Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_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: 1941792
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:3103 original size:36 final size:38
Alignment explanation
Indices: 3040--3115 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 38
3030 GTTTGAAAAT
*
3040 ATTTATATATATATTTTTTAAAAAAAATTAAATTCATAAA
1 ATTTATATATATATTTTTT-AAAAAAATTAAAAT-ATAAA
*
3080 ATTTATATA-AT-TTTTTT-ACAAAATTAAAATATAAA
1 ATTTATATATATATTTTTTAAAAAAATTAAAATATAAA
3115 A
1 A
3116 ATATTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 6 0.18
36 11 0.32
38 6 0.18
39 2 0.06
40 9 0.26
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
ATTTATATATATATTTTTTAAAAAAATTAAAATATAAA
Found at i:4326 original size:3 final size:3
Alignment explanation
Indices: 4315--4366 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
4305 TTTTTTTCCG
**
4315 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4361 ATA TTA
1 TTA TTA
4367 CATTTTACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4951 original size:13 final size:13
Alignment explanation
Indices: 4907--4954 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4897 ATTCGGGTTC
*
4907 AAAAAAAAAAAAG
1 AAAACAAAAAAAG
4920 AAAA-AAAGAAAGAG
1 AAAACAAA-AAA-AG
*
4934 AAAACATAAAAAG
1 AAAACAAAAAAAG
4947 AAAACAAA
1 AAAACAAA
4955 GATAGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 16 0.53
14 9 0.30
15 2 0.07
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.02
Consensus pattern (13 bp):
AAAACAAAAAAAG
Found at i:6954 original size:22 final size:22
Alignment explanation
Indices: 6929--6972 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6919 TCAAACGATG
*
6929 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
6951 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
6973 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:8519 original size:31 final size:32
Alignment explanation
Indices: 8484--8545 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8474 ATTTTACATG
8484 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
8515 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
8546 CATTTTGTCA
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:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:9559 original size:22 final size:23
Alignment explanation
Indices: 9516--9560 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
9506 AGTGCACCAT
*
9516 TTCCATCTAAGAAGCTCCAGACA
1 TTCCATCTAAGAAGCTCAAGACA
9539 TTCCA-CTAAGAA-CTGCAAGACA
1 TTCCATCTAAGAAGCT-CAAGACA
9561 CTAAAGCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 13 0.65
23 5 0.25
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (23 bp):
TTCCATCTAAGAAGCTCAAGACA
Found at i:10605 original size:24 final size:22
Alignment explanation
Indices: 10570--10618 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
10560 CAAACCAAAG
*
10570 AAAAAAAACAAAGAGCAAAGAA
1 AAAAAAAACAAAAAGCAAAGAA
*
10592 AAAATAAAAGCAAAAATCAAAGAA
1 AAAA-AAAA-CAAAAAGCAAAGAA
10616 AAA
1 AAA
10619 GCAAAGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 4 0.17
24 15 0.65
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.04
Consensus pattern (22 bp):
AAAAAAAACAAAAAGCAAAGAA
Found at i:10617 original size:11 final size:12
Alignment explanation
Indices: 10585--10631 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
10575 AAACAAAGAG
10585 CAAAGAAAAAAT
1 CAAAGAAAAAAT
* *
10597 AAAAGCAAAAAT
1 CAAAGAAAAAAT
*
10609 CAAAG-AAAAAG
1 CAAAGAAAAAAT
10620 CAAAGAACAAAA
1 CAAAGAA-AAAA
10632 GAGGACAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 10 0.34
12 15 0.52
13 4 0.14
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:10630 original size:18 final size:18
Alignment explanation
Indices: 10583--10631 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10573 AAAAACAAAG
10583 AGCAAAGAA-AAAATAAA
1 AGCAAAGAACAAAATAAA
10600 AGCAAA-AATCAAAGA-AAA
1 AGCAAAGAA-CAAA-ATAAA
10618 AGCAAAGAACAAAA
1 AGCAAAGAACAAAA
10632 GAGGACAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.07
17 7 0.25
18 16 0.57
19 3 0.11
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.04
Consensus pattern (18 bp):
AGCAAAGAACAAAATAAA
Found at i:12238 original size:36 final size:35
Alignment explanation
Indices: 12183--12320 Score: 152
Period size: 36 Copynumber: 3.9 Consensus size: 35
12173 TTTTGAGAAT
*
12183 TTTAAAACAAATTTTTGTCTCGTTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* * *
12219 TTTCAAAGCAAATTTTGTCTCGCTTGAAACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
12256 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
12290 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
12321 TTTTTCCTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 3 0.04
35 24 0.29
36 46 0.55
37 11 0.13
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:12412 original size:105 final size:105
Alignment explanation
Indices: 12287--12532 Score: 304
Period size: 105 Copynumber: 2.4 Consensus size: 105
12277 TTGAGACAAA
* *
12287 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTCG
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
12352 ATTCAC-TTAAAACAAAATTAATCTCACCTTAGATTGTTGT
66 ATTCACATT-AAACAAAATTAATCTCACCTTAGATTGTTGT
* * * * *
12392 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTG
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
* * * *
12457 TTTCACATTAAACAAAGTTGATCTCA-CTTGAGATCG-T-T
66 ATTCACATTAAACAAAATTAATCTCACCTT-AGATTGTTGT
* * * *
12495 TCCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTC
12533 TCTAAAAACA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
102 28 0.23
103 4 0.03
104 4 0.03
105 83 0.69
106 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (105 bp):
TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
ATTCACATTAAACAAAATTAATCTCACCTTAGATTGTTGT
Found at i:12774 original size:20 final size:19
Alignment explanation
Indices: 12736--12774 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12726 TATTTGAATC
* *
12736 TTTTAAAACGATTTTTTTT
1 TTTTAAAACAATTTCTTTT
12755 TTTTAAAGACAATTTCTTTT
1 TTTTAAA-ACAATTTCTTTT
12775 GAAAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAAAACAATTTCTTTT
Found at i:12815 original size:27 final size:27
Alignment explanation
Indices: 12770--13010 Score: 351
Period size: 27 Copynumber: 8.8 Consensus size: 27
12760 AAGACAATTT
12770 CTTTTGAAAAAAATCTTTGAGTTTGTTC
1 CTTTTG-AAAAAATCTTTGAGTTTGTTC
12798 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
* *
12825 CTTTTGAAAAAATCTTTGAGTTTATTT
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
12852 CTTTTG-AAAAATCTTTGAGTTTGTTT
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
12878 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
**
12905 CACTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
12932 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
12961 CTTTTGAATAAAAATCTTTGAG-TTGTTT
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
12989 CTTTTGAAAAAAATCTTTGAGT
1 CTTTTG-AAAAAATCTTTGAGT
13011 CTATTTATTT
Statistics
Matches: 198, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
26 25 0.13
27 113 0.57
28 20 0.10
29 40 0.20
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (27 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:12872 original size:80 final size:81
Alignment explanation
Indices: 12766--13024 Score: 362
Period size: 80 Copynumber: 3.2 Consensus size: 81
12756 TTTAAAGACA
12766 ATTTCTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTG
1 ATTTCTTTTG-AAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTG
12831 AAAAAATCTTTGAGTTT
65 AAAAAATCTTTGAGTTT
* **
12848 ATTTCTTTTG-AAAAATCTTTGAGTTTGTTTCTTTTGAAAAAATCTTTGAGTTTGTTCCACTTGA
1 ATTTCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGA
12912 AAAAATCTTTGAGTTT
66 AAAAATCTTTGAGTTT
* * * *
12928 GTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAAAATCTTTGAG-TTGTTTCTT
1 ATTTCTTTTG-A-AAAAATCTTTGAGTTTGTTCCTTTTG-A-AAAAATCTTTGAGTTTGTTCCTT
*
12992 TTGAAAAAAATCTTTGAGTCT
62 TTG-AAAAAATCTTTGAGTTT
*
13013 ATTT-ATTTGAAA
1 ATTTCTTTTGAAA
13025 CAAAGTTTTG
Statistics
Matches: 157, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
80 75 0.48
82 12 0.08
83 25 0.16
84 14 0.09
85 31 0.20
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (81 bp):
ATTTCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGA
AAAAATCTTTGAGTTT
Found at i:13100 original size:53 final size:53
Alignment explanation
Indices: 13020--13124 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
13010 TCTATTTATT
*
13020 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
13073 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGT
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGT
13125 TGTTTCTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
Found at i:13153 original size:29 final size:30
Alignment explanation
Indices: 13111--13173 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
13101 AATTTCGTAA
*
13111 AAAAATCTTTGAGT-TGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
13140 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
13170 AAAA
1 AAAA
13174 TTTTATCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
Found at i:13242 original size:37 final size:36
Alignment explanation
Indices: 13157--13227 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
13147 TTTGAGTCTG
* *
13157 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAACTTTATCTCTCTT-AGATAA
