC
1 -TAAACCCTAAA-CC-AAA-C---T-C
* * *
8562412 TAAAACCTAAACCTAACTT
1 TAAACCCTAAACCAAACTC
**
8562431 TAAACCCTAAATGAAACTC
1 TAAACCCTAAACCAAACTC
* *
8562450 TAAACCATATACCAAA---
1 TAAACCCTAAACCAAACTC
8562466 T----CCTAAACCAAACTC
1 TAAACCCTAAACCAAACTC
*
8562481 TAAACCCTAAACTAAAC
1 TAAACCCTAAACCAAAC
8562498 CTTAAATAAA
Statistics
Matches: 200, Mismatches: 38, Indels: 61
0.67 0.13 0.20
Matches are distributed among these distances:
12 9 0.05
15 1 0.00
16 1 0.00
18 24 0.12
19 93 0.47
20 21 0.10
21 26 0.13
22 8 0.04
23 2 0.01
24 2 0.01
25 2 0.01
26 10 0.05
27 1 0.00
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (19 bp):
TAAACCCTAAACCAAACTC
Found at i:8564170 original size:15 final size:16
Alignment explanation
Indices: 8564138--8564172 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
8564128 GGGAAAAATG
8564138 TTTTTTAAAAAATCGAT
1 TTTTTTAAAAAA-CGAT
8564155 TTTTTTAAAAAA-GAT
1 TTTTTTAAAAAACGAT
8564170 TTT
1 TTT
8564173 CCAATCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (16 bp):
TTTTTTAAAAAACGAT
Found at i:8566179 original size:80 final size:81
Alignment explanation
Indices: 8566045--8566200 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 81
8566035 AAAAATAGAG
* * *
8566045 GTGCAAGTAGTCATATTTAGGGGGCAACTATTTGAAAACTTAATCCCATACAAT-CGTATCATCT
1 GTGCAAGTAGTCACACTTAGGGGGCAACTATCTGAAAACTTAATCCCATACAATCCGTATCATCT
8566109 ACACCAACCTTTTTAT
66 ACACCAACCTTTTTAT
* * * *
8566125 GTGCAAGTAGTCACACTT-GGTGGGCAACTATCT-AAGAATTTCATCCCATGCAATCCTTATCAT
1 GTGCAAGTAGTCACACTTAGG-GGGCAACTATCTGAA-AACTTAATCCCATACAATCCGTATCAT
* *
8566188 CTTCACCGACCTT
64 CTACACCAACCTT
8566201 ACTACTAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 4 0.06
80 42 0.66
81 18 0.28
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (81 bp):
GTGCAAGTAGTCACACTTAGGGGGCAACTATCTGAAAACTTAATCCCATACAATCCGTATCATCT
ACACCAACCTTTTTAT
Found at i:8566860 original size:17 final size:18
Alignment explanation
Indices: 8566824--8566863 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
8566814 GTTGCATATA
8566824 GAAGAAAAAGGAAAAAAAT
1 GAAGAAAAA-GAAAAAAAT
*
8566843 GAAGAAAAA-AACAAAAT
1 GAAGAAAAAGAAAAAAAT
8566860 GAAG
1 GAAG
8566864 GATTTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (18 bp):
GAAGAAAAAGAAAAAAAT
Found at i:8568402 original size:3 final size:3
Alignment explanation
Indices: 8568396--8568422 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8568386 ATTTATCATC
8568396 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8568423 TAGTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8572145 original size:24 final size:26
Alignment explanation
Indices: 8572101--8572151 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
8572091 AATCGTTTTG
8572101 TGAAAAAAAAAAGCCAAAAAATGGCTA
1 TGAAAAAAAAAAGCC-AAAAATGGCTA
8572128 TGAAAAAAAAAA-CC-AAAATGGCTA
1 TGAAAAAAAAAAGCCAAAAATGGCTA
8572152 AACAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 10 0.42
26 2 0.08
27 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (26 bp):
TGAAAAAAAAAAGCCAAAAATGGCTA
Found at i:8572158 original size:24 final size:26
