Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 73 of 147
Found at i:13748310 original size:84 final size:82
Alignment explanation
Indices: 13748166--13748389 Score: 315
Period size: 84 Copynumber: 2.7 Consensus size: 82
13748156 TGACTTTAAA
* * *
13748166 AAAAATAAATGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAG
1 AAAAATAAATGCTCTTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAG
*
13748231 AGGCACCAAAACTTTTG
66 AGCCACCAAAACTTTTG
* * * *
13748248 AAAAATAAATTGCTCTTCTAAACAAAAGCACCACAACTTTTGAAAAATAAATTGCTCCTCTAAAT
1 AAAAATAAA-TGCTCTTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATTGCTCCTCTAAAC
*
13748313 AGAGCCACCACAACTTTTG
64 AGAGCCACCAAAACTTTTG
*
13748332 AAAAATAAATGCT-TCTCTAAACAGAGGCAACCACGACTTTGAAAAATAAATGGCTCCT
1 AAAAATAAATGCTCT-TCTAAACAGAGGC-ACCACGACTTTGAAAAATAAATTGCTCCT
13748390 TGACAATCCT
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
82 10 0.08
83 56 0.45
84 59 0.47
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (82 bp):
AAAAATAAATGCTCTTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAG
AGCCACCAAAACTTTTG
Found at i:13748754 original size:41 final size:43
Alignment explanation
Indices: 13748617--13748754 Score: 131
Period size: 47 Copynumber: 3.2 Consensus size: 43
13748607 TTTCAAAGAG
*
13748617 TCTCATTTGAATTTTGGAGATTCACATCCAAAAGTTCAAAGCTT
1 TCTCATTTAAATTTTGGAGATT-ACATCCAAAAGTTCAAAGCTT
* * * * * *
13748661 CTCACATTCGACAAATTCGG-GGTTCACATCCAAAAAGTTTAAAGCTT
1 -TCTCATT-TA-AATTTTGGAGATT-ACATCC-AAAAGTTCAAAGCTT
13748708 T-TCATTTAAATTTTGGAGATT-CATCCAAAAGTTCAAAG-TT
1 TCTCATTTAAATTTTGGAGATTACATCCAAAAGTTCAAAGCTT
13748748 TCTCATT
1 TCTCATT
13748755 CAAGTTCAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
40 3 0.04
41 16 0.21
42 5 0.07
43 6 0.08
44 4 0.05
45 10 0.13
46 11 0.15
47 20 0.27
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (43 bp):
TCTCATTTAAATTTTGGAGATTACATCCAAAAGTTCAAAGCTT
Found at i:13749021 original size:46 final size:46
Alignment explanation
Indices: 13748949--13749173 Score: 272
Period size: 46 Copynumber: 4.8 Consensus size: 46
13748939 TTCACACCTC
*
13748949 AAAGATTCTCATTTAAGACTCGAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTT
* **
13748995 AAAGGTTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTT
* *
13749041 AAAGATTCTCATTTAAAAACGTCTTAAAGATTCTCATTTAAAAACATCTT
1 AAAGATTCTCATTT-AAGAC-TC--AAAGATTCTCATTTGAAAACATCTT
* **
13749091 AAAGATTCTCATTTAAGACTCAAAGATTCTCA-TTCAAAATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTT
* * *
13749136 AAAGATTCGCATTTGAAATGTCTTAAAGATTCTCATTT
1 AAAGATTCTCATTT--AA-GACTCAAAGATTCTCATTT
13749174 AAGAAATCAG
Statistics
Matches: 155, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
45 23 0.15
46 66 0.43
47 6 0.04
48 18 0.12
49 6 0.04
50 36 0.23
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTT
Found at i:13749050 original size:25 final size:25
Alignment explanation
Indices: 13748971--13749173 Score: 219
Period size: 25 Copynumber: 8.5 Consensus size: 25
13748961 TTAAGACTCG
*
13748971 AAGATTCTCATTTGAAAACATCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
* *
13748996 AAGGTTCTCATTT-AAGAC-TC--A
1 AAGATTCTCATTTGAAAACGTCTTA
*
13749017 AAGATTCTCATTTGAAAATGTCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
*
13749042 AAGATTCTCATTTAAAAACGTCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
* *
13749067 AAGATTCTCATTTAAAAACATCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
*
13749092 AAGATTCTCATTT-AAGAC-TC--A
1 AAGATTCTCATTTGAAAACGTCTTA
* **
13749113 AAGATTCTCA-TTCAAAATTTCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
* *
13749137 AAGATTCGCATTTG-AAATGTCTTA
1 AAGATTCTCATTTGAAAACGTCTTA
13749161 AAGATTCTCATTT
1 AAGATTCTCATTT
13749174 AAGAAATCAG
Statistics
Matches: 154, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.01
21 27 0.18
22 5 0.03
23 6 0.04
24 39 0.25
25 75 0.49
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (25 bp):
AAGATTCTCATTTGAAAACGTCTTA
Found at i:13749109 original size:96 final size:94
Alignment explanation
Indices: 13748971--13749175 Score: 329
Period size: 96 Copynumber: 2.2 Consensus size: 94
13748961 TTAAGACTCG
* * *
13748971 AAGATTCTCATTTGAAAACATCTTAAAGGTTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
1 AAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCA-TTCAAAAT
*
13749036 GTCTTAAAGATTCTCATTTAAAAACGTCTTA
65 GTCTTAAAGATTCGCATTT-AAAACGTCTTA
*
13749067 AAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCAAAATT
1 AAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCAAAATG
* *
13749132 TCTTAAAGATTCGCATTTGAAATGTCTTA
66 TCTTAAAGATTCGCATTTAAAACGTCTTA
13749161 AAGATTCTCATTTAA
1 AAGATTCTCATTTAA
13749176 GAAATCAGGA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 24 0.24
95 24 0.24
96 54 0.53
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (94 bp):
AAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCAAAATG
TCTTAAAGATTCGCATTTAAAACGTCTTA
Found at i:13750390 original size:11 final size:10
Alignment explanation
Indices: 13750371--13750436 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
13750361 CTCATTTATA
13750371 TTTTTTTTTC
1 TTTTTTTTTC
13750381 TTTTTGTTTTC
1 TTTTT-TTTTC
*
13750392 TCTATTTTTT-
1 T-TTTTTTTTC
* *
13750402 GTTTTATTTC
1 TTTTTTTTTC
* *
13750412 TTTTCTTATC
1 TTTTTTTTTC
*
13750422 TTTTTTATTC
1 TTTTTTTTTC
13750432 TTTTT
1 TTTTT
13750437 ATTCTTTTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
9 6 0.14
10 23 0.55
11 10 0.24
12 3 0.07
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:13750398 original size:25 final size:24
Alignment explanation
Indices: 13750369--13750463 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 24
13750359 CTCTCATTTA
*
13750369 TATTTTTTTTTCTTTTTGTTTTCT
1 TATTTTTTTTTCTTTTTCTTTTCT
*
13750393 CTATTTTTTGTTT-TATTTCTTTTCT
1 -TATTTTTT-TTTCTTTTTCTTTTCT
*
13750418 TATCTTTTTTATTCTTTTTATTCTTTTAT
1 TAT-TTTTTT-TTC--TTT-TTCTTTTCT
13750447 TCATTTTTTTTCTCTTT
1 T-ATTTTTTTT-TCTTT
13750464 CACCTATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
24 4 0.07
25 25 0.44
26 3 0.05
27 3 0.05
28 3 0.05
29 17 0.30
30 2 0.04
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (24 bp):
TATTTTTTTTTCTTTTTCTTTTCT
Found at i:13750415 original size:31 final size:32
Alignment explanation
Indices: 13750355--13750415 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
13750345 CAAATTGCCC
13750355 TTTTCTCTCATTTATATTTTTTTTTCTTTTTG
1 TTTTCTCTCATTTATATTTTTTTTTCTTTTTG
13750387 TTTTCTCT-ATTT-T-TTGTTTTATTTCTTTT
1 TTTTCTCTCATTTATATT-TTTT-TTTCTTTT
13750416 CTTATCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 5 0.19
31 12 0.44
32 8 0.30
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.77
Consensus pattern (32 bp):
TTTTCTCTCATTTATATTTTTTTTTCTTTTTG
Found at i:13750425 original size:10 final size:10
Alignment explanation
Indices: 13750403--13750457 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
13750393 CTATTTTTTG
13750403 TTTTATTTCTT
1 TTTTA-TTCTT
13750414 TTCTTA-TCTT
1 TT-TTATTCTT
13750424 TTTTATTC-T
1 TTTTATTCTT
13750433 TTTTATTCTT
1 TTTTATTCTT
13750443 TTATTCATT-TT
1 TT-TT-ATTCTT
13750454 TTTT
1 TTTT
13750458 CTCTTTCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
9 12 0.31
10 13 0.33
11 8 0.21
12 6 0.15
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTATTCTT
Found at i:13750444 original size:18 final size:19
Alignment explanation
Indices: 13750423--13750459 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
13750413 TTTCTTATCT
13750423 TTTTTATTC-TTTTTATTC
1 TTTTTATTCATTTTTATTC
*
13750441 -TTTTATTCATTTTTTTTC
1 TTTTTATTCATTTTTATTC
13750459 T
1 T
13750460 CTTTCACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 3
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTCATTTTTATTC
Found at i:13750446 original size:17 final size:18
Alignment explanation
Indices: 13750424--13750459 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13750414 TTCTTATCTT
13750424 TTTTATTC-TTTTTATTC
1 TTTTATTCATTTTTATTC
*
13750441 TTTTATTCATTTTTTTTC
1 TTTTATTCATTTTTATTC
13750459 T
1 T
13750460 CTTTCACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATTCATTTTTATTC
Found at i:13750456 original size:21 final size:18
Alignment explanation
Indices: 13750412--13750463 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
13750402 GTTTTATTTC
*
13750412 TTTTCTTATCTTTTTTAT
1 TTTTTTTATCTTTTTTAT
*
13750430 TCTTTTTATTCTTTTATTCAT
1 TTTTTTTA-TCTTTT-TT-AT
*
13750451 TTTTTTTCTCTTT
1 TTTTTTTATCTTT
13750464 CACCTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.22
19 6 0.22
20 7 0.26
21 8 0.30
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTTATCTTTTTTAT
Found at i:13754595 original size:59 final size:58
Alignment explanation
Indices: 13754527--13754663 Score: 136
Period size: 60 Copynumber: 2.3 Consensus size: 58
13754517 GCATTTGGAG
* ** * **
13754527 TTTTTATTTTAAGAAAAATTGATGCTTTTAACTTTTTCTTAAAATGT-TTTTCTT-GATAA
1 TTTTTATTTT-AGAAAAATTGATACTTCCAACTTTTCCCCAAAATGTGTTTT-TTGGA-AA
* *
13754586 TTTTTATTTTTGTGAAAAATTGGTACTTCCAACTTTTCCCCAAAATGTGTTTTTTGGAAA
1 TTTTTA-TTTT-AGAAAAATTGATACTTCCAACTTTTCCCCAAAATGTGTTTTTTGGAAA
13754646 -TTTTATTTTAGAAAAATT
1 TTTTTATTTTAGAAAAATT
13754664 TTAAGAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
57 8 0.12
58 4 0.06
59 11 0.17
60 36 0.55
61 6 0.09
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (58 bp):
TTTTTATTTTAGAAAAATTGATACTTCCAACTTTTCCCCAAAATGTGTTTTTTGGAAA
Found at i:13754888 original size:4 final size:4
Alignment explanation
Indices: 13754879--13754942 Score: 59
Period size: 4 Copynumber: 17.5 Consensus size: 4
13754869 AAATACTCTA
* * *
13754879 AAAT AAAT AAAT AAAC ACAC AAAT AAAT -AAT -AAT -AAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
13754922 -AAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AA
13754943 TACAAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 18 0.33
4 37 0.67
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13758739 original size:30 final size:30
Alignment explanation
Indices: 13758703--13758802 Score: 121
Period size: 30 Copynumber: 3.3 Consensus size: 30
13758693 ATTTATATTA
13758703 AAAAATTTATTT-AAGTACAAATTAAAAATT
1 AAAAATTTATTTGAA-TACAAATTAAAAATT
*
13758733 AAAAATTTATTTGAATACGAATTAAAAATT
1 AAAAATTTATTTGAATACAAATTAAAAATT
* * * * *
13758763 AAGAATTTATTTGAATATAAATCAAAGACT
1 AAAAATTTATTTGAATACAAATTAAAAATT
*
13758793 AAAGATTTAT
1 AAAAATTTAT
13758803 GAAAATACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
30 58 0.97
31 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (30 bp):
AAAAATTTATTTGAATACAAATTAAAAATT
Found at i:13761082 original size:22 final size:22
Alignment explanation
Indices: 13761054--13761110 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 22
13761044 TCATAACCTT
*
13761054 TTATTGTTTAACATTCGGATAA
1 TTATTGTTTAACATTCCGATAA
*
13761076 TTATTGTTAGTTTAACATTCCGATGA
1 TTA---TT-GTTTAACATTCCGATAA
13761102 TTATTGTTT
1 TTATTGTTT
13761111 TGTTTTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
25 2 0.07
26 18 0.62
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (22 bp):
TTATTGTTTAACATTCCGATAA
Found at i:13761088 original size:26 final size:26
Alignment explanation
Indices: 13761059--13761109 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13761049 ACCTTTTATT
*
13761059 GTTTAACATTCGGATAATTATTGTTA
1 GTTTAACATTCCGATAATTATTGTTA
*
13761085 GTTTAACATTCCGATGATTATTGTT
1 GTTTAACATTCCGATAATTATTGTT
13761110 TTGTTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (26 bp):