*
13194 TTTCTTTTGAAACAAAACTTTGTCTCTCTT-GATA
1 TTTCTTTTGAAACAAAACTTTATCTCTCTTAGATA
13228 CATATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 4 0.13
37 27 0.87
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.45
Consensus pattern (36 bp):
TTTCTTTTGAAACAAAACTTTATCTCTCTTAGATAA
Found at i:13368 original size:98 final size:99
Alignment explanation
Indices: 13140--13369 Score: 240
Period size: 98 Copynumber: 2.3 Consensus size: 99
13130 CTTTTGAAAC
*** **
13140 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC-AAATAAAAAATCTCTTAAGATAATTTCTTTTGAA
*
13205 ACAAAACTTTGTCTCTCTTGATACATATTTTATTG
65 ACAAAACTTTGTCTCTCTTGAGACATATTTTATTG
* * * *
13240 AAAAATCTTTGAGTCTGTTTCACTT-AAAACAAATGAAAAAATCT-TTGAG-TATGTTTC-TTTG
1 AAAAATCTTTGAGTCTGTTTC-TTTGGAAACAAAT-AAAAAATCTCTTAAGATA-ATTTCTTTTG
* *
13301 ATAACAAAA-TTTGTCTCTTTTGAGA-A-AGTTTCTGTTG
63 A-AACAAAACTTTGTCTCTCTTGAGACATA-TTT-TATTG
13338 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAA
13370 CATTCACCAT
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
96 1 0.01
97 6 0.06
98 52 0.48
99 19 0.17
100 29 0.27
101 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (99 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAATAAAAAATCTCTTAAGATAATTTCTTTTGAAA
CAAAACTTTGTCTCTCTTGAGACATATTTTATTG
Found at i:13392 original size:98 final size:95
Alignment explanation
Indices: 13140--13408 Score: 233
Period size: 98 Copynumber: 2.7 Consensus size: 95
13130 CTTTTGAAAC
* * *
13140 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTC-TCTTAAGATAATTTCTTTTGA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC-AAA--TTAAC-CATCTTGAGAT-GTTTC-TTTGA
*
13204 AACAAAACTTTGTCTCTCTTGATACATATTTTATTG
60 AACAAAACTTTGTCTCTCTTGAGACATATTTTATTG
* * * **
13240 AAAAATCTTTGAGTCTGTTTCACTT-AAAACAAATGAAAAAATCTTTGAGTATGTTTCTTTGATA
1 AAAAATCTTTGAGTCTGTTTC-TTTGGAAACAAAT-TAACCATC-TTGAG-ATGTTTCTTTGA-A
* *
13304 ACAAAA-TTTGTCTCTTTTGAGA-A-AGTTTCTGTTG
61 ACAAAACTTTGTCTCTCTTGAGACATA-TTT-TATTG
* *
13338 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAACATTCACCATCTGTGAGCATGTTTCCCTTGAAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAA-ATTAACCATCT-TGAG-ATGTTT-CTTTGAAA
13403 CAAAAC
62 CAAAAC
13409 CTATCTTTGA
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
96 1 0.01
97 8 0.06
98 74 0.54
99 25 0.18
100 27 0.20
101 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (95 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAATTAACCATCTTGAGATGTTTCTTTGAAACAAA
ACTTTGTCTCTCTTGAGACATATTTTATTG
Found at i:13490 original size:27 final size:29
Alignment explanation
Indices: 13459--13523 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
13449 TCTTGAGACA
*
13459 ATTTCTTTTGA-AAAA-ATCTTTGAGTCT
1 ATTTCTTTTAACAAAACATCTTTGAGTCT
* * *
13486 GTTTCTCTTAACAAAATCATCTTTGAGTTT
1 ATTTCTTTTAACAAAA-CATCTTTGAGTCT
13516 ATTTCTTT
1 ATTTCTTT
13524 AAAAACAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 8 0.28
28 4 0.14
30 17 0.59
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (29 bp):
ATTTCTTTTAACAAAACATCTTTGAGTCT
Found at i:13671 original size:120 final size:119
Alignment explanation
Indices: 13503--13725 Score: 258
Period size: 120 Copynumber: 1.9 Consensus size: 119
13493 TTAACAAAAT
* * * * *
13503 CATCTTTGAGTTTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATT-AAAAA
1 CATCTTCGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCT-ATTGAAAAA
13567 CTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTTACTTAAGATGTAATC
65 --AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
** *
13623 CATCTTCGAGTCTATTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTTTTGAAAA
1 CATCTTCGAGTCTATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTATTGAAAA
* * *
13686 AAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT
64 AAATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCT
13726 CTCGAGACAA
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
118 23 0.26
119 20 0.23
120 40 0.46
121 4 0.05
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (119 bp):
CATCTTCGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTATTGAAAAAA
ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
Found at i:13806 original size:39 final size:40
Alignment explanation
Indices: 13730--13808 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
13720 TTGTCTCTCG
13730 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
*
13770 AGACAACTTCTTTTGAAAATA-CCACCTTTGATATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
13809 CTATTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
Found at i:14085 original size:1 final size:1
Alignment explanation
Indices: 14079--14105 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
14069 ATGTCTTTTC
14079 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
14106 TTGAAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14425 original size:63 final size:65
Alignment explanation
Indices: 14250--14425 Score: 171
Period size: 66 Copynumber: 2.7 Consensus size: 65
14240 CAAAACAAAC
* *
14250 ATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGAGACAATTTCCCATGAAACGCC
1 ATCTTTGAGAACGTTTCCCTTGAAACGAA-TTTGTCTCATTTGAGACAATTTCCCATGAAACGCC
14315 G
65 G
* * ** * * * *
14316 ATCTTTGAGAACGTTTCCCTTAAAACAAATTTGTCTCGCTTAAGACAA-TTCCCTTTAAATGCC-
1 ATCTTTGAGAACGTTTCCCTTGAAACGAATTTGTCTCATTTGAGACAATTTCCCATGAAACGCCG
*** *
14379 ATCTTTG-GGTTGTTTCCTTTGAAACGAATCTTGTCTC-TTTCGAGACA
1 ATCTTTGAGAACGTTTCCCTTGAAACGAAT-TTGTCTCATTT-GAGACA
14426 GTTGCTTTGG
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
62 18 0.20
63 19 0.21
64 12 0.13
65 16 0.18
66 25 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (65 bp):
ATCTTTGAGAACGTTTCCCTTGAAACGAATTTGTCTCATTTGAGACAATTTCCCATGAAACGCCG
Found at i:14766 original size:39 final size:40
Alignment explanation
Indices: 14662--14772 Score: 181
Period size: 40 Copynumber: 2.8 Consensus size: 40
14652 CTTTAGATGG
14662 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGGA
*
14702 CCAAAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCGGA
*
14742 CCAGATCTC-TCATCACGTATGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA
14773 CCCTAGATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 22 0.33
40 40 0.60
41 5 0.07
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGGA
Found at i:15108 original size:3 final size:3
Alignment explanation
Indices: 15102--15148 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
15092 TTTCCGTTAT
** *
15102 TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149 CATTTTACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17749 original size:22 final size:22
Alignment explanation
Indices: 17724--17767 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17714 TCAAACGATG
*
17724 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
17746 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
17768 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:21563 original size:21 final size:21
Alignment explanation
Indices: 21539--21599 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
21529 AACTTTGAAA
21539 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
21560 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
21574 ATATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
21595 AAATG
1 AAATG
21600 TTTCTTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 4 0.14
19 4 0.14
20 4 0.14
21 9 0.31
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:21580 original size:35 final size:36
Alignment explanation
Indices: 21531--21649 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
21521 TGGTAACCAA
21531 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
21568 CTTTG-AATATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
21603 CTTTGAAAAATAGTTTTTCAAAG-TTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
21639 -GTTGAAAAATG
1 CTTTGAAAAATG
21650 ATAATGGGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
34 1 0.01
35 43 0.57
36 16 0.21
37 15 0.20
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:25205 original size:36 final size:36
Alignment explanation
Indices: 25092--25207 Score: 182
Period size: 35 Copynumber: 3.2 Consensus size: 36
25082 TGGTAACCAA
25092 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
25128 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
25163 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
25200 -GTTGAAAA
1 CTTTGAAAA
25208 TGATAATGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 35 0.47
36 17 0.23
37 23 0.31
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:26893 original size:4 final size:4
Alignment explanation
Indices: 26884--26910 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
26874 ATCATAACCC
26884 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
26911 AATCCGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30381 original size:23 final size:23
Alignment explanation
Indices: 30355--30412 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
30345 TGAATTTATT
*
30355 TTAATTAATAATGAGAGTTTTTG
1 TTAATTAATAATGAAAGTTTTTG
* *
30378 TTAAATACTAATGAAAGTTTTTG
1 TTAATTAATAATGAAAGTTTTTG
30401 TTAATTAGATAA
1 TTAATTA-ATAA
30413 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (23 bp):
TTAATTAATAATGAAAGTTTTTG
Found at i:33926 original size:21 final size:17
Alignment explanation
Indices: 33884--33917 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33874 CGGTGTGTCC
33884 CAACAGTGCATAAATAA
