Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002798.1 Hibiscus syriacus cultivar Beakdansim tig00005761_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: 181827
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5816 original size:12 final size:12
Alignment explanation
Indices: 5780--5820 Score: 61
Period size: 10 Copynumber: 3.7 Consensus size: 12
5770 CATATTGAAT
5780 TTTCTTTTAAAC
1 TTTCTTTTAAAC
5792 -TT-TTTTAAA-
1 TTTCTTTTAAAC
5801 TTTCTTTTAAAC
1 TTTCTTTTAAAC
5813 TTTCTTTT
1 TTTCTTTT
5821 TAAATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTCTTTTAAAC
Found at i:6692 original size:32 final size:32
Alignment explanation
Indices: 6651--6711 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
6641 CGAACATTAA
*
6651 AAAATAGCAGTACAATTTTGGTTTGAACAGTG
1 AAAACAGCAGTACAATTTTGGTTTGAACAGTG
6683 AAAACAGCAGTACAATTTTGGTTTGAACA
1 AAAACAGCAGTACAATTTTGGTTTGAACA
6712 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (32 bp):
AAAACAGCAGTACAATTTTGGTTTGAACAGTG
Found at i:9289 original size:12 final size:11
Alignment explanation
Indices: 9268--9321 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
9258 TTTTACCATA
9268 TTAAATTTTCTT
1 TTAAA-TTTCTT
9280 TTAAACTTTCTTT
1 TTAAA-TTTC-TT
9293 TTAAATTTCTT
1 TTAAATTTCTT
*
9304 TTTAATCTTCTT
1 TTAAAT-TTCTT
*
9316 TGAAAT
1 TTAAAT
9322 CTTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 7 0.19
12 22 0.61
13 7 0.19
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (11 bp):
TTAAATTTCTT
Found at i:9296 original size:13 final size:12
Alignment explanation
Indices: 9268--9308 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
9258 TTTTACCATA
9268 TTAAATTT-TCTT
1 TTAAATTTCT-TT
9280 TTAAACTTTCTTT
1 TTAAA-TTTCTTT
9293 TTAAATTTCTTT
1 TTAAATTTCTTT
9305 TTAA
1 TTAA
9309 TCTTCTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.59
13 10 0.37
14 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (12 bp):
TTAAATTTCTTT
Found at i:9306 original size:25 final size:24
Alignment explanation
Indices: 9268--9316 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
9258 TTTTACCATA
9268 TTAAATTTTCTTTTAAACTTTCTTT
1 TTAAATTTTCTTTTAAAC-TTCTTT
*
9293 TTAAA-TTTCTTTTTAATCTTCTTT
1 TTAAATTTTC-TTTTAAACTTCTTT
9317 GAAATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAAATTTTCTTTTAAACTTCTTT
Found at i:9362 original size:19 final size:20
Alignment explanation
Indices: 9320--9363 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
9310 CTTCTTTGAA
9320 ATCT-TTTTATTTTTCTTTC
1 ATCTATTTTATTTTTCTTTC
*
9339 TTCTATTTTATTTTTC-TTC
1 ATCTATTTTATTTTTCTTTC
9358 ATCTAT
1 ATCTAT
9364 AAATCCCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
ATCTATTTTATTTTTCTTTC
Found at i:17012 original size:22 final size:22
Alignment explanation
Indices: 16984--17027 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
16974 AGCCTGTGAT
16984 GGGCCAGGATTGAGGGTTTGAC
1 GGGCCAGGATTGAGGGTTTGAC
17006 GGGCCAGGATTGAGGGTTTGAC
1 GGGCCAGGATTGAGGGTTTGAC
17028 AGCCCAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GGGCCAGGATTGAGGGTTTGAC
Found at i:17300 original size:47 final size:48
Alignment explanation
Indices: 17209--17306 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 48
17199 GAATAAATGT
* * *
17209 ATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC-AAGC
1 ATGCGAACTAGAAATCATGCGGTTAGGTTTATATGTCTCAAACAAAGC
* *
17256 ATGCGAATTAGATATCATGCGGTTAGGGTTT-TAATGT-TCAAACAAAGC
1 ATGCGAACTAGAAATCATGCGGTTA-GGTTTAT-ATGTCTCAAACAAAGC
17304 ATG
1 ATG
17307 GGGTTAGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
47 29 0.67
48 14 0.33
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
ATGCGAACTAGAAATCATGCGGTTAGGTTTATATGTCTCAAACAAAGC
Found at i:24415 original size:44 final size:42
Alignment explanation
Indices: 24352--24474 Score: 192
Period size: 42 Copynumber: 2.9 Consensus size: 42
24342 GAAAGTCATA
24352 AATAAGTCTTTCGAGCATGATGCTTAAAAATCCTTCGGGCCATC
1 AATAAGTCTTTCGAGCATGATGCTT--AAATCCTTCGGGCCATC
* *
24396 AATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGAGCCATC
1 AATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGCCATC
* *
24438 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 AATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
24475 TAATTTGTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
42 48 0.66
44 25 0.34
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (42 bp):
AATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGCCATC
Found at i:24472 original size:22 final size:21
Alignment explanation
Indices: 24405--24472 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
24395 CAATAAGTCT
24405 TTCGAGCATGATGCTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
* * * *
24427 TTAGAGCCATCA-G-TAAGTCT
1 TTCGAG-CATGATGTTAAATCC
24447 TTCGAGCATGATGATTAAATCC
1 TTCGAGCATGATG-TTAAATCC
24469 TTCG
1 TTCG
24473 GGTAATTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (21 bp):
TTCGAGCATGATGTTAAATCC
Found at i:24611 original size:93 final size:93
Alignment explanation
Indices: 24434--24617 Score: 296
Period size: 93 Copynumber: 2.0 Consensus size: 93
24424 TCCTTAGAGC
* * *
24434 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGACTTCACCGAAGA
* *
24499 GTAGTGAAGCAAACCCATCAGTAAGTGT
66 GTAGTGAAGAAAACCCATCAATAAGTGT
*
24527 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTAGGTAATTTGTAAGACTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGACTTCACCGAAGA
**
24592 GTAGTGAAGAAAATTCATCAATAAGT
66 GTAGTGAAGAAAACCCATCAATAAGT
24618 CTTTCGAGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (93 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGACTTCACCGAAGA
GTAGTGAAGAAAACCCATCAATAAGTGT
Found at i:24675 original size:42 final size:40
Alignment explanation
Indices: 24613--24707 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 40
24603 AATTCATCAA
* * *
24613 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 TAAGTCTTTCGAGCAAGATGAT-AAATCCTCCGGGCCATTT
*
24654 GTAAGTCTTTCGAGCAAGATGATAAGTCCTCCGGGCCATTT
1 -TAAGTCTTTCGAGCAAGATGATAAATCCTCCGGGCCATTT
*
24695 TAAGCCTTCTCGA
1 TAAGTCTT-TCGA
24708 AAGAGTGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
40 7 0.15
41 19 0.40
42 21 0.45
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (40 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCTCCGGGCCATTT
Found at i:25403 original size:53 final size:53
Alignment explanation
Indices: 25071--25385 Score: 450
Period size: 53 Copynumber: 5.9 Consensus size: 53
25061 AGAATCGCAA
* * *
25071 CAGAAGATTATTCGAGTTCTACTCCCTGAAGAAAGAGGGAGCGAACCCATAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
25124 CAGAAGATTGTTCTAGTTCTACTCCCTGAAGCAAGAGGGAGAGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
25177 CAGAAGATTGTTTGAGTTATACTCCCTGAAGCAAGAGGGAGCGAACCCATAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * ** *
