Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 58 of 62
Found at i:13558318 original size:2 final size:2
Alignment explanation
Indices: 13558311--13558341 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13558301 TTTTATGTAT
13558311 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 T
13558342 TTGTTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13561698 original size:19 final size:21
Alignment explanation
Indices: 13561674--13561713 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13561664 ATACTTTGCA
13561674 TTTTATA-TTT-CATGTTTTT
1 TTTTATATTTTCCATGTTTTT
13561693 TTTTATATTTTCCATGTTTTT
1 TTTTATATTTTCCATGTTTTT
13561714 ACATTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATATTTTCCATGTTTTT
Found at i:13564955 original size:19 final size:19
Alignment explanation
Indices: 13564928--13564991 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
13564918 TCCGATTTAG
13564928 GAGCATCTCTGGAAGATCT
1 GAGCATCTCTGGAAGATCT
*
13564947 GAACATCTCTGGAAGATCT
1 GAGCATCTCTGGAAGATCT
13564966 GAGCATCTCTGGAAGATCT
1 GAGCATCTCTGGAAGATCT
13564985 GAGCATC
1 GAGCATC
13564992 AATGCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (19 bp):
GAGCATCTCTGGAAGATCT
Found at i:13571614 original size:2 final size:2
Alignment explanation
Indices: 13571607--13571631 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13571597 TTATTATTAT
13571607 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 T
13571632 TAATTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13571703 original size:2 final size:2
Alignment explanation
Indices: 13571690--13571729 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
13571680 TATCGTTATT
*
13571690 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13571730 CTTTTAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13571763 original size:15 final size:13
Alignment explanation
Indices: 13571685--13571901 Score: 65
Period size: 14 Copynumber: 15.9 Consensus size: 13
13571675 TATTCTATCG
13571685 TTATTTATATATT
1 TTATTTATATATT
*
13571698 TATATATATATATAT
1 T-TATTTATATAT-T
* *
13571713 ATATATATATATAT
1 TTATTTATATAT-T
*
13571727 ATACTTT-TA-ATT
1 TTA-TTTATATATT
*
13571739 CTTTTTTATATCATT
1 -TTATTTATAT-ATT
13571754 ATTATTTATATATT
1 -TTATTTATATATT
13571768 TTA-TTACTATAATT
1 TTATTTA-TAT-ATT
* *
13571782 ATGTTATATATATTT
1 TTATT-TATATA-TT
13571797 ATTATTTTATATATT
1 -TTA-TTTATATATT
* *
13571812 TCATTT-TATCTT
1 TTATTTATATATT
* *
13571824 TTATTTTTTTATCT
1 TTATTTATATAT-T
*
13571838 TCTATTTTTAT-TT
1 T-TATTTATATATT
*
13571851 TGTATTGT-TAT-TG
1 T-TATT-TATATATT
*
13571864 TTA-TTATCT-TCT
1 TTATTTATATAT-T
*
13571876 TTATTTTATGTATT
1 TTA-TTTATATATT
13571890 TTATTTATATAT
1 TTATTTATATAT
13571902 ATATTTTTTA
Statistics
Matches: 158, Mismatches: 23, Indels: 46
0.70 0.10 0.20
Matches are distributed among these distances:
10 1 0.01
11 4 0.03
12 22 0.14
13 37 0.23
14 51 0.32
15 32 0.20
16 9 0.06
17 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTTATATATT
Found at i:13571806 original size:18 final size:18
Alignment explanation
Indices: 13571756--13571810 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
13571746 ATATCATTAT
13571756 TATTTATATATTTTAT-TA
1 TATTTAT-TATTTTATATA
* *
13571774 CTA-TAATTATGTTATATA
1 -TATTTATTATTTTATATA
13571792 TATTTATTATTTTATATA
1 TATTTATTATTTTATATA
13571810 T
1 T
13571811 TTCATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.30
18 19 0.63
19 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TATTTATTATTTTATATA
Found at i:13571912 original size:33 final size:32
Alignment explanation
Indices: 13571842--13571918 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
13571832 TTATCTTCTA
*
13571842 TTTTTA-TTTTGTATTGTTATTGTTATTATCT
1 TTTTTATTTTTGTATTGTTATTGTTATTATAT
*
13571873 TCTTTATTTTATGTATT-TTATT-TATATATATAT
1 TTTTTATTTT-TGTATTGTTATTGT-TAT-TATAT
*
13571906 TTTTTATATTTGT
1 TTTTTATTTTTGT
13571919 TTTTGTGCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 6 0.16
32 14 0.37
33 18 0.47
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (32 bp):
TTTTTATTTTTGTATTGTTATTGTTATTATAT
Found at i:13576721 original size:18 final size:18
Alignment explanation
Indices: 13576700--13576745 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
13576690 AATTTGTCCC
13576700 GAAGGACCACTATGTCAT
1 GAAGGACCACTATGTCAT
*
13576718 GAAGGACCACTATGTCCT
1 GAAGGACCACTATGTCAT
13576736 GAAGGACCAC
1 GAAGGACCAC
13576746 ATATAACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (18 bp):
GAAGGACCACTATGTCAT
Found at i:13584701 original size:31 final size:31
Alignment explanation
Indices: 13584666--13584779 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 31
13584656 ATAATCGATC
*
13584666 TTTTAATTTTATCAATCAAATTTTTTAATTA
1 TTTTAATTTTGTCAATCAAATTTTTTAATTA
***
13584697 TTTT-ATTGTTGTCAATC-AATCCTTTGGCCATCGATA
1 TTTTAATT-TTGTCAATCAAAT--TTT-TTAAT---TA
*
13584733 TTTTAATTTTGTCAATCAAATTCTTTAATTA
1 TTTTAATTTTGTCAATCAAATTTTTTAATTA
13584764 TTTT-ATTGTTGTCAAT
1 TTTTAATT-TTGTCAAT
13584780 TAAGCCATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
30 9 0.14
31 26 0.40
32 3 0.05
33 2 0.03
34 2 0.03
35 2 0.03
36 15 0.23
37 6 0.09
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTTAATTTTGTCAATCAAATTTTTTAATTA
Found at i:13584908 original size:21 final size:18
Alignment explanation
Indices: 13584876--13584917 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
13584866 TTAATTTTTA
13584876 TTAATTTAATTAAATAAAT
1 TTAATTTAATTAAAT-AAT
13584895 TTAATATTCAATTAAATAAT
1 TTAAT-TT-AATTAAATAAT
13584915 TTA
1 TTA
13584918 GTCCTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAATTTAATTAAATAAT
Found at i:13585885 original size:15 final size:15
Alignment explanation
Indices: 13585865--13585916 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
13585855 TTTGAAAACC
*
13585865 TAAAAAAATTTCTTT
1 TAAAAAAATGTCTTT
*
13585880 TAAAAAGA-GT-TTT
1 TAAAAAAATGTCTTT
13585893 TAAGAAAAATGTCATTT
1 TAA-AAAAATGTC-TTT
13585910 TAAAAAA
1 TAAAAAA
13585917 TACATCGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 9 0.30
16 4 0.13
17 6 0.20
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
TAAAAAAATGTCTTT
Found at i:13588554 original size:105 final size:105
Alignment explanation
Indices: 13588441--13588815 Score: 610
Period size: 105 Copynumber: 3.6 Consensus size: 105
13588431 TTTGTCGGAT
13588441 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTAG-GGTGAATTTGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCT-GCGGTGAATTTGAA
*
13588505 AGGAACAGGTTCTTCTCATTACGAACCTTCTCCTTTAGGAC
65 AGGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* * *
13588546 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATT-AGTTCACCTCCTTCTGTGGTGGATTTGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGA-TTCACCTCCTTCTGCGGTGAATTTGAA
13588610 AGGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
65 AGGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
13588651 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGATGATTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
* * * *
13588716 GAAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGCAT
66 GGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
13588756 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTTTGGGGTGAATT
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATT
13588816 ATAGTTGTTG
Statistics
Matches: 253, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
104 2 0.01
105 250 0.99
106 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
GGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:13589753 original size:8 final size:8
Alignment explanation
Indices: 13589742--13589812 Score: 67
Period size: 8 Copynumber: 8.9 Consensus size: 8
13589732 TCTTTTCTTT
13589742 TTTTTTCA
1 TTTTTTCA
13589750 TTTTTTCA
1 TTTTTTCA
13589758 TTTTTTTCA
1 -TTTTTTCA
*
13589767 TTTTTTCTC
1 TTTTTTC-A
13589776 TTTTTTCCA
1 TTTTTT-CA
13589785 --TTTTCA
1 TTTTTTCA
13589791 -TTTTTCA
1 TTTTTTCA
**
13589798 TTCATTCA
1 TTTTTTCA
13589806 TTTTTTC
1 TTTTTTC
13589813 TTCAAGCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
6 2 0.04
7 10 0.19
8 25 0.48
9 14 0.27
10 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTTTCA
Found at i:13589753 original size:9 final size:9
Alignment explanation
Indices: 13589741--13589788 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
13589731 TTCTTTTCTT
13589741 TTTTTTTCA
1 TTTTTTTCA
13589750 -TTTTTTCA
1 TTTTTTTCA
13589758 TTTTTTTCA
1 TTTTTTTCA
13589767 TTTTTTCTC-
1 TTTTTT-TCA
*
13589776 TTTTTTCCA
1 TTTTTTTCA
13589785 TTTT
1 TTTT
13589789 CATTTTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
8 9 0.26
9 24 0.69
10 2 0.06
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:13589754 original size:17 final size:17
Alignment explanation
Indices: 13589734--13589788 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
13589724 CTCTTTTTTC
*
13589734 TTTTCTTTTTTTTTCAT
1 TTTTCTATTTTTTTCAT
13589751 TTTT-TCATTTTTTTCATT
1 TTTTCT-ATTTTTTTCA-T
* *
13589769 TTTTCTCTTTTTTCCAT
1 TTTTCTATTTTTTTCAT
13589786 TTT
1 TTT
13589789 CATTTTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 17 0.53
18 13 0.41
19 1 0.03
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTATTTTTTTCAT
Found at i:13589811 original size:17 final size:17
Alignment explanation
