Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 51
Found at i:9273302 original size:22 final size:22
Alignment explanation
Indices: 9273274--9273331 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
9273264 ACCAACACAA
9273274 ATAACATTTCTGGTGAAAACAT
1 ATAACATTTCTGGTGAAAACAT
9273296 ATAACATTTCTGGTGAAAACAT
1 ATAACATTTCTGGTGAAAACAT
9273318 ATAACATTTCTGGT
1 ATAACATTTCTGGT
9273332 AGCGCTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (22 bp):
ATAACATTTCTGGTGAAAACAT
Found at i:9279069 original size:15 final size:16
Alignment explanation
Indices: 9279051--9279220 Score: 73
Period size: 13 Copynumber: 11.0 Consensus size: 16
9279041 ATTTATTTAA
9279051 ATTATATTATATTA-T
1 ATTATATTATATTATT
9279066 A-T-TATTATATTATT
1 ATTATATTATATTATT
9279080 ATTATTATTATTATTATT
1 ATTA-TATTA-TATTATT
* *
9279098 ATTATTATTTGTCTCTATT
1 ATTA-TA-TTATAT-TATT
* *
9279117 ATTAGAGTATATATATT
1 ATTATATTATAT-TATT
9279134 ATT-TA-TATATT-TT
1 ATTATATTATATTATT
* *
9279147 TTTAT-TTCT-TTATT
1 ATTATATTATATTATT
*
9279161 -TCTTTATTATTATTATT
1 AT-TATATTA-TATTATT
*
9279178 ATCATA-TATATT-TT
1 ATTATATTATATTATT
*
9279192 A-TATATTTTACTTATT
1 ATTATATTATA-TTATT
9279208 -TTAT-TTAT-TTATT
1 ATTATATTATATTATT
9279221 CTAAGTTTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 40
0.68 0.10 0.23
Matches are distributed among these distances:
13 25 0.21
14 17 0.14
15 18 0.15
16 9 0.08
17 22 0.18
18 18 0.15
19 10 0.08
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTATATTATATTATT
Found at i:9279120 original size:3 final size:3
Alignment explanation
Indices: 9279051--9279106 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
9279041 ATTTATTTAA
9279051 ATT A-T ATT A-T ATT A-T ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9279095 ATT ATT ATT ATT
1 ATT ATT ATT ATT
9279107 TGTCTCTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 8 0.16
3 41 0.84
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9279178 original size:9 final size:8
Alignment explanation
Indices: 9279141--9279217 Score: 50
Period size: 9 Copynumber: 9.0 Consensus size: 8
9279131 ATTATTTATA
*
9279141 TATTTTTT
1 TATTATTT
9279149 TATT-TCTT
1 TATTAT-TT
9279157 TATT-TCTT
1 TATTAT-TT
9279165 TATTATTAT
1 TATTATT-T
**
9279174 TATTATCA
1 TATTATTT
9279182 TATATATTT
1 TAT-TATTT
9279191 TATATATTT
1 TAT-TATTT
9279200 TACTTATTT
1 TA-TTATTT
9279209 TATTTATTT
1 TA-TTATTT
9279218 ATTCTAAGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
7 1 0.02
8 22 0.37
9 35 0.59
10 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTATTT
Found at i:9279211 original size:52 final size:50
Alignment explanation
Indices: 9279060--9279249 Score: 138
Period size: 52 Copynumber: 3.6 Consensus size: 50
9279050 AATTATATTA
*
9279060 TATTA-TATTATTATAT-TATTATTATTAT-TATTATTATTATTATTATTTGTCTC
1 TATTATTATTATTATATATA-TATT-TTATATATT-TTATTATT-TTA-TT-TCTT
* * *
9279113 TATTATTA-GAGTATATATAT-TATTTATATATTTTTTTATTTCTTTATTTCTT
1 TATTATTATTATTATATATATAT-TTTATATATTTTATTA--T-TTTATTTCTT
*
9279165 TATTATTATTATTATCATATATATTTTATATATTTTACTTATTTTATTTATT
1 TATTATTATTATTAT-ATATATATTTTATATATTTTA-TTATTTTATTTCTT
* * * * *
9279217 TATTCTAAGTTTTTTTATTTATATTTTATATAT
1 TATTATTA-TTATTATATATATATTTTATATAT
9279250 ATATATATAT
Statistics
Matches: 112, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
52 52 0.46
53 29 0.26
54 26 0.23
55 5 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (50 bp):
TATTATTATTATTATATATATATTTTATATATTTTATTATTTTATTTCTT
Found at i:9279248 original size:2 final size:2
Alignment explanation
Indices: 9279243--9279283 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9279233 ATTTATATTT
9279243 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
9279284 TATTTTTTTA
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:9279372 original size:2 final size:2
Alignment explanation
Indices: 9279365--9279404 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
9279355 TATTAAATAC
*
9279365 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA T- 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
9279405 TACCTAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9279551 original size:18 final size:18
Alignment explanation
Indices: 9279528--9279578 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
9279518 CTCGGTTTTT
9279528 TTTTTTTTATTTATTATG
1 TTTTTTTTATTTATTATG
* *
9279546 TTTTTTTTAAATTTTTTGTG
1 TTTTTTTT--ATTTATTATG
9279566 TTTTGTTTTATTT
1 TTTT-TTTTATTT
9279579 CGCTTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 12 0.43
21 4 0.14
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTTTTTATTTATTATG
Found at i:9279615 original size:12 final size:12
Alignment explanation
Indices: 9279598--9279694 Score: 65
Period size: 12 Copynumber: 7.4 Consensus size: 12
9279588 CCTTTGATTA
9279598 ATTTTCTTTTTT
1 ATTTTCTTTTTT
9279610 ATTTTCTATTTTTT
1 ATTTTC--TTTTTT
9279624 ATTCTT-TTTTTT
1 ATT-TTCTTTTTT
9279636 -TTTTCTTCTTTT
1 ATTTTCTT-TTTT
9279648 GATTTATTCTTTTATT
1 -A-TT-TTCTTTT-TT
*
9279664 ATTTTTATTCTTTT
1 A-TTTTCTT-TTTT
9279678 ATTTT-TATTTTT
1 ATTTTCT-TTTTT
9279690 ATTTT
1 ATTTT
9279695 TGATTTATTT
Statistics
Matches: 72, Mismatches: 1, Indels: 24
0.74 0.01 0.25
Matches are distributed among these distances:
10 2 0.03
11 4 0.06
12 26 0.36
13 5 0.07
14 16 0.22
15 12 0.17
16 7 0.10
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.79
Consensus pattern (12 bp):
ATTTTCTTTTTT
Found at i:9279631 original size:29 final size:29
Alignment explanation
Indices: 9279599--9279695 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 29
9279589 CTTTGATTAA
9279599 TTTTCTTTTTTATT-TTCTATTTTTTATTC
1 TTTT-TTTTTTATTCTTCTATTTTTTATTC
9279628 TTTTTTTTTT-TTCTTCT-TTTGATTTATTC
1 TTTTTTTTTTATTCTTCTATTT--TTTATTC
*
9279657 TTTTATTATTTTTATTCTTTTA-TTTTTATT-
1 -TTT-TT-TTTTTATTCTTCTATTTTTTATTC
*
9279687 TTTATTTTT
1 TTTTTTTTT
9279696 GATTTATTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
27 9 0.16
28 11 0.19
29 14 0.24
30 3 0.05
31 8 0.14
32 5 0.09
33 8 0.14
ACGTcount: A:0.11, C:0.07, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTTATTCTTCTATTTTTTATTC
Found at i:9279638 original size:17 final size:17
Alignment explanation
Indices: 9279618--9279695 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
9279608 TTATTTTCTA
9279618 TTTTTTATTC-TTTTTT
1 TTTTTTATTCTTTTTTT
*
9279634 TTTTTTCTTCTTTTGATTT
1 TTTTTTATTCTTTT--TTT
* *
9279653 ATTCTTTTATTATTTTTAT
1 -TT-TTTTATTCTTTTTTT
*
9279672 TCTTTTATT-TTTATTTT
1 TTTTTTATTCTTT-TTTT
9279689 TATTTTT
1 T-TTTTT
9279696 GATTTATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 12 0.25
17 14 0.29
18 5 0.10
19 5 0.10
20 2 0.04
21 10 0.21
ACGTcount: A:0.12, C:0.06, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTTATTCTTTTTTT
Found at i:9279703 original size:37 final size:37
Alignment explanation
Indices: 9279662--9279764 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
9279652 TATTCTTTTA
* *
9279662 TTATTTTTATTCTTTTATTTTTATTTTTATTTTTGAT
1 TTATTTTTATTCTTTTATTTTTATTTTCACTTTTGAT
* *
9279699 TTATTTAATATAT-TTTTA-TTTTATTTTCCCTTTTGAT
1 TTATTT-TTAT-TCTTTTATTTTTATTTTCACTTTTGAT
9279736 TTATTTTT-TTCTTTTAGTTTTTATTTTCA
1 TTATTTTTATTCTTTTA-TTTTTATTTTCA
9279765 TTCTTATGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
34 1 0.02
35 6 0.11
36 1 0.02
37 38 0.69
38 8 0.15
39 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (37 bp):
TTATTTTTATTCTTTTATTTTTATTTTCACTTTTGAT
Found at i:9279713 original size:46 final size:46
Alignment explanation
Indices: 9279619--9279718 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
9279609 TATTTTCTAT
**
9279619 TTTTTATTCTTTTTTTTTTTTCTTCTTTTGATTTATTCTTTTATTA
1 TTTTTATTCTTTTTTTTTTTTCTTCTTTTGATTTATTCTAATATTA
*
9279665 TTTTTATTCTTTTATTTTTATTT-TTATTTTTGATTTATT-TAATA-TA
1 TTTTTATTCTTTT-TTTTT-TTTCTT-CTTTTGATTTATTCTAATATTA
9279711 TTTTTATT
1 TTTTTATT
9279719 TTATTTTCCC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
46 23 0.48
47 10 0.21
48 15 0.31
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (46 bp):
TTTTTATTCTTTTTTTTTTTTCTTCTTTTGATTTATTCTAATATTA
Found at i:9280382 original size:42 final size:41
Alignment explanation
Indices: 9280335--9280930 Score: 330
Period size: 43 Copynumber: 14.2 Consensus size: 41
9280325 ATCCCACATA
*
9280335 TTTATAATTGAGTCCTCTAATTTTTTAATATCACTTTTTACT
1 TTTATAATTGAG-CCTCTAATTTTTTAATCTCACTTTTTACT
* * * **
9280377 TTTATAATTGAGGCCTTTAA-TTTCTAATCTCGCTTCATAGC-
1 TTTATAATTGA-GCCTCTAATTTTTTAATCTCACTTTTTA-CT
* *
9280418 TTTATAATTGAAACGTCTAATTTTTTAATCTCAC-TTTTA-T
1 TTTATAATTG-AGCCTCTAATTTTTTAATCTCACTTTTTACT
** * *
9280458 CTTTATAATTGAGGTTCTAATTTTTTCAATTTCACTTTTTACA
1 -TTTATAATTGAGCCTCTAATTTTTT-AATCTCACTTTTTACT
* * *
9280501 TTTATAATTGAGACTTGTAATTTTTTCAAT-TCACTTTCTAGC-
1 TTTATAATTGAG-CCTCTAATTTTTT-AATCTCACTTTTTA-CT
* * *
9280543 TTTATAATTAAAGTCC-CTAATTTTTGTAATCTCGCTTTTTACA
1 TTTATAATT-GAG-CCTCTAATTTTT-TAATCTCACTTTTTACT
* * *
9280586 TTTGTAAATGAGCGTCCTAATTTTTTCAATCTCACTTTTTAC-
1 TTTATAATTGAGCCT-CTAATTTTTT-AATCTCACTTTTTACT
*** * * *
9280628 CCGAGTCCATT-A---T-T-A-TTTTTAATCTCACTTTCTATT
1 TTTA-T-AATTGAGCCTCTAATTTTTTAATCTCACTTTTTACT
* * * * *
9280664 TTTATATTTGAAGCCTTTAGTTTTTTTAATCTCACATTTTAAT
1 TTTATAATTG-AGCCTCTA-ATTTTTTAATCTCACTTTTTACT
* * *
9280707 TTTATAA-TGAGACTCTTAATTTTTTCAATCTCACCTTTTACC
1 TTTATAATTGAGCCTC-TAATTTTTT-AATCTCACTTTTTACT
** * * *
9280749 TTTATAATTGAAACACTAAATTTTTTAATAT-AGCTTTTTTACA
1 TTTATAATTGAGCCTCT-AATTTTTTAATCTCA-C-TTTTTACT
* * *
9280792 TTTATAATTGAGGCC-CTTAGTTTTTTTCAATATCACTTTTTTACC
1 TTTATAATTGA-GCCTC-TA-ATTTTTT-AATCTCAC-TTTTTACT
* * *
9280837 TTTATAATTGAAACGC-CTAATTTTTTAATTTCACTTTTTACC
1 TTTATAATTG-AGC-CTCTAATTTTTTAATCTCACTTTTTACT
* * *
9280879 TTTATAATTGAGACTCCTAATTTTTTCAATCTAATTTTTTACT
1 TTTATAATTGAGCCT-CTAATTTTTT-AATCTCACTTTTTACT
9280922 TTTATAATT
1 TTTATAATT
9280931 TAAGACCTAC
Statistics
Matches: 434, Mismatches: 74, Indels: 91
0.72 0.12 0.15
Matches are distributed among these distances:
34 2 0.00
35 14 0.03
36 7 0.02
37 1 0.00
38 1 0.00
39 1 0.00
40 15 0.03
41 62 0.14
42 138 0.32
43 146 0.34
44 16 0.04
45 27 0.06
46 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTATAATTGAGCCTCTAATTTTTTAATCTCACTTTTTACT
Found at i:9280437 original size:83 final size:76
