Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009239.1 Hibiscus syriacus cultivar Beakdansim tig00112866_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 88483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:18 original size:12 final size:11
Alignment explanation
Indices: 1--68 Score: 52
Period size: 12 Copynumber: 6.0 Consensus size: 11
1 TTTATTATTTT
1 TTTATTATTTT
*
12 TATTATTGTTTT
1 T-TTATTATTTT
24 TTTATATATTTT
1 TTTAT-TATTTT
36 TTT-TCT-TTTT
1 TTTAT-TATTTT
46 CTTTATT-TTTT
1 -TTTATTATTTT
*
57 TGTATTTATTTT
1 TTTA-TTATTTT
69 ACTTACTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.15
11 17 0.36
12 23 0.49
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:112 original size:25 final size:25
Alignment explanation
Indices: 84--145 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
74 CTATTTTATC
* *
84 TTTAATTT-TTTTATCTTATCTTTTA
1 TTTAATTTATTTTATCTTA-ATTTAA
*
109 TTTAATTTATTTTTTCTTAATTTAA
1 TTTAATTTATTTTATCTTAATTTAA
*
134 TTTAATTAATTT
1 TTTAATTTATTT
146 ATTTATTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 23 0.72
26 9 0.28
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTAATTTATTTTATCTTAATTTAA
Found at i:118 original size:16 final size:15
Alignment explanation
Indices: 110--157 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
100 TATCTTTTAT
110 TTAATTTATTTTTTC
1 TTAATTTATTTTTTC
* **
125 TTAATTTA-ATTTAA
1 TTAATTTATTTTTTC
139 TTAATTTATTTATTTC
1 TTAATTTATTT-TTTC
155 TTA
1 TTA
158 CCTTTTTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTATTTTTTC
Found at i:7637 original size:15 final size:15
Alignment explanation
Indices: 7617--7652 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7607 ATGATTTCCA
*
7617 TCATGAATGCCTTCT
1 TCATGAATACCTTCT
*
7632 TCATGACTACCTTCT
1 TCATGAATACCTTCT
7647 TCATGA
1 TCATGA
7653 TCGAGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATGAATACCTTCT
Found at i:10609 original size:24 final size:24
Alignment explanation
Indices: 10577--10631 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
10567 TGAAATTGTA
10577 GTTGGTTTATATACTCTTTGGTTC
1 GTTGGTTTATATACTCTTTGGTTC
10601 GTTGGTTTATATACTCTTTGGTTC
1 GTTGGTTTATATACTCTTTGGTTC
10625 GTTGGTT
1 GTTGGTT
10632 ACGTCTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.55
Consensus pattern (24 bp):
GTTGGTTTATATACTCTTTGGTTC
Found at i:13288 original size:211 final size:211
Alignment explanation
Indices: 12841--14156 Score: 1183
Period size: 211 Copynumber: 6.3 Consensus size: 211
12831 TAACTATTTA
* * * * * * *
12841 TTGAA-CTTCAAAAAGATAGGAAATTTTGAAATGATTAACATGTTAAGAGTCGATTCTATGCC-A
1 TTGAATCTT-AAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGC
* * ** **
12904 CAAATACTTTTTCATCTTATCAGCCAGAGGGAAAGAATA-T-TGTACTACAACTG-AA-AATGCC
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGT--GGCAACTGCAACAA--CC
* * * * * *
12965 AAGATATTATTATAGGCATTAATGAACATGTGTGGTGCAGCAGCAGCTGCAAATTTGTTTGGATC
126 AAGACATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATC
* *
13030 CTAGAAGCGTGC-ATCAATTAA
191 CTGGAAGCGTGCAAT-AATTAG
** * * * *
13051 TTGAATCTTAAAAATCTAGAAAATTTTGAAATAAGTATCAGGTTAAAAGTCAATTCCATACCGCT
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGCC
* ** * * * * *
13116 AAATAATCTTTCACCTTATCAATCTTA-GAAAGAGAATACTTTGTGACAACTACAACAAACAAGA
66 AAATACTCTTTCACCTTATCAGCCTTAGGGAA-AGAATACTCTGTGGCAACTGCAACAACCAAGA
* * * * *
13180 CATTCTTGTAGGCATTGATGAACATTTGTGGTGCAACAACAAATGCAAATTTGCTTAGATCCTGG
130 CATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGG
13245 AAGCGTGCAATAATTAG
195 AAGCGTGCAATAATTAG
* * * *
13262 TTGAATCTTAAAAAGATATG-AAATTTTGAAATAATTAACAGGTTTAGATTCGATTCCATACTGC
1 TTGAATCTTAAAAAGATA-GAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGC
* * * **
13326 CAAATACTCTTTCACCTTATCAGCCTTAGGGAATA-AATACTCCGTTGAAACAACAACAACCAAG
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAA-AGAATACTCTGTGGCAACTGCAACAACCAAG
* * * * * * * *
13390 ACATTCTTATAGGCATTGATAAACATGTGTAGTGCAGTAACAACTGTAAACTTGATTGGATTCTA
129 ACATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTG
* * * *
13455 AAAGCGAGAAATAATTAT
194 GAAGCGTGCAATAATTAG
* * * * * * * *
13473 TTGAATCTTAAAAAGATAGGAAATTTTGAAATAACTAACTGGTTATGATTCAATTCTATACCTCC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGCC
* * * * * *
13538 AAATACTATTTTATCTTATTAGCCTGAGGGAAAGAATACTCTATGGCAACTGCAACAACCAAGAC
66 AAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGAC
* ** * * * *
13603 ATTCTTATAGGCATTGATGAACATGTATGGTTTAACAACAACTGCTAATTTGCTTGTATCTTGGA
131 ATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGGA
* ** * * *
13668 AGCATTTAACAACTAA
196 AGCGTGCAATAATTAG
** * * *
13684 CCGAA-CGTCAAAAAGATAGAAAATTTTGAAATAATTAACAGGTTAAGAGTCGATTCCATACCGT
1 TTGAATC-TTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGC
* * * * * ** * * * *
13748 CAAATACACTTTCATCTTATCAACCTGATGGAAAGAATGTTATGTGGCAACTGCAACAGCCTATA
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
* * ** * *
13813 CATTC-TAGTAGGCATTGGTGAACATGTGTGGTGTAGCAGTAACTACAAATTTGCTTGGATCCTT
130 CATTCTTA-TAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTG
* * *
13877 GAAACGTACAAAAATTAG
194 GAAGCGTGCAATAATTAG
* * * * * * * ** *
13895 TTGAATCTTAAAAAGATATAAAATTTTGAAATAATTTACAAGTGAATACTCGATTTTATACCACC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGCC
* *
13960 AAATACTCTTTCACCTTATTAG-TTTAAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
66 AAATACTCTTTCACCTTATCAGCCTT-AGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
* * * * * * *
14024 CATTCTTATAGGCAATGATGAACATGTGTGGTTCAGCAGCAACTACTAA-TT--TT--ATCTTGC
130 CATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGG
* *
14084 AAACGTGCAACAATTAG
195 AAGCGTGCAATAATTAG
*
14101 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGACTCGATTC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTC
14157 TGTATGTTGA
Statistics
Matches: 884, Mismatches: 205, Indels: 38
0.78 0.18 0.03
Matches are distributed among these distances:
206 68 0.08
208 2 0.00
210 58 0.07
211 738 0.83
212 13 0.01
213 5 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (211 bp):
TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCGCC
AAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGAC
ATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGGA
AGCGTGCAATAATTAG
Found at i:15782 original size:54 final size:54
Alignment explanation
Indices: 15701--16012 Score: 419
Period size: 54 Copynumber: 5.8 Consensus size: 54
15691 TAATTATTTC
* * * * *
15701 AACTCATTAT-AAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATA
1 AACTTATTATGAA-TTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * * *
15755 AACTCATTATGAATTCCATGAGTTGCACACTTAGTGCCGATACAGTCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * *
15809 AACTTATTATAAATTTCGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * *
15863 AACTTATTATGAATTCTGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * **
15917 AACTTATTATGAATTCCATGGGTTGCACACTTAATTTCGATACGGTCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* *
15971 AACATATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATA
16013 TGTAGAAATG
Statistics
Matches: 224, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 222 0.99
55 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (54 bp):
AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
Found at i:15991 original size:162 final size:162
Alignment explanation
Indices: 15701--16012 Score: 464