Indices: 13589741--13589788 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
13589731 TTCTTTTCTT
13589741 TTTTTTTCATTTTTTCA
1 TTTTTTTCATTTTTTCA
13589758 TTTTTTTCATTTTTTC-
1 TTTTTTTCATTTTTTCA
13589774 TCTTTTTTCCATTTT
1 T-TTTTTT-CATTTT
13589789 CATTTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.03
17 22 0.76
18 6 0.21
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:13593331 original size:7 final size:7
Alignment explanation
Indices: 13593319--13593359 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
13593309 AATGAATATA
13593319 AAGAATG
1 AAGAATG
*
13593326 AAGAATA
1 AAGAATG
13593333 AAGAATG
1 AAGAATG
13593340 AAGAATG
1 AAGAATG
13593347 AAGAATG
1 AAGAATG
13593354 AA-AATG
1 AAGAATG
13593360 TAAATAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.12
7 28 0.88
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
AAGAATG
Found at i:13594274 original size:25 final size:25
Alignment explanation
Indices: 13594241--13594299 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
13594231 CATTACCACA
13594241 AAATCAATATTGTAGACAGTTGGTC
1 AAATCAATATTGTAGACAGTTGGTC
13594266 AAATCAATATTGTAGACAGTTGGTC
1 AAATCAATATTGTAGACAGTTGGTC
*
13594291 CAATCAATA
1 AAATCAATA
13594300 GTGGTACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (25 bp):
AAATCAATATTGTAGACAGTTGGTC
Found at i:13600843 original size:15 final size:15
Alignment explanation
Indices: 13600823--13600874 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
13600813 GTCGAAAACC
*
13600823 TAAAAAAATTTCTTT
1 TAAAAAAATGTCTTT
*
13600838 TAAAAAGA-GT-TTT
1 TAAAAAAATGTCTTT
13600851 TAAGAAAAATGTCATTT
1 TAA-AAAAATGTC-TTT
13600868 TAAAAAA
1 TAAAAAA
13600875 TACACCGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 9 0.30
16 4 0.13
17 6 0.20
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
TAAAAAAATGTCTTT
Found at i:13605273 original size:19 final size:20
Alignment explanation
Indices: 13605244--13605282 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13605234 GAACGCTTCA
13605244 TTTATTTTTTTTTTCTATTT
1 TTTATTTTTTTTTTCTATTT
13605264 TTTA-TTTTTTTTTCTATTT
1 TTTATTTTTTTTTTCTATTT
13605283 GATTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTATTTTTTTTTTCTATTT
Found at i:13605291 original size:4 final size:4
Alignment explanation
Indices: 13605243--13605327 Score: 86
Period size: 4 Copynumber: 21.2 Consensus size: 4
13605233 GGAACGCTTC
* * *
13605243 ATTT ATTT TTTT TTTCT ATTT -TTT ATTT -TTT TTTCT ATTT GATTT ATTT
1 ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT ATT-T ATTT -ATTT ATTT
*
13605292 A-GT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
13605328 GTCTAATATT
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
3 8 0.11
4 52 0.74
5 10 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:13609225 original size:43 final size:43
Alignment explanation
Indices: 13609164--13609319 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
13609154 CAGAGCCAAT
13609164 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
13609207 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
13609258 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
*
13609301 TTCAACTTCATGACGAAGG
1 TTCAACTTCACGACGAAGG
13609320 GACCGCTGGT
Statistics
Matches: 81, Mismatches: 23, Indels: 18
0.66 0.19 0.15
Matches are distributed among these distances:
43 35 0.43
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:13609234 original size:106 final size:106
Alignment explanation
Indices: 13609049--13610018 Score: 1447
Period size: 106 Copynumber: 9.3 Consensus size: 106
13609039 ATATTGCTCG
13609049 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
13609114 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
13609155 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
13609220 CGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
13609253 ----CCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
13609314 CGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
13609355 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
13609420 CGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
13609461 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTAACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
13609526 CGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
13609567 AGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
13609632 CGAAGGGACCACTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
** *
13609673 AGAGCCAATTTCAACTTCACAGTGAAGGATATTGTACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
13609738 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
13609779 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
13609844 CGAATGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
** * * * * *
13609885 AGAGCCAATTTTGACTTCTCAACGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAATTTCACG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACG
* * * *
13609949 ACGAAGGGGCGGCTGATTGTCAA-CAA-AATTT--C-A-TTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
13609985 AGAGTCAATTTCAACTTCACAGCGAAGGATATTG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTG
13610019 ACATCGAAAC
Statistics
Matches: 803, Mismatches: 48, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
94 85 0.11
98 3 0.00
100 31 0.04
101 2 0.00
102 4 0.00
104 4 0.00
105 4 0.00
106 670 0.83
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
Found at i:13611337 original size:19 final size:20
Alignment explanation
Indices: 13611313--13611351 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13611303 GAACGCTTCA
13611313 TTTA-TTTTTTTTTCTATTT
1 TTTATTTTTTTTTTCTATTT
13611332 TTTATTTTTTTTTTCTATTT
1 TTTATTTTTTTTTTCTATTT
13611352 GATTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTATTTTTTTTTTCTATTT
Found at i:13611360 original size:4 final size:4
Alignment explanation
Indices: 13611312--13611384 Score: 62
Period size: 4 Copynumber: 18.2 Consensus size: 4
13611302 GGAACGCTTC
* * *
13611312 ATTT ATTT -TTT TTTCT ATTT -TTT ATTT TTTT TTTCT ATTT GATTT ATTT
1 ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT ATT-T ATTT -ATTT ATTT
*
13611361 A-GT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
13611385 GTCTAATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
3 8 0.14
4 40 0.69
5 10 0.17
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:13611373 original size:15 final size:16
Alignment explanation
Indices: 13611347--13611376 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13611337 TTTTTTTTTC
13611347 TATTTGATTTATTTAG
1 TATTTGATTTATTTAG
13611363 TATTT-ATTTATTTA
1 TATTTGATTTATTTA
13611377 TTTATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (16 bp):
TATTTGATTTATTTAG
Found at i:13612685 original size:16 final size:17
Alignment explanation
Indices: 13612659--13612691 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13612649 ATATTTACAT
13612659 TTATAAAAATATTTTAA
1 TTATAAAAATATTTTAA
13612676 TTAT-AAAATATTTTAA
1 TTATAAAAATATTTTAA
13612692 CAACATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATAAAAATATTTTAA
Found at i:13613762 original size:17 final size:17
Alignment explanation
Indices: 13613740--13613778 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
13613730 CATTATTAAT
*
13613740 TAAATTGTCTTTATAAC
1 TAAATTGTCTTTATAAA
13613757 TAAATTGTCTTTATAAA
1 TAAATTGTCTTTATAAA
13613774 TAAAT
1 TAAAT
13613779 ATTAATATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (17 bp):
TAAATTGTCTTTATAAA
Found at i:13615490 original size:22 final size:22
Alignment explanation
Indices: 13615465--13615510 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13615455 AAATTTAATT
*
13615465 TTTATATTTTAATA-TGATATTA
1 TTTAT-TTTTAATATTAATATTA
*
13615487 TTTATTTTTTATATTAATATTA
1 TTTATTTTTAATATTAATATTA
13615509 TT
1 TT
13615511 ATTAGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTTTTAATATTAATATTA
Found at i:13617834 original size:39 final size:39
Alignment explanation
Indices: 13617780--13617857 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
13617770 TTCGATCAAC
13617780 AGAGAATATCATTAGTTGTTATGGTACCTACATGTTTGT
1 AGAGAATATCATTAGTTGTTATGGTACCTACATGTTTGT
13617819 AGAGAATATCATTAGTTGTTATGGTACCTACATGTTTGT
1 AGAGAATATCATTAGTTGTTATGGTACCTACATGTTTGT
13617858 TTACAACGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (39 bp):
AGAGAATATCATTAGTTGTTATGGTACCTACATGTTTGT
Found at i:13619880 original size:103 final size:103
Alignment explanation
Indices: 13619701--13620016 Score: 600
Period size: 103 Copynumber: 3.1 Consensus size: 103
13619691 GAGGGTCTAC
13619701 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
13619766 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
*
13619804 GTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
*
13619869 ATCCCTAGTATATATATATGATTCTTAAGGAATGATAT
66 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
13619907 GTGGTCCTTCGGGAC--ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
13619970 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
13620008 GTGGTCCTT
1 GTGGTCCTT
13620017 ATGGACAGTA
Statistics
Matches: 209, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
101 94 0.45
103 115 0.55
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
ATCCCTAGTATATGTATATGATTCTTAAGGAATGATAT