Alignment explanation
Indices: 9280276--9280471 Score: 214
Period size: 83 Copynumber: 2.5 Consensus size: 76
9280266 TTCATGCTCT
* * * * * *
9280276 TAATTTTGTAATTTCACTTTTACTTTAATAACTGAGGTCTTTAATTTTTATCCCACATATTTATA
1 TAATTTTTTAATATCACTTTTACTTTTATAATTGAGGCCTTTAATTTTAATCCCACATATTTATA
**
9280341 ATTGAGTCCTC
66 ATTGAAACCTC
*
9280352 TAATTTTTTAATATCACTTTTTACTTTTATAATTGAGGCCTTTAATTTCTAATCTCGCTTCATAG
1 TAATTTTTTAATATCAC-TTTTACTTTTATAATTGAGGCCTTTAATTT-TAATC-C-C-ACATA-
*
9280417 CTTTATAATTGAAACGTC
60 -TTTATAATTGAAACCTC
*
9280435 TAATTTTTTAATCTCACTTTTA-TCTTTATAATTGAGG
1 TAATTTTTTAATATCACTTTTACT-TTTATAATTGAGG
9280472 TTCTAATTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
76 15 0.15
77 27 0.27
78 4 0.04
79 1 0.01
80 1 0.01
81 5 0.05
82 18 0.18
83 30 0.30
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (76 bp):
TAATTTTTTAATATCACTTTTACTTTTATAATTGAGGCCTTTAATTTTAATCCCACATATTTATA
ATTGAAACCTC
Found at i:9280848 original size:88 final size:86
Alignment explanation
Indices: 9280351--9280930 Score: 306
Period size: 85 Copynumber: 6.9 Consensus size: 86
9280341 ATTGAGTCCT
* * * * *
9280351 CTAATTTTTTAATATCACTTTTTACTTTTATAATTGAGGC-CTTTAA-TTTCT-AATCTCGC-TT
1 CTAATTTTTTAATATCACTTTTTACATTTATAATTGAGACTC-CTAATTTTTTCAATCTCACTTT
** * *
9280412 CATAGCTTTATAATTGAAACGT
65 TTTACCTTTATAATTGAAACGA
* * * *
9280434 CTAATTTTTTAATCTCAC-TTTTATC-TTTATAATTGAG-GTTCTAATTTTTTCAATTTCAC-TT
1 CTAATTTTTTAATATCACTTTTTA-CATTTATAATTGAGACTCCTAATTTTTTCAATCTCACTTT
* * **
9280495 TTTACATTTATAATTGAGACTT
65 TTTACCTTTATAATTGAAACGA
* * * * *
9280517 GTAATTTTTTCAAT-TCACTTTCTAGC-TTTATAATT-AAAGTCCCTAATTTTTGT-AATCTCGC
1 CTAATTTTTT-AATATCACTTTTTA-CATTTATAATTGAGACT-CCTAATTTTT-TCAATCTCAC
* * * * *
9280578 -TTTTTACATTTGTAAATG-AGCGTC
62 TTTTTTACCTTTATAATTGAAACG-A
* ** * *
9280602 CTAATTTTTTCAATCTCACTTTTTAC--------CCGAG--TCCATTATTATTTTTAATCTCAC-
1 CTAATTTTTT-AATATCACTTTTTACATTTATAATTGAGACTCC-TAATT-TTTTCAATCTCACT
* ** * * **
9280656 TTTCTATTTTTATATTTGAAGCCT
63 TTTTTACCTTTATAATTGAAACGA
* * * * * *
9280680 TTAGTTTTTTTAATCTCACATTTTA-ATTTTATAA-TGAGACTCTTAATTTTTTCAATCTCAC-C
1 CTA-ATTTTTTAATATCACTTTTTACA-TTTATAATTGAGACTCCTAATTTTTTCAATCTCACTT
9280742 TTTTACCTTTATAATTGAAAC-A
64 TTTTACCTTTATAATTGAAACGA
* * *
9280764 CTAAATTTTTTAATAT-AGCTTTTTTACATTTATAATTGAGGC-CCTTAGTTTTTTTCAATATCA
1 CT-AATTTTTTAATATCA-C-TTTTTACATTTATAATTGAGACTCC-TA-ATTTTTTCAATCTCA
*
9280827 CTTTTTTACCTTTATAATTGAAACGC
61 CTTTTTTACCTTTATAATTGAAACGA
* * *
9280853 CTAATTTTTTAATTTCACTTTTTACCTTTATAATTGAGACTCCTAATTTTTTCAATCT-AATTTT
1 CTAATTTTTTAATATCACTTTTTACATTTATAATTGAGACTCCTAATTTTTTCAATCTCACTTTT
*
9280917 TTACTTTTATAATT
66 TTACCTTTATAATT
9280931 TAAGACCTAC
Statistics
Matches: 386, Mismatches: 72, Indels: 76
0.72 0.13 0.14
Matches are distributed among these distances:
76 2 0.01
77 6 0.02
78 37 0.10
79 10 0.03
81 3 0.01
82 21 0.05
83 57 0.15
84 32 0.08
85 108 0.28
86 33 0.09
87 38 0.10
88 36 0.09
89 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (86 bp):
CTAATTTTTTAATATCACTTTTTACATTTATAATTGAGACTCCTAATTTTTTCAATCTCACTTTT
TTACCTTTATAATTGAAACGA
Found at i:9280876 original size:130 final size:128
Alignment explanation
Indices: 9280664--9280930 Score: 315
Period size: 130 Copynumber: 2.1 Consensus size: 128
9280654 ACTTTCTATT
* * * * * * *
9280664 TTTATATTTGAAGCCTTTAGTTTTTTTAATCTCACATTTTAATTTTATAATGAGACTCTTAATTT
1 TTTATAATTGAAGCCCTTAGTTTTTTTAATATCACATTTTAACTTTATAATGAAACGCCTAATTT
*
9280729 TTTCAATCTCACCTTTTACCTTTATAATTGAAAC-ACTAAATTTTTT-AATATAGCTTTTTTACA
66 TTTCAATCTCACCTTTTACCTTTATAATTGAAACTACT-AATTTTTTCAATATA-ATTTTTTACA
* * *
9280792 TTTATAATTGAGGCCCTTAGTTTTTTTCAATATCACTTTTTTACCTTTATAATTGAAACGCCTAA
1 TTTATAATTGAAGCCCTTAGTTTTTTT-AATATCAC-ATTTTAACTTTATAA-TGAAACGCCTAA
* * * * *
9280857 TTTTTT-AATTTCACTTTTTACCTTTATAATTGAGACTCCTAATTTTTTCAATCTAATTTTTTAC
63 TTTTTTCAATCTCACCTTTTACCTTTATAATTGAAACTACTAATTTTTTCAATATAATTTTTTAC
*
9280921 T
128 A
9280922 TTTATAATT
1 TTTATAATT
9280931 TAAGACCTAC
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
128 24 0.21
129 7 0.06
130 64 0.55
131 22 0.19
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.52
Consensus pattern (128 bp):
TTTATAATTGAAGCCCTTAGTTTTTTTAATATCACATTTTAACTTTATAATGAAACGCCTAATTT
TTTCAATCTCACCTTTTACCTTTATAATTGAAACTACTAATTTTTTCAATATAATTTTTTACA
Found at i:9281980 original size:25 final size:26
Alignment explanation
Indices: 9281941--9281995 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
9281931 TTGGAATTCT
* * *
9281941 TAAAAAGAAAGTAAAAAAATGTTAGA
1 TAAAAAGAAACTAAAAAAATATTAAA
*
9281967 TAAAAA-AAACTAAATAAATATTAAA
1 TAAAAAGAAACTAAAAAAATATTAAA
9281992 TAAA
1 TAAA
9281996 TCCAAGAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (26 bp):
TAAAAAGAAACTAAAAAAATATTAAA
Found at i:9282143 original size:23 final size:23
Alignment explanation
Indices: 9282117--9282206 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
9282107 AAAATTGAAT
*
9282117 AAAAATTAAAAAA-GAGGAAAAAA
1 AAAAAATAAAAAATGA-GAAAAAA
9282140 AAAAAATAAAAAATGAGAAAATAA
1 AAAAAATAAAAAATGAGAAAA-AA
9282164 AATAATAAGTCAAAAGAAT-AGAAAAAAA
1 AA-AA-AA-T-AAAA-AATGAG-AAAAAA
9282192 TAAAAAATAAAAAAT
1 -AAAAAATAAAAAAT
9282207 AATATAATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
23 17 0.30
24 9 0.16
25 6 0.11
26 3 0.05
27 3 0.05
28 10 0.18
29 9 0.16
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAAAATAAAAAATGAGAAAAAA
Found at i:9282203 original size:6 final size:7
Alignment explanation
Indices: 9282114--9282208 Score: 57
Period size: 7 Copynumber: 12.7 Consensus size: 7
9282104 AAAAAAATTG
9282114 AATAAAA
1 AATAAAA
*
9282121 ATTAAAA
1 AATAAAA
*
9282128 AAGAGGAAA
1 AATA--AAA
*
9282137 AAAAAAA
1 AATAAAA
9282144 AATAAAA
1 AATAAAA
*
9282151 AATGAGAA
1 AAT-AAAA
9282159 AATAAAA
1 AATAAAA
9282166 TAATAAGTCAA
1 -AATAA---AA
* *
9282177 AAGAATA
1 AATAAAA
*
9282184 GA-AAAA
1 AATAAAA
9282190 AATAAAA
1 AATAAAA
9282197 AATAAAA
1 AATAAAA
9282204 AATAA
1 AATAA
9282209 TATAATAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
6 4 0.06
7 41 0.60
8 11 0.16
9 6 0.09
10 4 0.06
11 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.08, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:9282237 original size:45 final size:44
Alignment explanation
Indices: 9282134--9282238 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 44
9282124 AAAAAAGAGG
*
9282134 AAAA-AAAAAAAATAAAAAATGAGAAAATAAAATAATAAGTCAA
1 AAAATAAAAAAAATAAAAAATGAAAAAATAAAATAATAAGTCAA
*
9282177 AAGAATAGAAAAAAATAAAAAAT-AAAAAATAATATAATAATAGT-AA
1 AA-AATA-AAAAAAATAAAAAATGAAAAAATAAAATAAT-A-AGTCAA
*
9282223 TAAAATAAATAAAATA
1 -AAAATAAAAAAAATA
9282239 GGTGAATAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
43 2 0.04
44 2 0.04
45 22 0.42
46 22 0.42
47 5 0.09
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (44 bp):
AAAATAAAAAAAATAAAAAATGAAAAAATAAAATAATAAGTCAA
Found at i:9282246 original size:63 final size:66
Alignment explanation
Indices: 9282179--9282306 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 66
9282169 TAAGTCAAAA
* *
9282179 GAATAGAAAAAAATAAAA-AATAA-AAAATAATATAATAATAGTAATAA-AAT-AAATAAAATAG
1 GAATAGAAAAAAATAAAATAATAAGAAAA-AAAATAATAATAATAATAATAATGAAATAAAATAG
9282240 GT
65 GT
* * *
9282242 GAATAGAGATAAATAAAATTTAGTAAGAAAAAAAATAATAATAATAATAATAATGAAATAAAATA
1 GAATAGAAAAAAATAAAA--TAATAAGAAAAAAAATAATAATAATAATAATAATGAAATAAAATA
9282307 AAATAAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
63 16 0.30
66 21 0.39
67 7 0.13
68 10 0.19
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (66 bp):
GAATAGAAAAAAATAAAATAATAAGAAAAAAAATAATAATAATAATAATAATGAAATAAAATAGG
T
Found at i:9282281 original size:3 final size:3
Alignment explanation
Indices: 9282275--9282322 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
9282265 TAAGAAAAAA
*
9282275 AAT AAT AAT AAT AAT AAT AAT GA- AAT AA- AAT AA- AAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9282318 AAT AA
1 AAT AA
9282323 AGAATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 9 0.24
3 29 0.76
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:9282307 original size:5 final size:5
Alignment explanation
Indices: 9282269--9282323 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
9282259 ATTTAGTAAG
*
9282269 AAAA- AAAAT AATAAT AATAAT AATAAT GAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AA-AAT AA-AAT AA-AAT AAAAT AAAAT AAAAT AAAAT
9282316 AAAAT AAA
1 AAAAT AAA
9282324 GAATAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 4 0.09
5 27 0.57
6 16 0.34
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:9282416 original size:16 final size:16
Alignment explanation
Indices: 9282376--9282418 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
9282366 GAATGTTACG
*
9282376 AAAATAAAT-AATAAT
1 AAAATAAATAAAAAAT
**
9282391 AAAACCAATAAAAAAT
1 AAAATAAATAAAAAAT
9282407 AAAATAAATAAA
1 AAAATAAATAAA
9282419 TAAAAAGGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:9284356 original size:22 final size:21
Alignment explanation
Indices: 9284331--9284371 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9284321 AAACGACTTT
9284331 TTGAAAAATTACTCCCCCTTAC
1 TTGAAAAATT-CTCCCCCTTAC
* *
9284353 TTGAACACTTCTCCCCCTT
1 TTGAAAAATTCTCCCCCTT
9284372 TAAAACACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.37, G:0.05, T:0.34
Consensus pattern (21 bp):
TTGAAAAATTCTCCCCCTTAC
Found at i:9284668 original size:15 final size:15
Alignment explanation
Indices: 9284642--9284689 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
9284632 TTCAAACATC
*
9284642 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
9284658 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
9284675 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
9284690 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:9285953 original size:170 final size:170
Alignment explanation
Indices: 9285671--9286011 Score: 682
Period size: 170 Copynumber: 2.0 Consensus size: 170
9285661 GAAAGAAGAT
9285671 ATGAACAAGTTGATGGTAGACAATGGGTTCAAGCTCAAAGAGTTTATCAATTTCCACTCTTGTAA
1 ATGAACAAGTTGATGGTAGACAATGGGTTCAAGCTCAAAGAGTTTATCAATTTCCACTCTTGTAA
9285736 AAGGGGAAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAA
66 AAGGGGAAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAA
9285801 TTTTGTAAGAGTCGAAATATTGATAATACCAAAAACGATG
131 TTTTGTAAGAGTCGAAATATTGATAATACCAAAAACGATG
9285841 ATGAACAAGTTGATGGTAGACAATGGGTTCAAGCTCAAAGAGTTTATCAATTTCCACTCTTGTAA
1 ATGAACAAGTTGATGGTAGACAATGGGTTCAAGCTCAAAGAGTTTATCAATTTCCACTCTTGTAA
9285906 AAGGGGAAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAA
66 AAGGGGAAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAA
9285971 TTTTGTAAGAGTCGAAATATTGATAATACCAAAAACGATG
131 TTTTGTAAGAGTCGAAATATTGATAATACCAAAAACGATG
9286011 A
1 A
9286012 AAGATATTTA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 171 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (170 bp):
ATGAACAAGTTGATGGTAGACAATGGGTTCAAGCTCAAAGAGTTTATCAATTTCCACTCTTGTAA
AAGGGGAAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAA
TTTTGTAAGAGTCGAAATATTGATAATACCAAAAACGATG
Found at i:9286083 original size:98 final size:100
Alignment explanation
Indices: 9285912--9286109 Score: 382
Period size: 98 Copynumber: 2.0 Consensus size: 100
9285902 GTAAAAGGGG
9285912 AAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAATTTTGT
1 AAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAATTTTGT
9285977 AAGAGTCGAAATATTGATAATACCAAAAACGATGA
66 AAGAGTCGAAATATTGATAATACCAAAAACGATGA
9286012 AAGATATTTAAAATT-A-ATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAATTTTGT
1 AAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAATTTTGT
9286075 AAGAGTCGAAATATTGATAATACCAAAAACGATGA
66 AAGAGTCGAAATATTGATAATACCAAAAACGATGA
9286110 TTTCTAGGAA
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 82 0.84
99 1 0.01
100 15 0.15
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (100 bp):
AAGATATTTAAAATTAATATCTAACATAGCTTGACGAGAAGGGATACGTTCTTCTCTAATTTTGT
AAGAGTCGAAATATTGATAATACCAAAAACGATGA
Found at i:9290747 original size:22 final size:21
Alignment explanation
Indices: 9290706--9290748 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9290696 GAGTTTATTT
**
9290706 TCATTTTTTATTTTTGAAACA
1 TCATTTTTTATTTTAAAAACA
9290727 TCATTTTTATATTTTAAAAACA
1 TCATTTTT-TATTTTAAAAACA
9290749 ATTTCTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (21 bp):
TCATTTTTTATTTTAAAAACA
Found at i:9292396 original size:17 final size:18
Alignment explanation
Indices: 9292357--9292398 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
9292347 AATAAGTGTT
*
9292357 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
9292375 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
9292392 CTTGAAA
1 CTTGAAA
9292399 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:9293338 original size:24 final size:24
Alignment explanation
Indices: 9293300--9293374 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
9293290 CTGGACCAGA
** *
9293300 AAAATAAAACAAAATAAATTAAAT
1 AAAATAAAATTAAATAAATAAAAT
* * *
9293324 TAAATTAAATTAAATGAATAAAAT
1 AAAATAAAATTAAATAAATAAAAT
*
9293348 AAAATAAAATAATAAT-AATAATAAT
1 AAAATAAAATTA-AATAAATAA-AAT
9293373 AA
1 AA
9293375 TATACTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (24 bp):
AAAATAAAATTAAATAAATAAAAT
Found at i:9293348 original size:5 final size:5
Alignment explanation
Indices: 9293300--9293376 Score: 59
Period size: 5 Copynumber: 15.2 Consensus size: 5
9293290 CTGGACCAGA
* * * * * *
9293300 AAAAT AAAAC AAAAT -AAAT TAAAT TAAAT TAAAT TAAAT -GAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
9293348 AAAAT AAAAT AATAAT AATAAT AATAAT A
1 AAAAT AAAAT AA-AAT AA-AAT AA-AAT A
9293377 TACTAATAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
4 7 0.11
5 42 0.65
6 16 0.25
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (5 bp):
AAAAT
Found at i:9293363 original size:3 final size:3
Alignment explanation
Indices: 9293340--9293390 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
9293330 AAATTAAATG
*
9293340 AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT -AT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9293384 AAT AAT A
1 AAT AAT A
9293391 CAATATAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.19
3 34 0.81
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9293367 original size:14 final size:14
Alignment explanation
Indices: 9293335--9293395 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
9293325 AAATTAAATT
9293335 AAATGAATAA-AATA
1 AAAT-AATAATAATA
9293349 AAATAA-AATAATA
1 AAATAATAATAATA
9293362 ATAATAATAATAATA
1 A-AATAATAATAATA
* *
9293377 TACTAATAATAATA
1 AAATAATAATAATA
*
9293391 CAATA
1 AAATA
9293396 TAAACTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.05
13 7 0.17
14 24 0.60
15 7 0.17
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:9293383 original size:20 final size:20
Alignment explanation
Indices: 9293335--9293390 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
9293325 AAATTAAATT
9293335 AAATGAATAA-AATAA-AATA
1 AAAT-AATAATAATAATAATA
9293354 AAATAATAATAATAATAATA
1 AAATAATAATAATAATAATA
* *
9293374 ATATACTAATAATAATA
1 AAATAATAATAATAATA
9293391 CAATATAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 19 0.58
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATAATAATAATAATAATA
Found at i:9300566 original size:22 final size:21
Alignment explanation
Indices: 9300524--9300563 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9300514 TGAGTTATTT
*
9300524 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9300545 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9300564 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9302920 original size:36 final size:35
Alignment explanation
Indices: 9302833--9303004 Score: 162
Period size: 34 Copynumber: 4.9 Consensus size: 35
9302823 ACAATATATA
* *
9302833 TTTCAAAAATATTTTTAAACTATATA-T-TAT-A-
1 TTTCAAAAAAATTTTAAAACTATATATTATATAAT
9302864 TTT-AAAAAAAGTTTTCAAAACTATATATTATATAATT
1 TTTCAAAAAAA-TTTT-AAAACTATATATTATATAA-T
*
9302901 TTTCAAAAAAATTTTAAAACAATATATTATAT-AT
1 TTTCAAAAAAATTTTAAAACTATATATTATATAAT
***
9302935 TTTCAAAATGTTTTTTTAAAAACTATATATTATATAAT
1 TTTCAAAA--AAATTTT-AAAACTATATATTATATAAT
*
9302973 TTTCAAAAAGAA-TTT-AAACTATATAATATATA
1 TTTCAAAAA-AATTTTAAAACTATATATTATATA
9303005 TATATATAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 23
0.77 0.07 0.15
Matches are distributed among these distances:
30 6 0.05
31 7 0.06
32 10 0.09
33 1 0.01
34 28 0.24
35 2 0.02
36 23 0.20
37 23 0.20
38 17 0.15
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TTTCAAAAAAATTTTAAAACTATATATTATATAAT
Found at i:9303006 original size:36 final size:35
Alignment explanation
Indices: 9302833--9303004 Score: 142
Period size: 36 Copynumber: 4.9 Consensus size: 35
9302823 ACAATATATA
* * *
9302833 TTTCAAAAATATTTTTAAACTATATA-T-TAT-AT
1 TTTCAAAAAGAATTTAAAACTATATATTATATAAT
** *
9302865 TTAAAAAAAG-TTTTCAAAACTATATATTATATAATT
1 TTTCAAAAAGAATTT-AAAACTATATATTATATAA-T
*
9302901 TTTCAAAAA-AATTTTAAAACAATATATTATAT-AT
1 TTTCAAAAAGAA-TTTAAAACTATATATTATATAAT
* **
9302935 TTTCAAAATGTTTTTTTAAAAACTATATATTATATAAT
1 TTTCAAAAAG--AATTT-AAAACTATATATTATATAAT
*
9302973 TTTCAAAAAGAATTT-AAACTATATAATATATA
1 TTTCAAAAAGAATTTAAAACTATATATTATATA
9303005 TATATATAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
31 4 0.04
32 17 0.15
33 1 0.01
34 28 0.25
35 2 0.02
36 30 0.27
37 19 0.17
38 11 0.10
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TTTCAAAAAGAATTTAAAACTATATATTATATAAT
Found at i:9303947 original size:85 final size:85
Alignment explanation
Indices: 9303837--9304534 Score: 892
Period size: 85 Copynumber: 8.2 Consensus size: 85
9303827 TATTGACAGA
* *
9303837 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTTAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
9303902 TCTTGGTTGATAGATAACCC
66 TCTTGGTTGACAGATAACCC
* * * * * * *
9303922 TTCTCGCCTTGAGTTATACTGTAAATTGGATATACCTTGGAGCTAATTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* ** *
9303987 TCTTTTGTTGACAGATATTCA
66 TC-TTGGTTGACAGATAACCC
** * * *
9304008 TTCTTTCCTTGAGCTGTGCTATTAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* *
9304073 TCTTGGTTGATAGATAATCC
66 TCTTGGTTGACAGATAACCC
* * * * * *
9304093 TTATCGCCTTGAGTTTTGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAATG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* *
9304158 ACTTGGTTGACAGATATCCC
66 TCTTGGTTGACAGATAACCC
* * * * * * *
9304178 TTCTCGCCTTGAGCTATGTTATAAATTTGATGTGCCTTGGAGTTGAGTGTAATCAAACTCTAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
9304243 TCTTGGTTGACAGATAACCC
66 TCTTGGTTGACAGATAACCC
* * * * * *
9304263 TTCTAGCCTTGAGTTATGTTGTAAATTTGATATTCCTTTAAGCTGAGTGTAATTGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
**
9304328 TCTTGGTTGACAGATAATTC
66 TCTTGGTTGACAGATAACCC
* * * *
9304348 TTCTCACCTTGAGTTATTCTATAAATTTGATATGCCTTTGAGCTAAGTATAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
9304413 TCTTGGTTGACAGATAGCCC
66 TCTTGGTTGACAGATAACCC
* * *
9304433 TTATCGCCTTGAGTTATGCTCTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
9304498 TATTGGTTGACAGATAACCC
66 TCTTGGTTGACAGATAACCC
* *
9304518 TTATCGCCTTTAGTTAT
1 TTCTCGCCTTGAGTTAT
9304535 TCTGTACTGG
Statistics
Matches: 522, Mismatches: 90, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
85 454 0.87
86 68 0.13
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (85 bp):
TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
TCTTGGTTGACAGATAACCC
Found at i:9307291 original size:863 final size:863
Alignment explanation
Indices: 9305626--9307349 Score: 3340
Period size: 863 Copynumber: 2.0 Consensus size: 863
9305616 ACCGAATTGC
*
9305626 CAAGTGTCCGAGCAATGCCATGGTTTGACGCGATCTATTCATAAAGCCAGGGCTTTCGAGATTCC
1 CAAGTGTCCGAGCAATGCCATGGTTTGACGCAATCTATTCATAAAGCCAGGGCTTTCGAGATTCC
9305691 TCTATAACCAATTGCCTTAGTAAAATAGCTCAGCTTTACGGATTTAATTTCTTAAGATTGTCAAG
66 TCTATAACCAATTGCCTTAGTAAAATAGCTCAGCTTTACGGATTTAATTTCTTAAGATTGTCAAG
9305756 AAGAACCTGTTATAGTCTAGGTGTTTGATGAAGGTCAAAATTTTCATCTTTAGAGTTCAATTTCC
131 AAGAACCTGTTATAGTCTAGGTGTTTGATGAAGGTCAAAATTTTCATCTTTAGAGTTCAATTTCC
9305821 AAGCAACTGGCTTAGACTAGATTCACCTGCTCGACTATTCCATCTGTAAAGATCATGATCATCAT
196 AAGCAACTGGCTTAGACTAGATTCACCTGCTCGACTATTCCATCTGTAAAGATCATGATCATCAT
*
9305886 TGAACATCTTAAACAAAAAGTATAGTAATGGTTTATGCAAAATATGCCCATGTTGTCCGCACCTA
261 TGAACATCTTAAACAAAAAGTATAGTAATGGTTTATGCAAAAGATGCCCATGTTGTCCGCACCTA
*
9305951 TGCACACCTAAATACCAAGCCTCTTTTTCATTTCCTTATGAGAGAATAAGGATATATTAGTTATT
