Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 33 of 144
Found at i:8334844 original size:10 final size:10
Alignment explanation
Indices: 8334826--8334870 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 10
8334816 TTTTTCTCTA
8334826 TTTTCTTTTTCC
1 TTTT-TTTTT-C
8334838 TTTTTTTCTTC
1 TTTTTTT-TTC
8334849 TTTTTTCTTTC
1 TTTTTT-TTTC
8334860 TTTTTTTTTC
1 TTTTTTTTTC
8334870 T
1 T
8334871 CTTCTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.16
11 19 0.61
12 7 0.23
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:8334851 original size:18 final size:19
Alignment explanation
Indices: 8334828--8334863 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8334818 TTTCTCTATT
8334828 TTCTTTTTCCTTT-TTTTC
1 TTCTTTTTCCTTTCTTTTC
*
8334846 TTCTTTTTTCTTTCTTTT
1 TTCTTTTTCCTTTCTTTT
8334864 TTTTTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTCTTTTTCCTTTCTTTTC
Found at i:8334873 original size:23 final size:22
Alignment explanation
Indices: 8334807--8334896 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 22
8334797 TCGACCTCTC
* *
8334807 CTTTTTTCATTTTTCTCTATTTT
1 CTTTTTT-TTTTTTCTCTTTTTT
8334830 CTTTTTCCTTTTTTTCTTCTTTTTT
1 CTTTTT--TTTTTTTC-TCTTTTTT
*
8334855 CTTTCTTTTTTTTTCTCTTCTTT
1 CTTT-TTTTTTTTTCTCTTTTTT
*
8334878 ATTTATTTATTTTTT-TCTT
1 CTTT-TTT-TTTTTTCTCTT
8334897 CATTGCATCT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 23 0.40
24 20 0.35
25 12 0.21
26 2 0.04
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (22 bp):
CTTTTTTTTTTTTCTCTTTTTT
Found at i:8334874 original size:26 final size:26
Alignment explanation
Indices: 8334838--8334893 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
8334828 TTCTTTTTCC
* *
8334838 TTTTTTTCTTCTTT-TTTCTTTCTTT
1 TTTTTTTCTTCTTTATTTATTTATTT
8334863 TTTTTTCTCTTCTTTATTTATTTATTT
1 TTTTTT-TCTTCTTTATTTATTTATTT
8334890 TTTT
1 TTTT
8334894 CTTCATTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 8 0.30
27 13 0.48
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTCTTCTTTATTTATTTATTT
Found at i:8334897 original size:23 final size:25
Alignment explanation
Indices: 8334838--8334897 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
8334828 TTCTTTTTCC
* * *
8334838 TTTTTTTCTTCTTTTTTCTTTCTTT
1 TTTTTTTCTTCTTTATTCTATCTTA
8334863 TTTTTTCTCTTCTTTATT-TAT-TTA
1 TTTTTT-TCTTCTTTATTCTATCTTA
8334887 TTTTTTTCTTC
1 TTTTTTTCTTC
8334898 ATTGCATCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 5 0.16
24 8 0.26
25 8 0.26
26 10 0.32
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTTCTTCTTTATTCTATCTTA
Found at i:8335769 original size:16 final size:17
Alignment explanation
Indices: 8335739--8335774 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8335729 CTTCTTTTTC
8335739 TTTCTTTTTCCTTCTTT
1 TTTCTTTTTCCTTCTTT
*
8335756 TTTCTTTTT-TTTCTTT
1 TTTCTTTTTCCTTCTTT
8335772 TTT
1 TTT
8335775 TTGTTAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTCCTTCTTT
Found at i:8335776 original size:9 final size:9
Alignment explanation
Indices: 8335724--8335776 Score: 70
Period size: 9 Copynumber: 5.6 Consensus size: 9
8335714 TCATCTTGAC
*
8335724 TTTTTCTTC
1 TTTTTCTTT
8335733 TTTTTCTTT
1 TTTTTCTTT
8335742 CTTTTTCCTTCT
1 -TTTTT-CTT-T
8335754 TTTTTCTTT
1 TTTTTCTTT
8335763 TTTTTCTTT
1 TTTTTCTTT
8335772 TTTTT
1 TTTTT
8335777 GTTAACACGT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
9 23 0.57
10 8 0.20
11 8 0.20
12 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:8339882 original size:58 final size:56
Alignment explanation
Indices: 8339807--8339999 Score: 131
Period size: 58 Copynumber: 3.3 Consensus size: 56
8339797 TGGATGCCCG
* * *
8339807 AGGGT-AAAACGGTAATTTTGGACGCTTAAGGAATAAAATGGTAATTCTCGAAAGGTTC
1 AGGGTAAAAATGG-AATTTTGGACACTTAAGG-ATAAAATGATAATTCTCGAAA-GTTC
* * * * * * *
8339865 AGGGTAAAAATGGAATTTTTAGACATTTGAGGGTAAAATGATATTTTTGGAAAGTTC
1 AGGGTAAAAATGGAA-TTTTGGACACTTAAGGATAAAATGATAATTCTCGAAAGTTC
* * * * * *
8339922 GGGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATG-TAATTTTTAC-AAAGTTT
1 AGGG-TAAAAATGGAATTTTGGACA-CTTAAGGATAAAATGATAA-TTCT-CGAAAGTTC
*
8339980 AGGGTCAAAAATGAAATTTT
1 AGGGT-AAAAATGGAATTTT
8340000 TGGAAGTTTG
Statistics
Matches: 109, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
57 17 0.16
58 74 0.68
59 18 0.17
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (56 bp):
AGGGTAAAAATGGAATTTTGGACACTTAAGGATAAAATGATAATTCTCGAAAGTTC
Found at i:8340007 original size:58 final size:56
Alignment explanation
Indices: 8339856--8340274 Score: 373
Period size: 58 Copynumber: 7.2 Consensus size: 56
8339846 GGTAATTCTC
* * * *
8339856 GAAAGGTTCAGGGTAAAAATGGAATTTTTAGACA-TTTGAGGGTAAAATG-ATATTTTTG
1 GAAA-GTTTAGGGTAAAAATGTAATTTTTGGA-AGTTTG-GGGTAAAATGTA-ATTTTTA
** * *
8339914 GAAAGTTCGGGGTTAAAAATGGAA-TTTTGGAAAGTTTAAGGGTAAAATGTAATTTTTA
1 GAAAGTTTAGGG-TAAAAATGTAATTTTTGG-AAGTTT-GGGGTAAAATGTAATTTTTA
* * *
8339972 CAAAGTTTAGGGTCAAAAATGAAATTTTTGGAAGTTTGGGGGAAAATGTAATTTTT-
1 GAAAGTTTAGGGT-AAAAATGTAATTTTTGGAAGTTTGGGGTAAAATGTAATTTTTA
* * * *
8340028 GTAAAGTTTAGGAGGTTAAAATGTAA-TTTTGGAAAGTTTGGGGGAAAATGAAATTTTTG
1 G-AAAGTTTA-G-GGTAAAAATGTAATTTTTGG-AAGTTTGGGGTAAAATGTAATTTTTA
*
8340087 GAAAGTTTAGGGTAAAAATGTAATTTTTGGAAAGTTTAGGGGTAAAAATGTAATTTCTA
1 GAAAGTTTAGGGTAAAAATGTAATTTTTGG-AAGTTT-GGGGT-AAAATGTAATTTTTA
* * * * *
8340146 GAAAGTGTAGGGGTGAAAATGTAATTTATAGAAAGTTTAGGGTAAAATGTAATTTTT-
1 GAAAGTTTA-GGGTAAAAATGTAATTT-TTGGAAGTTTGGGGTAAAATGTAATTTTTA
* * * *
8340203 GAAAATTTTAGGGTTAAAATGTAATTTTTGTAAAGTTTGGGGTTAAAAATATAATTTTTA
1 G-AAAGTTTAGGGTAAAAATGTAATTTTTG-GAAGTTTGGGG-T-AAAATGTAATTTTTA
*
8340263 GACAGTTTAGGG
1 GAAAGTTTAGGG
8340275 ACCTCTTGAG
Statistics
Matches: 306, Mismatches: 33, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
56 14 0.05
57 86 0.28
58 124 0.41
59 57 0.19
60 23 0.08
61 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (56 bp):
GAAAGTTTAGGGTAAAAATGTAATTTTTGGAAGTTTGGGGTAAAATGTAATTTTTA
Found at i:8340150 original size:87 final size:86
Alignment explanation
Indices: 8339866--8340244 Score: 394
Period size: 87 Copynumber: 4.4 Consensus size: 86
8339856 GAAAGGTTCA
* * * * **
8339866 GGGTAAAAATGGAATTTTTAGACA-TTTGAGGGTAAAATGATATTTTTGGAAAGTTCGGGGTTAA
1 GGGTAAAAATGTAA-TTTTAGAAAGTTTG-GGGGAAAATGAAATTTTTGGAAAGTTTAGGG-TAA
* *
8339930 AAATGGAA-TTTTGGAAAGTTTAA
63 AAATGTAATTTTTGGAAAGTTTAG
* ** **
8339953 GGGT-AAAATGTAATTTTTACAAAGTTTAGGGTCAAAAATGAAATTTTTGG-AAGTTT-GGGGGA
1 GGGTAAAAATGTAA-TTTTAGAAAGTTT-GGG-GGAAAATGAAATTTTTGGAAAGTTTAGGGTAA
*
8340015 AAATGTAATTTTTGTAAAGTTTAG
63 AAATGTAATTTTTGGAAAGTTTAG
* *
8340039 GAGGTTAAAATGTAATTTTGGAAAGTTTGGGGGAAAATGAAATTTTTGGAAAGTTTAGGGTAAAA
1 G-GGTAAAAATGTAATTTTAGAAAGTTTGGGGGAAAATGAAATTTTTGGAAAGTTTAGGGTAAAA
8340104 ATGTAATTTTTGGAAAGTTTAG
65 ATGTAATTTTTGGAAAGTTTAG
* * * *
8340126 GGGTAAAAATGTAATTTCTAGAAAGTGTAGGGGTGAAAATGTAATTTATAGAAAGTTTAGGGT-A
1 GGGTAAAAATGTAATTT-TAGAAAGT-TTGGGG-GAAAATGAAATTTTTGGAAAGTTTAGGGTAA
* *
8340190 AAATGTAATTTTTGAAAATTTTA-
63 AAATGTAATTTTTGGAAAGTTTAG
* *
8340213 GGGTTAAAATGTAATTTTTGTAAAGTTTGGGG
1 GGGTAAAAATGTAATTTTAG-AAAGTTTGGGG
8340245 TTAAAAATAT
Statistics
Matches: 250, Mismatches: 30, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
85 24 0.10
86 64 0.26
87 84 0.34
88 52 0.21
89 26 0.10
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.36
Consensus pattern (86 bp):
GGGTAAAAATGTAATTTTAGAAAGTTTGGGGGAAAATGAAATTTTTGGAAAGTTTAGGGTAAAAA
TGTAATTTTTGGAAAGTTTAG
Found at i:8340270 original size:30 final size:29
Alignment explanation
Indices: 8339866--8340270 Score: 371
Period size: 30 Copynumber: 14.0 Consensus size: 29
8339856 GAAAGGTTCA
* * *
8339866 GGGTAAAAATGGAATTTTTAGACA-TTTG
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
*
8339894 AGGGT-AAAATG-ATATTTTTGGAAAGTTCG
1 -GGGTAAAAATGTA-ATTTTTGGAAAGTTTG
* *
8339923 GGGTTAAAAATGGAA-TTTTGGAAAGTTTAA
1 GGG-TAAAAATGTAATTTTTGGAAAGTTT-G
** *
8339953 GGGT-AAAATGTAATTTTTACAAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
*
8339981 GGGTCAAAAATGAAATTTTTGG-AAGTTTG
1 GGGT-AAAAATGTAATTTTTGGAAAGTTTG
* *
8340010 GGG-GAAAATGTAATTTTTGTAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGGAAAGTTT-G
*
8340039 GAGGTTAAAATGTAA-TTTTGGAAAGTTTG
1 G-GGTAAAAATGTAATTTTTGGAAAGTTTG
* * *
8340068 GGG-GAAAATGAAATTTTTGGAAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
8340096 GGGTAAAAATGTAATTTTTGGAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGGAAAGTTT-G
* * *
8340126 GGGTAAAAATGTAATTTCTAGAAAGTGTAG
1 GGGTAAAAATGTAATTTTTGGAAAGT-TTG
* * * *
8340156 GGGTGAAAATGTAATTTATAGAAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
* * *
8340185 GGGT-AAAATGTAATTTTTGAAAATTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
* *
8340213 GGGTTAAAATGTAATTTTTGTAAAGTTTG
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
* * *
8340242 GGGTTAAAAATATAATTTTTAGACAGTTT
1 GGG-TAAAAATGTAATTTTTGGAAAGTTT
8340271 AGGGACCTCT
Statistics
Matches: 315, Mismatches: 42, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.07
28 79 0.25
29 96 0.30
30 106 0.34
31 11 0.03
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAAGTTTG
Found at i:8342123 original size:17 final size:16
Alignment explanation
Indices: 8342082--8342162 Score: 81
Period size: 17 Copynumber: 4.8 Consensus size: 16
8342072 TAAATACATT
*
8342082 TAAACTTAATATTTATAA
1 TAAATTTAA-ATTTA-AA
8342100 TAAATTTAAATTCTAAA
1 TAAATTTAAATT-TAAA
*
8342117 TAGATTTAAATTTAATA
1 TAAATTTAAATTTAA-A
*
8342134 TAAACTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
*
8342151 CAAATTTAAATT
1 TAAATTTAAATT
8342163 CTGTTGGGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 3 0.06