Found at i:13620060 original size:23 final size:23
Alignment explanation
Indices: 13620026--13620100 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
13620016 TATGGACAGT
13620026 ATTATAT--GGCACTACGGTGCA
1 ATTATATGGGGCACTACGGTGCA
* *
13620047 ATTCTATGGGGCACTCCGGTGCA
1 ATTATATGGGGCACTACGGTGCA
* *
13620070 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGGGGCACTACGGTGCA
13620093 ATTATATG
1 ATTATATG
13620101 AGCTGTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
ATTATATGGGGCACTACGGTGCA
Found at i:13622896 original size:18 final size:18
Alignment explanation
Indices: 13622846--13622897 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
13622836 AGGAACATGC
*
13622846 AGAAGGCTATATATACAG
1 AGAAGGCTATATATGCAG
13622864 AGAAGGCTATATATGCAG
1 AGAAGGCTATATATGCAG
* *
13622882 TGAAGACTATATATGC
1 AGAAGGCTATATATGC
13622898 TGATATCTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (18 bp):
AGAAGGCTATATATGCAG
Found at i:13623429 original size:32 final size:32
Alignment explanation
Indices: 13623387--13623452 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
13623377 GTTTCCTGGA
*
13623387 ATATAGGTGGGAAAATAAGATAGATTACACAT
1 ATATAAGTGGGAAAATAAGATAGATTACACAT
* *
13623419 ATATAAGTGGGAAATTAAGATAGATTACATAT
1 ATATAAGTGGGAAAATAAGATAGATTACACAT
13623451 AT
1 AT
13623453 GCTCTCTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.29
Consensus pattern (32 bp):
ATATAAGTGGGAAAATAAGATAGATTACACAT
Found at i:13624922 original size:42 final size:42
Alignment explanation
Indices: 13624858--13624971 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
13624848 TGGTATTCCC
* * * * *
13624858 CCATGAGATGATGACAGTAAACCATTTTGCATAGACATACCT
1 CCATGAGAAGATGAAAGAAAACCATTTTGCATAGACATAACG
* * * * * *
13624900 CCATGATAAGATGAAAGCAAACCACTTTGGATCGATATAACG
1 CCATGAGAAGATGAAAGAAAACCATTTTGCATAGACATAACG
*
13624942 CCATGAGAAAATGAAAGAAAACCATTTTGC
1 CCATGAGAAGATGAAAGAAAACCATTTTGC
13624972 TTCATCTCTT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (42 bp):
CCATGAGAAGATGAAAGAAAACCATTTTGCATAGACATAACG
Found at i:13630260 original size:42 final size:42
Alignment explanation
Indices: 13630213--13630295 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
13630203 ACATTTCAAC
* *
13630213 AGTAAAGTCTCAAGTTAAGCCACTTTATTGCATTTCTTCGAT
1 AGTAAAGTCTAAAGTTAAGCCACTTTATTACATTTCTTCGAT
*
13630255 AGTAAAGTCTAAAGTTAAGTCACTTTATTACATTTCTTCGA
1 AGTAAAGTCTAAAGTTAAGCCACTTTATTACATTTCTTCGA
13630296 CTAAAGGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (42 bp):
AGTAAAGTCTAAAGTTAAGCCACTTTATTACATTTCTTCGAT
Found at i:13631443 original size:30 final size:29
Alignment explanation
Indices: 13631391--13631453 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
13631381 TAAAACAGAT
13631391 ATTAAACTTTAGATATAATTTAAAAAAAA
1 ATTAAACTTTAGATATAATTTAAAAAAAA
*
13631420 ATTAAACTTTAGATATAATTT-TAAAAAA
1 ATTAAACTTTAGATATAATTTAAAAAAAA
13631448 ATTAAA
1 ATTAAA
13631454 TATTAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTAAACTTTAGATATAATTTAAAAAAAA
Found at i:13640556 original size:14 final size:14
Alignment explanation
Indices: 13640539--13640571 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13640529 TTGTTTTTTA
*
13640539 ATTTTTTAAAGTAT
1 ATTTTTTAAAATAT
13640553 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
13640567 ATTTT
1 ATTTT
13640572 ATGGAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:13640754 original size:2 final size:2
Alignment explanation
Indices: 13640747--13640788 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13640737 ATTCTAACCC
13640747 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
13640789 TCTTCCGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13643058 original size:8 final size:8
Alignment explanation
Indices: 13643042--13643075 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13643032 ATAATATTTT
*
13643042 TATTTTAA
1 TATTATAA
13643050 TATTATAA
1 TATTATAA
13643058 T-TTATAA
1 TATTATAA
13643065 TATTATAA
1 TATTATAA
13643073 TAT
1 TAT
13643076 CATTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTATAA
Found at i:13643060 original size:20 final size:20
Alignment explanation
Indices: 13643012--13643094 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
13643002 ATATATTTTT
*
13643012 TAATAATTTTTAAATATAATA
1 TAATAATTTTT-ATTATAATA
*
13643033 TAAT-ATTTTTATTTTAATA
1 TAATAATTTTTATTATAATA
*
13643052 TTATAATTTATAATATTATAATA
1 TAATAATTT-T--TATTATAATA
* * * *
13643075 TCATTATTATTATTTTAATA
1 TAATAATTTTTATTATAATA
13643095 ATTACTTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
19 10 0.20
20 19 0.38
21 5 0.10
22 1 0.02
23 15 0.30
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTTTTATTATAATA
Found at i:13643067 original size:15 final size:15
Alignment explanation
Indices: 13643031--13643073 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
13643021 TTAAATATAA
* *
13643031 TATAATATTTTTATT
1 TATAATATTATAATT
13643046 T-TAATATTATAATT
1 TATAATATTATAATT
13643060 TATAATATTATAAT
1 TATAATATTATAAT
13643074 ATCATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATAATATTATAATT
Found at i:13643105 original size:31 final size:29
Alignment explanation
Indices: 13643050--13643186 Score: 77
Period size: 29 Copynumber: 4.7 Consensus size: 29
13643040 TTTATTTTAA
*
13643050 TATTATAATTTATAATATTATAATATCAT
1 TATTATAATTTATAATATTATAATATAAT
*
13643079 TATTATTATTT-TAATAATTACTTAATATAAT
1 TATTATAATTTATAAT-ATTA--TAATATAAT
* * * * *
13643110 TA--ATAATATACATTATT-TAAAAAAAT
1 TATTATAATTTATAATATTATAATATAAT
* * *
13643136 ATAATATAGCATATATAATTTTAATAA-ATAAT
1 -TATTATA--ATTTATAATATT-ATAATATAAT
*
13643168 TAATATAATTTATAATATT
1 TATTATAATTTATAATATT
13643187 TTATTTTAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
26 7 0.08
27 2 0.02
28 4 0.05
29 35 0.42
30 2 0.02
31 26 0.31
32 4 0.05
33 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
TATTATAATTTATAATATTATAATATAAT
Found at i:13644981 original size:31 final size:31
Alignment explanation
Indices: 13644923--13644981 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13644913 TGTTATAGTC
**
13644923 TAGACACCTAAAAATATAACGTTGAAAAAGT
1 TAGACACCTAAAAATATAACGAAGAAAAAGT
* *
13644954 TAGACACCTAAAAGTGTAACGAAGAAAA
1 TAGACACCTAAAAATATAACGAAGAAAA
13644982 CTTTAGGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.19
Consensus pattern (31 bp):
TAGACACCTAAAAATATAACGAAGAAAAAGT
Found at i:13645293 original size:2 final size:2
Alignment explanation
Indices: 13645286--13645329 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13645276 GAAAATAGTT
13645286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13645328 TA
1 TA
13645330 GCTAGTTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13645346 original size:16 final size:16
Alignment explanation
Indices: 13645336--13645392 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
13645326 TATAGCTAGT
*
13645336 TAGATAAATAGATAAA
1 TAGATAAATAGATAGA
* *
13645352 TAGATATATAAATAGA
1 TAGATAAATAGATAGA
*
13645368 TAGATATATAGATAGA
1 TAGATAAATAGATAGA
13645384 TAGATAAAT
1 TAGATAAAT
13645393 TTATTGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (16 bp):
TAGATAAATAGATAGA
Found at i:13645364 original size:12 final size:12
Alignment explanation
Indices: 13645286--13645381 Score: 86
Period size: 12 Copynumber: 8.0 Consensus size: 12
13645276 GAAAATAGTT
*
13645286 TATATATATATA
1 TATATATAGATA
*
13645298 TATATATATATA
1 TATATATAGATA
*
13645310 TATATATATATA
1 TATATATAGATA
*
13645322 TATATATAGCTA
1 TATATATAGATA
* *
13645334 GT-TAGATAAATA
1 -TATATATAGATA
* *
13645346 GATAAATAGATA
1 TATATATAGATA
*
13645358 TATAAATAGATA
1 TATATATAGATA
*
13645370 GATATATAGATA
1 TATATATAGATA
13645382 GATAGATAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
12 70 0.99
13 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (12 bp):
TATATATAGATA
Found at i:13645372 original size:4 final size:4
Alignment explanation
Indices: 13645336--13645389 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
13645326 TATAGCTAGT
* * * * *
13645336 TAGA TAAA TAGA TAAA TAGA TATA TAAA TAGA TAGA TATA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
13645384 TAGA TA
1 TAGA TA
13645390 AATTTATTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (4 bp):
TAGA
Found at i:13649879 original size:29 final size:28
Alignment explanation
Indices: 13649818--13649876 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
13649808 TTTTGGTGGG
*
13649818 TAATTTTTTTTAAATTTTTTTAATATAA
1 TAATTTTTTTTAAATTTTTTTAATAAAA
*
13649846 TAATTTATTTTTAAGTTTTTTTAA-AAAA
1 TAATTT-TTTTTAAATTTTTTTAATAAAA
13649874 TAA
1 TAA
13649877 ATTCTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TAATTTTTTTTAAATTTTTTTAATAAAA
Found at i:13653393 original size:15 final size:15
Alignment explanation
Indices: 13653373--13653402 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13653363 ATGAGAAAAC
13653373 TTTCTAGATTTAGGG
1 TTTCTAGATTTAGGG
13653388 TTTCTAGATTTAGGG
1 TTTCTAGATTTAGGG
13653403 GTAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTCTAGATTTAGGG
Found at i:13657460 original size:20 final size:20
Alignment explanation
Indices: 13657435--13657483 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
13657425 TGGGTTTGGG
*
13657435 TATCGATACTGGAAGAACAA
1 TATCGATACTGGAAAAACAA
* *
13657455 TATCGATACTGGAAAAATAG
1 TATCGATACTGGAAAAACAA