326 TACACACCTAAATACCAAGCCTCTTTTTCATTTCCTTATGAGAGAATAAGGATATATTAGTTATT
9306016 TGTAAGAGAAAGGTACGGTGTTTGAGCATATCTTCTTGAGTAAGATCAAAGTCCTTGTTTTACCA
391 TGTAAGAGAAAGGTACGGTGTTTGAGCATATCTTCTTGAGTAAGATCAAAGTCCTTGTTTTACCA
*
9306081 CTTTTTAATCGTGTTACTTTGTCAAAGATCTATAAATTCAATCATTTACAGAGTTTTTAATTCAG
456 CTTTTTAATCGTGTTACTTTGTCAAAGATCTATAAATCCAATCATTTACAGAGTTTTTAATTCAG
9306146 TTGATATTCAAAGAATTTCAAGTCTGCAAATTTGATTAATTACTAGTCATCTTTAAAGTAACATA
521 TTGATATTCAAAGAATTTCAAGTCTGCAAATTTGATTAATTACTAGTCATCTTTAAAGTAACATA
9306211 AATTTATATAAATATCCTTACCAAAAATTTAGAAAAGATGGAAAAAAAATTCAAACAAAATGCCT
586 AATTTATATAAATATCCTTACCAAAAATTTAGAAAAGATGGAAAAAAAATTCAAACAAAATGCCT
9306276 CAAATGATGAAATGATCTTCCTCACTTGGATGCCCCCAAGTTGTTGAAGTCGATCCAGTTTTTGT
651 CAAATGATGAAATGATCTTCCTCACTTGGATGCCCCCAAGTTGTTGAAGTCGATCCAGTTTTTGT
* *
9306341 TATGCATCTTCTGCACAATTCTCTTGAATGCGTAACAGTTCTCAATAGTGTGCCTTGGGACACCG
716 TACGCATCTTCTACACAATTCTCTTGAATGCGTAACAGTTCTCAATAGTGTGCCTTGGGACACCG
*
9306406 CCATGATATTCACAATGAGAATTCTCATCATACTATTTGGGGTATGGGGGATTCATGACACTATG
781 CCATGATATTCACAATGAGAATTCTCATCATACTATTTGGGGTATGGGGGATTCATGACACTACG
9306471 TGGGTGTCAAAAAGTTGT
846 TGGGTGTCAAAAAGTTGT
*
9306489 CAAGTGTCCGAGCAATGCCATGGTTTGACGTAATCTATTCATAAAGCCAGGGCTTTCGAGATTCC
1 CAAGTGTCCGAGCAATGCCATGGTTTGACGCAATCTATTCATAAAGCCAGGGCTTTCGAGATTCC
9306554 TCTATAACCAATTGCCTTAGTAAAATAGCTCAGCTTTACGGATTTAATTTCTTAAGATTGTCAAG
66 TCTATAACCAATTGCCTTAGTAAAATAGCTCAGCTTTACGGATTTAATTTCTTAAGATTGTCAAG
9306619 AAGAACCTGTTATAGTCTAGGTGTTTGATGAAGGTCAAAATTTTCATCTTTAGAGTTCAATTTCC
131 AAGAACCTGTTATAGTCTAGGTGTTTGATGAAGGTCAAAATTTTCATCTTTAGAGTTCAATTTCC
9306684 AAGCAACTGGCTTAGACTAGATTCACCTGCTCGACTATTCCATCTGTAAAGATCATGATCATCAT
196 AAGCAACTGGCTTAGACTAGATTCACCTGCTCGACTATTCCATCTGTAAAGATCATGATCATCAT
9306749 TGAACATCTTAAACAAAAAGTATAGTAATGGTTTATGCAAAAGATGCCCATGTTGTCCGCACCTA
261 TGAACATCTTAAACAAAAAGTATAGTAATGGTTTATGCAAAAGATGCCCATGTTGTCCGCACCTA
* *
9306814 TACACACCTAAATGCCAAGCCTCTTTTTTATTTCCTTATGAGAGAATAAGGATATATTAGTTATT
326 TACACACCTAAATACCAAGCCTCTTTTTCATTTCCTTATGAGAGAATAAGGATATATTAGTTATT
9306879 TGTAAGAGAAAGGTACGGTGTTTGAGCATATCTTCTTGAGTAAGATCAAAGTCCTTGTTTTACCA
391 TGTAAGAGAAAGGTACGGTGTTTGAGCATATCTTCTTGAGTAAGATCAAAGTCCTTGTTTTACCA
9306944 CTTTTTAATCGTGTTACTTTGTCAAAGATCTATAAATCCAATCATTTACAGAGTTTTTAATTCAG
456 CTTTTTAATCGTGTTACTTTGTCAAAGATCTATAAATCCAATCATTTACAGAGTTTTTAATTCAG
*
9307009 TTGATATTCAAAGAATTTCAAGTCTGCAAATTTGATTAATTACTCGTCATCTTTAAAGTAACATA
521 TTGATATTCAAAGAATTTCAAGTCTGCAAATTTGATTAATTACTAGTCATCTTTAAAGTAACATA
*
9307074 AATTTATATAAATGTCCTTACCAAAAATTTAGAAAAGATGGAAAAAAAATTCAAACAAAATGCCT
586 AATTTATATAAATATCCTTACCAAAAATTTAGAAAAGATGGAAAAAAAATTCAAACAAAATGCCT
9307139 CAAATGATGAAATGATCTTCCTCACTTGGATGCCCCCAAGTTGTTGAAGTCGATCCAGTTTTTGT
651 CAAATGATGAAATGATCTTCCTCACTTGGATGCCCCCAAGTTGTTGAAGTCGATCCAGTTTTTGT
9307204 TACGCATCTTCTACACAATTCTCTTGAATGCGTAACAGTTCTCAATAGTGTGCCTTGGGACACCG
716 TACGCATCTTCTACACAATTCTCTTGAATGCGTAACAGTTCTCAATAGTGTGCCTTGGGACACCG
9307269 CCATGATATTCACAATGAGAATTCTCATCATACTATTTGGGGTATGGGGGATTCATGACACTACG
781 CCATGATATTCACAATGAGAATTCTCATCATACTATTTGGGGTATGGGGGATTCATGACACTACG
9307334 TGGGTGTCAAAAAGTT
846 TGGGTGTCAAAAAGTT
9307350 ATTGATAAAG
Statistics
Matches: 849, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
863 849 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (863 bp):
CAAGTGTCCGAGCAATGCCATGGTTTGACGCAATCTATTCATAAAGCCAGGGCTTTCGAGATTCC
TCTATAACCAATTGCCTTAGTAAAATAGCTCAGCTTTACGGATTTAATTTCTTAAGATTGTCAAG
AAGAACCTGTTATAGTCTAGGTGTTTGATGAAGGTCAAAATTTTCATCTTTAGAGTTCAATTTCC
AAGCAACTGGCTTAGACTAGATTCACCTGCTCGACTATTCCATCTGTAAAGATCATGATCATCAT
TGAACATCTTAAACAAAAAGTATAGTAATGGTTTATGCAAAAGATGCCCATGTTGTCCGCACCTA
TACACACCTAAATACCAAGCCTCTTTTTCATTTCCTTATGAGAGAATAAGGATATATTAGTTATT
TGTAAGAGAAAGGTACGGTGTTTGAGCATATCTTCTTGAGTAAGATCAAAGTCCTTGTTTTACCA
CTTTTTAATCGTGTTACTTTGTCAAAGATCTATAAATCCAATCATTTACAGAGTTTTTAATTCAG
TTGATATTCAAAGAATTTCAAGTCTGCAAATTTGATTAATTACTAGTCATCTTTAAAGTAACATA
AATTTATATAAATATCCTTACCAAAAATTTAGAAAAGATGGAAAAAAAATTCAAACAAAATGCCT
CAAATGATGAAATGATCTTCCTCACTTGGATGCCCCCAAGTTGTTGAAGTCGATCCAGTTTTTGT
TACGCATCTTCTACACAATTCTCTTGAATGCGTAACAGTTCTCAATAGTGTGCCTTGGGACACCG
CCATGATATTCACAATGAGAATTCTCATCATACTATTTGGGGTATGGGGGATTCATGACACTACG
TGGGTGTCAAAAAGTTGT
Found at i:9310514 original size:43 final size:43
Alignment explanation
Indices: 9310489--9310670 Score: 117
Period size: 42 Copynumber: 4.2 Consensus size: 43
9310479 AATGAAATAC
* *
9310489 TAAAATAATAAA-TCAAAGGGAAAAATAAAATAGAAAAATAAA
1 TAAAATAAAAAAGTCAAAAGGAAAAATAAAATAGAAAAATAAA
* *
9310531 TAAAATAAAAAAGTCAAAAGGAAAAA-AGAATTGAAAAA-AAA
1 TAAAATAAAAAAGTCAAAAGGAAAAATAAAATAGAAAAATAAA
* * ** ** *
9310572 TTAAA-AAAAGAGGAAAAAATAAAAA-AAAATGAGAAAACAAAAA
1 TAAAATAAAAAAGTCAAAAGGAAAAATAAAAT-AGAAAA-ATAAA
* *
9310615 TAAAA-AGAATAAGTCAAAAGAAGAATAAATAAAAATAGATACAAA-ATA
1 TAAAATA-AAAAAGTCAAAAG--GAA-AAAT-AAAATAGA-A-AAATAAA
9310663 TAAAATAA
1 TAAAATAA
9310671 TATAATAATA
Statistics
Matches: 107, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
40 19 0.18
41 12 0.11
42 22 0.21
43 20 0.19
44 8 0.07
46 2 0.02
47 3 0.03
48 11 0.10
49 8 0.07
50 2 0.02
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.14
Consensus pattern (43 bp):
TAAAATAAAAAAGTCAAAAGGAAAAATAAAATAGAAAAATAAA
Found at i:9310587 original size:21 final size:20
Alignment explanation
Indices: 9310563--9310620 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
9310553 AAAAAGAATT
9310563 GAAAAAAAATTAAAAAAA-GA
1 GAAAAAAAA-TAAAAAAATGA
9310583 GGAAAAAATAA-AAAAAAATGA
1 -GAAAAAA-AATAAAAAAATGA
9310604 GAAAACAAAAATAAAAA
1 G-AAA-AAAAATAAAAA
9310621 GAATAAGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
20 8 0.25
21 14 0.44
22 10 0.31
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.09
Consensus pattern (20 bp):
GAAAAAAAATAAAAAAATGA
Found at i:9310599 original size:20 final size:19
Alignment explanation
Indices: 9310574--9310622 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
9310564 AAAAAAAATT
9310574 AAAAAAAGAGGAAAA-AATAA
1 AAAAAAAGA-GAAAACAA-AA
9310594 AAAAAAATGAGAAAACAAAA
1 AAAAAAA-GAGAAAACAAAA
*
9310614 ATAAAAAGA
1 AAAAAAAGA
9310623 ATAAGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (19 bp):
AAAAAAAGAGAAAACAAAA
Found at i:9310608 original size:18 final size:18
Alignment explanation
Indices: 9310566--9310619 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
9310556 AAGAATTGAA
*
9310566 AAAAAATTAAAAAAAGAGG
1 AAAAAA-TAAAAAAAAAGG
*
9310585 AAAAAATAAAAAAAAATG
1 AAAAAATAAAAAAAAAGG
* *
9310603 AGAAAACAAAAATAAAA
1 AAAAAATAAAAA-AAAA
9310620 AGAATAAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAGG
Found at i:9310679 original size:8 final size:8
Alignment explanation
Indices: 9310666--9310700 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
9310656 CAAAATATAA
9310666 AATAATAT
1 AATAATAT
9310674 AATAATAT
1 AATAATAT
9310682 AATAATAGT
1 AATAATA-T
*
9310691 AATAAAAT
1 AATAATAT
9310699 AA
1 AA
9310701 ATAAAATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (8 bp):
AATAATAT
Found at i:9310750 original size:3 final size:3
Alignment explanation
Indices: 9310742--9310796 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
9310732 TAGTGAGAAA
* * * *
9310742 AAT AAT AAT AAT AAT AAT AAT ATT GA- AAT AA- AAT AAA AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9310788 AAAT AAT AA
1 -AAT AAT AA
9310797 AGAGTTAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 37 0.86
4 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:9311994 original size:10 final size:10
Alignment explanation
Indices: 9311976--9312005 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9311966 ACCAGAAAAA
*
9311976 TAAAATAAAT
1 TAAATTAAAT
9311986 TAAATTAAAT
1 TAAATTAAAT
9311996 TAAATTAAAT
1 TAAATTAAAT
9312006 GAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:9311999 original size:15 final size:15
Alignment explanation
Indices: 9311976--9312005 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9311966 ACCAGAAAAA
9311976 TAAAATAAATTAAAT
1 TAAAATAAATTAAAT
*
9311991 TAAATTAAATTAAAT
1 TAAAATAAATTAAAT
9312006 GAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATAAATTAAAT
Found at i:9312083 original size:35 final size:36
Alignment explanation
Indices: 9312044--9312145 Score: 127
Period size: 35 Copynumber: 2.8 Consensus size: 36
9312034 TAATACAATA
* *
9312044 TAAACTATATAATATATATATTTCAAAAATA-TTTT-
1 TAAACTATATATTATATAT-TTTCAAAAAAAGTTTTC
* *
9312079 TAAACTATATATTATATTTTTTTAAAAAAAGTTTTC
1 TAAACTATATATTATATATTTTCAAAAAAAGTTTTC
*
9312115 AAAACTATATATTATATAGTTTTCAAAAAAA
1 TAAACTATATATTATATA-TTTTCAAAAAAA
9312146 ATTATATAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 9 0.16
35 21 0.37
36 16 0.28
37 11 0.19
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (36 bp):
TAAACTATATATTATATATTTTCAAAAAAAGTTTTC
Found at i:9312151 original size:21 final size:21
Alignment explanation
Indices: 9312125--9312166 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9312115 AAAACTATAT
9312125 ATTATAT-AGTTTTCAAAAAAA
1 ATTATATAAG-TTTCAAAAAAA
9312146 ATTATATAAGTTTCAAAAAAA
1 ATTATATAAGTTTCAAAAAAA
9312167 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTATATAAGTTTCAAAAAAA
Found at i:9312203 original size:38 final size:37
Alignment explanation
Indices: 9312146--9312279 Score: 126
Period size: 38 Copynumber: 3.5 Consensus size: 37
9312136 TTCAAAAAAA
* * *
9312146 ATTATATAAGTTTCAAAAAAATATTTTTTAAACTATAT
1 ATTATATAATTTTC-AAAAAATATTTTTAAAACCATAT
*
9312184 ATTATATAATTTTTCAAAAAATGTTTTTAAAACCATAT
1 ATTATATAA-TTTTCAAAAAATATTTTTAAAACCATAT
** * **
9312222 ATTATAT-ATTTTCAAAATGTTTTTTTAAAAAAATATATAT
1 ATTATATAATTTTCAAAAAATATTTTT---AAAA-CCATAT
9312262 ATTATATAATTTTCAAAA
1 ATTATATAATTTTCAAAA
9312280 TGACTTCAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
36 15 0.19
37 1 0.01
38 36 0.44
39 8 0.10
40 11 0.14
41 10 0.12
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (37 bp):
ATTATATAATTTTCAAAAAATATTTTTAAAACCATAT
Found at i:9313688 original size:2 final size:2
Alignment explanation
Indices: 9313681--9313735 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
9313671 TAATTAATTA
9313681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9313723 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