17 39 0.72
18 12 0.22
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:8344199 original size:24 final size:27
Alignment explanation
Indices: 8344158--8344210 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
8344148 TATATTTATA
8344158 TTATATTATTTTAATATTTAAT-AATT
1 TTATATTATTTTAATATTTAATAAATT
* *
8344184 TTATATT-TTTT-TTATTTATTAAATT
1 TTATATTATTTTAATATTTAATAAATT
8344209 TT
1 TT
8344211 TTATATAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATATTATTTTAATATTTAATAAATT
Found at i:8348293 original size:21 final size:21
Alignment explanation
Indices: 8348269--8348314 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8348259 TAAAAAATCA
*
8348269 ATTTAATAAATAAAAATAAAT
1 ATTTAATAAACAAAAATAAAT
* *
8348290 ATTTCATAAACAAAAATAATT
1 ATTTAATAAACAAAAATAAAT
8348311 ATTT
1 ATTT
8348315 TAATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTTAATAAACAAAAATAAAT
Found at i:8364399 original size:22 final size:21
Alignment explanation
Indices: 8364322--8364400 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
8364312 TGATTTTATT
*
8364322 TTATTATAAAGTATTTTACAACAA
1 TTATTATAAA--ATTTTAAAAC-A
* *
8364346 TTATTTTAAAATTTAATAAACA
1 TTATTATAAAATTTTA-AAACA
8364368 -TATTATAAAATTTTAAAACA
1 TTATTATAAAATTTTAAAACA
8364388 TTATTATCAAAAT
1 TTATTAT-AAAAT
8364401 AATTATAACC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
20 5 0.11
21 19 0.40
22 11 0.23
23 3 0.06
24 9 0.19
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (21 bp):
TTATTATAAAATTTTAAAACA
Found at i:8365029 original size:22 final size:21
Alignment explanation
Indices: 8365004--8365052 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
8364994 AGGTTCGCCT
* * *
8365004 ATATTATTTTTTATTTTTTTAA
1 ATATTATATTATATTATTTT-A
8365026 ATATTTATATTATATTATTTTA
1 ATA-TTATATTATATTATTTTA
8365048 ATATT
1 ATATT
8365053 TAATAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 7 0.30
23 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTATATTATATTATTTTA
Found at i:8368603 original size:21 final size:23
Alignment explanation
Indices: 8368579--8368626 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
8368569 TTACGTCCCA
*
8368579 CTCC-ATCTCATC-TCCTTATTT
1 CTCCTATCTCACCTTCCTTATTT
*
8368600 CTCCTTCTCTCACCTTCCTTATTT
1 CTCC-TATCTCACCTTCCTTATTT
8368624 CTC
1 CTC
8368627 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
23 6 0.27
24 12 0.55
ACGTcount: A:0.10, C:0.42, G:0.00, T:0.48
Consensus pattern (23 bp):
CTCCTATCTCACCTTCCTTATTT
Found at i:8369711 original size:18 final size:18
Alignment explanation
Indices: 8369667--8369712 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8369657 TTATCCCAAA
*
8369667 AATTACAAGTCTTAAAAT
1 AATTAAAAGTCTTAAAAT
* *
8369685 AAATCAAAGTCTTAAAAT
1 AATTAAAAGTCTTAAAAT
*
8369703 GATTAAAAGT
1 AATTAAAAGT
8369713 TAAAGTTCAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (18 bp):
AATTAAAAGTCTTAAAAT
Found at i:8372524 original size:76 final size:76
Alignment explanation
Indices: 8372398--8372626 Score: 449
Period size: 76 Copynumber: 3.0 Consensus size: 76
8372388 ACTCGGGACA
*
8372398 TGGGATCGTCATCTTCCTCTATGGGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
1 TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
8372463 TTTTTCAAAAT
66 TTTTTCAAAAT
8372474 TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
1 TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
8372539 TTTTTCAAAAT
66 TTTTTCAAAAT
8372550 TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
1 TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
8372615 TTTTTCAAAAT
66 TTTTTCAAAAT
8372626 T
1 T
8372627 ATCCTTTTCC
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 152 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (76 bp):
TGGGATCGTCATCTTCCTCTATGAGGATTGATTCGTCATTATTGGATTGAGGCTTAATCTCGATT
TTTTTCAAAAT
Found at i:8374994 original size:21 final size:21
Alignment explanation
Indices: 8374947--8374997 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8374937 ATCAATGCAG
*
8374947 ACTTCTACCGATACAAGTGTT
1 ACTTCTACCGATACAAGAGTT
*
8374968 AGTTCTACCGATACAAGAGATT
1 ACTTCTACCGATACAAGAG-TT
8374990 -CTTCTACC
1 ACTTCTACC
8374998 AAAACAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (21 bp):
ACTTCTACCGATACAAGAGTT
Found at i:8375738 original size:36 final size:36
Alignment explanation
Indices: 8375686--8375790 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 36
8375676 ATTATCGATA
* *
8375686 CTCAATTTACTCCCTGTTTACCCAAAGGTCATGATT
1 CTCATTTTACTCCCTGTTTACCCAAAGGTCATGATG
*
8375722 CTCATTTTACTCCCTGTTGACCCAAAGGTCATGATG
1 CTCATTTTACTCCCTGTTTACCCAAAGGTCATGATG
* * *
8375758 CCCGTTTTACTCCCT-TTTGACCTAAAGGTCATG
1 CTCATTTTACTCCCTGTTT-ACCCAAAGGTCATG
8375791 CCTGTTACCA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 2 0.03
36 59 0.97
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (36 bp):
CTCATTTTACTCCCTGTTTACCCAAAGGTCATGATG
Found at i:8381831 original size:68 final size:64
Alignment explanation
Indices: 8381758--8381962 Score: 202
Period size: 61 Copynumber: 3.1 Consensus size: 64
8381748 TTCCAAAAAT
* *
8381758 ATATTATTTTAATAGTTTTAATATTAAATTTAATTTAATACTTATCTTAATACTATTTTGTTAAT
1 ATATTAATTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTT-ATA-TA-TTT-TTAAT
8381823 TTA
62 TTA
* * ** *
8381826 ATATTAATGTGATTTTTTTAATATTAAATTTAATTTAATATTTATCTTATATA---TAAATATT-
1 ATATTAATTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTTATATATTTTTAAT-TTA
* * *
8381887 CTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAA
1 ATATTAATTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTT-AT-A-TATT-T-TTAA
8381952 TTTA
61 TTTA
8381956 ATATTAA
1 ATATTAA
8381963 ATTGAAAAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
61 45 0.41
62 4 0.04
63 1 0.01
64 2 0.02
66 2 0.02
67 3 0.03
68 44 0.40
69 10 0.09
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (64 bp):
ATATTAATTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTTATATATTTTTAATTTA
Found at i:8383229 original size:7 final size:7
Alignment explanation
Indices: 8383217--8383246 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
8383207 TGTTTCTTAC
8383217 TCTTTTT
1 TCTTTTT
8383224 TCTTTTT
1 TCTTTTT
8383231 TCTTTTT
1 TCTTTTT
8383238 TCTTTTT
1 TCTTTTT
8383245 TC
1 TC
8383247 ACTATTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TCTTTTT
Found at i:8386884 original size:12 final size:12
Alignment explanation
Indices: 8386869--8386893 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8386859 ATCGATTCGA
8386869 TCAAAAAATTCT
1 TCAAAAAATTCT
8386881 TCAAAAAATTCT
1 TCAAAAAATTCT
8386893 T
1 T
8386894 TTTCCGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAAAAATTCT
Found at i:8389884 original size:30 final size:30
Alignment explanation
Indices: 8389850--8389924 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 30
8389840 ACTAAATGGG
* * *
8389850 AATTTTATGAAAATTTAGTGACTAATTTGT
1 AATTTAATGAAAATTTAGGGACTAATTTGA
* * *
8389880 AATTTCAGTG-AAGTTTGGGGACTAATTTGA
1 AATTT-AATGAAAATTTAGGGACTAATTTGA
*
8389910 AATTTAATTAAAATT
1 AATTTAATGAAAATT
8389925 CTATGGCTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
29 2 0.06
30 30 0.88
31 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (30 bp):
AATTTAATGAAAATTTAGGGACTAATTTGA
Found at i:8396275 original size:3 final size:3
Alignment explanation
Indices: 8396267--8396291 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8396257 TTTAATTACT
8396267 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
8396292 CTAGGTCTGG
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8402327 original size:28 final size:27
Alignment explanation
Indices: 8402269--8402343 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
8402259 GTTCTGTTAT
* *
8402269 GCACTTCGGTGTTATTCTGATATAATAA
1 GCACTTC-GTGTTGTTTTGATATAATAA
** *
8402297 GCACTTCGATGTTGTTTTGATATGCTCA
1 GCACTTCG-TGTTGTTTTGATATAATAA
*
8402325 GCACTACTGTGTTGTTTTG
1 GCACTTC-GTGTTGTTTTG
8402344 TTTTGATAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GCACTTCGTGTTGTTTTGATATAATAA
Found at i:8405139 original size:23 final size:25
Alignment explanation
Indices: 8405091--8405138 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
8405081 AGTTGTAGAG
8405091 AGAAAATTCTCTAAAGAGATTATTTT
1 AGAAAATTCTCT-AAGAGATTATTTT
8405117 AGAAAA-TCTCT-AGAGA-TATTTT
1 AGAAAATTCTCTAAGAGATTATTTT
8405139 TTTATTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 5 0.23
26 6 0.27
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (25 bp):
AGAAAATTCTCTAAGAGATTATTTT
Found at i:8405141 original size:25 final size:26
Alignment explanation
Indices: 8405091--8405142 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8405081 AGTTGTAGAG
8405091 AGAAAATTCTCTAAAGAGATTATTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
* * *
8405117 AGAAAA-TCTCTAGAGATATTTTTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
8405142 A
1 A
8405143 TTTACAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTTT
Found at i:8415111 original size:18 final size:17
Alignment explanation
Indices: 8415064--8415116 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
8415054 CTCGCGCAAC
*
8415064 CAGACCAGATGAGATCA
1 CAGACCAGATGCGATCA
8415081 CATGACCAGATGCGATCA
1 CA-GACCAGATGCGATCA
*
8415099 CAGACCCAGATGCAATCA
1 CAGA-CCAGATGCGATCA
8415117 TACAATCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.13
Consensus pattern (17 bp):
CAGACCAGATGCGATCA
Found at i:8418015 original size:6 final size:6
Alignment explanation
Indices: 8418004--8418042 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
8417994 TGATCAAAAT
* * *