25230 TAGAAGATTGTTCAAGTTCTACGCTCTATTAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTA--CTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
25285 CAGAGGATTGTTCGAGTTCTACTCCCTGAAGTAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
25338 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGAGAACCC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC
25386 CCTGGTCAAA
Statistics
Matches: 228, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 183 0.80
55 45 0.20
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:25586 original size:11 final size:12
Alignment explanation
Indices: 25570--25633 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
25560 GTTTTTATTG
25570 TTTTATT-TTAT
1 TTTTATTATTAT
25581 TTTTATTATTAT
1 TTTTATTATTAT
**
25593 AATTATTATTAT
1 TTTTATTATTAT
* *
25605 TATATATTAATTTAA
1 T-TTTATT-A-TTAT
25620 TTTTATTATT-T
1 TTTTATTATTAT
25631 TTT
1 TTT
25634 AGGGCATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 10 0.24
12 16 0.39
13 5 0.12
14 6 0.15
15 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:25589 original size:9 final size:9
Alignment explanation
Indices: 25551--25632 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
25541 TTTGTTTGGG
25551 ATTTTTATT
1 ATTTTTATT
*
25560 GTTTTTATT
1 ATTTTTATT
* *
25569 GTTTTATTTT
1 ATTTT-TATT
25579 ATTTTTATT
1 ATTTTTATT
* *
25588 ATTATAATT
1 ATTTTTATT
*
25597 ATTATTATT
1 ATTTTTATT
*
25606 ATATATTAATTT
1 AT-T-TTTA-TT
*
25618 AATTTTATT
1 ATTTTTATT
25627 ATTTTT
1 ATTTTT
25633 TAGGGCATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
9 40 0.70
10 11 0.19
11 3 0.05
12 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTTATT
Found at i:25591 original size:3 final size:3
Alignment explanation
Indices: 25572--25613 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
25562 TTTTATTGTT
* *
25572 TTA TT- TTA TTT TTA TTA TTA TAA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
25614 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25603 original size:15 final size:16
Alignment explanation
Indices: 25578--25613 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
25568 TGTTTTATTT
*
25578 TATTTTTATTATTATA
1 TATTATTATTATTATA
25594 -ATTATTATTATTATA
1 TATTATTATTATTATA
25609 TATTA
1 TATTA
25614 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTATTATTATA
Found at i:29386 original size:18 final size:18
Alignment explanation
Indices: 29363--29403 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
29353 TAATGCAAAT
29363 CAAGTTAAAAGCGAACTA
1 CAAGTTAAAAGCGAACTA
29381 CAAGTTAAAAGCGAACTA
1 CAAGTTAAAAGCGAACTA
29399 CAAGT
1 CAAGT
29404 CACAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
CAAGTTAAAAGCGAACTA
Found at i:30778 original size:16 final size:16
Alignment explanation
Indices: 30759--30814 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
30749 TATCTATAAT
30759 TAAAATATATTTTAAA
1 TAAAATATATTTTAAA
30775 T-AAATATTATTTTATAA
1 TAAAATA-TATTTTA-AA
* *
30792 TCATATATATTATTAAA
1 TAAAATATATT-TTAAA
30809 -AAAATA
1 TAAAATA
30815 ACATCAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 5 0.15
16 12 0.36
17 9 0.27
18 7 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATATATTTTAAA
Found at i:30941 original size:12 final size:12
Alignment explanation
Indices: 30924--30949 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30914 GGACTTTTTC
30924 TCCCTCTTCTCT
1 TCCCTCTTCTCT
30936 TCCCTCTTCTCT
1 TCCCTCTTCTCT
30948 TC
1 TC
30950 TGAGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (12 bp):
TCCCTCTTCTCT
Found at i:31050 original size:40 final size:40
Alignment explanation
Indices: 30990--31135 Score: 256
Period size: 40 Copynumber: 3.6 Consensus size: 40
30980 AAAAAAACAG
* *
30990 TAATATCATATATGCAATAATCAAAAAATAATAATCAAAA
1 TAATCTCATATATGCAATAATCAAAAAACAATAATCAAAA
31030 TAATCTCATATATGCAATAATCAAAAAACAATAATCAAAA
1 TAATCTCATATATGCAATAATCAAAAAACAATAATCAAAA
**
31070 TAATCTCATATATGCAATAATCAAAATCCAATAATCAAAA
1 TAATCTCATATATGCAATAATCAAAAAACAATAATCAAAA
31110 TAATCTCATATATGCAATAATCAAAA
1 TAATCTCATATATGCAATAATCAAAA
31136 CTTACAATTT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.27
Consensus pattern (40 bp):
TAATCTCATATATGCAATAATCAAAAAACAATAATCAAAA
Found at i:31103 original size:14 final size:13
Alignment explanation
Indices: 31004--31110 Score: 62
Period size: 14 Copynumber: 8.0 Consensus size: 13
30994 ATCATATATG
31004 CAATAATCAAAAAAT
1 CAATAATC--AAAAT
31019 -AATAATCAAAAT
1 CAATAATCAAAAT
* *
31031 -AAT-CTCATATAT
1 CAATAATCA-AAAT
*
31043 GCAATAATCAAAAAA
1 -CAATAATC-AAAAT
31058 CAATAATCAAAAT
1 CAATAATCAAAAT
* *
31071 -AAT-CTCATATAT
1 CAATAATCA-AAAT
31083 GCAATAATCAAAAT
1 -CAATAATCAAAAT
31097 CCAATAATCAAAAT
1 -CAATAATCAAAAT
31111 AATCTCATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 19
0.71 0.11 0.19
Matches are distributed among these distances:
11 6 0.08
12 17 0.24
13 4 0.06
14 37 0.51
15 7 0.10
16 1 0.01
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (13 bp):
CAATAATCAAAAT
Found at i:32564 original size:28 final size:27
Alignment explanation
Indices: 32532--32597 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
32522 AATTTTATGA
32532 AAATATAAAAATCAAGGATCCTAATTAT
1 AAATATAAAAAT-AAGGATCCTAATTAT
** * *
32560 AAATATAAAAAATTTGGGTGCTAATTAT
1 AAATAT-AAAAATAAGGATCCTAATTAT
32588 AAATATAAAA
1 AAATATAAAA
32598 GAATTCAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 23 0.70
29 6 0.18
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATATAAAAATAAGGATCCTAATTAT
Found at i:32799 original size:17 final size:16
Alignment explanation
Indices: 32774--32807 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32764 AAATAATATT
32774 TTAACTTTTTTATAAAA
1 TTAACTTTTTT-TAAAA
*
32791 TTAATTTTTTTTAAAA
1 TTAACTTTTTTTAAAA
32807 T
1 T
32808 ATATAAACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAACTTTTTTTAAAA
Found at i:32800 original size:16 final size:17
Alignment explanation
Indices: 32774--32807 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32764 AAATAATATT
32774 TTAACTTTTTTATAAAA
1 TTAACTTTTTTATAAAA
*
32791 TTAA-TTTTTTTTAAAA
1 TTAACTTTTTTATAAAA
32807 T
1 T
32808 ATATAAACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAACTTTTTTATAAAA
Found at i:34232 original size:17 final size:18
Alignment explanation
Indices: 34210--34250 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
34200 AAATTATATT
34210 AGTAAAATA-ATAAATAA
1 AGTAAAATACATAAATAA
*
34227 AGTAAAATACTTAAATAA
1 AGTAAAATACATAAATAA
*
34245 ATTAAA
1 AGTAAA
34251 TATATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
AGTAAAATACATAAATAA
Found at i:35759 original size:32 final size:32
Alignment explanation
Indices: 35700--35760 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
35690 ATTTTTTTTG
* *
35700 ACGTCTTGCTTGGGATCTCCCGGCGTCTTCAA