9313736 CTTAACATGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9319740 original size:25 final size:25
Alignment explanation
Indices: 9319706--9319754 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9319696 AGCTGGAACA
9319706 TTTAGGGTTTGAAACCCTAATCTGT
1 TTTAGGGTTTGAAACCCTAATCTGT
9319731 TTTAGGGTTTGAAACCCTAATCTG
1 TTTAGGGTTTGAAACCCTAATCTG
9319755 ATGGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTGT
Found at i:9319872 original size:13 final size:11
Alignment explanation
Indices: 9319860--9319901 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 11
9319850 AATATGTAAT
9319860 TAATAAACATAA
1 TAATAAA-ATAA
9319872 TAA-AAAATAA
1 TAATAAAATAA
9319882 TAAT--AATAA
1 TAATAAAATAA
9319891 TAATAAAATAA
1 TAATAAAATAA
9319902 CGATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.33
10 7 0.26
11 8 0.30
12 3 0.11
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:9319907 original size:20 final size:19
Alignment explanation
Indices: 9319868--9319907 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9319858 ATTAATAAAC
*
9319868 ATAATAAAAAATAATAATA
1 ATAATAAAAAATAACAATA
*
9319887 ATAATAATAAAATAACGATA
1 ATAATAA-AAAATAACAATA
9319907 A
1 A
9319908 AAAACCCGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
ATAATAAAAAATAACAATA
Found at i:9320149 original size:40 final size:41
Alignment explanation
Indices: 9320100--9320300 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 41
9320090 CGTCTAAAGG
9320100 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* * * *
9320140 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--ATCT---GGGGA
* * * * * ** *
9320186 TAACATGGTTCCTACGTGACGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG--ATCTGGGGA
9320229 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* * *
9320269 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG
9320301 CCATCTAAAG
Statistics
Matches: 125, Mismatches: 28, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
40 63 0.50
42 1 0.01
43 29 0.23
46 31 0.25
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
Found at i:9320299 original size:129 final size:129
Alignment explanation
Indices: 9320100--9320352 Score: 488
Period size: 129 Copynumber: 2.0 Consensus size: 129
9320090 CGTCTAAAGG
9320100 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
*
9320165 GTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGACGAGGACGGCTGGTTATCTATGGT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGGCTGGTTATCTATGGT
9320229 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
*
9320294 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGATGGCTGGTTATCT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGGCTGGTTATCT
9320353 CTAGGATAAT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGGCTGGTTATCTATGGT
Found at i:9320737 original size:35 final size:36
Alignment explanation
Indices: 9320690--9320772 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
9320680 ACAAAATTCA
**
9320690 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
9320725 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
9320761 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
9320773 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:9321182 original size:40 final size:40
Alignment explanation
Indices: 9321138--9321217 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
9321128 GTTTTAATAG
*
9321138 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
*
9321178 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
9321218 CGAGAGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:9321332 original size:30 final size:30
Alignment explanation
Indices: 9321298--9321776 Score: 184
Period size: 30 Copynumber: 15.6 Consensus size: 30
9321288 AGAGACAAAA
*
9321298 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
** * * *
9321328 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
*
9321365 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
9321395 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
*
9321432 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
** * * *
9321462 TTTTGTTTCAAAAGAAATTATCTTAAAAGAGACAAAA
1 TTTTGTTTCAAAAGAAACAAAC-T-CAA-AG----AT
*
9321499 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
9321529 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
** ** * * **
9321559 TTTT-TCACAAAATTTTCTCAAGAGAGACAAA-A-
1 TTTTGTTTCAAAA-----GAAACAAACTCAAAGAT
* * * *
9321591 CTTTGCTTC-AAAGTAAATAGACTCAAAGA-
1 TTTTGTTTCAAAAG-AAACAAACTCAAAGAT
*
9321620 TTTT-TTT-AAACA-AAAC-AACTCACAGAT
1 TTTTGTTTCAAA-AGAAACAAACTCAAAGAT
* * * *
9321647 TTTT-ATTCCAAAGGAACAAACTCCAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
9321676 TTTT-ATTCAAAAGGAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
9321704 -TTT-TTTCAAGAGGAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
9321731 -TTT-TTTCAAGAGGAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
9321759 TTTT-TTCCTCAAAAGAAA
1 TTTTGTT--TCAAAAGAAA
9321777 TTGTCTTTAA
Statistics
Matches: 340, Mismatches: 70, Indels: 77
0.70 0.14 0.16
Matches are distributed among these distances:
26 8 0.02
27 62 0.18
28 18 0.05
29 51 0.15
30 90 0.26
31 13 0.04
32 10 0.03
33 8 0.02
34 13 0.04
35 4 0.01
36 5 0.01
37 58 0.17
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:9321368 original size:67 final size:67
Alignment explanation
Indices: 9321219--9321545 Score: 577
Period size: 67 Copynumber: 4.9 Consensus size: 67
9321209 AAGTTGTCTC
* *
9321219 GAGAGACAAAATTTTGTTT-CAAAGGAAACAAACTCAGAGATTTTT-TTCTCAAAAGAAATTGTC
1 GAGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTGTT-TCAAAAGAAATTATC
9321282 TTTAA
64 -TTAA
9321287 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
9321352 AA
66 AA
*
9321354 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
9321419 AA
66 AA
9321421 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
9321486 AA
66 AA
*
9321488 AAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
9321546 CAATCTCAAA
Statistics
Matches: 252, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
67 193 0.77
68 53 0.21
69 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (67 bp):
GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
AA
Found at i:9321379 original size:37 final size:36
Alignment explanation
Indices: 9321328--9321516 Score: 150
Period size: 37 Copynumber: 5.5 Consensus size: 36
9321318 ACTCAAAGAT
*
9321328 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACTATCTTAA-AGAGACAAAA
* * * * *
9321365 TTTTGTTTCCAAAGAAACAAAC-TCAA-AG----AT
1 TTTTGTTTCAAAAGAAACTATCTTAAAGAGACAAAA
9321395 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACTATCTTAA-AGAGACAAAA
* * * * *
9321432 TTTTGTTTCCAAAGAAACAAAC-TCAA-AG----AT
1 TTTTGTTTCAAAAGAAACTATCTTAAAGAGACAAAA
*
9321462 TTTTGTTTCAAAAGAAATTATCTTAAAAGAGACAAAA
1 TTTTGTTTCAAAAGAAACTATCTT-AAAGAGACAAAA
*
9321499 TTTTGTTTCCAAAGAAAC
1 TTTTGTTTCAAAAGAAAC
9321517 AAACTCAAAG
Statistics
Matches: 114, Mismatches: 24, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
30 39 0.34
31 3 0.03
32 3 0.03
33 4 0.04
34 4 0.04
35 2 0.02
36 4 0.04
37 55 0.48
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAACTATCTTAAAGAGACAAAA
Found at i:9321764 original size:29 final size:28
Alignment explanation
Indices: 9321611--9321765 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 28
9321601 AAGTAAATAG
* * *
9321611 ACTCAAAGATTTTTTTAAACA-AAAC-A
1 ACTCAAAGATTTTTTTCAAGAGGAACAA
*
9321637 ACTCACAGATTTTTATTCCAA-AGGAACAA
1 ACTCAAAGATTTTT-TT-CAAGAGGAACAA
* *
9321666 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAGAGGAACAA
9321695 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAGAGGAACAA
9321722 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAGAGGAACAA
9321749 ACTCAAAGATTTTTTTC
1 ACTCAAAGATTTTTTTC
9321766 CTCAAAAGAA
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
26 13 0.11
27 52 0.45
28 19 0.16
29 32 0.28
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAGAGGAACAA
Found at i:9322103 original size:36 final size:34
Alignment explanation
Indices: 9322019--9322111 Score: 96
Period size: 36 Copynumber: 2.7 Consensus size: 34
9322009 GAGAAAATGA
* *
9322019 TGTCTGAAGCGAGACAAAATTTGCTTTAAGATAC
1 TGTCTCAAGCGAGACAAAATTTGCTTTAAGAAAC
* ** * *
9322053 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGAAAC
*
9322089 TGTCTCAAGCGAGACAAAGTTTG
1 TGTCTCAAGCGAGACAAAATTTG
9322112 AGAAAACGAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 19 0.41
35 4 0.09
36 23 0.50
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (34 bp):
TGTCTCAAGCGAGACAAAATTTGCTTTAAGAAAC
Found at i:9322372 original size:92 final size:91
Alignment explanation
Indices: 9322222--9322388 Score: 248
Period size: 90 Copynumber: 1.8 Consensus size: 91
9322212 CTCAAAGGAA
* * *
9322222 AAAATGTCTCAAATGAGACGAAATTTGTTTTGAAATAAATTGCCTCAAGCGAGACAAAATTTGTT
1 AAAATGTCTCAAACGAGACGAAATTTGTTTTAAAAGAAATTGCCTCAAGCGAGACAAAATTTGTT
9322287 TTT-AGAAAAATCTCAAAGTTTGTGG
66 TTTAAGAAAAATCTCAAAGTTTGTGG
* *
9322312 AAAATGTCTCAAGCGAGAC-ATAATTTGTTTTAAAGAGAAAGTTGTCTCAAGCGAGACAAAATTT
1 AAAATGTCTCAAACGAGACGA-AATTTGTTTTAAA-AGAAA-TTGCCTCAAGCGAGACAAAATTT
9322376 GTTTTTAAGAAAA
63 GTTTTTAAGAAAA
9322389 CTGTCTCTAG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
89 1 0.01
90 29 0.43
91 4 0.06
92 28 0.41
93 6 0.09
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (91 bp):
AAAATGTCTCAAACGAGACGAAATTTGTTTTAAAAGAAATTGCCTCAAGCGAGACAAAATTTGTT
TTTAAGAAAAATCTCAAAGTTTGTGG
Found at i:9322377 original size:21 final size:21
Alignment explanation
Indices: 9322316--9322377 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
9322306 TTGTGGAAAA
*
9322316 TGTCTCAAGCGAGACATAATT
1 TGTCTCAAGCGAGACAAAATT
* * * *
9322337 TGTTTTAA---AGA-GAAAGT
1 TGTCTCAAGCGAGACAAAATT
9322354 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGACAAAATT
9322375 TGT
1 TGT
9322378 TTTTAAGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 8
0.62 0.20 0.18
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTCTCAAGCGAGACAAAATT
Found at i:9322394 original size:36 final size:35
Alignment explanation
Indices: 9322311--9322418 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 35
9322301 AAAGTTTGTG