8418004 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
8418043 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:8424389 original size:15 final size:15
Alignment explanation
Indices: 8424371--8424399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8424361 CCAATGAAAA
8424371 AGCATGAGATGAAGG
1 AGCATGAGATGAAGG
8424386 AGCATGAGATGAAG
1 AGCATGAGATGAAG
8424400 AGAAAGAAGA
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:0.41, C:0.07, G:0.38, T:0.14
Consensus pattern (15 bp):
AGCATGAGATGAAGG
Found at i:8424839 original size:17 final size:17
Alignment explanation
Indices: 8424814--8424852 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8424804 CATACATTTC
8424814 TTTTAATTGTCAT-TGCA
1 TTTTAATTGTC-TCTGCA
*
8424831 TTTTTATTGTCTCTGCA
1 TTTTAATTGTCTCTGCA
8424848 TTTTA
1 TTTTA
8424853 TTTATTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (17 bp):
TTTTAATTGTCTCTGCA
Found at i:8435845 original size:18 final size:18
Alignment explanation
Indices: 8435803--8435850 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
8435793 TCACGTTAAC
*
8435803 AAATAATTAAAAAATTAT
1 AAATAAATAAAAAATTAT
*
8435821 AGA-AAATAAAAAATCTA-
1 AAATAAATAAAAAAT-TAT
8435838 AAATAAATAAAAA
1 AAATAAATAAAAA
8435851 TTTCATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAAATTAT
Found at i:8436018 original size:31 final size:31
Alignment explanation
Indices: 8435958--8436024 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
8435948 GAAAGAACAA
* * *
8435958 AAATTCGACTCTTTTTAAAAGATTGATTATT
1 AAATTCAACTCTTTTTAAAAGATTAATTATC
*
8435989 AAATTCAACTCTTTTCTAAAA-TTTAATTATC
1 AAATTCAACTCTTTT-TAAAAGATTAATTATC
8436020 AAATT
1 AAATT
8436025 TAGATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTCAACTCTTTTTAAAAGATTAATTATC
Found at i:8438984 original size:18 final size:18
Alignment explanation
Indices: 8438967--8439005 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8438957 AGATCAAAAT
8438967 TAAT-ACATTAATATAAA
1 TAATAACATTAATATAAA
*
8438984 TAATAATATTAATATAAA
1 TAATAACATTAATATAAA
8439002 -AATA
1 TAATA
8439006 GAGAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAACATTAATATAAA
Found at i:8446632 original size:49 final size:49
Alignment explanation
Indices: 8446560--8446660 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
8446550 AAACATGGTA
* * * * *
8446560 GTTATAATTCTTTTTGGAAAGAATATAATGTTTTTAA-TACTTTCCATAT
1 GTTATAATTATCTTTAGAAAGAATATAACGTGTTTAATTA-TTTCCATAT
8446609 GTTATAATTATCTTTAGAAAGAATATAACGTGTTTAATTATTTCCATAT
1 GTTATAATTATCTTTAGAAAGAATATAACGTGTTTAATTATTTCCATAT
8446658 GTT
1 GTT
8446661 CTCTATAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 44 0.96
50 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.48
Consensus pattern (49 bp):
GTTATAATTATCTTTAGAAAGAATATAACGTGTTTAATTATTTCCATAT
Found at i:8451033 original size:17 final size:18
Alignment explanation
Indices: 8451011--8451050 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
8451001 CAATAAACCC
8451011 ATTTG-ATATTCACATCA
1 ATTTGAATATTCACATCA
*
8451028 ATTTGACATATTCATATCA
1 ATTTGA-ATATTCACATCA
8451047 ATTT
1 ATTT
8451051 CACATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
19 15 0.75
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTTGAATATTCACATCA
Found at i:8451040 original size:19 final size:19
Alignment explanation
Indices: 8451016--8451058 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
8451006 AACCCATTTG
*
8451016 ATATTCACATCAATTTGAC
1 ATATTCACATCAATTTCAC
*
8451035 ATATTCATATCAATTTCAC
1 ATATTCACATCAATTTCAC
8451054 ATATT
1 ATATT
8451059 TTCACATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATTCACATCAATTTCAC
Found at i:8452617 original size:22 final size:22
Alignment explanation
Indices: 8452591--8452669 Score: 64
Period size: 22 Copynumber: 3.9 Consensus size: 22
8452581 TTTCTATAGT
8452591 TTCCTATAGTTTCACAATCACA
1 TTCCTATAGTTTCACAATCACA
*
8452613 TTCCTATAG--TCAC-A--AGA
1 TTCCTATAGTTTCACAATCACA
*
8452630 -T-CTATAGTTTCACATTCACA
1 TTCCTATAGTTTCACAATCACA
* * *
8452650 TTTCTAGAGTTTCAAAATCA
1 TTCCTATAGTTTCACAATCA
8452670 TAACTAAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
15 6 0.14
16 1 0.02
17 6 0.14
19 1 0.02
20 6 0.14
21 1 0.02
22 23 0.52
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (22 bp):
TTCCTATAGTTTCACAATCACA
Found at i:8454428 original size:22 final size:22
Alignment explanation
Indices: 8454402--8454444 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8454392 TCGACTTCCT
8454402 TATTTTCTATTT-CTTTTAATTA
1 TATTTTCT-TTTACTTTTAATTA
*
8454424 TATTTTCTTTTATTTTTAATT
1 TATTTTCTTTTACTTTTAATT
8454445 CTGTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTA
Found at i:8454813 original size:21 final size:19
Alignment explanation
Indices: 8454767--8454809 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
8454757 AACCCATTTG
*
8454767 ATATTTACATCAATTTCAT
1 ATATTCACATCAATTTCAT
*
8454786 ATATTCACATCAATTTCAC
1 ATATTCACATCAATTTCAT
8454805 ATATT
1 ATATT
8454810 TTCATATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTCACATCAATTTCAT
Found at i:8471722 original size:30 final size:29
Alignment explanation
Indices: 8471688--8471746 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
8471678 AAAGACAGAC
8471688 ATAGAC-ATTTCACACTTGGACTTACTCATA
1 ATAGACTA-TTCACA-TTGGACTTACTCATA
*
8471718 ATAGACTCATTCACATTTGACTTACTCAT
1 ATAGACT-ATTCACATTGGACTTACTCAT
8471747 TACATACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 19 0.73
31 6 0.23
32 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (29 bp):
ATAGACTATTCACATTGGACTTACTCATA
Found at i:8471761 original size:30 final size:30
Alignment explanation
Indices: 8471695--8471763 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8471685 GACATAGACA
*
8471695 TTTCACACTTGGACTTACTCATAATAGACTC
1 TTTCACA-TTGGACTTACTCATAACAGACTC
* * * *
8471726 ATTCACATTTGACTTACTCATTACATACTC
1 TTTCACATTGGACTTACTCATAACAGACTC
8471756 TTTCACAT
1 TTTCACAT
8471764 CAAACTTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTCACATTGGACTTACTCATAACAGACTC
Found at i:8472571 original size:14 final size:15
Alignment explanation
Indices: 8472540--8472573 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8472530 ATTTTATATG
8472540 GAATTTTAAATTAAT
1 GAATTTTAAATTAAT
*
8472555 GAATTTT-AATTATT
1 GAATTTTAAATTAAT
8472569 GAATT
1 GAATT
8472574 AAAAGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (15 bp):
GAATTTTAAATTAAT
Found at i:8483201 original size:24 final size:24
Alignment explanation
Indices: 8483167--8483376 Score: 215
Period size: 24 Copynumber: 8.5 Consensus size: 24
8483157 GTGGTGACGA
8483167 AGCTGCTGCTGCCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * *
8483191 AACTGCTGCTGCCGCTGTAA-CTCT
1 AGCTGCTGCTGCCGCTG-AAGTTCC
*
8483215 AGCTGCTGCTGCCGCTGTAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
8483239 AGCTGCTGCTGTCGCCGCTGAAGTTCC
1 AGCTGCTGC--T-GCCGCTGAAGTTCC
***
8483266 AGCTGCTGCTGTAACTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
*
8483290 AGCTGCTGCTGCCTCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * *
8483314 AACTGCTGCTGTCGCTTAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* *
8483338 ATTTGTTGCTGCTGTCGCTGAAGTTCC
1 A---GCTGCTGCTGCCGCTGAAGTTCC
* *
8483365 AACTGCCGCTGC
1 AGCTGCTGCTGC
8483377 TGTTGAAACT
Statistics
Matches: 153, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
23 1 0.01
24 105 0.69
25 3 0.02
26 1 0.01
27 43 0.28
ACGTcount: A:0.14, C:0.31, G:0.26, T:0.30
Consensus pattern (24 bp):
AGCTGCTGCTGCCGCTGAAGTTCC
Found at i:8483258 original size:75 final size:75
Alignment explanation
Indices: 8483168--8483328 Score: 209
Period size: 75 Copynumber: 2.1 Consensus size: 75
8483158 TGGTGACGAA
** *
8483168 GCTGCTG-CTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCCGCT
1 GCTGCTGTC-GCCGCTGAAGTTCCAACTGCTGCTGCAACTG-AAGCTCCAGCTGCTGCTGCCGCT
* *
8483231 GTAGTTCCAGCT
64 GAAGTTCCAACT
* * * *
8483243 GCTGCTGTCGCCGCTGAAGTTCCAGCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGCCTCTGA
1 GCTGCTGTCGCCGCTGAAGTTCCAACTGCTGCTGCAACTGAAGCTCCAGCTGCTGCTGCCGCTGA
8483308 AGTTCCAACT
66 AGTTCCAACT
8483318 GCTGCTGTCGC
1 GCTGCTGTCGC
8483329 TTAAGTTCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
74 2 0.03
75 72 0.96
76 1 0.01
ACGTcount: A:0.13, C:0.32, G:0.27, T:0.28
Consensus pattern (75 bp):
GCTGCTGTCGCCGCTGAAGTTCCAACTGCTGCTGCAACTGAAGCTCCAGCTGCTGCTGCCGCTGA
AGTTCCAACT
Found at i:8483308 original size:48 final size:48
Alignment explanation
Indices: 8483167--8483376 Score: 215
Period size: 51 Copynumber: 4.2 Consensus size: 48
8483157 GTGGTGACGA
* * *
8483167 AGCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGTAA-CTCT
1 AGCTGCTGCTGCCGCTGAAGTTCCAGCTGCTGCTGCCGCTG-AAGTTCC
*
8483215 AGCTGCTGCTGCCGCTGTAGTTCCAGCTGCTGCTGTCGCCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCCAGCTGCTGC--T-GCCGCTGAAGTTCC
*** *
8483266 AGCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCCAGCTGCTGCTGCCGCTGAAGTTCC
* * * * *
8483314 AACTGCTGCTGTCGCTTAAGTTCCATTTGTTGCTGCTGTCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCCA---GCTGCTGCTGCCGCTGAAGTTCC
* *
8483365 AACTGCCGCTGC
1 AGCTGCTGCTGC
8483377 TGTTGAAACT
Statistics
Matches: 137, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
48 65 0.47
49 1 0.01
50 3 0.02
51 68 0.50
ACGTcount: A:0.14, C:0.31, G:0.26, T:0.30
Consensus pattern (48 bp):
AGCTGCTGCTGCCGCTGAAGTTCCAGCTGCTGCTGCCGCTGAAGTTCC
Found at i:8483348 original size:75 final size:73
Alignment explanation
Indices: 8483169--8483376 Score: 206
Period size: 75 Copynumber: 2.8 Consensus size: 73
8483159 GGTGACGAAG
* *** * *
