Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold383
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: 1247277
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.21
Warning! 434286 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:2302 original size:33 final size:33
Alignment explanation
Indices: 2260--2322 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2250 AGCTATATTG
*
2260 TATCGATACAAAAAC-TTATGTATTGATACATTA
1 TATCGATAC-AAAACTTTATGTATCGATACATTA
*
2293 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAACTTTATGTATCGATACA
2323 AATCGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (33 bp):
TATCGATACAAAACTTTATGTATCGATACATTA
Found at i:2642 original size:20 final size:21
Alignment explanation
Indices: 2619--2657 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2609 CAAAGCAATA
2619 TGTATCGATAC-TTCTAGGTC
1 TGTATCGATACTTTCTAGGTC
2639 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
2658 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:5242 original size:13 final size:13
Alignment explanation
Indices: 5224--5250 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5214 ACATTATGTT
5224 TTGTATCAATACA
1 TTGTATCAATACA
5237 TTGTATCAATACA
1 TTGTATCAATACA
5250 T
1 T
5251 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:5353 original size:13 final size:13
Alignment explanation
Indices: 5335--5365 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
5325 TGATACATGG
5335 TACATTGTATCGA
1 TACATTGTATCGA
5348 TACATTGTATCGA
1 TACATTGTATCGA
5361 TACAT
1 TACAT
5366 AGTGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:7488 original size:19 final size:19
Alignment explanation
Indices: 7442--7515 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
7432 TGTCAGTTTC
7442 ATGTATCGATACAATTG-TGT
1 ATGTATCGATACAA-TGAT-T
*
7462 AAGTATCGATACAATGATT
1 ATGTATCGATACAATGATT
*
7481 ATGTATCGATACAATGATC
1 ATGTATCGATACAATGATT
*
7500 ATGTATCAATACAATG
1 ATGTATCGATACAATG
7516 TATCGATACA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 35 0.71
20 14 0.29
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACAATGATT
Found at i:7542 original size:33 final size:32
Alignment explanation
Indices: 7481--7545 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
7471 TACAATGATT
* *
7481 ATGTATCGATACAATGATCATGTATCAATACA
1 ATGTATCGATACAAAGATAATGTATCAATACA
7513 ATGTATCGATACAAAGCATAATGTATCAATACA
1 ATGTATCGATACAAAG-ATAATGTATCAATACA
7546 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCAATACA
Found at i:8470 original size:20 final size:20
Alignment explanation
Indices: 8445--8501 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
8435 TTTTACCCAG
**
8445 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTAGA
* * * *
8465 ATGTATCTATACATGTAAGG
1 ATGTATCGATACATTTTAGA
8485 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
8502 GTCTTTTTAC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTAGA
Found at i:8538 original size:70 final size:70
Alignment explanation
Indices: 8414--8548 Score: 209
Period size: 70 Copynumber: 1.9 Consensus size: 70
8404 TTTTTACCCA
* *
8414 GATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTTAATGTATCTATACAT
1 GATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
8479 GTAAG
66 GTAAG
* * *
8484 GATGTATCGATACATTTTGTCTTTTTACCTAGATGTATCGATACA-TTTTCAATGTATCGATACA
1 GATGTATCGATACATTCTATC-TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
8548 T
65 T
8549 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 37 0.63
71 22 0.37
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (70 bp):
GATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
GTAAG
Found at i:19014 original size:13 final size:13
Alignment explanation
Indices: 18996--19021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18986 CAATTTTTTG
18996 TGTATCGATACAT
1 TGTATCGATACAT
19009 TGTATCGATACAT
1 TGTATCGATACAT
19022 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21128 original size:21 final size:20
Alignment explanation
Indices: 21099--21141 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21089 GGCTAGTATG
*
21099 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
21120 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
21140 GG
1 GG
21142 TGGTGCTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:21599 original size:13 final size:13
Alignment explanation
Indices: 21581--21619 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
21571 TATAATCCCC
21581 CTGTATCGATACA
1 CTGTATCGATACA
21594 CTGTATCGATACA
1 CTGTATCGATACA
*
21607 TTGTATCGATACA
1 CTGTATCGATACA
21620 AAGAAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:23724 original size:15 final size:15
Alignment explanation
Indices: 23690--23728 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
23680 GTTCATCAAT
*
23690 TTCATTTGGAGCTTC
1 TTCATTTTGAGCTTC
23705 TTCATTTTGAGCTT-
1 TTCATTTTGAGCTTC
23719 TCTCATTTTG
1 T-TCATTTTG
23729 GACATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (15 bp):
TTCATTTTGAGCTTC
Found at i:27775 original size:13 final size:13
Alignment explanation
Indices: 27757--27782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27747 CAATTTTTTG
27757 TGTATCGATACAT
1 TGTATCGATACAT
27770 TGTATCGATACAT
1 TGTATCGATACAT
27783 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27794 original size:32 final size:33
Alignment explanation
Indices: 27737--27800 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
27727 TACAAGCCAA
**
27737 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
27770 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
27801 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:31183 original size:414 final size:414
Alignment explanation
Indices: 30413--31242 Score: 1660
Period size: 414 Copynumber: 2.0 Consensus size: 414
30403 GAAGGACCAG
30413 CAATATCCCAAAGAGGCAATCGAGATTGATAAAAGGACTATCAGAAGCTGGCTATGGGATTTGTT
1 CAATATCCCAAAGAGGCAATCGAGATTGATAAAAGGACTATCAGAAGCTGGCTATGGGATTTGTT
30478 CTTGATGGAGAAATTTTATACAAGAAAGGTTACGATTAAGTGCTACTCAGATGTGTTGATGTCCT
66 CTTGATGGAGAAATTTTATACAAGAAAGGTTACGATTAAGTGCTACTCAGATGTGTTGATGTCCT
30543 GAAGTCCAAAGGATCTTAGAAGAAGTTCATGACATGATTTGCAGTATGCATGTTAATGGACATCG
131 GAAGTCCAAAGGATCTTAGAAGAAGTTCATGACATGATTTGCAGTATGCATGTTAATGGACATCG
30608 GATGGCTAAGCAAATTCTGAGAGTAGGTTATTATTGGTTGGCCCTTGAGAAATACTGTATCGATT
196 GATGGCTAAGCAAATTCTGAGAGTAGGTTATTATTGGTTGGCCCTTGAGAAATACTGTATCGATT
30673 ATGCTAAAAAATGCCATAAATGCCAAACTTATGCAGATAAGATGCACGTTCCCCCAGCACCGCTT
261 ATGCTAAAAAATGCCATAAATGCCAAACTTATGCAGATAAGATGCACGTTCCCCCAGCACCGCTT
30738 CACGTCATGACGGGCTCGTGGCCCTTCTCAATATGGGGCATGGATGTGATCGGGCTAATCACCCT
326 CACGTCATGACGGGCTCGTGGCCCTTCTCAATATGGGGCATGGATGTGATCGGGCTAATCACCCT
30803 TAAAGCTTCCAATGGACATCGCTT
391 TAAAGCTTCCAATGGACATCGCTT
30827 CAATATCCCAAAGAGGCAATCGAGATTGATAAAAGGACTATCAGAAGCTGGCTATGGGATTTGTT
1 CAATATCCCAAAGAGGCAATCGAGATTGATAAAAGGACTATCAGAAGCTGGCTATGGGATTTGTT
30892 CTTGATGGAGAAATTTTATACAAGAAAGGTTACGATTAAGTGCTACTCAGATGTGTTGATGTCCT
66 CTTGATGGAGAAATTTTATACAAGAAAGGTTACGATTAAGTGCTACTCAGATGTGTTGATGTCCT
30957 GAAGTCCAAAGGATCTTAGAAGAAGTTCATGACATGATTTGCAGTATGCATGTTAATGGACATCG
131 GAAGTCCAAAGGATCTTAGAAGAAGTTCATGACATGATTTGCAGTATGCATGTTAATGGACATCG
31022 GATGGCTAAGCAAATTCTGAGAGTAGGTTATTATTGGTTGGCCCTTGAGAAATACTGTATCGATT
196 GATGGCTAAGCAAATTCTGAGAGTAGGTTATTATTGGTTGGCCCTTGAGAAATACTGTATCGATT
31087 ATGCTAAAAAATGCCATAAATGCCAAACTTATGCAGATAAGATGCACGTTCCCCCAGCACCGCTT
261 ATGCTAAAAAATGCCATAAATGCCAAACTTATGCAGATAAGATGCACGTTCCCCCAGCACCGCTT
31152 CACGTCATGACGGGCTCGTGGCCCTTCTCAATATGGGGCATGGATGTGATCGGGCTAATCACCCT
326 CACGTCATGACGGGCTCGTGGCCCTTCTCAATATGGGGCATGGATGTGATCGGGCTAATCACCCT
31217 TAAAGCTTCCAATGGACATCGCTT
391 TAAAGCTTCCAATGGACATCGCTT
31241 CA
1 CA
31243 TCTTGGTGGC
Statistics
Matches: 416, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 416 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (414 bp):
CAATATCCCAAAGAGGCAATCGAGATTGATAAAAGGACTATCAGAAGCTGGCTATGGGATTTGTT
CTTGATGGAGAAATTTTATACAAGAAAGGTTACGATTAAGTGCTACTCAGATGTGTTGATGTCCT
GAAGTCCAAAGGATCTTAGAAGAAGTTCATGACATGATTTGCAGTATGCATGTTAATGGACATCG
GATGGCTAAGCAAATTCTGAGAGTAGGTTATTATTGGTTGGCCCTTGAGAAATACTGTATCGATT
ATGCTAAAAAATGCCATAAATGCCAAACTTATGCAGATAAGATGCACGTTCCCCCAGCACCGCTT
CACGTCATGACGGGCTCGTGGCCCTTCTCAATATGGGGCATGGATGTGATCGGGCTAATCACCCT
TAAAGCTTCCAATGGACATCGCTT
Found at i:33372 original size:13 final size:12
Alignment explanation
Indices: 33294--33375 Score: 67
Period size: 14 Copynumber: 6.3 Consensus size: 12
33284 CCAATTTGCC
33294 ATTTGTCAAGAA
1 ATTTGTCAAGAA
33306 ATGGTTGTCAAGAA
1 AT--TTGTCAAGAA
*
33320 ATTATCATCAAGAA
1 ATT-T-GTCAAGAA
*
33334 CTTCTGTCAAGAA
1 ATT-TGTCAAGAA
*
33347 TGTTTGTC-AGAA
1 -ATTTGTCAAGAA
33359 ACTTTGTCAAGAA
1 A-TTTGTCAAGAA
33372 ATTT
1 ATTT
33376 TTGTCAGTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
12 16 0.28
13 17 0.30
14 24 0.42
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (12 bp):
ATTTGTCAAGAA
Found at i:33378 original size:26 final size:27
Alignment explanation
Indices: 33310--33382 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
33300 CAAGAAATGG
* **
33310 TTGTCAAGAAATTATCATCA-AGAACT
1 TTGTCAAGAAATTTTTGTCAGAGAACT
*
33336 TCTGTCAAG-AATGTTTGTCAGA-AACT
1 T-TGTCAAGAAATTTTTGTCAGAGAACT
33362 TTGTCAAGAAATTTTTGTCAG
1 TTGTCAAGAAATTTTTGTCAG
33383 TACGTCCCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 7 0.18
26 24 0.62
27 8 0.21
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (27 bp):
TTGTCAAGAAATTTTTGTCAGAGAACT
Found at i:33460 original size:28 final size:28
Alignment explanation
Indices: 33392--34075 Score: 585
Period size: 28 Copynumber: 23.5 Consensus size: 28
33382 GTACGTCCCT
*
33392 TTTCAAAGCCCACAAGTCAATGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
*
33420 TTCTCAAAGCCCACAAGTCAGTGGCA-TA
1 TT-TCAAAGCCCACAAGTCAGTGGCACTC
33448 TTCTCAAAGCCCACAAGTCAGTGGCAC-C
1 TT-TCAAAGCCCACAAGTCAGTGGCACTC
*
33476 ATTTCAAAGCCCACAAGTCAGTGG-AATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
33505 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
*
33533 TTACAAAGCCCACAAG-CTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTC-AGTGGCACT-C
* * *
33561 TTTCAAAGTCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
33589 TTTCAAAGCCAACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
33617 TTTTC-AAGCACACAAGTCAGTGGCACCCC
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CTC
* **
33646 GTTCAAAG-CCACAAGTCAGTAGTAACTC
1 TTTCAAAGCCCACAAGTCAGT-GGCACTC
* *
33674 TTTTTTTAAAGTCCACACAAGTTAGTGGCAACTC
1 ---TTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
* * *
33708 TTTTCAAAGCCCACACAAATCGGTGGCACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGCACTC
* * *
33739 TTTCAAAGCCCATAAGTCAGTGCCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACTC
* * * *
33769 TTCCAAAGCCCACACAAAATCGGTGGCACCC
1 TTTCAAAG-CC-CAC-AAGTCAGTGGCACTC
* * *
33800 TTCCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
33828 TTTCAAAGCCCATAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACTC
* * *
33858 TTCCAAAGCCCACAAGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