1 CAACAGTGCATAAATAA
33901 CAACAGTGCATAAATAA
1 CAACAGTGCATAAATAA
33918 ATACAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CAACAGTGCATAAATAA
Found at i:34146 original size:30 final size:32
Alignment explanation
Indices: 34073--34147 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
34063 TGGGGCCTGT
34073 GAGCCTACCCAA-AACAATTCCCAGGGCCACA
1 GAGCCTACCCAAGAACAATTCCCAGGGCCACA
* * * *
34104 AAGGCTTACCCAAGAA-AA-TCTCAGGGCCGCA
1 GA-GCCTACCCAAGAACAATTCCCAGGGCCACA
34135 GAGCCTACCCAAG
1 GAGCCTACCCAAG
34148 GCTCGACTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
30 10 0.28
31 13 0.36
32 11 0.31
33 2 0.06
ACGTcount: A:0.35, C:0.35, G:0.20, T:0.11
Consensus pattern (32 bp):
GAGCCTACCCAAGAACAATTCCCAGGGCCACA
Found at i:37856 original size:21 final size:21
Alignment explanation
Indices: 37830--37883 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
37820 TGTAAAATTA
37830 AACTTGTTATCGACCGGCACT
1 AACTTGTTATCGACCGGCACT
37851 AACTTGTTATCGACCGGCACT
1 AACTTGTTATCGACCGGCACT
37872 AACTTGTTATCG
1 AACTTGTTATCG
37884 GATTTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
AACTTGTTATCGACCGGCACT
Found at i:41035 original size:20 final size:20
Alignment explanation
Indices: 41005--41042 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
40995 TTTGCCCCGA
41005 ACCCGACCCG-AAATATTAT
1 ACCCGACCCGAAAATATTAT
41024 ACCCGAACCCGAAAATATT
1 ACCCG-ACCCGAAAATATT
41043 TTATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (20 bp):
ACCCGACCCGAAAATATTAT
Found at i:41068 original size:18 final size:19
Alignment explanation
Indices: 41045--41094 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
41035 AAAATATTTT
*
41045 ATATATAATTATTATA-AA
1 ATATATAAATATTATATAA
*
41063 ATATATAAAATATTATATAT
1 ATATAT-AAATATTATATAA
*
41083 ATATATATATAT
1 ATATATAAATAT
41095 ATAATCTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATAAATATTATATAA
Found at i:41069 original size:20 final size:21
Alignment explanation
Indices: 41044--41096 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
41034 GAAAATATTT
*
41044 TATATATAATTATTATA-AAA
1 TATATATAAATATTATATAAA
*
41064 TATATA-AAATATTATATATA
1 TATATATAAATATTATATAAA
*
41084 TATATATATATAT
1 TATATATAAATAT
41097 AATCTGGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 14 0.50
21 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATATAAATATTATATAAA
Found at i:42296 original size:19 final size:19
Alignment explanation
Indices: 42274--42321 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
42264 TCAAAGTCAA
42274 CGGGTCGAGTCAAACAGTT
1 CGGGTCGAGTCAAACAGTT
*
42293 CGGGTCGGGTCAAACAGTT
1 CGGGTCGAGTCAAACAGTT
*
42312 CGGGTTGAGT
1 CGGGTCGAGT
42322 GGGACCAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.23
Consensus pattern (19 bp):
CGGGTCGAGTCAAACAGTT
Found at i:45230 original size:4 final size:4
Alignment explanation
Indices: 45223--45248 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
45213 CAACAGTTAG
45223 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
45249 ATGAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:45387 original size:21 final size:21
Alignment explanation
Indices: 45363--45405 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45353 TTGTACTTGC
*
45363 CACCACCATTATCATCA-TCAT
1 CACCACCATCATCA-CAGTCAT
45384 CACCACCATCATCACAGTCAT
1 CACCACCATCATCACAGTCAT
45405 C
1 C
45406 GTCATCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (21 bp):
CACCACCATCATCACAGTCAT
Found at i:51684 original size:46 final size:46
Alignment explanation
Indices: 51563--51685 Score: 187
Period size: 45 Copynumber: 2.7 Consensus size: 46
51553 AATTTCTCAC
*
51563 CATTTA-TCCCATAAGCTTGTAAGCTTATTTTAACAAAATACTTAT
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
* * * *
51608 CATTTATT-CTATAAGCTCGCAAGCTTATTTTACCAATATACTTAT
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
51653 CATTTATTCCCATAAGCTCGTAAGCTTATTTTA
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTA
51686 TATGCTTACC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 46 0.67
46 23 0.33
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (46 bp):
CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
Found at i:55952 original size:19 final size:19
Alignment explanation
Indices: 55907--55956 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
55897 ATTGAATGAC
* * *
55907 TTATTTATATTTTTTAAAA
1 TTATTAATAATTTGTAAAA
* *
55926 TTAGTAATAATTTGTAAAT
1 TTATTAATAATTTGTAAAA
55945 TTATTAATAATT
1 TTATTAATAATT
55957 GAGTTACATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TTATTAATAATTTGTAAAA
Found at i:69812 original size:19 final size:19
Alignment explanation
Indices: 69788--69833 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
69778 ATGTTTTATG
* *
69788 AATAGTACTATATTGTATA
1 AATAGTACTATACTGTACA
*
69807 AATAGTACTATACTGTGCA
1 AATAGTACTATACTGTACA
69826 AATAGTAC
1 AATAGTAC
69834 CGTGAACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (19 bp):
AATAGTACTATACTGTACA
Found at i:70458 original size:31 final size:31
Alignment explanation
Indices: 70421--70540 Score: 152
Period size: 31 Copynumber: 3.9 Consensus size: 31
70411 GAAGGACCAA
*
70421 TCCATATATTCCGAAGAACATTA-GTAATCAG
1 TCCATATGTTCCGAAGAACA-TAGGTAATCAG
* * * *
70452 TTCATATGTTTCGAAGAACATAGGTAAACAA
1 TCCATATGTTCCGAAGAACATAGGTAATCAG
*
70483 TCCATATGTCCCGAAGAACATAGGTAATCAG
1 TCCATATGTTCCGAAGAACATAGGTAATCAG
* *
70514 TCCATATGTTTCGAAGAACATTGGTAA
1 TCCATATGTTCCGAAGAACATAGGTAA
70541 ACCCTCTACT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
30 2 0.03
31 73 0.97
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (31 bp):
TCCATATGTTCCGAAGAACATAGGTAATCAG
Found at i:70520 original size:62 final size:62
Alignment explanation
Indices: 70418--70542 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
70408 CCTGAAGGAC
* *
70418 CAATCCATATATTCCGAAGAACATTAGTAATCAGTTCATATGTTTCGAAGAACATAGGTAAA
1 CAATCCATATATCCCGAAGAACATTAGTAATCAGTCCATATGTTTCGAAGAACATAGGTAAA
* *
70480 CAATCCATATGTCCCGAAGAACA-TAGGTAATCAGTCCATATGTTTCGAAGAACATTGGTAAA
1 CAATCCATATATCCCGAAGAACATTA-GTAATCAGTCCATATGTTTCGAAGAACATAGGTAAA
70542 C
1 C
70543 CCTCTACTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 2 0.03
62 56 0.97
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (62 bp):
CAATCCATATATCCCGAAGAACATTAGTAATCAGTCCATATGTTTCGAAGAACATAGGTAAA
Found at i:71431 original size:64 final size:63
Alignment explanation
Indices: 71348--71552 Score: 211
Period size: 64 Copynumber: 3.2 Consensus size: 63
71338 TGCACTAAGA
* * * *
71348 GTGCAACGATGCATGAAATGCATCCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGG-TT
* * *
71412 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTGAGTGCATCAATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATATCCAGAGTGCATCGATGCATGGT-
71476 T
63 T
* **
71477 ATGCATCGATGC-TAAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-TCCA-GAGTGCATCGATGCATGG-T
*
71539 G
63 T
*
71540 GTGCATCGGTGCA
1 GTGCATCGATGCA
71553 ATCACTTTGA
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
61 1 0.01
62 5 0.04
63 28 0.24
64 44 0.37
65 37 0.31
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGGTT
Found at i:73861 original size:21 final size:21
Alignment explanation
Indices: 73835--73880 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
73825 GATTTCTGGG
* *
73835 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
73856 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
73877 CAAG
1 CAAG
73881 CGAATATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.15
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:74483 original size:18 final size:18
Alignment explanation
Indices: 74460--74494 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
74450 CTAGGAGATT
74460 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
74478 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
74495 CTAGAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:75565 original size:22 final size:22
Alignment explanation
Indices: 75491--75557 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
75481 TTATGGACAT
75491 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
75513 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
75535 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
75557 A
1 A
75558 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:78699 original size:22 final size:22
Alignment explanation
Indices: 78671--78717 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
78661 GATTTCTGGG
* *
78671 CAAGGGGGAATCGGTACCCATT
1 CAAGGGGGAACCGATACCCATT
*
78693 CAA-GGGGAACCGATACCCCTT
1 CAAGGGGGAACCGATACCCATT
78714 CAAG
1 CAAG
78718 CGAATATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (22 bp):
CAAGGGGGAACCGATACCCATT
Found at i:79315 original size:18 final size:18
Alignment explanation
Indices: 79292--79326 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
79282 CTAGGAGATT
79292 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
79310 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
79327 CTAGAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:80413 original size:22 final size:22
Alignment explanation
Indices: 80339--80405 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
80329 TTATGGACAT
80339 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
80361 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
80383 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
80405 A
1 A