8483169 CTGCTGCTG-CCGCTGAAGTTCCAACTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCCGCTG
1 CTGCTGCTGTCCGCTGAAGTTCCAGCTGCTGCTGTAACTG-AAGTTCCAGCTGCTGCTGCCGCTG
* *
8483232 TAGTTCCAG
65 AAGTTCCAA
*
8483241 CTGCTGCTGTCGCCGCTGAAGTTCCAGCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGCCTCT
1 CTGCTGCTGT--CCGCTGAAGTTCCAGCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGCCGCT
8483306 GAAGTTCCAA
64 GAAGTTCCAA
* * ** * *
8483316 CTGCTGCTGT-CGCTTAAGTTCCATTTGTTGCTGCTGTCGCTGAAGTTCCAACTGCCGCTGC
1 CTGCTGCTGTCCGCTGAAGTTCCA---GCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGC
8483377 TGTTGAAACT
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
72 21 0.18
74 2 0.02
75 91 0.80
ACGTcount: A:0.13, C:0.31, G:0.25, T:0.30
Consensus pattern (73 bp):
CTGCTGCTGTCCGCTGAAGTTCCAGCTGCTGCTGTAACTGAAGTTCCAGCTGCTGCTGCCGCTGA
AGTTCCAA
Found at i:8487587 original size:2 final size:2
Alignment explanation
Indices: 8487582--8487610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8487572 AGGAAAACGC
8487582 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8487611 TCAAATTGGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8493325 original size:21 final size:19
Alignment explanation
Indices: 8493287--8493324 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8493277 AATTATATTG
*
8493287 TTGTTTTGGTGCTTTTTTA
1 TTGTTTTGGTACTTTTTTA
8493306 TTGTTTTGGTTACTTTTTT
1 TTGTTTTGG-TACTTTTTT
8493325 TGCTGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.05, C:0.05, G:0.18, T:0.71
Consensus pattern (19 bp):
TTGTTTTGGTACTTTTTTA
Found at i:8493369 original size:20 final size:20
Alignment explanation
Indices: 8493288--8493386 Score: 103
Period size: 21 Copynumber: 4.8 Consensus size: 20
8493278 ATTATATTGT
*
8493288 TGTTTTGGTGC-TTTTTTAT
1 TGTTTTGGTGCTTTTTTTAC
* *
8493307 TGTTTTGGTTACTTTTTTTGC
1 TGTTTTGG-TGCTTTTTTTAC
*
8493328 TGTTTTGATG-TTGTTTTCTAC
1 TGTTTTGGTGCTT-TTTT-TAC
8493349 TGTTTTGGTGCTTTTTTTAC
1 TGTTTTGGTGCTTTTTTTAC
*
8493369 TGTTTTAGTGCTGTTTTT
1 TGTTTTGGTGCT-TTTTT
8493387 GTTGCTATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
19 10 0.15
20 21 0.32
21 33 0.50
22 2 0.03
ACGTcount: A:0.06, C:0.08, G:0.20, T:0.66
Consensus pattern (20 bp):
TGTTTTGGTGCTTTTTTTAC
Found at i:8493392 original size:12 final size:12
Alignment explanation
Indices: 8493368--8493462 Score: 95
Period size: 12 Copynumber: 8.0 Consensus size: 12
8493358 GCTTTTTTTA
*
8493368 CTGTTTTAG-TG
1 CTGTTTTTGTTG
8493379 CTGTTTTTGTTG
1 CTGTTTTTGTTG
*
8493391 CTATTTTTGTTG
1 CTGTTTTTGTTG
*
8493403 CTATTTTT-TCTG
1 CTGTTTTTGT-TG
* *
8493415 TTATTTTTGTTG
1 CTGTTTTTGTTG
*
8493427 TTGTTTTTGTTG
1 CTGTTTTTGTTG
*
8493439 CTTTTTTTGTTG
1 CTGTTTTTGTTG
*
8493451 CTGTTTTGGTTG
1 CTGTTTTTGTTG
8493463 TTATTTTGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
11 9 0.12
12 63 0.86
13 1 0.01
ACGTcount: A:0.04, C:0.07, G:0.21, T:0.67
Consensus pattern (12 bp):
CTGTTTTTGTTG
Found at i:8493404 original size:24 final size:24
Alignment explanation
Indices: 8493377--8493474 Score: 117
Period size: 24 Copynumber: 4.1 Consensus size: 24
8493367 ACTGTTTTAG
8493377 TGCTGTTTTTGTTGCTATTTTTGT
1 TGCTGTTTTTGTTGCTATTTTTGT
* *
8493401 TGCTATTTTT-TCTGTTATTTTTGT
1 TGCTGTTTTTGT-TGCTATTTTTGT
* *
8493425 TGTTGTTTTTGTTGCTTTTTTTGT
1 TGCTGTTTTTGTTGCTATTTTTGT
* * *
8493449 TGCTGTTTTGGTTGTTATTTTGGT
1 TGCTGTTTTTGTTGCTATTTTTGT
8493473 TG
1 TG
8493475 TTTAGATGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
23 1 0.02
24 59 0.97
25 1 0.02
ACGTcount: A:0.04, C:0.06, G:0.21, T:0.68
Consensus pattern (24 bp):
TGCTGTTTTTGTTGCTATTTTTGT
Found at i:8493446 original size:48 final size:48
Alignment explanation
Indices: 8493380--8493476 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
8493370 GTTTTAGTGC
* *
8493380 TGTTTTTGTTGCTATTTTTGTTGCTATTTT-TTCTGTTATTTTTGTTGT
1 TGTTTTTGTTGCTATTTTTGTTGCTATTTTGGT-TGTTATTTTGGTTGT
* *
8493428 TGTTTTTGTTGCTTTTTTTGTTGCTGTTTTGGTTGTTATTTTGGTTGT
1 TGTTTTTGTTGCTATTTTTGTTGCTATTTTGGTTGTTATTTTGGTTGT
8493476 T
1 T
8493477 TAGATGTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.04, C:0.05, G:0.21, T:0.70
Consensus pattern (48 bp):
TGTTTTTGTTGCTATTTTTGTTGCTATTTTGGTTGTTATTTTGGTTGT
Found at i:8493469 original size:12 final size:12
Alignment explanation
Indices: 8493382--8493476 Score: 95
Period size: 12 Copynumber: 7.9 Consensus size: 12
8493372 TTTAGTGCTG
*
8493382 TTTTTGTTGCTA
1 TTTTTGTTGTTA
*
8493394 TTTTTGTTGCTA
1 TTTTTGTTGTTA
8493406 TTTTT-TCTGTTA
1 TTTTTGT-TGTTA
*
8493418 TTTTTGTTGTTG
1 TTTTTGTTGTTA
8493430 TTTTTGTTGCTT-
1 TTTTTGTTG-TTA
* *
8493442 TTTTTGTTGCTG
1 TTTTTGTTGTTA
*
8493454 TTTTGGTTGTTA
1 TTTTTGTTGTTA
*
8493466 TTTTGGTTGTT
1 TTTTTGTTGTT
8493477 TAGATGTTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
11 2 0.03
12 68 0.93
13 3 0.04
ACGTcount: A:0.04, C:0.05, G:0.20, T:0.71
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:8494594 original size:20 final size:20
Alignment explanation
Indices: 8494571--8494609 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8494561 AATTTAAAAC
8494571 TAAAAA-TTAATAAAAATATA
1 TAAAAAGTT-ATAAAAATATA
*
8494591 TAAAAAGTTTTAAAAATAT
1 TAAAAAGTTATAAAAATAT
8494610 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAGTTATAAAAATATA
Found at i:8494864 original size:17 final size:17
Alignment explanation
Indices: 8494842--8494879 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
8494832 TTATTTTAAG
8494842 TTAAATTTGTATTCTAT
1 TTAAATTTGTATTCTAT
8494859 TTAAATTTGTATTCTAT
1 TTAAATTTGTATTCTAT
8494876 TTAA
1 TTAA
8494880 TCATATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTAAATTTGTATTCTAT
Found at i:8500843 original size:7 final size:7
Alignment explanation
Indices: 8500831--8500863 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
8500821 CCAGTTCTCT
8500831 CCACCTA
1 CCACCTA
8500838 CCACCTA
1 CCACCTA
8500845 CCACCTA
1 CCACCTA
8500852 CCACCTA
1 CCACCTA
8500859 CCACC
1 CCACC
8500864 CCACCCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.61, G:0.00, T:0.12
Consensus pattern (7 bp):
CCACCTA
Found at i:8503130 original size:22 final size:23
Alignment explanation
Indices: 8503105--8503148 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8503095 TTGATCCTGA
8503105 TATTGTATCTATTA-G-ATTTTAT
1 TATTGTA-CTATTATGAATTTTAT
*
8503127 TATTTTACTATTATGAATTTTA
1 TATTGTACTATTATGAATTTTA
8503149 GGATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (23 bp):
TATTGTACTATTATGAATTTTAT
Found at i:8503179 original size:18 final size:18
Alignment explanation
Indices: 8503156--8503190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8503146 TTAGGATATT
*
8503156 TTTAGGTATTTTAAGTTA
1 TTTAGGGATTTTAAGTTA
*
8503174 TTTAGGGGTTTTAAGTT
1 TTTAGGGATTTTAAGTT
8503191 TCTTGGTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (18 bp):
TTTAGGGATTTTAAGTTA
Found at i:8510580 original size:22 final size:23
Alignment explanation
Indices: 8510529--8510580 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
8510519 TTCATTTAGA
* *
8510529 TATTTTA-TAACTTATAAAATTT
1 TATTTTAGTAACTGATAAAATTG
**
8510551 TAAATTAGTAA-TGATAAAATTG
1 TATTTTAGTAACTGATAAAATTG
8510573 TATTTTAG
1 TATTTTAG
8510581 CTCTCCAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (23 bp):
TATTTTAGTAACTGATAAAATTG
Found at i:8511200 original size:72 final size:72
Alignment explanation
Indices: 8510976--8511200 Score: 265
Period size: 72 Copynumber: 3.1 Consensus size: 72
8510966 ATTATCAGGG
* * * * *
8510976 TTCGACTTGCGTCAATCGTGTTGTTGTTAGCATGATGGTCAA-GTATATTCATTGCCACATGTGT
1 TTCGAGTTGCGTCAATCGCGTTGTTATTAGCATGATGGTCAATG-ATATTTATTGCCACAAGTGT
8511040 GATCTA-A
65 GATCTAGA
* * * * * *
8511047 GTTTGAGTTACGTCAATCGCGTTGTTATTAGCATAATGGTCAATGGTATTTATTACCTCAAGTGT
1 -TTCGAGTTGCGTCAATCGCGTTGTTATTAGCATGATGGTCAATGATATTTATTGCCACAAGTGT
* * *
8511112 GGTCTGGG
65 GATCTAGA
* * *
8511120 TTCGAGTTGCGTTAATTGCGTTGTTATTAGCATGATGGTCAATGATATTTATTGCCCCAAGTGTG
1 TTCGAGTTGCGTCAATCGCGTTGTTATTAGCATGATGGTCAATGATATTTATTGCCACAAGTGTG
8511185 ATCTAGA
66 ATCTAGA
8511192 TTCGAGTTG
1 TTCGAGTTG
8511201 TGCTAATCAC
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
72 125 0.99
73 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (72 bp):
TTCGAGTTGCGTCAATCGCGTTGTTATTAGCATGATGGTCAATGATATTTATTGCCACAAGTGTG
ATCTAGA
Found at i:8512043 original size:18 final size:18
Alignment explanation
Indices: 8512020--8512062 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8512010 TTTTCAGTTG
8512020 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
8512038 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
8512056 TAATTAA
1 TAATTAA
8512063 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:8515240 original size:24 final size:25
Alignment explanation
Indices: 8515213--8515260 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
8515203 TCCTTTAGAA
8515213 AATTATCAATT-ATCAATATTTACT
1 AATTATCAATTAATCAATATTTACT
8515237 AATTATCAATTAAATCAATATTTA
1 AATTATCAATT-AATCAATATTTA
8515261 ATCAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTATCAATTAATCAATATTTACT
Found at i:8515266 original size:20 final size:20
Alignment explanation
Indices: 8515241--8515279 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8515231 TTTACTAATT
8515241 ATCAATTAAATCAATATTTA
1 ATCAATTAAATCAATATTTA
8515261 ATCAATTAAATCAATATTT
1 ATCAATTAAATCAATATTT
8515280 TTTAAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
ATCAATTAAATCAATATTTA
Found at i:8518717 original size:16 final size:16
Alignment explanation
Indices: 8518696--8518752 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
8518686 GCTAAAAGAA