Period size: 162 Copynumber: 1.9 Consensus size: 162
15691 TAATTATTTC
*
15701 AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATAAACTCATTATG
1 AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTATG
* *
15766 AATTCCATGAGTTGCACACTTAGTGCCGATACAGTCGTTCATAAACTTATTATAAATTTCGTGGG
66 AATTCCATGAGTTGCACACTTAATGCCGATACAGTCGTTCATAAACATATTATAAATTTCGTGGG
15831 TTGCACACTTAGTGCCGATACGATCGTTCATA
131 TTGCACACTTAGTGCCGATACGATCGTTCATA
* * * * * * * *
15863 AACTTATTATGAA-TTCTGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATAAACTTATTAT
1 AACTCATTAT-AAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTAT
* ** * *
15927 GAATTCCATGGGTTGCACACTTAATTTCGATACGGTCGTTCATAAACATATTATGAATTTCGTGG
65 GAATTCCATGAGTTGCACACTTAATGCCGATACAGTCGTTCATAAACATATTATAAATTTCGTGG
15992 GTTGCACACTTAGTGCCGATA
130 GTTGCACACTTAGTGCCGATA
16013 TGTAGAAATG
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 131 0.98
163 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (162 bp):
AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTATG
AATTCCATGAGTTGCACACTTAATGCCGATACAGTCGTTCATAAACATATTATAAATTTCGTGGG
TTGCACACTTAGTGCCGATACGATCGTTCATA
Found at i:17682 original size:20 final size:19
Alignment explanation
Indices: 17646--17698 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
17636 TCAGCTGAGT
* *
17646 AGTATCGATAACGAAGGGA
1 AGTATCGATACCAAAGGGA
17665 GAGTATCGATACCAAAGGGA
1 -AGTATCGATACCAAAGGGA
*
17685 AGGAATCGATACCA
1 A-GTATCGATACCA
17699 TTCAAAGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:18796 original size:15 final size:15
Alignment explanation
Indices: 18776--18811 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18766 ATTATTAGCT
*
18776 TTATAATATATGTTA
1 TTATAATATATATTA
18791 TTATAATATATATTA
1 TTATAATATATATTA
*
18806 TGATAA
1 TTATAA
18812 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:20451 original size:18 final size:19
Alignment explanation
Indices: 20413--20451 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20403 AAGGAAAAAG
*
20413 AAGCACTCAAAAAGATTGA
1 AAGCACTCAAAAAGATAGA
20432 AAGCACTCAAAAAGA-AGA
1 AAGCACTCAAAAAGATAGA
20450 AA
1 AA
20452 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
AAGCACTCAAAAAGATAGA
Found at i:23060 original size:15 final size:15
Alignment explanation
Indices: 23040--23075 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23030 ATTATTAGCT
*
23040 TTATAATATATGTTA
1 TTATAATATATATTA
23055 TTATAATATATATTA
1 TTATAATATATATTA
*
23070 TGATAA
1 TTATAA
23076 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:27752 original size:20 final size:20
Alignment explanation
Indices: 27718--27768 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27708 ATTCAATCAA
**
27718 TATCGATACTGAAGGG-AGAG
1 TATCGATACCAAAGGGAAG-G
27738 TATCGATACCAAAGGGAAGG
1 TATCGATACCAAAGGGAAGG
*
27758 TGTCGATACCA
1 TATCGATACCA
27769 TTTAGAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (20 bp):
TATCGATACCAAAGGGAAGG
Found at i:28272 original size:56 final size:56
Alignment explanation
Indices: 28200--28682 Score: 754
Period size: 56 Copynumber: 8.7 Consensus size: 56
28190 TAAGTGTGGA
28200 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
28256 AAAACGTAAGAAATTCATACTAAGTGGATGAATTTCCCTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
28312 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGAACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
28368 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTTCGTATTGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
28424 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
**
28480 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTTGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
28536 AAAACTTGAGAAATTCATACTAAGTGGATGAATTTCGGTATGGGCACTTTATGT-T
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * * * *
28591 TAAATTTAAGAAATTCATACTAAGTGGGTGAATTTCTGTATGGCCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
28647 AAAAC-TAGGAAATTTATATTAAGTGTATGAATTTCC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCC
28683 ATATTGGTAG
Statistics
Matches: 392, Mismatches: 34, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
55 73 0.19
56 319 0.81
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:29742 original size:61 final size:61
Alignment explanation
Indices: 29661--29781 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
29651 CACTAAGTGC
* *
29661 AGGTTGTGGGCACAACCTTATGTGTCATATCCGGATTAACACTAGA-CTGTAAGCCTAGTAT
1 AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGC-GTAAGCCTAGTAT
* * *
29722 AGGTGGTGGGAACGACCTTATGTGTCATATCCGGATTAGCACTAGAGCGTAAGCTTAGTA
1 AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGCGTAAGCCTAGTA
29782 CAAGTTTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (61 bp):
AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGCGTAAGCCTAGTAT
Found at i:31759 original size:4 final size:4
Alignment explanation
Indices: 31750--33402 Score: 2035
Period size: 4 Copynumber: 414.5 Consensus size: 4
31740 AAATATTATC
31750 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
31798 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
31846 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
31894 TACA TACA TACA TACA TACA TACA CACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
31942 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
31990 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
32038 TACA TACA TACA TACA TGCA TACA TAC- -ACA TGCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32084 TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TAC- -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
32128 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32174 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32222 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32270 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
32318 TACA TACA TGCA TGCA T--A TACA TACA TACA TACA TACA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32364 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32412 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
32460 TACA TACA T--A TACA TGCA TACA TACA TACA TGCA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * * * * *
32506 TGTA TGCA TGCA TGCA TGCA TGCA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
32554 TACA TACA TACA TACA T--A TATA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
32600 TACA TACA TACA TACA TACA TACA TACA TACA TACA TGCA TGCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * ** * *
32648 TACA TGCA TGCA TACA TGCA TGTA TGCA TACA TAC- -ACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
32694 TACA TGCACA TACA TGCA TACA TGCA TACA TGCA TACA TGCA TACA TGCC
1 TACA T--ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * * **
32744 TGCA TATGCA TGCA TGCC TGCA TATGCA TGCA TGCC TGCA TATGCA GGCA
1 TACA TA--CA TACA TACA TACA TA--CA TACA TACA TACA TA--CA TACA
* * * * * * * *
32794 TGCA TACA CACA TGCA TGCA TACA CACA TGCA TACA TACA CACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
32842 TGCA TACA CACA TGCA TGCA TACA CACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
32890 TACA TGCA TACA CACA TACA TGCA TATA TGCA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * *
32938 TTGA TATA TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
32986 TACA TACA TACA TACA TATA TACA TACA TACA TACA TACA TATA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