1 ACGTCTTGCTTGGAATCTCCCGACGTCTTCAA
* * *
35732 ACGTCTTGTTTGGAATTTCTCGACGTCTT
1 ACGTCTTGCTTGGAATCTCCCGACGTCTT
35761 GAGGGTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (32 bp):
ACGTCTTGCTTGGAATCTCCCGACGTCTTCAA
Found at i:35944 original size:22 final size:22
Alignment explanation
Indices: 35901--35945 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35891 CGGATCTAAC
*
35901 AAATTTTTAAATACTTTCTATA
1 AAATTTTTAAATACTTTATATA
*
35923 AAATTTTTATAA-ATTTTATATA
1 AAATTTTTA-AATACTTTATATA
35945 A
1 A
35946 GTTTACTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTTTTAAATACTTTATATA
Found at i:42428 original size:2 final size:2
Alignment explanation
Indices: 42421--42450 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
42411 AAAATCTTTA
*
42421 CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
42451 TTTCAGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:44936 original size:21 final size:22
Alignment explanation
Indices: 44911--44959 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
44901 TTAAACTTAA
*
44911 AAAATAAT-ATTAAATTATTA-T
1 AAAATAATCATTAAAAT-TTATT
44932 AAAATAATCATTAAAATTTATT
1 AAAATAATCATTAAAATTTATT
44954 AAAATA
1 AAAATA
44960 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATAATCATTAAAATTTATT
Found at i:44962 original size:24 final size:20
Alignment explanation
Indices: 44910--44962 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 20
44900 GTTAAACTTA
44910 AAAAATAATATTAAATTATT
1 AAAAATAATATTAAATTATT
44930 ATAAAATAATCATTAAAATTTATT
1 A-AAAATAAT-ATT-AAA-TTATT
44954 AAAATATAA
1 AAAA-ATAA
44963 AAAATATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 3 0.11
23 6 0.21
24 10 0.36
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATAATATTAAATTATT
Found at i:46221 original size:31 final size:32
Alignment explanation
Indices: 46186--46249 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
46176 ATAGTGTTGT
*
46186 TTTGGTTTATGAAGGTGG-AGAGAGGGATTGA
1 TTTGGTGTATGAAGGTGGAAGAGAGGGATTGA
* * *
46217 TTTGGTGTATGGAGGTGGAAGCGTGGGATTGA
1 TTTGGTGTATGAAGGTGGAAGAGAGGGATTGA
46249 T
1 T
46250 GGGTCTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.22, C:0.02, G:0.44, T:0.33
Consensus pattern (32 bp):
TTTGGTGTATGAAGGTGGAAGAGAGGGATTGA
Found at i:49544 original size:21 final size:21
Alignment explanation
Indices: 49502--49545 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
49492 CGGTAAAAAA
* * *
49502 TTACTTAAAATATTATTATTT
1 TTACTTAAAACATCAATATTT
*
49523 TTACTTAAAACATCAATGTTT
1 TTACTTAAAACATCAATATTT
49544 TT
1 TT
49546 TAACATTTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (21 bp):
TTACTTAAAACATCAATATTT
Found at i:49584 original size:27 final size:27
Alignment explanation
Indices: 49554--49615 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
49544 TTTAACATTT
** *
49554 CCGGTAAAGTGCCTAACAATAACAAAA
1 CCGGTAAAGCACCCAACAATAACAAAA
*
49581 CCGGTAAAGCACCCAATAATAACAAAA
1 CCGGTAAAGCACCCAACAATAACAAAA
49608 CCGGTAAA
1 CCGGTAAA
49616 AATAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.24, G:0.15, T:0.13
Consensus pattern (27 bp):
CCGGTAAAGCACCCAACAATAACAAAA
Found at i:50751 original size:17 final size:17
Alignment explanation
Indices: 50729--50761 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50719 AAAAACATAA
*
50729 GTATATCAATCAATATG
1 GTATATCAAACAATATG
50746 GTATATCAAACAATAT
1 GTATATCAAACAATAT
50762 AGTAATTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
GTATATCAAACAATATG
Found at i:67979 original size:13 final size:13
Alignment explanation
Indices: 67961--68006 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
67951 TTCTATCTAC
67961 TTCACTTTTTCAT
1 TTCACTTTTTCAT
67974 TTCACTTTTTCAT
1 TTCACTTTTTCAT
*
67987 TTCACCTTTTCAT
1 TTCACTTTTTCAT
*
68000 TTTACTT
1 TTCACTT
68007 GCATCCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (13 bp):
TTCACTTTTTCAT
Found at i:69185 original size:24 final size:24
Alignment explanation
Indices: 69140--69185 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
69130 GTTCCCCATC
* *
69140 CTGCCACTGAAGATGCTCACCAGT
1 CTGCCACTGAAGAGGCTAACCAGT
* *
69164 CTGCCAGTGAAGAGGTTAACCA
1 CTGCCACTGAAGAGGCTAACCA
69186 ACCTACCGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (24 bp):
CTGCCACTGAAGAGGCTAACCAGT
Found at i:72813 original size:15 final size:15
Alignment explanation
Indices: 72785--72820 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
72775 GAAGAAGAGT
72785 ATAAGTTCTATATAAG
1 ATAA-TTCTATATAAG
*
72801 ATAATTCTGTATAAG
1 ATAATTCTATATAAG
72816 ATAAT
1 ATAAT
72821 AAAGTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (15 bp):
ATAATTCTATATAAG
Found at i:73772 original size:15 final size:15
Alignment explanation
Indices: 73754--73809 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
73744 TAACCGGTTT
73754 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
73769 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
73786 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
73801 CGATTTTAA
1 CGGTTTTAA
73810 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:73782 original size:17 final size:17
Alignment explanation
Indices: 73757--73807 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
73747 CCGGTTTCGG
73757 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
73774 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
73789 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
73806 TT
1 TT
73808 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:74226 original size:13 final size:13
Alignment explanation
Indices: 74205--74259 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
74195 AAGTTCGATA
*
74205 AATTCAAATACTT
1 AATTGAAATACTT
74218 AATTGAAATACTT
1 AATTGAAATACTT
* *
74231 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
74245 AATTGAAATACTT
1 AATTGAAATACTT
74258 AA
1 AA
74260 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:74290 original size:33 final size:32
Alignment explanation
Indices: 74245--74342 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
74235 AACTCAACAT
* *
74245 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAA-ACTTCCAAGTTCGATA
74278 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTT-AAAACTTCCAAGTTCGATA
74311 AATTCAAATACTTAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAACTTCCAAGTTCGATA
74342 A
1 A
74343 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 12 0.19
32 7 0.11
33 40 0.65
34 3 0.05
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (32 bp):
AATTCAAATACTTAAAACTTCCAAGTTCGATA
Found at i:74361 original size:21 final size:21
Alignment explanation
Indices: 74337--74376 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
74327 ACTTCAAGTT
74337 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
74358 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