GTTTAACATTCCGATAATTATTGTTA
Found at i:13776383 original size:15 final size:13
Alignment explanation
Indices: 13776337--13776390 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
13776327 CTTAAATAAA
*
13776337 AAATATTTTAATT
1 AAATTTTTTAATT
*
13776350 AAATATTTTAATT
1 AAATTTTTTAATT
*
13776363 ATATTTTTATATATT
1 AAATTTTT-TA-ATT
13776378 AAATTTTTTAATT
1 AAATTTTTTAATT
13776391 TTTAACATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 22 0.61
14 4 0.11
15 10 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATTTTTTAATT
Found at i:13776498 original size:11 final size:11
Alignment explanation
Indices: 13776484--13776511 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13776474 ATCAATATTT
13776484 AAAAAAAATTA
1 AAAAAAAATTA
13776495 AAAAAAAATTA
1 AAAAAAAATTA
13776506 AAAAAA
1 AAAAAA
13776512 TTTATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:13777403 original size:10 final size:10
Alignment explanation
Indices: 13777388--13777432 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
13777378 CAGTGGAATT
13777388 TTTTTTAGAA
1 TTTTTTAGAA
13777398 TTTTTTAGAA
1 TTTTTTAGAA
*
13777408 -ATTTT--AA
1 TTTTTTAGAA
13777415 TTTATTTAGAA
1 TTT-TTTAGAA
13777426 TTTTTTA
1 TTTTTTA
13777433 ATTTGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
7 2 0.07
8 1 0.03
9 7 0.24
10 14 0.48
11 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:13777424 original size:18 final size:18
Alignment explanation
Indices: 13777396--13777436 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
13777386 TTTTTTTTAG
13777396 AATTTTTTAGAA-ATTTT
1 AATTTTTTAGAATATTTT
*
13777413 AATTTATTTAGAATTTTTT
1 AATTT-TTTAGAATATTTT
13777432 AATTT
1 AATTT
13777437 GTTTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
AATTTTTTAGAATATTTT
Found at i:13778578 original size:15 final size:14
Alignment explanation
Indices: 13778545--13778576 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13778535 CCCAAAATAC
*
13778545 TTTTAGAATTTTTA
1 TTTTAGAAATTTTA
13778559 TTTTAGAAATTTTA
1 TTTTAGAAATTTTA
13778573 TTTT
1 TTTT
13778577 TAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTAGAAATTTTA
Found at i:13778656 original size:59 final size:56
Alignment explanation
Indices: 13778559--13778677 Score: 166
Period size: 59 Copynumber: 2.1 Consensus size: 56
13778549 AGAATTTTTA
* *
13778559 TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCTTAAAATGC
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATAATTTCAACTTTCCCTTAAAATGC
* * *
13778615 TTTTAAAAATTTTATTTTTTTAAAGAAAAATTGATAATTTCAATTTTTCCTTAAAATGT
1 TTTTAAAAATTTTA--TTTTT-AAGAAAAATTGATAATTTCAACTTTCCCTTAAAATGC
13778674 TTTT
1 TTTT
13778678 TTAATTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
56 13 0.24
58 5 0.09
59 37 0.67
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (56 bp):
TTTTAAAAATTTTATTTTTAAGAAAAATTGATAATTTCAACTTTCCCTTAAAATGC
Found at i:13778757 original size:32 final size:33
Alignment explanation
Indices: 13778706--13778776 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
13778696 TTCATGCTAA
*
13778706 AAAAAATACTCTAAAAAATAAATAAATAAA-AAC
1 AAAAAATACTATAAAAAATAAATAAA-AAATAAC
* *
13778739 AAAAAATA-TATAATAAATAAATAAAAAATAGC
1 AAAAAATACTATAAAAAATAAATAAAAAATAAC
13778771 AAAAAA
1 AAAAAA
13778777 AATCGAAGCG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 3 0.09
32 23 0.68
33 8 0.24
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (33 bp):
AAAAAATACTATAAAAAATAAATAAAAAATAAC
Found at i:13779859 original size:46 final size:45
Alignment explanation
Indices: 13779761--13779862 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 45
13779751 TAAATTGCTT
* * * *
13779761 CTCTAAACAGAGGCTCAACAACTTTTAAAAAAATAAACAAAGTTT
1 CTCTAATCAGAAGCTCAACAACTTTTAAAAAAATAAACAAAGCTC
* * * *
13779806 ATTTAATCAGAAGCTCAACAAACTTTTGAAAAAATAAATAAAGCTC
1 CTCTAATCAGAAGCTCAAC-AACTTTTAAAAAAATAAACAAAGCTC
13779852 CTCTAATCAGA
1 CTCTAATCAGA
13779863 GGTACCACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
45 15 0.33
46 31 0.67
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (45 bp):
CTCTAATCAGAAGCTCAACAACTTTTAAAAAAATAAACAAAGCTC
Found at i:13779906 original size:42 final size:42
Alignment explanation
Indices: 13779830--13779975 Score: 127
Period size: 42 Copynumber: 3.5 Consensus size: 42
13779820 TCAACAAACT
* * *
13779830 TTTGAAAAAATAAATAAAGCTCCTCTAATCAGAGGTACCACAAC
1 TTTGAAAAAATAAAT--TGCTTCTCTAAACAGAGGTACCACAAC
* * *
13779874 TTTGAAAAAATAGATTGCTTCTCTAAACAGAGGCACCACAAA
1 TTTGAAAAAATAAATTGCTTCTCTAAACAGAGGTACCACAAC
* * * * *
13779916 TTT-AAAAAGTAAATTGC-TCATCTAAATAGAGGCAACTATAAC
1 TTTGAAAAAATAAATTGCTTC-TCTAAACAGAGG-TACCACAAC
*
13779958 TTTG-AAAAATAAAATGCT
1 TTTGAAAAAATAAATTGCT
13779976 CCTTAACAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 23 0.28
42 44 0.53
44 14 0.17
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (42 bp):
TTTGAAAAAATAAATTGCTTCTCTAAACAGAGGTACCACAAC
Found at i:13780685 original size:22 final size:21
Alignment explanation
Indices: 13780656--13780696 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13780646 TATTCTTATT
* *
13780656 TTGAAACTCAAAGATTCTCCA
1 TTGAAACTAAAAAATTCTCCA
13780677 TTGAGAACTAAAAAATTCTC
1 TTGA-AACTAAAAAATTCTC
13780697 ATCAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (21 bp):
TTGAAACTAAAAAATTCTCCA
Found at i:13781148 original size:63 final size:62
Alignment explanation
Indices: 13781061--13781220 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
13781051 TTTGTCATTC
* * * *
13781061 ATCACTTGATCATCGTTCACGGGCTTTTCAGTACTAGCCATTTCAGAACAAATTTCATCTTTT
1 ATCACTTG-TCATCGTTCATGGGCTTCTCAGTACTAGCCATTTCAGAACAAATTTCATCCTCT
* * *
13781124 ATCACTTAGTCATCATTCATGGGCTTCTCAATACTAGCCATTTTAGAACAAATTTCATCCTCT
1 ATCACTT-GTCATCGTTCATGGGCTTCTCAGTACTAGCCATTTCAGAACAAATTTCATCCTCT
* * *
13781187 ATCACTTTGCCATTGGTCATGGGCTTCTCAGTAC
1 ATCAC-TTGTCATCGTTCATGGGCTTCTCAGTAC
13781221 CAGTTTCATC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 80 0.96
64 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (62 bp):
ATCACTTGTCATCGTTCATGGGCTTCTCAGTACTAGCCATTTCAGAACAAATTTCATCCTCT
Found at i:13782334 original size:12 final size:11
Alignment explanation
Indices: 13782313--13782353 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
13782303 GTGGCATTCA
*
13782313 TTTTCCTTTTT
1 TTTTTCTTTTT
*
13782324 GTTTTCTTTTT
1 TTTTTCTTTTT
13782335 TTCTTTCTTTTT
1 TT-TTTCTTTTT
13782347 TTTTTCT
1 TTTTTCT
13782354 ATCTTTGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:13782350 original size:15 final size:15
Alignment explanation
Indices: 13782330--13782359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13782320 TTTTGTTTTC
*
13782330 TTTTTTTCTTTCTTT
1 TTTTTTTCTATCTTT
13782345 TTTTTTTCTATCTTT
1 TTTTTTTCTATCTTT
13782360 GAGACCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTATCTTT
Found at i:13786093 original size:61 final size:64
Alignment explanation
Indices: 13785966--13786095 Score: 142
Period size: 61 Copynumber: 2.1 Consensus size: 64
13785956 TTTTTCTTAA
* * ** **
13785966 TTTTTCTTGATAATTTTTATTTTTAAGAAAAATGGATACTTCCAACTTTTCCTCGAAATGTTTT
1 TTTTTCTTGATAATTTTTAATTTCAAGAAAAATGGATACTTCCAACTTTTCCTAAAAATGCATT
* * *
13786030 TTTTTC-TGA-AA-TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTTCTAAAAAT-CATT
1 TTTTTCTTGATAATTTTTAATTTCAAGAAAAATGGATACTTCCAAC-TTTTCCTAAAAATGCATT
13786091 TTTTT
1 TTTTT
13786096 AAGCTTTTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
61 35 0.62
62 12 0.21
63 3 0.05
64 6 0.11
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (64 bp):
TTTTTCTTGATAATTTTTAATTTCAAGAAAAATGGATACTTCCAACTTTTCCTAAAAATGCATT
Found at i:13786690 original size:11 final size:11
Alignment explanation
Indices: 13786646--13786691 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
13786636 AGCAAATGCG
13786646 TCTTCTTTCT-
1 TCTTCTTTCTC
13786656 TCTCTCTTT-TC
1 TCT-TCTTTCTC
* *
13786667 CCTTCTTTTTC
1 TCTTCTTTCTC
13786678 TCTTCTTTCTC
1 TCTTCTTTCTC
13786689 TCT
1 TCT
13786692 AAACAAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTCTTTCTC
Found at i:13796419 original size:24 final size:24
Alignment explanation
Indices: 13796392--13796437 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13796382 ATTTTACGAT
* *
13796392 TTTTAATATTTAAAAACAAAATAA
1 TTTTAAAATATAAAAACAAAATAA
*
13796416 TTTTAAAATATAAAAATAAAAT
1 TTTTAAAATATAAAAACAAAAT
13796438 TTTAGACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTTTAAAATATAAAAACAAAATAA
Found at i:13798421 original size:17 final size:19
Alignment explanation
Indices: 13798399--13798433 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13798389 TATAATTATT
13798399 TTTAAT-TATT-TATTTAA
1 TTTAATATATTATATTTAA
13798416 TTTAATATATTATATTTA
1 TTTAATATATTATATTTA
13798434 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATATATTATATTTAA
Found at i:13798473 original size:20 final size:21
Alignment explanation
Indices: 13798426--13798478 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
13798416 TTTAATATAT
13798426 TATATTTATATTAAAAAATAA
1 TATATTTATATTAAAAAATAA
*
13798447 TAT-TTTATATTTAAAAA-AA
1 TATATTTATATTAAAAAATAA
*
13798466 TCTATTTA-ATTAA
1 TATATTTATATTAA
13798479 TTTCGGATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.29
20 17 0.61
21 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATTTATATTAAAAAATAA
Found at i:13806951 original size:146 final size:145
Alignment explanation
Indices: 13806708--13807146 Score: 637
Period size: 147 Copynumber: 3.0 Consensus size: 145
13806698 CGTTTGGTAA
* * *
13806708 TAACAAATGCCTTCAGTAATTTCCCTT-TAAAAAATTTTGGGATTATTAAAGGTGTCTTCTACTG
1 TAACAAACGTCTTTAGTAATTT-CCTTCTAAAAAATTTT-GGATTATTAAAGGTGTCTTCTACTG
* * ***
13806772 ACAAACGCCTTTAATAATTCTTTTTAAATTTTCTACATAAATATTGAAGTTGTTTATTGATAATA
64 ACAAACACCTTTAATAATTCCTTTTAAATTTTCTACATAAATATTGAAGGCATTTATTGATAATA
13806837 AATGCCTTTAATAATTT
129 AATGCCTTTAATAATTT
*
13806854 TAACAAACGTCTTTAGTAATTTCCTTCTAAAAAATTTTGGAATTATTAAAGGCGTCTTCTACTGA
1 TAACAAACGTCTTTAGTAATTTCCTTCTAAAAAATTTTGG-ATTATTAAAGGTGTCTTCTACTGA
* *
13806919 CAAACACCTTCAATAATTCCTTTTAAAATTTCTACATAAATATTGAAGGCATTTATTGATAATAA
65 CAAACACCTTTAATAATTCCTTTTAAATTTTCTACATAAATATTGAAGGCATTTATTGATAAT-A
** *
13806984 AACACCTTCAATAATTT
129 AATGCCTTTAATAATTT
* * * *
13807001 CAACAAACATCTTTAGTAATTTCCCTCTAAAAAATTTTAGGATTATTAAAGATGTCTTCTACTGA
1 TAACAAACGTCTTTAGTAATTTCCTTCTAAAAAATTTT-GGATTATTAAAGGTGTCTTCTACTGA
* *
13807066 CAAACACCTTTAATAATTCCTTTTAAATTTTTTACATAAATAGTGAAGGCATTTATTGATAATAA
65 CAAACACCTTTAATAATTCCTTTTAAATTTTCTACATAAATATTGAAGGCATTTATTGATAATAA
*
13807131 ATGCCTTTACTAATTT
130 ATGCCTTTAATAATTT
13807147 CCTTCTAAAA
Statistics
Matches: 262, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
145 6 0.02
146 123 0.47
147 131 0.50
148 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (145 bp):
TAACAAACGTCTTTAGTAATTTCCTTCTAAAAAATTTTGGATTATTAAAGGTGTCTTCTACTGAC
AAACACCTTTAATAATTCCTTTTAAATTTTCTACATAAATATTGAAGGCATTTATTGATAATAAA
TGCCTTTAATAATTT
Found at i:13808203 original size:80 final size:80
Alignment explanation
Indices: 13808069--13808316 Score: 347
Period size: 80 Copynumber: 3.1 Consensus size: 80
13808059 CTTAAATATT
*
13808069 ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTGAATGGTATTAG-ATGATATTAGAGGG
1 ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTAAATGGTATT-GTATGATATTAGAGGG
*
13808133 CTGAATCGTATACTGA
65 CTGAATCGTATGCTGA
* * * * *
13808149 ATGGTTTGTTGAACCTTATTGTCTGATATTGTTTTGCCAAATGGCATTGTATGATATTAG-GAGG