13657475 TATCGATAC
1 TATCGATAC
13657484 CATAAGATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (20 bp):
TATCGATACTGGAAAAACAA
Found at i:13658117 original size:14 final size:14
Alignment explanation
Indices: 13658098--13658250 Score: 83
Period size: 14 Copynumber: 10.4 Consensus size: 14
13658088 TTATGTGAAA
13658098 ATGTGATATAAGCT
1 ATGTGATATAAGCT
13658112 ATGTGATATTGAA-CT
1 ATGTGATA-T-AAGCT
* * **
13658127 ACGTGATTATATGAAA
1 ATGTGA-TATAAG-CT
13658143 ATGTGATATAAGCT
1 ATGTGATATAAGCT
* * *
13658157 ATGTGACATGATCT
1 ATGTGATATAAGCT
***
13658171 ATGTGATTATTTTTCT
1 ATGTGA-TA-TAAGCT
13658187 ATGTGATATAAGCT
1 ATGTGATATAAGCT
* * *
13658201 ATGTGACATGATCT
1 ATGTGATATAAGCT
***
13658215 ATGTGATTATTTTTCT
1 ATGTGA-TA-TAAGCT
13658231 ATGTGATATAAGCT
1 ATGTGATATAAGCT
13658245 ATGTGA
1 ATGTGA
13658251 AATGGTATAA
Statistics
Matches: 104, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
14 55 0.53
15 20 0.19
16 29 0.28
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (14 bp):
ATGTGATATAAGCT
Found at i:13658192 original size:44 final size:44
Alignment explanation
Indices: 13658065--13658250 Score: 246
Period size: 44 Copynumber: 4.2 Consensus size: 44
13658055 TATATTTCAT
*
13658065 GCTATGTGACATGATCTATGTGATTATGTGAAAATGTGATATAA
1 GCTATGTGACATGATCTATGTGATTATTTGAAAATGTGATATAA
* * * *
13658109 GCTATGTGATATTGAACTACGTGATTATATGAAAATGTGATATAA
1 GCTATGTGACA-TGATCTATGTGATTATTTGAAAATGTGATATAA
****
13658154 GCTATGTGACATGATCTATGTGATTATTTTTCTATGTGATATAA
1 GCTATGTGACATGATCTATGTGATTATTTGAAAATGTGATATAA
****
13658198 GCTATGTGACATGATCTATGTGATTATTTTTCTATGTGATATAA
1 GCTATGTGACATGATCTATGTGATTATTTGAAAATGTGATATAA
13658242 GCTATGTGA
1 GCTATGTGA
13658251 AATGGTATAA
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
44 89 0.69
45 40 0.31
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (44 bp):
GCTATGTGACATGATCTATGTGATTATTTGAAAATGTGATATAA
Found at i:13658357 original size:23 final size:23
Alignment explanation
Indices: 13658327--13658436 Score: 132
Period size: 23 Copynumber: 4.8 Consensus size: 23
13658317 GAGTCGAGGG
*
13658327 TTCTACGTGGTCATTCGGGACAA
1 TTCTACGTGGTCATTCGGGACAT
*
13658350 TTCTACGTGGTCATTCGGGATAT
1 TTCTACGTGGTCATTCGGGACAT
* *
13658373 TTCTACGTGGTCCTTCGGGATAT
1 TTCTACGTGGTCATTCGGGACAT
* * * *
13658396 TTCTATGTGGTCCTTCAGAACAT
1 TTCTACGTGGTCATTCGGGACAT
13658419 TTCTACGTGG-CACTTCGG
1 TTCTACGTGGTCA-TTCGG
13658437 TCCATATTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
22 1 0.01
23 75 0.99
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTCATTCGGGACAT
Found at i:13661386 original size:22 final size:22
Alignment explanation
Indices: 13661361--13661432 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
13661351 TTCTACGCAG
*
13661361 TCCTTCGGGATAATCTATGTGA
1 TCCTTCAGGATAATCTATGTGA
* *
13661383 TCCTTCAGGATAATCTATATAA
1 TCCTTCAGGATAATCTATGTGA
* *
13661405 TCCTTCAGGATATTTCTATGTGG
1 TCCTTCAGGATA-ATCTATGTGA
13661428 TCCTT
1 TCCTT
13661433 ATGGACAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 31 0.74
23 11 0.26
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
TCCTTCAGGATAATCTATGTGA
Found at i:13661481 original size:24 final size:24
Alignment explanation
Indices: 13661437--13661491 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
13661427 GTCCTTATGG
* *
13661437 ACAAATTCTACGCAGTCCTTCGGT
1 ACAAATTCTACGCAGGCCTTCGAT
*
13661461 ACAAATTCTACG-TGGCACTTCGAT
1 ACAAATTCTACGCAGGC-CTTCGAT
13661485 ACAAATT
1 ACAAATT
13661492 ATATGAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (24 bp):
ACAAATTCTACGCAGGCCTTCGAT
Found at i:13669943 original size:15 final size:15
Alignment explanation
Indices: 13669923--13669958 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13669913 GAATATATTA
13669923 ATATTTTAAAATAAT
1 ATATTTTAAAATAAT
*
13669938 ATATTTTATAATAAT
1 ATATTTTAAAATAAT
13669953 ATATTT
1 ATATTT
13669959 ATAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTAAAATAAT
Found at i:13669961 original size:21 final size:20
Alignment explanation
Indices: 13669914--13670015 Score: 56
Period size: 21 Copynumber: 5.2 Consensus size: 20
13669904 ATCTGATTCG
*
13669914 AATATATTAATA-TTTTAA-
1 AATATATTTATATTTTTAAT
13669932 AATA-A--TATATTTTATAAT
1 AATATATTTATATTTT-TAAT
13669950 AATATATTTATAATTATTT-AT
1 AATATATTTAT-ATT-TTTAAT
* * **
13669971 TATAT-TTTAAACTATTAAAAT
1 AATATATTTATA-T-TTTTAAT
13669992 AATATATTTTATATTTTTAAT
1 AATATA-TTTATATTTTTAAT
13670013 AAT
1 AAT
13670016 TAAAGATCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 23
0.66 0.10 0.24
Matches are distributed among these distances:
15 3 0.05
16 3 0.05
17 4 0.06
18 8 0.13
19 2 0.03
20 6 0.10
21 24 0.39
22 5 0.08
23 7 0.11
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATATTTATATTTTTAAT
Found at i:13669971 original size:14 final size:14
Alignment explanation
Indices: 13669916--13669963 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
13669906 CTGATTCGAA
*
13669916 TATATTAATAT-TT
1 TATAATAATATATT
*
13669929 TAAAATAATATATTT
1 TATAATAATATA-TT
13669944 TATAATAATATATT
1 TATAATAATATATT
13669958 TATAAT
1 TATAAT
13669964 TATTTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 9 0.30
14 8 0.27
15 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATAATAATATATT
Found at i:13671395 original size:21 final size:20
Alignment explanation
Indices: 13671367--13671422 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
13671357 TTTGAGTGAT
13671367 TTTG-TTTTTTTAGATCAGAA
1 TTTGATTTTTTTAGAT-AGAA
* *
13671387 TTTGA-TTTTTTAAATATAA
1 TTTGATTTTTTTAGATAGAA
*
13671406 TATTTATTTTTTTAGAT
1 T-TTGATTTTTTTAGAT
13671423 TTTTTATACG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.14
20 16 0.55
21 9 0.31
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTGATTTTTTTAGATAGAA
Found at i:13676021 original size:15 final size:15
Alignment explanation
Indices: 13676001--13676030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13675991 TAGGGAAGAA
*
13676001 ATTTAGGGGTTTTTG
1 ATTTAGGGATTTTTG
13676016 ATTTAGGGATTTTTG
1 ATTTAGGGATTTTTG
13676031 GGGTTAACTG
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:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
ATTTAGGGATTTTTG
Found at i:13680679 original size:18 final size:18
Alignment explanation
Indices: 13680658--13680701 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
13680648 GCCAAGCCTC
13680658 TCATGATTATGGCTTTAG
1 TCATGATTATGGCTTTAG
*
13680676 TCATGATTATGGTTTTAG
1 TCATGATTATGGCTTTAG
*
13680694 TGATGATT
1 TCATGATT
13680702 TCTCCCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.48
Consensus pattern (18 bp):
TCATGATTATGGCTTTAG
Found at i:13682041 original size:32 final size:32
Alignment explanation
Indices: 13681990--13682077 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
13681980 GGACCTATCC
**
13681990 ATATGTCCCGAAGGGCATAGGTAAACATGTCT
1 ATATGTCCCGAAGAACATAGGTAAACATGTCT
* * * *
13682022 ATATGTTCTGAAGAACATAGGTAATCCTGTCT
1 ATATGTCCCGAAGAACATAGGTAAACATGTCT
*
13682054 ATATGTCCCGAAGGACATAGGTAA
1 ATATGTCCCGAAGAACATAGGTAA
13682078 CCCTTGACTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (32 bp):
ATATGTCCCGAAGAACATAGGTAAACATGTCT
Found at i:13685280 original size:24 final size:23
Alignment explanation
Indices: 13685225--13685285 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
13685215 TAATTGTCCT
* *
13685225 GAAGGACCACATAAGTTTGTCCC
1 GAAGGACCACATAGGTTTATCCC
* *
13685248 AAAGAACCACATAGGTTTTATCCC
1 GAAGGACCACATAGG-TTTATCCC
13685272 GAAGGACCACATAG
1 GAAGGACCACATAG
13685286 AACCCTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (23 bp):
GAAGGACCACATAGGTTTATCCC
Found at i:13686720 original size:15 final size:15
Alignment explanation
Indices: 13686702--13686733 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13686692 ACTCTAATTC
13686702 AACCACTAAATTTAA
1 AACCACTAAATTTAA
13686717 AACCACTAAATTTAA
1 AACCACTAAATTTAA
13686732 AA
1 AA
13686734 TTCTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCACTAAATTTAA
Found at i:13688845 original size:15 final size:16
Alignment explanation
Indices: 13688825--13688856 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13688815 ATGTTTCATT
13688825 TACTAAT-TATTTTTA
1 TACTAATCTATTTTTA
13688840 TACTAATCTATTTTTA
1 TACTAATCTATTTTTA
13688856 T
1 T
13688857 GGAATCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TACTAATCTATTTTTA
Found at i:13698754 original size:217 final size:216
Alignment explanation
Indices: 13698333--13698765 Score: 816
Period size: 217 Copynumber: 2.0 Consensus size: 216
13698323 GTTCTTGGTC
13698333 TGATTGAGGCCTTCTTCGGTTATTTGGAAGTTATTCCGGGTGTAGTGCTATGGTCAATTTGGAGA
1 TGATTGAGGCCTTCTTCGGTTATTTGGAAGTTATTCCGGGTGTAGTGCTATGGTCAATTTGGAGA
13698398 ATCGGAAATGAAATATCTTTGATAATGGTAAACTAGACAAGTTTTCACTGTTTTTCACTGTTCGC
66 ATCGGAAATGAAATATCTTTGATAATGGTAAACTAGACAAGTTTTCACTGTTTTTCACTGTTCGC
13698463 TTAAGGCTAGCAAGATGGTTCTAGCAAAATATCCTCTTTCCTATATTAAGGTGGATTCTTTAATT
131 TTAAGGCTAGCAAGATGGTTCTAGCAAAATATCCTCTTTCCTATATTAAGGTGGATTCTTTAATT
13698528 GGTGATCCTTCCTTGGCAGAT
196 GGTGATCCTTCCTTGGCAGAT
*
13698549 TGATTGAGGCCTTCTTCGGTTA-TTGGAAGTTTATTCCGGTTGGT-GTGCTATGGTCAATTTGGA
1 TGATTGAGGCCTTCTTCGGTTATTTGGAAG-TTATTCCGGGT-GTAGTGCTATGGTCAATTTGGA
13698612 GAATCGGAAATGAAATATCTTTGATAATGGTAAACTAGACAAGTTTTTCACTGTTTTTCACTGTT
64 GAATCGGAAATGAAATATCTTTGATAATGGTAAACTAGACAAG-TTTTCACTGTTTTTCACTGTT