33886 TTTCAAAGCCCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACTC
* * *
33916 TTTCAAAGCCCACAAGTCAATGGCATTA
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
33944 TTCCAAAGCCCACAAGTTAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACTC
*
33974 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
34002 TTTTAAAGCCCACAAGTCGGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
34030 TTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
34061 TTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
34076 CAAGTTGCTG
Statistics
Matches: 556, Mismatches: 65, Indels: 68
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.00
28 308 0.55
29 47 0.08
30 114 0.21
31 29 0.05
32 32 0.06
33 10 0.02
34 14 0.03
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:33511 original size:56 final size:56
Alignment explanation
Indices: 33392--34075 Score: 674
Period size: 58 Copynumber: 11.8 Consensus size: 56
33382 GTACGTCCCT
* * **
33392 TTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCA-TA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCACCC
* * *
33448 TTCTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGAATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
33505 TTTCAAAGCCCACAAGTCAGTGGCATCCTTACAAAGCCCACAAG-CTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGTGGCACCC
* * *
33561 TTTCAAAGTCTACAAGTCAGTGGCACCCTTTCAAAGCCAACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * ** *
33617 TTTTC-AAGCACACAAGTCAGTGGCACCCCGTTCAAAG-CCACAAGTCAGTAGTAACTCTTT
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGT-GGCAC-C--C
* * * * *
33677 TTTTAAAGTCCACACAAGTTAGTGGCAACTCTTTTCAAAGCCCACACAAATCGGTGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * * * *
33739 TTTCAAAGCCCATAAGTCAGTGCCATACCCTTCCAAAGCCCACACAAAATCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAAG-CC-CAC-AAGTCAGTGGCACCC
* * *
33800 TTCCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
33858 TTCCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *** * *
33916 TTTCAAAGCCCACAAGTCAATGGCATTATTCCAAAGCCCACAAGTTAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCC
* * *
33974 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCGGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
34030 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACA
34076 CAAGTTGCTG
Statistics
Matches: 530, Mismatches: 72, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
55 1 0.00
56 168 0.32
57 49 0.09
58 169 0.32
59 16 0.03
60 43 0.08
61 40 0.08
62 21 0.04
63 9 0.02
64 1 0.00
65 4 0.01
66 9 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:34108 original size:33 final size:32
Alignment explanation
Indices: 33984--34129 Score: 119
Period size: 32 Copynumber: 4.7 Consensus size: 32
33974 TTTCAAAGCC
*
33984 CACAAGTCAG-TGGC-ACCCTTTT-AAAG-CC-
1 CACAAGTC-GCTGGCAACTCTTTTAAAAGCCCA
* *
34012 CACAAGTCGGTGGC-ACTC-TTTCAAAGCCCA
1 CACAAGTCGCTGGCAACTCTTTTAAAAGCCCA
* *
34042 CACAAGTCGGTGGCAACTCTTTTCAAAGCCCA
1 CACAAGTCGCTGGCAACTCTTTTAAAAGCCCA
* * *
34074 CACAAGTTGCTGGCACCTTTTTTTAAAAGCCCA
1 CACAAGTCGCTGGCAAC-TCTTTTAAAAGCCCA
* *
34107 CATAAGTCAG-TGGCAACCCTTTT
1 CACAAGTC-GCTGGCAACTCTTTT
34130 CAAATCACCA
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.04
28 19 0.19
29 2 0.02
30 14 0.14
31 4 0.04
32 30 0.30
33 25 0.25
34 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (32 bp):
CACAAGTCGCTGGCAACTCTTTTAAAAGCCCA
Found at i:34786 original size:21 final size:21
Alignment explanation
Indices: 34756--34832 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
34746 ACAAAATCCA
*
34756 AATGTTTCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
34777 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
34798 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
34819 AATGTATCGATACA
1 AATGTATCGATACA
34833 GGGTCCTAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:34892 original size:19 final size:19
Alignment explanation
Indices: 34868--34935 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
34858 AATTCAACAA
34868 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
34887 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
34902 --TGTATCGATGCATAAGT
1 TTTGTATCGATACATAAGT
*
34919 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
34936 TTAGCTACTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:34916 original size:32 final size:32
Alignment explanation
Indices: 34870--34932 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
34860 TTCAACAATT
*
34870 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
34902 TGTATCGATGCATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
34933 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:34993 original size:13 final size:13
Alignment explanation
Indices: 34975--35000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34965 CATTTTTCTG
34975 TGTATCGATACAT
1 TGTATCGATACAT
34988 TGTATCGATACAT
1 TGTATCGATACAT
35001 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34997 original size:33 final size:33
Alignment explanation
Indices: 34955--35021 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
34945 ACCAAGGAAA
***
34955 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
34988 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
35021 T
1 T
35022 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:37474 original size:13 final size:13
Alignment explanation
Indices: 37456--37480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37446 TCCAACAATT
37456 TGTATCGATACAA
1 TGTATCGATACAA
37469 TGTATCGATACA
1 TGTATCGATACA
37481 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37560 original size:13 final size:13
Alignment explanation
Indices: 37542--37567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37532 CATTTTTCTG
37542 TGTATCGATACAT
1 TGTATCGATACAT
37555 TGTATCGATACAT
1 TGTATCGATACAT
37568 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37560 original size:33 final size:33
Alignment explanation
Indices: 37522--37588 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
37512 GCCAAGGAAA
***
37522 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
37555 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
37588 T
1 T
37589 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:39938 original size:51 final size:53
Alignment explanation
Indices: 39882--40004 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 53
39872 AATTCTCCAC
* * * *
39882 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTA-ATTTTC-T-AT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACAATTTCTTCAT
*
39933 AATCGGGGATCCTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATA-CAATTTCTTCAT
39987 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
40005 CCCGTTATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 3 0.05
51 34 0.55
52 5 0.08
53 1 0.02
54 19 0.31
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (53 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACAATTTCTTCAT
Found at i:40068 original size:133 final size:131
Alignment explanation
Indices: 39886--40139 Score: 341
Period size: 133 Copynumber: 1.9 Consensus size: 131
39876 CTCCACAATC
* * * *
39886 GGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATCCTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
* * *
39951 TCCGATTTTATTTCCAAAAAATACCAATTTCTT-CATAATCGGGGATACTCCAACCCCGTTATTT
66 CCCGATTTTA-TTCC-AAAAACACCAATTT-TTCCACAATCGGGGATACTCCAACCCCGTTATTT
40015 CTGA
128 CTGA
* * *
40019 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-TCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCT-ATAATCGGGGATACTCCAA
* * *
40083 CCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAACCCCG
65 CCCCGATTTTATTCCAAAAACACCAATTTTTCCACAATCGGGGATACTCCAACCCCG
40140 GTTTTATTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 2 0.02
131 35 0.33
132 4 0.04
133 65 0.61
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (131 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
CCCGATTTTATTCCAAAAACACCAATTTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTG
A
Found at i:40095 original size:51 final size:52
Alignment explanation
Indices: 40019--40241 Score: 220
Period size: 52 Copynumber: 4.3 Consensus size: 52
40009 TTATTTCTGA
* * *** *
40019 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
* * *
40070 GGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTT-CACAATC
* * *
40122 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTTCCCTTTAATT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCAC---AATC
* * * *
40175 GGGGATACTTCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
* *
40227 GAGGATATTCCAACC
1 GGGGATACTCCAACC
40242 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
50 5 0.04
51 39 0.27
52 52 0.37
53 31 0.22
54 9 0.06
55 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
Found at i:52643 original size:1 final size:1
Alignment explanation
Indices: 52637--52690 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
52627 CCTTCTCTTC
* * * * * *
52637 AAAAAAAAAAAACAAAAAAAACAAAAAAACAAAACAAAGAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
52691 TCTGCTTAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:52655 original size:9 final size:9
Alignment explanation
Indices: 52637--52683 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
52627 CCTTCTCTTC
52637 AAAA-AAAA
1 AAAACAAAA
52645 AAAACAAAA
1 AAAACAAAA
52654 AAAAC-AAA
1 AAAACAAAA
52662 AAAACAAAA
1 AAAACAAAA
* *
52671 CAAAGAAAA
1 AAAACAAAA
52680 AAAA
1 AAAA
52684 AGAAAAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 12 0.35
9 22 0.65
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:52661 original size:22 final size:22
Alignment explanation
Indices: 52636--52690 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
52626 ACCTTCTCTT
52636 CAAAAAAAAAAAACAAAAAAAA
1 CAAAAAAAAAAAACAAAAAAAA
* *
52658 CAAAAAAACAAAACAAAGAAAA
1 CAAAAAAAAAAAACAAAAAAAA
*
52680 -AAAAAGAAAAA
1 CAAAAAAAAAAA
52691 TCTGCTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAAAAACAAAAAAAA
Found at i:52662 original size:17 final size:16
Alignment explanation
Indices: 52637--52683 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
52627 CCTTCTCTTC
52637 AAAAAAAAAAAACAAA
1 AAAAAAAAAAAACAAA
52653 AAAAACAAAAAAACAAA
1 AAAAA-AAAAAAACAAA
52670 ACAAAGAAAAAAAA
1 A-AAA-AAAAAAAA
52684 AGAAAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 10 0.36
19 1 0.04
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAACAAA
Found at i:53734 original size:47 final size:47
Alignment explanation
Indices: 53659--53752 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
53649 CATTTTCCAG
*
53659 TCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
53706 TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
53753 CCTTTCAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 43 0.96
48 2 0.04
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (47 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:53799 original size:60 final size:59
Alignment explanation