8518696 TTTAATGGCTCATGAT
1 TTTAATGGCTCATGAT
* * * *
8518712 TTTAATAATGCTAAAAGAA
1 TTTAAT--GGCT-CATGAT
8518731 TTTAATGGCTCATGAT
1 TTTAATGGCTCATGAT
8518747 TTTAAT
1 TTTAAT
8518753 AATGCTTGGT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 15 0.50
17 3 0.10
18 3 0.10
19 9 0.30
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (16 bp):
TTTAATGGCTCATGAT
Found at i:8518732 original size:35 final size:35
Alignment explanation
Indices: 8518686--8518758 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
8518676 CCGGGCTAAG
8518686 GCTAAAAGAATTTAATGGCTCATGATTTTAATAAT
1 GCTAAAAGAATTTAATGGCTCATGATTTTAATAAT
8518721 GCTAAAAGAATTTAATGGCTCATGATTTTAATAAT
1 GCTAAAAGAATTTAATGGCTCATGATTTTAATAAT
8518756 GCT
1 GCT
8518759 TGGTGGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (35 bp):
GCTAAAAGAATTTAATGGCTCATGATTTTAATAAT
Found at i:8518755 original size:19 final size:19
Alignment explanation
Indices: 8518698--8518756 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
8518688 TAAAAGAATT
8518698 TAATGGCTCATGATTTTAA
1 TAATGGCTCATGATTTTAA
* * *
8518717 TAAT-GCTAAAAGA-ATT--
1 TAATGGCT-CATGATTTTAA
8518733 TAATGGCTCATGATTTTAA
1 TAATGGCTCATGATTTTAA
8518752 TAATG
1 TAATG
8518757 CTTGGTGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
16 7 0.24
17 5 0.17
18 5 0.17
19 12 0.41
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (19 bp):
TAATGGCTCATGATTTTAA
Found at i:8519672 original size:24 final size:24
Alignment explanation
Indices: 8519642--8519695 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
8519632 ACAAGGCAGC
*
8519642 TCGGTTTGTGGAGTGTTACAAGCT
1 TCGGTTTGCGGAGTGTTACAAGCT
*
8519666 TTGGTTTGCGGAGTGTTACAAGCT
1 TCGGTTTGCGGAGTGTTACAAGCT
8519690 TCGGTT
1 TCGGTT
8519696 CGTCACTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.39
Consensus pattern (24 bp):
TCGGTTTGCGGAGTGTTACAAGCT
Found at i:8537810 original size:14 final size:14
Alignment explanation
Indices: 8537793--8537833 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
8537783 TTCGATTAAC
*
8537793 TCGATTAATTCAAT
1 TCGAATAATTCAAT
**
8537807 TCGAATAATTTGAT
1 TCGAATAATTCAAT
8537821 TCGAATAATTCAA
1 TCGAATAATTCAA
8537834 AATTCGATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (14 bp):
TCGAATAATTCAAT
Found at i:8541096 original size:19 final size:18
Alignment explanation
Indices: 8541040--8541098 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
8541030 AGGGAATAGT
*
8541040 AATACTGGCTCGTTGAAC
1 AATACTGGCTCGTTGAGC
*
8541058 AATACTGGCTCATTGAGC
1 AATACTGGCTCGTTGAGC
*
8541076 AATACTGGCTCGTAAGAGC
1 AATACTGGCTCGT-TGAGC
8541095 AATA
1 AATA
8541099 TTGGATCGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 28 0.78
19 8 0.22
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (18 bp):
AATACTGGCTCGTTGAGC
Found at i:8556213 original size:21 final size:21
Alignment explanation
Indices: 8556189--8556239 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
8556179 ATAATAGAAG
8556189 TAATATTA-ATTAAATATTAAT-
1 TAATATTATATT--ATATTAATA
8556210 TAATATTATATTATATTAATA
1 TAATATTATATTATATTAATA
*
8556231 TAAAATTAT
1 TAATATTAT
8556240 TTCTTTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 16 0.59
22 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATTATATTATATTAATA
Found at i:8556231 original size:11 final size:10
Alignment explanation
Indices: 8556189--8556229 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
8556179 ATAATAGAAG
8556189 TAATATTAAT
1 TAATATTAAT
8556199 TAAATATTAAT
1 T-AATATTAAT
8556210 TAATATTATAT
1 TAATATTA-AT
8556221 T-ATATTAAT
1 TAATATTAAT
8556230 ATAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.07
10 14 0.48
11 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TAATATTAAT
Found at i:8557041 original size:18 final size:20
Alignment explanation
Indices: 8557015--8557060 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
8557005 CGCCCTTGAA
*
8557015 TATAGTTATAG-T-TTTAAT
1 TATAATTATAGTTATTTAAT
8557033 TATAATTATAGTTATTTAAT
1 TATAATTATAGTTATTTAAT
8557053 TAATAATT
1 T-ATAATT
8557061 TTTTCATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 1 0.04
20 7 0.29
21 6 0.25
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
TATAATTATAGTTATTTAAT
Found at i:8557832 original size:10 final size:10
Alignment explanation
Indices: 8557788--8557832 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
8557778 ATAATAAAAA
8557788 TAATATTAAT
1 TAATATTAAT
*
8557798 TAAATATTAGT
1 T-AATATTAAT
8557809 TAATA-TAAT
1 TAATATTAAT
8557818 ATAATATTAAT
1 -TAATATTAAT
8557829 TAAT
1 TAAT
8557833 TTGGTCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 3 0.10
10 14 0.47
11 13 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
TAATATTAAT
Found at i:8557912 original size:24 final size:22
Alignment explanation
Indices: 8557857--8557912 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
8557847 TAAAAGTTCT
*
8557857 AATTAAAAATAATAATATAATA
1 AATTAAAAATAATAAAATAATA
* *
8557879 TATTACAAAATTAATAAAATTATA
1 AATTA-AAAA-TAATAAAATAATA
8557903 AATTTAAAAA
1 AA-TTAAAAA
8557913 AATTATTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 16 0.59
25 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AATTAAAAATAATAAAATAATA
Found at i:8559059 original size:23 final size:25
Alignment explanation
Indices: 8559027--8559076 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
8559017 TTTCTTATTT
*
8559027 AATTAATAAATATATATT-TTTAAA
1 AATTAATAAATAAATATTATTTAAA
8559051 AATT-ATAAATAAATATTATTTAAA
1 AATTAATAAATAAATATTATTTAAA
8559075 AA
1 AA
8559077 AATTAAAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAATAAATAAATATTATTTAAA
Found at i:8559070 original size:26 final size:27
Alignment explanation
Indices: 8559031--8559081 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
8559021 TTATTTAATT
**
8559031 AATAAATATATATTTTTAAAAATTATA
1 AATAAATATATATTTAAAAAAATTATA
8559058 AATAAATAT-TATTTAAAAAAATTA
1 AATAAATATATATTTAAAAAAATTA
8559082 AAGGTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AATAAATATATATTTAAAAAAATTATA
Found at i:8559083 original size:24 final size:26
Alignment explanation
Indices: 8559027--8559083 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
8559017 TTTCTTATTT
*
8559027 AATT-AATAAATATATATTTTTAAAA
1 AATTAAATAAATATATATTTTAAAAA
*
8559052 ATTATAAATAAATAT-TA-TTTAAAAA
1 AAT-TAAATAAATATATATTTTAAAAA
8559077 AATTAAA
1 AATTAAA
8559084 GGTAATCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.15
25 11 0.41
26 3 0.11
27 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAAATAAATATATATTTTAAAAA
Found at i:8560582 original size:18 final size:17
Alignment explanation
Indices: 8560540--8560584 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
8560530 TTTTTATATT
*
8560540 TAGTTTTTATTTTCTTT
1 TAGTTTTTATTTTCTTC
8560557 TA-TATTTTGATTTTCTTC
1 TAGT-TTTT-ATTTTCTTC
8560575 TAGTTTTTAT
1 TAGTTTTTAT
8560585 CTGCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 14 0.58
19 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (17 bp):
TAGTTTTTATTTTCTTC
Found at i:8562479 original size:4 final size:4
Alignment explanation
Indices: 8562470--8562496 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8562460 CTTAAAAGAA
8562470 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
8562497 CCCTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:8568822 original size:23 final size:23
Alignment explanation
Indices: 8568781--8568824 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8568771 ACTAGCCATG
*
8568781 CTTTTATTTCACTCGTTTTTTTT
1 CTTTTATTTCACTCATTTTTTTT
*
8568804 CTTTTA-TTCACTCAATTTTTT
1 CTTTTATTTCACTCATTTTTTT
8568825 AAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (23 bp):
CTTTTATTTCACTCATTTTTTTT
Found at i:8571736 original size:12 final size:12
Alignment explanation
Indices: 8571721--8571745 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8571711 GTGTGTGTGT
8571721 GTGAGAGAGAGA
1 GTGAGAGAGAGA
8571733 GTGAGAGAGAGA
1 GTGAGAGAGAGA
8571745 G
1 G
8571746 AGATTGGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.52, T:0.08
Consensus pattern (12 bp):
GTGAGAGAGAGA
Found at i:8573680 original size:49 final size:48
Alignment explanation
Indices: 8573623--8573836 Score: 217
Period size: 49 Copynumber: 4.5 Consensus size: 48
8573613 TCAAACGAGC
*
8573623 AAGACCATAGCTGAAAGATGTTATGGCATCAGGATGAATAAAAATGTGA
1 AAGACCATAGCTGAAAGATGTTATGGCATC-GGATGAATAAAAATGAGA
*
8573672 AAGACCATAGCTGAAAGATGTTATGGCATCGAGATGAATAAAAATGACA
1 AAGACCATAGCTGAAAGATGTTATGGCATCG-GATGAATAAAAATGAGA
** * * * *
8573721 AAGACCATAGCTGAAAGGCGTTATAGTATC--ATG-ATGAAAATGAGT
1 AAGACCATAGCTGAAAGATGTTATGGCATCGGATGAATAAAAATGAGA
* * * * **
8573766 AAGACCATGGCTGAAAGATGCTATGGCATC--ATTG--TAAATAGGATT
1 AAGACCATAGCTGAAAGATGTTATGGCATCGGA-TGAATAAAAATGAGA
*
8573811 AAGACCATAGCTGAAAGACGTTATGG
1 AAGACCATAGCTGAAAGATGTTATGG
8573837 TATCCTTTGA
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
45 64 0.45
46 5 0.04
48 1 0.01
49 71 0.50
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (48 bp):
AAGACCATAGCTGAAAGATGTTATGGCATCGGATGAATAAAAATGAGA
Found at i:8576522 original size:19 final size:20
Alignment explanation
Indices: 8576481--8576518 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
8576471 ATAAAAAAAG
8576481 TAAAGTTCAAGTGAACAACA
1 TAAAGTTCAAGTGAACAACA
8576501 TAAA-TTCAAGT-AACAACA
1 TAAAGTTCAAGTGAACAACA
8576519 ATAACACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAGTTCAAGTGAACAACA
Found at i:8579603 original size:70 final size:70
Alignment explanation
Indices: 8579490--8579626 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