13698677 CGCTTAAGGCTAGCAAGATGGTTCTAGCAAAATATCCTCTTTCCTATATTAAGGTGGATTCTTTA
128 CGCTTAAGGCTAGCAAGATGGTTCTAGCAAAATATCCTCTTTCCTATATTAAGGTGGATTCTTTA
13698742 ATTGGTGATCCTTCCTTGGCAGAT
193 ATTGGTGATCCTTCCTTGGCAGAT
13698766 AGTAAGGAAC
Statistics
Matches: 213, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
215 7 0.03
216 94 0.44
217 112 0.53
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (216 bp):
TGATTGAGGCCTTCTTCGGTTATTTGGAAGTTATTCCGGGTGTAGTGCTATGGTCAATTTGGAGA
ATCGGAAATGAAATATCTTTGATAATGGTAAACTAGACAAGTTTTCACTGTTTTTCACTGTTCGC
TTAAGGCTAGCAAGATGGTTCTAGCAAAATATCCTCTTTCCTATATTAAGGTGGATTCTTTAATT
GGTGATCCTTCCTTGGCAGAT
Found at i:13706791 original size:55 final size:55
Alignment explanation
Indices: 13706697--13707156 Score: 628
Period size: 55 Copynumber: 8.4 Consensus size: 55
13706687 TTTCTTTAGG
* * *
13706697 GAGTAT-AGAACTCGAAC-ATCTTTATCAATTGTGTCTGCTCCCTA-TCGCTTCAGA
1 GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTC-CTTCAGA
*
13706751 AAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * * *
13706806 GAGTATAAGACTCGAACAACCTTCAATAATTGTG-CTTGCTCTCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTC-TGCTCCCTATTCCTTCAGA
* * * *
13706861 GAGTATAAGACTCAAAC-ATCTTCATCAAACGGGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * * *
13706915 GAGTATAAGACTCGAACAATCTTCAACAATCATGTTTGTTCCCTATTCCTTCATA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * *
13706970 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTTCTCTATTTCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
** *
13707025 GAGTATAAGACTCGAAC-ATCTTCTTCAATCGTGTCTACTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
13707079 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
13707134 GAGTATAAGACTCTAAC-ATCTTC
1 GAGTATAAGACTCGAACAATCTTC
13707157 TTCAAATGGG
Statistics
Matches: 358, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
54 112 0.31
55 244 0.68
56 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (55 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
Found at i:13706960 original size:164 final size:164
Alignment explanation
Indices: 13706679--13707151 Score: 700
Period size: 164 Copynumber: 2.9 Consensus size: 164
13706669 TTACGGGTTC
* * * * *
13706679 GCTCTCTCTTTCTTTAGGGAGTAT-AGAACTCGAACATCTTTATCAATTGTGTCTGCTCCCTA-T
1 GCTCTCTATTTCTTCAGAGAGTATAAG-ACTCGAACATCTTCATCAATCGTGTCTGCTCCCTATT
*
13706742 CGCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAG
65 C-CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAG
* *
13706807 AGTATAAGACTCGAACAACCTTCAATAATTGTG-CTT
129 AGTATAAGACTCGAACAACCTTCAACAATCGTGTC-T
* * * *
13706843 GCTCTCTATTCCTTCAGAGAGTATAAGACTCAAACATCTTCATCAAACGGGTCTGCTCCCTATTC
1 GCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACATCTTCATCAATCGTGTCTGCTCCCTATTC
* * * *
13706908 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTTTGTTCCCTATTCCTTCATAGAG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAG
*
13706973 TATAAGACTCGAACAATCTTCAACAATCGTGTCT
131 TATAAGACTCGAACAACCTTCAACAATCGTGTCT
* * *
13707007 GTTCTCTATTTCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAATCGTGTCTACTCCCTATTC
1 GCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACATCTTCATCAATCGTGTCTGCTCCCTATTC
*
13707072 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGAGAG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAG
*
13707137 TATAAGACTCTAACA
131 TATAAGACTCGAACA
13707152 TCTTCTTCAA
Statistics
Matches: 276, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
164 271 0.98
165 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (164 bp):
GCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACATCTTCATCAATCGTGTCTGCTCCCTATTC
CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAG
TATAAGACTCGAACAACCTTCAACAATCGTGTCT
Found at i:13707157 original size:109 final size:109
Alignment explanation
Indices: 13706679--13707161 Score: 627
Period size: 109 Copynumber: 4.4 Consensus size: 109
13706669 TTACGGGTTC
* * * * *
13706679 GCTCTCTCTTTCTTTAGGGAGTAT-AGAACTCGAACATCTT-TATCAATTGTGTCTGCTCCCTA-
1 GCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACATCTTCT-TCAATCGTGTCTGCTCCCTAT
*
13706741 TCGCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
64 TC-CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * ** *
13706788 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAC--CTTCAATAATTGTGCTTGCTCTCTA
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAAT-CGTGT-C-TGCTCCCTA
* * * *
13706851 TTCCTTCAGAGAGTATAAGACTCAAAC-ATCTTCATCAAACGGGTCT
63 TTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* ** * * *
13706897 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTTTGTTCCCTATT
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAAC-ATCTTCTTCAATCGTGTCTGCTCCCTATT
*
13706962 CCTTCATAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
65 CCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
13707007 GTTCTCTATTTCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAATCGTGTCTACTCCCTATTC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAATCGTGTCTGCTCCCTATTC
13707072 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
*
13707116 GCTCTCTATTCCTTCAGAGAGTATAAGACTCTAACATCTTCTTCAA
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAA
13707162 ATGGGTTCGC
Statistics
Matches: 324, Mismatches: 40, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
107 5 0.02
108 4 0.01
109 223 0.69
110 82 0.25
111 5 0.02
112 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (109 bp):
GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACATCTTCTTCAATCGTGTCTGCTCCCTATTC
CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
Found at i:13707625 original size:37 final size:37
Alignment explanation
Indices: 13707584--13707726 Score: 205
Period size: 37 Copynumber: 3.8 Consensus size: 37
13707574 TTGCTCCAAC
* * * *
13707584 ACTCTTCCGAGAAGGCTTAAAATGGTTTTGCTTCATT
1 ACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATT
* **
13707621 ACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACA
1 ACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATT
13707658 ACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATT
1 ACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATT
*
13707695 ACTCTTCGGTGAAGGCTTAAGATTGACTTTGC
1 ACTCTTCGGTGAAGGCTTAAGATGGA-TTTGC
13707727 CCTAATCTCA
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 90 0.95
38 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (37 bp):
ACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATT
Found at i:13707694 original size:74 final size:74
Alignment explanation
Indices: 13707568--13707726 Score: 223
Period size: 74 Copynumber: 2.1 Consensus size: 74
13707558 CTGATGATCT
*
13707568 GATGG-TTTGCTCCAACACTCTTCCGAGAAGGCTTAAAATGGTTTTGCTTCATTACTCTTCAGTG
1 GATGGATTTGCTCCAACACTCTTCCGAGAAGGCTTAAAATGGATTTGCTTCATTACTCTTCAGTG
13707632 AAGGCTTAA
66 AAGGCTTAA
* * * * *
13707641 GATGGATTTGCTTC-ACAACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCATTACTCTTCGGT
1 GATGGATTTGCTCCAAC-ACTCTTCCGAGAAGGCTTAAAATGGATTTGCTTCATTACTCTTCAGT
13707705 GAAGGCTTAA
65 GAAGGCTTAA
*
13707715 GATTGACTTTGC
1 GATGGA-TTTGC
13707727 CCTAATCTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
73 7 0.09
74 64 0.84
75 5 0.07
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (74 bp):
GATGGATTTGCTCCAACACTCTTCCGAGAAGGCTTAAAATGGATTTGCTTCATTACTCTTCAGTG
AAGGCTTAA
Found at i:13709225 original size:125 final size:125
Alignment explanation
Indices: 13709017--13709264 Score: 358
Period size: 125 Copynumber: 2.0 Consensus size: 125
13709007 CGTAATATTA
* * *
13709017 TCTTATACTGGTACGGCCCTTCAAAATGCTCCAACATCTCAGATTGTAAGGCTCACTCTCAATGC
1 TCTTATACTGGTACGGCCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCACTCTCAATGC
*
13709082 CTTCTTGGTCTAAATCTTGTCATCTCAACATGATATTGGTTCAGTCGTGCCCCAACATTG
66 CTTCTTGGTCTAAATCTTGTCATCTCAACATGATATGGGTTCAGTCGTGCCCCAACATTG
* *
13709142 TCTTATACTGGTACGAG-CCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTC-AT
1 TCTTATACTGGTACG-GCCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCACTC-TCAAT
* * * *
13709205 GCC-TCATTGGTTTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCGAACAT
64 GCCTTC-TTGGTCTAAATCTTGTCATCTCAACATGATATGGGTTCAGTCGTGCCCCAACAT
13709265 ATCACAACTT
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
124 2 0.02
125 105 0.95
126 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (125 bp):
TCTTATACTGGTACGGCCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCACTCTCAATGC
CTTCTTGGTCTAAATCTTGTCATCTCAACATGATATGGGTTCAGTCGTGCCCCAACATTG
Found at i:13712525 original size:6 final size:6
Alignment explanation
Indices: 13712510--13712547 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
13712500 CAAAAAATAC
13712510 ATGC-A ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATG
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATG
13712548 AAAAAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATGCAA
Found at i:13712816 original size:21 final size:21
Alignment explanation
Indices: 13712792--13712886 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
13712782 ATGCAAAGTA
*
13712792 GTCTTCAT-GTCTTTGTGAATG
1 GTCTTC-TCGTCTTTATGAATG
*
13712813 GTCTTCTCATCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