33034 TATA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * ** * * **
33082 TACA TACA TGCA TACA TACA TGCA TACA TGTA TGCA TGCA TGA-A TGTA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-ACA TACA
* ** * * * * **
33130 TGCA TGTA TGCA TGCA TACA TACA TGTACA TGCA TACA TGACA TGCA TGTA
1 TACA TACA TACA TACA TACA TACA --TACA TACA TACA T-ACA TACA TACA
* * * * * * * *
33181 TACA CACA TACA TGCA TACA CACA TGCA TGCA TACA CACA TGCA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
33229 TGCA CACA TGCA TACA TGCA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
33277 TATA TACA TACA TACA TACA TGCA TACA TACA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
33325 CACA TGCA TGCA TACA CACA TACA TGCA TACA CACA TACA CACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* ** *
33373 TGCA TACA TGGA TACA CACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
33403 TAATTTTGTT
Statistics
Matches: 1457, Mismatches: 163, Indels: 58
0.87 0.10 0.03
Matches are distributed among these distances:
2 16 0.01
4 1421 0.98
5 4 0.00
6 16 0.01
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:37124 original size:211 final size:211
Alignment explanation
Indices: 36424--38840 Score: 2469
Period size: 211 Copynumber: 11.5 Consensus size: 211
36414 ACTCAACACT
* * * * * *
36424 ATACTTCCAAATACTCTTACACCTTATTAGCCTGAGGGAAAGAATAC-TCTGTGGCAGCTACAAC
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTC-GTGGCAACTGCAAC
* * * **
36488 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTTCAACAGCAACTGTTAATTAT-CTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATT-TGCTT
* * * * * * * *
36552 GGATCCTAGAAGCATGTAACTATTAATTGAA-CGTAAAAAAGATAGAAAATTTTGAAATAATAAA
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAA
* **
36616 TAGGTTAAGAGTTTATTCC
193 CAGGTTAAGAGTCGATTCC
* * * * * * * * * ** * *
36635 ATACCGACAAATAGTTTTTCATCTTATCAGCCTGAGGAAAAGAAAACTCCACGGCAACTACAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * *
36700 ACCAAGATATTCTTGTAGGCATTGATAAACA----T-GT--AGC-A-AA-TGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * * *
36755 ATCCT-GAAGCGTGCATCAATTAATTGAATCTAAAAAAGATA-GAAACTTTTGAAATAAGTATCA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAA-TTTTGAAATAATTAACA
* *
36818 AGTTAAGAGTGGATTCC
195 GGTTAAGAGTCGATTCC
* * * * * * ** *
36835 ATACTGCTAAATACACTTTCACATTATTAACCTTAGAGACCGAATAC-TCTATGGCAACTGCAAC
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTC-GTGGCAACTGCAAC
* * * * * *
36899 AGCCAAGACATTCTTGTAGGCATTAATGAACATGTTTGATGCAACAACAACTACAAAATTT-CTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGC-AAATTTGCTT
* *
36963 GGATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAATAGATAGGAAAATTTGAAATAATTAAC
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAAC
* *
37028 AGGTTTAGAGTCGTTTCC
194 AGGTTAAGAGTCGATTCC
* * * * *
37046 ATAATGCCAACTACTCTTTTACCTTATCAGCCTTAGGGAATGAATACTTCGTGGCAACAGCAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * *
37111 ACCAAGACATTCTTATAGGAATTGATGAACATGTGTAGTGCAGCAACAACTGCAAATTTGCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * *
37176 ATCCTGGAAGCATGCAACAACTGGTTGAATCTTAAAAGGATAGGAAATTTTGAAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
* ** *
37241 GTTATGTTTCGATTCT
196 GTTAAGAGTCGATTCC
* * * * * *
37257 ATACCT-ACAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTTTGTGGTAACTACAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAAC
* * * * * *
37321 AGCCAAGAAATTCTTGTAGGCATTGATGAACATGTGTTGTTCAGCAACAACTACTAATTTGCTTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGC-TT
* * * *
37386 GGATCCTGGAAGCATTCAACAATTAATTGAA-CGTAAAAAAGATAGGAAATTTTGAAATAATTAA
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAA
* *
37450 CAGGTTAAGAGTTGATTCA
193 CAGGTTAAGAGTCGATTCC
* * * * * * * * *
37469 ATACCGCCAAATATTCCTTCATCTTATCAGCCTTAGGGAACGGATGCTCCGTGGCAACTACAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * * * * *
37534 ACCAAGAAATTCTTTTAGACATTGATGAACATGTGTGGTACAACAACAATTGCAAATTTGCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* ** * * ** *
37599 ATCATGGAAATGTG-ATACAATTAGTTCAATATTGGAAAGATAGAAAATTTTGAAATAATTAACA
131 ATCCTGGAAGCGTGCA-ACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
* * *
37663 GATTAAGACTCGATTCT
195 GGTTAAGAGTCGATTCC
* * * *
37680 ATACCT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATAC-TCTTTGGTAACTGCAA
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTC-GTGGCAACTGCAA
* * * * **
37743 CAACCAAGACATTCTTGTAGACAATGATGAACATGTGTGGTTCAGCATCAACTGCTCATTTGCTT
64 CAACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTT
* * *
37808 GGATCCTGGAAGCATGCAACAATTAATTGAA-CATAAAAAAGATAGGAAATTTTGAAATAATTAA
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAA
*
37872 CATGTTAAGAGTCGATTCC
193 CAGGTTAAGAGTCGATTCC
* * * * ** * *
37891 ATACCGCCAAATACTCTTTCATCTTATCAGCCTAAGGGAAAGAATACTCCACGACAACTGCAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * * *
37956 ACCAAGATATTTTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAAGTGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * ** * * *
38021 ATCCTGGAAGCGTGCATCAATTAATTGAATCTCCAAAAGATAGGAAATTTTAAAATAAGTAACAA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
*
38086 GTTAAGAGTTGATTCC
196 GTTAAGAGTCGATTCC
** * * * * * * * * *
38102 ATACCACTAAATACTTTTTCACCTTATCAACCTTAGAGAATGAATACTCCATGGAAACTGCAATA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * * * * * *
38167 GCCAAGACATTCTTATAGGCATTGATGAACATATGTGGTGTAACAACAACTGAAAATTTTCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * ** * *
38232 ATCCTAGAAGTGTTTAACAATTAGTTGAATCTTAAAAACATAGGAAATTTTGTAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
38297 GTTTAA-AGTCGATTCC
196 G-TTAAGAGTCGATTCC
* * * * * *
38313 ATACTACCAAATACTCTTTCAGCTTATAAGCCTTAGGGAATGAATAC-TCAGTGGCAACAGTAAC
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTC-GTGGCAACTGCAAC
* * *
38377 AACCAAAACATTCTTGTAGGCATTGATGAACATGTTTGGTGCAGCAACAACTGCAAATTTGCTTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTG
* * * * *
38442 TATCCTAGAAGTGTGCAATAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAATA
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
* * *
38507 GGTTAAGACTCAATTCT
195 GGTTAAGAGTCGATTCC
* * *
38524 ATACCT-CCAAATACTCTTTCACCTTATCAACCTTTGGGAAAGAATAC-TCTGTGGCACCTGCAA
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTC-GTGGCAACTGCAA
* * * * * * *
38587 CAGCTAAGATATTCTTGTAGGCATTGATGAACATGTGTGGCGCAGTAGCAACTACAAATTT-CTT
64 CAACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTT
* * * * * *
38651 GGATCCTGAAAGTGTGCAACAATTAGCTGAATGTCAAAAAGATAGGAAATTTTGAAATAACTAAC
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAAC
*
38716 AGGTTAAGAGTCAATTCC
194 AGGTTAAGAGTCGATTCC
* * *
38734 ATACTGCCAAATATTCTTTCTCCTTATCAGCCTTAGGGAACGAATACTTCGTGGCAACTGCAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
* * * * *
38799 GCCAAGACATTCTTGTAGACACTAATGAACATGTGAGGTGCA
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCA
38841 ACAGTAACCG
Statistics
Matches: 1813, Mismatches: 354, Indels: 79
0.81 0.16 0.04
Matches are distributed among these distances:
199 4 0.00
200 128 0.07
201 16 0.01
202 2 0.00
204 3 0.00
205 1 0.00
206 2 0.00
207 3 0.00
208 1 0.00
209 4 0.00
210 187 0.10
211 1270 0.70
212 192 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (211 bp):
ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTTCGTGGCAACTGCAACA
ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
GTTAAGAGTCGATTCC