8579480 TTATGCATTT
*
8579490 ATGAAAAGATCTTAGAAATATTTGTATAAACTAGAAACAGAGGAATATAAATAGAACTAAGCAAA
1 ATGAAAAGATCTTAGAAATATTTGTATAAACTAGAAACAGAGGAATAGAAATAGAACTAAGCAAA
8579555 ATATC
66 ATATC
* *
8579560 ATGAAAAGATCTTAGAAATATTTGTATAAAAC-AGAAATAGAGGAATAGCAATAGAACTAAGCAA
1 ATGAAAAGATCTTAGAAATATTTGTAT-AAACTAGAAACAGAGGAATAGAAATAGAACTAAGCAA
8579624 AAT
65 AAT
8579627 TAAATTTCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 59 0.94
71 4 0.06
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.23
Consensus pattern (70 bp):
ATGAAAAGATCTTAGAAATATTTGTATAAACTAGAAACAGAGGAATAGAAATAGAACTAAGCAAA
ATATC
Found at i:8589676 original size:21 final size:21
Alignment explanation
Indices: 8589638--8589677 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8589628 GATTGACTTC
*
8589638 AAGGACAAGAAAAGAAAGAGG
1 AAGGACAAGAAAAAAAAGAGG
8589659 AAGGACAA-AAAGAAAAAGA
1 AAGGACAAGAAA-AAAAAGA
8589678 AGCACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.68, C:0.05, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGGACAAGAAAAAAAAGAGG
Found at i:8589679 original size:18 final size:19
Alignment explanation
Indices: 8589647--8589690 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8589637 CAAGGACAAG
* *
8589647 AAAAGAAAGAGGAAGGACA
1 AAAAGAAAGAAGAAGCACA
8589666 AAAAGAAA-AAGAAGCACA
1 AAAAGAAAGAAGAAGCACA
8589684 AAGAAGA
1 AA-AAGA
8589691 GCACCCAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.68, C:0.07, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAGAAGCACA
Found at i:8594060 original size:23 final size:23
Alignment explanation
Indices: 8594040--8594181 Score: 223
Period size: 23 Copynumber: 6.2 Consensus size: 23
8594030 TCCATTTATA
*
8594040 CATAAATCACATTAATCTTTAAG
1 CATAAATCACATTAATATTTAAG
8594063 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
*
8594086 CACAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
*
8594109 CATAAATCATATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
8594132 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* *
8594155 CACAAATAACATTAATATCTTAA-
1 CATAAATCACATTAATAT-TTAAG
8594178 CATA
1 CATA
8594182 TTTAATGATA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
23 106 0.96
24 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Found at i:8594627 original size:36 final size:36
Alignment explanation
Indices: 8594587--8594899 Score: 446
Period size: 36 Copynumber: 8.7 Consensus size: 36
8594577 ATTGTCACAC
* *
8594587 GGCATGAATAACATACCCACATATTTATTATCTCAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
** * *
8594623 GGCATGAATAATGTACCCACATATTTATTGTCACAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
*
8594659 GGCATGAATAACATACCCACATATTTACTATCTCAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
* * *
8594695 GACATGAATAACATACCTACATATTTACTGTCTCAC
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
* * **
8594731 GGCATGAATAACATGCCCACATATTTTCTGTCAAAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
8594767 GGCATGAATAACATACCCACATATTTACTGTCTCAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
* *
8594803 GGCATGAATAACATACCTACATATTTACTGTCACAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
* * *
8594839 GGAATGAATAACATACCCACATATTTAGTATCTCAT
1 GGCATGAATAACATACCCACATATTTACTGTCTCAT
*
8594875 GGGATGAATAACATACCCACATATT
1 GGCATGAATAACATACCCACATATT
8594900 GACTTTCACA
Statistics
Matches: 245, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 245 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (36 bp):
GGCATGAATAACATACCCACATATTTACTGTCTCAT
Found at i:8601708 original size:23 final size:23
Alignment explanation
Indices: 8601692--8601892 Score: 339
Period size: 23 Copynumber: 8.7 Consensus size: 23
8601682 ATTTACATAT
* *
8601692 AAATCACATTAATATTTAAGAAT
1 AAATCACATTAATATTTAAGCAC
8601715 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
* *
8601738 AAATCATATTTATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
*
8601761 AAATCACATTTATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
8601784 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
*
8601807 AAATCACATTAATATTTAAGCAA
1 AAATCACATTAATATTTAAGCAC
*
8601830 AAATCATATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
8601853 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
8601876 AAATCACATTAATATTT
1 AAATCACATTAATATTT
8601893 TAACGCATTT
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 168 1.00
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (23 bp):
AAATCACATTAATATTTAAGCAC
Found at i:8602343 original size:36 final size:36
Alignment explanation
Indices: 8602303--8602610 Score: 472
Period size: 36 Copynumber: 8.6 Consensus size: 36
8602293 TTCATTGTCA
* *
8602303 CATGGCATGAATAATATACCCATATATTTACTATCT
1 CATGGCATGAATAACATACCCACATATTTACTATCT
8602339 CATGGCATGAATAACATACCCACATATTTACTATCT
1 CATGGCATGAATAACATACCCACATATTTACTATCT
* *
8602375 CATGGCATGAATAACATACCTACATATTTACTATCA
1 CATGGCATGAATAACATACCCACATATTTACTATCT
* * *
8602411 CAAGGCATGAATAACATACCCACATGTTTACTGTCT
1 CATGGCATGAATAACATACCCACATATTTACTATCT
* *
8602447 CATGACATGAATAACATACCCACATATTTACTGTCT
1 CATGGCATGAATAACATACCCACATATTTACTATCT
** * *
8602483 CATGGCATGAATAACATGGCCACATATTTACTGTCA
1 CATGGCATGAATAACATACCCACATATTTACTATCT
8602519 CATGGCATGAATAACATACCCACATATTTACTATCT
1 CATGGCATGAATAACATACCCACATATTTACTATCT
* *
8602555 CATGACATGAATAACATACCCACATATTTACTATCA
1 CATGGCATGAATAACATACCCACATATTTACTATCT
*
8602591 CATGACATGAATAACATACC
1 CATGGCATGAATAACATACC
8602611 TGTAACACCC
Statistics
Matches: 250, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 250 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.30
Consensus pattern (36 bp):
CATGGCATGAATAACATACCCACATATTTACTATCT
Found at i:8607268 original size:26 final size:26
Alignment explanation
Indices: 8607192--8607261 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
8607182 CAACGAACTG
*
8607192 CTCAAGGGACCTCCGACTAACTCAAA
1 CTCAAGGGACCTCCGACCAACTCAAA
8607218 CTCAAGGGACCTCCGACCAACTCAAA
1 CTCAAGGGACCTCCGACCAACTCAAA
* *
8607244 CTCAAGGGTCCTCGGACC
1 CTCAAGGGACCTCCGACC
8607262 CATTCAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.30, C:0.37, G:0.19, T:0.14
Consensus pattern (26 bp):
CTCAAGGGACCTCCGACCAACTCAAA
Found at i:8608885 original size:24 final size:24
Alignment explanation
Indices: 8608850--8608904 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
8608840 AATATTTATA
* *
8608850 AATAAACGAGCTTATAAATGAGTC
1 AATAAACAAGCTTATAAACGAGTC
8608874 AATAAACAAGCTTATAAACGAGTC
1 AATAAACAAGCTTATAAACGAGTC
8608898 AATAAAC
1 AATAAAC
8608905 GAACTTGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.22
Consensus pattern (24 bp):
AATAAACAAGCTTATAAACGAGTC
Found at i:8615698 original size:18 final size:18
Alignment explanation
Indices: 8615675--8615709 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8615665 ATGATGTGTC
8615675 AAACTACTTTCATGCTTG
1 AAACTACTTTCATGCTTG
* *
8615693 AAACTATTTTGATGCTT
1 AAACTACTTTCATGCTT
8615710 CCTGTTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACTACTTTCATGCTTG
Found at i:8626804 original size:26 final size:26
Alignment explanation
Indices: 8626767--8626856 Score: 101
Period size: 26 Copynumber: 3.5 Consensus size: 26
8626757 TACTAAATTG
* *
8626767 GCTCGTAAGAGCAATATATTGCACTA
1 GCTCGTAAGAGCGATATACTGCACTA
* * *
8626793 GCTCGTAGGAGCGATATACTACACTG
1 GCTCGTAAGAGCGATATACTGCACTA
*
8626819 GCTCGTAAGAGCGATTTACTG-ACTA
1 GCTCGTAAGAGCGATATACTGCACTA
*
8626844 TGCTCGTATGAGC
1 -GCTCGTAAGAGC
8626857 TAAATTTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 3 0.06
26 50 0.94
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
GCTCGTAAGAGCGATATACTGCACTA
Found at i:8649052 original size:12 final size:13
Alignment explanation
Indices: 8649027--8649061 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
8649017 TAAATCAAGC
8649027 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
8649040 TTTTCAAAA-TAT
1 TTTTCAAAAGTAT
*
8649052 TTTTCTAAAG
1 TTTTCAAAAG
8649062 CACTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (13 bp):
TTTTCAAAAGTAT
Found at i:8649459 original size:18 final size:18
Alignment explanation
Indices: 8649426--8649489 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
8649416 TTAAAAATAC
8649426 AAAT-TTTAGAATTTTTA
1 AAATATTTAGAATTTTTA
8649443 TAAATATTTAGAA-TTTTA
1 -AAATATTTAGAATTTTTA
**
8649461 AAATTATTTTCAATTTTTGA
1 AAA-TATTTAGAATTTTT-A
8649481 AAATTATTT
1 AAA-TATTT
8649490 TGATTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 16 0.40
19 11 0.28
20 10 0.25
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
AAATATTTAGAATTTTTA
Found at i:8653421 original size:23 final size:22
Alignment explanation
Indices: 8653373--8653422 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
8653363 ATTTAGTTTT
* *
8653373 TTTTTATTAATTTGATAATTAT
1 TTTTTATTAAATTGATAATTAA
* *
8653395 TTTTTATTTAAATTGGTCATTAA
1 TTTTTA-TTAAATTGATAATTAA
8653418 TTTTT
1 TTTTT
8653423 CAATAAAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTTTATTAAATTGATAATTAA
Found at i:8653631 original size:30 final size:32
Alignment explanation
Indices: 8653585--8653643 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
8653575 TAAAAATTCT
8653585 AAAAAGTATTTGAAAAA-TAAAAAAATTATAA
1 AAAAAGTATTTGAAAAATTAAAAAAATTATAA
* *
8653616 AAAAAGT-TTTTAAAAATTCAAAAAATTA
1 AAAAAGTATTTGAAAAATTAAAAAAATTA
8653644 GCATGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (32 bp):
AAAAAGTATTTGAAAAATTAAAAAAATTATAA
Found at i:8654257 original size:24 final size:24
Alignment explanation
Indices: 8654204--8654293 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