Alignment explanation
Indices: 8572103--8572159 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
8572093 TCGTTTTGTG
*
8572103 AAAAAAAAAAGCCAAAAAATGGCTATG
1 AAAAAAAAAAGCC-AAAAATGGCTATA
8572130 AAAAAAAAAA-CC-AAAATGGCTA-A
1 AAAAAAAAAAGCCAAAAATGGCTATA
*
8572153 ACAAAAA
1 AAAAAAA
8572160 TGCAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.21
24 10 0.36
26 2 0.07
27 10 0.36
ACGTcount: A:0.68, C:0.12, G:0.11, T:0.09
Consensus pattern (26 bp):
AAAAAAAAAAGCCAAAAATGGCTATA
Found at i:8574411 original size:14 final size:15
Alignment explanation
Indices: 8574388--8574430 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
8574378 AAAAATGGAT
*
8574388 AGAAACAAAGA-AAA
1 AGAAAAAAAGAGAAA
8574402 AGAAAAAAAGAGAAA
1 AGAAAAAAAGAGAAA
*
8574417 AAACAAAAAAGAGA
1 AGA-AAAAAAGAGA
8574431 GAAAAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 10 0.40
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAGAAA
Found at i:8574425 original size:24 final size:24
Alignment explanation
Indices: 8574398--8574448 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
8574388 AGAAACAAAG
8574398 AAAAAGA-AAAAAAGAGAAAAAACA
1 AAAAAGAGAAAAAAG-GAAAAAACA
* *
8574422 AAAAAGAGAGAAAAGGAAAAAATA
1 AAAAAGAGAAAAAAGGAAAAAACA
8574446 AAA
1 AAA
8574449 TGAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (24 bp):
AAAAAGAGAAAAAAGGAAAAAACA
Found at i:8574441 original size:17 final size:16
Alignment explanation
Indices: 8574396--8574443 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
8574386 ATAGAAACAA
8574396 AGAAAAAGAAAAAAAG
1 AGAAAAAGAAAAAAAG
8574412 AGAAAAA-ACAAAAAAG
1 AGAAAAAGA-AAAAAAG
8574428 AGAGAAAAGGAAAAAA
1 AGA-AAAA-GAAAAAA
8574444 TAAAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 17 0.61
17 4 0.14
18 5 0.18
19 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAG
Found at i:8577503 original size:44 final size:44
Alignment explanation
Indices: 8577380--8577505 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 44
8577370 ATGCCAACCT
* * * * * *
8577380 AAATAATCAAATAAATTGATACACATGAAAAATTAAAATCTACA
1 AAATAAACAAATAGATTAATACACATGAAAAATCATAAGCTACA
* *
8577424 AAATAAACAAATAGATTAATACATA-AAATAAATCATAAGCTACA
1 AAATAAACAAATAGATTAATACACATGAA-AAATCATAAGCTACA
* *
8577468 AAATAAACAAATAGGTTAGTACACATGAAAAATCATAA
1 AAATAAACAAATAGATTAATACACATGAAAAATCATAA
8577506 TAATGAAAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 64 0.94
45 2 0.03
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (44 bp):
AAATAAACAAATAGATTAATACACATGAAAAATCATAAGCTACA
Found at i:8577995 original size:48 final size:48
Alignment explanation
Indices: 8577926--8578037 Score: 179
Period size: 48 Copynumber: 2.3 Consensus size: 48
8577916 AAATTAGGAT
* *
8577926 ATCATGCAATAATATAAAATATCATGCAAAAATTATCATGTAATAAAAAC
1 ATCATGC-A-AATATAAAATATCATGCAAAAATTAGCATGCAATAAAAAC
*
8577976 ATCATGCAAATATAAAATATCATGTAAAAATTAGCATGCAATAAAAAC
1 ATCATGCAAATATAAAATATCATGCAAAAATTAGCATGCAATAAAAAC
8578024 ATCATGCAAATATA
1 ATCATGCAAATATA
8578038 TTAATGATCA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 51 0.86