Found at i:38382 original size:633 final size:632
Alignment explanation
Indices: 36424--38843 Score: 2750
Period size: 633 Copynumber: 3.8 Consensus size: 632
36414 ACTCAACACT
* *
36424 ATACTTCCAAATACTCTTACACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAGCTA-CAAC
1 ATAC-TCCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAAC-AGCAAC
* * * * **
36488 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTTCAACAGCAACTGTTAATTAT-CTT
64 AACCAAGACATTCTTGTAGACATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATT-TGCTT
* * * *
36552 GGATCCTAGAAGCATGTAACTATTAATTGAA-CGTAAAAAAGATAGAAAATTTTGAAATAATAAA
128 GGATCCTAGAAGCATGCAACAATTAATTGAATC-TAAAAAAGATAGGAAATTTTGAAATAATTAA
* ** * * * * *
36616 TAGGTTAAGAGTTTATTCCATACCGACAAATAGTTTTTCATCTTATCAGCCTGAGGAAAAGAAAA
192 CAGGTTAAGAGTCGATTCCATACCGACAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATA
*
36681 CTCCACGGCAACTACAACTA-CCAAGATATTCTTGTAGGCATTGATAAACA----T-GT--AGC-
257 CTCCACGGCAACTACAAC-AGCCAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCA
* *
36737 A-AA-TGCAAATTTGTTTGGATCCT-GAAGCGTGCATCAATTAATTGAATCTAAAAAAGATA-GA
321 ACAACTACAAATTTGTTTGGATCCTGGAAGCGTGCAACAATTAATTGAATCTAAAAAAGATAGGA
* * * * ** * *
36798 AACTTTTGAAATAAGTATCAAGTTAAGAGTGGATTCCATACTGCTAAATACACTTTCACATTATT
386 AA-TTTTGAAATAAGTAACAAGTTAAGAGTTGATTCCATACCGCCAAATATTCTTTCACCTTATC
* * *
36863 AACCTTAGAGACCGAATACTCTATGGCAACTGCAACAGCCAAGACATTCTTGTAGGCATTAATGA
450 AACCTTAGAGAACGAATACTCCATGGCAACTGCAACAGCCAAGACATTCTTGTAGACATTAATGA
* * * * *
36928 ACATGTTTGATGCAACAACAACT-ACAAAATTTCTTGGATCCTGGAAGCGTGCAACAATTAGTTG
515 ACATGTGTGGTGCAACAACAACTGA-AAATTTTCTTGGATCCTGGAAGTGTTCAACAATTAGTTG
* * * *
36992 AATCTTAAATAGATAGGAAAATTTGAAATAATTAACAGGTTTAGAGTCGTTTCC
579 AATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTTAAAGTCGATTCC
* * * * * *
37046 ATAATGCCAACTACTCTTTTACCTTATCAGCCTTAGGGAATGAATACT-TCGTGGCAACAGCAAC
1 ATACT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCT-GTGGCAACAGCAAC
* *
37110 AACCAAGACATTCTTATAGGA-ATTGATGAACATGTGTAGTGCAGCAACAACTGCAAATTTGCTT
64 AACCAAGACATTCTTGTA-GACATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTT
* * ** * *
37174 GGATCCTGGAAGCATGCAACAACTGGTTGAATCTTAAAAGGATAGGAAATTTTGAAATAATTAAC
128 GGATCCTAGAAGCATGCAACAATTAATTGAATCTAAAAAAGATAGGAAATTTTGAAATAATTAAC
* ** * * *
37239 AGGTTATGTTTCGATTCTATACCTACAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATAC
193 AGGTTAAGAGTCGATTCCATACCGACAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATAC
**** * * * *
37304 TTTGTGGTAACTACAACAGCCAAGAAATTCTTGTAGGCATTGATGAACATGTGTTGTTCAGCAAC
258 TCCACGGCAACTACAACAGCCAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAAC
* * *
37369 AACTACTAATTTGCTTTGGATCCTGGAAGCATTCAACAATTAATTGAA-CGTAAAAAAGATAGGA
323 AACTACAAATTTG-TTTGGATCCTGGAAGCGTGCAACAATTAATTGAATC-TAAAAAAGATAGGA
* * * * *
37433 AATTTTGAAATAATTAACAGGTTAAGAGTTGATTCAATACCGCCAAATATTCCTTCATCTTATCA
386 AATTTTGAAATAAGTAACAAGTTAAGAGTTGATTCCATACCGCCAAATATTCTTTCACCTTATCA
* * * * * * * * * *
37498 GCCTTAGGGAACGGATGCTCCGTGGCAACTACAACAACCAAGAAATTCTTTTAGACATTGATGAA
451 ACCTTAGAGAACGAATACTCCATGGCAACTGCAACAGCCAAGACATTCTTGTAGACATTAATGAA
* * * * * * * *
37563 CATGTGTGGTACAACAACAATTGCAAATTTGCTTGGATCATGGAAATG-TGATACAATTAGTTCA
516 CATGTGTGGTGCAACAACAACTGAAAATTTTCTTGGATCCTGGAAGTGTTCA-ACAATTAGTTGA
* ** * * * *
37627 ATATTGGAAAGATAGAAAATTTTGAAATAATTAACA-GATTAAGACTCGATTCT
580 ATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTTAA-AGTCGATTCC
* * *
37680 ATACCTCCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTTTGGTAACTGCAACA
1 ATA-CTCCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAACAGCAACA
* * * **
37745 ACCAAGACATTCTTGTAGACAATGATGAACATGTGTGGTTCAGCATCAACTGCTCATTTGCTTGG
65 ACCAAGACATTCTTGTAGACATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
*
37810 ATCCTGGAAGCATGCAACAATTAATTGAA-CATAAAAAAGATAGGAAATTTTGAAATAATTAACA
130 ATCCTAGAAGCATGCAACAATTAATTGAATC-TAAAAAAGATAGGAAATTTTGAAATAATTAACA
* * * *
37874 TGTTAAGAGTCGATTCCATACCGCCAAATACTCTTTCATCTTATCAGCCTAAGGGAAAGAATACT
194 GGTTAAGAGTCGATTCCATACCGACAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACT
* * *
37939 CCACGACAACTGCAACTA-CCAAGATATTTTTGTAGGCATTGATGAACATGTGTGGTGCAGCAAC
259 CCACGGCAACTACAAC-AGCCAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAAC
* * * **
38003 AAGTGCAAATTTGTTTGGATCCTGGAAGCGTGCATCAATTAATTGAATCTCCAAAAGATAGGAAA
323 AACTACAAATTTGTTTGGATCCTGGAAGCGTGCAACAATTAATTGAATCTAAAAAAGATAGGAAA
* * *
38068 TTTTAAAATAAGTAACAAGTTAAGAGTTGATTCCATACCACTAAATACTT-TTTCACCTTATCAA
388 TTTTGAAATAAGTAACAAGTTAAGAGTTGATTCCATACCGCCAAATA-TTCTTTCACCTTATCAA
* * * * * *
38132 CCTTAGAGAATGAATACTCCATGGAAACTGCAATAGCCAAGACATTCTTATAGGCATTGATGAAC
452 CCTTAGAGAACGAATACTCCATGGCAACTGCAACAGCCAAGACATTCTTGTAGACATTAATGAAC
* * * *
38197 ATATGTGGTGTAACAACAACTGAAAATTTTCTTGGATCCTAGAAGTGTTTAACAATTAGTTGAAT
517 ATGTGTGGTGCAACAACAACTGAAAATTTTCTTGGATCCTGGAAGTGTTCAACAATTAGTTGAAT
* *
38262 CTTAAAAACATAGGAAATTTTGTAATAATTAACAGGTTTAAAGTCGATTCC
582 CTTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTTAAAGTCGATTCC
* * * * * *
38313 ATACTACCAAATACTCTTTCAGCTTATAAGCCTTAGGGAATGAATACTCAGTGGCAACAGTAACA
1 ATACT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAACAGCAACA
* * * **
38378 ACCAAAACATTCTTGTAGGCATTGATGAACATGTTTGGTGCAGCAACAACTGCAAATTTGCTTTT
65 ACCAAGACATTCTTGTAGACATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
** * * * *
38443 ATCCTAGAAGTGTGCAATAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAATAG
130 ATCCTAGAAGCATGCAACAATTAATTGAATCTAAAAAAGATAGGAAATTTTGAAATAATTAACAG
* * * ** * **
38508 GTTAAGACTCAATTCTATACCTCCAAATACTCTTTCACCTTATCAACCTTTGGGAAAGAATACTC
195 GTTAAGAGTCGATTCCATACCGACAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTC
*** * * * * * *
38573 TGTGGCACCTGCAACAGCTAAGATATTCTTGTAGGCATTGATGAACATGTGTGGCGCAGTAGCAA
260 CACGGCAACTACAACAGCCAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAA
* * * ** * *
38638 CTACAAATTT-CTTGGATCCTGAAAGTGTGCAACAATTAGCTGAATGTCAAAAAGATAGGAAATT
325 CTACAAATTTGTTTGGATCCTGGAAGCGTGCAACAATTAATTGAATCTAAAAAAGATAGGAAATT
* * ** * * *
38702 TTGAAATAACTAACAGGTTAAGAGTCAATTCCATACTGCCAAATATTCTTTCTCCTTATCAGCCT
390 TTGAAATAAGTAACAAGTTAAGAGTTGATTCCATACCGCCAAATATTCTTTCACCTTATCAACCT
* * * *
38767 TAGGGAACGAATACTTCGTGGCAACTGCAACAGCCAAGACATTCTTGTAGACACTAATGAACATG
455 TAGAGAACGAATACTCCATGGCAACTGCAACAGCCAAGACATTCTTGTAGACATTAATGAACATG
*
38832 TGAGGTGCAACA
520 TGTGGTGCAACA
38844 GTAACCGTGT
Statistics
Matches: 1490, Mismatches: 271, Indels: 64
0.82 0.15 0.04
Matches are distributed among these distances:
621 5 0.00
622 246 0.17
623 2 0.00
626 1 0.00
627 2 0.00
629 3 0.00
630 1 0.00
631 4 0.00
632 173 0.12
633 537 0.36
634 509 0.34
635 7 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (632 bp):
ATACTCCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAACAGCAACAA
CCAAGACATTCTTGTAGACATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGA
TCCTAGAAGCATGCAACAATTAATTGAATCTAAAAAAGATAGGAAATTTTGAAATAATTAACAGG
TTAAGAGTCGATTCCATACCGACAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCC
ACGGCAACTACAACAGCCAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAAC
TACAAATTTGTTTGGATCCTGGAAGCGTGCAACAATTAATTGAATCTAAAAAAGATAGGAAATTT
TGAAATAAGTAACAAGTTAAGAGTTGATTCCATACCGCCAAATATTCTTTCACCTTATCAACCTT
AGAGAACGAATACTCCATGGCAACTGCAACAGCCAAGACATTCTTGTAGACATTAATGAACATGT
GTGGTGCAACAACAACTGAAAATTTTCTTGGATCCTGGAAGTGTTCAACAATTAGTTGAATCTTA
AAAAGATAGGAAATTTTGAAATAATTAACAGGTTTAAAGTCGATTCC