80406 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:85401 original size:30 final size:30
Alignment explanation
Indices: 85330--85389 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
85320 ACAATTTAAG
85330 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
85360 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
85390 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:88254 original size:19 final size:19
Alignment explanation
Indices: 88230--88300 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
88220 TTAAACCCTT
*
88230 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
*
88249 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
88268 AGTGCATCGATGCACTAAG
1 AGTGCATCGATGCACTAAG
88287 AGTGCATCGATGCA
1 AGTGCATCGATGCA
88301 TGAAATGCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:90001 original size:21 final size:22
Alignment explanation
Indices: 89975--90034 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
89965 GTCGATGGTT
*
89975 TCATAGGTCATTCGGGACA-AC
1 TCATAGGTCCTTCGGGACATAC
*
89996 TCATAGGTCCTTCGGGACATAT
1 TCATAGGTCCTTCGGGACATAC
*
90018 TCACAGGTCCTTCGGGA
1 TCATAGGTCCTTCGGGA
90035 TAAATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (22 bp):
TCATAGGTCCTTCGGGACATAC
Found at i:100275 original size:195 final size:195
Alignment explanation
Indices: 99943--100300 Score: 554
Period size: 195 Copynumber: 1.8 Consensus size: 195
99933 ATGAATCTAG
* *
99943 AAACATTAAACCCTCAAATGCATATCTCCGGTCATTGGAAACAAAAGTCCTTGAGCAGGAAATGA
1 AAACATTAAACCCTCAAATGCATATATCCGCTCATTGGAAACAAAAGTCCTTGAGCAGGAAATGA
*
100008 ATAATTGGATATACGGTATTGTTTTCTTACACGTGGTGCGGAATAGTATTGGGTATAATAGTTCA
66 ATAATTGGATATACAGTATTGTTTTCTTACACGTGGTGCGGAATAGTATTGGGTATAATAGTTCA
100073 TCATTGGTGTATTTGCCTCAAGTTGAGCCAAATACACGTGGTGTATCTGATAAAACGGTTGTTAT
131 TCATTGGTGTATTTGCCTCAAGTTGAGCCAAATACACGTGGTGTATCTGATAAAACGGTTGTTAT
* * * **
100138 AAACATTAAATCCTCGAATGCGTATATCCGCTTGTTGGAAACAAAAGTCCTTGAGCAGGAAATGA
1 AAACATTAAACCCTCAAATGCATATATCCGCTCATTGGAAACAAAAGTCCTTGAGCAGGAAATGA
* * * * * * * *
100203 ATATTTGGATATATAGTTTTGTTTTCTTACACGTGGTTCTGAATAGTATTTGGTATAATGGTTCC
66 ATAATTGGATATACAGTATTGTTTTCTTACACGTGGTGCGGAATAGTATTGGGTATAATAGTTCA
* *
100268 TCATTGGTTTATTTGCCTTAAGTTGAGCCAAAT
131 TCATTGGTGTATTTGCCTCAAGTTGAGCCAAAT
100301 TGCAAAATAG
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
195 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (195 bp):
AAACATTAAACCCTCAAATGCATATATCCGCTCATTGGAAACAAAAGTCCTTGAGCAGGAAATGA
ATAATTGGATATACAGTATTGTTTTCTTACACGTGGTGCGGAATAGTATTGGGTATAATAGTTCA
TCATTGGTGTATTTGCCTCAAGTTGAGCCAAATACACGTGGTGTATCTGATAAAACGGTTGTTAT
Found at i:103598 original size:107 final size:107
Alignment explanation
Indices: 103412--103623 Score: 406
Period size: 107 Copynumber: 2.0 Consensus size: 107
103402 ACATCGGTCA
*
103412 GAAATAGTATATCAGATGGTTTATCAACTCCCAATGACTCGGTGATTTCGACATAACTTCGTGTT
1 GAAATAGTATATCAGATGGTTTATCAACTCCCAATGACTCGGTGATTTCGACATAACTTCGTGTC
103477 TCTCTTTTGTTTCTGCAAGCATGAAAAGGGGATACAGAGTTG
66 TCTCTTTTGTTTCTGCAAGCATGAAAAGGGGATACAGAGTTG
*
103519 GAAATAGTATATCAGATGGTTTATCAACTCCCAATGACTCGGTGATTTTGACATAACTTCGTGTC
1 GAAATAGTATATCAGATGGTTTATCAACTCCCAATGACTCGGTGATTTCGACATAACTTCGTGTC
103584 TCTCTTTTGTTTCTGCAAGCATGAAAAGGGGATACAGAGT
66 TCTCTTTTGTTTCTGCAAGCATGAAAAGGGGATACAGAGT
103624 CATTTTTCAG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (107 bp):
GAAATAGTATATCAGATGGTTTATCAACTCCCAATGACTCGGTGATTTCGACATAACTTCGTGTC
TCTCTTTTGTTTCTGCAAGCATGAAAAGGGGATACAGAGTTG
Found at i:113965 original size:23 final size:23
Alignment explanation
Indices: 113939--113986 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
113929 ATAAAGTACA
*
113939 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
113962 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
113985 AT
1 AT
113987 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:114626 original size:329 final size:331
Alignment explanation
Indices: 114026--114686 Score: 1138
Period size: 329 Copynumber: 2.0 Consensus size: 331
114016 TTATACCGAT
* * *
114026 AGCATTGCAAATTTATCTATTACATTATATTATATTGAAAGTGTACTTTTTATAAAAATGATTAA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTACTTTTTATAAAAAGGATCAA
* * *
114091 TATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCATC
66 TACTTCTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTGTTTCATGTTTTCCACC
*
114156 TACAATATTAATTTAATAATTTCATTTGTACAAAAAATTATTTGATTGTTTTGATATTTTATAAA
131 TACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAA
* *
114221 ATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGAC
196 ATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
114286 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
261 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
114351 ACAGTG
326 ACAGTG
114357 AGCATTGCAAATTTACCTATTACA-T-TATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTG----TACTTTTTATAAAAAGGA
*
114419 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTT-AA-ATTTTTTAATAGTGTTTCATGTTTTC
62 TCAATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTGTTTCATGTTTTC
114482 CACCTACAATATTAA-TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTA
127 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
114545 TAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAAATAAATCAT
192 TAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACG-AAAAAAATAAATCAT
114610 TAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGT
256 TAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGT
114675 TTTCCACAGTG
321 TTTCCACAGTG
114686 A
1 A
114687 AAAAAGTATG
Statistics
Matches: 315, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
328 52 0.17
329 150 0.48
330 40 0.13
331 25 0.08
332 38 0.12
333 10 0.03
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (331 bp):
AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTACTTTTTATAAAAAGGATCAA
TACTTCTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTGTTTCATGTTTTCCACC
TACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAA
ATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
ACAGTG
Found at i:114765 original size:23 final size:23
Alignment explanation
Indices: 114739--114801 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
114729 ATATAACCAC
114739 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
114762 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
114785 TACCTATTACATCATAT
1 TACCTATTACATTATAT
114802 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:115256 original size:39 final size:39
Alignment explanation
Indices: 115202--115288 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
115192 TCAAGTTGTA
*
115202 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
115241 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
115280 GATTTTGAT
1 GATTTTGAT
115289 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:115569 original size:18 final size:18
Alignment explanation
Indices: 115546--115582 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
115536 CGAAATATAT
115546 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
115564 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
115582 A
1 A
115583 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:116005 original size:25 final size:25
Alignment explanation
Indices: 115971--116021 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
115961 TTTTTCCAAA
*
115971 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
* *
115996 TAATGTACCCACAATAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
116021 T
1 T
116022 GATTTGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:116233 original size:21 final size:22
Alignment explanation
Indices: 116208--116259 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
116198 ACACTTTACA
*
116208 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
116231 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
116254 ATATAA
1 ATATAA
116260 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:116244 original size:23 final size:23
Alignment explanation
Indices: 116218--116280 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
116208 ATATAACCAC
116218 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
116241 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
116264 TACCTATTACATCATAT
1 TACCTATTACATTATAT
116281 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:116623 original size:25 final size:25
Alignment explanation
Indices: 116566--116631 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
116556 CACTCAAAAG
*
116566 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
116591 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
116616 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
116632 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:119435 original size:182 final size:183
Alignment explanation
Indices: 119093--120342 Score: 2273
Period size: 182 Copynumber: 6.9 Consensus size: 183
119083 TTAAAATTAC
*
119093 CGACACTTTTTTAAATGGTATCGACACA-TTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
119157 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
119222 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
119275 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
119340 ATTATAAAGTGTCGAGATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
119405 ATATTAC-AAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