1 ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTAAATGGTATTGTATGATATTAGAG-GG
* *
13808213 CTGAATCATATGCTAA
65 CTGAATCGTATGCTGA
* * * *
13808229 ATGGTTTGCTAAACCTTGTTGTCTGATATTATTTTGCTAAATGGTTTTGTATGATATTGGAGGGT
1 ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTAAATGGTATTGTATGATATTAGAGGGC
13808294 TGAATCGTATGCTGA
66 TGAATCGTATGCTGA
13808309 ATGGTTTG
1 ATGGTTTG
13808317 TTTGAGTGGT
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 142 0.98
81 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (80 bp):
ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTAAATGGTATTGTATGATATTAGAGGGC
TGAATCGTATGCTGA
Found at i:13812042 original size:62 final size:61
Alignment explanation
Indices: 13811976--13812163 Score: 166
Period size: 62 Copynumber: 3.0 Consensus size: 61
13811966 TCATTTTAAG
13811976 CCAAAAATGCCTTCAAGCATCCGTTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGA
1 CCAAAAATGCCTTCAAGCATCC-TTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGA
** * ** ** * * **
13812038 CCAAAAACACCTTTAATAATCAC-AACAACAATTTAT-TGATTGGATTA-TAGAAGGCGAGTTCG
1 CCAAAAATGCCTTCAAGCATC-CTTCCAAC-TTTTGTCT-A-TGGATTACTA-AAGGCGTTTTCG
*
13812100 G
61 A
* *
13812101 CTAAAAATGCCTTCAAGCATCCATTCCAACTTTTGTCTATGGATTACTGAAGGCGTTTTCGA
1 CCAAAAATGCCTTCAAGCATCC-TTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGA
13812163 C
1 C
13812164 ATAAAACACC
Statistics
Matches: 91, Mismatches: 26, Indels: 18
0.67 0.19 0.13
Matches are distributed among these distances:
61 5 0.05
62 42 0.46
63 39 0.43
64 5 0.05
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (61 bp):
CCAAAAATGCCTTCAAGCATCCTTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGA
Found at i:13812128 original size:125 final size:126
Alignment explanation
Indices: 13811976--13812243 Score: 468
Period size: 125 Copynumber: 2.1 Consensus size: 126
13811966 TCATTTTAAG
*
13811976 CCAAAAATGCCTTCAAGCATCCGTTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGACCA
1 CCAAAAATGCCTTCAAGCATCCATTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGA-CA
*
13812041 -AAAACACCTTTAATAATCACAACAACAA-TTTATTGATTGGATTATAGAAGGCGAGTTCGG
65 TAAAACACCTTTAATAATCACAACAACAATTTTATTGATTGGATTATAGAAGGCGAGTTCGA
* *
13812101 CTAAAAATGCCTTCAAGCATCCATTCCAACTTTTGTCTATGGATTACTGAAGGCGTTTTCGACAT
1 CCAAAAATGCCTTCAAGCATCCATTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGACAT
*
13812166 AAAACACCTTTAATAATCACAACAACAATTTTATTGATTGGATTATAGAAGGCGAGTTTGA
66 AAAACACCTTTAATAATCACAACAACAATTTTATTGATTGGATTATAGAAGGCGAGTTCGA
13812227 CCAAAAATGCCTTCAAG
1 CCAAAAATGCCTTCAAG
13812244 AGTCGGCTAC
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
124 2 0.01
125 87 0.64
126 46 0.34
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (126 bp):
CCAAAAATGCCTTCAAGCATCCATTCCAACTTTTGTCTATGGATTACTAAAGGCGTTTTCGACAT
AAAACACCTTTAATAATCACAACAACAATTTTATTGATTGGATTATAGAAGGCGAGTTCGA
Found at i:13814387 original size:23 final size:21
Alignment explanation
Indices: 13814336--13814390 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
13814326 AGTTTTACTT
* *
13814336 ATAATCAAGTATTACATTTGT
1 ATAATCAATTATTACATTTGA
13814357 ATAATCAATTATTACATCATTGA
1 ATAATCAATTATTACAT--TTGA
13814380 ATAATCAATTA
1 ATAATCAATTA
13814391 ATAAACTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.53
23 14 0.47
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATCAATTATTACATTTGA
Found at i:13827325 original size:24 final size:24
Alignment explanation
Indices: 13827298--13827353 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
13827288 TATGCTTAAA
13827298 GAAAAAAAAG-GTAAAAA-AAGAAAT
1 GAAAAAAAAGAG-AAAAAGAA-AAAT
13827322 GAAAAAAAAGAGAAAAATGAAAAAT
1 GAAAAAAAAGAGAAAAA-GAAAAAT
13827347 GAAAAAA
1 GAAAAAA
13827354 TGAAAAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 15 0.52
25 12 0.41
26 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAGAAAAAT
Found at i:13827328 original size:15 final size:15
Alignment explanation
Indices: 13827310--13827360 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
13827300 AAAAAAAGGT
13827310 AAAAAAAGAAATGAA
1 AAAAAAAGAAATGAA
13827325 AAAAAAGAGAAAAATGAA
1 AAAAAA-AG--AAATGAA
*
13827343 AAATGAAA-AAATGAA
1 AAA-AAAAGAAATGAA
13827358 AAA
1 AAA
13827361 GAGGACTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 16 0.52
16 2 0.06
18 11 0.35
19 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAAATGAA
Found at i:13827345 original size:8 final size:8
Alignment explanation
Indices: 13827318--13827360 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
13827308 GTAAAAAAAG
13827318 AAATGAAAA
1 AAATG-AAA
*
13827327 AAAAGAGAA
1 AAATGA-AA
13827336 AAATG-AA
1 AAATGAAA
13827343 AAATGAAA
1 AAATGAAA
13827351 AAATGAAA
1 AAATGAAA
13827359 AA
1 AA
13827361 GAGGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.23
8 13 0.43
9 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (8 bp):
AAATGAAA
Found at i:13828433 original size:40 final size:42
Alignment explanation
Indices: 13828378--13828515 Score: 171
Period size: 41 Copynumber: 3.4 Consensus size: 42
13828368 ATGATTGTTG
* * *
13828378 AGGAGCCTTTTATTTTTCAAAGTTATGGTGCC-CTGTTTA-A
1 AGGAGCATTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAGA
* *
13828418 AGGAGCATTTTATTTTTCAAAGTTGTGATACCTTTGTTTAGA
1 AGGAGCATTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAGA
*
13828460 A-GAGCATTTTATTTTTCAAAGTTGTGGTACCTATGTTT-G-
1 AGGAGCATTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAGA
*
13828499 AGGAGCA-GTTATTTTTC
1 AGGAGCATTTTATTTTTC
13828516 TCAAAGTCAG
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
39 10 0.11
40 34 0.39
41 41 0.47
42 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (42 bp):
AGGAGCATTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAGA
Found at i:13834538 original size:131 final size:129
Alignment explanation
Indices: 13834391--13835606 Score: 800
Period size: 131 Copynumber: 9.3 Consensus size: 129
13834381 GTGTAATTGA
* * *
13834391 ATTTTTTAATATTTTATACAATGACAAAAAAATTTATTACAAAAAATTTGATCATATTTGTAATA
1 ATTTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAATA
* * * * * * * *
13834456 AAAACAAATAATAGTTAC-ATAAATTTATTTTATTTGCAATGATTATTCACA-ATCGTTGCTTAA
66 AAAA-AAA-AGTAGTTGCGA-AAACTTGTTTTATTTGCAACGATTTTTCA-ATGTAGTTGCTTAA
13834519 TTT
127 TTT
* * * * ** * *
13834522 ATTTTTTAATATTTTATATAATGATATATAAAGTTGTTATGAAAATTTTGATAATATTTGTAACG
1 ATTTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAA-T
* * * *
13834587 ATAACATAAAGTTGTTGCGAAAACTTGTTTTATTTGCAACCATTTTTC-A--TAGTTGCTTAAGT
65 A-AAAAAAAAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTAA-T
*
13834649 TGC
128 T-T
* ** * * *
13834652 A-TGTTTAATATTTTATACAACAACAAAAAAAGTTGTTACAAAAAATTTGATTATATTTGTAACG
1 ATTTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAA-T
* * * * *
13834716 ACAAAAAAAGTTGTTGC-ATAAACTTGTTTTATTTACAACGATTTTTCGAA-GTTGTTGCTTAAG
65 AAAAAAAAAGTAGTTGCGA-AAACTTGTTTTATTTGCAACGATTTTTC-AATGTAGTTGCTTAAT
13834779 TT
128 TT
* * * *
13834781 ATCTTTTTAATATTTTATACAACGATAAAAAAAATTGTTACAACAAAATTT-ATCATATTTGT-A
1 AT-TTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAA-AAATTTTGATCATATTTGTAA
* * * * * * *
13834844 TCGACAAAAAAAGTTGTTGTGAAAACTTGTTTTATTGGCAACAATTTTTCAATTTAATTGCTTAA
64 T--AAAAAAAAAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTAA
13834909 TTT
127 TTT
* * * *
13834912 ATTTTTTTAATATTTTATACAATGAC-AAAAAATTTGGTACAAAATTTTTTTATCATATTTGTAA
1 A-TTTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAAAA-ATTTTGATCATATTTGTAA
* * * *
13834976 TGATAAAAAATTATTA-TTGCGAAAACTTATTTTATTTGCAACGATTTTTCAATGTTGTTGCTTA
64 T-A-AAAAAA-AAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTA
13835040 ATTT
126 ATTT
* * * * * *
13835044 ATTTTTTAAAAATTTTAT---AGGACAAAAAAAGTTATTACAAAAATTTTTATTACATTTGTAAT
1 ATTTTTT-AATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAAT
** * * * * *
13835106 GATAAAATATTAGTA-TTACGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTCGCTACTTAA
65 -A-AAAA-AAAAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTAA
13835170 TTTT
127 -TTT
* ** *
13835174 ATTTTTTAAAAAATTACTTACAATGACAAAAAAA-TTGTTACAAAAATTTTTATCATATTTGTAA
1 ATTTTTTAATATTTTA--TACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAA
* * ** * ** * ** * *
13835238 CGACAAAATACTGTTGTTATGAAAACTTGTTTAATTTATAATGATTTTTCAATGTAGTTGCCTAA
64 -TA-AAAAAAAAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTAA
13835303 TTT
127 TTT
* * ** * * *
13835306 ATTTTTTAAAAATTTT-TACAAAGAC-AAAAAAGTTGTTATGAAAATTTTTATCACATTTGTAAC
1 ATTTTTT-AATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAAT
** * * * ** *
13835369 AATAAAATATTTGT-GTTGTGAAAACTTATTTTACTTGCAATTATTTTTCAATGTAAG-TGCTTG
65 AA-AAAA-A-AAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGT-AGTTGCTTA
13835432 ATTT
126 ATTT
* ** * * *
13835436 ATTTTTTAAAAAATTTTATACAACAAC-AAAAAA---GTTA-GAAAATTTTTATCATATTTAT-A
1 ATTTTTT--AATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAA
** * * * * *
13835495 TCGATAAAAAGTTA-TTGCTGCAAAAACTTATTTTATTTGTAATGAATTTT-AATTGTCA-TTGC
64 TAAAAAAAAAG-TAGTTGC-G--AAAACTTGTTTTATTTGCAACGATTTTTCAA-TGT-AGTTGC
13835557 TTAATTT
123 TTAATTT
** *
13835564 ATTTTTTAATATTTTTATACAACAATAAAAAAAAGTTGTTACA
1 ATTTTTTAATA-TTTTATACAATGA-CAAAAAAAGTTGTTACA
13835607 GATTCTATGT
Statistics
Matches: 880, Mismatches: 150, Indels: 108
0.77 0.13 0.09
Matches are distributed among these distances:
124 1 0.00
125 5 0.01
126 7 0.01
127 17 0.02
128 113 0.13
129 161 0.18
130 133 0.15
131 246 0.28
132 104 0.12
133 82 0.09
134 11 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (129 bp):
ATTTTTTAATATTTTATACAATGACAAAAAAAGTTGTTACAAAAATTTTGATCATATTTGTAATA
AAAAAAAAGTAGTTGCGAAAACTTGTTTTATTTGCAACGATTTTTCAATGTAGTTGCTTAATTT
Found at i:13835052 original size:262 final size:259
Alignment explanation
Indices: 13834392--13835606 Score: 1016
Period size: 263 Copynumber: 4.7 Consensus size: 259
13834382 TGTAATTGAA
* * *
13834392 TTTTTTAATATTTTATACAATGACAAAAAAATTTATTACAAAAAATTTGATCATATTTGTAAT-A
1 TTTTTTAATATTTTATACAATGAC-AAAAAATTTGTTACAAAAATTTTTATCATATTTGTAATGA
* * * * * * *
13834456 AAAACAAATAATAGTTACATAAATTTATTTTATTTGCAATGATTATTCACA-ATCGTTGCTTAAT
65 CAAA-AAATTATTGTTGCA-AAACTTATTTTATTTGCAATGATTTTTCA-ATGTCGTTGCTTAAT
* * * * ** * *
13834520 TTATTTTTTAATATTTTATATAATGATATATAAAGTTGTTATGAAAATTTTGATAATATTTGTAA
127 TTATTTTTTAATATTTTATACAACGATAAAAAAAGTTGTTACAAAAATTTT-ATCACATTTGTAA
* * *
13834585 CGATAACATAAAGTTGTTGCGAAAACTTGTTTTATTTGCAACCATTTTTC-A--TAGTTGCTTAA
191 CGATAA-AAAAAGTTGTTGCGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAATTGCTTAA
* **
13834647 GTTGC
255 TTTAT
* * ** * * * * *
13834652 ATGTTTAATATTTTATACAACAACAAAAAAAGTTGTTACAAAAAATTTGATTATATTTGTAACGA
1 TTTTTTAATATTTTATACAATGAC-AAAAAATTTGTTACAAAAATTTTTATCATATTTGTAATGA
* * * * *
13834717 CAAAAAA--AGTTGTTGCATAAACTTGTTTTATTTACAACGATTTTTCGAA-GTTGTTGCTTAAG
65 CAAAAAATTA-TTGTTGCA-AAACTTATTTTATTTGCAATGATTTTTC-AATGTCGTTGCTTAAT
* * *
13834779 TTATCTTTTTAATATTTTATACAACGATAAAAAAAATTGTTACAACAAAATTTATCATATTTGTA
127 TTAT-TTTTTAATATTTTATACAACGATAAAAAAAGTTGTTACAA-AAATTTTATCACATTTGTA
* * * * *
13834844 TCGACAAAAAAAGTTGTTGTGAAAACTTGTTTTATTGGCAACAATTTTTCAATTTAATTGCTTAA
190 ACGATAAAAAAAGTTGTTGCGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAATTGCTTAA
13834909 TTTAT
255 TTTAT
* *
13834914 TTTTTTAATATTTTATACAATGACAAAAAATTTGGTACAAAATTTTTTTATCATATTTGTAATGA
1 TTTTTTAATATTTTATACAATGACAAAAAATTTGTTACAAAA-ATTTTTATCATATTTGTAATGA
* * * *
13834979 TAAAAAATTATTATTGCGAAAACTTATTTTATTTGCAACGATTTTTCAATGTTGTTGCTTAATTT