74377 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:76688 original size:12 final size:12
Alignment explanation
Indices: 76671--76716 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
76661 TTCGGATAAA
76671 AACCGGTTTTTT
1 AACCGGTTTTTT
76683 AACCGGTTTTTTT
1 AACCGG-TTTTTT
76696 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
76710 ATCCGGT
1 AACCGGT
76717 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:76701 original size:15 final size:14
Alignment explanation
Indices: 76670--76709 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
76660 TTTCGGATAA
76670 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
76683 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
76696 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
76710 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:76989 original size:13 final size:13
Alignment explanation
Indices: 76971--76999 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76961 TTGATCTTAT
76971 ATGGATATAATTA
1 ATGGATATAATTA
76984 ATGGATATAATTA
1 ATGGATATAATTA
76997 ATG
1 ATG
77000 AACAAAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (13 bp):
ATGGATATAATTA
Found at i:87799 original size:21 final size:21
Alignment explanation
Indices: 87773--87814 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87763 CGGGTCATCT
*
87773 ATAAGTCTTTCGAGCAAGATG
1 ATAAGTCCTTCGAGCAAGATG
* *
87794 ATAAGTCCTTCGGGCAGGATG
1 ATAAGTCCTTCGAGCAAGATG
87815 TTTTCACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (21 bp):
ATAAGTCCTTCGAGCAAGATG
Found at i:87931 original size:35 final size:35
Alignment explanation
Indices: 87880--87948 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
87870 GAAAATTATT
87880 AAAAGTAAGAAAAGTTTCTTACTTAGTAAACTATG
1 AAAAGTAAGAAAAGTTTCTTACTTAGTAAACTATG
*
87915 AAAATTAAGAAAAGTTTCTTACTTAGTAAACTAT
1 AAAAGTAAGAAAAGTTTCTTACTTAGTAAACTAT
87949 TTTCAAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (35 bp):
AAAAGTAAGAAAAGTTTCTTACTTAGTAAACTATG
Found at i:88489 original size:233 final size:233
Alignment explanation
Indices: 86687--89044 Score: 2099
Period size: 233 Copynumber: 10.0 Consensus size: 233
86677 AAGAAAAATG
86687 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
** * *
86752 ACCTAGTAAACTATTTCCAAAATTTATAAGCCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGAT
66 ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGAT
* *
86817 GCTTAAATCCTTCGGGTCATCTGTAAGTCATTCGAGCAAGATGATAAGT-CTATCGGGCCATCCA
131 GCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCT-TCGGGCCATCCA
* *
86881 TAAGACCTTCGGGCATA-ATTTTTTCACGTGTCTCTCGAA
195 TAAGACCTTCGGGCA-AGATGTTTTCACATGTCTCTCGAA
* **
86920 AAAAGAGAAATATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
* * * * **
86985 ACTTAGTAAACTATTTCTAAAATTTATAAGTTATTTGGGCCATCAGTAAGTCCTTCAAGCATGAT
66 ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGAT
* *
87050 GCTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATCCAT
131 GCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCAT
* * * *
87115 AAAACCTTCGGGCAGGATATTTTTACATGTCTCTCGAA
196 AAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
* *
87153 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTCTGAAAAGTAAGAAATGTTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
* * * * *
87218 ACCCAGTAAACTACTTCCAAAATTTATAAG-TCTTTCAGACCATTAGTAAGTCTTTTGAGCATGA
66 ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTT-GGGCCATCAGTAAGTCTTTTGAGCATGA
* * * * *
87282 TACTTACATCAC-TCAGGTCATCTTTAAGTCTTTCGAGCAAGATGAAAAGTCCTTCGGGCCATCC
130 TGCTTAAATC-CTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCC
* * * *
87346 ATAAGACCTTCGGGGAAGATGTTTCCACATGTTTCTCAAA
194 ATAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
* * * *
87386 AAATAGATAAAGGTTTTTTATTTAAATCTGAAAATTGAAATTTTTGAATAGTAAGAAAGGTTTCT
1 AAAT-GAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
* * *
87451 TACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTTGGGCCATCCGTAAGTCTTTCGAGCATGA
65 TACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGA
* * * *
87516 TTCTTAAATCCTTCGGGTCTTCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTCGGGCCATCCA
130 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
* *
87581 TAAGACATTCGGGTAAGATGTTTTCACATGTCTCTCGAA
195 TAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
* * * **
87620 AAATGAGAAAGATTTCTTATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAATATTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
* * * *
87685 ACCTTGTAAACTATTTCCAAAATTTATAAGTTATTCGGGTCATCAGTAAGTCTTTTTGAGCATGA
66 ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTC-TTTTGAGCATGA
* * *
87750 TGCTTAAGTTCATCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGG-----C-
130 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
**
87809 ----A-------G---GATGTTTTCACACATCTCTCGAA
195 TAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
* * *
87834 AAATGAGAAAGGTTTCTCATTTAAATATGAAAAATTGAAAATTATT-AAAAGTAAGAAAAGTTTC
1 AAATGAGAAAGGTTTCTCATTTAAATCTG-AAAATTG-AAATTTTTGAAAAGTAAGAAAGGTTTC
* * * * * * * * *
87898 TTACTTAGTAAACTA--T-GAAAATTAAGAAAAGTT-TCTT---AC-TTAGTAAACTATTTTCA-
64 TTACCTAGTAAACTATTTCCAAAATT--TATAAGTTCT-TTGGGCCATCAGT-AAGTCTTTTGAG
* * * ** * * * * * *
87954 -AAG-T-TTGTAACTCCTTCGGGAAATC-AGTAAGTCTTTTGAACATGATGCTTAAATCATTCGG
125 CATGATGCT-TAAATCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAAGATG-ATAAGTCCTTCGG
* ** * * * ** * * *
88015 GTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTC-CTTCGAGC-CATCCATA
187 GCCATCCATAAGACCTTCGGGCAAGATG-T-TTTCACAT-G-TCTC-TCGA-A
* * * * ** ** * *
88066 AGACCTTCGGGCATGATGTTT-TCACATATCTCTCGAAAAATGAGAAAGGTTTCTCATTTAAATC
1 A-A--AT-GAG-A-AAGGTTTCTCATTTAAATCT-G-AAAAT-TGAAA---TT-T--TTGAAA--
* * ** *** ** * * *
88130 TGAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAGTTGGT
49 AG-TAA--GAAAGGTTTCTTACCT-AGTAAACTAT-TT-CC----AAA--ATTT----A--T---
* * * * * * *
88195 AAGTCCTTCGGGCCATAAGTATGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAG
93 AAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG
* * * *
88260 TCTTTCGAGTAAGATGATAAGTCTTTCGGGCCATCCATAAGACCTTCGGGCAAGACGTTTTCACG
158 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACA
*
88325 TGTCTTTCGAA
223 TGTCTCTCGAA
* * * *
88336 AAATGAGAAAGGTTTCTCATTTAAGTCTGAAATTTGAATTTTTTTTAAAAGTAAGAAAGGTTTCT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAA-ATTTTTGAAAAGTAAGAAAGGTTTCT
* * * *
88401 TACCTAGTAAATTATTTCTAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTATTTCGAGCATGA
65 TACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGA
* * *
88466 TGCTTAAATCCTTC-GGACATCTGTAAGTCTTTCGAGCAGGATGATAAGTCCTTCGGGCCATCCA
130 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
* * *
88530 TAAGACCTTTGGTCAGGATGTTTTCACATGTCTCTCGAA
195 TAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