13712834 GTCTTCTCGTCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
* * *
13712855 GTCTTCTCGTCCTTGTGCATG
1 GTCTTCTCGTCTTTATGAATG
13712876 GTCTTCTCGTC
1 GTCTTCTCGTC
13712887 CTTGGTATGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 1 0.01
21 66 0.99
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (21 bp):
GTCTTCTCGTCTTTATGAATG
Found at i:13719233 original size:14 final size:15
Alignment explanation
Indices: 13719200--13719233 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13719190 ATTTCTATGT
*
13719200 AGGGAATTATTTTGC
1 AGGGAATTATTTTAC
13719215 AGGGAATTA-TTTAC
1 AGGGAATTATTTTAC
13719229 AGGGA
1 AGGGA
13719234 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (15 bp):
AGGGAATTATTTTAC
Found at i:13722990 original size:30 final size:30
Alignment explanation
Indices: 13722951--13723042 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
13722941 GAAATTGAAT
*
13722951 TTACCAATATTTCATATTAGTCTTTAATTA
1 TTACGAATATTTCATATTAGTCTTTAATTA
13722981 TTACGAATATTTCATATTAGTCTTTAATTA
1 TTACGAATATTTCATATTAGTCTTTAATTA
13723011 TTACGAATATTTCATATTAGTCTTTAATTA
1 TTACGAATATTTCATATTAGTCTTTAATTA
13723041 TT
1 TT
13723043 GACGCGCAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (30 bp):
TTACGAATATTTCATATTAGTCTTTAATTA
Found at i:13729090 original size:2 final size:2
Alignment explanation
Indices: 13729083--13729114 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13729073 TGTACGTCTC
13729083 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
13729115 CATTTGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13746919 original size:18 final size:18
Alignment explanation
Indices: 13746896--13746931 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13746886 AGGGATTATC
13746896 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
13746914 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
13746932 GTTTTCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:13747928 original size:21 final size:21
Alignment explanation
Indices: 13747864--13747959 Score: 104
Period size: 21 Copynumber: 4.5 Consensus size: 21
13747854 AATGGAGTGT
* *
13747864 ATGGATGCACTATA-TGGTGC
1 ATGGATGCACTACAGGGGTGC
* **
13747884 ATCGATGCACTAGTGGCAGGTGC
1 ATGGATGCACTACAGG--GGTGC
13747907 ATGGATGCACTACAGGGGTGC
1 ATGGATGCACTACAGGGGTGC
* *
13747928 ATGGATGCAATGCAGGGGTGC
1 ATGGATGCACTACAGGGGTGC
13747949 ATGGATGCACT
1 ATGGATGCACT
13747960 TTGACACCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
20 11 0.17
21 34 0.54
23 18 0.29
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (21 bp):
ATGGATGCACTACAGGGGTGC
Found at i:13748204 original size:21 final size:20
Alignment explanation
Indices: 13748180--13748258 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 20
13748170 ATGTTTAATG
13748180 AAAAAGATATCAATTGTTAA
1 AAAAAGATATCAATTGTTAA
*
13748200 CAAAAGGATATCAATTGTTAA
1 -AAAAAGATATCAATTGTTAA
* *
13748221 AAAAAAATAGCAATTGTT-A
1 AAAAAGATATCAATTGTTAA
*
13748240 AAAAAGATATTAATTGTTA
1 AAAAAGATATCAATTGTTA
13748259 CCAATTGTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 16 0.32
20 15 0.30
21 19 0.38
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
AAAAAGATATCAATTGTTAA
Found at i:13748224 original size:20 final size:19
Alignment explanation
Indices: 13748180--13748258 Score: 104
Period size: 19 Copynumber: 4.0 Consensus size: 19
13748170 ATGTTTAATG
13748180 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
13748199 ACAAAAGGATATCAATTGTTAA
1 A-AAAA-GATATCAATTGTT-A
* *
13748221 AAAAAAATAGCAATTGTTA
1 AAAAAGATATCAATTGTTA
*
13748240 AAAAAGATATTAATTGTTA
1 AAAAAGATATCAATTGTTA
13748259 CCAATTGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
19 18 0.35
20 15 0.29
21 17 0.33
22 2 0.04
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:13748321 original size:18 final size:19
Alignment explanation
Indices: 13748298--13748343 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
13748288 AAGTTCCCCC
*
13748298 TTTTTCATTAAGAAATT-A
1 TTTTTCAATAAGAAATTAA
13748316 TTTTTCAATAAGAAATTGAA
1 TTTTTCAATAAGAAATT-AA
13748336 TTTTTCAA
1 TTTTTCAA
13748344 ACCAAACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.64
20 9 0.36
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTTTCAATAAGAAATTAA
Found at i:13749426 original size:19 final size:20
Alignment explanation
Indices: 13749385--13749432 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
13749375 TCTAAATCCT
*
13749385 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
*
13749405 TTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
13749424 TTTTCAAAA
1 TTTTCAAAA
13749433 GAAAATCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:13750813 original size:21 final size:21
Alignment explanation
Indices: 13750741--13750819 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
13750731 TCGAAATGGA
*
13750741 GTGCATGGATGCACTACA-TG
1 GTGCATGGATGCACTACACAG
* * *
13750761 GTGCATCGATGCAATAGTGACAG
1 GTGCATGGATGCACTA--CACAG
* *
13750784 GTACATGGATGCACTACACGG
1 GTGCATGGATGCACTACACAG
13750805 GTGCATGGATGCACT
1 GTGCATGGATGCACT
13750820 TTGACACCCT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 14 0.30
21 17 0.37
22 1 0.02
23 14 0.30
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTACACAG
Found at i:13756493 original size:21 final size:21
Alignment explanation
Indices: 13756467--13756584 Score: 125
Period size: 21 Copynumber: 5.7 Consensus size: 21
13756457 GCAAATAAGT
13756467 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
* *
13756488 AAATCGTAATGCG-ATACT-GA
1 AAATCGCAATGCGAAT-TTGGA
** * * **
13756508 CTATCGCAACGCG-ATAATACA
1 AAATCGCAATGCGAAT-TTGGA
13756529 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
13756550 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
13756571 AAATCGCAATGCGA
1 AAATCGCAATGCGA
13756585 TACTGACTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 17 0.21
21 61 0.76
22 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTGGA
Found at i:13756557 original size:83 final size:83
Alignment explanation
Indices: 13756467--13756620 Score: 290
Period size: 83 Copynumber: 1.9 Consensus size: 83
13756457 GCAAATAAGT
*
13756467 AAATCGCAATGCGAATTTGGAAAATCGTAATGCGATACTGACTATCGCAACGCGATAATACAAAA
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAAA
13756532 TCGCAATGCGAATTTGGA
66 TCGCAATGCGAATTTGGA
13756550 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAAA
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAAA
*
13756615 TTGCAA
66 TCGCAA
13756621 CACGATACTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (83 bp):
AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAAA
TCGCAATGCGAATTTGGA
Found at i:13756599 original size:62 final size:61
Alignment explanation
Indices: 13756467--13756586 Score: 161
Period size: 62 Copynumber: 1.9 Consensus size: 61
13756457 GCAAATAAGT
* **
13756467 AAATCGCAATGCGAATTTGGAAAATCGTAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGAAAATCGCAACGCGATAATAC
* *
13756528 AAAATCGCAATGCGAATTTGGAAAATCGCAATGCGA-ATTTGGAAAATCGCAATGCGATA
1 -AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATA-CT-GAAAATCGCAACGCGATA
13756587 CTGACTATCG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 35 0.69
63 15 0.29
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (61 bp):
AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGAAAATCGCAACGCGATAATAC
Found at i:13756615 original size:41 final size:41
Alignment explanation
Indices: 13756487--13756707 Score: 171
Period size: 41 Copynumber: 5.4 Consensus size: 41
13756477 GCGAATTTGG
*
13756487 AAAATCGTAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* ** * * **
13756528 AAAATCGCAATGCGA-ATTTGGAAAATCGCAATGCGA-ATTTGG
1 AAAATCGCAATGCGATA-CT-GACTATCGCAACGCGATA-ATAC
13756570 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* ** * **
13756611 AAAATTGCAACACGATACTGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
** *** * * *
13756653 --TTTCGCAACAAGATTCTAACTATCGCAACGAGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
13756692 AGAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
13756708 TTTCAAAGTT
Statistics
Matches: 136, Mismatches: 36, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
39 2 0.01
40 28 0.21
41 72 0.53
42 33 0.24
43 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:13756661 original size:20 final size:20
Alignment explanation
Indices: 13756617--13756681 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
13756607 ATACAAAATT
*
13756617 GCAACACGATACTGACTTTC
1 GCAACACGATTCTGACTTTC
*
13756637 GCAACGCGATTCTGACTTTC
1 GCAACACGATTCTGACTTTC
* * *
13756657 GCAACAAGATTCTAACTATC
1 GCAACACGATTCTGACTTTC
13756677 GCAAC
1 GCAAC
13756682 GAGATAATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (20 bp):
GCAACACGATTCTGACTTTC
Found at i:13757449 original size:24 final size:24
Alignment explanation
Indices: 13757422--13757468 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13757412 AGTCAGTATT
*
13757422 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACC
*
13757446 CGAACTTTGATATTGGTCAATAC
1 CGAAATTTGATATTGGTCAATAC
13757469 TCAGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACC
Found at i:13757480 original size:24 final size:24
Alignment explanation
Indices: 13757427--13757473 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13757417 GTATTCGAAA