* *
9322311 GAAAATGTCTCAAGCGAGACATAATTTGTTTTAAA
1 GAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
9322346 GAGAAAGTTGTCTCAAGCGAGACAAAATTTGTTTTTAA
1 GA-AAA--TGTCTCAAGCGAGACAAAATTTGTTTTTAA
* * * *
9322384 GAAAACTGTCTCTAGTGAGACGACACTTTGTTTTT
1 GAAAA-TGTCTCAAGCGAGAC-AAAATTTGTTTTT
9322419 TTAATAAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
35 2 0.03
36 16 0.26
37 14 0.23
38 30 0.48
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (35 bp):
GAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
Found at i:9322751 original size:4 final size:4
Alignment explanation
Indices: 9322742--9322775 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
9322732 TTTATGTATC
9322742 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9322776 GTTCTCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:9324005 original size:22 final size:23
Alignment explanation
Indices: 9323954--9324078 Score: 107
Period size: 23 Copynumber: 5.3 Consensus size: 23
9323944 TCTTTGTCCT
*
9323954 CTTTTTGTTCTTTGCTTTTTCTTTG
1 CTTTTTG--CTTTGATTTTTCTTTG
*
9323979 ATTTTTGCTTTGATTTTTCTTTG
1 CTTTTTGCTTTGATTTTTCTTTG
9324002 -TTTTTGCTTTGATTTTTTTCTCTCTG
1 CTTTTTGCTTTGA--TTTTTCT-T-TG
*
9324028 CTCTTTG-TTT--TTTTTCTTTG
1 CTTTTTGCTTTGATTTTTCTTTG
*
9324048 CTCTTTTCTCTTTGATTTTTCTTTG
1 CT-TTTT-GCTTTGATTTTTCTTTG
9324073 -TTTTTG
1 CTTTTTG
9324079 ATTGGATCTT
Statistics
Matches: 84, Mismatches: 6, Indels: 23
0.74 0.05 0.20
Matches are distributed among these distances:
20 4 0.05
21 4 0.05
22 19 0.23
23 22 0.26
24 8 0.10
25 17 0.20
26 5 0.06
27 5 0.06
ACGTcount: A:0.03, C:0.14, G:0.11, T:0.71
Consensus pattern (23 bp):
CTTTTTGCTTTGATTTTTCTTTG
Found at i:9324038 original size:20 final size:20
Alignment explanation
Indices: 9324015--9324053 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9324005 TTGCTTTGAT
9324015 TTTTTTCTCTCTGCTCTTTG
1 TTTTTTCTCTCTGCTCTTTG
* *
9324035 TTTTTTTTCTTTGCTCTTT
1 TTTTTTCTCTCTGCTCTTT
9324054 TCTCTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTTTCTCTCTGCTCTTTG
Found at i:9324051 original size:27 final size:25
Alignment explanation
Indices: 9324014--9324067 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
9324004 TTTGCTTTGA
*
9324014 TTTTTTTCTCTCTGCTCTTTGTTTT
1 TTTTTTTCTCTCTGCTCTTTGATTT
* *
9324039 TTTTCTTTGCTCTTTTCTCTTTGATTT
1 TTTT-TTT-CTCTCTGCTCTTTGATTT
9324066 TT
1 TT
9324068 CTTTGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 3 0.12
27 17 0.71
ACGTcount: A:0.02, C:0.19, G:0.07, T:0.72
Consensus pattern (25 bp):
TTTTTTTCTCTCTGCTCTTTGATTT
Found at i:9327194 original size:31 final size:32
Alignment explanation
Indices: 9327138--9327199 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
9327128 TGACAAAATG
9327138 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
9327170 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
9327200 CATGCAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:9330547 original size:25 final size:25
Alignment explanation
Indices: 9330513--9330561 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9330503 GGCTAGAACA
9330513 TTTAGGGTTTGAAACCCTAATCTGT
1 TTTAGGGTTTGAAACCCTAATCTGT
9330538 TTTAGGGTTTGAAACCCTAATCTG
1 TTTAGGGTTTGAAACCCTAATCTG
9330562 ATGGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTGT
Found at i:9330683 original size:3 final size:3
Alignment explanation
Indices: 9330675--9330711 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
9330665 ATTAATAAAC
9330675 ATA ATA ATA A-A A-A ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9330712 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:9330693 original size:22 final size:22
Alignment explanation
Indices: 9330667--9330708 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9330657 AATATGTAAT
9330667 TAATAA-ACATAATAATAAAAAA
1 TAATAATA-ATAATAATAAAAAA
9330689 TAATAATAATAATAATAAAA
1 TAATAATAATAATAATAAAA
9330709 TAACGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAATAATAATAATAATAAAAAA
Found at i:9339216 original size:22 final size:23
Alignment explanation
Indices: 9339165--9339228 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
9339155 TTTAAAATCG
*
9339165 GTATCGATACC---GTAAGGG-G
1 GTATCGATACCATAGTAAGGGTA
*
9339184 GTATCGGTACCATAGT-AGGGTA
1 GTATCGATACCATAGTAAGGGTA
*
9339206 GTATCGATACCATGGTAAGGGTA
1 GTATCGATACCATAGTAAGGGTA
9339229 TCGAAACCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.28
21 4 0.11
22 16 0.44
23 6 0.17
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (23 bp):
GTATCGATACCATAGTAAGGGTA
Found at i:9339231 original size:20 final size:20
Alignment explanation
Indices: 9339182--9339237 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
9339172 TACCGTAAGG
* *
9339182 GGGTATCGGTACCATAGTAG
1 GGGTATCGATACCATAGTAA
*
9339202 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
*
9339224 GGGTATCGAAACCA
1 GGGTATCGATACCA
9339238 GGCAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:9339332 original size:22 final size:22
Alignment explanation
Indices: 9339276--9339326 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
9339266 ATACCTAGAG
*
9339276 GAAGTATCAGTGCCATAATATT
1 GAAGTATCAGTACCATAATATT
*
9339298 GAAGTATCAGTACCATAGTATT
1 GAAGTATCAGTACCATAATATT
9339320 GAAGTAT
1 GAAGTAT
9339327 TGGTACTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (22 bp):
GAAGTATCAGTACCATAATATT
Found at i:9339819 original size:45 final size:45
Alignment explanation
Indices: 9339763--9340101 Score: 498
Period size: 45 Copynumber: 7.5 Consensus size: 45
9339753 TGGAAATAAT
* *** * * *
9339763 AATGTATATGGGTGCATTATTGGCATAAAAGGATTCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
9339808 AATGCATATGGGTGCATTATCAACAGAAAAGTATATTGTAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
9339853 AATGCATATGTGTTCATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
9339898 AATGCATATGGGTGCATTACCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
9339943 AATGCATATGGGTGCATTACCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* * *
9339988 AATGCATATAGGTGCATTATCAACAGAAAAGTATTCTATGGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
9340033 AATGCATATGGGTGCATTATCAATAGAAAAATATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
9340078 AATGCATATGGGCGCATTGTCAAC
1 AATGCATATGGGTGCATTATCAAC
9340102 GTGAATGGAG
Statistics
Matches: 266, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 266 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
Found at i:9342621 original size:28 final size:28
Alignment explanation
Indices: 9342579--9342679 Score: 184
Period size: 28 Copynumber: 3.6 Consensus size: 28
9342569 TCCTTAAGGA
*
9342579 GTGGTCCTTCAGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
9342607 GTGGTCCTTCGGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
9342635 GTGGTCCTTCGGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
*
9342663 GTGGTCCTTCGCGACAT
1 GTGGTCCTTCGGGACAT
9342680 TTCTACGTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.38
Consensus pattern (28 bp):
GTGGTCCTTCGGGACATATGTGTTATAT
Found at i:9343004 original size:9 final size:9
Alignment explanation
Indices: 9342986--9343031 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
9342976 AAGAGATATG
*
9342986 AATGAGAAT
1 AATGATAAT
*
9342995 AATGCTAAT
1 AATGATAAT
9343004 AATGATAAT
1 AATGATAAT
*
9343013 AATAATAAT
1 AATGATAAT
*
9343022 AATAATAAT
1 AATGATAAT
9343031 A
1 A
9343032 TGAATGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (9 bp):
AATGATAAT
Found at i:9343014 original size:3 final size:3
Alignment explanation
Indices: 9343000--9343031 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9342990 AGAATAATGC
*
9343000 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9343032 TGAATGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9343055 original size:6 final size:6
Alignment explanation
Indices: 9343044--9344100 Score: 1514
Period size: 6 Copynumber: 181.5 Consensus size: 6
9343034 AATGATATAA
9343044 TATATG TATATG TATA-G --TATG TATATG TATATG T-TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343088 TATGTATG TATATG TATATG TATATG TATATG TATATG TATATG TATATATG
1 TA--TATG TATATG TATATG TATATG TATATG TATATG TATATG --TATATG
9343140 TATATG TATATG --TATG TATATG --TAT- TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
9343183 TATA-- TATATG TATATG TATATG TATATG TATATA TTTATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343229 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343277 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343325 TATATG TATATG TATATG TATATG TATATG -ATATG -ATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343371 TATATG TATATG TATATG --TATG TATATG TATGTATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TA--TATG TATATG TATATG
9343419 --TATG TATATG TATATG TATATG TATATG --TATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343463 TATATG TATATG TATATG TATATATG TATATG TATA-G TATATG --TATG
1 TATATG TATATG TATATG --TATATG TATATG TATATG TATATG TATATG
9343510 TATATG TATATG TATGTATG TATATG TATATG --TATG TATATG TATATG
1 TATATG TATATG TA--TATG TATATG TATATG TATATG TATATG TATATG
9343558 TATATG TATATG TATA-G TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
9343605 TATATG TATATATC TATATG TATAT- T-TATG TATATG --TATG TATATG
1 TATATG --TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343651 TATATG --TATG TATATG TATATG TATATG TATA-G TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
9343696 TATATG --TATG TATATG TATCTG TAT-TG TATATG TATATG TATATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG --TATATG
9343743 TATATG TATATG TATATG --TATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9343789 TATATG TATATG TATATTCTG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATA---TG TATATG TATATG TATATG TATATG TATATG
9343838 TATATG TATATG TATATG TATATG TATATG T-TATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
9343885 TATATG TATATG TATA-- TATATG TATATG TCTATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
9343929 T-TATG TA-ATG TATCTG TATATG TATATG TATATG TATATG TATGTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TA--TATG
9343977 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA--