Indices: 53706--54953 Score: 1548
Period size: 60 Copynumber: 21.3 Consensus size: 59
53696 GTTGGTGGCA
*
53706 TCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* *
53761 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * * *
53821 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGTATTTTCCAA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* ** * * *
53881 TCCTCAAAGAGCGGGACGTTTTTTCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* *
53940 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * * * *
54000 TCCTCAAAGAGCGGGACGCGTTTTCTCTTAAAGCCCACACAAGTTGATGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* * *
54059 TCCTCAAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* *
54118 TCCTCAAAGAACAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* *
54177 TCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAG
* * *
54232 TCCTCAAAGAGCAGGACGGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* * *
54292 TCCTCAAAGAGCAGGA---C--ATGTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAG
* *
54347 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT--CAG
** * *
54409 TCCTCAAAGAGCAGGACGCCTTCACCTTTTAAAGCCCAAACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAG
* *
54470 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* *
54530 TCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT--CAG
* *
54586 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * *
54647 TCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * *
54707 TCCCCAAAAAGCAGGAC-CC---T-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAG
* *
54762 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* *
54823 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACAGAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * *
54883 TCCCCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCAGTTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
54938 TCCTCAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
54954 TACACTTTAT
Statistics
Matches: 1064, Mismatches: 87, Indels: 84
0.86 0.07 0.07
Matches are distributed among these distances:
54 92 0.09
55 141 0.13
56 24 0.02
57 2 0.00
58 4 0.00
59 193 0.18
60 321 0.30
61 199 0.19
62 88 0.08
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
Found at i:54285 original size:115 final size:115
Alignment explanation
Indices: 53677--54953 Score: 1500
Period size: 115 Copynumber: 10.9 Consensus size: 115
53667 GAGTAGGACA
* *
53677 CCTTTCAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCAGGACACCTCTTAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
*
53735 CCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCGGGACGCCTT-T
66 CCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* ** * *
53784 TCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGAC-AC----CTTT
* * * * * *
53849 TAAAGCCCACACAAGTTGGTGGTATTTTCCAATCCTCAAAGAGCGGGACG-TTTTT
60 TAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * * * *
53904 TCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAC-AC----CTTTT
* * *
53969 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCGTT-T
61 AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * * * *
54023 TCTCTTAAAGCCCACACAAGTTGATGGCACCTTCAGTCCTCAAAGAGCGGGACGCTTTTTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAC-----CTTTT
* *
54088 AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAACAGGACGCCTT-T
61 AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
*
54141 TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
* *
54206 CCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGGCTTCT
66 CCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
**
54256 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACATGTTTTAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
*
54321 CCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
66 CCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
**
54371 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCACCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCAGGA------CACCT
* *
54436 TTTAAAGCCCAAACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
58 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
54494 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
*
54559 CCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
66 CCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGACGCCTTCT
** * *
54610 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACC---T-TTT
* *
54675 CAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAAAGCAGGA--CC--CT
61 -AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
*
54727 --TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCAGGA------CACCT
* *
54789 TTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTT-T
58 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * * * *
54846 TCTTTTAAAGCCCACAGAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACGCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTTAAAG
* * **
54911 CCCACACGAGTTGGTGGCAGTTTTTAGTCCTCAAAGAGCAGGA
65 CCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
54954 TACACTTTAT
Statistics
Matches: 1050, Mismatches: 69, Indels: 94
0.87 0.06 0.08
Matches are distributed among these distances:
107 25 0.02
113 30 0.03
114 27 0.03
115 290 0.28
116 97 0.09
117 45 0.04
118 78 0.07
119 173 0.16
120 79 0.08
121 84 0.08
122 26 0.02
123 96 0.09
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (115 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
Found at i:54474 original size:238 final size:237
Alignment explanation
Indices: 53722--54953 Score: 1509
Period size: 238 Copynumber: 5.2 Consensus size: 237
53712 AAGAGCAGGA
* * * *
53722 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCGGGACGCCTT-TT
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTC
** * *
53785 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGA--CC-TATCTTTT
* * * * ** *
53850 AAAGCCCACACAAGTTGGTGGTATTTTCCAATCCTCAAAGAGCGGGACGTTTTTTCTCTTAAAGC
126 AAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGC
* * *
53915 CCACAAAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTT
191 CCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTT
** * * * * *
53962 -TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCGTT-TTC
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
* * * *
54025 TCTTAAAGCCCACACAAGTTGATGGCACCTTCAGTCCTCAAAGAGCGGGACGCTTTTTCTTTTAA
66 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAC-C--TATCTTTTAA
* *
54090 AGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAACAGGACGCCTTTTCTTTTAAAGCC
128 AGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCC
*
54153 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA------
192 CACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTT
*
54193 CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGGCTTCTCC
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
*
54258 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA-C-ATGTTTTAAAGC
66 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCTATCTTTTAAAGC
* *
54321 CCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCAC
131 CCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCAC
*
54386 ACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAGGACGCCTT
195 ACAAGTTGGTGGCACTTT--CAGTCCTCAAAGAGCAGGACGCCTT
*
54431 CACCTTTTAAAGCCCAAACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
*
54496 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA-C-ACCTTTTAAAGC
66 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCTATCTTTTAAAGC
*
54559 CCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCA
131 CCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCA
* *
54624 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTT
194 CACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACGCCTT
** * * * *
54669 -TTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAAAGCAGGA--CC--CT-
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTC
*
54727 -TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCAGGA--CC-TAT-CTT
* *
54790 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
124 TTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAA
* *
54855 GCCCACAGAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACG----
189 GCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTT
* * * ***
54901 --CCTTTCAAAGCCCACACGAGTTGGTGGCAGTTTTTAGTCCTCAAAGAGCAGGA
1 CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
54954 TACACTTTAT
Statistics
Matches: 897, Mismatches: 66, Indels: 67
0.87 0.06 0.07
Matches are distributed among these distances:
227 3 0.00
228 28 0.03
229 24 0.03
230 37 0.04
231 70 0.08
232 91 0.10
233 51 0.06
235 3 0.00
236 48 0.05
237 143 0.16
238 252 0.28
239 147 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (237 bp):
CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCTATCTTTTAAAGC
CCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACA
CAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTT
Found at i:55579 original size:19 final size:18
Alignment explanation
Indices: 55551--55618 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
55541 AATTCAACAA
55551 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
55569 TTTTTTATCGATAC--AA-
1 -TTTGTATCGATACATAAG
55585 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
55601 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
55619 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:55590 original size:32 final size:32
Alignment explanation
Indices: 55553--55615 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
55543 TTCAACAATT
* *
55553 TGTATCGATACATAAGTTTTTTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
55585 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
55616 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:55676 original size:13 final size:13
Alignment explanation
Indices: 55658--55683 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55648 CATTTTTCTG
55658 TGTATCGATACAT
1 TGTATCGATACAT
55671 TGTATCGATACAT
1 TGTATCGATACAT
55684 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55680 original size:33 final size:33
Alignment explanation
Indices: 55638--55704 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
55628 GCCAAGGAAA
***
55638 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
55671 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
55704 T
1 T
55705 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:58253 original size:51 final size:52
Alignment explanation
Indices: 58177--58399 Score: 211
Period size: 52 Copynumber: 4.3 Consensus size: 52
58167 TTATTTCCGA
* * *** *
58177 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
* * *
58228 GGGGATACTCCAACCCCGATTTTA-TTACTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAA-TTTTTCACAATC
* * * *
58280 GAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTTCCCTTTAATT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCAC---AATC
* * * *
58333 GGGGATACTTCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