* * *
88569 AAATGATAAAGATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
* ** * * * *
88634 ACCTAGTAAACTATTTCCAAAGTTGGTTAGATATTTGGGCCATCAGTAAGTCTTTCGAGCATGAT
66 ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGAT
* * * * * * * * *
88699 G-TTGAAATCCTTTGGGTCTTATGTTAGTTTTTCGAGCAAGATGATAAGTCATTCGGGTCGTCCA
131 GCTT-AAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
* * * * * * *
88763 TAAGATCTTCGTGTAGGATGTTTTCACATGTTTGTTGAA
195 TAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
*
88802 AAATGAGAAAGGTTTCTCATTTAAATCTG-AAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTT
1 AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
* * * * * *
88866 ACCTAGTAAACTATTTCC-AAATTTGGTAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCAAGA
66 ACCTAGTAAACTATTTCCAAAATTT-ATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGA
* * * * *
88930 TGATTAAATCCTTCGGGTCATTTATAAGCCTCTCGAACAAGATGATAAGTCCTTCGGGCCATCCA
130 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
* * * * *
88995 TAAGTCCTTTGGGCAGGATGTTTTCGCATGAT-TTTCCGAA
195 TAAGACCTTCGGGCAAGATGTTTTCACATG-TCTCT-CGAA
89035 AAATGAGAAA
1 AAATGAGAAA
89045 ACAATTTCCA
Statistics
Matches: 1715, Mismatches: 306, Indels: 208
0.77 0.14 0.09
Matches are distributed among these distances:
206 2 0.00
207 31 0.02
208 13 0.01
210 9 0.01
211 4 0.00
212 6 0.00
213 2 0.00
214 55 0.03
215 36 0.02
216 7 0.00
217 1 0.00
224 1 0.00
225 1 0.00
228 4 0.00
229 3 0.00
230 3 0.00
231 10 0.01
232 256 0.15
233 736 0.43
234 310 0.18
235 5 0.00
236 2 0.00
237 9 0.01
238 15 0.01
239 2 0.00
241 2 0.00
243 4 0.00
244 2 0.00
245 6 0.00
247 1 0.00
248 2 0.00
249 1 0.00
250 12 0.01
251 13 0.01
252 9 0.01
254 3 0.00
255 1 0.00
257 6 0.00
259 1 0.00
260 5 0.00
262 6 0.00
263 4 0.00
264 7 0.00
265 9 0.01
266 2 0.00
267 1 0.00
269 6 0.00
270 3 0.00
271 4 0.00
272 10 0.01
273 7 0.00
274 33 0.02
275 31 0.02
276 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (233 bp):
AAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
ACCTAGTAAACTATTTCCAAAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTTGAGCATGAT
GCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCAT
AAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCGAA
Found at i:88493 original size:41 final size:40
Alignment explanation
Indices: 88442--88521 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
88432 TTCTTTGGGC
* *
88442 CATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCGGA
1 CATCAGTAAGTATTTCGAGCAGGATG-ATAAATCCTTCGGA
* * *
88483 CATCTGTAAGTCTTTCGAGCAGGATGATAAGTCCTTCGG
1 CATCAGTAAGTATTTCGAGCAGGATGATAAATCCTTCGG
88522 GCCATCCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 11 0.32
41 23 0.68
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (40 bp):
CATCAGTAAGTATTTCGAGCAGGATGATAAATCCTTCGGA
Found at i:88943 original size:42 final size:42
Alignment explanation
Indices: 88896--88998 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
88886 ATTTGGTAAG
* * *
88896 TCCTTCGGGCT-A-TCAGTAAGTCTTTCGAGCAAGATGATTAAA
1 TCCTTCGGGCTCATTCA-TAAGCCTCTCGAACAAGATGA-TAAA
* *
88938 TCCTTCGGG-TCATTTATAAGCCTCTCGAACAAGATGATAAG
1 TCCTTCGGGCTCATTCATAAGCCTCTCGAACAAGATGATAAA
*
88979 TCCTTCGGGC-CATCCATAAG
1 TCCTTCGGGCTCATTCATAAG
88999 TCCTTTGGGC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
41 21 0.41
42 28 0.55
43 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
TCCTTCGGGCTCATTCATAAGCCTCTCGAACAAGATGATAAA
Found at i:89525 original size:133 final size:134
Alignment explanation
Indices: 89318--89600 Score: 399
Period size: 133 Copynumber: 2.1 Consensus size: 134
89308 GCGAATCGAA
* * * *
89318 CTCGATTCAATTTTCCCTGAGTGACAGTGGAATAAATCAACTCCCCTAGATATGATTTTTACTCA
1 CTCGATTCAATCTTCCATGAGTGACAGTGGAATAAATCAACTCCCCTAGATATAATTTTCACTCA
* * * *
89383 AGAAAAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGT
66 AGAAAAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAAT
*
89448 CTGC
131 CTAC
* * * *
89452 CTCGATTCAATCTTCCATGAGTGACAGTGGAGTGAATCAACGT-CCC-AGATCTAATTTTCCCTC
1 CTCGATTCAATCTTCCATGAGTGACAGTGGAATAAATCAAC-TCCCCTAGATATAATTTTCACTC
* *
89515 AAGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAA
65 AAGAAAAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAA
89580 TCTAC
130 TCTAC
*
89585 CTCTATTCAATCTTCC
1 CTCGATTCAATCTTCC
89601 CTGAAGAATA
Statistics
Matches: 132, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
133 91 0.69
134 40 0.30
135 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCATGAGTGACAGTGGAATAAATCAACTCCCCTAGATATAATTTTCACTCA
AGAAAAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAAT
CTAC
Found at i:89804 original size:3 final size:3
Alignment explanation
Indices: 89796--89821 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
89786 TCTTCCCATA
89796 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
89822 ATTAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:89827 original size:4 final size:4
Alignment explanation
Indices: 89818--89842 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
89808 TATTATTATT
89818 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
89843 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:94172 original size:11 final size:11
Alignment explanation
Indices: 94156--94189 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
94146 GAGTCGATTC
94156 GAAATTAATGA
1 GAAATTAATGA
94167 GAAATTAATGA
1 GAAATTAATGA
94178 GAAATTAATGA
1 GAAATTAATGA
94189 G
1 G
94190 TAACGGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (11 bp):
GAAATTAATGA
Found at i:94766 original size:21 final size:21
Alignment explanation
Indices: 94742--94781 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94732 TAATAATGTC
*
94742 CAATAGCGCCCGCTATAGCTG
1 CAATAACGCCCGCTATAGCTG
* *
94763 CAATAACGTCCGTTATAGC
1 CAATAACGCCCGCTATAGC
94782 CGTAATTGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
CAATAACGCCCGCTATAGCTG
Found at i:95485 original size:21 final size:22
Alignment explanation
Indices: 95430--95485 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
95420 TTTCAACTAT
95430 CCTTAAGTCTATCAAAAGTAGG
1 CCTTAAGTCTATCAAAAGTAGG
* *
95452 ACTTCTA-TCTATCAAAAGTA-G
1 CCTT-AAGTCTATCAAAAGTAGG
95473 CCTTAAGTCTATC
1 CCTTAAGTCTATC
95486 CCGAATCATC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 1 0.04
21 10 0.36
22 16 0.57
23 1 0.04
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (22 bp):
CCTTAAGTCTATCAAAAGTAGG
Found at i:102194 original size:23 final size:23
Alignment explanation
Indices: 102167--102224 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
102157 CCTTAGGGGA
102167 GGTATCGATACCCATTCAAAGAG
1 GGTATCGATACCCATTCAAAGAG
* * *
102190 GGTATCGGTACCCTTTCAAAGGG
1 GGTATCGATACCCATTCAAAGAG
102213 GGTATCGATACC
1 GGTATCGATACC