Found at i:39311 original size:36 final size:36
Alignment explanation
Indices: 39261--39336 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
39251 TTATAGCAAA
*
39261 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
39297 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
39333 AAAA
1 AAAA
39337 TCCTGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:42636 original size:211 final size:211
Alignment explanation
Indices: 42256--42665 Score: 536
Period size: 211 Copynumber: 1.9 Consensus size: 211
42246 TCGACAAACT
* * * *
42256 GCAAATTTGTTTGGATCCTGGAAGTGTGCAACAATTAATTGAATCTAAAAAAGATAGGAACTTTT
1 GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTTT
* * * ** * *
42321 GAAATGATTAACATGTTAAGAGTCTATTCCTTACCGCTAAATACTCTTTCATCGTGTCAACCTCA
66 GAAATAATTAACAGGTTAAGAGTCGATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCA
* * * *
42386 GGGAACGAACACTCTGTGGCAATTGCAACAGGAAAGACATTCTTGTAGGCATTGATGAACATGTC
131 GGGAAAGAACACTCTGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACATGTC
42451 TGGTGCAGCAACAACG
196 TGGTGCAGCAACAACG
* * * * *
42467 GCAAATTTGCTTT-GATATTGGAAGCGTACAAGAATTAGTTGAATCTTAAAATGATAGGAAATTT
1 GCAAATTTG-TTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTT
* *
42531 TGAAATAATTAACAGGTTAAGAGTCGATTCCATT-CCGAGAAATACTCTTTCACCTTATCAGCCT
65 TGAAATAATTAACAGGTTAAGAGTCGATTCC-TTACCGAGAAATACTCTTTCACCGTATCAACCT
* * * * *
42595 GAGGGAAAGAATACTTTGTGGCAACTACAACAGCTAAGACATTCTTGTAGGCATTGATTAACATG
129 CAGGGAAAGAACACTCTGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACATG
*
42660 TGTGGT
194 TCTGGT
42666 ACAGTAGCAA
Statistics
Matches: 169, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
211 164 0.97
212 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (211 bp):
GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTTT
GAAATAATTAACAGGTTAAGAGTCGATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCA
GGGAAAGAACACTCTGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACATGTC
TGGTGCAGCAACAACG
Found at i:45117 original size:7 final size:7
Alignment explanation
Indices: 45105--45189 Score: 161
Period size: 7 Copynumber: 12.1 Consensus size: 7
45095 GACGGTTGAG
45105 ACCCTAA
1 ACCCTAA
45112 ACCCTAA
1 ACCCTAA
45119 ACCCTAA
1 ACCCTAA
45126 ACCCTAA
1 ACCCTAA
45133 ACCCTAA
1 ACCCTAA
45140 ACCCTAA
1 ACCCTAA
45147 ACCCTAA
1 ACCCTAA
45154 ACCCTAA
1 ACCCTAA
*
45161 ACCATAA
1 ACCCTAA
45168 ACCCTAA
1 ACCCTAA
45175 ACCCTAA
1 ACCCTAA
45182 ACCCTAA
1 ACCCTAA
45189 A
1 A
45190 GGAAGGGGAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 76 1.00
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:45441 original size:42 final size:42
Alignment explanation
Indices: 45378--45549 Score: 166
Period size: 44 Copynumber: 4.0 Consensus size: 42
45368 AGAGGTTTTA
* * ** *
45378 ATTTTTTTTAATCCCATTTTTTAAATTTATAATAGAGGCACCT
1 ATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGC-CCT
* * * *
45421 ATTTTTTT-AATCTCACTTTTTATCTTCATAATTGAGACCACT
1 ATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCC-CT
** *
45463 ATTTTTTTTCAATCTTATTTTTTACCTTTATAATTGAGGCCCTT
1 A-TTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCC-T
* *
45507 AATTTTTTTCAATCCCACTTTTTACTTTTATAATTTAGGCCCT
1 -ATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCCT
45550 TAATTTCATC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.24
43 17 0.16
44 62 0.58
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (42 bp):
ATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCCT
Found at i:46378 original size:23 final size:23
Alignment explanation
Indices: 46352--46396 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46342 AATATTTATT
*
46352 TTCATCCATTAATACATAATATG
1 TTCATACATTAATACATAATATG
*
46375 TTCATACATTAATGCATAATAT
1 TTCATACATTAATACATAATAT
46397 CTATAAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
TTCATACATTAATACATAATATG
Found at i:49005 original size:51 final size:51
Alignment explanation
Indices: 48949--49046 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
48939 ACAACATGCC
*
48949 AAAATTCTAAGTTCTCATCACCATTCACAGATTACTATGCTAATATAAACA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
49000 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
49047 GTTTTTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (51 bp):
AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
Found at i:55947 original size:153 final size:153
Alignment explanation
Indices: 55664--55959 Score: 520
Period size: 153 Copynumber: 1.9 Consensus size: 153
55654 GAAGTTGGCT
* *
55664 ACGTTGCACTCGGTTGCTGAACATGGAGAACATTGTTATTCGGCTGAGTCGCGACCGAGTTACGA
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
* *
55729 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCTTTGGTCTTTCCTCC
66 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
55794 ATCATTAACAGTTGGCTTACACA
131 ATCATTAACAGTTGGCTTACACA
*
55817 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGATTCGCGACCGAGTTACGA
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
* * *
55882 CCATCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGGAGCGTCATTGGTCTTTGCTCC
66 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
55947 ATCATTAACAGTT
131 ATCATTAACAGTT
55960 TGCTGAACAT
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 135 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (153 bp):
ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
ATCATTAACAGTTGGCTTACACA
Found at i:56328 original size:29 final size:29
Alignment explanation
Indices: 56294--56393 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
56284 ATAGAATTAT
* *
56294 AATAAAGGACAAATTGTTTTGGAATTTCC
1 AATAAAGGACAAATCGTTTTGGAATTTAC
* * * *
56323 AATAAAGGATAAAGCGTTTTGAAATTTAT
1 AATAAAGGACAAATCGTTTTGGAATTTAC
* *
56352 AATAAAGGACAAAACGTTGT-GAATTTAC
1 AATAAAGGACAAATCGTTTTGGAATTTAC
*
56380 AATTAAGGACAAAT
1 AATAAAGGACAAAT
56394 TTTTTTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (29 bp):
AATAAAGGACAAATCGTTTTGGAATTTAC
Found at i:56415 original size:57 final size:58
Alignment explanation
Indices: 56288--56415 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 58
56278 AAAATCATAG
** * * * *
56288 AATTATAATAAAGGACAAATTGTTTTGGAATTTCCAATAAAGGATAAAGCGTTTTGAA
1 AATTATAATAAAGGACAAAACGTTGTGGAATTTACAATAAAGGACAAAGCGTTTTAAA
* * ***
56346 ATTTATAATAAAGGACAAAACGTTGT-GAATTTACAATTAAGGACAAATTTTTTTAAA
1 AATTATAATAAAGGACAAAACGTTGTGGAATTTACAATAAAGGACAAAGCGTTTTAAA
*
56403 AATTACAATAAAG
1 AATTATAATAAAG
56416 TATATATTCT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
57 35 0.61
58 22 0.39
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (58 bp):
AATTATAATAAAGGACAAAACGTTGTGGAATTTACAATAAAGGACAAAGCGTTTTAAA
Found at i:59481 original size:418 final size:418
Alignment explanation
Indices: 58680--59523 Score: 1436
Period size: 418 Copynumber: 2.0 Consensus size: 418
58670 TGTGATTGCG
* * *
58680 TGTGACTAACACCAGCGTAGGAGGGTCACCACCGGCGTGTGGTGGCCGAGCTTTGTCTTGGTTTC
1 TGTGAATAACACCAGCGTAAGAGGGTCACCACCGGCGTGTGGTGGCCGAGCTTTATCTTGGTTTC
* **
58745 GGCACGCAACACCGTTTGGAGTGAGGAAGAAAAGGGAGAAGAAGTTAGGGTGAGTCATTGTGCGA
66 GGCACGCAACACCGTTTGGAGTGAGGAAGAAAAGGGAGAAGAAGTTAGGGTGAGTCATCGAACGA
*
58810 AATGATTCTGGAAAAGGGAGAGTGTTGATATATTACGAGTTTTGCGTAAATCACTCTAAGGTTCC
131 AATGATTCTGGAAAAGGGAGAGTGTTGATATATTACGAGTTTTGCGTAAATCACTCTAAGGTCCC
* * *
58875 TATAATTTTAGCGTGTTTTGTATTCTGGTCATTAGTTTTAGGTTAAATCACTCTTTTGGTCCTTT
196 TATAACTTTAGCGTGTTTTGCATTCTGGTAATTAGTTTTAGGTTAAATCACTCTTTTGGTCCTTT
