Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 3 of 10
Found at i:238588 original size:20 final size:20
Alignment explanation
Indices: 238565--238637 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
238555 ACAATTCAAA
238565 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
238585 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
238606 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
238626 GTATCGATACAT
1 GTATCGATACAT
238638 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:238609 original size:21 final size:21
Alignment explanation
Indices: 238583--238658 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
238573 ACATGTTGCA
238583 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
238604 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
238624 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
238645 ATGTATCGATACAT
1 ATGTATCGATACAT
238659 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:238616 original size:41 final size:41
Alignment explanation
Indices: 238565--238658 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
238555 ACAATTCAAA
*
238565 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
238606 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
238647 GTATCGATACAT
1 GTATCGATACAT
238659 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:238715 original size:13 final size:13
Alignment explanation
Indices: 238697--238722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
238687 TACAGCAAGT
238697 ATGTATCGATACA
1 ATGTATCGATACA
238710 ATGTATCGATACA
1 ATGTATCGATACA
238723 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:243269 original size:10 final size:11
Alignment explanation
Indices: 243233--243262 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
243223 GCATCCTTCG
243233 TAAAAAAAACA
1 TAAAAAAAACA
243244 -AAAAAAAACA
1 TAAAAAAAACA
243254 TAAAAAAAA
1 TAAAAAAAA
243263 AAGAAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
TAAAAAAAACA
Found at i:244891 original size:28 final size:28
Alignment explanation
Indices: 244843--245502 Score: 537
Period size: 28 Copynumber: 23.2 Consensus size: 28
244833 ATATAAGTTG
* ** *
244843 GTGGCAACCTTCTCCAAAGCCCATGAGTCG
1 GTGGC-ACCTT-TTCAAAGCCCACAAGTCA
244873 GTGGCACCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
244901 GTGGCAACCTTTT-AAAGCCCACAAGTCA
1 GTGGC-ACCTTTTCAAAGCCCACAAGTCA
* *
244929 ATGGCACCTTGTT-AAAGCCCACGAGTCA
1 GTGGCACCTT-TTCAAAGCCCACAAGTCA
* * * * *
244957 GTAGCACCTTTTCAAAGTCTACCAGCCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * * * *
244985 GTGACACCCTTTCTAAGTCCATAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * * **
245013 GTGGTATCCTTCT-AATGCCCATGAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* *
245041 GTGGCATCC-TTCCAAAGCCCATAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* *
245069 GTGGCACCTTTTCAAAGCCCATAAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
245097 GTGGCACCCTTTT-AAAGCTCACGAGTTA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
*
245125 GTGGCACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * * **
245153 GTGGCACCCTTCCAAAGTCCATGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* ** *
245181 GTGGAACCCATTCAAAGCCCACAAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
**
245209 GTGGCACCCTTTT-AAAGCCCATGAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245237 ATGGCACCCTTTCAAAGCCCACGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
*
245265 GTGGCACCTTTCCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
245293 GTGGCACCTATTCAAAGCTCATAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* ** *
245321 GTGGTATCCGCTT-AAAGCCCACAAGTTA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
** *
245349 GTGGCATCCTTTT-AAAGCCCATGAGTTA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
*
245377 GTGGCACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245405 GTGGCATCCTTTTAAAAGCCCACAAGTCG
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245434 GTGGCACCCTTCCAAAAGCCCATACAAG-CTG
1 GTGGCACCTTTTC-AAAGCCC--ACAAGTC-A
*
245465 GTGGCAACCTTTCTCAAAGCCTACACAAGTCG
1 GTGGC-ACCTTT-TCAAAGCC--CACAAGTCA
245497 GTGGCA
1 GTGGCA
245503 AGCCTTCTAA
Statistics
Matches: 519, Mismatches: 89, Indels: 43
0.80 0.14 0.07
Matches are distributed among these distances:
27 27 0.05
28 387 0.75
29 62 0.12
30 6 0.01
31 12 0.02
32 22 0.04
33 2 0.00
34 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (28 bp):
GTGGCACCTTTTCAAAGCCCACAAGTCA
Found at i:245690 original size:61 final size:61
Alignment explanation
Indices: 245605--245812 Score: 190
Period size: 60 Copynumber: 3.4 Consensus size: 61
245595 TTAAGTCCAG
* *
245605 TATCGCTAGCTTTGAATCAGCATATTGGCACCTTTATCAGTTTTCTCATC-GTTAAACCCAA
1 TATCGCTAGCCTTAAATCAGCATATTGGCACCTTTAT-AGTTTTCTCATCTGTTAAACCCAA
* * * * * * * *
245666 TGTCGTTAGCCTTAAATCAACATATTGGCA-CTTTTTAAATCTTCTC-TCTTTTAAGCCCAA