102225 TAGCACACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (23 bp):
GGTATCGATACCCATTCAAAGAG
Found at i:106071 original size:22 final size:21
Alignment explanation
Indices: 106029--106068 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
106019 AAGACTATTT
106029 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
106050 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
106069 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:113900 original size:131 final size:131
Alignment explanation
Indices: 113665--113926 Score: 488
Period size: 131 Copynumber: 2.0 Consensus size: 131
113655 AGATGGATCG
113665 AGATTTTAAAAGATTATGATGTGATGACTGATTATCATCCAAGAAAAGCTAATGTGGTAGCTGAT
1 AGATTTTAAAAGATTATGATGTGATGACTGATTATCATCCAAGAAAAGCTAATGTGGTAGCTGAT
* *
113730 GCACTTAGTCAAAAGACTTTTGCAGCTCTGCGAGATTTGGATGCACGTATATCAGTAAAAGAATA
66 GCACTTAGTCAAAAGACTTTTGCAACTCTACGAGATTTGGATGCACGTATATCAGTAAAAGAATA
113795 T
131 T
113796 AGATTTTAAAAGATTATGATGTGATGACTGATTATCATCCAAGAAAAGCTAATGTGGTAGCTGAT
1 AGATTTTAAAAGATTATGATGTGATGACTGATTATCATCCAAGAAAAGCTAATGTGGTAGCTGAT
* *
113861 GCACTTAGTCGAAAGACTTTTGCAACTCTACGAGCTTTGGATGCACGTATATCAGTAAAAGAATA
66 GCACTTAGTCAAAAGACTTTTGCAACTCTACGAGATTTGGATGCACGTATATCAGTAAAAGAATA
113926 T
131 T
113927 GGCACCTTAA
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (131 bp):
AGATTTTAAAAGATTATGATGTGATGACTGATTATCATCCAAGAAAAGCTAATGTGGTAGCTGAT
GCACTTAGTCAAAAGACTTTTGCAACTCTACGAGATTTGGATGCACGTATATCAGTAAAAGAATA
T
Found at i:121599 original size:81 final size:81
Alignment explanation
Indices: 121446--122584 Score: 1606
Period size: 81 Copynumber: 14.1 Consensus size: 81
121436 ATTCCTTTAG
* ** * * * *
121446 TCTTTTAC-CAAAGGTATTTAGTCTTTCATCTAACTAGCATAATTGACACTTTTCTGCCAAATCC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
121510 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
121526 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTAACACTTTTCTGCCAAATGA
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
121591 ACAACTAGGCCATAAA
66 ACAGCTAGGCCATTAA
* * *
121607 TCTTTTACTCGATGGTATTTAACTGTTCATCTAACT-GCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
121671 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
121687 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGTATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
121752 AAAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* ** * * *
121768 TCTTTTACTGAATAGTATTTAACCGTTCATCTAACTAGCATAATTGAAACCTTTCTGCCAAATAC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
121833 ACAGCT-GTGCCATTAA
66 ACAGCTAG-GCCATTAA
* * * *
121849 TCTTTTACTCAACGGTATGTAATCGTTCATCTAACTGGCATAATTGGCACCTTTCTGCCAAATTC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
121914 ACAGCTATGCCATTAA
66 ACAGCTAGGCCATTAA
* *
121930 TCTTTTGCTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
121995 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
122011 TCTTTTACTTAATGGTATTTAACC-AT-ATCTAACTGGAATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
122074 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
** * * *
122090 TCTTTTACTCAACGGTATTTAGTCGTTCATCTAACTTGCATAGTTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
122155 ACAGCTAGGCTATTAA
66 ACAGCTAGGCCATTAA
* * *
122171 TCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* **
122236 ACATCTAGGCCATTCT
66 ACAGCTAGGCCATTAA
** *
122252 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACCAGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
122317 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
122333 TTTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
**
122398 ACAGCTAATCCATTAA
66 ACAGCTAGGCCATTAA
* * *
122414 TCTTTTACTCAA-GAGTATTTAATCGTTCATCTAATTGGCATAATTGACATCTTTCTGCCAAATG
1 TCTTTTACTCAACG-GTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
* *
122478 CACATCTAAGCCATTAA
65 CACAGCTAGGCCATTAA
* ** *
122495 TCTTTTACTCAACGGTATTTAACCGGTCATCTAACTAACATATTTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
122560 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
122576 TCTTTTACT
1 TCTTTTACT
122585 TTAGAATTGT
Statistics
Matches: 934, Mismatches: 117, Indels: 15
0.88 0.11 0.01
Matches are distributed among these distances:
79 70 0.07
80 83 0.09
81 780 0.84
82 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:122815 original size:57 final size:57
Alignment explanation
Indices: 122745--123005 Score: 425
Period size: 57 Copynumber: 4.6 Consensus size: 57
122735 AAATTCATAT
* * *
122745 AATTTCTTAACTTTTTACACACAAAGTGCCCATGTGGAAATTCATAAACTAATCATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
* * *
122802 AATTTTTTAACTTTTTGCACACAAAGTGACCATATGGAATTTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
* *
122859 ATTTTTTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
122916 AATTTCTTAACTTTTTGCACACAAAGCT-CCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAG-TGCCCATATGGAAATTCATAAACTAATTATG
*
122973 AATTTCTTCACTTTTTGCACACAAAGTGCCCAT
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCAT
123006 TGGGTAATAG
Statistics
Matches: 190, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
56 1 0.01
57 188 0.99
58 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.36
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
Found at i:125044 original size:2 final size:2
Alignment explanation
Indices: 125037--125077 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
125027 CCAGAAAAAC
125037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125078 TTCTGACATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:128724 original size:15 final size:16
Alignment explanation
Indices: 128706--128756 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
128696 TGTTTTATAT
*
128706 GAAAATGTTCTATG-A
1 GAAAATGTTCTAAGTA
*
128721 GAAAATGTGCTAAGTA
1 GAAAATGTTCTAAGTA
*
128737 -AAAATGTTCTACGT-
1 GAAAATGTTCTAAGTA
128751 GAAAAT
1 GAAAAT
128757 ACCCTATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 29 0.97
16 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (16 bp):
GAAAATGTTCTAAGTA
Found at i:128919 original size:24 final size:24
Alignment explanation
Indices: 128887--128932 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
128877 GAGTCGAGGG
128887 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
128911 TTCTACGCGGTCCTTTGGGACA
1 TTCTACGCGGTCCTTCGGGACA
128933 TATCTATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:131130 original size:574 final size:570
Alignment explanation
Indices: 129615--131206 Score: 1933
Period size: 574 Copynumber: 2.8 Consensus size: 570
129605 TACACGCATT
* ** * *
129615 GTAACTATCAAATAAAATATT-CTTATTTCTAAAAATAAACTTTAGAAAAATGATAGTGTAGAGA
1 GTAACTGTCAAATAAAATATTCCTT-TTTCTAAAAATAAACAATAGAAAAAAGATAGTATAGAGA
* * * * ** * * * * * *
129679 AGTAAGGCCAATCCGCATAGACTTTAGAGTTTCCAATTTCGAATTATTTTGATATGGATTAAATG