119457 CGATAC-TTTTTAAATCGTATCGACATATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
119521 ATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
119585 ATATTATAAAA-TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
119637 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGATACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
119702 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
119767 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
119820 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
119884 ATTAAAAAGTGTCGATATATGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
119949 ATATTACAAAATTATCTATTATATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
120002 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
120067 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
120132 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
120185 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
120249 ATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * * **
120313 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
120343 ATGTTGAAAG
Statistics
Matches: 1038, Mismatches: 24, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
180 109 0.11
181 208 0.20
182 388 0.37
183 333 0.32
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:120073 original size:365 final size:364
Alignment explanation
Indices: 119093--120342 Score: 2281
Period size: 365 Copynumber: 3.4 Consensus size: 364
119083 TTAAAATTAC
*
119093 CGACACTTTTTTAAATGGTATCGACACA-TTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
119157 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
65 ATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * *
119222 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGATACTTTTTT
129 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTT
*
119287 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTATAAAGTGT
194 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
*
119352 CGAGATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC-AAAT
259 CGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
* *
119416 TATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
324 TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
119457 CGATACTTTTTAAATCGTATCGACATATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
1 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
119522 TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
66 TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
*
119587 ATTATAAAA-TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAA
131 ATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAA
*
119651 ATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGATACAATATTAAAAAGTGTCG
196 ATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
119716 ATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTA
261 ATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTA
119781 TCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
326 TCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
119820 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
1 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
*
119885 TTAAAAAGTGTCGATATATGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
66 TT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
119950 TATTACAAAATTATCTATTATATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTA
130 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTA
120015 AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTC
195 AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTC
120080 GATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
260 GATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
120145 ATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
325 ATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
120185 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
1 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
120250 TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
66 TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
* * * **
120315 ATTGCAAATTTACCTATTTTATTATAAT
131 ATTACAAAATTATCTATTACATTATAAT
120343 ATGTTGAAAG
Statistics
Matches: 859, Mismatches: 23, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
362 172 0.20
363 198 0.23
364 200 0.23
365 289 0.34
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (364 bp):
CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
TTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
ATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAA
ATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
ATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTA
TCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:121773 original size:3 final size:3
Alignment explanation
Indices: 121765--121806 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
121755 ACTTGTTTGG
* *
121765 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
121807 GTTATCTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.02, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:121782 original size:12 final size:12
Alignment explanation
Indices: 121765--121830 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
121755 ACTTGTTTGG
121765 ATCATCATCTTC
1 ATCATCATCTTC
*
121777 ATCATCATCATC
1 ATCATCATCTTC
* *
121789 ATCATCGTCATC
1 ATCATCATCTTC
121801 ATCATCGTTATCTTC
1 ATCATC---ATCTTC
* *
121816 ATCGTCAGCTTC
1 ATCATCATCTTC
121828 ATC
1 ATC
121831 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
12 36 0.80
15 9 0.20
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:123782 original size:199 final size:199
Alignment explanation
Indices: 123290--124399 Score: 2118
Period size: 199 Copynumber: 5.6 Consensus size: 199
123280 TTTAAATTAG
*
123290 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123355 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
123420 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
123484 CAAA
196 CAAA
***
123488 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123553 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
123618 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
123683 CAAA
196 CAAA
123687 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123752 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
123817 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
123882 CAAA
196 CAAA
***
123886 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123951 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
124016 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
124081 CAAA
196 CAAA
124085 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
124150 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
124215 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
124278 CAAA
196 CAAA
*
124282 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
124347 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGATCGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
124400 CACTTTTTTA
Statistics
Matches: 896, Mismatches: 15, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
197 173 0.19
198 174 0.19
199 549 0.61
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
CAAA
Found at i:124037 original size:398 final size:398
Alignment explanation
Indices: 123290--124839 Score: 2775
Period size: 398 Copynumber: 3.9 Consensus size: 398
123280 TTTAAATTAG
*
123290 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123355 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
123420 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
123484 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAAG
123549 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
123614 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
123679 AAAACAAA
391 AAAACAAA
123687 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
123752 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
123817 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
123882 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAAG
123947 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
124012 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
124077 AAAACAAA
391 AAAACAAA
124085 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
124150 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
124215 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
* **
124278 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAAG
124343 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA----------C-----TTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
** *
124393 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCA-TCATTTTG
326 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
124457 GAAAA-AAA
390 GAAAACAAA
*
124465 TATCGACACAAACTATATTAGTGTCGACACA-T-TTTAGAAATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
124528 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
124593 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATTCGTTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
* **
124658 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 ACAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAA
124723 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
124788 GGGATCGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
325 GGGATCGACACTTT-TTATATATGGATCGACACTTTATGGGTGCACCCTGTT
124840 GGCCATATTG