* *
58940 CTATCTAAGGTGATTCGTGTTTTAGTAACTTTTTAGGGTTAATCATGCATTAGGTCCCTTCAAGT
261 ATATCTAAGGTGATTCGTGTTTTAGTAACATTTTAGGGTTAATCATGCATTAGGTCCCTTCAAGT
59005 TTAGCATCTTTTGCATTTTGGTCCCCATTTCTGTTTATTTTCAAGGATTTGAGAATTGAATGGAT
326 TTAGCATCTTTTGCATTTTGGTCCCCATTTCTGTTTATTTTCAAGGATTTGAGAATTGAATGGAT
*
59070 GATTTTACATTATTTTAATTTAGTCTTT
391 GATTTTACATTATTTTAATTTAGTCCTT
*
59098 TGTGAATAACACTAGCGTAAGAGGGTCACCACCGGCGTGTGGTGGCCGAGCTTTATCTTGGTTTC
1 TGTGAATAACACCAGCGTAAGAGGGTCACCACCGGCGTGTGGTGGCCGAGCTTTATCTTGGTTTC
**
59163 GGCGTGCAACACCGTTTGGAGTGAGGAAGAAAAGGGAGAAGAAGTTAGGGTGAGTCATCGAACGA
66 GGCACGCAACACCGTTTGGAGTGAGGAAGAAAAGGGAGAAGAAGTTAGGGTGAGTCATCGAACGA
* * * *
59228 AATGATTCTGGAAAAGGGGGAGTGTTGATATATTAGGATTTTTGGGTAAATCACTCTAAGGTCCC
131 AATGATTCTGGAAAAGGGAGAGTGTTGATATATTACGAGTTTTGCGTAAATCACTCTAAGGTCCC
59293 TATAACTTTAGCGTGTTTTGCATTCTGGTAATTAGTTTTAGGTTAAATCACTCTTTTGGTCCTTT
196 TATAACTTTAGCGTGTTTTGCATTCTGGTAATTAGTTTTAGGTTAAATCACTCTTTTGGTCCTTT
* * *
59358 ATGTTTAAGGTGATTCGTGTTTTAGTAACATTTTAGGGTTAATCGTGCATTAGGTCCCTTCAAGT
261 ATATCTAAGGTGATTCGTGTTTTAGTAACATTTTAGGGTTAATCATGCATTAGGTCCCTTCAAGT
* * * *
59423 TTAGCGTCTTTTGCATTTTGGTCCCCATTTCTGTTTATTTTCAAGGTTTTGCGAATTGAATGGTT
326 TTAGCATCTTTTGCATTTTGGTCCCCATTTCTGTTTATTTTCAAGGATTTGAGAATTGAATGGAT
59488 GATTTTACATTATTTTAATTTAGTCCTT
391 GATTTTACATTATTTTAATTTAGTCCTT
59516 TGTTGAAT
1 TG-TGAAT
59524 GTTTTTTTCT
Statistics
Matches: 398, Mismatches: 27, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
418 393 0.99
419 5 0.01
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.38
Consensus pattern (418 bp):
TGTGAATAACACCAGCGTAAGAGGGTCACCACCGGCGTGTGGTGGCCGAGCTTTATCTTGGTTTC
GGCACGCAACACCGTTTGGAGTGAGGAAGAAAAGGGAGAAGAAGTTAGGGTGAGTCATCGAACGA
AATGATTCTGGAAAAGGGAGAGTGTTGATATATTACGAGTTTTGCGTAAATCACTCTAAGGTCCC
TATAACTTTAGCGTGTTTTGCATTCTGGTAATTAGTTTTAGGTTAAATCACTCTTTTGGTCCTTT
ATATCTAAGGTGATTCGTGTTTTAGTAACATTTTAGGGTTAATCATGCATTAGGTCCCTTCAAGT
TTAGCATCTTTTGCATTTTGGTCCCCATTTCTGTTTATTTTCAAGGATTTGAGAATTGAATGGAT
GATTTTACATTATTTTAATTTAGTCCTT
Found at i:59807 original size:29 final size:28
Alignment explanation
Indices: 59775--59842 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
59765 TTTTGCTTGT
*
59775 ATTATTATATATTATAATAT-TATA-TAAAA
1 ATTATTATATATTA-AAT-TCT-TAGGAAAA
*
59804 ATTATTTTCATATTAAATTCTTAGGAAAA
1 ATTATTAT-ATATTAAATTCTTAGGAAAA
59833 ATTATTATAT
1 ATTATTATAT
59843 TCTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 22 0.67
30 6 0.18
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (28 bp):
ATTATTATATATTAAATTCTTAGGAAAA
Found at i:63260 original size:7 final size:7
Alignment explanation
Indices: 63250--63296 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
63240 AAAAGAAGAT
63250 AAAAATG
1 AAAAATG
63257 AAAAATG
1 AAAAATG
63264 AAAAATG
1 AAAAATG
63271 AAAAATG
1 AAAAATG
63278 AAAAATG
1 AAAAATG
63285 AAAAATG
1 AAAAATG
63292 AAAAA
1 AAAAA
63297 AAGAAGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:63310 original size:7 final size:7
Alignment explanation
Indices: 63222--63317 Score: 54
Period size: 7 Copynumber: 13.3 Consensus size: 7
63212 CAAAAGATAG
63222 AAAAGAA
1 AAAAGAA
63229 AGAAA-AA
1 A-AAAGAA
63236 AACAA-AA
1 AA-AAGAA
*
63243 AGAAGATA
1 AAAAGA-A
63251 AAAATGAA
1 AAAA-GAA
*
63259 AAATGAA
1 AAAAGAA
*
63266 AAATGAA
1 AAAAGAA
*
63273 AAATGAA
1 AAAAGAA
*
63280 AAATGAA
1 AAAAGAA
*
63287 AAATGAAA
1 AAAAG-AA
63295 AAAAGAA
1 AAAAGAA
63302 GAAAA-AA
1 -AAAAGAA
*
63309 GAAAGAA
1 AAAAGAA
63316 AA
1 AA
63318 CCGATCAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
6 6 0.08
7 46 0.61
8 21 0.28
9 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (7 bp):
AAAAGAA
Found at i:63313 original size:14 final size:15
Alignment explanation
Indices: 63222--63315 Score: 64
Period size: 14 Copynumber: 6.7 Consensus size: 15
63212 CAAAAGATAG
63222 AAAAGAAAGAA--AA
1 AAAAGAAAGAATGAA
*
63235 AAACAAAAAGAA-GATA
1 AAA-AGAAAGAATGA-A
63251 AAAATGAAA-AATGAA
1 AAAA-GAAAGAATGAA
*
63266 AAATGAAA-AATGAA
1 AAAAGAAAGAATGAA
*
63280 AAATGAAA-AATG--
1 AAAAGAAAGAATGAA
63292 AAAA-AAAGAA-GAA
1 AAAAGAAAGAATGAA
63305 AAAAGAAAGAA
1 AAAAGAAAGAA
63316 AACCGATCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
11 4 0.06
12 5 0.07
13 7 0.10
14 35 0.51
15 8 0.12
16 9 0.13
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (15 bp):
AAAAGAAAGAATGAA
Found at i:64941 original size:65 final size:65
Alignment explanation
Indices: 64867--64992 Score: 200
Period size: 65 Copynumber: 1.9 Consensus size: 65
64857 AACAAAATTG
* * * *
64867 ATAAACTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTC-CATTGAGACAGTTTCTCTTGTAA
1 ATAAACTTTGAGAATGTTTCCCTTGAAACAAATTTTATCTCTC-TTGAGACAATTTCTCTTGTAA
64931 A
65 A
64932 ATAAACTTTGAGAATGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAATTTCTCTTG
1 ATAAACTTTGAGAATGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAATTTCTCTTG
64993 GAACAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
65 55 0.98
66 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (65 bp):
ATAAACTTTGAGAATGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAATTTCTCTTGTAAA
Found at i:65230 original size:75 final size:75
Alignment explanation
Indices: 65118--65263 Score: 181
Period size: 75 Copynumber: 1.9 Consensus size: 75
65108 TGAGACATTT
* *
65118 TTTTACTCAAAACAAGACATTTCGTTTCACTATAGATTATTTTTCTTAAAA-CAAGATTCATCTC
1 TTTTACCCAAAACAAGACATTTCGTTTCACTATAGATTATGTTTCTTAAAACCAA-ATTCATCTC
65182 GCTTGAGCTAG
65 GCTTGAGCTAG
* * * * *
65193 TTTTACCCAAAACAAGA-ATATTTGTTTTACTCA-AGATTGTGTTTCTTAAAACCAACTTCGTCT
1 TTTTACCCAAAACAAGACAT-TTCGTTTCACT-ATAGATTATGTTTCTTAAAACCAAATTCATCT
65256 CGCTTGAG
64 CGCTTGAG
65264 ACAGTTTCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
74 2 0.03
75 55 0.90
76 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (75 bp):
TTTTACCCAAAACAAGACATTTCGTTTCACTATAGATTATGTTTCTTAAAACCAAATTCATCTCG
CTTGAGCTAG
Found at i:65270 original size:75 final size:74
Alignment explanation
Indices: 65095--65270 Score: 178
Period size: 75 Copynumber: 2.3 Consensus size: 74
65085 CTTCAAATAG
* * * * *
65095 ACTTTGTCTCACTTGAGACATTTTTTTACTCAAAACAAGACATTTCGTTTCACTATAGATTATTT
1 ACTTCGTCTCGCTTGAGACA--GTTTTACCCAAAACAAGACATTTCGTTTCACTATAGATTATGT
65160 TTCTTAAAACA
64 TTCTTAAAACA
* * * * *
65171 AGATTCATCTCGCTTGAG-CTAGTTTTACCCAAAACAAGA-ATATTTGTTTTACTCA-AGATTGT
1 A-CTTCGTCTCGCTTGAGAC-AGTTTTACCCAAAACAAGACAT-TTCGTTTCACT-ATAGATTAT
65233 GTTTCTTAAAACCA
62 GTTTCTTAAAA-CA
65247 ACTTCGTCTCGCTTGAGACAGTTT
1 ACTTCGTCTCGCTTGAGACAGTTT
65271 CCCTTGAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
74 2 0.02
75 60 0.73
76 7 0.09
77 13 0.16
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (74 bp):
ACTTCGTCTCGCTTGAGACAGTTTTACCCAAAACAAGACATTTCGTTTCACTATAGATTATGTTT
CTTAAAACA
Found at i:65319 original size:46 final size:46
Alignment explanation
Indices: 65252--65342 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
65242 AACCAACTTC
*
65252 GTCTCGCTTGAGACAGTTTCCCTTGAAACCAAT-TTTGTCTCCCTTA
1 GTCTCACTTGAGACAGTTTCCCTTGAAA-CAATATTTGTCTCCCTTA
65298 GTCTCACTTGAGACAGTTTCCCTTGAAACAATATTTGTCTCCCTT
1 GTCTCACTTGAGACAGTTTCCCTTGAAACAATATTTGTCTCCCTT
65343 GAGACAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
45 4 0.09
46 39 0.91
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (46 bp):
GTCTCACTTGAGACAGTTTCCCTTGAAACAATATTTGTCTCCCTTA
Found at i:66483 original size:138 final size:138
Alignment explanation
Indices: 66222--66947 Score: 1094