49 1 0.02
50 7 0.12
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (48 bp):
ATCATGCAAATATAAAATATCATGCAAAAATTAGCATGCAATAAAAAC
Found at i:8578035 original size:17 final size:16
Alignment explanation
Indices: 8577960--8578032 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
8577950 TGCAAAAATT
*
8577960 ATCATGTAATAAAAAC
1 ATCATGCAATAAAAAC
*
8577976 ATCATGCAAATATAAAAT
1 ATCATGC-AATA-AAAAC
*
8577994 ATCATG---TAAAAATT
1 ATCATGCAATAAAAA-C
*
8578008 AGCATGCAATAAAAAC
1 ATCATGCAATAAAAAC
8578024 ATCATGCAA
1 ATCATGCAA
8578033 ATATATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 8 0.17
16 14 0.30
17 10 0.22
18 10 0.22
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (16 bp):
ATCATGCAATAAAAAC
Found at i:8578069 original size:40 final size:40
Alignment explanation
Indices: 8578024--8578112 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
8578014 CAATAAAAAC
*
8578024 ATCATGCAAATATATTAATGATCATACAAATATATTAATA
1 ATCATGCAAATATATTAATAATCATACAAATATATTAATA
*
8578064 ATCATGCAAATATATTAATAATCATACAATTATATTAATA
1 ATCATGCAAATATATTAATAATCATACAAATATATTAATA
8578104 ATCATGCAA
1 ATCATGCAA
8578113 GCAAATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.35
Consensus pattern (40 bp):
ATCATGCAAATATATTAATAATCATACAAATATATTAATA
Found at i:8578120 original size:20 final size:20
Alignment explanation
Indices: 8578024--8578162 Score: 145
Period size: 20 Copynumber: 6.8 Consensus size: 20
8578014 CAATAAAAAC
*
8578024 ATCATGCAAATATATTAATG
1 ATCATGCAAATATATTAATA
*
8578044 ATCATACAAATATATTAATA
1 ATCATGCAAATATATTAATA
8578064 ATCATGCAAATATATTAATA
1 ATCATGCAAATATATTAATA
* *
8578084 ATCATACAATTATATTAATA
1 ATCATGCAAATATATTAATA
** *
8578104 ATCATGCAAGCAAATTAA-A
1 ATCATGCAAATATATTAATA
* *
8578123 TTCTTGCAAATGTATATTAATTA
1 ATCATGCAAA--TATATTAA-TA
* *
8578146 TTCATGCAAATAAATTA
1 ATCATGCAAATATATTA
8578163 GAAACCATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.08
20 69 0.70
21 12 0.12
23 10 0.10
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (20 bp):
ATCATGCAAATATATTAATA
Found at i:8578511 original size:27 final size:27
Alignment explanation
Indices: 8578436--8578511 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
8578426 ATCACTAGTT
*
8578436 AAAAAAAAAT--AAATTAGAATAAAAATT
1 AAAAAAAAATCAAAATT-GAA-AAAAATC
*
8578463 AAAAAAAAATCAAAACCT-AAAAAAATC
1 AAAAAAAAATCAAAA-TTGAAAAAAATC
*
8578490 AAAAGAAAATCAAAATTGAAAA
1 AAAAAAAAATCAAAATTGAAAA
8578512 TAAAAAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.02
27 34 0.83
28 2 0.05
29 3 0.07
30 1 0.02
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.16
Consensus pattern (27 bp):
AAAAAAAAATCAAAATTGAAAAAAATC
Found at i:8579887 original size:40 final size:40
Alignment explanation
Indices: 8579832--8580009 Score: 128
Period size: 40 Copynumber: 4.5 Consensus size: 40
8579822 AAAGTGTTAC
* * * *
8579832 ATTTTTGAATGATTTCCAAGATCTCTAGG-CTAAATCTTTG
1 ATTTTTTAATGATTTCCAAGACCT-TAGGACAAAATCTTAG
*
8579872 ATTTTTTAATGATTTCCAAGACCTTTGGACAAAATCTTAG
1 ATTTTTTAATGATTTCCAAGACCTTAGGACAAAATCTTAG
* * * * * * *
8579912 ATATTTTAATGATTTTCAAGACCATCAAG-TAAAATTTTAA