Statistics
Matches: 1118, Mismatches: 14, Indels: 43
0.95 0.01 0.04
Matches are distributed among these distances:
378 101 0.09
379 1 0.00
380 38 0.03
381 184 0.16
382 43 0.04
386 1 0.00
391 1 0.00
395 3 0.00
396 210 0.19
397 177 0.16
398 359 0.32
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAAG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAACAAA
Found at i:124548 original size:181 final size:182
Alignment explanation
Indices: 124206--124580 Score: 641
Period size: 181 Copynumber: 2.1 Consensus size: 182
124196 GGTTCGATGA
**
124206 TTTTGGGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
1 TTTTGGGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATTCATTC
* *
124271 TGGAAAACAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATA
66 TGGAAAACAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCATA
124336 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
124388 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCA-TCA
1 TTTTGGGATCGACAC--TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATTCA
*
124452 TTTTGGAAAA-AAATATCGACACAAACTATATTAGTGTCGACACA-T-TTTAGAAATATTCTCTC
63 TTCTGGAAAACAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTC
124514 ATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
128 ATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
*
124569 TTTTGGGTTCGA
1 TTTTGGGATCGA
124581 TGATTTTGGG
Statistics
Matches: 184, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
181 81 0.44
182 16 0.09
183 34 0.18
184 16 0.09
185 37 0.20
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (182 bp):
TTTTGGGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATTCATTC
TGGAAAACAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCATA
AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
Found at i:124618 original size:196 final size:199
Alignment explanation
Indices: 124388--124845 Score: 850
Period size: 200 Copynumber: 2.3 Consensus size: 199
124378 TACATTATAC
124388 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATCAT
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATCAT
*
124453 TTTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACA-T-TTTAGAAATATTCTCTCA
66 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCA
124515 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
131 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
124580 ATGA
196 ATGA
*
124584 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATTCG
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCA-TCA
*
124649 TTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTC
65 TTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTC
124714 ATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTC
130 ATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTC
124779 GATGA
195 GATGA
*
124784 TTTTGGGATCGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCAT
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCAT
124846 ATTGTAAATT
Statistics
Matches: 254, Mismatches: 4, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
196 61 0.24
197 7 0.03
198 38 0.15
199 2 0.01
200 146 0.57
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (199 bp):
TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTGGCCATCAT
TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCA
TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
ATGA
Found at i:125004 original size:19 final size:19
Alignment explanation
Indices: 124958--125006 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
124948 TTATATTCAC
*
124958 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
124977 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
124996 ATACAAAATTA
1 ATACAAAATTA
125007 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:126829 original size:33 final size:33
Alignment explanation
Indices: 126792--126857 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
126782 CATCTTAATA
* *
126792 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCATTCACCACT
* *
126825 TCACCCCTCAACACCTCTACTTCATTCACCACT
1 TCACCCCTCAACACCCCAACTTCATTCACCACT
126858 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCATTCACCACT
Found at i:129200 original size:17 final size:18
Alignment explanation
Indices: 129178--129220 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
129168 ATATATCCGG
129178 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
129195 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
129215 TATCAT
1 TATCAT
129221 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:129238 original size:20 final size:19
Alignment explanation
Indices: 129183--129229 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
129173 TCCGGTATCA
129183 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
129202 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
129223 TTTTACC
1 TTTTACC
129230 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:129377 original size:20 final size:20
Alignment explanation
Indices: 129351--129396 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
129341 CACTTTTAAA
129351 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
129370 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
129391 TTTACC
1 TTTACC
129397 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:131809 original size:27 final size:28
Alignment explanation
Indices: 131779--131835 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
131769 AAAATTATCT
*
131779 TTTTA-GTCAAAATAGGTACCTAAAGTA
1 TTTTATGTCAAAATAGGTACCTAAACTA
*
131806 TTTTATGTCAAAATAGGTACTTAAACTA
1 TTTTATGTCAAAATAGGTACCTAAACTA
131834 TT
1 TT
131836 CAAACCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (28 bp):
TTTTATGTCAAAATAGGTACCTAAACTA
Found at i:131999 original size:31 final size:30
Alignment explanation
Indices: 131954--132012 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
131944 TTTAGGCACC
* *
131954 TATTTTGTCCAAAAAGATAACTTCAAGTATT
1 TATTTTGACCAAAAAAAT-ACTTCAAGTATT
* *
131985 TATTTTGACTAAAAAAATACTTTAAGTA
1 TATTTTGACCAAAAAAATACTTCAAGTA
132013 CTTAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (30 bp):
TATTTTGACCAAAAAAATACTTCAAGTATT
Found at i:134619 original size:14 final size:15
Alignment explanation
Indices: 134592--134620 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
134582 ATATCCTATA
134592 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
134607 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
134621 AGATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:137126 original size:33 final size:33
Alignment explanation
Indices: 137088--137151 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
137078 GACGCCTGAC
*
137088 CCTGTTCCTGAGTCTGCTTCAGTAGCTCAAGAT
1 CCTGTTCCTGAATCTGCTTCAGTAGCTCAAGAT
*
137121 CCTGTTCCTGAATCTGCTTCAGTTGCTCAAG
1 CCTGTTCCTGAATCTGCTTCAGTAGCTCAAG
137152 CGTCTGGCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.34
Consensus pattern (33 bp):
CCTGTTCCTGAATCTGCTTCAGTAGCTCAAGAT
Found at i:139883 original size:16 final size:17
Alignment explanation
Indices: 139862--139895 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
139852 TATGGAATAA
139862 AATCATTAAAAAA-ATT
1 AATCATTAAAAAATATT
139878 AATCATTAAAAAATATT
1 AATCATTAAAAAATATT
139895 A
1 A
139896 CTAAATTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AATCATTAAAAAATATT
Found at i:148157 original size:36 final size:36
Alignment explanation
Indices: 148107--148181 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
148097 TTTTTAAATT
*
148107 TTTGGCAACACTGCTAATTCATGGTTTTGGGTATGG
1 TTTGGCAACACTGCTAATACATGGTTTTGGGTATGG
* * *
148143 TTTGGTAACGCTGCTGATACATGGTTTTGGGTATGG
1 TTTGGCAACACTGCTAATACATGGTTTTGGGTATGG
148179 TTT
1 TTT
148182 CAGGGGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.12, G:0.29, T:0.41
Consensus pattern (36 bp):
TTTGGCAACACTGCTAATACATGGTTTTGGGTATGG
Found at i:149243 original size:31 final size:30
Alignment explanation
Indices: 149165--149243 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
149155 TTTTGAAAAC
149165 ATATATAATATGGTTTTGAAAACATTTTTGA
1 ATATAT-ATATGGTTTTGAAAACATTTTTGA
* * *
149196 AAATGTATAATGGTTTTGAAAACCTATTTTGA
1 ATATATAT-ATGGTTTTGAAAACAT-TTTTGA
*
149228 ATATATATATAGTTTT
1 ATATATATATGGTTTT
149244 TTTAAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 26 0.65
32 12 0.30
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.46
Consensus pattern (30 bp):
ATATATATATGGTTTTGAAAACATTTTTGA
Found at i:149282 original size:22 final size:22
Alignment explanation
Indices: 149254--149295 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
149244 TTTAAAATGA
*
149254 TTTTTGAAAACATATTATATAG
1 TTTTTGAAAACATAATATATAG
*
149276 TTTTTGAAAATATAATATAT
1 TTTTTGAAAACATAATATAT
149296 GTTATATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TTTTTGAAAACATAATATATAG
Found at i:149293 original size:20 final size:22
Alignment explanation
Indices: 149254--149294 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
149244 TTTAAAATGA
*
149254 TTTTTGAAAACATATTATATAG
1 TTTTTGAAAACATATAATATAG
149276 TTTTTG-AAA-ATATAATATA
1 TTTTTGAAAACATATAATATA
149295 TGTTATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTTGAAAACATATAATATAG
Found at i:149376 original size:8 final size:7
Alignment explanation
Indices: 149308--149380 Score: 60
Period size: 7 Copynumber: 9.9 Consensus size: 7
149298 TATATAGTTT
149308 TTTATTA
1 TTTATTA
*
149315 TATATTA
1 TTTATTA
149322 TTTA-TA