* *
58385 GAGGATATTCCAACC
1 GGGGATACTCCAACC
58400 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
50 9 0.06
51 30 0.21
52 56 0.40
53 30 0.21
54 9 0.06
55 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
Found at i:58253 original size:82 final size:81
Alignment explanation
Indices: 58095--58245 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 81
58085 TTCTATAATC
* *
58095 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCATAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTCTTCATAATCGGGGATACTCC
58160 AACCCCGTTATTTCCGA
65 AACCCCGTTATTTCCGA
* ***
58177 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTGATTT-TTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCATAATCGGGGATACTCCA
58240 ACCCCG
66 ACCCCG
58246 ATTTTATTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 27 0.43
80 10 0.16
82 26 0.41
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCATAATCGGGGATACTCCA
ACCCCGTTATTTCCGA
Found at i:58381 original size:105 final size:103
Alignment explanation
Indices: 58179--58399 Score: 264
Period size: 105 Copynumber: 2.1 Consensus size: 103
58169 ATTTCCGAGG
* *** *
58179 GGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAACCC
* *
58244 CGATTTTATTACTAAAACACTAATTTTTTCACAATCGA
66 CGATTTTATTACAAAAACACCAATTTTTTCACAATCGA
** * * *
58282 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATTGGGGATACTTCAAC
1 GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTT-CC-ATAATCGGGGATACTCCAAC
* * *
58347 TCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATCGA
64 CCCGATTTTA-TTACAAAAACACCAATTTTTTCACAATCGA
*
58387 GGATATTCCAACC
1 GGATACTCCAACC
58400 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
103 35 0.35
104 1 0.01
105 52 0.53
106 11 0.11
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (103 bp):
GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAACCC
CGATTTTATTACAAAAACACCAATTTTTTCACAATCGA
Found at i:60187 original size:20 final size:20
Alignment explanation
Indices: 60159--60265 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
60149 TTTTACCCAG
*
60159 ATGTCTCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
60179 ATGTATCGATACATTCTGTCTTTTATCCA
1 ATGTATCGATACA-------TTTT-T-CA
* *
60208 AATGTATCGATGCATTTTTTA
1 -ATGTATCGATACATTTTTCA
* * *
60229 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
60249 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
60266 GTCTTTTTAC
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
20 43 0.63
21 1 0.01
22 1 0.01
23 4 0.06
27 4 0.06
28 1 0.01
29 2 0.03
30 12 0.18
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:64738 original size:15 final size:15
Alignment explanation
Indices: 64718--64748 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
64708 TACTACATTG
64718 ACTAGTTCTGATCAT
1 ACTAGTTCTGATCAT
64733 ACTAGTTCTGATCAT
1 ACTAGTTCTGATCAT
64748 A
1 A
64749 TGAAGCCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (15 bp):
ACTAGTTCTGATCAT
Found at i:80809 original size:13 final size:13
Alignment explanation
Indices: 80791--80815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80781 CATATTGCTT
80791 TGTATCGATACAC
1 TGTATCGATACAC
80804 TGTATCGATACA
1 TGTATCGATACA
80816 TGATCTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:80881 original size:18 final size:18
Alignment explanation
Indices: 80858--80895 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
80848 CGATACATAG
80858 TGAAAAGTAGTGATACAT
1 TGAAAAGTAGTGATACAT
80876 TGAAAAGTAGTGATACAT
1 TGAAAAGTAGTGATACAT
80894 TG
1 TG
80896 TGCCCAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (18 bp):
TGAAAAGTAGTGATACAT
Found at i:81484 original size:20 final size:20
Alignment explanation
Indices: 81459--81576 Score: 139
Period size: 20 Copynumber: 5.8 Consensus size: 20
81449 TTTTACCCAG
*
81459 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTCCA
* **
81479 ATGTATCAATACATTACCCA
1 ATGTATCGATACATTTTCCA
81499 TATGTATCGATACATTTTCCA
1 -ATGTATCGATACATTTTCCA
* *
81520 TTGTATCGATACA-TTACACA
1 ATGTATCGATACATTTTC-CA
*
81540 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTCCA
81561 ATGTATCGATACATTT
1 ATGTATCGATACATTT
81577 AGTTAAATTT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.04
20 46 0.56
21 31 0.38
22 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTCCA
Found at i:81508 original size:41 final size:41
Alignment explanation
Indices: 81451--81575 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
81441 AGTCATATTT
*
81451 TTACCCAGATGTATCGATACATTTTTCAATGTATCAATACA
1 TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
* * *
81492 TTACCCATATGTATCGATACATTTTCCATTGTATCGATACA
1 TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
*
81533 TTACACAGATGTATCGATACATTTTTCAATGTATCGATACA
1 TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
81574 TT
1 TT
81576 TAGTTAAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (41 bp):
TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
Found at i:85583 original size:19 final size:20
Alignment explanation
Indices: 85538--85589 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
85528 TTACAAGCCA
* *
85538 ATGTATCCATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
85558 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
85578 -TGTATCGATACA
1 ATGTATCGATACA
85590 AATAGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:86367 original size:17 final size:17
Alignment explanation
Indices: 86339--86374 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
86329 ACAAAGATTC
86339 TTTAATCACAAGTATCT
1 TTTAATCACAAGTATCT
*
86356 TTTAATCACAAGTTTCT
1 TTTAATCACAAGTATCT
86373 TT
1 TT
86375 CTCCCCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTAATCACAAGTATCT
Found at i:88426 original size:8 final size:8
Alignment explanation
Indices: 88413--88438 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
88403 AACATCATTC
88413 ATCACAAA
1 ATCACAAA
88421 ATCACAAA
1 ATCACAAA
88429 ATCACAAA
1 ATCACAAA
88437 AT
1 AT
88439 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:94306 original size:20 final size:21
Alignment explanation
Indices: 94281--94333 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
94271 TCCTGTGTAA
94281 ATGTATCGATACAAT-TTGAG
1 ATGTATCGATACAATCTTGAG
*
94301 ATGTATCGATAC-ATCTTGTG
1 ATGTATCGATACAATCTTGAG
94321 -TGTATCGATACAA
1 ATGTATCGATACAA
94334 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATCTTGAG
Found at i:94421 original size:13 final size:13
Alignment explanation
Indices: 94403--94427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94393 ACATTTGGTC
94403 ATGTATCGATACA
1 ATGTATCGATACA
94416 ATGTATCGATAC
1 ATGTATCGATAC
94428 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:104426 original size:19 final size:20
Alignment explanation
Indices: 104387--104438 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
104377 TTTCAACGAT
104387 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
104407 TTGTATCGATACAT-AAGTG
1 TTGTATCGATACATAAAGTG
104426 TTGTATCGATACA
1 TTGTATCGATACA
104439 ATATAAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:112744 original size:9 final size:8
Alignment explanation
Indices: 112718--112748 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
112708 GTAATCATGG
112718 CATCATAA
1 CATCATAA
112726 CATCATAA
1 CATCATAA
112734 CATCAATAA
1 CATC-ATAA
112743 CATCAT
1 CATCAT
112749 TATTTGCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (8 bp):
CATCATAA
Found at i:112919 original size:31 final size:31
Alignment explanation
Indices: 112853--113189 Score: 363
Period size: 31 Copynumber: 10.9 Consensus size: 31
112843 ATACCTTCTT
112853 AAAGTCCACGACTCAGTGGCAT-TTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTCC
*
112883 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTCC
* *
112914 AAAGTCCACAACTCAGTGGCAATCTCTT-TCC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTCC
* *
112945 AAAGTCTATGACTCAGTGGCATCTTTTC-CTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTC-C
* * * *
112976 AAAGTCCACAACTCAATGCCAATCTCTT-TCC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTCC
*
113007 AAAGTCCATGACTCAGTGGCATCTTTTC-CTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTC-C
*
113038 AAAGCCCACGACTCAGTGGCAT-TTTGTCT-C
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTCC
* *
113068 AAAGTCCACGACTTAGTGGCAATCTCTTCT-C
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTCC
*
113099 AAAGCCCACGACTCAGTGGCAT-TTTGTCT-C
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTCC
* *
113129 AAAGTTCACGACTCAGTGGCATCATTTTCTTC
1 AAAGTCCACGACTCAGTGGCATC-TTTTCTCC
*
113161 AAAGTCCACGACTCATTGGCATCTTTTCT
1 AAAGTCCACGACTCAGTGGCATCTTTTCT
113190 TTTTAAAGCC
Statistics
Matches: 260, Mismatches: 30, Indels: 33
0.80 0.09 0.10
Matches are distributed among these distances:
29 2 0.01
30 86 0.33
31 133 0.51
32 39 0.15
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTCC
Found at i:113164 original size:154 final size:156
Alignment explanation
Indices: 112848--113188 Score: 450
Period size: 154 Copynumber: 2.2 Consensus size: 156
112838 TTCAAATACC
* *
112848 TTCTT-AAAGTCCACGACTCAGTGGCAT-TTTGTCCCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTT-TCCCAAAGCCCACGACTCAGTGGCATTTTGTC
* * *
112911 TCCAAAGTCCACAACTCAGTGGCAATCTCTTTCCAAAGTCTATGACTCAGTGGCATCTTTTCCTC
65 TCCAAAGTCCACAACTCAGTGGCAATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTTTCCTC
112976 AAAGTCCACAACTCAATGCCAATCTCT
130 AAAGTCCACAACTCAATGCCAATCTCT
*
113003 TTC--CAAAGTCCATGACTCAGTGGCATCTTTTCCTCAAAGCCCACGACTCAGTGGCATTTTGTC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCC-CAAAGCCCACGACTCAGTGGCATTTTGTC
* *
113066 T-CAAAGTCCACGACTTAGTGGCAATCTC-TTCTCAAAGCCCACGACTCAGTGGCAT-TTTGT-C
65 TCCAAAGTCCACAACTCAGTGGCAATCTCTTTC-CAAAGCCCACGACTCAGTGGCATCTTT-TCC
* * * *
113127 TCAAAGTTCACGACTCAGTGGC-ATCAT-T
128 TCAAAGTCCACAACTCAATGCCAATC-TCT
*
113155 TTCTTCAAAGTCCACGACTCATTGGCATCTTTTC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTC
113189 TTTTTAAAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
152 7 0.04
153 26 0.16
154 97 0.59
155 34 0.21
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (156 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCCCAAAGCCCACGACTCAGTGGCATTTTGTCT
CCAAAGTCCACAACTCAGTGGCAATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTTTCCTCA
AAGTCCACAACTCAATGCCAATCTCT
Found at i:113229 original size:35 final size:35
Alignment explanation
Indices: 113161--113285 Score: 173
Period size: 35 Copynumber: 3.6 Consensus size: 35
113151 CATTTTCTTC
* **
113161 AAAGTCCACGACTCATTGGCA-TC-TTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
113194 AAAGCCCACCACTCCGTGGCACTCTTTTTATTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
113229 AAAGTCCACAACTCCGTGGCACTGTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
113264 AAAGTCCACAACTCCGTGGCAC
1 AAAGTCCACAACTCCGTGGCAC
113286 CCCCTCTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
33 17 0.21
34 2 0.02
35 62 0.77
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (35 bp):
AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:113331 original size:33 final size:33
Alignment explanation
Indices: 113289--113455 Score: 271
Period size: 33 Copynumber: 5.1 Consensus size: 33
113279 GTGGCACCCC
113289 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
* *
113322 CTCTAAAGCCCACACAAGTTAGTGGCAACCAAT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
113355 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
* * *
113388 CTCTAAAGCCCACACAAGTCGGTGGTAACCACT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
* *
113421 CTCTAAAGCCCACACAAATTGGTGGCAACCCTT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
113454 CT
1 CT
113456 AAGCCCAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 122 1.00
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
Found at i:113513 original size:49 final size:49
Alignment explanation
Indices: 113468--114112 Score: 757
Period size: 49 Copynumber: 13.6 Consensus size: 49
113458 GCCCAATATC
*
113468 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
113517 GCTAGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATGTT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
113560 GCTGGCCTTGAATCAGCACATTAGCA-C-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* * * *
113603 GCCGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
*
113652 GCTGGCCTTGAATCAGCACATTGGCA-C----T-TTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
113695 GCTTGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
113744 GTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
113787 GCTGGCCTTGAATCAGCA-ATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* * *
113835 GCTGACCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* *** *
113884 GCTGGCCTTGAATCAGCATATTGGCACCTTCGCCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
*
113933 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGT-A
* * * *
113983 -CTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATCTTTAAGTCCAATGTA
* * * * *
114034 GCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
* * *
114083 GCTGGCCTTAAATCAGCATATTGGCGCCTT
1 GCTGGCCTTGAATCAGCACATTGGCACCTT
114113 CTTCTCATTT
Statistics
Matches: 513, Mismatches: 59, Indels: 48
0.83 0.10 0.08
Matches are distributed among these distances:
42 7 0.01
43 147 0.29
44 3 0.01
48 36 0.07
49 276 0.54
50 2 0.00
51 3 0.01
52 39 0.08
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
Found at i:113589 original size:21 final size:20
Alignment explanation
Indices: 113565--113632 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
113555 ATGTTGCTGG
113565 CCTTGAATCAGCACATTAGCA
1 CCTTGAATCAGCA-ATTAGCA
*
113586 CCTTTAAGTC--CAATATAGCCGA
1 CCTTGAA-TCAGCAAT-TAG-C-A
*
113608 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCA-ATTAGCA
113629 CCTT
1 CCTT
113633 CATCTTTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 14 0.38
22 10 0.27
23 4 0.11
24 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
CCTTGAATCAGCAATTAGCA
Found at i:113640 original size:92 final size:92
Alignment explanation
Indices: 113501--114113 Score: 747
Period size: 92 Copynumber: 6.5 Consensus size: 92
113491 GCACCTTTAT
* * * *
113501 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATGTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
113560 GCTGGCCTTGAATCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
113587 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
113652 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
113679 TTTTAAGTCCAATATAGCTTGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
113744 GTTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
113771 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA-ATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
113835 GCTGACCTTGAATCAGCACATTGGCACC
66 GCTGGCCTTGAATCAGCACATTGGCA-C
* **
113863 TTTATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCGCCTTTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
*
113928 ATGTCGCTGGCCTTGAATCAGCACATTGGCACC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
*
113961 TTTATCTTTAAGTCCAATATCA-CTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAG
1 -----CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAG
* * *
114025 ACCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTC
57 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
114065 ATCTTTAAATCCAATATTGCTGGCCTTAAATCAGCATATTGGCGCCTTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
114114 TTCTCATTTT
Statistics
Matches: 473, Mismatches: 33, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
86 37 0.08
90 1 0.00
91 54 0.11
92 160 0.34
97 33 0.07
98 100 0.21
99 2 0.00
100 1 0.00
101 84 0.18
104 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:114159 original size:55 final size:54
Alignment explanation
Indices: 113779--114189 Score: 268
Period size: 49 Copynumber: 8.1 Consensus size: 54
113769 ACCTTTAAGT
* * * **
113779 CCAATATAGCTGGCCTTGAATCAGCA-ATTGGCACC-T-TTATC--TTT-AAGT
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
* * * * * * *
113827 CCAATGTAGCTGACCTTGAATCAGCACATTGGCACC-T-TTATC--TTT-AAGC
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
* * * **
113876 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-GC-C--TTT-AAGT
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
* * * * **
113925 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TTATC--TTT-AAGT
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
* * *
113974 CCAATATCACTGGCCTTAAATCAGCATATTGGCACC-T-TTGTCATCTTTAAGA-
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCAT-TTTAAAAC
* * * * * *
114026 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTC--ATC--TTT-AAAT
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
* *
114075 CCAATATTGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTT-AAAAC
* *
114130 CCAATATCGCTGGCCTTAAATTAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTT-AAAAC
114185 CCAAT
1 CCAAT
114190 GTCCTTGGCT
Statistics
Matches: 307, Mismatches: 38, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
48 27 0.09
49 175 0.57
50 1 0.00
51 2 0.01
52 36 0.12
53 5 0.02
55 61 0.20
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (54 bp):
CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTCATTTTAAAAC
Found at i:114217 original size:55 final size:55
Alignment explanation
Indices: 113974--114189 Score: 236
Period size: 55 Copynumber: 4.1 Consensus size: 55
113964 ATCTTTAAGT
* * * *
113974 CCAATATCACTGGCCTTAAATCAGCATATTGGCACC-T-TTGTCATCTTT-AAGA-
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCAT-TTTCAAAAC
* * * * * * *
114026 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTC--ATC--TTT--AAAT
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
*
114075 CCAATATTGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
*
114130 CCAATATCGCTGGCCTTAAATTAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
1 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
114185 CCAAT
1 CCAAT
114190 GTCCTTGGCT
Statistics
Matches: 138, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.01
49 36 0.26
51 2 0.01
52 33 0.24
53 4 0.03
55 61 0.44
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (55 bp):
CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTCTTCTCATTTTCAAAAC
Found at i:114260 original size:47 final size:47
Alignment explanation
Indices: 114185--114284 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 47
114175 TTTTCAAAAC
* *
114185 CCAATGTCCTTGGCTTTGAATCAACACATTGGCATTCTTCTTTAAGT
1 CCAATGTCCTTGGCCTTGAATCAACACATTGGCATTCTTCTTCAAGT
* *
114232 CCAATGTCGC-TGGCCTTGACTCAGCACATTGGCATTCTTCTTCAAGT
1 CCAATGTC-CTTGGCCTTGAATCAACACATTGGCATTCTTCTTCAAGT
*
114279 CTAATG
1 CCAATG
114285 ATGCTGACCG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 46 0.98
48 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (47 bp):
CCAATGTCCTTGGCCTTGAATCAACACATTGGCATTCTTCTTCAAGT
Found at i:115076 original size:32 final size:33
Alignment explanation
Indices: 115013--115078 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
115003 TTCAACGATT
115013 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
* *
115046 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
115078 T
1 T
115079 ATAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:115137 original size:13 final size:13
Alignment explanation
Indices: 115119--115143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115109 ATTACTCAAA
115119 TGTATCGATACAT
1 TGTATCGATACAT
115132 TGTATCGATACA
1 TGTATCGATACA
115144 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119500 original size:27 final size:26
Alignment explanation
Indices: 119470--119567 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
119460 CTTCGTACCA
*
119470 AAAAAAACAAGAAAAATAA-AAAAATAG
1 AAAAAACCAAGAAAAA-AACAAAAA-AG
119497 AAAAAACCAAGGAAAAAAACAAAAAAG
1 AAAAAACCAA-GAAAAAAACAAAAAAG
119524 AAAAAACCAA-AAAAAAACCAAAAAA-
1 AAAAAACCAAGAAAAAAA-CAAAAAAG
* *
119549 AAACAAACAAACAAAAAAA
1 AAA-AAACCAAGAAAAAAA
119568 TGAGGTCTAG
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
25 10 0.16
26 13 0.20
27 30 0.47
28 11 0.17
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (26 bp):
AAAAAACCAAGAAAAAAACAAAAAAG
Found at i:119506 original size:36 final size:34
Alignment explanation
Indices: 119469--119568 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 34
119459 GCTTCGTACC
119469 AAAAAAAACAAGAAAAATAAAAAAATAGAAAAAACCA
1 AAAAAAAACAA-AAAAA-AAAAAAATA-AAAAAACCA
119506 AGGAAAAAAACAAAAAAGAAAAAACCAA-AAAAAAACCA
1 A--AAAAAAACAAAAAA-AAAAAA--AATAAAAAAACCA
*
119544 AAAAAAAACAAACAAACAAAAAAAT
1 AAAAAAAACAAA-AAAAAAAAAAAT
119569 GAGGTCTAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
34 2 0.04
36 16 0.29
37 4 0.07
38 19 0.35
39 12 0.22
40 2 0.04
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (34 bp):
AAAAAAAACAAAAAAAAAAAAAATAAAAAAACCA
Found at i:119520 original size:8 final size:8
Alignment explanation
Indices: 119470--119567 Score: 51
Period size: 8 Copynumber: 11.9 Consensus size: 8
119460 CTTCGTACCA
119470 AAAAAAAC
1 AAAAAAAC
*
119478 AAGAAAAAT
1 AA-AAAAAC
*
119487 AAAAAAAT
1 AAAAAAAC
119495 AGAAAAAACC
1 A-AAAAAA-C
119505 AAGGAAAAA-
1 AA--AAAAAC
119514 AACAAAAA-
1 AA-AAAAAC
119522 AGAAAAAAC
1 A-AAAAAAC
*
119531 CAAAAAA-
1 AAAAAAAC
**
119538 AAACCAA-
1 AAAAAAAC
119545 AAAAAAAC
1 AAAAAAAC
*
119553 AAACAAAC
1 AAAAAAAC
119561 AAAAAAA
1 AAAAAAA
119568 TGAGGTCTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
7 9 0.13
8 39 0.55
9 17 0.24
10 1 0.01
11 5 0.07
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:119526 original size:15 final size:15
Alignment explanation
Indices: 119508--119566 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
119498 AAAAACCAAG
119508 GAAAAAAACAAAAAA
1 GAAAAAAACAAAAAA
*
119523 GAAAAAACCAAAAAA
1 GAAAAAAACAAAAAA
*
119538 -AAACCAAA-AAAAAA
1 GAAA-AAAACAAAAAA
* *
119552 CAAACAAACAAAAAA
1 GAAAAAAACAAAAAA
119567 ATGAGGTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 25 0.66
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (15 bp):
GAAAAAAACAAAAAA