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
9344023 TATATG TATATG --TATG TAT-TG TATATG TCTATG TATATG TATAGG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
9344068 TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
9344101 GTTGTATGGA
Statistics
Matches: 968, Mismatches: 14, Indels: 138
0.86 0.01 0.12
Matches are distributed among these distances:
3 2 0.00
4 71 0.07
5 61 0.06
6 781 0.81
8 47 0.05
9 6 0.01
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:9349258 original size:2 final size:2
Alignment explanation
Indices: 9349251--9349308 Score: 68
Period size: 2 Copynumber: 30.0 Consensus size: 2
9349241 ACCTCAATTA
*
9349251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9349291 GT -T AT AT GAT AT AT AT AT
1 AT AT AT AT -AT AT AT AT AT
9349309 TTACAATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9350176 original size:30 final size:30
Alignment explanation
Indices: 9350142--9350202 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9350132 AAAAGAAACC
9350142 AAACAAAAAAGTTTTGAGCTAATGATCAAA
1 AAACAAAAAAGTTTTGAGCTAATGATCAAA
9350172 AAACAAAAAAGTTTTGAGCTAATGATCAAA
1 AAACAAAAAAGTTTTGAGCTAATGATCAAA
9350202 A
1 A
9350203 GTGAGTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (30 bp):
AAACAAAAAAGTTTTGAGCTAATGATCAAA
Found at i:9350915 original size:29 final size:30
Alignment explanation
Indices: 9350822--9350915 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 30
9350812 TCTATTTTAT
* * *
9350822 TTTTTATAT-TTCTTTATTTTTAGTTTTCTA
1 TTTTTATATATT-ATTATTATTACTTTTCTA
*
9350852 TTTATT-TATATTA-TATTACTACTTTTCT-
1 TTT-TTATATATTATTATTATTACTTTTCTA
* *
9350880 TTATTTAT-TGTTATTATTATTATTTTTCTA
1 TT-TTTATATATTATTATTATTACTTTTCTA
9350910 TTTTTA
1 TTTTTA
9350916 CTTCTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
28 8 0.16
29 31 0.61
30 8 0.16
31 4 0.08
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (30 bp):
TTTTTATATATTATTATTATTACTTTTCTA
Found at i:9351046 original size:13 final size:11
Alignment explanation
Indices: 9351037--9351074 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
9351027 GTTTTATTCA
9351037 TTTTTTTTATT
1 TTTTTTTTATT
9351048 TTTTTTTTA-T
1 TTTTTTTTATT
9351058 TTTTTTTTATT
1 TTTTTTTTATT
9351069 TTTTTT
1 TTTTTT
9351075 CTTTATGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:9351050 original size:10 final size:10
Alignment explanation
Indices: 9351037--9351074 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
9351027 GTTTTATTCA
9351037 TTTTTTTTATT
1 TTTTTTTTA-T
9351048 TTTTTTTTAT
1 TTTTTTTTAT
9351058 TTTTTTTTAT
1 TTTTTTTTAT
9351068 TTTTTTT
1 TTTTTTT
9351075 CTTTATGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:9353546 original size:40 final size:41
Alignment explanation
Indices: 9353475--9353551 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
9353465 AATTATTCCC
* *
9353475 TAAATTTAAAGACTAAATGTGAAAAGTTTAAATCTAAGGTT
1 TAAATTTAAAGACTAAATGTGAAAAGATTAAAACTAAGGTT
* *
9353516 TAAA-TTAAGGACTAAAT-TGAAGAGAATTAAAACTAA
1 TAAATTTAAAGACTAAATGTGAAAAG-ATTAAAACTAA
9353552 AGGATTATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 6 0.19
40 21 0.68
41 4 0.13
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (41 bp):
TAAATTTAAAGACTAAATGTGAAAAGATTAAAACTAAGGTT
Found at i:9359558 original size:17 final size:18
Alignment explanation
Indices: 9359536--9359574 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
9359526 CCGTTATAAG
*
9359536 ACTTA-GTGCATCGGTAC
1 ACTTAGGTGAATCGGTAC
9359553 ACTTAGGGTGAATCGGTAC
1 ACTTA-GGTGAATCGGTAC
9359572 ACT
1 ACT
9359575 AATTACATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (18 bp):
ACTTAGGTGAATCGGTAC
Found at i:9359686 original size:84 final size:84
Alignment explanation
Indices: 9359545--9359722 Score: 320
Period size: 84 Copynumber: 2.1 Consensus size: 84
9359535 GACTTAGTGC
9359545 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
1 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
9359610 ATCGATGCATGGTCTGTGA
66 ATCGATGCATGGTCTGTGA
* *
9359629 ATCGGTACACTTGGGGTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
1 ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
* *
9359694 TTCGATGCATGGTCTGTGC
66 ATCGATGCATGGTCTGTGA
9359713 ATCGGTACAC
1 ATCGGTACAC
9359723 AATGCATTCG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
ATCGGTACACTTAGGGTGAATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC
ATCGATGCATGGTCTGTGA
Found at i:9359755 original size:63 final size:63
Alignment explanation
Indices: 9359644--9359797 Score: 170
Period size: 63 Copynumber: 2.4 Consensus size: 63
9359634 TACACTTGGG
* * * *
9359644 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGC-TTCGATGCATGGTC
1 GTGCATCGGTACAC-AAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATT-GATGCATGAT-
9359708 T
63 T
***
9359709 GTGCATCGGTACAC-AATGCATTCGATGTTTCAATAA-ATTGAAGAGTGCATTGATGCATGATT
1 GTGCATCGGTACACAAATGCATTCGATGTTTCAA-AAGAGCCAAGAGTGCATTGATGCATGATT
*
9359771 GTGCATCAGTACACAAAATGCATTCGA
1 GTGCATCGGTACAC-AAATGCATTCGA
9359798 AAGAGGGTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
62 14 0.18
63 34 0.44
64 15 0.19
65 14 0.18
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (63 bp):
GTGCATCGGTACACAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATTGATGCATGATT
Found at i:9367346 original size:65 final size:64
Alignment explanation
Indices: 9367258--9367412 Score: 213
Period size: 65 Copynumber: 2.4 Consensus size: 64
9367248 ACACTTGGGA
* * * * *
9367258 TGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAGGAGTGCACCGATGCATGGTTT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAA-AGCCAAGAGTGCACCGATGCATGG-CT
9367322 G
64 G
** *
9367323 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGCTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAAGCCAAGAGTGCACCGATGCATGGCTG
9367387 TGCATCGGTACACAAAATGCATTCGA
1 TGCATCGGTACACAAAATGCATTCGA
9367413 AATAGGGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 28 0.35
65 51 0.63
66 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (64 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAAGCCAAGAGTGCACCGATGCATGGCTG
Found at i:9371445 original size:55 final size:55
Alignment explanation
Indices: 9371343--9371466 Score: 151
Period size: 55 Copynumber: 2.3 Consensus size: 55
9371333 ATTGTATGAG
* * *
9371343 TGTGTATTGGTACACTGAGGAGTATATCGATACCCTCATAACATCGAATACTATT
1 TGTGTATCGGTACACTGAGGAGTATATCGATACCCTCACAACATCGAATACAATT
* ** * * *
9371398 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTTGCCACTTCGAATGCAATT
1 TGTGTATCGGTACACTGAGGAGTATATCGATACCCTCACAACATCGAATACAATT
9371453 TAG-GTATCGGTACA
1 T-GTGTATCGGTACA
9371467 TGCATATGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 58 0.98
56 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTATATCGATACCCTCACAACATCGAATACAATT
Found at i:9372022 original size:21 final size:21
Alignment explanation
Indices: 9371996--9372044 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
9371986 GTCGAGGGTC
* * *
9371996 TATGTGGTCCTTCGGGATAAT
1 TATGTGGTCCTCCGGGACAAA
9372017 TATGTGGTCCTCCGGGACAAA
1 TATGTGGTCCTCCGGGACAAA
9372038 TATGTGG
1 TATGTGG
9372045 CCACTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (21 bp):
TATGTGGTCCTCCGGGACAAA
Found at i:9378942 original size:21 final size:21
Alignment explanation
Indices: 9378912--9378968 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9378902 GTCGAGGGTC
* * *
9378912 TATGTAGTCCTTCGGGATAAT
1 TATGTGGTCCTTCGGGACAAA
*
9378933 TATGTGGTCCTCCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
9378954 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
9378969 TGCAACCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:9378984 original size:23 final size:22
Alignment explanation
Indices: 9378954--9379039 Score: 90
Period size: 23 Copynumber: 3.9 Consensus size: 22
9378944 CCGGGACAAA
9378954 TATGTGGCACTTCGGTGCAACCT
1 TATGTGGCACTTCGGTGCAA-CT
* *
9378977 TATGTGGCATTTTGGTGCAAAC-
1 TATGTGGCACTTCGGTGC-AACT
9378999 TATGTGGTCA-TTCGG-GACAA-T
1 TATGTGG-CACTTCGGTG-CAACT
9379020 TATGTGGCACTTCGGTGCAA
1 TATGTGGCACTTCGGTGCAA
9379040 ATATACGAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.04
21 18 0.33
22 13 0.24
23 19 0.35
24 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGCAACT
Found at i:9379025 original size:21 final size:21
Alignment explanation
Indices: 9378921--9379034 Score: 83
Period size: 21 Copynumber: 5.3 Consensus size: 21
9378911 CTATGTAGTC
*
9378921 CTTCGGGATAATTATGTGGTC-
1 CTTCGGGACAATTATGTGG-CA
* *
9378942 CTCCGGGACAAATATGTGGCA
1 CTTCGGGACAATTATGTGGCA
9378963 CTTCGGTG-CAACCTTATGTGGCA
1 CTTCGG-GACAA--TTATGTGGCA
* * *
9378986 TTTTGGTG-CAAACTATGTGGTCA
1 CTTCGG-GAC-AATTATGTGG-CA
9379009 -TTCGGGACAATTATGTGGCA
1 CTTCGGGACAATTATGTGGCA
9379029 CTTCGG
1 CTTCGG
9379035 TGCAAATATA
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.04
21 39 0.52
22 13 0.17
23 18 0.24
24 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (21 bp):
CTTCGGGACAATTATGTGGCA
Found at i:9387695 original size:10 final size:10
Alignment explanation
Indices: 9387669--9387703 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
9387659 GTTAAATATA
9387669 TTATTCTATTAT
1 TTATT-TATT-T
9387681 TTATTTATTT
1 TTATTTATTT
9387691 TTATTTATTT
1 TTATTTATTT
9387701 TTA
1 TTA
9387704 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.61
11 4 0.17
12 5 0.22
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTATTT
Found at i:9387863 original size:23 final size:23
Alignment explanation
Indices: 9387834--9387877 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9387824 TATATGAAAA
9387834 AATAATTATAAAATCGACAAACT
1 AATAATTATAAAATCGACAAACT
*
9387857 AATAATTGTAAAATCGACAAA
1 AATAATTATAAAATCGACAAA
9387878 GTTGTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (23 bp):
AATAATTATAAAATCGACAAACT
Found at i:9388154 original size:10 final size:10
Alignment explanation
Indices: 9388138--9388167 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9388128 AATCATCACA
9388138 ATAAACGAAC
1 ATAAACGAAC
*
9388148 GTAAACGAAC
1 ATAAACGAAC
9388158 ATAAACGAAC
1 ATAAACGAAC
9388168 TTACAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.13, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:9388201 original size:23 final size:23