1 TTTATTA
149328 TTTATTA
1 TTTATTA
*
149335 TTT-TACA
1 TTTAT-TA
149342 TTTATTATA
1 TTTA-T-TA
149351 TTTGATTA
1 TTT-ATTA
149359 TATTATTA
1 T-TTATTA
149367 TTTATGTA
1 TTTAT-TA
149375 TTTATT
1 TTTATT
149381 TAATTTCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
6 7 0.13
7 23 0.42
8 15 0.27
9 9 0.16
10 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:149376 original size:24 final size:22
Alignment explanation
Indices: 149308--149380 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 22
149298 TATATAGTTT
149308 TTTATTATA-TATTATTTA-TA
1 TTTATTATATTATTATTTATTA
* *
149328 TTTATTATTTTA-CATTTATTATA
1 TTTATTATATTATTATTTA-T-TA
149351 TTTGATTATATTATTATTTATGTA
1 TTT-ATTATATTATTATTTAT-TA
149375 TTTATT
1 TTTATT
149381 TAATTTCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 13 0.31
21 2 0.05
23 8 0.19
24 14 0.33
25 5 0.12
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (22 bp):
TTTATTATATTATTATTTATTA
Found at i:156792 original size:32 final size:34
Alignment explanation
Indices: 156756--156825 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
156746 ACCTTACAAC
* * *
156756 TCCCTAG-TTTTTC-CGGGCTAAACTAGAATCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
156788 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
156822 TCCC
1 TCCC
156826 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:157211 original size:20 final size:20
Alignment explanation
Indices: 157182--157274 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
157172 GCAGCCTTCG
* *
157182 TGCATGGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
157202 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
157222 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
157242 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
157262 TGCATCGATGCAC
1 TGCATCGATGCAC
157275 TAAGTGCATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:157345 original size:21 final size:21
Alignment explanation
Indices: 157319--157372 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
157309 AGTGCAGGTG
157319 CATGGATGCACTGCAGGGGTA
1 CATGGATGCACTGCAGGGGTA
* *
157340 CATGGATGCATTGCAGGGGTG
1 CATGGATGCACTGCAGGGGTA
157361 CATGGATGCACT
1 CATGGATGCACT
157373 TTGACACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CATGGATGCACTGCAGGGGTA
Found at i:158458 original size:19 final size:20
Alignment explanation
Indices: 158415--158462 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
158405 TCTAAATCCT
*
158415 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
158435 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
158454 TTTTCAAAA
1 TTTTCAAAA
158463 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:159384 original size:33 final size:31
Alignment explanation
Indices: 159323--159384 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
159313 ACCTTACAAC
* *
159323 TCCCTAGTTTTTCCGGGCTAAACTAGAACCT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCT
*
159354 TCCCTAGCTTTTACACGGGATAAGCTAGAAC
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAAC
159385 ATTTCCCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 5 0.19
33 14 0.54
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCT
Found at i:159632 original size:20 final size:22
Alignment explanation
Indices: 159607--159646 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
159597 TGTTGTATAT
159607 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
159627 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
159647 TCTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:159777 original size:20 final size:20
Alignment explanation
Indices: 159748--159800 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
159738 GCAGCCTTCG
*
159748 TGCATGGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
*
159768 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGAAGGA
159788 TGCATCGATGCAC
1 TGCATCGATGCAC
159801 TAAGTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAGAAGGA
Found at i:159867 original size:22 final size:23
Alignment explanation
Indices: 159834--159876 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
159824 ATGGATGCAC
*
159834 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATAGATGCACTAG
159857 TGCA-GGTGCATAGATGCACT
1 TGCATGGTGCATAGATGCACT
159877 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATAGATGCACTAG
Found at i:163159 original size:45 final size:44
Alignment explanation
Indices: 163100--163194 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 44
163090 AATGTGTATT
* *
163100 GATGCACTCTTTAAAGAAG-AAACATCGAATGTAATTAGTGCATC
1 GATGCACCCTTTAAA-AAGAAAACATCGAAGGTAATTAGTGCATC
* * * *
163144 GATGCACCCCTTTAAAATGAAAACATCGAAGGTGATTGGTGTATC
1 GATGCA-CCCTTTAAAAAGAAAACATCGAAGGTAATTAGTGCATC
163189 GATGCA
1 GATGCA
163195 TGAGTAGTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (44 bp):
GATGCACCCTTTAAAAAGAAAACATCGAAGGTAATTAGTGCATC
Found at i:163233 original size:24 final size:24
Alignment explanation
Indices: 163204--163262 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
163194 ATGAGTAGTG
163204 CATCGATGCACATGTTAAAGAGTA
1 CATCGATGCACATGTTAAAGAGTA
* *
163228 TATCGATGCACATGTTAAAGAGTG
1 CATCGATGCACATGTTAAAGAGTA
163252 CATCGATGCAC
1 CATCGATGCAC
163263 TATAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
CATCGATGCACATGTTAAAGAGTA
Found at i:164156 original size:31 final size:32
Alignment explanation
Indices: 164071--164162 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
164061 AGTCGAGGGT
164071 TTACCTATGTTCTACAGAACATATGGAC-ATAA
1 TTACCTATGTTCTA-AGAACATATGGACAATAA
**
164103 TTACCTATG-TCTTTCGAGACATATGGACAAT-A
1 TTACCTATGTTC-TAAGA-ACATATGGACAATAA
*
164135 -TACCTATGTTCTAAGGAACATATAGACA
1 TTACCTATGTTCTAA-GAACATATGGACA
164163 GTTTACTTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
31 23 0.46
32 25 0.50
33 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTAAGAACATATGGACAATAA
Found at i:165674 original size:94 final size:94
Alignment explanation
Indices: 165567--165738 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 94
165557 TATCGAAGAA
** * *
165567 GTAGTATTGATACCAT-GATAAGGGTATCGATACCAGG-AATCATTGAACTTAAAATTGGTATCG
1 GTAGTATCAATACCATAG-TAAGGGTATCGATACCAGGCAA-CATCGAACCTAAAATTGGTATCG
**
165630 ATACCGGAAGGGGTATCAGTACAATAGCATG
64 ATACCAAAAGGGGTATCAGTACAATAGCATG
165661 GTAGTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGAT
1 GTAGTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGAT
165726 ACCAAAAGGGGTA
66 ACCAAAAGGGGTA
165739 ATCGGTACTA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
94 67 0.96
95 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (94 bp):
GTAGTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGAT
ACCAAAAGGGGTATCAGTACAATAGCATG
Found at i:166174 original size:59 final size:59
Alignment explanation
Indices: 166109--166497 Score: 389
Period size: 59 Copynumber: 7.0 Consensus size: 59
166099 GATTACAAAA
* ** * *
166109 AGGGCACTTCGTGTGCTAAAATGTTAAGAAATCCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
*
166168 AGGGCACTTCATGTGCTAACAT-AGGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGA-GAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* *
166227 AGGGCACTTCATGTGCTAACATGTGAAGGAATTCATACTAA--G--TG--------TAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* *
166274 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATTCT-A-CG--TG--------TAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* *
166321 AGGGCACTTCGTGTGCTAACATGATAAGGAATTCATACTAAGTGAATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* *
166380 AGGGCACTTCGTGTGCTAACATGGGAAGGAATTCATGCTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* * * * * * *
166439 GGGGTACCTT-GTGTGCCAAAATGATAAGAAATTCATCCTAAGTGTATGAATTTCCATAT
1 AGGGCA-CTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
166498 GGGAAATATA
Statistics
Matches: 289, Mismatches: 25, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.00
47 82 0.28
48 1 0.00
49 1 0.00
51 2 0.01
55 2 0.01
57 1 0.00
59 196 0.68
60 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (59 bp):
AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
Found at i:166293 original size:47 final size:47
Alignment explanation
Indices: 166224--166364 Score: 230
Period size: 47 Copynumber: 3.0 Consensus size: 47
166214 TGAATTTCCA
*
166224 TATAGGGCACTTCATGTGCTAACATGTGAAGGAATTCATACTAAGTG
1 TATAGGGCACTTCGTGTGCTAACATGTGAAGGAATTCATACTAAGTG
* * *
166271 TATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATTCTACGTG
1 TATAGGGCACTTCGTGTGCTAACATGTGAAGGAATTCATACTAAGTG
166318 TATAGGGCACTTCGTGTGCTAACATGAT-AAGGAATTCATACTAAGTG
1 TATAGGGCACTTCGTGTGCTAACATG-TGAAGGAATTCATACTAAGTG
166365 AATGAATTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (47 bp):
TATAGGGCACTTCGTGTGCTAACATGTGAAGGAATTCATACTAAGTG
Found at i:166957 original size:68 final size:68
Alignment explanation
Indices: 166847--167210 Score: 505
Period size: 68 Copynumber: 5.5 Consensus size: 68
166837 AATTAAAGGA
* *
166847 CTAACTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
166912 GGC
66 GGC
* * *
166915 ATAACTGTGCATTTGACAGAAATGTGTTAATTATACCAGTTAGATGAAAGACTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
166980 GGC
66 GGC
166983 CTAACTGTGCATTTGACAGAAA-GATGTCAATTATGA-CAGTTAGATGAAAGGCTAAGTGCCTTT
1 CTAACTGTGCATTTGACAGAAATG-TGTCAATTAT-ACCAGTTAGATGAAAGGCTAAGTGCCTTT
167046 GAGGC
64 GAGGC
** *
167051 CTAACTGTATATTTGACAGAAAAGTGTCAATTATGA-CAGTTAGAT-------TAAGTGCCTTTG