Found at i:119540 original size:11 final size:11
Alignment explanation
Indices: 119524--119552 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
119514 AACAAAAAAG
119524 AAAAAACCAAA
1 AAAAAACCAAA
119535 AAAAAACCAAA
1 AAAAAACCAAA
119546 AAAAAAC
1 AAAAAAC
119553 AAACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACCAAA
Found at i:120848 original size:28 final size:28
Alignment explanation
Indices: 120815--121207 Score: 427
Period size: 28 Copynumber: 13.9 Consensus size: 28
120805 CGTTCATCTC
* *
120815 TTCAAAGCTCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
120843 TGCAAAGCCCACGAGTCAGTGGCATCC-
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** *
120870 TTCTAAAGCCCATGATTCAGTGGCATCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
120899 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
120927 TCTCAAATCCCACAAGTCAATGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
120956 TTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
120985 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
121013 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
121042 TTTAAAGCCCACAAGTTAGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
121069 GTTCATAGCCCACAAGTCAGTGGCA-CCTT
1 -TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
121098 TTCAGAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
121126 CTTCAAAGCTCACAAGTTAGAGGCAT-CT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
121154 TCTCAAAACCGACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
121183 TT-TAAGCCTACACAAGTCGGTGGCA
1 TTCAAAGCC--CACAAGTCAGTGGCA
121208 ACTTTCTCTA
Statistics
Matches: 311, Mismatches: 41, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.03
28 186 0.60
29 117 0.38
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:120963 original size:85 final size:83
Alignment explanation
Indices: 120815--121207 Score: 418
Period size: 85 Copynumber: 4.6 Consensus size: 83
120805 CGTTCATCTC
* * * * *
120815 TTCAAAGCTCACAAGTTAGTGGCATCCTTGCAAAGCCCACGAGTCAGTGGCATCC-TTCTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGC
**
120879 CCATGATTCAGTGGCATCCT
65 CCACAATTCAGTGGCA-CCT
* * * * *
120899 TTCAAAGCCCACAAGTCAATGGCACCCTTCTCAAATCCCACAAGTCAATGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
120964 CCACAAATCAGTGGCACCCTT
65 CCACAATTCAGTGGCA-CC-T
*
120985 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGC
121050 CCACAAGTT-AGTGGCACCT
65 CCACAA-TTCAGTGGCACCT
* *
121069 GTTCATAGCCCACAAGTCAGTGGCA-CCTTTTCAGAGCCCACAAGTCAGTGGCACCCTCTTCAAA
1 -TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACCCT-TTCAAA
* * *
121133 GCTCACAAGTT-AGAGGCATCT
63 GCCCACAA-TTCAGTGGCACCT
* * * *
121154 TCTCAAAACCGACAAGTCAGTGGCATCCTTT-TAAGCCTACACAAGTCGGTGGCA
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCAGTGGCA
121208 ACTTTCTCTA
Statistics
Matches: 266, Mismatches: 31, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
84 34 0.13
85 163 0.61
86 68 0.26
87 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (83 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAATTCAGTGGCACCT
Found at i:120966 original size:57 final size:57
Alignment explanation
Indices: 120816--121224 Score: 468
Period size: 57 Copynumber: 7.2 Consensus size: 57
120806 GTTCATCTCT
* * * * *
120816 TCAAAGCTCACAAGTTAGTGGCATCCTTGCAAAGCCCACGAGTCAGTGGCATCCTTC
1 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC
** * *
120873 T-AAAGCCCATGATTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCTTC
1 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC
* * * *
120929 TCAAATCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAATCAGTGGCACCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC
*
120986 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC
* * * *
121043 TTAAAGCCCACAAGTTAGTGGCA-CCTGTTCATAGCCCACAAGTCAGTGGCA-CCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCCTTC
* * * * * *
121099 TCAGAGCCCACAAGTCAGTGGCACCCTCTTCAAAGCTCACAAGTTAGAGGCA-TCTTC
1 TCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCCTTC
* * * * * *
121156 TCAAAACCGACAAGTCAGTGGCATCCTTT-TAAGCCTACACAAGTCGGTGGCAACTTTC
1 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCAGTGGCACCCTTC
121214 TCTAAAGCCCA
1 TC-AAAGCCCA
121225 TACAAGTTGG
Statistics
Matches: 299, Mismatches: 46, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
55 4 0.01
56 77 0.26
57 207 0.69
58 5 0.02
59 6 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (57 bp):
TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC
Found at i:122182 original size:20 final size:20
Alignment explanation
Indices: 122157--122252 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
122147 TTTTACCTAG
122157 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
***
122177 ATGTATCGATACATTACCCA
1 ATGTATCGATACATTTTTCA
*
122197 GATGTATCGATACA-TCTTCTA
1 -ATGTATCGATACATTTTTC-A
* * *
122218 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
122238 ATGTATCGATACATT
1 ATGTATCGATACATT
122253 CTATCCTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:122203 original size:41 final size:42
Alignment explanation
Indices: 122149--122254 Score: 139
Period size: 41 Copynumber: 2.6 Consensus size: 42
122139 AGTCACATTT
* *
122149 TTACCTAGATGTATCGATACATTTTTC-AATGTATCGATACA
1 TTACCCAGATGTATCGATACATTCTTCTAATGTATCGATACA
122190 TTACCCAGATGTATCGATACA-TCTTCTAATGTATCGATACA
1 TTACCCAGATGTATCGATACATTCTTCTAATGTATCGATACA
**
122231 TGTA-TGA-ATGTATCGATACATTCT
1 T-TACCCAGATGTATCGATACATTCT
122255 ATCCTTTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 17 0.29
41 39 0.67
42 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (42 bp):
TTACCCAGATGTATCGATACATTCTTCTAATGTATCGATACA
Found at i:128154 original size:19 final size:19
Alignment explanation
Indices: 128111--128183 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
128101 CACAGCCAGA
*
128111 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
128131 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
128150 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTTC-AT
*
128170 TGTATTGATACATG
1 TGTATCGATACATG
128184 AAACTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:564165 original size:10 final size:10
Alignment explanation
Indices: 564150--564176 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
564140 TGCTAACTAA
564150 GTTTTTGTTT
1 GTTTTTGTTT
564160 GTTTTTGTTT
1 GTTTTTGTTT
564170 GTTTTTG
1 GTTTTTG
564177 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:573879 original size:1 final size:1
Alignment explanation
Indices: 573873--573978 Score: 77
Period size: 1 Copynumber: 106.0 Consensus size: 1
573863 GGCGTCCTCC
** ** ** * **
573873 AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAAAAAAAAAAAACAAAAGGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
573938 AAAAAACAAAAACAATAAAAAAACAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
573979 GGGGGTCCGA
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:573905 original size:30 final size:29
Alignment explanation
Indices: 573872--573975 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 29
573862 TGGCGTCCTC
* *
573872 CAAAAAAAAAAAACGAAAAAAATGAAAAAC
1 CAAAAAAAAAAAAC-AAAAAAATAAAAAAA
*
573902 CAAAAAAAAAAAA-AAAAAAAAAAACAAAA
1 CAAAAAAAAAAAACAAAAAAATAAA-AAAA
**
573931 GGAAAAAAAAAAACAAAAACAATAAAAAAA
1 CAAAAAAAAAAAACAAAAA-AATAAAAAAA
573961 CAAACAAAAACAAAA
1 CAAA-AAAAA-AAAA
573976 AAAGGGGGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 9 0.15
29 14 0.23
30 24 0.39
31 10 0.16
32 4 0.07
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.02
Consensus pattern (29 bp):
CAAAAAAAAAAAACAAAAAAATAAAAAAA
Found at i:573939 original size:39 final size:38
Alignment explanation
Indices: 573873--573978 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 38
573863 GGCGTCCTCC
573873 AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAA-AAAAA-AA
1 AAAAAAAAAAAAC-AAAAAAA--AAAAA--AAAACAAAAACAA
*
573914 AAAAAAAAAAAACAAAAGGAAAAAAAAAAACAAAAACAA
1 AAAAAAAAAAAACAAAA-AAAAAAAAAAAACAAAAACAA
* * *
573953 TAAAAAAACAAACAAAAACAAAAAAA
1 AAAAAAAAAAAACAAAAAAAAAAAAA
573979 GGGGGTCCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
37 4 0.07
38 12 0.21
39 22 0.39
40 4 0.07
41 15 0.26
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (38 bp):
AAAAAAAAAAAACAAAAAAAAAAAAAAAACAAAAACAA
Found at i:573957 original size:27 final size:25
Alignment explanation
Indices: 573872--573978 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 25
573862 TGGCGTCCTC
*
573872 CAAAAAAAAAAAACGAAAAAAATGAAAAA
1 CAAAAAAAAAAAA--AAACAAA--AAAAA
573901 CCAAAAAAAAAAAAAAA-AAAAAAAA
1 -CAAAAAAAAAAAAAAACAAAAAAAA
*
573926 CAAAAGGAAAAAAAAAAACAAAAACAA
1 CAAAA--AAAAAAAAAAACAAAAAAAA
*
573953 TAAAAAAACAAACAAAAACAAAAAAA
1 CAAAAAAA-AAA-AAAAACAAAAAAA
573979 GGGGGTCCGA
Statistics
Matches: 69, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.07
25 8 0.12
26 14 0.20
27 26 0.38
28 3 0.04
30 13 0.19
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (25 bp):
CAAAAAAAAAAAAAAACAAAAAAAA
Found at i:575535 original size:33 final size:35
Alignment explanation
Indices: 575449--575982 Score: 494
Period size: 33 Copynumber: 15.9 Consensus size: 35
575439 GCATTTTTTC
* *
575449 TTCAAAGCCCACAACTTCGTGGCAC-C-TTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
575482 TT-AAAGCCCACAACTCCGTGGCAC-CTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
575515 TTCAAAGCCCA-AACTCCGTGGCACT-TTTTTCATCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T-T
* *
575550 TT--AAGTCCACAACTCTGTGGCAC-CTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
575582 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
575617 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
575652 TTTAAAGCCCACAATTCTGTGGCACTCTTTTTTCCTT
1 TTCAAAGCCCACAACTCCGTGGCACTC-TTTTT-CTT
* *
575689 TTCAAAGCCCACAACTCTGTGGCAC-CTTGTTC-T
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
575722 TTCTAAGCCCACAACTCCGTGGTAC-C-----CTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
575751 TT--AAGTCCACGACTCCGTGGCACTC-TTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
575783 TT-AAAGCCCACAACTACGTGGCACTC-TTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
575815 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
575849 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
575883 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTTTCCTT
1 TTCAAAGCCCACAACTCCGTGGCACTC--TTTTT-CTT
* * *
575921 TTTAAAGCCCACAACTCTGTGGCAC-CTTGTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * * *
575955 TT-TAAGTCCACAACTTCATGGCA-TCTTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTT
575983 CACCCTTTCT
Statistics
Matches: 439, Mismatches: 36, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.04
28 2 0.00
29 3 0.01
32 31 0.07
33 124 0.28
34 120 0.27
35 80 0.18
36 11 0.03
37 28 0.06
38 22 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
Found at i:575570 original size:34 final size:33
Alignment explanation
Indices: 575431--575969 Score: 403
Period size: 34 Copynumber: 16.1 Consensus size: 33
575421 AAAGTCCATG