8654194 GGTCGAAATT
**
8654204 AAATTATAATTT--TTATGATAAA
1 AAATTATAATTTAATTATTTTAAA
* *
8654226 AAAATATAATTTAATTATTTTAAT
1 AAATTATAATTTAATTATTTTAAA
* * *
8654250 AAATTATATTTTTATAATTTTTAAA
1 AAATTATAATTTAATTA-TTTTAAA
8654275 AAATTA-AA-TTAATT-TTTTA
1 AAATTATAATTTAATTATTTTA
8654294 TATTTTTAAG
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
21 5 0.09
22 11 0.21
23 4 0.08
24 21 0.40
25 12 0.23
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
AAATTATAATTTAATTATTTTAAA
Found at i:8654563 original size:4 final size:4
Alignment explanation
Indices: 8654556--8654593 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
8654546 AACATATATA
8654556 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
8654594 AATGTAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:8677362 original size:31 final size:31
Alignment explanation
Indices: 8677316--8677408 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
8677306 AAAAATGATA
* *
8677316 GACAGATGCACCCCATGAAGACGAACTATCT
1 GACAGAGGCATCCCATGAAGACGAACTATCT
8677347 GACAGAGGCATCCCATGAAGACGAACTATCT
1 GACAGAGGCATCCCATGAAGACGAACTATCT
* *
8677378 GACAGAGGCATCCCACGAAGACGGACTATCT
1 GACAGAGGCATCCCATGAAGACGAACTATCT
8677409 CAGAAACGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (31 bp):
GACAGAGGCATCCCATGAAGACGAACTATCT
Found at i:8680666 original size:30 final size:29
Alignment explanation
Indices: 8680623--8680840 Score: 146
Period size: 29 Copynumber: 7.4 Consensus size: 29
8680613 AAACTGTCCG
*
8680623 AAAATTATA-TTTTGACCTCGAAACTTTCA
1 AAAATTACATTTTTGACC-CGAAACTTTCA
* *
8680652 AAAATTACATTTTTGACCTCAAAACTTCTCC
1 AAAATTACATTTTTGACC-CGAAACTT-TCA
* *
8680683 AAAATTACAATTTTGACCCTAAAC-TTCTA
1 AAAATTACATTTTTGACCCGAAACTTTC-A
* *
8680712 AAAATTCCATTTTTTACCCCCG-AACTTTCA
1 AAAATTACATTTTTGA--CCCGAAACTTTCA
* **
8680742 AAAATT-CTATTTTTGACCC-AAAATGCCA
1 AAAATTAC-ATTTTTGACCCGAAACTTTCA
* * *
8680770 AAAATTACCA-TTTT-ACCCCTAAATTTTTA
1 AAAATTA-CATTTTTGA-CCCGAAACTTTCA
* *
8680799 AAAATT-CTATTTTTGACCCGAAAATTCCA
1 AAAATTAC-ATTTTTGACCCGAAACTTTCA
*
8680828 AAAATTATATTTT
1 AAAATTACATTTT
8680841 ACCCCTAAAA
Statistics
Matches: 150, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
27 2 0.01
28 24 0.16
29 59 0.39
30 40 0.27
31 25 0.17
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTTGACCCGAAACTTTCA
Found at i:8680738 original size:60 final size:58
Alignment explanation
Indices: 8680623--8680873 Score: 148
Period size: 57 Copynumber: 4.3 Consensus size: 58
8680613 AAACTGTCCG
* * * *
8680623 AAAATTA-TATTTTGACCTCGAAACTT-TCAAAAATTACATTTTTGACCTCAAAACTTCTCC
1 AAAATTACAATTTTGACC-C-AAACTTCT-AAAAATTCCATTTTTGACCCCAAAACTT-TCA
* **
8680683 AAAATTACAATTTTGACCCTAAACTTCTAAAAATTCCATTTTTTACCCCCGAACTTTCA
1 AAAATTACAATTTTGACCC-AAACTTCTAAAAATTCCATTTTTGACCCCAAAACTTTCA
* * * * * * *
8680742 AAAATT-CTATTTTTGACCCAAAATGCCAAAAATTACCA-TTTT-ACCCCTAAATTTTTA
1 AAAATTAC-AATTTTGACCCAAACTTCTAAAAATT-CCATTTTTGACCCCAAAACTTTCA
* * *
8680799 AAAATT-CTATTTTTGACCCGAAAATTCCAAAAATT--ATATTTT-ACCCCTAAAA--TTCTA
1 AAAATTAC-AATTTTGACCC-AAACTTCTAAAAATTCCAT-TTTTGACCCC-AAAACTTTC-A
*
8680856 AAAATTACCATTTT-ACCC
1 AAAATTACAATTTTGACCC
8680874 TTGAATATCC
Statistics
Matches: 160, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
55 1 0.01
56 6 0.04
57 50 0.31
58 35 0.22
59 21 0.13
60 37 0.23
61 10 0.06
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATTACAATTTTGACCCAAACTTCTAAAAATTCCATTTTTGACCCCAAAACTTTCA
Found at i:8680806 original size:57 final size:57
Alignment explanation
Indices: 8680723--8680861 Score: 190
Period size: 57 Copynumber: 2.4 Consensus size: 57
8680713 AAATTCCATT
** * *
8680723 TTTTACCCCCGAACTTTCAAAAATTCTATTTTTGACCC-AAAATGCCAAAAATTACCA
1 TTTTACCCCTAAAATTTTAAAAATTCTATTTTTGACCCGAAAATGCCAAAAATTA-CA
* * *
8680780 TTTTACCCCTAAATTTTTAAAAATTCTATTTTTGACCCGAAAATTCCAAAAATTATA
1 TTTTACCCCTAAAATTTTAAAAATTCTATTTTTGACCCGAAAATGCCAAAAATTACA
*
8680837 TTTTACCCCTAAAATTCTAAAAATT
1 TTTTACCCCTAAAATTTTAAAAATT
8680862 ACCATTTTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 58 0.79
58 15 0.21
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.37
Consensus pattern (57 bp):
TTTTACCCCTAAAATTTTAAAAATTCTATTTTTGACCCGAAAATGCCAAAAATTACA
Found at i:8680885 original size:57 final size:56
Alignment explanation
Indices: 8680767--8681049 Score: 189
Period size: 58 Copynumber: 4.9 Consensus size: 56
8680757 ACCCAAAATG
* * * *
8680767 CCAAAAATTACCATTTTACCCCTAAATTTTTAAAAATT-CTATTTTTGACCC-GAAAATT
1 CCAAAAATTA-TATTTTACCCCTAAATTTCTAAAAATTACCA-TTTT-ACCCTGAATA-T
*
8680825 CCAAAAATTATATTTTACCCCTAAAATTCTAAAAATTACCATTTTACCCTTGAATAT
1 CCAAAAATTATATTTTACCCCTAAATTTCTAAAAATTACCATTTTACCC-TGAATAT
* * ** * *
8680882 CCAAAAATTATATTTTTGATCCCGATTTTTCTAAAAATTACCATTTTACCCTCGGATGT
1 CCAAAAATTATA-TTTT-ACCCCTAAATTTCTAAAAATTACCATTTTACCCT-GAATAT
* * * * *
8680941 CCAAAAATTCCAT-TTTTGA-TCCTAATTTTCTAAAAATTACCGTTTTGCCCTCGAATTT
1 CCAAAAATT--ATATTTT-ACCCCTAAATTTCTAAAAATTACCATTTTACCCT-GAATAT
*** * * ** *
8680999 TTGAAATTTCA-ATTTTAACCCTAAATTTTCCCAAAATTACCATTTTGCCCT
1 CCAAAAATT-ATATTTTACCCCTAAA-TTTCTAAAAATTACCATTTTACCCT
8681050 TCAAGAGTTC
Statistics
Matches: 186, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
56 5 0.03
57 52 0.28
58 80 0.43
59 47 0.25
61 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (56 bp):
CCAAAAATTATATTTTACCCCTAAATTTCTAAAAATTACCATTTTACCCTGAATAT
Found at i:8680887 original size:29 final size:28
Alignment explanation
Indices: 8680767--8680956 Score: 88
Period size: 29 Copynumber: 6.6 Consensus size: 28
8680757 ACCCAAAATG
* *
8680767 CCAAAAATTACCATTTTACCCCTAAATTT
1 CCAAAAATTACCATTTTA-CCCTGAATAT
** * *
8680796 TTAAAAATT-CTATTTTTGACCC-GAAAATT
1 CCAAAAATTACCA-TTTT-ACCCTGAATA-T
* *
8680825 CCAAAAATTA-TATTTTACCCCT-AAAATT
1 CCAAAAATTACCATTTTA-CCCTGAATA-T
*
8680853 CTAAAAATTACCATTTTACCCTTGAATAT
1 CCAAAAATTACCATTTTACCC-TGAATAT
* * *
8680882 CCAAAAATTA-TATTTTTGATCCC-GATTTTT
1 CCAAAAATTACCA-TTTT-A-CCCTGA-ATAT
* * *
8680912 CTAAAAATTACCATTTTACCCTCGGATGT
1 CCAAAAATTACCATTTTACCCT-GAATAT
8680941 CCAAAAATT-CCATTTT
1 CCAAAAATTACCATTTT
8680957 TGATCCTAAT
Statistics
Matches: 124, Mismatches: 21, Indels: 33
0.70 0.12 0.19
Matches are distributed among these distances:
27 1 0.01
28 40 0.32
29 58 0.47
30 21 0.17
31 4 0.03
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (28 bp):
CCAAAAATTACCATTTTACCCTGAATAT
Found at i:8680896 original size:28 final size:28
Alignment explanation
Indices: 8680609--8680897 Score: 122
Period size: 29 Copynumber: 9.9 Consensus size: 28
8680599 CCCTGGAGGT
* *
8680609 CCCTAAACTGTCCGAAAATTATATTTTGAC
1 CCCTAAAAT-TCCAAAAATTATATTTT-AC
* * * * *
8680639 CTCGAAACTTTCAAAAATTACATTTTTGAC
1 CCCTAAAATTCCAAAAATTATA-TTTT-AC
* * *
8680669 CTC-AAAACTTCTCCAAAATTACAATTTTGA-
1 CCCTAAAA-TTC-CAAAAATTA-TATTTT-AC
* * *
8680699 CCCTAAACTTCTAAAAATTCCATTTTTTAC
1 CCCTAAAATTCCAAAAATT--ATATTTTAC
** * * *
8680729 CCCCGAACTTTCAAAAATTCTATTTTTGA-
1 CCCTAAAATTCCAAAAATTATA-TTTT-AC
* *
8680758 CCC-AAAATGCCAAAAATTACCATTTTAC
1 CCCTAAAATTCCAAAAATTA-TATTTTAC
* ** *
8680786 CCCTAAATTTTTAAAAATTCTATTTTTGA-
1 CCCTAAAATTCCAAAAATTATA-TTTT-AC
*
8680815 CCCGAAAATTCCAAAAATTATATTTTAC
1 CCCTAAAATTCCAAAAATTATATTTTAC
* *
8680843 CCCTAAAATTCTAAAAATTACCATTTTA-
1 CCCTAAAATTCCAAAAATTA-TATTTTAC
**
8680871 CCCTTGAATATCCAAAAATTATATTTT
1 CCCTAAAAT-TCCAAAAATTATATTTT
8680898 TGATCCCGAT
Statistics
Matches: 196, Mismatches: 45, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
27 2 0.01
28 54 0.28
29 76 0.39
30 45 0.23
31 18 0.09
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.36
Consensus pattern (28 bp):
CCCTAAAATTCCAAAAATTATATTTTAC
Found at i:8680926 original size:59 final size:58
Alignment explanation
Indices: 8680851--8680996 Score: 202
Period size: 59 Copynumber: 2.5 Consensus size: 58
8680841 ACCCCTAAAA
* * *
8680851 TTCTAAAAATTACCATTTTACCCTTGAATATCCAAAAATTATATTTTTGATCCCGATTT
1 TTCTAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACATTTTTGAT-CCGAATT
* * * *
8680910 TTCTAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTCCATTTTTGATCCTAATT
1 TTCTAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACATTTTTGATCCGAATT
* *
8680968 TTCTAAAAATTACCGTTTTGCCCTCGAAT
1 TTCTAAAAATTACCATTTTACCCTCGAAT
8680997 TTTTGAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
58 31 0.40
59 46 0.60
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (58 bp):
TTCTAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACATTTTTGATCCGAATT
Found at i:8681014 original size:58 final size:58
Alignment explanation
Indices: 8680851--8681049 Score: 195
Period size: 58 Copynumber: 3.4 Consensus size: 58
8680841 ACCCCTAAAA
* * * * *
8680851 TTCTAAAAATTACCATTTTACCCTTGAATATCCAAAAATT-ATATTTTTGATCCCGATTT
1 TTCTAAAAATTACCATTTTGCCCTCGAATGTCCAAAAATTCA-ATTTTTGAT-CCTAATT
* * *
8680910 TTCTAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTCCATTTTTGATCCTAATT
1 TTCTAAAAATTACCATTTTGCCCTCGAATGTCCAAAAATTCAATTTTTGATCCTAATT
* * *** * * *
8680968 TTCTAAAAATTACCGTTTTGCCCTCGAATTTTTGAAATTTCAA-TTTTAACCCTAAATT
1 TTCTAAAAATTACCATTTTGCCCTCGAATGTCCAAAAATTCAATTTTTGATCCT-AATT
**
8681026 TTCCCAAAATTACCATTTTGCCCT
1 TTCTAAAAATTACCATTTTGCCCT
8681050 TCAAGAGTTC
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
57 8 0.07
58 64 0.54
59 46 0.39
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (58 bp):
TTCTAAAAATTACCATTTTGCCCTCGAATGTCCAAAAATTCAATTTTTGATCCTAATT
Found at i:8688008 original size:15 final size:15
Alignment explanation
Indices: 8687988--8688018 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8687978 AATACGATTA
8687988 ACACAATTCGAATTC