Period size: 138 Copynumber: 5.2 Consensus size: 138
66212 CAAACCAGTT
* **
66222 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCC-AATGAGGGAGAAGAAGTTCATAA
1 AACATTTCCA--GAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAA
* * * *
66286 TGAGAAGCACTTGTTCAACCTTAGCTTGATTCATCGCATATAGAGTTGAATTAGCAACACCTCAC
64 TGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCAC
66351 TCGAGGGATC
129 TCGAGGGATC
* *
66361 AACATTTCTAGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATG
* * ***
66426 AGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTTTTTT
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACC-TCACT
66491 CGAGGGATC
130 CGAGGGATC
* * *
66500 AATATTTCCAGAAGAGTTTATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATG
* * *
66565 AGAAGAACTTGTTCAACCTTAGCCCGATTCATCACATATGGAGTTGAATCAGCAACACCTTACTC
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
66630 GAGGGATC
131 GAGGGATC
* * *
66638 AATATTTCCATAAGAGTTCATAATGAGAAGAACCCATCCGAAAAAGGGAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATG
* * *
66703 AGAAGAACTTGTTCAAGCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTAACACCTCACTT
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
*
66768 AAGGGATC
131 GAGGGATC
* * * *
66776 AACATTTCCAGAATAGTTCATAATGAGAAGAACTCATCTGAAAAAGGGAGAAAAAGTTAATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATG
* * *
66841 AGAAGAACTTGTTCAAGCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAATACCTCACAC
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
*
66906 GAGGGATT
131 GAGGGATC
*
66914 AACATTTCCAGAAGAATTCATAATGAGAAGAACT
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACT
66948 TGTTCAACCT
Statistics
Matches: 535, Mismatches: 50, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
137 28 0.05
138 371 0.69
139 136 0.25
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (138 bp):
AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
GAGGGATC
Found at i:66762 original size:277 final size:276
Alignment explanation
Indices: 66222--66946 Score: 1101
Period size: 277 Copynumber: 2.6 Consensus size: 276
66212 CAAACCAGTT
* * *
66222 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAAT-GAGGGAGAAGAAGTTCATAA
1 AACATTTCCA--GAAGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAA
* * * *
66286 TGAGAAGCACTTGTTCAACCTTAGCTTGATTCATCGCATATAGAGTTGAATTAGCAACACCTCAC
64 TGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCAC
* * *
66351 TCGAGGGATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAA
129 TCGAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACCCATCCGAAAAAGGGAGAAGAA
66416 GTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAA
194 GTTCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAA
*** *
66481 CACCTTTTTTCGAGGGATC
259 CACCTCACTT-AAGGGATC
* *
66500 AATATTTCCAGAAGAGTTTATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATG
* * *
66565 AGAAGAACTTGTTCAACCTTAGCCCGATTCATCACATATGGAGTTGAATCAGCAACACCTTACTC
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
* *
66630 GAGGGATCAATATTTCCATAAGAGTTCATAATGAGAAGAACCCATCCGAAAAAGGGAGAAGAAGT
131 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACCCATCCGAAAAAGGGAGAAGAAGT
* * **
66695 TCATAATGAGAAGAACTTGTTCAAGCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTAACA
196 TCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACA
66760 CCTCACTTAAGGGATC
261 CCTCACTTAAGGGATC
* * * * *
66776 AACATTTCCAGAATAGTTCATAATGAGAAGAACTCATCTGAAAAAGGGAGAAAAAGTTAATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATG
* * *
66841 AGAAGAACTTGTTCAAGCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAATACCTCACAC
66 AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
* *
66906 GAGGGATTAACATTTCCAGAAGAATTCATAATGAGAAGAAC
131 GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAAC
66947 TTGTTCAACC
Statistics
Matches: 404, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
276 190 0.47
277 205 0.51
278 9 0.02
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (276 bp):
AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCACTC
GAGGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACCCATCCGAAAAAGGGAGAAGAAGT
TCATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACA
CCTCACTTAAGGGATC
Found at i:67007 original size:98 final size:99
Alignment explanation
Indices: 66824--67044 Score: 322
Period size: 98 Copynumber: 2.3 Consensus size: 99
66814 TGAAAAAGGG
* *
66824 AGAA-AAAGTTAATAATGAGAAGAACTTGTTCAAGCTTAGCTCGATTCATCGCATATGGAGTTGA
1 AGAAGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGA
* *
66888 ATCAGCAATACCTCACACGAGGGATTAACATTTCC
66 ATCAGCAACACCTCACACGAGGGATCAACATTT-C
66923 AGAAG-AA-TTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGA
1 AGAAGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGA
* * * *
66986 ATCAGTAACATCTCACTCGAGGGATCAACATTTT
66 ATCAGCAACACCTCACACGAGGGATCAACATTTC
**
67020 AGTGGAAAGTTCATAATGAGAAGAA
1 AGAAGAAAGTTCATAATGAGAAGAA
67045 GTTCATAATG
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
97 3 0.03
98 84 0.77
99 22 0.20
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (99 bp):
AGAAGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGA
ATCAGCAACACCTCACACGAGGGATCAACATTTC
Found at i:67048 original size:17 final size:17
Alignment explanation
Indices: 67026--67061 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
67016 TTTTAGTGGA
67026 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
67043 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
67060 AA
1 AA
67062 CTTGTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (17 bp):
AAGTTCATAATGAGAAG
Found at i:68042 original size:14 final size:15
Alignment explanation
Indices: 68011--68043 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
68001 TAGTAGAGGA
68011 TTTTATCCTATTTTTC
1 TTTTATCCTA-TTTTC
68027 TTTTATCCTA-TTTC
1 TTTTATCCTATTTTC
68041 TTT
1 TTT
68044 CGTTCGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATCCTATTTTC
Found at i:71296 original size:153 final size:153
Alignment explanation
Indices: 71008--71336 Score: 532
Period size: 153 Copynumber: 2.2 Consensus size: 153
70998 TGCAGTGTCT
* * * *
71008 TTGCTCCATCGTTAACAGTTGGCTTTGACAACGTTGCAGTCGGTTGCTGAACATGGAGAACATTG
1 TTGCTCCATCATTAACAGTTGGCGTAGACAACGTTGCACTCGGTTGCTGAACATGGAGAACATTG
*
71073 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCATCTGC
66 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
71138 CATCAACCAAGCTTCAATGGCCA
131 CATCAACCAAGCTTCAATGGCCA
* *
71161 TTGCTCCATCATTAACAGTTGGCGTAGACAACGTTGCACTTGGTTGCTGAACGTGGAGAACATTG
1 TTGCTCCATCATTAACAGTTGGCGTAGACAACGTTGCACTCGGTTGCTGAACATGGAGAACATTG
*
71226 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATTACTGTTATTACCAGCTGC
66 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
* * * **
71291 TATCAACGAAGCTTCATTGTTCA
131 CATCAACCAAGCTTCAATGGCCA
*
71314 TTGCTCCATCATTGACAGTTGGC
1 TTGCTCCATCATTAACAGTTGGC
71337 CGAAACGATG
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 162 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (153 bp):
TTGCTCCATCATTAACAGTTGGCGTAGACAACGTTGCACTCGGTTGCTGAACATGGAGAACATTG
TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
CATCAACCAAGCTTCAATGGCCA
Found at i:71374 original size:153 final size:153
Alignment explanation
Indices: 71008--71374 Score: 468
Period size: 153 Copynumber: 2.4 Consensus size: 153
70998 TGCAGTGTCT
* * ** * * * * **
71008 TTGCTCCATCGTTAACAGTTGGCTTTGACAACGTTGCAGTCGGTTGCTGAACATGGAGAACATTG