* **
575431 ACTCAGTGGCA-TTTTTTCT-TCAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
* *
575462 ACTTCGTGGCAC-CTTTTC-CTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* *
575494 ACTCCGTGGCACCTTCTTCT-TTTCAAAGCCCA-A
1 ACTCCGTGGCACTTTTTTCTCTTT--AAGCCCACA
*
575527 ACTCCGTGGCACTTTTTTCATCTTTAAGTCCACA
1 ACTCCGTGGCACTTTTTTC-TCTTTAAGCCCACA
* * *
575561 ACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* * *
575595 ACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCAC-TTTTTTCTCTTT-AAGCCCACA
* * *
575630 ACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCAC-TTTTTTCTCTTT-AAGCCCACA
* *
575665 ATTCTGTGGCACTCTTTTT-TCCTTTTCAAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCT-C-TTT--AAGCCCACA
* * *
575702 ACTCTGTGGCACCTTGTTCT-TTCTAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTT-TAAGCCCACA
* * * *
575735 ACTCCGTGGTAC-----CCT-TTTAAGTCCACG
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
*
575762 ACTCCGTGGCACTCTTTTC-CTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* *
575795 ACTACGTGGCACTCTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTT-TAAGCCCACA
575828 ACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCTCTT-TAAGCCCACA
575862 ACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCTCTT-TAAGCCCACA
*
575896 ACTCCGTGGCACTCTTTTTTTCCTTTTTAAAGCCCACA
1 ACTCCGTGGCA--C-TTTTTT-CTCTTT-AAGCCCACA
* * * * *
575934 ACTCTGTGGCACCTTGTTCTTTTTAAGTCCACA
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
575967 ACT
1 ACT
575970 TCATGGCATC
Statistics
Matches: 438, Mismatches: 38, Indels: 62
0.81 0.07 0.12
Matches are distributed among these distances:
27 19 0.04
28 4 0.01
31 15 0.03
32 24 0.05
33 114 0.26
34 121 0.28
35 81 0.18
36 14 0.03
37 25 0.06
38 21 0.05
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
Found at i:575760 original size:27 final size:27
Alignment explanation
Indices: 575693--575779 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 27
575683 TTCCTTTTCA
*
575693 AAGCCCACAACTCTGTGGCACCTTGTTCTTTCT
1 AAGCCCACAACTCCGTGGCACC-----CTTT-T
*
575726 AAGCCCACAACTCCGTGGTACCCTTTT
1 AAGCCCACAACTCCGTGGCACCCTTTT
* * *
575753 AAGTCCACGACTCCGTGGCACTCTTTT
1 AAGCCCACAACTCCGTGGCACCCTTTT
575780 CCTTTAAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 24 0.50
28 4 0.08
33 20 0.42
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (27 bp):
AAGCCCACAACTCCGTGGCACCCTTTT
Found at i:576027 original size:33 final size:34
Alignment explanation
Indices: 575984--576069 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 34
575974 GGCATCTTTC
575984 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
*
576017 A-CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
**
576050 ACCCTTCTGAAAAGCCCACA
1 ACCCTTCTCTAAAGCCCACA
576070 AGTCAGTGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
32 4 0.08
33 28 0.58
34 16 0.33
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (34 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
Found at i:576035 original size:301 final size:296
Alignment explanation
Indices: 575457--576002 Score: 741
Period size: 301 Copynumber: 1.8 Consensus size: 296
575447 TCTTCAAAGC
* * *
575457 CCACAACTTCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAG
1 CCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTACGTGGCACCTTCTTCTCTTCAAAG
* * * *
575522 CCCAAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAA
66 CCCAAACTCCGTGGCACTTTTTTCA-CTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTCTAA
* *
575587 AGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
130 AGCCCACAACTCCGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACACTTGTTCTT
* ***
575652 TTTAAAGCCCACAATTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCTGTGGCACCTT
195 TTTAAAGCCCACAATTCTATGGCACTCTTTCACCCTTTTCAAAGCCCACAACTCTGTGGCACC-T
575717 GTTCTTTCTAAGCCCACAACTCCGTGGTACCCTTTTAAGT
259 -TTC-TTCTAAGCCCACAACTCCGTGGTACCCTTTTAAGT
* *
575757 CCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTT-TTC-CTTCTA
1 CCACAACTCCGTGGCAC-CTTTTCCTTTAAAGCCCACAACTACGTGGCAC-CTTCTTCTCTTCAA
575820 AGCCCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
64 AGCCCA-AACTCCGTGGCACT-TTTTTCACTT-TAAGCCCACAACTCCGTGGCAC-CTTTTTCCT
*
575884 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC-C
125 TCTAAAGCCCACAACTCCGTGGCACAC--TTTTT-CTTTTTAAAGCCCACAACTCTGTGGCACAC
*
575947 TTGTTCTTTTT-AAGTCCACAACTTC-ATGGCA-TCTTTCACCC-TTTCTAAAGCCCACA
187 TTGTTCTTTTTAAAGCCCACAA-TTCTATGGCACTCTTTCACCCTTTTC-AAAGCCCACA
576003 CAAGTCGATG
Statistics
Matches: 218, Mismatches: 17, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
300 32 0.15
301 106 0.49
302 33 0.15
303 19 0.09
304 28 0.13
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (296 bp):
CCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTACGTGGCACCTTCTTCTCTTCAAAG
CCCAAACTCCGTGGCACTTTTTTCACTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTCTAAA
GCCCACAACTCCGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACACTTGTTCTTT
TTAAAGCCCACAATTCTATGGCACTCTTTCACCCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
CTTCTAAGCCCACAACTCCGTGGTACCCTTTTAAGT
Found at i:576079 original size:32 final size:32
Alignment explanation
Indices: 575993--576099 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 32
575983 CACCCTTTCT
*
575993 AAAGCCCACACAAGTCGATGGCAAACCTTCTCT
1 AAAGCCCACACAAGTCG-TGGCAAACCTTCTCA
*
576026 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTGA
1 AAAGCCCACACAAGTC-GTGGCAAA-CCTTCTCA
* * *
576060 AAAG-CC-CACAAGTCAGTGGCATA-TTTTTCA
1 AAAGCCCACACAAGTC-GTGGCAAACCTTCTCA
576090 AAAGCCCACA
1 AAAGCCCACA
576100 AGTTTAAAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 8 0.13
31 2 0.03
32 17 0.27
33 25 0.40
34 11 0.17
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGTGGCAAACCTTCTCA
Found at i:576184 original size:32 final size:31
Alignment explanation
Indices: 576106--576191 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 31
576096 CACAAGTTTA
*
576106 AAAGCCCACAAGTCAGTGGCAA-CC--TT-C
1 AAAGCCCACAAATCAGTGGCAACCCTTTTCC
576133 AAAGCCCACAAATCAGTGGC-ACCCTTTTCC
1 AAAGCCCACAAATCAGTGGCAACCCTTTTCC
**
576163 AAAGCCCACACAAGTTGGTGGCAACCCTT
1 AAAGCCCACA-AA-TCAGTGGCAACCCTT
576192 CTAAGCCCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 21 0.43
29 2 0.04
30 11 0.22
31 2 0.04
32 6 0.12
33 6 0.12
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (31 bp):
AAAGCCCACAAATCAGTGGCAACCCTTTTCC
Found at i:576251 original size:49 final size:50
Alignment explanation
Indices: 576188--576392 Score: 189
Period size: 49 Copynumber: 4.0 Consensus size: 50
576178 TGGTGGCAAC
*
576188 CCTTCTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCACC-TTCA
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCA
*
576238 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CA
** ** * * *
576290 TTTTTAAGGTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-TCA
* * * * *
576345 TCTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
576393 ATCACTTTTC
Statistics
Matches: 128, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
49 39 0.30
50 5 0.04
51 4 0.03
52 38 0.30
53 2 0.02
54 2 0.02
55 37 0.29
56 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (50 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCA
Found at i:576318 original size:52 final size:52
Alignment explanation
Indices: 576199--576392 Score: 200
Period size: 52 Copynumber: 3.7 Consensus size: 52
576189 CTTCTAAGCC
* *
576199 CAATATAGTTGGCCTTGAATCAGCATATTGGCACC--TT-CACCTTTAA-GT
1 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
*
576247 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATTTTTAAGGT
1 -CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
* * * **
576300 CAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCC
1 CAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CATCTTTAAGGT
* * * *
576355 CAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
576393 ATCACTTTTC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 34 0.28
51 2 0.02
52 37 0.31
53 7 0.06
54 7 0.06
55 34 0.28
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (52 bp):
CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
Found at i:579619 original size:33 final size:32
Alignment explanation
Indices: 579563--579625 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
579553 ATTCATGATG
579563 TATCGATATAATGAACATGTATCGATACATTA
1 TATCGATATAATGAACATGTATCGATACATTA
*
579595 TATCGATACTAA-GCAATATGTATCGATACAT
1 TATCGATA-TAATG-AACATGTATCGATACAT
579626 CTGGTATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (32 bp):
TATCGATATAATGAACATGTATCGATACATTA
Found at i:581935 original size:23 final size:24
Alignment explanation
Indices: 581889--581936 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
581879 TCAAAGGATT
*
581889 AAACACAAATTCAATTAAGCACAA
1 AAACACAAATTCAATTAAGAACAA
581913 AAACACAAA-TCAATTGAA-AACAA
1 AAACACAAATTCAATT-AAGAACAA
581936 A
1 A
581937 TTTTCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AAACACAAATTCAATTAAGAACAA
Found at i:582801 original size:21 final size:21
Alignment explanation
Indices: 582764--582819 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
582754 TATTAGTTAG
*
582764 CTCA-TCATTTTCATTTTGCAA
1 CTCATTCATTTTC-TTTTCCAA
582785 CTCATTTC-TTTTCTTTTCCAA
1 CTCA-TTCATTTTCTTTTCCAA
582806 CTCATTCATTTTCT
1 CTCATTCATTTTCT
582820 CCTCTAGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 5 0.16
23 2 0.06
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.54
Consensus pattern (21 bp):
CTCATTCATTTTCTTTTCCAA
Found at i:585536 original size:13 final size:13
Alignment explanation
Indices: 585518--585542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
585508 CATAAAGTGT
585518 TGTATCGATACAA
1 TGTATCGATACAA
585531 TGTATCGATACA
1 TGTATCGATACA
585543 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:585540 original size:33 final size:33
Alignment explanation
Indices: 585498--585564 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
585488 TTCAACGATT
585498 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
585531 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
585564 T
1 T
585565 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:585623 original size:13 final size:13
Alignment explanation
Indices: 585605--585629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
585595 ATCACTCAAA
585605 TGTATCGATACAT
1 TGTATCGATACAT
585618 TGTATCGATACA
1 TGTATCGATACA
585630 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:585731 original size:52 final size:52
Alignment explanation
Indices: 585638--585761 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
585628 CACTGATCTT
*
585638 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
585689 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
585741 TGTATCGATACGTGCAAGCAA
1 TGTATCGATACATGCAGGCAA
585762 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:589340 original size:61 final size:59
Alignment explanation
Indices: 588820--589340 Score: 506
Period size: 61 Copynumber: 8.9 Consensus size: 59