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTAT-ACCAGTTAGATGAAAGGCTAAGTGCCTTTG
167108 AGGC
65 AGGC
* * * * *
167112 CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCTTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
167177 GGC
66 GGC
*
167180 TTAACTGTGCATTTGACAGAAATGTGTCAAT
1 CTAACTGTGCATTTGACAGAAATGTGTCAAT
167211 CATGCCAAAT
Statistics
Matches: 266, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
61 55 0.21
67 1 0.00
68 208 0.78
69 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:167166 original size:129 final size:130
Alignment explanation
Indices: 166847--167210 Score: 543
Period size: 129 Copynumber: 2.8 Consensus size: 130
166837 AATTAAAGGA
*
166847 CTAACTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
166912 GGCATAACTGTGCATTTGACAGAAATGTGTTAATTATACCAGTTAGATGAAAGACTAAGTGCCTT
66 GGCATAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGAT-----A-TAAGTGCCTT
166977 TGAGGC
125 TGAGGC
* * *
166983 CTAACTGTGCATTTGACAGAAAGATGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
* ** *
167048 GGCCTAACTGTATATTTGACAGAAAAGTGTCAATTATGA-CAGTTAGAT-TAAGTGCCTTTGAGG
66 GGCATAACTGTGCATTTGACAGAAATGTGTCAATTAT-ACCAGTTAGATATAAGTGCCTTTGAGG
167111 C
130 C
* *
167112 CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCTTTTGA
1 CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
167177 GGCTTAACTGTGCATTTGACAGAAATGTGTCAAT
66 GGCATAACTGTGCATTTGACAGAAATGTGTCAAT
167211 CATGCCAAAT
Statistics
Matches: 209, Mismatches: 18, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
129 106 0.51
136 102 0.49
137 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (130 bp):
CTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGCATAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGTTAGATATAAGTGCCTTTGAGGC
Found at i:167226 original size:68 final size:68
Alignment explanation
Indices: 167096--167228 Score: 194
Period size: 68 Copynumber: 2.0 Consensus size: 68
167086 ACAGTTAGAT
* * **
167096 TAAGTGCCTTTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAAATAGATGAAA
167161 AGC
66 AGC
* * * *
167164 TAAGTGCTTTTGAGGCTTAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAAATGGATGAAA
1 TAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAAATAGATGAAA
167229 GGTTAAATGC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
TAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAAATAGATGAAA
AGC
Found at i:167360 original size:45 final size:45
Alignment explanation
Indices: 167260--167452 Score: 255
Period size: 45 Copynumber: 4.3 Consensus size: 45
167250 AACTAGATGT
* *
167260 ATAACAATGTATACTGGTGTATAAAAGGTATGAAAA-ATGCCATAA
1 ATAA-AATGTATAATGGTGTATAAAAGGCATGAAAAGATGCCATAA
* *
167305 ATGAAATGTATAATGGTGTATAAAAGGTAT-AAAAGGATGCCATAA
1 ATAAAATGTATAATGGTGTATAAAAGGCATGAAAA-GATGCCATAA
** * *
167350 ATAAAATGTATGTTGGTGTATAAAAGGCATGAAAGGATACCATAA
1 ATAAAATGTATAATGGTGTATAAAAGGCATGAAAAGATGCCATAA
* *
167395 ATAAAATGTATGATGGTGTATAAAAGGCATGAAAAGATGACATAA
1 ATAAAATGTATAATGGTGTATAAAAGGCATGAAAAGATGCCATAA
*
167440 ATGAAATGTATAA
1 ATAAAATGTATAA
167453 CTGTAACACC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 4 0.03
44 25 0.19
45 99 0.76
46 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (45 bp):
ATAAAATGTATAATGGTGTATAAAAGGCATGAAAAGATGCCATAA
Found at i:169116 original size:24 final size:20
Alignment explanation
Indices: 169063--169120 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
169053 TTCCCCTTGA
*
169063 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
169083 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
169106 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
169121 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:171959 original size:32 final size:31
Alignment explanation
Indices: 171923--171988 Score: 73
Period size: 32 Copynumber: 2.1 Consensus size: 31
171913 AACATATAAA
*
171923 ATAA-TCATTAACACACAA-ATATATCATATCAT
1 ATAATTCA-TAACACAAAACATATAT-ATAT-AT
*
171955 ATAATTCATATCACAAAACATATATATATAT
1 ATAATTCATAACACAAAACATATATATATAT
171986 ATA
1 ATA
171989 TATATCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
31 5 0.17
32 16 0.53
33 9 0.30
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (31 bp):
ATAATTCATAACACAAAACATATATATATAT
Found at i:173025 original size:24 final size:20
Alignment explanation
Indices: 172972--173029 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
172962 TTCCCCTTGA
*
172972 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
172992 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
173015 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
173030 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:182670 original size:63 final size:63
Alignment explanation
Indices: 182572--182839 Score: 509
Period size: 63 Copynumber: 4.3 Consensus size: 63
182562 TGGGTTTGCA
*
182572 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGA
1 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
* *
182635 GTAGGACCATGAGCCATCGGAGACCGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
1 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
182698 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
1 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
182761 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
1 GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
182824 GTAGGACCATGAGCCA
1 GTAGGACCATGAGCCA
182840 TGGGTGAGCC
Statistics
Matches: 200, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 200 1.00
ACGTcount: A:0.23, C:0.22, G:0.36, T:0.19
Consensus pattern (63 bp):
GTAGGACCATGAGCCACCGGAGACTGCGTCGGACCGTACTGTGGTGCATGATGAGTAGATGGC
Found at i:182705 original size:36 final size:36
Alignment explanation
Indices: 182660--182831 Score: 87
Period size: 36 Copynumber: 5.3 Consensus size: 36
182650 ATCGGAGACC
*
182660 GCGTCGGACCGTACTGTGGTGCATGATGAGTAGATG
1 GCGTAGGACCGTACTGTGGTGCATGATGAGTAGATG
* * * *
182696 GCGTAGGACC--A-TG-AG-CCACCG--GAG-A-CT-
1 GCGTAGGACCGTACTGTGGTGCA-TGATGAGTAGATG
*
182723 GCGTCGGACCGTACTGTGGTGCATGATGAGTAGATG
1 GCGTAGGACCGTACTGTGGTGCATGATGAGTAGATG
* * * *
182759 GCGTAGGACC--A-TG-AG-CCACCG--GAG-A-CT-
1 GCGTAGGACCGTACTGTGGTGCA-TGATGAGTAGATG
*
182786 GCGTCGGACCGTACTGTGGTGCATGATGAGTAGATG
1 GCGTAGGACCGTACTGTGGTGCATGATGAGTAGATG
182822 GCGTAGGACC
1 GCGTAGGACC
182832 ATGAGCCATG
Statistics
Matches: 93, Mismatches: 21, Indels: 44
0.59 0.13 0.28
Matches are distributed among these distances:
27 18 0.19
28 2 0.02
29 4 0.04
30 10 0.11
31 8 0.09
32 8 0.09
33 10 0.11
34 4 0.04
35 2 0.02
36 27 0.29
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.20
Consensus pattern (36 bp):
GCGTAGGACCGTACTGTGGTGCATGATGAGTAGATG
Found at i:191639 original size:20 final size:20
Alignment explanation
Indices: 191610--191665 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
191600 TTTGGTTCAC
*
191610 GGAATATAAGATTATCAGTG
1 GGAATATAAGATTACCAGTG
*
191630 GGAATGTAAGATTACCAGTG
1 GGAATATAAGATTACCAGTG
* *
191650 AGAATAAAAGATTACC
1 GGAATATAAGATTACC
191666 GGAGAATAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GGAATATAAGATTACCAGTG
Found at i:191672 original size:18 final size:20
Alignment explanation
Indices: 191611--191673 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
191601 TTGGTTCACG
* * *
191611 GAATATAAGATTATCAGTGG
1 GAATAAAAGATTACCAGTGA
**
191631 GAATGTAAGATTACCAGTGA
1 GAATAAAAGATTACCAGTGA
191651 GAATAAAAGATTACC-G-GA
1 GAATAAAAGATTACCAGTGA
191669 GAATA
1 GAATA
191674 GGATTAATGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
18 7 0.18
19 1 0.03
20 30 0.79
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (20 bp):
GAATAAAAGATTACCAGTGA
Found at i:193488 original size:23 final size:23
Alignment explanation
Indices: 193458--193509 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
193448 AAAATTGTAA
193458 GCGGTCATCCCGTGAGGGCATCT
1 GCGGTCATCCCGTGAGGGCATCT
193481 GCGGTCATCCCGTGAGGGCATCT
1 GCGGTCATCCCGTGAGGGCATCT
193504 GCGGTC
1 GCGGTC
193510 TGCCCATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.31, G:0.37, T:0.21
Consensus pattern (23 bp):
GCGGTCATCCCGTGAGGGCATCT
Found at i:199960 original size:14 final size:14
Alignment explanation
Indices: 199941--199968 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
199931 AAGTGAAAGA
199941 ATAGTTATATAATT
1 ATAGTTATATAATT
199955 ATAGTTATATAATT
1 ATAGTTATATAATT
199969 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:201157 original size:36 final size:36
Alignment explanation
Indices: 201105--201177 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
201095 TTATAACTTG
* *
201105 AGAAAACCTAAAGAAAATAAATTAACTAAAGGTATT
1 AGAAAACCTAAAGAAAATAAAATAACTAAAGGAATT
* *
201141 AGAACACCTAAAGAAAATAAAATACCTAAAGGAATT
1 AGAAAACCTAAAGAAAATAAAATAACTAAAGGAATT
201177 A
1 A
201178 AAATTCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (36 bp):
AGAAAACCTAAAGAAAATAAAATAACTAAAGGAATT
Found at i:201167 original size:18 final size:18
Alignment explanation
Indices: 201110--201181 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 18
201100 ACTTGAGAAA
*
201110 ACCTAAAGAAAATAAATT
1 ACCTAAAGAAAATAAAAT
* ** * * *
201128 AACTAAAGGTATTAGAAC
1 ACCTAAAGAAAATAAAAT
201146 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAT
* *
201164 ACCTAAAGGAATTAAAAT
1 ACCTAAAGAAAATAAAAT
201182 TCTTAAAGAT
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.58, C:0.11, G:0.10, T:0.21
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAT
Done.