1 TTGCTCCATCATTAACAGTTGGCGTAAACAACGTTGCACTTGGATGCTGAACGTCAAGAACATTG
*
71073 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCATCTGC
66 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
71138 CATCAACCAAGCTTCAATGGCCA
131 CATCAACCAAGCTTCAATGGCCA
* * **
71161 TTGCTCCATCATTAACAGTTGGCGTAGACAACGTTGCACTTGGTTGCTGAACGTGGAGAACATTG
1 TTGCTCCATCATTAACAGTTGGCGTAAACAACGTTGCACTTGGATGCTGAACGTCAAGAACATTG
*
71226 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATTACTGTTATTACCAGCTGC
66 TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
* * * **
71291 TATCAACGAAGCTTCATTGTTCA
131 CATCAACCAAGCTTCAATGGCCA
* * * * *
71314 TTGCTCCATCATTGACAGTTGGCCG-AAACGATGTTG-AGTTCGGATGCTGAACTTCAAGAAC
1 TTGCTCCATCATTAACAGTTGG-CGTAAACAACGTTGCACTT-GGATGCTGAACGTCAAGAAC
71375 GTTACAATTA
Statistics
Matches: 190, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
152 3 0.02
153 185 0.97
154 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (153 bp):
TTGCTCCATCATTAACAGTTGGCGTAAACAACGTTGCACTTGGATGCTGAACGTCAAGAACATTG
TTATTCGGCTGAGTCGCGACCGAGTTAGGACCTTCAAATATGACATCACTGTTATTACCAGCTGC
CATCAACCAAGCTTCAATGGCCA
Found at i:73019 original size:16 final size:16
Alignment explanation
Indices: 72998--73041 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
72988 AGTTGACTTT
* *
72998 GACCGTTGATCGGTCA
1 GACCGTTAACCGGTCA
*
73014 GACCGTTAACCGTTCA
1 GACCGTTAACCGGTCA
73030 GACCGTTAACCG
1 GACCGTTAACCG
73042 TTGACTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (16 bp):
GACCGTTAACCGGTCA
Found at i:73042 original size:16 final size:16
Alignment explanation
Indices: 73011--73043 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
73001 CGTTGATCGG
73011 TCAGACCGTTAACCGT
1 TCAGACCGTTAACCGT
73027 TCAGACCGTTAACCGT
1 TCAGACCGTTAACCGT
73043 T
1 T
73044 GACTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (16 bp):
TCAGACCGTTAACCGT
Found at i:81240 original size:17 final size:17
Alignment explanation
Indices: 81196--81267 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
81186 ATTCATGAAT
81196 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
* *
81213 GTTAGTCCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
81231 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* *
81248 TTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
81265 CTA
1 CTA
81268 AATCTTAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 31 0.72
18 12 0.28
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:81263 original size:34 final size:35
Alignment explanation
Indices: 81196--81267 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
81186 ATTCATGAAT
81196 CTAGTTCATTGAATAAAGTTAGTCCATTAATTAAA
1 CTAGTTCATTGAATAAAGTTAGTCCATTAATTAAA
* * *
81231 CTAGTTCATT-CATCAAA-TTAGTTCATTTATTAAA
1 CTAGTTCATTGAAT-AAAGTTAGTCCATTAATTAAA
81265 CTA
1 CTA
81268 AATCTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 20 0.61
35 13 0.39
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (35 bp):
CTAGTTCATTGAATAAAGTTAGTCCATTAATTAAA
Found at i:82122 original size:48 final size:49
Alignment explanation
Indices: 82051--82148 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
82041 TGGTCAGCCA
82051 TCAAAGGATAAGAAGAATGACAAGTCA-TTAATTGAATTCAATTGCATT
1 TCAAAGGATAAGAAGAATGACAAGTCATTTAATTGAATTCAATTGCATT
82099 TCAAAGGATAAGAAGAATGACAAGTCATTTAATTGAATTCAATTGCATT
1 TCAAAGGATAAGAAGAATGACAAGTCATTTAATTGAATTCAATTGCATT
82148 T
1 T
82149 AGGTGATTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 27 0.55
49 22 0.45
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (49 bp):
TCAAAGGATAAGAAGAATGACAAGTCATTTAATTGAATTCAATTGCATT
Found at i:83287 original size:72 final size:67
Alignment explanation
Indices: 83131--83258 Score: 188
Period size: 66 Copynumber: 1.9 Consensus size: 67
83121 ATATAATTAT
* * * * *
83131 TAAATTATAATTAATAAATAAAATTAAGAATTATTTCTTTCATTGATAAAAAATAAAAATATTTT
1 TAAATTATAGTTAATAAATAAAATTAAGAATCATTTCTTCCATTAACAAAAAATAAAAATATTTT
83196 TG
66 TG
83198 TAAATTATAGTTAATAAATAGAAA-TAA-AATCATTTCTTCCATTAACAAAAAATAAAAATAT
1 TAAATTATAGTTAATAAATA-AAATTAAGAATCATTTCTTCCATTAACAAAAAATAAAAATAT
83259 ATAAACTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 30 0.55
67 22 0.40
68 3 0.05
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (67 bp):
TAAATTATAGTTAATAAATAAAATTAAGAATCATTTCTTCCATTAACAAAAAATAAAAATATTTT
TG
Found at i:83523 original size:13 final size:14
Alignment explanation
Indices: 83505--83567 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 14
83495 ATTAATTCAA
*
83505 AAATAATTTA-AAT
1 AAATAAATTATAAT
*
83518 AAATAAATTATATT
1 AAATAAATTATAAT
*
83532 AAATAAATAATAAT
1 AAATAAATTATAAT
*
83546 -AAT-AATTAT--G
1 AAATAAATTATAAT
83556 AAATAAATTATA
1 AAATAAATTATA
83568 TCAATAGATC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 3 0.08
12 11 0.28
13 12 0.30
14 14 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATAAATTATAAT
Found at i:85115 original size:3 final size:3
Alignment explanation
Indices: 85107--85136 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
85097 AGCACAACAC
85107 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
85137 GGAACATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:86318 original size:2 final size:2
Alignment explanation
Indices: 86311--86344 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
86301 AAGAATATGA
86311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86345 CTTTATTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87382 original size:152 final size:153
Alignment explanation
Indices: 87039--87611 Score: 855
Period size: 152 Copynumber: 3.8 Consensus size: 153
87029 TCATGGATGT
87039 TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
1 TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
*
87104 TCCATCATTAACAGTTGGCCAGAACGATGTTGAGTTCGGTTGCTGAACATCGAGAACATTGTTAT
66 TCCATCATTAACAGTTGGCCAGAACGATGTTGAGTTCGATTGCTGAACATCGAGAACATTGTTAT
87169 TCGGCTGAGTCGCGACCAAGTTA
131 TCGGCTGAGTCGCGACCAAGTTA
* * * *
87192 CGACCTTCAAATATGACATTACTGTTATTACCATCTGCCATCAATC-AAGCTTCAATGGTCATTG
1 TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAA-CGAAGCTTCATTGTTCATTG
* *
87256 CTCCATCATTAACAGTTGGCCAGAACGATG-TGAGTTCCATTGCTGAACATTGAGAACATTGTTA
65 CTCCATCATTAACAGTTGGCCAGAACGATGTTGAGTTCGATTGCTGAACATCGAGAACATTGTTA
*
87320 TTCAGCTGAGTCGCGACCAAGTTA
130 TTCGGCTGAGTCGCGACCAAGTTA
*
87344 TGACCTTCAAATATGACATTACTGTCATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
1 TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
* * *
87409 TCCATCATTAACAGTTGGCCA-AACGTTGTTGAGTTGGGA-TGCTGAACATGGAGAACATTGTTA
66 TCCATCATTAACAGTTGGCCAGAACGATGTTGAGTT-CGATTGCTGAACATCGAGAACATTGTTA
* *
87472 TTCGGCTGAGTCGTGA-C--GGT-
130 TTCGGCTGAGTCGCGACCAAGTTA
* *
87492 T-A-CTTCAAATATGAAATTACTGTTATTACCAGCTGTCATCAACGAAGCTTCATTGTTCATTGC
1 TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
* * *
87555 TTCATCATTAACAGTTGGCC-GAAACGATGTTGAGTTCGGA-TGCTGAACTTCAAGAAC
66 TCCATCATTAACAGTTGGCCAG-AACGATGTTGAGTTC-GATTGCTGAACATCGAGAAC
87612 GTTACCATTA
Statistics
Matches: 384, Mismatches: 29, Indels: 20
0.89 0.07 0.05
Matches are distributed among these distances:
146 77 0.20
147 30 0.08
148 1 0.00
149 2 0.01
151 8 0.02
152 176 0.46
153 89 0.23
154 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (153 bp):
TGACCTTCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCATTGTTCATTGC
TCCATCATTAACAGTTGGCCAGAACGATGTTGAGTTCGATTGCTGAACATCGAGAACATTGTTAT
TCGGCTGAGTCGCGACCAAGTTA
Done.