65 CAAAAAATTATTGTTGC-AAAACTTATTTTATTTGCAATGATTTTTCAATGTCGTTGCTTAATTT
* * * * * *
13835044 ATTTTTTAAAAATTTTAT---AGGACAAAAAAAGTTATTACAAAAATTTTTATTACATTTGTAAT
129 ATTTTTT-AATATTTTATACAACGATAAAAAAAGTTGTTACAAAAA-TTTTATCACATTTGTAAC
* * * *** *
13835106 GATAAAATATTAG-TATTACGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTCGCTACTTAA
192 GATAAAA-A-AAGTTGTTGCGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAATTGCTTAA
13835170 TTT-T
255 TTTAT
* ** * *
13835174 ATTTTTTAAAAAATTACTTACAATGACAAAAAAATTGTTACAAAAATTTTTATCATATTTGTAAC
1 -TTTTTTAATATTTTA--TACAATGACAAAAAATTTGTTACAAAAATTTTTATCATATTTGTAAT
* * * * * ** * *
13835239 GACAAAATACTGTTGTTATG-AAAACTTGTTTAATTTATAATGATTTTTCAATGTAGTTGCCTAA
63 GACAAAAAATTATTG-T-TGCAAAACTTATTTTATTTGCAATGATTTTTCAATGTCGTTGCTTAA
* * * * *
13835303 TTTATTTTTTAAAAATTTT-TACAAAGA-CAAAAAAGTTGTTATGAAAATTTTTATCACATTTGT
126 TTTATTTTTT-AATATTTTATACAACGATAAAAAAAGTTGTTA-CAAAAATTTTATCACATTTGT
* * ** * * * ** *
13835366 AACAATAAAATATTTGTGTTGTGAAAACTTATTTTACTTGCAATTATTTTTCAATGTAAGTGCTT
189 AACGATAAAAAAAGT-TGTTGCGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAATTGCTT
*
13835431 GATTTAT
253 AATTTAT
* * ** * *
13835438 TTTTTAAAAAATTTTATACAACAACAAAAAA---GTTA-GAAAATTTTTATCATATTTAT-ATCG
1 TTTTT-TAATATTTTATACAATGACAAAAAATTTGTTACAAAAATTTTTATCATATTTGTAAT-G
* * * * * *
13835498 ATAAAAAGTTATTGCTGCAAAAACTTATTTTATTTGTAATGAATTTT-AATTGTCATTGCTTAAT
64 ACAAAAAATTATTGTTGC-AAAACTTATTTTATTTGCAATGATTTTTCAA-TGTCGTTGCTTAAT
*
13835562 TTATTTTTTAATATTTTTATACAACAATAAAAAAAAGTTGTTACA
127 TTATTTTTTAATA-TTTTATACAACGAT-AAAAAAAGTTGTTACA
13835607 GATTCTATGT
Statistics
Matches: 773, Mismatches: 144, Indels: 76
0.78 0.15 0.08
Matches are distributed among these distances:
256 2 0.00
257 6 0.01
258 78 0.10
259 97 0.13
260 148 0.19
261 98 0.13
262 161 0.21
263 164 0.21
264 19 0.02
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (259 bp):
TTTTTTAATATTTTATACAATGACAAAAAATTTGTTACAAAAATTTTTATCATATTTGTAATGAC
AAAAAATTATTGTTGCAAAACTTATTTTATTTGCAATGATTTTTCAATGTCGTTGCTTAATTTAT
TTTTTAATATTTTATACAACGATAAAAAAAGTTGTTACAAAAATTTTATCACATTTGTAACGATA
AAAAAAGTTGTTGCGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAATTGCTTAATTTAT
Found at i:13835206 original size:263 final size:258
Alignment explanation
Indices: 13834401--13835582 Score: 904
Period size: 262 Copynumber: 4.5 Consensus size: 258
13834391 ATTTTTTAAT
* * * *
13834401 ATTTTATACAATGACAAAAAAATTTATTACAAAAAATTTGATCATATTTGTAAT-AAAAACAAAT
1 ATTTTATACAATGAC-AAAAAA-TTGTTAC-AAAATTTTTATCATATTTGTAATGATAAA-AAAT
* * * * * * * * *
13834465 AATAGTTAC-ATAAATTTATTTTATTTGCAATGATTATTCACA-ATCGTTGCTTAATTTATTTTT
62 TATTGTTGCGA-AAACTTATTTTATTTACAACGATTTTTCA-ATGTTGTTGCTTAATTTATTTTT
* * * * * ** * * * * *
13834528 TAATATTTTATATAATGATATATAAAGTTGTTATGAAAATTTTGATAATATTTGTAACGATAACA
125 TAAAAATTT-TATAA-GACAAAAAAAGTTGTTACAAAAATTTTTATCACATTTGTAATGATAAAA
* * * *
13834593 TA-AAGTTGTTGCGAAAACTTGTTTTATTTGCAACCATTTTTC-A--TAGTTGCTTAAGTTGCA-
188 TATTAG-TGTTGTGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAG-TGCTTAA-TT-TAT
* *
13834653 TGTTT--AAT
249 TTTTTAAAAA
** * * * * *
13834661 ATTTTATACAACAACAAAAAAAGTTGTTACAAAAAATTTGATTATATTTGTAACGACAAAAAA--
1 ATTTTATACAATGAC-AAAAAA-TTGTTAC-AAAATTTTTATCATATTTGTAATGATAAAAAATT
* *
13834724 AGTTGTTGC-ATAAACTTGTTTTATTTACAACGATTTTTCGAA-GTTGTTGCTTAAGTTATCTTT
63 A-TTGTTGCGA-AAACTTATTTTATTTACAACGATTTTTC-AATGTTGTTGCTTAATTTAT-TTT
* * * * * *
13834787 TT-AATATTTTATACAACGATAAAAAAAATTGTTACAACAAA-ATTTATCATATTTGT-ATCGAC
124 TTAAAAATTTTAT--AA-GACAAAAAAAGTTGTTACAA-AAATTTTTATCACATTTGTAAT-GAT
* * * *
13834849 AAAA-A-AAGTTGTTGTGAAAACTTGTTTTATTGGCAACAATTTTTCAATTTAATTGCTTAATTT
184 AAAATATTAG-TGTTGTGAAAACTTGTTTTATTTGCAACAATTTTTCAATGT-AGTGCTTAATTT
* *
13834912 ATTTTTT-TAAT
247 ATTTTTTAAAAA
*
13834923 ATTTTATACAATGACAAAAAATTTGGTACAAAATTTTTTTATCATATTTGTAATGATAAAAAATT
1 ATTTTATACAATGACAAAAAA-TTGTTACAAAA--TTTTTATCATATTTGTAATGATAAAAAATT
* *
13834988 ATTATTGCGAAAACTTATTTTATTTGCAACGATTTTTCAATGTTGTTGCTTAATTTATTTTTTAA
63 ATTGTTGCGAAAACTTATTTTATTTACAACGATTTTTCAATGTTGTTGCTTAATTTATTTTTTAA
* * *
13835053 AAATTTTATAGGACAAAAAAAGTTATTACAAAAATTTTTATTACATTTGTAATGATAAAATATTA
128 AAATTTTATAAGACAAAAAAAGTTGTTACAAAAATTTTTATCACATTTGTAATGATAAAATATTA
* ** * *
13835118 GTATTACGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTCGCTACTTAATTTTATTTTTTAA
193 GTGTTGTGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAG-TGCTTAA-TTTATTTTTTAA
13835183 AAA
256 AAA
* * * * *
13835186 ATTACT-TACAATGACAAAAAAATTGTTACAAAAATTTTTATCATATTTGTAACGACAAAATACT
1 ATT-TTATACAATGAC-AAAAAATTGTTAC-AAAATTTTTATCATATTTGTAATGATAAAAAATT
* ** * * * * * *
13835250 GTTGTTATGAAAACTTGTTTAATTTATAATGATTTTTCAATGTAGTTGCCTAATTTATTTTTTAA
63 ATTGTTGCGAAAACTTATTTTATTTACAACGATTTTTCAATGTTGTTGCTTAATTTATTTTTTAA
* ** **
13835315 AAATTTTTACAAAGAC-AAAAAAGTTGTTATGAAAATTTTTATCACATTTGTAACAATAAAATAT
128 AAA-TTTTA-TAAGACAAAAAAAGTTGTTACAAAAATTTTTATCACATTTGTAATGATAAAATAT
* * * ** *
13835379 TTGTGTTGTGAAAACTTATTTTACTTGCAATTATTTTTCAATGTAAGTGCTTGATTTATTTTTTA
191 TAGTGTTGTGAAAACTTGTTTTATTTGCAACAATTTTTCAATGT-AGTGCTTAATTTATTTTTTA
13835444 AAAA
255 AAAA
** * * *
13835448 ATTTTATACAACAACAAAAAA--GTTAGAAAATTTTTATCATATTTAT-ATCGATAAAAAGTTAT
1 ATTTTATACAATGACAAAAAATTGTTACAAAATTTTTATCATATTTGTAAT-GATAAAAAATTAT
* * ** * * ** *
13835510 TGCTGCAAAAACTTATTTTATTTGTAATGAATTTT-AATTGTCATTGCTTAATTTATTTTTTAAT
65 TGTTGCGAAAACTTATTTTATTTACAACGATTTTTCAA-TGTTGTTGCTTAATTTATTTTTTAAA
*
13835574 ATTTTTATA
129 AATTTTATA
13835583 CAACAATAAA
Statistics
Matches: 753, Mismatches: 132, Indels: 78
0.78 0.14 0.08
Matches are distributed among these distances:
256 1 0.00
257 8 0.01
258 81 0.11
259 95 0.13
260 132 0.18
261 78 0.10
262 174 0.23
263 166 0.22
264 18 0.02
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.44
Consensus pattern (258 bp):
ATTTTATACAATGACAAAAAATTGTTACAAAATTTTTATCATATTTGTAATGATAAAAAATTATT
GTTGCGAAAACTTATTTTATTTACAACGATTTTTCAATGTTGTTGCTTAATTTATTTTTTAAAAA
TTTTATAAGACAAAAAAAGTTGTTACAAAAATTTTTATCACATTTGTAATGATAAAATATTAGTG
TTGTGAAAACTTGTTTTATTTGCAACAATTTTTCAATGTAGTGCTTAATTTATTTTTTAAAAA
Found at i:13835558 original size:128 final size:128
Alignment explanation
Indices: 13834887--13835595 Score: 454
Period size: 130 Copynumber: 5.4 Consensus size: 128
13834877 ATTGGCAACA
* * * ** *
13834887 ATTTTTCAATTTAATTGCTTAATTTATTTTTTTAATATTTTATACAATGACAAAAAAT-TTGGTA
1 ATTTTTCAATGT-ATTGCTTAATTTATTTTTTAAAAATTTTATACAACAACAAAAAATGTT-AT-
* * * ** * ** * *
13834951 CAAAATTTTTTTATCATATTTGTAATGATAAAAAATTAT-TATTGCGAAAACTTATTTTATTTGC
63 GAAAA--TTTTTATCACATTTATAACAATAAAATATT-TGTGCTGCAAAAACTTATTTTATTTGT
*
13835015 AACG
125 AATG
* ** * * **
13835019 ATTTTTCAATGTTGTTGCTTAATTTATTTTTTAAAAATTTTATAGGACAA-AAAAAGTTATTACA
1 ATTTTTCAATG-TATTGCTTAATTTATTTTTTAAAAATTTTATACAACAACAAAAA-ATGTTATG
* * ** * ** * * * * **
13835083 AAAATTTTTATTACATTTGTAATGATAAAATATTAGTATTACGAAAACTTGTTTTATTTGCAACA
64 AAAATTTTTATCACATTTATAACAATAAAATATTTGTGCTGCAAAAACTTATTTTATTTGTAATG
** * * **
13835148 ATTTTTCAATGTCGCTACTTAATTTTATTTTTTAAAAA-ATTACTTACAATGACAAAAAAATTGT
1 ATTTTTCAATGT-ATTGCTTAA-TTTATTTTTTAAAAATTTTA--TACAACAAC-AAAAAA-TGT
** * * * * ** * *
13835212 TACAAAAATTTTTATCATATTTGTAACGACAAAATACTGTTGTTATG--AAAACTTGTTTAATTT
60 TATGAAAATTTTTATCACATTTATAACAATAAAATA-T-TTGTGCTGCAAAAACTTATTTTATTT
*
13835275 ATAATG
123 GTAATG
*
13835281 ATTTTTCAATGTAGTTGCCTAATTTATTTTTTAAAAATTTT-TACAA-AGACAAAAAAGTTGTTA
1 ATTTTTCAATGTA-TTGCTTAATTTATTTTTTAAAAATTTTATACAACA-ACAAAAAA--TGTTA
* * ** * *
13835344 TGAAAATTTTTATCACATTTGTAACAATAAAATATTTGTGTTGTGAAAACTTATTTTACTTGCAA
62 TGAAAATTTTTATCACATTTATAACAATAAAATATTTGTGCTGCAAAAACTTATTTTATTTGTAA
*
13835409 TT
127 TG
* *
13835411 ATTTTTCAATGTAAGTGCTTGATTTATTTTTTAAAAAATTTTATACAACAACAAAAAA-GTTA-G
1 ATTTTTCAATGT-ATTGCTTAATTTATTTTTT-AAAAATTTTATACAACAACAAAAAATGTTATG
* * *
13835474 AAAATTTTTATCATATTTATATCGATAAAA-AGTTAT-TGCTGCAAAAACTTATTTTATTTGTAA
64 AAAATTTTTATCACATTTATAACAATAAAATA-TT-TGTGCTGCAAAAACTTATTTTATTTGTAA
13835537 TG
127 TG
* * * *
13835539 AATTTT-AATTGTCATTGCTTAATTTATTTTTTAATATTTTTATACAACAATAAAAAA
1 ATTTTTCAA-TGT-ATTGCTTAATTTATTTTTTAAAAATTTTATACAACAACAAAAAA
13835596 AAGTTGTTAC
Statistics
Matches: 471, Mismatches: 80, Indels: 57
0.77 0.13 0.09
Matches are distributed among these distances:
127 25 0.05
128 84 0.18
129 86 0.18
130 100 0.21
131 23 0.05
132 69 0.15
133 79 0.17
134 1 0.00
135 4 0.01
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (128 bp):
ATTTTTCAATGTATTGCTTAATTTATTTTTTAAAAATTTTATACAACAACAAAAAATGTTATGAA
AATTTTTATCACATTTATAACAATAAAATATTTGTGCTGCAAAAACTTATTTTATTTGTAATG
Found at i:13836280 original size:16 final size:17
Alignment explanation
Indices: 13836259--13836304 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
13836249 GGATCCAAAA
*
13836259 AGTTTTGATTTTAGATT
1 AGTTTTGATTTTAGAAT
*
13836276 A-TTTTGAGTTT-GAAT
1 AGTTTTGATTTTAGAAT
13836291 AGTTTTGAATTTTA
1 AGTTTTG-ATTTTA
13836305 ACTATATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (17 bp):
AGTTTTGATTTTAGAAT
Found at i:13837782 original size:103 final size:104
Alignment explanation
Indices: 13837598--13837817 Score: 239
Period size: 103 Copynumber: 2.1 Consensus size: 104
13837588 GATTATGCTG
* * ** *
13837598 CAAAATATTATAAGGTAACCAAAATAATATTTTTATGTAAAAGGTTTTTGTAACCGAAATATAAG
1 CAAAATATT-TTAGGTAACCAAAATAATATTATTACATAAAAGGTTTTTGTAACCAAAATATAAG
* *
13837663 GTTATTAAAATAAAGTTAAAACAATGAC-ATTTAATCATTA
65 GTTACTAAAATAAAGTTAAAACAA-CACTATTTAATCATTA
* * *
13837703 CAAAATATTTTATGTAACCAAAATAATATTATTACATAAGA-GTTTTTGTAACCAAAATTTATA-
1 CAAAATATTTTAGGTAACCAAAATAATATTATTACATAAAAGGTTTTTGTAACCAAAATATA-AG
* * * * **
13837766 GTTGCTAAAATGAAGTTTATACAACACTATTTTGTCATTA
65 GTTACTAAAATAAAGTTAAAACAACACTATTTAATCATTA
13837806 CAAAATGATTTT
1 CAAAAT-ATTTT
13837818 TAGCAATTAC
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
102 2 0.02
103 53 0.55
104 32 0.33
105 9 0.09
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (104 bp):
CAAAATATTTTAGGTAACCAAAATAATATTATTACATAAAAGGTTTTTGTAACCAAAATATAAGG
TTACTAAAATAAAGTTAAAACAACACTATTTAATCATTA
Found at i:13839344 original size:23 final size:23
Alignment explanation
Indices: 13839316--13839424 Score: 84
Period size: 23 Copynumber: 4.7 Consensus size: 23
13839306 TTTAATATAT
13839316 ATATTTTATTTTTTTATCTATTA
1 ATATTTTATTTTTTTATCTATTA
*
13839339 ATATTTGTA-TTATTTATCTACTT-
1 ATATTT-TATTTTTTTATCTA-TTA
* * *
13839362 TTATTTT-TTATTATTATTTATCTA
1 ATATTTTATT-TTTTTATCTAT-TA
*
13839386 AT-TTTT-TTTTGTTATCTATTA
1 ATATTTTATTTTTTTATCTATTA
*
13839407 ATATATTTATCTTTTTAT
1 ATAT-TTTATTTTTTTAT
13839425 TTTGATTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
21 4 0.06
22 13 0.19
23 38 0.57
24 12 0.18
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (23 bp):
ATATTTTATTTTTTTATCTATTA
Found at i:13839376 original size:27 final size:29
Alignment explanation
Indices: 13839346--13839406 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 29
13839336 TTAATATTTG
*
13839346 TATTATTTATCTACTTTTATTTT-TTAT-
1 TATTATTTATCTAATTTTATTTTGTTATC
*
13839373 TATTATTTATCTAATTTTTTTTTGTTATC
1 TATTATTTATCTAATTTTATTTTGTTATC
13839402 TATTA
1 TATTA
13839407 ATATATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.70
28 4 0.13
29 5 0.17
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.69
Consensus pattern (29 bp):
TATTATTTATCTAATTTTATTTTGTTATC
Found at i:13839400 original size:22 final size:21
Alignment explanation
Indices: 13839329--13839408 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
13839319 TTTTATTTTT
*