1 ATTTTTTAATGATTTCCAAGACC-TTAGGACAAAATCTTAG
* * * * * * *
8579952 ATTGTTGAATGATTTTCAAGACCTTA-AAGAGAATCTTAA
1 ATTTTTTAATGATTTCCAAGACCTTAGGACAAAATCTTAG
* *
8579991 ATTTTTAAATGAATTCCAA
1 ATTTTTTAATGATTTCCAA
8580010 TACTTCTGGG
Statistics
Matches: 110, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
39 28 0.25
40 80 0.73
41 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (40 bp):
ATTTTTTAATGATTTCCAAGACCTTAGGACAAAATCTTAG
Found at i:8580662 original size:50 final size:50
Alignment explanation
Indices: 8580599--8580903 Score: 236
Period size: 50 Copynumber: 6.1 Consensus size: 50
8580589 TCTTTTTATT
* *
8580599 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGTAGCTTTTCAAATATGAGA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAGCTTTTCAAAGATGAGA
* * * * * *
8580649 TTTTTAAACTTTCAAAGCTTTTGTTTAGGAGGACCTTTACAAAGATGAGA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAGCTTTTCAAAGATGAGA
* * * * * * * * **
8580699 TTTTTAAAGTTTTAAAGCCTTTATTCAGAATGAACCTTTCAGAGACAAGA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAGCTTTTCAAAGATGAGA
* **
8580749 ATTTTAAAGTTTCAAAATCTCTATTTAGGTA-GAGCTTTTCAAAGATGAGA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGG-AGGAGCTTTTCAAAGATGAGA
* ** * ** ** * * * *
8580799 TTCTTAAAGTTTCAAAATCTTTATTGGGGAGGATTTTTTTAAATATAAAA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAGCTTTTCAAAGATGAGA
* * * * *
8580849 TTTTTAAAGTTTTAAAGCCTCTATTAAGAAAGAGCCTTTT-AAAGATAAGA
1 TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAG-CTTTTCAAAGATGAGA
8580899 TTTTT
1 TTTTT
8580904 TTCTCTTAAA
Statistics
Matches: 195, Mismatches: 57, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
49 1 0.01
50 189 0.97
51 5 0.03
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (50 bp):
TTTTTAAAGTTTCAAAGCCTCTATTTAGGAGGAGCTTTTCAAAGATGAGA
Found at i:8580887 original size:150 final size:150
Alignment explanation
Indices: 8580600--8580887 Score: 364
Period size: 150 Copynumber: 1.9 Consensus size: 150
8580590 CTTTTTATTT
* * *
8580600 TTTTAAAGTTTCAAAGCCTCTATTTAGGAGTAGCTTTTCAAATATGAGATTTTTAAACTTTCAAA
1 TTTTAAAGTTTCAAAACCTCTATTTAGGAGTAGCTTTTCAAAGATGAGATTCTTAAACTTTCAAA
* * * * * * *
8580665 GCTTTTGTTTAGGAGGACCTTTACAAAGATGAGATTTTTAAAGTTTTAAAGCCTTTATTCAGAAT
66 GCTTTTATTGAGGAGGACCTTTACAAAGATAAAATTTTTAAAGTTTTAAAGCCTCTATTAAGAAA
8580730 GAACCTTTCAGAGACAAGAA
131 GAACCTTTCAGAGACAAGAA
* *
8580750 TTTTAAAGTTTCAAAATCTCTATTTAGGTAG-AGCTTTTCAAAGATGAGATTCTTAAAGTTTCAA
1 TTTTAAAGTTTCAAAACCTCTATTTAGG-AGTAGCTTTTCAAAGATGAGATTCTTAAACTTTCAA
* * ** ** *
8580814 A-ATCTTTATTGGGGAGGATTTTTTTAAATATAAAATTTTTAAAGTTTTAAAGCCTCTATTAAGA
65 AGCT-TTTATTGAGGAGGACCTTTACAAAGATAAAATTTTTAAAGTTTTAAAGCCTCTATTAAGA
*
8580878 AAGAGCCTTT
129 AAGAACCTTT
8580888 TAAAGATAAG
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
149 1 0.01
150 113 0.97
151 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (150 bp):
TTTTAAAGTTTCAAAACCTCTATTTAGGAGTAGCTTTTCAAAGATGAGATTCTTAAACTTTCAAA
GCTTTTATTGAGGAGGACCTTTACAAAGATAAAATTTTTAAAGTTTTAAAGCCTCTATTAAGAAA
GAACCTTTCAGAGACAAGAA
Done.