65 AGTAGGGTCGATCTGCAGGGACTTTGGAGTTTCCAATTCCGAATTGTTTTGATATAGATGAAA-C
* * * *
129744 GAGAAATAAAGAAAATTAGGGTTATCA-AGTAAAAATAAAAGAAACGAGGATCTT---AAAAATG
129 AAAAAATAAAGAAAA-TAGGGTTATCATA-TAAAAATAAAAGAAACGAAGATCTTGAAAAAAAAG
* *
129805 ACGGAAAATAAAACAAGGTAATTTTTTAAAAGAAATCAAATAGATGAAATAGCCTCAAGCTTCGC
192 ACGAAAAATAAAACAAGGTAAATTTTTAAAAGAAATCAAATAGATGAAATAGCCTCAAGCTTCGC
* * * * *
129870 TTTGCCTCAATTCCAATTAATCATCGAAAGAGATTTTACTTTAGGTAACATGTCGGTTACATTCT
257 TTTGCCTCAATTCCAATTAATCATCGAAAGAGATTTTACTTCAAGAAACATGTCAGTTACAGTCT
* *
129935 TCAAGGCCCAACCCTTGTAAC-T-TTTTT-TCTCTGGTAAAACGATATTACAAAGTCTATCTCCA
322 TCAAGGCACAACCCTTGTAACTTATTTTTCTCTCTAGTAAAACGATATT-CAAAGTCTATCT-C-
* * * * ** * *
129997 AAATTCAGTCCTTGTTGGACTAACCACAATTATCACTTTTAGTTTCACTACAACTTTAAGCGACC
384 TAATTCAGTCCTTGTTGGACTAACCACGACTATCTCTTTTAG-CACAATACAACTTTAAGCAACC
* * * **
130062 TGGTCGATCTCGGGTTTGTAGTACGTTAAATTTTCTGGAAGCAACCTGGTTATAGATCAAAACAA
448 TAGTCAATCTCGGGTCTGTAGTACGTTAAATTTTCTGGAAGCAACCTGGAGATAGATCAAAACAA
* *
130127 AAATGAGACTAGTAACTTTTTCGTAGTCCCCGACAATAGCGCCAATTTGACACGGGTC
513 AAATGAGACTAGTAACTTTATCGTAGTCCCCGACAAGAGCGCCAATTTGACACGGGTC
* * * *
130185 GTAACTGTCAAATAAAAATATTCCTATTTCTGAAAATAAACAATGGAAAAAAGATAATATAGAGA
1 GTAACTGTCAAAT-AAAATATTCCTTTTTCTAAAAATAAACAATAGAAAAAAGATAGTATAGAGA
*** * *
130250 AGTAGGGTCGATCTGCAGGGACTTTGGAGTTTTTGATTCTGAATTGTTTTTATATAGATGAAACA
65 AGTAGGGTCGATCTGCAGGGACTTTGGAGTTTCCAATTCCGAATTGTTTTGATATAGATGAAAC-
* *
130315 AAAAAATAAAAGAAAATGGGGATATCATAT---AA-AAAAGAAACGAAGATCTTGAAAAATAAAT
129 AAAAAAT-AAAGAAAATAGGGTTATCATATAAAAATAAAAGAAACGAAGATCTTGAAAAA-AAA-
* *
130376 GATGAAAAATAAAACAAGGT-AATTTTTAAAATAAATCAAATAGATGAAAATAGCCTCAAGCTTC
191 GACGAAAAATAAAACAAGGTAAATTTTTAAAAGAAATCAAATAGATG-AAATAGCCTCAAGCTTC
*
130440 GCTTTGCCTCAATTCCAATTAATCATCGAAAGAGATTTTACTTCAAGAAACATATCAGTTACAGT
255 GCTTTGCCTCAATTCCAATTAATCATCGAAAGAGATTTTACTTCAAGAAACATGTCAGTTACAGT
* * * * * *
130505 CTTCGAGGCTCAACCCTTGTAACTTACTTTTCTCTGTCGTAAAATGATATTCAGAAGTCTATCTC
320 CTTCAAGGCACAACCCTTGTAACTTATTTTTCTCTCTAGTAAAACGATATTCA-AAGTCTATCTC
* * *
130570 TGGAATTCAGTCCTTATTGGACTAATCACGGCTATCTCTTTTAGCGACAATACAACTTTAAGCAA
384 T--AATTCAGTCCTTGTTGGACTAACCACGACTATCTCTTTTAGC-ACAATACAACTTTAAGCAA
* * *
130635 CCTAGTTAATCTCGGGTCTGTAGTTCGTTAAA-TTTCTTGGAAGCAACTTGGAGATAGATCAAAA
446 CCTAGTCAATCTCGGGTCTGTAGTACGTTAAATTTTC-TGGAAGCAACCTGGAGATAGATCAAAA
* *
130699 CAAAAATTAGACTAGTAACTTTATCGCT-GTCCCCGATAACGA-CGCCAATTTGACACGGGTC
510 CAAAAATGAGACTAGTAACTTTATCG-TAGTCCCCGACAA-GAGCGCCAATTTGACACGGGTC
* *
130760 GTAACTGTCAAATAAAATATTCCTTTTTCTCAAAATAAACAATAGAAAAAAGATAGTATGGAGAA
1 GTAACTGTCAAATAAAATATTCCTTTTTCTAAAAATAAACAATAGAAAAAAGATAGTATAGAGAA
* * * * *
130825 GTTGGGTTGATATGCAGGGACTTTGGTGTTTCCAATTCCGAATTGTTTTGATCTAGATGAAACAA
66 GTAGGGTCGATCTGCAGGGACTTTGGAGTTTCCAATTCCGAATTGTTTTGATATAGATGAAACAA
*
130890 AAAATAAAGAAAAAAGGGTTATCATATAAAAATAAAAGAAACGAAGATCTTGAAAAAAAAGACGA
131 AAAATAAAGAAAATAGGGTTATCATATAAAAATAAAAGAAACGAAGATCTTGAAAAAAAAGACGA
* * * ** * *
130955 AAAATAAAACAAGTTAAATTTTTAGAAGAAATCAAATATATGAAATAGTATTATGCTTCGCTTTG
196 AAAATAAAACAAGGTAAATTTTTAAAAGAAATCAAATAGATGAAATAGCCTCAAGCTTCGCTTTG
* * * * * *
131020 ACTCAA-TCCTAATTAATTATCGAAAGATATTTTACTTCACGAAATATGTCAGTTACAGTCTACA
261 CCTCAATTCC-AATTAATCATCGAAAGAGATTTTACTTCAAGAAACATGTCAGTTACAGTCTTCA
* *
131084 AGGCACAACCCTTGTAACTTATTTTTCTCTCTAGTAAACCGATATTCCCAAGTCTATCTTCATAA
325 AGGCACAACCCTTGTAACTTATTTTTCTCTCTAGTAAAACGATATT-CAAAGTCTATC-TC-TAA
* *
131149 TTCAGTCCTTGCTGGACTAACCACGACTATCGTC-ATTAGCACCAATACAACTTTAAGC
387 TTCAGTCCTTGTTGGACTAACCACGACTATC-TCTTTTAGCA-CAATACAACTTTAAGC
131207 GCTAGAAAAG
Statistics
Matches: 872, Mismatches: 118, Indels: 60
0.83 0.11 0.06
Matches are distributed among these distances:
567 17 0.02
568 2 0.00
570 15 0.02
571 128 0.15
572 145 0.17
573 12 0.01
574 299 0.34
575 227 0.26
576 27 0.03
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (570 bp):
GTAACTGTCAAATAAAATATTCCTTTTTCTAAAAATAAACAATAGAAAAAAGATAGTATAGAGAA
GTAGGGTCGATCTGCAGGGACTTTGGAGTTTCCAATTCCGAATTGTTTTGATATAGATGAAACAA
AAAATAAAGAAAATAGGGTTATCATATAAAAATAAAAGAAACGAAGATCTTGAAAAAAAAGACGA
AAAATAAAACAAGGTAAATTTTTAAAAGAAATCAAATAGATGAAATAGCCTCAAGCTTCGCTTTG
CCTCAATTCCAATTAATCATCGAAAGAGATTTTACTTCAAGAAACATGTCAGTTACAGTCTTCAA
GGCACAACCCTTGTAACTTATTTTTCTCTCTAGTAAAACGATATTCAAAGTCTATCTCTAATTCA
GTCCTTGTTGGACTAACCACGACTATCTCTTTTAGCACAATACAACTTTAAGCAACCTAGTCAAT
CTCGGGTCTGTAGTACGTTAAATTTTCTGGAAGCAACCTGGAGATAGATCAAAACAAAAATGAGA
CTAGTAACTTTATCGTAGTCCCCGACAAGAGCGCCAATTTGACACGGGTC
Found at i:134617 original size:30 final size:29
Alignment explanation
Indices: 134552--134626 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 29
134542 AAAATTGGTT
* **
134552 AATTTGGTTCGGTTAATAATGTTCAAATT
1 AATTTGGTTCGGTTAATAATGTTAAAAAA
*
134581 AATTTGGTTCGGTTAATAATTTTTAAAAAA
1 AATTTGGTTCGGTTAATAA-TGTTAAAAAA
*
134611 AATTTGGTTCGATTAA
1 AATTTGGTTCGGTTAA
134627 CCGAACCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.47
30 21 0.52
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (29 bp):
AATTTGGTTCGGTTAATAATGTTAAAAAA
Found at i:134702 original size:134 final size:134
Alignment explanation
Indices: 134548--134796 Score: 408
Period size: 134 Copynumber: 1.9 Consensus size: 134
134538 GAAAAAAATT
* * * * *
134548 GGTTAATTTGGTTCGGTTAATAATGTTCAAATTAATTTGGTTCGGTTAATAATTTTTAAAAAAAA
1 GGTTAATTCGATTCGGTTAATAATGTTCAAATTAATTCGGTTCAGTTAATAATTTTCAAAAAAAA
*
134613 TTTGGTTCGATTAACCGAACCGAATTAACCAAATTTTTTCTTCGGTTAATAATTTTCAAAATAAA
66 TTTGGTTCGATTAACCGAACCGAATTAACCAAATTTTTTCTTCGATTAATAATTTTCAAAATAAA
134678 TTTC
131 TTTC
* * * *
134682 GGTTAATTCGATTCGGTTAATAATTTTCAAATTAATTCGGTTCAGTTAATAATTTTCAAATAGAT
1 GGTTAATTCGATTCGGTTAATAATGTTCAAATTAATTCGGTTCAGTTAATAATTTTCAAAAAAAA
134747 TTTGGTTCGATTAACCGAACCGAATTAACCAAATTTTTTCTTCGATTAAT
66 TTTGGTTCGATTAACCGAACCGAATTAACCAAATTTTTTCTTCGATTAAT
134797 TCGGTTAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
134 105 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (134 bp):
GGTTAATTCGATTCGGTTAATAATGTTCAAATTAATTCGGTTCAGTTAATAATTTTCAAAAAAAA
TTTGGTTCGATTAACCGAACCGAATTAACCAAATTTTTTCTTCGATTAATAATTTTCAAAATAAA
TTTC
Found at i:134729 original size:29 final size:29
Alignment explanation
Indices: 134684--134742 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
134674 TAAATTTCGG
*
134684 TTAATTCGATTCGGTTAATAATTTTCAAA
1 TTAATTCGATTCAGTTAATAATTTTCAAA
*
134713 TTAATTCGGTTCAGTTAATAATTTTCAAA
1 TTAATTCGATTCAGTTAATAATTTTCAAA
134742 T
1 T
134743 AGATTTTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (29 bp):
TTAATTCGATTCAGTTAATAATTTTCAAA
Found at i:137174 original size:84 final size:84
Alignment explanation
Indices: 137033--137196 Score: 256
Period size: 84 Copynumber: 2.0 Consensus size: 84
137023 CTTCAAATCG
* *
137033 ATTTGAATTACCCAGACAAAATTAAGGCATTACAGATTTATGATCAAGATAATAGAAGAACATAT