13839329 TTATCTATTAATATTTGTATTA
1 TTATCTATTAAT-TTTTTATTA
*
13839351 TTTATCTACTTTTATTTTTTATTA
1 -TTATCTA--TTAATTTTTTATTA
* * *
13839375 TTATTTATCTAATTTTTTTTTG
1 TTATCTAT-TAATTTTTTATTA
13839397 TTATCTATTAAT
1 TTATCTATTAAT
13839409 ATATTTATCT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 5 0.11
22 17 0.36
23 13 0.28
24 8 0.17
25 4 0.09
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (21 bp):
TTATCTATTAATTTTTTATTA
Found at i:13839776 original size:3 final size:3
Alignment explanation
Indices: 13839770--13839805 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13839760 TTTTTCATTG
13839770 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13839806 GATTAGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13839859 original size:21 final size:18
Alignment explanation
Indices: 13839832--13839891 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 18
13839822 TATTCTTTTA
13839832 TTTTTATCTTTATTTTACTT
1 TTTTTAT-TTTATTTT-CTT
13839852 TTCTTTATTTTTATTTTCATT
1 TT-TTTA-TTTTATTTTC-TT
*
13839873 TTATTATTTTATTTTCTT
1 TTTTTATTTTATTTTCTT
13839891 T
1 T
13839892 AAATAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 6 0.17
21 16 0.44
22 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTATTTTCTT
Found at i:13839860 original size:27 final size:25
Alignment explanation
Indices: 13839822--13839887 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 25
13839812 AATTGCTTAA
*
13839822 TATTCTTTTATTTTTATCTTT-ATTT
1 TATTATTTTATTTTTAT-TTTCATTT
*
13839847 TACTTTTCTTTATTTTTATTTTCATTT
1 TA-TTAT-TTTATTTTTATTTTCATTT
13839874 TATTATTTTATTTT
1 TATTATTTTATTTT
13839888 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 10 0.28
26 9 0.25
27 17 0.47
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (25 bp):
TATTATTTTATTTTTATTTTCATTT
Found at i:13839868 original size:15 final size:15
Alignment explanation
Indices: 13839838--13839892 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 15
13839828 TTTATTTTTA
13839838 TCTTTA-TTTTACTTT
1 TCTTTATTTTTA-TTT
13839853 TCTTTATTTTTATTT
1 TCTTTATTTTTATTT
13839868 TCATTTTATTATTTTATTT
1 TC--TTTA-T-TTTTATTT
13839887 TCTTTA
1 TCTTTA
13839893 AATAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.31
16 5 0.14
17 8 0.23
18 1 0.03
19 10 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTATTTTTATTT
Found at i:13839881 original size:14 final size:13
Alignment explanation
Indices: 13839822--13839887 Score: 50
Period size: 13 Copynumber: 5.1 Consensus size: 13
13839812 AATTGCTTAA
*
13839822 TATTCTTTTA-TT
1 TATTATTTTATTT
13839834 T-TTATCTTTATTT
1 TATTAT-TTTATTT
*
13839847 TACTTTTCTTTA-TT
1 TA-TTAT-TTTATTT
13839861 T-TTATTTTCATTT
1 TATTATTTT-ATTT
13839874 TATTATTTTATTT
1 TATTATTTTATTT
13839887 T
1 T
13839888 CTTTAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
11 6 0.14
12 9 0.20
13 11 0.25
14 10 0.23
15 8 0.18
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTTATTT
Found at i:13839973 original size:58 final size:58
Alignment explanation
Indices: 13839905--13840237 Score: 395
Period size: 58 Copynumber: 5.7 Consensus size: 58
13839895 TAAAATTAAA
*
13839905 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
* * * * * *
13839963 AAAAAATATTTTTAGGAAAAAGTTAAAAGTATCAATTTTCTTTAAAAAATAAA-TTTTC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATTAAAGTTTCC
** *
13840021 AAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
1 AAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
** * * * **
13840080 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATTGATTTT-CTTTAAGAATAAATTTTTA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-ATTAAAGTTTCC
* *
13840138 AAAAAAGGTTTTTTTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCT
1 AAAAAA-----TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
13840200 AAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
13840238 TTCTGTACAA
Statistics
Matches: 229, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
56 5 0.02
57 30 0.13
58 98 0.43
59 48 0.21
62 36 0.16
63 12 0.05
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
Found at i:13840101 original size:117 final size:118
Alignment explanation
Indices: 13839920--13840237 Score: 507
Period size: 117 Copynumber: 2.7 Consensus size: 118
13839910 ATATTTTTAG
* *
13839920 GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAGGAAAAAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAG
* *
13839985 TTAAAAGTATCAATTTTCTTTAAAAAATAAA-TTTTCAAAAAAGG-TTTTTTGA
66 TTGAAAGTATCAATTTTCTTT-AAAAATAAATTTTTAAAAAAAGGTTTTTTTGA
13840037 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAG
** * *
13840102 TTGAAAGTATTGATTTTCTTTAAGAATAAATTTTTAAAAAAAGGTTTTTTTTTTA
66 TTGAAAGTATCAATTTTCTTTAAAAATAAATTTTTAAAAAAAGG--TTTTTTTGA
*
13840157 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCTAAAAAATA-TTTTAGGGAAAAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAG
13840221 TTGAAAGTATCAATTTT
66 TTGAAAGTATCAATTTT
13840238 TTCTGTACAA
Statistics
Matches: 186, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
116 8 0.04
117 93 0.50
119 28 0.15
120 57 0.31
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (118 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAG
TTGAAAGTATCAATTTTCTTTAAAAATAAATTTTTAAAAAAAGGTTTTTTTGA
Found at i:13844144 original size:29 final size:29
Alignment explanation
Indices: 13844090--13844179 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
13844080 ATCAACAATA
*
13844090 GATGAAAAATGAGAAAAAAAGAAAAAAAGAT
1 GATGAAAAAT--GAAAAAATGAAAAAAAGAT
* *
13844121 GATGAAAAATGAAAAAATGAAAAAAAAAGG
1 GATGAAAAATGAAAAAATGAAAAAAAGA-T
* *
13844151 GA-AAAAAATGAGAAAATGCAAAAAAAGAT
1 GATGAAAAATGAAAAAATG-AAAAAAAGAT
13844180 TCAAATTGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 30 0.60
30 10 0.20
31 10 0.20
ACGTcount: A:0.70, C:0.01, G:0.19, T:0.10
Consensus pattern (29 bp):
GATGAAAAATGAAAAAATGAAAAAAAGAT
Found at i:13844176 original size:39 final size:39
Alignment explanation
Indices: 13844094--13844175 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
13844084 ACAATAGATG
*
13844094 AAAAATGAGAAAAAAAGAAAAAAAGATGATGAAAAATGA
1 AAAAATGAAAAAAAAAGAAAAAAAGATGATGAAAAATGA
*
13844133 AAAAATGAAAAAAAAAGGGAAAAAA-ATGA-G-AAAATGCA
1 AAAAATGAAAAAAAAA-GAAAAAAAGATGATGAAAAATG-A
13844171 AAAAA
1 AAAAA
13844176 AGATTCAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
37 6 0.15
38 7 0.18
39 19 0.49
40 7 0.18
ACGTcount: A:0.73, C:0.01, G:0.17, T:0.09
Consensus pattern (39 bp):
AAAAATGAAAAAAAAAGAAAAAAAGATGATGAAAAATGA
Found at i:13845904 original size:42 final size:41
Alignment explanation
Indices: 13845824--13845966 Score: 205
Period size: 41 Copynumber: 3.5 Consensus size: 41
13845814 GATTGTTAAT
* * *
13845824 GAGCAATTTATTTTTCAAACTTGTGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTATTTAGAG
* * *
13845865 GAGCAATTTACTTTCCAAAAGTTGAGGTGCTTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTTGTGGTGCCTCTATTTAGAG
* *
13845907 GAGCAATTTACTTTTCAAAGTTGTGGAGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTATTTAGAG
13845948 GAGCAATTTACTTTCCAAA
1 GAGCAATTTACTTTCCAAA
13845967 AGTTAAGCCT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 53 0.60
42 36 0.40
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTATTTAGAG
Found at i:13845945 original size:41 final size:41
Alignment explanation
Indices: 13845824--13846236 Score: 381
Period size: 42 Copynumber: 10.0 Consensus size: 41
13845814 GATTGTTAAT
* * * * *
13845824 GAGCAATTTATTTTTCAAACTTGTGGTGCCTCT-ATTTAGAG
1 GAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAG
* * ** * * *
13845865 GAGCAATTTACTTTCCAAAAGTTGAGGTGCTTCTGTTTAGAG
1 GAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTGATTAGAG
* *
13845907 GAGCAATTTACTTTTCAAAGTTGTGGAGCCTCT-ATTTAGAG
1 GAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAG
* * * *
13845948 GAGCAATTTACTTTCCAAA--AGTTAAGCCTCTGATTAG-G
1 GAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
* *
13845986 AGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAAAG
1 -GAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTGATTAGAG
** *
13846029 GAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAA
1 GAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTGATTAGAG
* * *
13846071 GAGCTTTAGTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAAAG
1 GAGC--CATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
* *
13846113 GAGCCATTTACTTCTCAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
* * *
13846154 GAGCCATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAT
1 GAGCCATTTACTTTT-CAAAGTTGTTGAGCCTCTGATTAGAG
* * *
13846196 GAGCCATTT-TTTTTCAAAACTCGTTGAGCCTCTGATTAGAG
1 GAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTGATTAGAG
13846237 AAGCTTTGTT
Statistics
Matches: 319, Mismatches: 39, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.00
39 27 0.08
40 9 0.03
41 120 0.38
42 152 0.48
43 6 0.02
44 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (41 bp):
GAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAG
Found at i:13845963 original size:83 final size:80
Alignment explanation
Indices: 13845824--13846204 Score: 308
Period size: 83 Copynumber: 4.6 Consensus size: 80
13845814 GATTGTTAAT
* * *
13845824 GAGCAATTTATTTTTCAAACTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTTG
1 GAGCAATTTACTTTTCAAAGTTGTGGAGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTT-
* * *
13845889 AGGTGCTTCTGTTTA-GA
65 A--AGCCTCTGATTAGGA
13845906 GGAGCAATTTACTTTTCAAAGTTGTGGAGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTT
1 -GAGCAATTTACTTTTCAAAGTTGTGGAGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTT
13845971 AAGCCTCTGATTAGGA
65 AAGCCTCTGATTAGGA
* * * * * *
13845987 GAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGA-TTAAAGGAGCCATTTACTTTTCAAAAGT
1 GAGCAATTTACTTTTC-AAAGTTGTGGAGCCTCT-ATTTAGAGGAGCAATTTACTTTCCAAAAG-
* *
13846051 CATTGAGCCTCTGATTAGAA
63 --TTAAGCCTCTGATTAGGA
* * * * *
13846071 GAGCTTTAGTTA-TTTTCAAAGTTGTTGAGCCTCTGA-TTAAAGGAGCCATTTAC-TTCTCAAAG
1 GAGC--AATTTACTTTTCAAAGTTGTGGAGCCTCT-ATTTAGAGGAGCAATTTACTTTC-CAAA-
* *
13846133 TCGTTGAGCCTCTGATTA-GA
61 -AGTTAAGCCTCTGATTAGGA
* * * * * *
13846153 GGAGCCATTTATTTTTCCAAAGTCGTTGAGCCTCTGA-TTAGATGAGCCATTT
1 -GAGCAATTTACTTTT-CAAAGTTGTGGAGCCTCT-ATTTAGAGGAGCAATTT
13846205 TTTTTCAAAA
Statistics
Matches: 259, Mismatches: 25, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
80 24 0.09
81 45 0.17
82 7 0.03
83 114 0.44
84 59 0.23
85 5 0.02
86 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (80 bp):
GAGCAATTTACTTTTCAAAGTTGTGGAGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTTA
AGCCTCTGATTAGGA
Found at i:13846159 original size:125 final size:126
Alignment explanation
Indices: 13845896--13846233 Score: 372
Period size: 125 Copynumber: 2.7 Consensus size: 126
13845886 TTGAGGTGCT
* * * ** * * * *
13845896 TCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTGTGGAGCCTCT-ATTTAGAGGAGCAATTTAC
1 TCTGATTAAAGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGA-TTAGAAGAGCCATTT-T
* * * *
13845959 TTTCCAAAA---GTTAAGCCTCTGATT-AGGAGAGCCATTTACTTTTCAAAAGTCGTTGAGCC
64 TTTTCAAAACTCGTTGAGCCTCTGATTAAAGAGAGCCATTTACTTCTCAAAAGTCGTTGAGCC
*
13846018 TCTGATTAAAGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAAGAG-CTTTAGTT
1 TCTGATTAAAGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAAGAGCCATT--TT
* *
13846082 ATTTTC-AAAGTTGTTGAGCCTCTGATTAAAG-GAGCCATTTACTTCTC-AAAGTCGTTGAGCC