* *
13757427 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATATTGGTCAATACCAGAAC
13757451 TTTGATATTGGTCAATACTCAGA
1 TTTGATATTGGTCAATAC-CAGA
13757474 TTTTGATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCAGAAC
Found at i:13757672 original size:12 final size:12
Alignment explanation
Indices: 13757655--13757679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13757645 ATATAATCCT
13757655 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13757667 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13757679 G
1 G
13757680 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:13759997 original size:20 final size:20
Alignment explanation
Indices: 13759930--13760002 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
13759920 GGCAATCATT
13759930 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
* **
13759950 TAACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-CA-CGGAAA
*
13759971 TGTCTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
13759991 TGACTATCGCAA
1 TGACTATCGCAA
13760003 TGCGAAATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.03
20 25 0.62
21 13 0.32
22 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACACGGAAA
Found at i:13760011 original size:19 final size:19
Alignment explanation
Indices: 13759996--13760159 Score: 125
Period size: 19 Copynumber: 9.7 Consensus size: 19
13759986 GGAAATGACT
13759996 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13760015 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
13760029 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13760048 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
13760062 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13760081 ATCGCAAT--G--A-GAGA
1 ATCGCAATGCGAAATGAAA
13760095 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
13760114 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
13760128 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13760147 ATCGCAACGCGAA
1 ATCGCAATGCGAA
13760160 TTTAGTTTTG
Statistics
Matches: 114, Mismatches: 11, Indels: 40
0.69 0.07 0.24
Matches are distributed among these distances:
14 40 0.35
15 4 0.04
16 7 0.06
17 7 0.06
18 4 0.04
19 52 0.46
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:13760033 original size:14 final size:14
Alignment explanation
Indices: 13760014--13760134 Score: 62
Period size: 14 Copynumber: 7.6 Consensus size: 14
13760004 GCGAAATGAA
13760014 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
13760028 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
13760047 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
13760061 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
13760080 AATCGCAATGAGAG
1 AATCGCAACGAGAG
*
13760094 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
13760113 AATCGCAACGAGGG
1 AATCGCAACGAGAG
13760127 AATCGCAA
1 AATCGCAA
13760135 AGCGAAATGA
Statistics
Matches: 83, Mismatches: 9, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
14 37 0.45
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 30 0.36
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:13760038 original size:33 final size:33
Alignment explanation
Indices: 13759996--13760155 Score: 293
Period size: 33 Copynumber: 4.8 Consensus size: 33
13759986 GGAAATGACT
13759996 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
13760029 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
13760062 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
13760095 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
13760128 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
13760156 CGAATTTAGT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 123 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:13760220 original size:33 final size:33
Alignment explanation
Indices: 13760170--13760244 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
13760160 TTTAGTTTTG
* *
13760170 CATTGCGATTTTGTCGTTACGATTTTC-ATTTCA
1 CATTGCGATTCTCTCGTTACGA-TTTCAATTTCA
* * *
13760203 CGTTGCGATTCTCTCGTTGCGATTTCAATTTCG
1 CATTGCGATTCTCTCGTTACGATTTCAATTTCA
13760236 CATTGCGAT
1 CATTGCGAT
13760245 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (33 bp):
CATTGCGATTCTCTCGTTACGATTTCAATTTCA
Found at i:13760370 original size:14 final size:14
Alignment explanation
Indices: 13760351--13760387 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13760341 CATCAATTAA
13760351 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
13760365 ACAAATCATCTTTT
1 ACAAATCAACTTTT
13760379 ACAAATCAA
1 ACAAATCAA
13760388 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:13761828 original size:42 final size:42
Alignment explanation
Indices: 13761782--13761861 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
13761772 CGATGACAGT
* * *
13761782 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
13761824 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
13761862 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:13762415 original size:94 final size:94
Alignment explanation
Indices: 13762254--13762558 Score: 521
Period size: 94 Copynumber: 3.3 Consensus size: 94
13762244 GAATAGTTTC
*
13762254 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
13762319 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
13762348 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
13762413 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
* *
13762442 AATTGACAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTT
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTT
*
13762506 CACAGTGTT----AATAAACAGTTTAGCAG
65 CACAGTGTTAAAGAATACACAGTTTAGCAG
*
13762532 TATTGGCAGCAACCGAACAAATTTACT
1 AATTGGCAGCAACCGAACAAATTTACT
13762559 AAGCAATCTA
Statistics
Matches: 202, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
90 39 0.19
93 19 0.09
94 144 0.71
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:13762710 original size:94 final size:91
Alignment explanation
Indices: 13762594--13762811 Score: 359
Period size: 94 Copynumber: 2.4 Consensus size: 91
13762584 CTAAGTGAAA
*
13762594 TTAGTAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATA
1 TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAGACAAATA
*
13762658 CTAACTTCACAGTGTTAAAGAATACACAGT
66 CTAACTTCACAGTGTT----AATAAACAGT
13762688 TTAGCAGAATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATA
1 TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAGACAAATA
13762752 CTAACTTCACAGTGTTAATAAACAGT
66 CTAACTTCACAGTGTTAATAAACAGT
*
13762778 TTAGCAGTATTGGCAGCAACCGAATAAATTTACT
1 TTAGCAGAATTGGCAGCAACCGAATAAATTTACT
13762812 AAGCAATCTA
Statistics
Matches: 119, Mismatches: 3, Indels: 7
0.92 0.02 0.05
Matches are distributed among these distances:
90 41 0.34
93 19 0.16
94 59 0.50
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (91 bp):
TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAGACAAATA
CTAACTTCACAGTGTTAATAAACAGT
Found at i:13762794 original size:253 final size:253
Alignment explanation
Indices: 13762341--13762849 Score: 982
Period size: 253 Copynumber: 2.0 Consensus size: 253
13762331 AATACACAGT
13762341 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
1 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
13762406 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAATAAATTTACTTC
66 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAATAAATTTACTTC
13762471 AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATT
131 AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATT
13762536 GGCAGCAACCGAACAAATTTACTAAGCAATCTAAGTGAAATGGTTAATCTAAGTGAAA
196 GGCAGCAACCGAACAAATTTACTAAGCAATCTAAGTGAAATGGTTAATCTAAGTGAAA
* *
13762594 TTAGTAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
1 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
*
13762659 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTC
66 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAATAAATTTACTTC
13762724 AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATT
131 AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATT
*
13762789 GGCAGCAACCGAATAAATTTACTAAGCAATCTAAGTGAAATGGTTAATCTAAGTGAAA
196 GGCAGCAACCGAACAAATTTACTAAGCAATCTAAGTGAAATGGTTAATCTAAGTGAAA
13762847 TTA
1 TTA
13762850 CGAGTAAATT
Statistics
Matches: 252, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
253 252 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (253 bp):
TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAATAAATTTACTTC
AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATT
GGCAGCAACCGAACAAATTTACTAAGCAATCTAAGTGAAATGGTTAATCTAAGTGAAA
Found at i:13764531 original size:20 final size:20
Alignment explanation
Indices: 13764506--13764634 Score: 99
Period size: 20 Copynumber: 7.2 Consensus size: 20
13764496 TTTTGGTTGA
13764506 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
* *
13764526 AATGAAAATCGCAACGCGAA
1 AATGAAAATCGCAACGAGAG
**
13764546 AATGACTATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
13764564 -A-G--AATCGCAAC-ACGA-
1 AATGAAAATCGCAACGA-GAG
13764579 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
13764597 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
13764612 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
13764632 AAT
1 AAT
13764635 CGCAACGCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 28