1 ACACAATTCGAATTC
8688003 ACACAATTCGAATTC
1 ACACAATTCGAATTC
8688018 A
1 A
8688019 AGTGACACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
ACACAATTCGAATTC
Found at i:8693342 original size:2 final size:2
Alignment explanation
Indices: 8693335--8693362 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8693325 TCTCTGTTTC
8693335 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8693363 CGCGTGCGTG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8696498 original size:229 final size:230
Alignment explanation
Indices: 8695797--8696925 Score: 1383
Period size: 229 Copynumber: 4.9 Consensus size: 230
8695787 CACGACTAAC
* * * * * * * * *
8695797 ACGATTTAAATCCAAACCATACCTAGAGGCATGAACACCCTAACCATCAGGCCAACACATGGAGT
1 ACGATTTGAATCCAGACCACATCTGGAGACATGAACATCCTAATCATCAGGCCAACACATGGAAT
*
8695862 TTGTTTCATATGAGTTTTGAATGTAAATGAAACCGTAACCATAATCTATTATACTTGACTGGGCT
66 TTGTTTCATATGAGTTTTGAATGTAAATGAAACC-T-----TAATCTATTATACTTGACTGTGCT
* * * *
8695927 TCGGGGTAAACTTAACTAGTTTTGCCCATTAATGGTACCTAAGTAATTAGCAGCTTATAGCTGAG
125 TCGGGGTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAG
* * *
8695992 GTAAGTCTAGATGAATAAGGTATAAGAACAACGCGACTAGC
190 GTAAGTCTAGATGAATAAGGTATAAGAAAAACGAGACTAGA
* * * * *
8696033 ACGACTTGAACCCAGACCACATCTGGAGGCATGAACA-CACTAATTATGAGGCCAACACAT-GAG
1 ACGATTTGAATCCAGACCACATCTGGAGACATGAACATC-CTAATCATCAGGCCAACACATGGA-
** *
8696096 ATCCGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGATTGTGCTTCGG
64 ATTTGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTTCGG
* * * *
8696161 GGTAAACTTAACTAGTTTTGCCCATTAATGGTACCTAAGTAATTAGCTGCTCAT-TTCTGAGGTA
129 GGTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGT-TGAGGTA
* *
8696225 AGTCTAGATGAATAAGATATAAGAACAAC-ACGACTAGA
193 AGTCTAGATGAATAAGGTATAAGAAAAACGA-GACTAGA
* * *** *
8696263 ACGATTTGAA-CCTAGATCACATTTGGAGGTGTGAACATCCTAACCATCAGGCCAACACATGGAA
1 ACGATTTGAATCC-AGACCACATCTGGAGACATGAACATCCTAATCATCAGGCCAACACATGGAA
* * *
8696327 TTTGTTTCATATGAGTTTTGAACGTAAATGAAACCTTAATCTATTTTACTTTG-TTGTGCTT-GG
65 TTTGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATAC-TTGACTGTGCTTCGG
8696390 GGTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAA
129 GGTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAA
*
8696455 GTCTAGATGAATAAGGTATAAGAAAAACGAGATTA-A
194 GTCTAGATGAATAAGGTATAAGAAAAACGAGACTAGA
* * * * * * *
8696491 GACGATTTGAATCCAGATCACATCTGGAGACGTAAACATTCTAATCATCAGGTCAACAAATGAAA
1 -ACGATTTGAATCCAGACCACATCTGGAGACATGAACATCCTAATCATCAGGCCAACACATGGAA
* * *
8696556 TTTATTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGGCTGTGCTTGGGG
65 TTTGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTT-CGG
*
8696621 GGTAAACTAAGCTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAA
129 GGTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAA
* *
8696686 GTCTAGATGAATAAGGTATAAGAAAAATGAGATTA-A
194 GTCTAGATGAATAAGGTATAAGAAAAACGAGACTAGA
* ** * * * * * *** *
8696722 GACGATTTGAATCCAGACCACATTTAAAAACATAAATATTCTAATTATCAGATTAACACATGAAA
1 -ACGATTTGAATCCAGACCACATCTGGAGACATGAACATCCTAATCATCAGGCCAACACATGGAA
*
8696787 TTTGTTTCATATAAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTT-GGG
65 TTTGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTTCGGG
* *
8696851 GTAAACTAAGCTAGTTTTACCCATTAATGGTACCTAAG----TAGCAG--C-TAGCTGAGGTAAG
130 GTAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAAG
8696909 TCTAGATGAATAAGGTA
195 TCTAGATGAATAAGGTA
8696926 GGGCCTATAA
Statistics
Matches: 807, Mismatches: 71, Indels: 44
0.88 0.08 0.05
Matches are distributed among these distances:
222 29 0.04
223 1 0.00
225 6 0.01
228 4 0.00
229 239 0.30
230 224 0.28
231 219 0.27
235 4 0.00
236 81 0.10
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (230 bp):
ACGATTTGAATCCAGACCACATCTGGAGACATGAACATCCTAATCATCAGGCCAACACATGGAAT
TTGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTTCGGGG
TAAACTAAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGTTGAGGTAAGT
CTAGATGAATAAGGTATAAGAAAAACGAGACTAGA
Found at i:8696825 original size:460 final size:459
Alignment explanation
Indices: 8695830--8696925 Score: 1437
Period size: 460 Copynumber: 2.4 Consensus size: 459
8695820 TAGAGGCATG
* * *
8695830 AACACCCTAACCATCAGGCCAACACATGGAGTTTGTTTCATATGAGTTTTGAATGTAAATGAAAC
1 AACATCCTAACCATCAGACCAACACATGGAATTTGTTTCATATGAGTTTTGAATGTAAATGAAAC
* * *
8695895 CGTAACCATAATCTATTATACTTGACTGGGCTTCGGGGTAAACTTAACTAGTTTTGCCCATTAAT
66 C-T-----TAATCTATTATACTTGACTGTGCTT-GGGGTAAACTAAACTAGTTTTACCCATTAAT
* *
8695960 GGTACCTAAGTAATTAGCAGCTTATAGCTGAGGTAAGTCTAGATGAATAAGGTATAAGAACAACG
124 GGTACCTAAGTAATTAGCAGCTCATAGCTGAGGTAAGTCTAGATGAATAAGGTATAAGAAAAACG
* * * * *
8696025 CGACTAGCACGACTTGAACCCAGACCACATCTGGAGGCATGAACACACTAATTATGAGGCCAACA
189 AGACTAGCACGACTTGAACCCAGACCACATCTGGAGACATAAACACACTAATCATCAGGCCAACA
* * * *
8696090 CATGAGATCCGTTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGATTGTG
254 AATGAAATCCATTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTG
* * *
8696155 CTTCGGGGTAAACTTAACTAGTTTTGCCCATTAATGGTACCTAAGTAATTAGCTGCTCATTTCTG
319 CTTCGGGGTAAACTTAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATGTCTG
* *
8696220 AGGTAAGTCTAGATGAATAAGATATAAGAACAACACGACTAGAACGATTTGAACCTAGATCACAT
384 AGGTAAGTCTAGATGAATAAGATATAAGAAAAACACGACTAGAACGATTTGAACCTAGACCACAT
** **** *
8696285 TTGGAGGTGTG
449 TTAAAAACATA
* *
8696296 AACATCCTAACCATCAGGCCAACACATGGAATTTGTTTCATATGAGTTTTGAACGTAAATGAAAC
1 AACATCCTAACCATCAGACCAACACATGGAATTTGTTTCATATGAGTTTTGAATGTAAATGAAAC
* *
8696361 CTTAATCTATTTTACTTTG-TTGTGCTTGGGGTAAACTAAACTAGTTTTACCCATTAATGGTACC
66 CTTAATCTATTATAC-TTGACTGTGCTTGGGGTAAACTAAACTAGTTTTACCCATTAATGGTACC
* *
8696425 TAAGTAATTAGCAGCTCATAGTTGAGGTAAGTCTAGATGAATAAGGTATAAGAAAAACGAGATTA
130 TAAGTAATTAGCAGCTCATAGCTGAGGTAAGTCTAGATGAATAAGGTATAAGAAAAACGAGACT-
* * * * ** *
8696490 AG-ACGATTTGAATCCAGATCACATCTGGAGACGTAAACATTCTAATCATCAGGTCAACAAATGA
194 AGCACGACTTGAACCCAGACCACATCTGGAGACATAAACACACTAATCATCAGGCCAACAAATGA
** * *
8696554 AATTTATTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGGCTGTGCTTGG
259 AATCCATTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTT-C
8696619 GGGGTAAAC-TAAGCTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATAGT-TGAG
323 GGGGTAAACTTAA-CTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCAT-GTCTGAG
* * *
8696682 GTAAGTCTAGATGAATAAGGTATAAGAAAAATGA-GATTA-AGACGATTTGAATCC-AGACCACA
386 GTAAGTCTAGATGAATAAGATATAAGAAAAA-CACGACTAGA-ACGATTTGAA-CCTAGACCACA
8696744 TTTAAAAACATA
448 TTTAAAAACATA
* * ** ** * *
8696756 AATATTCTAATTATCAGATTAACACATGAAATTTGTTTCATATAAGTTTTGAATGTAAATGAAAC
1 AACATCCTAACCATCAGACCAACACATGGAATTTGTTTCATATGAGTTTTGAATGTAAATGAAAC
*
8696821 CTTAATCTATTATACTTGACTGTGCTTGGGGTAAACTAAGCTAGTTTTACCCATTAATGGTACCT
66 CTTAATCTATTATACTTGACTGTGCTTGGGGTAAACTAAACTAGTTTTACCCATTAATGGTACCT
8696886 AAG----TAGCAG--C-TAGCTGAGGTAAGTCTAGATGAATAAGGTA
131 AAGTAATTAGCAGCTCATAGCTGAGGTAAGTCTAGATGAATAAGGTA
8696926 GGGCCTATAA
Statistics
Matches: 560, Mismatches: 61, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
453 29 0.05
454 1 0.00
456 6 0.01
459 208 0.37
460 245 0.44
461 7 0.01
465 1 0.00
466 63 0.11
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (459 bp):
AACATCCTAACCATCAGACCAACACATGGAATTTGTTTCATATGAGTTTTGAATGTAAATGAAAC
CTTAATCTATTATACTTGACTGTGCTTGGGGTAAACTAAACTAGTTTTACCCATTAATGGTACCT
AAGTAATTAGCAGCTCATAGCTGAGGTAAGTCTAGATGAATAAGGTATAAGAAAAACGAGACTAG
CACGACTTGAACCCAGACCACATCTGGAGACATAAACACACTAATCATCAGGCCAACAAATGAAA
TCCATTTCATATGAGTTTTGAATGTAAATGAAACCTTAATCTATTATACTTGACTGTGCTTCGGG
GTAAACTTAACTAGTTTTACCCATTAATGGTACCTAAGTAATTAGCAGCTCATGTCTGAGGTAAG
TCTAGATGAATAAGATATAAGAAAAACACGACTAGAACGATTTGAACCTAGACCACATTTAAAAA
CATA
Found at i:8697696 original size:14 final size:15
Alignment explanation
Indices: 8697672--8697715 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
8697662 CTATTATAAT
*
8697672 TTTTTTGAATTTTTA
1 TTTTTTGAATTTTAA
8697687 TTTTTT-AATTTTAA
1 TTTTTTGAATTTTAA
**
8697701 TTTTTAAAATTTTAA
1 TTTTTTGAATTTTAA
8697716 AAATATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTGAATTTTAA
Found at i:8698163 original size:13 final size:13
Alignment explanation
Indices: 8698145--8698175 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8698135 TTATAGGGTA
*
8698145 CCTTAATGTTGGT
1 CCTTAATGCTGGT
8698158 CCTTAATGCTGGT
1 CCTTAATGCTGGT
8698171 CCTTA
1 CCTTA
8698176 CTTCTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (13 bp):
CCTTAATGCTGGT
Found at i:8700792 original size:75 final size:75
Alignment explanation
Indices: 8700669--8700820 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
8700659 AAAAGAAAAT
8700669 GAGGATCCTAAGTCTAAATCTATTGAGGAAAGTAAAAATAGAAAAGATTGGCCAAAACGAAAAGA
1 GAGGATCCTAAGTCTAAATCTATTGAGGAAAGTAAAAATAGAAAAGATTGGCCAAAACGAAAAGA
8700734 CGCAATTTGA
66 CGCAATTTGA
* * *
8700744 GAGGATCCTAAGTCTAAATCTATTGAGGAATGTAAAAATAGAAAAGATTGGCCAAAATGGAAAGA
1 GAGGATCCTAAGTCTAAATCTATTGAGGAAAGTAAAAATAGAAAAGATTGGCCAAAACGAAAAGA
8700809 CGCAATTTGA
66 CGCAATTTGA
8700819 GA
1 GA
8700821 AGAATTAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.21
Consensus pattern (75 bp):
GAGGATCCTAAGTCTAAATCTATTGAGGAAAGTAAAAATAGAAAAGATTGGCCAAAACGAAAAGA
CGCAATTTGA
Found at i:8703824 original size:12 final size:12
Alignment explanation
Indices: 8703807--8703848 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8703797 CTCCATATTG
8703807 TACTTTTCAAAT
1 TACTTTTCAAAT
* *
8703819 TAC-TTTCTATT
1 TACTTTTCAAAT
8703830 GTACTTTTCAAAT
1 -TACTTTTCAAAT
8703843 TACTTT
1 TACTTT
8703849 CTCATTAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.55
Consensus pattern (12 bp):
TACTTTTCAAAT
Done.