64 -TTTTCAAAACTCGTTGAGCCTCTGATTAAAGAGAGCCATTTACTTCTCAAAAGTCGTTGAGCC
* * * * *
13846143 TCTGATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGATGAGCCATTTTTT
1 TCTGATTAAAGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAAGAGCCATTTTTT
13846208 TTCAAAACTCGTTGAGCCTCTGATTA
66 TTCAAAACTCGTTGAGCCTCTGATTA
13846234 GAGAAGCTTT
Statistics
Matches: 183, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
122 26 0.14
123 30 0.16
124 28 0.15
125 65 0.36
126 32 0.17
127 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (126 bp):
TCTGATTAAAGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAAGAGCCATTTTTT
TTCAAAACTCGTTGAGCCTCTGATTAAAGAGAGCCATTTACTTCTCAAAAGTCGTTGAGCC
Found at i:13846220 original size:83 final size:84
Alignment explanation
Indices: 13845863--13846236 Score: 399
Period size: 83 Copynumber: 4.5 Consensus size: 84
13845853 CTCTATTTAG
* * * ** * * * *
13845863 AGGAGCAATTTACTTTCCAAAAGTTGAGGTGCTTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
1 AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCCAAAG
* * *
13845927 TTGTGGAGCCTCT-ATTTAG
66 TCGTTGAGCCTCTGA-TTAA
* * * *
13845946 AGGAGCAATTTACTTTCCAAAA---GTTAAGCCTCTGATTAG-GAGAGCCATTTACTTTTCAAAA
1 AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAG-GAGCCATTTACTTTTCCAAA
13846007 GTCGTTGAGCCTCTGATTAA
65 GTCGTTGAGCCTCTGATTAA
* * * *
13846027 AGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAGAAGAG-C-TTTAGTTATTTTCAA
1 AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA-CT-TTTCCAA
*
13846090 AGTTGTTGAGCCTCTGATTAA
64 AGTCGTTGAGCCTCTGATTAA
* *
13846111 AGGAGCCATTTACTTCTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCCAAAG
1 AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCCAAAG
*
13846175 TCGTTGAGCCTCTGATTAG
66 TCGTTGAGCCTCTGATTAA
* * *
13846194 ATGAGCCATTT-TTTTTCAAAACTCGTTGAGCCTCTGATTAGAG
1 AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAG
13846237 AAGCTTTGTT
Statistics
Matches: 249, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.00
80 25 0.10
81 38 0.15
82 9 0.04
83 109 0.44
84 63 0.25
85 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (84 bp):
AGGAGCCATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCCAAAG
TCGTTGAGCCTCTGATTAA
Found at i:13846311 original size:5 final size:5
Alignment explanation
Indices: 13846301--13846356 Score: 73
Period size: 5 Copynumber: 11.4 Consensus size: 5
13846291 TCAAAATTTT
13846301 AACAA AACAAA AACAA AACAA AACAA AA-AA AACAA AA-AA AACAAA AACAA
1 AACAA AAC-AA AACAA AACAA AACAA AACAA AACAA AACAA AAC-AA AACAA
13846351 AA-AA AA
1 AACAA AA
13846357 AGTGTCAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
4 12 0.26
5 25 0.53
6 10 0.21
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:13846315 original size:6 final size:6
Alignment explanation
Indices: 13846304--13846357 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
13846294 AAATTTTAAC
*
13846304 AAAACA AAAAC- AAAAC- AAAACA AAAA-A AACAAAA AAAACA AAAACA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AA-AACA AAAACA AAAACA
13846350 AAAA-A AAA
1 AAAACA AAA
13846358 GTGTCAAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
5 17 0.39
6 24 0.55
7 3 0.07
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:13846334 original size:9 final size:9
Alignment explanation
Indices: 13846309--13846357 Score: 73
Period size: 9 Copynumber: 5.3 Consensus size: 9
13846299 TTAACAAAAC
13846309 AAAAACAAA
1 AAAAACAAA
13846318 ACAAAACAAA
1 A-AAAACAAA
13846328 AAAAACAAA
1 AAAAACAAA
13846337 AAAAACAAA
1 AAAAACAAA
13846346 AACAAA-AAA
1 AA-AAACAAA
13846355 AAA
1 AAA
13846358 GTGTCAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.03
9 25 0.66
10 12 0.32
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:13846338 original size:15 final size:15
Alignment explanation
Indices: 13846309--13846356 Score: 73
Period size: 14 Copynumber: 3.3 Consensus size: 15
13846299 TTAACAAAAC
13846309 AAAAAC-AAAACAAA
1 AAAAACAAAAACAAA
*
13846323 ACAAA-AAAAACAAA
1 AAAAACAAAAACAAA
13846337 AAAAACAAAAACAAA
1 AAAAACAAAAACAAA
13846352 AAAAA
1 AAAAA
13846357 AGTGTCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAACAAA
Found at i:13846593 original size:26 final size:26
Alignment explanation
Indices: 13846552--13846607 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
13846542 TGGGTTTTTA
*
13846552 TTTTTATTTTCATTATTTAATATATAT
1 TTTTTATTTTCATTATCTAATA-ATAT
* *
13846579 TTTTTATTTT-TTTATCTATTAATAT
1 TTTTTATTTTCATTATCTAATAATAT
13846604 TTTT
1 TTTT
13846608 ATTATTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 8 0.31
26 8 0.31
27 10 0.38
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTATTTTCATTATCTAATAATAT
Found at i:13847080 original size:5 final size:5
Alignment explanation
Indices: 13847070--13847140 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
13847060 TTTAATATTC
*
13847070 TTTAT TTTATT TTTAT CTTTAT TTTACT TTT-C TTTATT TTTAT TTTCATT
1 TTTAT TTTA-T TTTAT -TTTAT TTTA-T TTTAT TTTA-T TTTAT TTT-A-T
13847120 TTTAT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTT
13847141 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 25 0.45
6 20 0.36
7 4 0.07
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:13847085 original size:6 final size:6
Alignment explanation
Indices: 13847065--13847140 Score: 57
Period size: 6 Copynumber: 12.0 Consensus size: 6
13847055 AATTGTTTAA
* *
13847065 TATTCTT TA-TTT TATTTT TATCTT TATTTT ACTTTTCTT TATTTT TATTTT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT --TATT-TT TATTTT TATTTT
*
13847116 CATTTT TA-TTT TATTATTT TATTTT
1 TATTTT TATTTT TA-T-TTT TATTTT
13847141 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 9 0.16
6 31 0.55
7 6 0.11
8 8 0.14
9 2 0.04
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:13847120 original size:27 final size:26
Alignment explanation
Indices: 13847074--13847141 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
13847064 ATATTCTTTA
13847074 TTTTATTTTTATCTTT-A-TTTTACTTT
1 TTTTATTTTTAT-TTTCATTTTTA-TTT
13847100 TCTTTATTTTTATTTTCATTTTTATTT
1 T-TTTATTTTTATTTTCATTTTTATTT
*
13847127 TATTA-TTTTATTTTC
1 TTTTATTTTTATTTTC
13847142 TTTAAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 10 0.26
26 7 0.18
27 16 0.42
28 5 0.13
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTATTTTTATTTTCATTTTTATTT
Found at i:13847291 original size:61 final size:60
Alignment explanation
Indices: 13847157--13847291 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 60
13847147 ATAAAAGTAA
* * * *
13847157 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
* *
13847217 AAAAAAAGT-TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAACTAAAGTTTC
1 AAAAAAA-TATTTTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
*
13847278 CAAAAAATATTTTT
1 AAAAAAATATTTTT
13847292 GAGAAAAAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
60 15 0.23
61 50 0.77
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (60 bp):
AAAAAAATATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
Found at i:13850300 original size:22 final size:21
Alignment explanation
Indices: 13850234--13850302 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
13850224 TATATATAGT
* *
13850234 TAATAGCTTAATAA-AAA-AA
1 TAATAACTTAGTAATAAACAA
* * *
13850253 TAATAACTTAGTAGTTAACTAT
1 TAATAACTTAGTAATAAAC-AA
13850275 TAATAACTTAGTAATAAATCAA
1 TAATAACTTAGTAATAAA-CAA
13850297 TAATAA
1 TAATAA
13850303 TTTAATAGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 11 0.29
20 2 0.05
22 24 0.63
23 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (21 bp):
TAATAACTTAGTAATAAACAA
Found at i:13850470 original size:22 final size:22
Alignment explanation
Indices: 13850417--13850506 Score: 69
Period size: 22 Copynumber: 4.2 Consensus size: 22
13850407 GTAAATAAAT
* *
13850417 ATAACTTAATAGTAAATCATTG
1 ATAACTTAATAATAAATCAGTG
* * *
13850439 ATACCGTAATAATTAATCAGTG
1 ATAACTTAATAATAAATCAGTG
* *
13850461 ATAACTTAATAGTAAATTA-T-
1 ATAACTTAATAATAAATCAGTG
* *
13850481 ATATATTTAAT-ATAAGTCAGTG
1 ATA-ACTTAATAATAAATCAGTG
13850503 ATAA
1 ATAA
13850507 ATTGATATTG
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 8 0.16
21 9 0.18
22 34 0.67
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAGTG
Found at i:13850521 original size:42 final size:42
Alignment explanation
Indices: 13850448--13850538 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
13850438 GATACCGTAA
* *
13850448 TAAT-TAATCAGTGATAACTTAATAGTAAATTATATAT-ATT
1 TAATATAATCAGTGATAAATTAATAGTAAATTATAGATAATT
* * *
13850488 TAATATAAGTCAGTGATAAATTGATATTGAATTATAGATAATT
1 TAATATAA-TCAGTGATAAATTAATAGTAAATTATAGATAATT
*
13850531 TAGTATAA
1 TAATATAA
13850539 ATTTGTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.10
41 3 0.07
42 25 0.60
43 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (42 bp):
TAATATAATCAGTGATAAATTAATAGTAAATTATAGATAATT
Found at i:13850605 original size:22 final size:21
Alignment explanation
Indices: 13850554--13850628 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 21
13850544 TGATAATTTT
13850554 ATAATAAATAATAAAAAACTA
1 ATAATAAATAATAAAAAACTA
* *
13850575 AGTAGTAAATAA-ATAATAACATA
1 A-TAATAAATAATA-AAAAAC-TA
*
13850598 ATAATAAATGCATAAAAATA-TA
1 ATAATAAAT-AATAAAAA-ACTA
*
13850620 TTAATAAAT
1 ATAATAAAT
13850629 CATTAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
21 2 0.05
22 31 0.74
23 7 0.17
24 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAATAAATAATAAAAAACTA
Found at i:13850646 original size:22 final size:22
Alignment explanation
Indices: 13850599--13850689 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
13850589 AATAACATAA
* * *
13850599 TAATAAATGCA-TAAAAATATAT
1 TAATAAAT-CATTAATAATTTAG
13850621 TAATAAATCATTAATAATTTAG
1 TAATAAATCATTAATAATTTAG
* *
13850643 TAATAAATTATTGATAATTAGTAG
1 TAATAAATCATTAATAATT--TAG
* *
13850667 TATTAAATCATTAATAGTTTAG
1 TAATAAATCATTAATAATTTAG
13850689 T
1 T
13850690 TGTAAATAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
21 2 0.04
22 37 0.65
24 18 0.32
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (22 bp):
TAATAAATCATTAATAATTTAG
Found at i:13850888 original size:22 final size:22
Alignment explanation
Indices: 13850797--13850915 Score: 87
Period size: 22 Copynumber: 5.5 Consensus size: 22
13850787 TAAATCACCG
* * * *
13850797 ATAACTTAATATTAATTCATCA
1 ATAATTTAATAGTAAATCATTA
* * *
13850819 A-AATTTAATAGTAACTTATTC
1 ATAATTTAATAGTAAATCATTA
* * * *
13850840 ATAAATTAGTAGTAAATTATTG
1 ATAATTTAATAGTAAATCATTA
13850862 ATAATTTAATAGTAAATCATTA
1 ATAATTTAATAGTAAATCATTA
* * * * *
13850884 ATAATATAACAATAAATCAATG
1 ATAATTTAATAGTAAATCATTA
13850906 ATAATTTAAT
1 ATAATTTAAT
13850916 TATCAATCAT
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
21 15 0.20
22 60 0.80
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTA
Found at i:13851751 original size:15 final size:14
Alignment explanation
Indices: 13851715--13851751 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13851705 GAAATGTCTA
13851715 ATTTTAATTTATCT
1 ATTTTAATTTATCT
*
13851729 ATTTTAATTTTTCT
1 ATTTTAATTTATCT
13851743 ATATTTAAT
1 AT-TTTAAT
13851752 CTTCTTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTTAATTTATCT
Found at i:13854004 original size:22 final size:21
Alignment explanation
Indices: 13853938--13854006 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
13853928 TATATATAGT
* *
13853938 TAATAGCTTAATAA-AAA-AA
1 TAATAACTTAGTAATAAACAA
* * *
13853957 TAATAACTTAGTAGTTAACTAT
1 TAATAACTTAGTAATAAAC-AA
13853979 TAATAACTTAGTAATAAATCAA