1 ATTTGAATTACCCAGACAAAATTAAGGCATTACAGATTTATGATCAAGACAAGAGAAGAACATAT
*
137098 AGTAAAATCAAGTCCTTCA
66 AATAAAATCAAGTCCTTCA
* * * * *
137117 ATTTGAATTATCCAGACAAAGTTAGGGCATTACAGGTTTATGATCAAGACAAGAGAAGAACATGT
1 ATTTGAATTACCCAGACAAAATTAAGGCATTACAGATTTATGATCAAGACAAGAGAAGAACATAT
137182 AATAAAATCAAGTCC
66 AATAAAATCAAGTCC
137197 AAAAGATAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (84 bp):
ATTTGAATTACCCAGACAAAATTAAGGCATTACAGATTTATGATCAAGACAAGAGAAGAACATAT
AATAAAATCAAGTCCTTCA
Found at i:138855 original size:2 final size:2
Alignment explanation
Indices: 138848--138872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
138838 TTTTAAAAAC
138848 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
138873 CAACCCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:139100 original size:24 final size:24
Alignment explanation
Indices: 139073--139123 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
139063 TATATCAAAA
*
139073 ATCAAAACATAA-TCCAGGTTAAGT
1 ATCAAAACA-AATTCCAGGTCAAGT
* *
139097 ATCAGATCAAATTCCAGGTCAAGT
1 ATCAAAACAAATTCCAGGTCAAGT
139121 ATC
1 ATC
139124 CGATCAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (24 bp):
ATCAAAACAAATTCCAGGTCAAGT
Found at i:143846 original size:24 final size:24
Alignment explanation
Indices: 143819--143868 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
143809 TATATCAAAA
143819 ATCAAAACATAA-TCCAGGTCAAGT
1 ATCAAAACA-AATTCCAGGTCAAGT
* *
143843 ATCAAATCAAATTCCATGTCAAGT
1 ATCAAAACAAATTCCAGGTCAAGT
143867 AT
1 AT
143869 TCGATTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (24 bp):
ATCAAAACAAATTCCAGGTCAAGT
Found at i:143892 original size:19 final size:19
Alignment explanation
Indices: 143865--143904 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
143855 TCCATGTCAA
* * *
143865 GTATTCGATTAGAATCTAG
1 GTATCCGATCAGAATCCAG
143884 GTATCCGATCAGAATCCAG
1 GTATCCGATCAGAATCCAG
143903 GT
1 GT
143905 CAGGTATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (19 bp):
GTATCCGATCAGAATCCAG
Found at i:150297 original size:21 final size:23
Alignment explanation
Indices: 150263--150319 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
150253 AGCATTTTGA
*
150263 AAAAGAAAACAAAAACTT-AAAG
1 AAAAGAAAATAAAAACTTGAAAG
* *
150285 TAAA-AAAAT-AAAAGTTGAAAG
1 AAAAGAAAATAAAAACTTGAAAG
150306 AAAAGAAAATAAAA
1 AAAAGAAAATAAAA
150320 CCTAAGAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 8 0.29
23 3 0.11
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.12
Consensus pattern (23 bp):
AAAAGAAAATAAAAACTTGAAAG
Found at i:150317 original size:22 final size:21
Alignment explanation
Indices: 150263--150329 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
150253 AGCATTTTGA
*
150263 AAAAGAAAACAAAAACTTAAAG
1 AAAAGAAAA-TAAAACTTAAAG
* *
150285 TAAA-AAAATAAAAGTTGAAAG
1 AAAAGAAAATAAAACTT-AAAG
*
150306 AAAAGAAAATAAAACCTAAGAG
1 AAAAGAAAATAAAACTTAA-AG
150328 AA
1 AA
150330 TTTTTATAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.17
21 13 0.36
22 17 0.47
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAGAAAATAAAACTTAAAG
Found at i:157308 original size:2 final size:2
Alignment explanation
Indices: 157301--157330 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
157291 CATAATTTTA
157301 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
157331 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:161578 original size:118 final size:118
Alignment explanation
Indices: 161369--161823 Score: 495
Period size: 118 Copynumber: 3.8 Consensus size: 118
161359 TCTGAGCTAT
* * * *
161369 AAGTTTTTCTCATTATGAACTT-TTC-GCTCACTTCGGACGAGTTCTTCTTATTATGAACTTTTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCGGACGAGTTCTTCTCATTATGAACTTTTC
* * * * * *
161432 CACTGGGAATGATGATCTATCTCTTTCTGTGATAGAATCTAACTAAGGTTGAAC
65 CATTGGAAATGTTGATCCATCTCCTTCTGTGATAGAATCGAACTAAGGTTGAAC
* * * * * *
161486 AAGTTCTTCTCATTATGAACTTCTTCTTTCTCTTTGGATGAGTTATTCTCATTATAAACTTTTTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCGGACGAGTTCTTCTCATTATGAACTTTTCC
* *
161551 GTTGGAAATGTTGATCCATCTCCTTCTGTGATGGAATCGAACTAAGGTTGAAC
66 ATTGGAAATGTTGATCCATCTCCTTCTGTGATAGAATCGAACTAAGGTTGAAC
* * * * * * *
161604 AAGTTCTTTTCATTTTGAACTTCTTCTTCCTATTCGAATGAGTTCTTCTCATTATGAAC-TCTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCGGACGAGTTCTTCTCATTATGAACTTTTCC
* * * * * *
161668 ATTGAAAATGTTGATGTTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAAC
66 ATTG-GAA-----ATGTTGATCCATCTCCTTCTGTGATAGAATCGAAC-TAAGGTTGAAC
* *
161728 AAGTTCTTCTCATTATGATCTTCTTCTTCCTCTTCGGACGAGTTCTTCTCATTATGAAC-TCTCC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCGGACGAGTTCTTCTCATTATGAACTTTTCC
* *
161792 ATTGGAAATGTTGATCCACCTCTTTCTGTGAT
66 ATTGGAAATGTTGATCCATCTCCTTCTGTGAT
161824 GGATTTGAAT
Statistics
Matches: 280, Mismatches: 49, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
117 26 0.09
118 151 0.54
123 32 0.11
124 71 0.25
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (118 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCGGACGAGTTCTTCTCATTATGAACTTTTCC
ATTGGAAATGTTGATCCATCTCCTTCTGTGATAGAATCGAACTAAGGTTGAAC
Found at i:162109 original size:24 final size:22
Alignment explanation
Indices: 162080--162130 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
162070 TGAATCTTTA
162080 TCTTTG-TTGGGATTTCATCTTTGC
1 TCTTTGCTT-GGATTTCA-C-TTGC
*
162104 TCTTTGCTTGGATTTGACTTGC
1 TCTTTGCTTGGATTTCACTTGC
162126 TCTTT
1 TCTTT
162131 TCATTGACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 1 0.04
24 13 0.52
25 2 0.08
ACGTcount: A:0.08, C:0.18, G:0.20, T:0.55
Consensus pattern (22 bp):
TCTTTGCTTGGATTTCACTTGC
Found at i:175637 original size:152 final size:154
Alignment explanation
Indices: 175348--175650 Score: 529
Period size: 152 Copynumber: 2.0 Consensus size: 154
175338 AGAGTATCAT
*
175348 CATTTGTCTCAATATATGGAGCATTACTTGTAACAGAAGCATTGATTTCTTCCTCAGTTCCCAAA
1 CATTTGTCTCAATATATGGAGCATTACTTGTAACAGAAGCATTGATTTCTTCCTCAGCTCCCAAA
* *
175413 CATATCAATTAACCATCAATAACAAACTTCAGTTTTTGATTTAAAGAAGAAGGAACAACTCCTGC
66 CATATCAATTAACCATCAATAACAAACTTCAGTTTTTGATGTAAAGAAGAAGAAACAACTCCTGC
175478 AGAATGAATCCATGGCCTCCCAAA
131 AGAATGAATCCATGGCCTCCCAAA
*
175502 CATTTGTCTC-A-ATATGGAGCATTACTTGTAATAGAAGCATTGATTTCTTCCTCAGCTCCCAAA
1 CATTTGTCTCAATATATGGAGCATTACTTGTAACAGAAGCATTGATTTCTTCCTCAGCTCCCAAA
* *
175565 CATTTCAATTAACCGTCAATAACAAACTTCAGTTTTTGATGTAAAGAAGAAGAAACAACTCCTGC
66 CATATCAATTAACCATCAATAACAAACTTCAGTTTTTGATGTAAAGAAGAAGAAACAACTCCTGC
*
175630 ATAATGAATCCATGGCCTCCC
131 AGAATGAATCCATGGCCTCCC
175651 CTGTAAGCAA
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
152 131 0.92
153 1 0.01
154 10 0.07
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (154 bp):
CATTTGTCTCAATATATGGAGCATTACTTGTAACAGAAGCATTGATTTCTTCCTCAGCTCCCAAA
CATATCAATTAACCATCAATAACAAACTTCAGTTTTTGATGTAAAGAAGAAGAAACAACTCCTGC
AGAATGAATCCATGGCCTCCCAAA
Done.