0.72 0.06 0.23
Matches are distributed among these distances:
14 17 0.19
16 8 0.09
17 6 0.07
18 2 0.02
19 21 0.24
20 34 0.39
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:13764572 original size:14 final size:14
Alignment explanation
Indices: 13764553--13764641 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
13764543 GAAAATGACT
13764553 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
13764567 ATCGCAACACGAAATGAAA
1 ATCGC-A-ACG--A-GAGA
13764586 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
13764600 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
13764619 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
13764633 ATCGCAACG
1 ATCGCAACG
13764642 CAAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 27 0.44
15 3 0.05
16 5 0.08
17 5 0.08
18 3 0.05
19 18 0.30
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:13764590 original size:33 final size:33
Alignment explanation
Indices: 13764504--13764658 Score: 211
Period size: 33 Copynumber: 4.5 Consensus size: 33
13764494 TCTTTTGGTT
13764504 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
** *
13764543 GAAAATGACTATCGCAACGAGAGAATCGCAACAC
1 G-AAATGAAAATCGCAACGAGAGAATCGCAACGC
13764577 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
13764610 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
13764643 AAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
13764659 TGCGATTTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
33 77 0.71
34 11 0.10
36 1 0.01
37 1 0.01
38 3 0.03
39 1 0.01
40 14 0.13
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:13764696 original size:19 final size:19
Alignment explanation
Indices: 13764659--13764776 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
13764649 AAAATCGCAA
**
13764659 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
13764678 TGCGATTTTCATTTTGCGT
1 TGCGATTTTCATTTCGCGT
*
13764697 TGCGA--TT-A--TCTCGT
1 TGCGATTTTCATTTCGCGT
* *
13764711 TGTGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
13764730 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
**
13764744 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
13764764 TGCGATTTTCATT
1 TGCGATTTTCATT
13764777 CTCGAAACTA
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 5 0.07
17 6 0.08
19 30 0.41
20 15 0.21
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:13764718 original size:33 final size:33
Alignment explanation
Indices: 13764675--13764770 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
13764665 TTTGGTTTCG
*
13764675 CGTTGCGATTTTCATTTTGCGTTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
* * *
13764708 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
**
13764741 CGTTGCGATAGTCATTTCCGCGTTGCGATT
1 CGTTGCGATTTTCATTT-CGCGTTGCGATT
13764771 TTCATTCTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
33 43 0.80
34 11 0.20
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
Found at i:13765294 original size:20 final size:20
Alignment explanation
Indices: 13765271--13765364 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
13765261 CGATAGTCAG
13765271 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
13765291 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
13765311 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* *
13765332 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
13765352 ATTCGCATTGCGA
1 ATTCGCATTGCGA
13765365 ATTATAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 47 0.72
21 18 0.28
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:13765323 original size:41 final size:40
Alignment explanation
Indices: 13765271--13765364 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 40
13765261 CGATAGTCAG
* *
13765271 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* *
13765311 AATTCGCATTGCGATTTACGTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
13765352 ATTCGCATTGCGA
1 ATTCGCATTGCGA
13765365 ATTATAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:13765377 original size:41 final size:41
Alignment explanation
Indices: 13765293--13765490 Score: 129
Period size: 41 Copynumber: 4.8 Consensus size: 41
13765283 ATTTACGTAT
* * **
13765293 TCGCATTGCGATTTTCCTAATTCGCATTGCG-ATT-TACGTAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTATA-AAAA
*
13765334 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTATAAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTATAAAAA
** * * * **
13765375 TCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTATAAAAA
* * * * * *
13765416 TTGCGTTGCGATAGT-CAGTA-TCGCATTGCG-ATTTTCCAAAT
1 TCGCATTGCGAT-TTAC-GTATTCGCATTGCGAATTAT-AAAAA
*
13765457 TCGCATTGCGATTTACTTATTCGCATTGCGAATT
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATT
13765491 GGGAAAATCA
Statistics
Matches: 120, Mismatches: 27, Indels: 19
0.72 0.16 0.11
Matches are distributed among these distances:
40 23 0.19
41 87 0.73
42 7 0.06
43 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGAATTATAAAAA
Found at i:13765385 original size:21 final size:21
Alignment explanation
Indices: 13765361--13765409 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
13765351 TATTCGCATT
*
13765361 GCGAATTATAAAAATCGCAAC
1 GCGAATTACAAAAATCGCAAC
** *
13765382 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACAAAAATCGCAAC
13765402 GCGAATTA
1 GCGAATTA
13765410 GGAAAATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (21 bp):
GCGAATTACAAAAATCGCAAC
Found at i:13765397 original size:61 final size:61
Alignment explanation
Indices: 13765273--13765405 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 61
13765263 ATAGTCAGAT
* ** * ** *
13765273 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCAAAAATCGCAACGCGATATACGTAA
*
13765334 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-AAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCAAAAATCGCAACGCGATATACGT-AA
*
13765395 TCGCAATGCGA
1 TCGCATTGCGA
13765406 ATTAGGAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 5 0.08
61 51 0.85
62 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCAAAAATCGCAACGCGATATACGTAA
Found at i:13765480 original size:20 final size:21
Alignment explanation
Indices: 13765436--13765487 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
13765426 ATAGTCAGTA
*
13765436 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
13765457 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
13765477 TCGCATTGCGA
1 TCGCATTGCGA
13765488 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:13765541 original size:123 final size:121
Alignment explanation
Indices: 13765314--13765546 Score: 272
Period size: 123 Copynumber: 1.9 Consensus size: 121
13765304 TTTTCCTAAT
** * * *
13765314 TCGCATTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATAAAAATCGC
1 TCGCATTGCGATTTACCAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGAAAAATCAC
* * * *
13765379 AACGCGAATACGTAAATCGCAATGCGAATTAGGAAAATTGCGTTGCGATAGTCAGTA
66 AACACAAATACGAAAATCGCAATGCGAAATA-GAAAATTGCGTTGCGATAGTCAGTA
* * * *
13765436 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAATCA
1 TCGCATTGCGATTTACCAAA-TCGCATTGCGATTTACGTATTCGCATTGCGAATTAGAAAAATCA
* *
13765501 CAACACTAAATTA-GAAAATCGCATTGCGATAATA-ATAATTGCGTTG
65 CAACAC-AAA-TACGAAAATCGCAATGCGA-AATAGAAAATTGCGTTG
13765547 TGAATCTGGA
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
122 17 0.18
123 54 0.59
124 16 0.17
125 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (121 bp):
TCGCATTGCGATTTACCAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGAAAAATCAC
AACACAAATACGAAAATCGCAATGCGAAATAGAAAATTGCGTTGCGATAGTCAGTA
Found at i:13767359 original size:2 final size:2
Alignment explanation
Indices: 13767352--13767393 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13767342 TAGTTTAATA
13767352 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
13767394 TAGTTATAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13768083 original size:36 final size:37
Alignment explanation
Indices: 13768026--13768101 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 37
13768016 TTTCGTCCTA
13768026 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
*
13768063 CTAGGATTC-AACTC-CTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCTC-AAAAATAGGATAGAATTCTG
13768099 CTA
1 CTA
13768102 TGTTTTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
35 1 0.03
36 27 0.73
37 9 0.24
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
Found at i:13768829 original size:16 final size:16
Alignment explanation
Indices: 13768808--13768841 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13768798 CATGTATTTA
13768808 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
13768824 TATTATTTTACTTTAT
1 TATTATATTACATTAT
13768840 TA
1 TA
13768842 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:13768846 original size:21 final size:22
Alignment explanation
Indices: 13768822--13768871 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
13768812 ATATTACATT
*
13768822 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
*
13768843 ATTATT-TTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
13768864 TTTATTAT
1 ATTATTAT
13768872 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.46
21 12 0.50
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Done.