588810 CGTTACGACA
* * *
588820 CCCACACGAGTTGGTGGCA-TTTTCTTGTCCTCAAAGAGTAGGATGCC----TTTCAAAG
1 CCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTTTTCAAAG
* * * *
588875 CCCACACGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT--TTTCAAAG
* ** *
588936 CCCACACAAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAG
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCC-TTT-TTTTCAAAG
* * *
588997 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC----TTTCAAAG
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTCAAAG
* * * **
589052 CCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACACC----TTTCAAAG
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTCAAAG
*
589107 CCCACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGATGCC----TCTCAAAG
1 CCCACACAAGTTGGTGGCACTTTTT-AGTCCTCAAAGAGCAGGATGCCTTTTTTTCAAAG
* *
589162 CCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAAGATG-CTTTCTCTTTGCAAAG
1 CCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTT-T-TTT-CAAAG
* ** **
589223 CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTCAAAG
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTT--TTTTCAAAG
* * *
589284 CCTACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCACTTTATTTTC
1 CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGC-CTTT-TTTTC
589341 CTCTTTCTTT
Statistics
Matches: 402, Mismatches: 42, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.01
55 184 0.46
56 3 0.01
60 2 0.00
61 190 0.47
62 16 0.04
63 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
CCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTCAAAG
Found at i:590035 original size:19 final size:18
Alignment explanation
Indices: 589988--590073 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
589978 TTTCAAACAA
*
589988 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
590007 TAACTGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
590027 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
590043 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
590059 TTTTGTATCGATACA
1 -TTTGTATCGATACA
590074 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 9 0.16
15 4 0.07
17 4 0.07
19 22 0.40
20 3 0.05
21 13 0.24
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:590052 original size:32 final size:32
Alignment explanation
Indices: 590011--590086 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
590001 AAACAGTAAC
*
590011 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
590043 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
590075 TGTATCGCTACA
1 TGTATCGATACA
590087 AAGCTACTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:592671 original size:79 final size:79
Alignment explanation
Indices: 592556--592813 Score: 335
Period size: 79 Copynumber: 3.3 Consensus size: 79
592546 TTAATTTTTC
* * *
592556 ATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACTCCAGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCAGTTTTATTTCTAAAAT
*
592621 ATTAATTTCTCATA
66 ATCAATTTCTCATA
* **
592635 ATCGGGAATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAAC-CTCAGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTC-CAGTTTTATTTCTAAAA
*
592699 TATCAATTTTTCATA
65 TATCAATTTCTCATA
* *
592714 ATCGGGGATACTCCCATCCCGTTATTTCCG-GGGGATTACTCCAACTCC-GATTTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA-TACTCCAACTCCAG-TTTTATTTCTAAA
* * *
592777 ACACCAA-TTCTCCACA
64 ATATCAATTTCT-CATA
592793 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
592814 ATTTTATTTC
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
78 10 0.06
79 144 0.93
80 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCAGTTTTATTTCTAAAAT
ATCAATTTCTCATA
Found at i:592796 original size:158 final size:155
Alignment explanation
Indices: 592511--592813 Score: 378
Period size: 158 Copynumber: 1.9 Consensus size: 155
592501 TTTTCATCTC
* * *
592511 GGGGATACTCCGACCCCGGTTTCATTTCCAAAACATTAATTTTTCATCGAGGATACTCCAACCCC
1 GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTTCATCGAGGATACTCCAACCCC
* ** *
592576 GTTATTTCCGAAGGGATACTCCAACTCCAGCTTTATTTCTAAAATATTAATTTCTCATAATCGGG
66 GTTATTTCCGAAGGGATACTCCAACTCCAGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
592641 AATACTCCAACCCCGTTATTTTTGA
131 AATACTCCAACCCCGTTATTTTTGA
* * * * * * *
592666 GGGGATACTCCAACCTCAGTTTTATTTCTAAAATATCAATTTTTCATAATCGGGGATACTCCCAT
1 GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTTC---ATCGAGGATACTCCAAC
* *
592731 CCCGTTATTTCCG-GGGGATTACTCCAACTCC-GATTTTATTTCTAAAACACCAA-TTCTCCACA
63 CCCGTTATTTCCGAAGGGA-TACTCCAACTCCAG-CTTTATTTCTAAAACACCAATTTCT-CACA
*
592793 ATCGGGGATACTCCAACCCCG
125 ATCGGGAATACTCCAACCCCG
592814 ATTTTATTTC
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
155 38 0.30
157 9 0.07
158 78 0.62
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (155 bp):
GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTTCATCGAGGATACTCCAACCCC
GTTATTTCCGAAGGGATACTCCAACTCCAGCTTTATTTCTAAAACACCAATTTCTCACAATCGGG
AATACTCCAACCCCGTTATTTTTGA
Found at i:592820 original size:51 final size:51
Alignment explanation
Indices: 592744--592864 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
592734 GTTATTTCCG
* *
592744 GGGGATTACTCCAACTCCGATTTTATTTCTAAAACACCAA-TTCTCCACAATC
1 GGGGA-TACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCT-CACAATC
**
592796 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
592847 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
592865 TTATTTCATC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 55 0.86
52 9 0.14
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:592880 original size:158 final size:158
Alignment explanation
Indices: 592718--593050 Score: 411
Period size: 158 Copynumber: 2.1 Consensus size: 158
592708 TTCATAATCG
* * * * *
592718 GGGATACTCCCATCCCGTTATTTCCG-GGGGATTACTCCAACTCCGATTTTATTTCTAAAACACC
1 GGGATACTCCAATCCCGTTATTTCCGAGGGGA-TACCCCAACCCCGACTTTATTTCCAAAACACC
**
592782 AA-TTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTCTCACAAT
65 AATTTCT-CACAATCGGGGATACTCCAACCCCGACCTTATTTCCAAAACACTGATTTCTCACAAT
*
592846 CGGGGATACTCCAACCCCGTTA-TTTCATCA
129 CGGGGATACTCCAACCCCATTATTTTCA-CA
* * * ***
592876 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCCAAAATATTG
1 GGGATACTCCAATCCCGTTATTTCCGAGGGGATACCCCAACCCCGACTTTATTTCCAAAACACCA
* ** * * * * *
592941 ATTTCTCACAATTGGGGATACTTTAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCG
66 ATTTCTCACAATCGGGGATACTCCAACCCCGACCTTATTTCCAAAACACTGATTTCTCACAATCG
*
593006 GGGATACTCCAACCCCATTATTTTCACG
131 GGGATACTCCAACCCCATTATTTTCACA
593034 GGGATACTCCAATCCCG
1 GGGATACTCCAATCCCG
593051 ATTTTATTTT
Statistics
Matches: 148, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
158 134 0.91
159 14 0.09
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (158 bp):
GGGATACTCCAATCCCGTTATTTCCGAGGGGATACCCCAACCCCGACTTTATTTCCAAAACACCA
ATTTCTCACAATCGGGGATACTCCAACCCCGACCTTATTTCCAAAACACTGATTTCTCACAATCG
GGGATACTCCAACCCCATTATTTTCACA
Found at i:592888 original size:28 final size:28
Alignment explanation
Indices: 592847--592920 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
592837 TCTCACAATC
592847 GGGGATACTCCAACCCCGTTATTTCATC-A
1 GGGGATACTCCAACCCCGTTATTT--TCGA
592876 -GGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
592903 GGGGATACCCCAACCCCG
1 GGGGATACTCCAACCCCG
592921 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 39 0.93
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:593020 original size:51 final size:51
Alignment explanation
Indices: 592903--593021 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
592893 TTATTTTCGA
* * *
592903 GGGGATACCCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATT
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
** * * *
592954 GGGGATACTTTAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
593005 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
593022 ATTATTTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:593385 original size:20 final size:20
Alignment explanation
Indices: 593362--593434 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
593352 ACAATTCAAA
593362 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
593382 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
593403 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
593423 GTATCGATACAT
1 GTATCGATACAT
593435 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:593406 original size:21 final size:21
Alignment explanation
Indices: 593380--593455 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
593370 ACATGTTGCA
593380 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
593401 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
593421 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
593442 ATGTATCGATACAT
1 ATGTATCGATACAT
593456 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:593413 original size:41 final size:41
Alignment explanation
Indices: 593362--593455 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
593352 ACAATTCAAA
*
593362 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
593403 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
593444 GTATCGATACAT
1 GTATCGATACAT
593456 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:593512 original size:13 final size:13
Alignment explanation
Indices: 593494--593519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
593484 TACAGCAAGT
593494 ATGTATCGATACA
1 ATGTATCGATACA
593507 ATGTATCGATACA
1 ATGTATCGATACA
593520 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:595766 original size:21 final size:21
Alignment explanation
Indices: 595733--595777 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
595723 TTGCAAGTTG
*
595733 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
595755 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
595775 AAA
1 AAA
595778 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:597601 original size:15 final size:15
Alignment explanation
Indices: 597581--597611 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
597571 TAAAAATGTC
*
597581 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
597596 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
597611 C
1 C
597612 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:599703 original size:20 final size:21
Alignment explanation
Indices: 599624--599702 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
599614 AATGTCCAAA
*
599624 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
599644 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
599669 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
599689 TTGTATCGATACAT
1 ATGTATCGATACAT
599703 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:599707 original size:13 final size:13
Alignment explanation
Indices: 599689--599727 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
599679 ACATTTTTCT
599689 TTGTATCGATACA
1 TTGTATCGATACA
599702 TTGTATCGATACA
1 TTGTATCGATACA
*
599715 CTGTATCGATACA
1 TTGTATCGATACA
599728 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Done.