Alignment explanation
Indices: 9388175--9388227 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
9388165 AACTTACAAA
* *
9388175 AACATAACAAATGAACATAATCG
1 AACATAACAAATAAACATAAACG
* * *
9388198 AACACAATAAATAAACTTAAACG
1 AACATAACAAATAAACATAAACG
9388221 AACATAA
1 AACATAA
9388228 ACAACAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (23 bp):
AACATAACAAATAAACATAAACG
Found at i:9388224 original size:33 final size:32
Alignment explanation
Indices: 9388116--9388240 Score: 96
Period size: 33 Copynumber: 3.8 Consensus size: 32
9388106 TGAATGGACG
* * *
9388116 TAAACAAACATAAATCATC-ACAATAAACGAAC
1 TAAACGAACATAAA-CAACTACAATAAACAAAC
9388148 GTAAACGAACATAAACGAACTTACAA-AAACATAAC
1 -TAAACGAACATAAAC-AAC-TACAATAAACA-AAC
* * *
9388183 -AAATGAACATAATCGAAC-ACAATAAATAAAC
1 TAAACGAACATAAAC-AACTACAATAAACAAAC
*
9388214 TTAAACGAACATAAACAACAACAATAA
1 -TAAACGAACATAAACAACTACAATAA
9388241 CCACATAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
31 7 0.09
32 8 0.11
33 50 0.66
34 4 0.05
35 7 0.09
ACGTcount: A:0.60, C:0.19, G:0.06, T:0.15
Consensus pattern (32 bp):
TAAACGAACATAAACAACTACAATAAACAAAC
Found at i:9388547 original size:43 final size:39
Alignment explanation
Indices: 9388500--9388586 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 39
9388490 TTCACAAACG
* *
9388500 TAAATGAACAAACAAGACTTTTGTTCGTGTTCGTTCATTTAA
1 TAAATGAACAAA-AA-A-TCTTGTTCATGTTCGTTCATTTAA
* *
9388542 TTAAATGAACATAAAATCTTGTTCATGTTCGTTCGTTTAA
1 -TAAATGAACAAAAAATCTTGTTCATGTTCGTTCATTTAA
9388582 TAAAT
1 TAAAT
9388587 AAACGAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 5 0.12
40 21 0.52
41 1 0.03
42 2 0.05
43 11 0.28
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
TAAATGAACAAAAAATCTTGTTCATGTTCGTTCATTTAA
Found at i:9394212 original size:31 final size:31
Alignment explanation
Indices: 9394145--9394212 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
9394135 ATCCAAGTGG
* * *
9394145 CCAAAACTTAATAAAACGATAATATAAGTGA
1 CCAAAACTTAATAAAACAATAACATAAATGA
* * *
9394176 ACAAAACTTAATAAAATAATAACGTAAATGA
1 CCAAAACTTAATAAAACAATAACATAAATGA
9394207 CCAAAA
1 CCAAAA
9394213 TTTATTTCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.13, G:0.07, T:0.21
Consensus pattern (31 bp):
CCAAAACTTAATAAAACAATAACATAAATGA
Found at i:9394694 original size:10 final size:8
Alignment explanation
Indices: 9394658--9394689 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
9394648 AACTTAATCA
9394658 CCTCTCTC
1 CCTCTCTC
9394666 CCTCTCTC
1 CCTCTCTC
9394674 CCTCTCTC
1 CCTCTCTC
9394682 CCTCTCTC
1 CCTCTCTC
9394690 TCCCTGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (8 bp):
CCTCTCTC
Found at i:9401709 original size:20 final size:21
Alignment explanation
Indices: 9401671--9401713 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9401661 AAACCATTCA
9401671 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTA-CCCCTTGG
* *
9401693 GGGGGAATCGGTTCCCTTTGG
1 GGGGGAATCGGTACCCCTTGG
9401714 ACAATCTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCTTGG
Found at i:9409415 original size:21 final size:21
Alignment explanation
Indices: 9409382--9409421 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9409372 ACCGTCAACC
* *
9409382 AAATCCACCTCCTATTCCTGA
1 AAATCCAACTCCTAATCCTGA
*
9409403 AAATCCAATTCCTAATCCT
1 AAATCCAACTCCTAATCCT
9409422 AATCCCATTG
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:0.33, C:0.35, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATCCAACTCCTAATCCTGA
Found at i:9410695 original size:33 final size:31
Alignment explanation
Indices: 9410642--9410706 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 31
9410632 TTTTAACATT
*
9410642 TTGATTATTTTGGAATGTTTGAATTTGTGGA
1 TTGATTATTTTGGAATGTTTGAATTTATGGA
*
9410673 TTGATTGATTTT-GAATTTGTTTGGATTTATGGA
1 TTGATT-ATTTTGGAA--TGTTTGAATTTATGGA
9410706 T
1 T
9410707 GGTGAGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.31
32 5 0.17
33 15 0.52
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.54
Consensus pattern (31 bp):
TTGATTATTTTGGAATGTTTGAATTTATGGA
Found at i:9412363 original size:22 final size:22
Alignment explanation
Indices: 9412332--9412403 Score: 135
Period size: 22 Copynumber: 3.2 Consensus size: 22
9412322 TACTTTGGAT
9412332 CCTTGGACGTTAGTTTCAATGCC
1 CCTT-GACGTTAGTTTCAATGCC
9412355 CCTTGACGTTAGTTTCAATGCC
1 CCTTGACGTTAGTTTCAATGCC
9412377 CCTTGACGTTAGTTTCAATGCC
1 CCTTGACGTTAGTTTCAATGCC
9412399 CCTTG
1 CCTTG
9412404 TTCCTTTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 45 0.92
23 4 0.08
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (22 bp):
CCTTGACGTTAGTTTCAATGCC
Found at i:9425170 original size:3 final size:3
Alignment explanation
Indices: 9425162--9425221 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
9425152 ATGGATAAAT
*
9425162 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9425208 -AA TAA CTAA TAA TA
1 TAA TAA -TAA TAA TA
9425222 GTATTAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9425668 original size:42 final size:42
Alignment explanation
Indices: 9425586--9425669 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
9425576 TTAGCTTTGT
* * * * **
9425586 CATTTGCTCTTTTGAATCCTCTTGGAATTTTTTTGTTTGATC
1 CATTTGCTCATTTGAATCATCCTGGAACTTTTTTACTTGATC
*
9425628 CATTTGTTCATTTGAATCATCCTGGAACTTTTTTACTTGATC
1 CATTTGCTCATTTGAATCATCCTGGAACTTTTTTACTTGATC
9425670 AAACATCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (42 bp):
CATTTGCTCATTTGAATCATCCTGGAACTTTTTTACTTGATC
Found at i:9426210 original size:43 final size:44
Alignment explanation
Indices: 9426129--9426215 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
9426119 TCGTGCATCA
* * * *
9426129 AACAAAACTTTTATATGTATGGGACAACTTTCAGTCTTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCTTAACTTC
* *
9426173 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCTTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCTTAACTTC
9426216 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 29 0.78
44 8 0.22
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCTTAACTTC
Found at i:9428371 original size:145 final size:139
Alignment explanation
Indices: 9428190--9428563 Score: 394
Period size: 145 Copynumber: 2.6 Consensus size: 139
9428180 TTTATAAATA
* * *
9428190 AGATATTTATTTATTT-AGAAATATCAGAAAATGACTTCTAGGTGCTTTAAGATAGCCCATATCT
1 AGATATTTATTTATTTAAG-AATATCACAAAAGGACTTCTAGGTGCTTTAAGA-AGCCCATTTCT
9428254 TAATATT-AAAAATAAATAAATATTAATA-A-AACATTTCTCTA-AAAATAATTAAAATAAATT-
64 TAATATTAAAAAATAAATAAATATTAATAGATAAC-TTT-T-TATAAAA-AA-TAAAA-AAATTA
9428314 AATATATAAT-TTATAAGAAT
123 AATATATAATATT-T---AAT
* *
9428334 ATGATATTTATTTATTTAAGAATATCACAAAAGGACTTCTAGGTACTTTAAGACAACCCATTTCT
1 A-GATATTTATTTATTTAAGAATATCACAAAAGGACTTCTAGGTGCTTTAAGA-AGCCCATTTCT
* *
9428399 TAATATTGAAAAATAAATAAATATAATAATATGATAACTTTTTATAAAAAATAATAAAATTAAAT
64 TAATATTAAAAAATAAATAAATAT--TAATA-GATAACTTTTTATAAAAAATAAAAAAATTAAAT
9428464 ATATAATATTT-AT
126 ATATAATATTTAAT
* * * *
9428477 A-ATATTTATTTATTTAA-AATA-CTATAATAGGACATCTAGTTGCTTTAAGAATG-CCATTTCT
1 AGATATTTATTTATTTAAGAATATC-ACAAAAGGACTTCTAGGTGCTTTAAGAA-GCCCATTTCT
9428538 TAATATTAAAAAATAAATAAATATTA
64 TAATATTAAAAAATAAATAAATATTA
9428564 TTATTTAAAC
Statistics
Matches: 203, Mismatches: 14, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
137 2 0.01
139 33 0.16
140 26 0.13
141 16 0.08
143 3 0.01
144 1 0.00
145 61 0.30
146 23 0.11
147 15 0.07
148 11 0.05
149 5 0.02
150 4 0.02
151 3 0.01
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (139 bp):
AGATATTTATTTATTTAAGAATATCACAAAAGGACTTCTAGGTGCTTTAAGAAGCCCATTTCTTA
ATATTAAAAAATAAATAAATATTAATAGATAACTTTTTATAAAAAATAAAAAAATTAAATATATA
ATATTTAAT
Found at i:9431029 original size:36 final size:35
Alignment explanation
Indices: 9430948--9431031 Score: 87
Period size: 36 Copynumber: 2.4 Consensus size: 35
9430938 ATTTTATTCT
* * * *
9430948 AAACCCCAAAATCCAAAATGCTTCAATTACATTCT
1 AAACCCCAAATTCCAAAATACTTCAATTACATGCC
* * *
9430983 AAACCTCAAATTCCAAAAATACTTTAATTGCATGCC
1 AAACCCCAAATTCC-AAAATACTTCAATTACATGCC
*
9431019 CAACCCCAAATTC
1 AAACCCCAAATTC
9431032 ATAATCCATT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
35 12 0.31
36 27 0.69
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.25
Consensus pattern (35 bp):
AAACCCCAAATTCCAAAATACTTCAATTACATGCC
Found at i:9431979 original size:17 final size:18
Alignment explanation
Indices: 9431946--9431980 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9431936 GAATTTTAAG
9431946 ATTTTATATTCGATTCAA
1 ATTTTATATTCGATTCAA
9431964 ATTTTATATT-GATTCAA
1 ATTTTATATTCGATTCAA
9431981 TTATTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTTTATATTCGATTCAA
Found at i:9442806 original size:29 final size:29
Alignment explanation
Indices: 9442764--9442822 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9442754 ATTTTCACCT
9442764 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
9442793 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
9442822 A
1 A
9442823 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:9449985 original size:58 final size:59
Alignment explanation
Indices: 9449910--9450026 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 59
9449900 TCAACTCTCA
9449910 ACTTCTATTTTATATTCATTTCACAAAAAAAGAGATTGTATTATATACTACATTTCCAC
1 ACTTCTATTTTATATTCATTTCACAAAAAAAGAGATTGTATTATATACTACATTTCCAC
9449969 ACTTCTA-TTTATATTCATTTCACAAAAAAAGAGATTGTATTATATACTACATTTCCAC
1 ACTTCTATTTTATATTCATTTCACAAAAAAAGAGATTGTATTATATACTACATTTCCAC
9450027 GGCAAAATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 51 0.88
59 7 0.12
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (59 bp):
ACTTCTATTTTATATTCATTTCACAAAAAAAGAGATTGTATTATATACTACATTTCCAC
Found at i:9450174 original size:29 final size:30
Alignment explanation
Indices: 9450128--9450199 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
9450118 GTCGCCATAT
*
9450128 AGGTCGCCATGCATGCCCAGCGACCTA-CC
1 AGGTCGCCATGCACGCCCAGCGACCTAGCC
**
9450157 AGGTCGCCATGCACGCCCAGCGACCTAGGT
1 AGGTCGCCATGCACGCCCAGCGACCTAGCC
9450187 AGGTCGCCATGCA
1 AGGTCGCCATGCA
9450200 ATCCATGCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.14
Consensus pattern (30 bp):
AGGTCGCCATGCACGCCCAGCGACCTAGCC
Done.