1 TAATAACTTAGTAATAAA-CAA
13854001 TAATAA
1 TAATAA
13854007 TTTAATAGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 11 0.29
20 2 0.05
22 24 0.63
23 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (21 bp):
TAATAACTTAGTAATAAACAA
Found at i:13854174 original size:22 final size:22
Alignment explanation
Indices: 13854121--13854210 Score: 69
Period size: 22 Copynumber: 4.2 Consensus size: 22
13854111 GTAAATAAAT
* *
13854121 ATAACTTAATAGTAAATCATTG
1 ATAACTTAATAATAAATCAGTG
* * *
13854143 ATACCGTAATAATTAATCAGTG
1 ATAACTTAATAATAAATCAGTG
* *
13854165 ATAACTTAATAGTAAATTA-T-
1 ATAACTTAATAATAAATCAGTG
* *
13854185 ATATATTTAAT-ATAAGTCAGTG
1 ATA-ACTTAATAATAAATCAGTG
13854207 ATAA
1 ATAA
13854211 ATTGATATTG
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 8 0.16
21 9 0.18
22 34 0.67
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAGTG
Found at i:13854225 original size:42 final size:42
Alignment explanation
Indices: 13854152--13854242 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
13854142 GATACCGTAA
* *
13854152 TAAT-TAATCAGTGATAACTTAATAGTAAATTATATAT-ATT
1 TAATATAATCAGTGATAAATTAATAGTAAATTATAGATAATT
* * *
13854192 TAATATAAGTCAGTGATAAATTGATATTGAATTATAGATAATT
1 TAATATAA-TCAGTGATAAATTAATAGTAAATTATAGATAATT
*
13854235 TAGTATAA
1 TAATATAA
13854243 ATTTGTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.10
41 3 0.07
42 25 0.60
43 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (42 bp):
TAATATAATCAGTGATAAATTAATAGTAAATTATAGATAATT
Found at i:13854309 original size:22 final size:21
Alignment explanation
Indices: 13854258--13854332 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 21
13854248 TGATAATTTT
13854258 ATAATAAATAATAAAAAACTA
1 ATAATAAATAATAAAAAACTA
* *
13854279 AGTAGTAAATAA-ATAATAACATA
1 A-TAATAAATAATA-AAAAAC-TA
*
13854302 ATAATAAATGCATAAAAATA-TA
1 ATAATAAAT-AATAAAAA-ACTA
*
13854324 TTAATAAAT
1 ATAATAAAT
13854333 CATTAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
21 2 0.05
22 31 0.74
23 7 0.17
24 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAATAAATAATAAAAAACTA
Found at i:13854350 original size:22 final size:22
Alignment explanation
Indices: 13854303--13854393 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
13854293 AATAACATAA
* * *
13854303 TAATAAATGCA-TAAAAATATAT
1 TAATAAAT-CATTAATAATTTAG
13854325 TAATAAATCATTAATAATTTAG
1 TAATAAATCATTAATAATTTAG
* *
13854347 TAATAAATTATTGATAATTAGTAG
1 TAATAAATCATTAATAATT--TAG
* *
13854371 TATTAAATCATTAATAGTTTAG
1 TAATAAATCATTAATAATTTAG
13854393 T
1 T
13854394 TGTAAATAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
21 2 0.04
22 37 0.65
24 18 0.32
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (22 bp):
TAATAAATCATTAATAATTTAG
Found at i:13854592 original size:22 final size:22
Alignment explanation
Indices: 13854501--13854619 Score: 87
Period size: 22 Copynumber: 5.5 Consensus size: 22
13854491 TAAATCACCG
* * * *
13854501 ATAACTTAATATTAATTCATCA
1 ATAATTTAATAGTAAATCATTA
* * *
13854523 A-AATTTAATAGTAACTTATTC
1 ATAATTTAATAGTAAATCATTA
* * * *
13854544 ATAAATTAGTAGTAAATTATTG
1 ATAATTTAATAGTAAATCATTA
13854566 ATAATTTAATAGTAAATCATTA
1 ATAATTTAATAGTAAATCATTA
* * * * *
13854588 ATAATATAACAATAAATCAATG
1 ATAATTTAATAGTAAATCATTA
13854610 ATAATTTAAT
1 ATAATTTAAT
13854620 TATCAATCAT
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
21 15 0.20
22 60 0.80
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTA
Found at i:13855454 original size:15 final size:14
Alignment explanation
Indices: 13855418--13855454 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13855408 GAAATGTCTA
13855418 ATTTTAATTTATCT
1 ATTTTAATTTATCT
*
13855432 ATTTTAATTTTTCT
1 ATTTTAATTTATCT
13855446 ATATTTAAT
1 AT-TTTAAT
13855455 CTTCGTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTTAATTTATCT
Found at i:13858961 original size:16 final size:16
Alignment explanation
Indices: 13858940--13858971 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13858930 GATAAACGAT
13858940 TGATAATGATGATTTA
1 TGATAATGATGATTTA
13858956 TGATAATGATGATTTA
1 TGATAATGATGATTTA
13858972 CAATATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:13860760 original size:21 final size:21
Alignment explanation
Indices: 13860730--13860770 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13860720 TTGCCTATAA
*
13860730 TGGTACAAGGTTGTGCACTTG
1 TGGTACAAGGCTGTGCACTTG
* *
13860751 TGGTATAAGGCTGTGTACTT
1 TGGTACAAGGCTGTGCACTT
13860771 AGCAAGGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (21 bp):
TGGTACAAGGCTGTGCACTTG
Found at i:13860954 original size:27 final size:27
Alignment explanation
Indices: 13860905--13860973 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
13860895 TAAGAATGAG
*
13860905 TGTTTGAAATCTTACAAGTGCAAAAGAT
1 TGTTTG-AATCTTACAAGGGCAAAAGAT
* *
13860933 TGTTTGAATTTTACAAGGGCAAACGAT
1 TGTTTGAATCTTACAAGGGCAAAAGAT
*
13860960 TGGTTGAAATCTTA
1 TGTTTG-AATCTTA
13860974 TAAGTGATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (27 bp):
TGTTTGAATCTTACAAGGGCAAAAGAT
Found at i:13864102 original size:16 final size:16
Alignment explanation
Indices: 13864081--13864115 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13864071 TAAACGATTT
*
13864081 ATAATGATAATTTATG
1 ATAATGATAATTTACG
*
13864097 ATAATGATGATTTACG
1 ATAATGATAATTTACG
13864113 ATA
1 ATA
13864116 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (16 bp):
ATAATGATAATTTACG
Found at i:13867793 original size:16 final size:17
Alignment explanation
Indices: 13867772--13867804 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13867762 TTCGAGTTTG
13867772 TGGGTTC-AAATAATTT
1 TGGGTTCGAAATAATTT
*
13867788 TGGGTTCGAATTAATTT
1 TGGGTTCGAAATAATTT
13867805 GGAGATCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (17 bp):
TGGGTTCGAAATAATTT
Found at i:13873056 original size:17 final size:16
Alignment explanation
Indices: 13873034--13873071 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13873024 GTATTTTAAT
*
13873034 ATTTTTATATATAAAAA
1 ATTTTTAAATA-AAAAA
13873051 ATTTTTAAATAAAAAA
1 ATTTTTAAATAAAAAA
13873067 ATTTT
1 ATTTT
13873072 AAGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTTAAATAAAAAA
Found at i:13873064 original size:15 final size:16
Alignment explanation
Indices: 13873034--13873073 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
13873024 GTATTTTAAT
13873034 ATTTTTATATATAAAAA
1 ATTTTTA-ATATAAAAA
13873051 ATTTTTAA-ATAAAAA
1 ATTTTTAATATAAAAA
*
13873066 AATTTTAA
1 ATTTTTAA
13873074 GTTTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTTAATATAAAAA
Found at i:13874367 original size:18 final size:17
Alignment explanation
Indices: 13874327--13874369 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
13874317 TGAAATCGAG
* *
13874327 TTAATTTAGTTTATTTT
1 TTAATTTAGTGTATTTA
13874344 TATAATTTAGTGTATTATA
1 T-TAATTTAGTGTATT-TA
13874363 TTAATTT
1 TTAATTT
13874370 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
TTAATTTAGTGTATTTA
Found at i:13875604 original size:63 final size:65
Alignment explanation
Indices: 13875529--13875675 Score: 183
Period size: 63 Copynumber: 2.3 Consensus size: 65
13875519 ATATAATTGG
* * * *
13875529 TAACTTATTAATTAATTATTAAAAACTTAAAAGTAATTAAT-ATAACTTAGTAG-AAA-TCATCG
1 TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAATGATAACTTAGTAGTAAATTAAT-G
13875591 A
65 A
* * *
13875592 TAACTTAATAATTAATTAGTAATAACTTAACAGTAAATCATGGATAACTTAGTAGTAAATTAATG
1 TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAAT-GATAACTTAGTAGTAAATTAATG
13875657 A
65 A
*
13875658 TAACTTAATAATAAATTA
1 TAACTTAATAATTAATTA
13875676 ATGATAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 35 0.49
65 12 0.17
66 22 0.31
67 3 0.04
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (65 bp):
TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAATGATAACTTAGTAGTAAATTAATGA
Found at i:13875638 original size:22 final size:22
Alignment explanation
Indices: 13875552--13875682 Score: 83
Period size: 22 Copynumber: 6.1 Consensus size: 22
13875542 AATTATTAAA
*
13875552 AACTTAAAAGT-AATTAAT-AT
1 AACTTAACAGTAAATTAATGAT
** *
13875572 AACTTAGTAG-AAA-TCATCGAT
1 AACTTAACAGTAAATTAAT-GAT
* * * * *
13875593 AACTTAATAATTAATTAGTAAT
1 AACTTAACAGTAAATTAATGAT
*
13875615 AACTTAACAGTAAA-TCATGGAT
1 AACTTAACAGTAAATTAAT-GAT
**
13875637 AACTTAGTAGTAAATTAATGAT
1 AACTTAACAGTAAATTAATGAT
* *
13875659 AACTTAATAATAAATTAATGAT
1 AACTTAACAGTAAATTAATGAT
13875681 AA
1 AA
13875683 TTTAGTAGTC
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
19 3 0.04
20 10 0.12
21 12 0.14
22 54 0.64
23 5 0.06
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.34
Consensus pattern (22 bp):
AACTTAACAGTAAATTAATGAT
Found at i:13875705 original size:66 final size:66
Alignment explanation
Indices: 13875529--13875727 Score: 181
Period size: 66 Copynumber: 3.1 Consensus size: 66
13875519 ATATAATTGG
* * * * * * *
13875529 TAACTTATTAATTAATTATTAAAAACTTAAAAGTAATTAAT--ATAACTTAGTAG-AAA-TCATC
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAAT-
13875590 GA
65 GA
* * * *
13875592 TAACTTAATAATTAATTAGTAATAACTTAACAGTAAATCATGGATAACTTAGTAGTAAATTAATG
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
13875657 A
66 A
* * ** * * * * *
13875658 TAACTTAATAATAAATTAATGATAATTTAGTAGTCAATAATTCATAACTTAGTAATAAATCAATA
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
13875723 A
66 A
13875724 TAAC
1 TAAC
13875728 ATGTAGTAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
63 35 0.31
65 12 0.11
66 62 0.55
67 3 0.03
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (66 bp):
TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
A
Found at i:13875726 original size:22 final size:22
Alignment explanation
Indices: 13875570--13875878 Score: 96
Period size: 22 Copynumber: 14.2 Consensus size: 22
13875560 AGTAATTAAT
* *
13875570 ATAACTTAGT-AGAAATC-ATCG
1 ATAACTTAGTAATAAATCAAT-A
* * * *
13875591 ATAACTTAATAATTAATTAGTA
1 ATAACTTAGTAATAAATCAATA
** * *
13875613 ATAACTTAACAGTAAATC-ATGG
1 ATAACTTAGTAATAAATCAAT-A
* * *
13875635 ATAACTTAGTAGTAAATTAATG
1 ATAACTTAGTAATAAATCAATA
* * *
13875657 ATAACTTAATAATAAATTAATG
1 ATAACTTAGTAATAAATCAATA
* * * *
13875679 ATAATTTAGTAGTCAAT-AATTC
1 ATAACTTAGTAATAAATCAA-TA
13875701 ATAACTTAGTAATAAATCAATA
1 ATAACTTAGTAATAAATCAATA
* * * **
13875723 ATAACAT-GTAGTAATTGTATA
1 ATAACTTAGTAATAAATCAATA
* * * *
13875744 ATAATTTAGTAGTAAATTAATT
1 ATAACTTAGTAATAAATCAATA
* *
13875766 ACAA-TATAGTTATAAATGC-ATA
1 ATAACT-TAGTAATAAAT-CAATA
* * * * *
13875788 ACAACATAATAGTAAATCAATG
1 ATAACTTAGTAATAAATCAATA
*
13875810 ATAACTTATTAA-AAAT-AAGTA
1 ATAACTTAGTAATAAATCAA-TA
* * * * * *
13875831 AAAATTTAGTAGTTAATCATTG
1 ATAACTTAGTAATAAATCAATA
* *
13875853 ATAACTTAATAATAAATGAATA
1 ATAACTTAGTAATAAATCAATA
13875875 ATAA
1 ATAA
13875879 TTTAATAGTA
Statistics
Matches: 207, Mismatches: 67, Indels: 27
0.69 0.22 0.09
Matches are distributed among these distances:
20 2 0.01
21 42 0.20
22 157 0.76
23 6 0.03
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAATAAATCAATA
Found at i:13875855 original size:43 final size:44
Alignment explanation
Indices: 13875794--13875891 Score: 128
Period size: 43 Copynumber: 2.2 Consensus size: 44
13875784 CATAACAACA
*
13875794 TAATAGTAAATCAATGATAACTTATTAA-AAAT-AAGTAAAAATT
1 TAATAGTAAATCAATGATAACTTAATAATAAATGAA-TAAAAATT
* * * *
13875837 TAGTAGTTAATCATTGATAACTTAATAATAAATGAATAATAATT
1 TAATAGTAAATCAATGATAACTTAATAATAAATGAATAAAAATT
13875881 TAATAGTAAAT
1 TAATAGTAAAT
13875892 TAGTGATAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 24 0.52
44 20 0.43
45 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (44 bp):
TAATAGTAAATCAATGATAACTTAATAATAAATGAATAAAAATT
Found at i:13875899 original size:44 final size:44
Alignment explanation
Indices: 13875570--13875891 Score: 192
Period size: 44 Copynumber: 7.4 Consensus size: 44
13875560 AGTAATTAAT
* * * * *
13875570 ATAACTTAGTAG-AAATC-ATCGATAACTTAATAATTAATTAGTA
1 ATAACTTAATAGTAAATCAAT-GATAACTTAGTAATAAATGAATA
* * * *
13875613 ATAACTTAACAGTAAATC-ATGGATAACTTAGTAGTAAATTAATG
1 ATAACTTAATAGTAAATCAAT-GATAACTTAGTAATAAATGAATA
* * * * * *
13875657 ATAACTTAATAATAAATTAATGATAATTTAGTAGTCAAT-AATTC
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAA-TA
* * * * * * *
13875701 ATAACTTAGTAATAAATCAATAATAACAT-GTAGTAATTGTATA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
* * * * * * *
13875744 ATAATTTAGTAGTAAATTAATTACAA-TATAGTTATAAATGCATA
1 ATAACTTAATAGTAAATCAATGATAACT-TAGTAATAAATGAATA
* * *
13875788 ACAACATAATAGTAAATCAATGATAACTTATTAA-AAAT-AAGTA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAA-TA
* * * * * *
13875831 AAAATTTAGTAGTTAATCATTGATAACTTAATAATAAATGAATA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
*
13875875 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
13875892 TAGTGATAGT
Statistics
Matches: 216, Mismatches: 53, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 75 0.35
44 135 0.62
45 5 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
Found at i:13875933 original size:22 final size:23
Alignment explanation
Indices: 13875882--13875933 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
13875872 ATAATAATTT
*
13875882 AATAGTAAATTAGTGATAGTTTG
1 AATAGTAAATTAGTGATAGCTTG
* * *
13875905 -ATTGTAAATTAGT-TTTGCTTG
1 AATAGTAAATTAGTGATAGCTTG
13875926 AATAGTAA
1 AATAGTAA
13875934 TTAATTGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (23 bp):
AATAGTAAATTAGTGATAGCTTG
Found at i:13875973 original size:22 final size:22
Alignment explanation
Indices: 13875957--13875998 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13875947 GTAAATCATA
* *
13875957 AATAATTTAGTGGTAAATAAGT
1 AATAACTTAGTAGTAAATAAGT
13875979 AATAACTTAGTAGTAAATAA
1 AATAACTTAGTAGTAAATAA
13875999 TGGTAAATAA
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:0.50, C:0.02, G:0.14, T:0.33
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATAAGT
Found at i:13876003 original size:32 final size:32
Alignment explanation
Indices: 13875967--13876031 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13875957 AATAATTTAG
13875967 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
1 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
13875999 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
1 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
13876031 T
1 T
13876032 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.32
Consensus pattern (32 bp):
TGGTAAATAAGTAATAACTTAGTAGTAAATAA
Found at i:13876006 original size:54 final size:54
Alignment explanation
Indices: 13875941--13876104 Score: 143
Period size: 54 Copynumber: 3.0 Consensus size: 54
13875931 TAATTAATTG
* * * *
13875941 ATAATAGTAAATCA-TAAATAATTTAGTGGTAAATAAGTAATAACTTAGTAGTAA
1 ATAATAGTAAATAAGT-AATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
* * * **
13875995 ATAATGGTAAATAAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTG
1 ATAATAGTAAATAAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
* * * *
13876049 ATCACT-GAAAATTTAAAAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGT
1 AT-AATAGTAAA--T--AAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGT
13876105 TGATCATTGA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
54 49 0.53
55 3 0.03
56 1 0.01
58 40 0.43
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (54 bp):
ATAATAGTAAATAAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
Found at i:13876027 original size:22 final size:22
Alignment explanation
Indices: 13876001--13876046 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13875991 GTAAATAATG
*
13876001 GTAAATAAGTAATAACTTAGTA
1 GTAAATAAGTAAAAACTTAGTA
* *
13876023 GTAAATAATTAAAAATTTAGTA
1 GTAAATAAGTAAAAACTTAGTA
13876045 GT
1 GT
13876047 TGATCACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (22 bp):
GTAAATAAGTAAAAACTTAGTA
Found at i:13876080 original size:58 final size:58
Alignment explanation
Indices: 13876007--13876128 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
13875997 AATGGTAAAT
13876007 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
1 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
*
13876065 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCATTGAAAATTTAA
1 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
13876123 AAGTAA
1 AAGTAA
13876129 ATCAATAGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (58 bp):
AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
Found at i:13876132 original size:22 final size:22
Alignment explanation
Indices: 13876080--13876132 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
13876070 ATAACTTAGT
* **
13876080 AGTAAATAATTAAAAATTTAGT
1 AGTAAATCATTAAAAATTTAAA
** *
13876102 AGTTGATCATTGAAAATTTAAA
1 AGTAAATCATTAAAAATTTAAA
13876124 AGTAAATCA
1 AGTAAATCA
13876133 ATAGCTAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
AGTAAATCATTAAAAATTTAAA
Found at i:13876301 original size:22 final size:23
Alignment explanation
Indices: 13876276--13876339 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
13876266 TTAAATCACA
* *
13876276 AATAACTTAGTAGTAAATTAGT-
1 AATAATTTAGTAGTAAATTAATG
*
13876298 AATAATTTAGCT-GTAAATCAATG
1 AATAATTTAG-TAGTAAATTAATG
13876321 AA-AATTTAGTAGTAAATTA
1 AATAATTTAGTAGTAAATTA
13876340 CTTAATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 31 0.89
23 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (23 bp):
AATAATTTAGTAGTAAATTAATG
Found at i:13876330 original size:33 final size:31
Alignment explanation
Indices: 13876289--13876367 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
13876279 AACTTAGTAG
*
13876289 TAAA-TTAGTAATAATTTAGCTGTAAATCAATGA
1 TAAATTTAGTAATAAATTA-CT-T-AATCAATGA
*
13876322 -AAATTTAGTAGTAAATTACTTAATCAATGA
1 TAAATTTAGTAATAAATTACTTAATCAATGA
*
13876352 TAACTTTA-TAATAAAT
1 TAAATTTAGTAATAAAT
13876368 AATCGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 16 0.40
31 7 0.17
32 5 0.12
33 12 0.30
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (31 bp):
TAAATTTAGTAATAAATTACTTAATCAATGA
Found at i:13876376 original size:22 final size:22
Alignment explanation
Indices: 13876349--13876410 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
13876339 ACTTAATCAA
13876349 TGATAACTTTATAATAAATAA-
1 TGATAACTTTATAATAAATAAG
* *
13876370 TCGATAA-ATTAGTAGTAAATAAG
1 T-GATAACTTTA-TAATAAATAAG
*
13876393 TTATAACTTTATAATAAA
1 TGATAACTTTATAATAAA
13876411 CCATTAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.12
22 24 0.75
23 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (22 bp):
TGATAACTTTATAATAAATAAG
Found at i:13876420 original size:22 final size:22
Alignment explanation
Indices: 13876395--13876486 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
13876385 TAAATAAGTT
*
13876395 ATAACTTT-ATAATAAACCATTA
1 ATAA-TTTAATAATAAATCATTA
* *
13876417 ATAATTTAGTAGTAAATCATTA
1 ATAATTTAATAATAAATCATTA
* *
13876439 ACAATTTAATAATAAATCATTT
1 ATAATTTAATAATAAATCATTA
* *
13876461 ATAATTTAATGATAAATCATTC
1 ATAATTTAATAATAAATCATTA
13876483 ATAA
1 ATAA
13876487 ACTAGCTGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 3 0.05
22 56 0.95
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAATAAATCATTA
Found at i:13876522 original size:22 final size:22
Alignment explanation
Indices: 13876497--13876545 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13876487 ACTAGCTGTG
* *
13876497 AATCATGGATAATTTATTAGTA
1 AATCATGGATAACTTAATAGTA
*
13876519 AATCATTGATAACTTAATAGTA
1 AATCATGGATAACTTAATAGTA
13876541 AATCA
1 AATCA
13876546 CTATAATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (22 bp):
AATCATGGATAACTTAATAGTA
Found at i:13876545 original size:44 final size:44
Alignment explanation
Indices: 13876343--13876588 Score: 178
Period size: 44 Copynumber: 5.6 Consensus size: 44
13876333 TAAATTACTT
* * * * *
13876343 AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAGTA
1 AATCATTGATAACTTAATAATAAATCATTGATAATTTAGTAGTA
* * * *
13876387 AATAAGTT-ATAACTTTATAATAAACCATTAATAATTTAGTAGTA
1 AATCA-TTGATAACTTAATAATAAATCATTGATAATTTAGTAGTA
* * * * *
13876431 AATCATTAACAATTTAATAATAAATCATTTATAATTTAAT-GATA
1 AATCATTGATAACTTAATAATAAATCATTGATAATTTAGTAG-TA
* * * * * *
13876475 AATCATTCATAAAC-TAGCT-GTGAATCATGGATAATTTATTAGTA
1 AATCATTGAT-AACTTA-ATAATAAATCATTGATAATTTAGTAGTA
* * * *
13876519 AATCATTGATAACTTAATAGTAAATCACT-ATAATATCGTAGTA
1 AATCATTGATAACTTAATAATAAATCATTGATAATTTAGTAGTA
* * *
13876562 AATCAATGATAACTTAATTATCAATCA
1 AATCATTGATAACTTAATAATAAATCA
13876589 CCTATATCTT
Statistics
Matches: 159, Mismatches: 35, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
43 41 0.26
44 113 0.71
45 5 0.03
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (44 bp):
AATCATTGATAACTTAATAATAAATCATTGATAATTTAGTAGTA
Found at i:13876906 original size:44 final size:44
Alignment explanation
Indices: 13876850--13877132 Score: 157
Period size: 44 Copynumber: 6.5 Consensus size: 44
13876840 AAGGATAGCC
* *
13876850 TAATAAAAAATAAGTGATAATTTAGTAGTTAATCATTGATAACT
1 TAATAATAAATAAGTGATAATTTAGTAGTAAATCATTGATAACT
* * * * * * * **
13876894 TAGTAATAAATAAATGATTACTTAATAATAAATTAGTT--TCAGTT
1 TAATAATAAATAAGTGATAATTTAGTAGTAAATCA-TTGAT-AACT
* * * * *
13876938 TAATAGTAATTAATTGATAAATTTAGTAATAAATC-TTGAATAATT
1 TAATAATAAATAAGTGAT-AATTTAGTAGTAAATCATTG-ATAACT
* * * * *
13876983 TAATAATAAATGAGTAATAATTTAGTAGTTAATCATTAAAAACT
1 TAATAATAAATAAGTGATAATTTAGTAGTAAATCATTGATAACT
* * * * *
13877027 TAAAAATAAATCAA-T-ATAACTTAGTAGTAAATTATCGATAACA
1 TAATAATAAAT-AAGTGATAATTTAGTAGTAAATCATTGATAACT
* * * * * * * *
13877070 TAATAATTAATTAGTAATGACTTAATAGTAAACCATGGATAACT
1 TAATAATAAATAAGTGATAATTTAGTAGTAAATCATTGATAACT
13877114 TAAT-ATAAATCAA-TGATAA
1 TAATAATAAAT-AAGTGATAA
13877133 ATTGGTATTG
Statistics
Matches: 176, Mismatches: 52, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
42 1 0.01
43 43 0.24
44 98 0.56
45 33 0.19
46 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (44 bp):
TAATAATAAATAAGTGATAATTTAGTAGTAAATCATTGATAACT
Found at i:13876911 original size:22 final size:22
Alignment explanation
Indices: 13876857--13876926 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
13876847 GCCTAATAAA
* * *
13876857 AAATAAGTGATAATTTAGTAGT
1 AAATAAATGATAACTTAGTAAT
* * *
13876879 TAATCATTGATAACTTAGTAAT
1 AAATAAATGATAACTTAGTAAT
* *
13876901 AAATAAATGATTACTTAATAAT
1 AAATAAATGATAACTTAGTAAT
13876923 AAAT
1 AAAT
13876927 TAGTTTCAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (22 bp):
AAATAAATGATAACTTAGTAAT
Found at i:13877238 original size:22 final size:22
Alignment explanation
Indices: 13877181--13877254 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
13877171 ACTAATTTTA
13877181 TAGTAAAT-AATAAAAA-ACTAAG
1 TAGTAAATAAATAAAAACA-T-AG
*
13877203 TAGTAAATAAATAATAACATAG
1 TAGTAAATAAATAAAAACATAG
** * *
13877225 TAGTAAATGCATAAAAATATAT
1 TAGTAAATAAATAAAAACATAG
13877247 TAGTAAAT
1 TAGTAAAT
13877255 CATTGATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
22 35 0.80
23 8 0.18
24 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (22 bp):
TAGTAAATAAATAAAAACATAG
Done.