1 TATCGCTAGCCTTAAATCAGCATATTGGCACCTTTAT-AGTTTTCTCATCTGTTAAACCCAA
* * * *
245726 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTCTCATCT-TTCAAGCCCAA
1 TATCGCTAGCCTTAAATCAGCATATTGGCACCTTTATAGTT-TTCTCATCTGTT-AAACCCAA
* * * *
245788 TATCGCTGGCCGTGAATAAGCATAT
1 TATCGCTAGCCTTAAATCAGCATAT
245813 CAGCACATTT
Statistics
Matches: 120, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
59 2 0.02
60 47 0.39
61 37 0.31
62 34 0.28
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (61 bp):
TATCGCTAGCCTTAAATCAGCATATTGGCACCTTTATAGTTTTCTCATCTGTTAAACCCAA
Found at i:245738 original size:60 final size:61
Alignment explanation
Indices: 245553--245798 Score: 216
Period size: 61 Copynumber: 4.1 Consensus size: 61
245543 CCAATGTTGT
* ** * * *
245553 TGGCCTTAAATCAACACATTGGCA-CTCATTAAAT-GT-TCATCTTTAAGTCCAGTATCGC
1 TGGCCTTAAATCAACATATTGGCACCTTTTTAAATCTTCTCATCTTTAAGCCCAATATCGC
* * * * * * * * * * * *
245611 TAGCTTTGAATCAGCATATTGGCACCTTTATCAGTTTTCTCATCGTTAAACCCAATGTCGT
1 TGGCCTTAAATCAACATATTGGCACCTTTTTAAATCTTCTCATCTTTAAGCCCAATATCGC
*
245672 TAGCCTTAAATCAACATATTGGCA-CTTTTTAAATCTTCTC-TCTTTTAAGCCCAATATCGC
1 TGGCCTTAAATCAACATATTGGCACCTTTTTAAATCTTCTCATC-TTTAAGCCCAATATCGC
* * **
245732 TGGCCTTGAATCAGCATATTGGCACCTTTATT-GTTCTTCTCATCTTTCAAGCCCAATATCGC
1 TGGCCTTAAATCAACATATTGGCACCTTT-TTAAATCTTCTCATCTTT-AAGCCCAATATCGC
245794 TGGCC
1 TGGCC
245799 GTGAATAAGC
Statistics
Matches: 147, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
58 19 0.13
59 7 0.05
60 47 0.32
61 51 0.35
62 23 0.16
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (61 bp):
TGGCCTTAAATCAACATATTGGCACCTTTTTAAATCTTCTCATCTTTAAGCCCAATATCGC
Found at i:245760 original size:121 final size:119
Alignment explanation
Indices: 245542--245775 Score: 326
Period size: 121 Copynumber: 1.9 Consensus size: 119
245532 AGCCCAATAG
* * * * *
245542 CCCAATGTTGTTGGCCTTAAATCAACACATTGGCACTCATTAAATGTTCATCTTTAAGTCCAGTA
1 CCCAATGTCGTTAGCCTTAAATCAACACATTGGCACTCATTAAATCTTCATCTTTAAGCCCAATA
*
245607 TCGCTAGCTTTGAATCAGCATATTGGCACCTTTATCAGTT-TTCTCATCGTTAAA
66 TCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT-AGTTCTTCTCATCGTTAAA
* ** *
245661 CCCAATGTCGTTAGCCTTAAATCAACATATTGGCACTTTTTAAATCTTCTCTCTTTTAAGCCCAA
1 CCCAATGTCGTTAGCCTTAAATCAACACATTGGCACTCATTAAATCTTC-ATC-TTTAAGCCCAA
* *
245726 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTCTCATC
64 TATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATAGTTCTTCTCATC
245776 TTTCAAGCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
119 43 0.43
120 5 0.05
121 52 0.52
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (119 bp):
CCCAATGTCGTTAGCCTTAAATCAACACATTGGCACTCATTAAATCTTCATCTTTAAGCCCAATA
TCGCTAGCCTTGAATCAGCATATTGGCACCTTTATAGTTCTTCTCATCGTTAAA
Found at i:245795 original size:62 final size:61
Alignment explanation
Indices: 245589--245848 Score: 240
Period size: 61 Copynumber: 4.3 Consensus size: 61
245579 CATTAAATGT
* * * *
245589 TCATCTTTAAGTCCAGTATCGCTAGCTTTGAATCAGCATATTGGCACCTTTATCAGTT-TTC
1 TCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT-TGTTCTTC
* * * * * * **
245650 TCATCGTTAAACCCAATGTCGTTAGCCTTAAATCAACATATTGGCA-CTTT-TTAAATCTTC
1 TCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATT-GTTCTTC
*
245710 TC-TCTTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTC
1 TCATC-TTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTC
* * * ** * ** *
245771 TCATCTTTCAAGCCCAATATCGCTGGCCGTGAATAAGCATATCAGCACATTTATCATTTTTC
1 TCATCTTT-AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTC
* *
245833 GCATCTTTAAGTCCAA
1 TCATCTTTAAGCCCAA
245849 AGTCACTGAT
Statistics
Matches: 161, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
59 4 0.02
60 43 0.27
61 58 0.36
62 56 0.35
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTC
Found at i:246031 original size:61 final size:61
Alignment explanation
Indices: 245835--246030 Score: 365
Period size: 61 Copynumber: 3.2 Consensus size: 61
245825 CATTTTTCGC
245835 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATCTTTATT
1 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATCTTTATT
*
245896 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATTTTTATT
1 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATCTTTATT
* *
245957 ATCTTTAAGTCCAGAGTCACTGATCTTGAATCAACACATTGGAACTCTTCTCATCTTTATT
1 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATCTTTATT
246018 ATCTTTAAGTCCA
1 ATCTTTAAGTCCA
246031 GGCCTTGAAT
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 131 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (61 bp):
ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTCTCATCTTTATT
Found at i:249550 original size:38 final size:39
Alignment explanation
Indices: 249507--249614 Score: 148
Period size: 38 Copynumber: 2.8 Consensus size: 39
249497 ATTGAATTAG
*
249507 TTGACGGTTAGAGAATTCAATTTGAAATTGGCT-GGCGA
1 TTGACGGCTAGAGAATTCAATTTGAAATTGGCTCGGCGA
*
249545 TTGACGGCTAGAGAATTCAATTTGAAATTGG-TCGGCGG
1 TTGACGGCTAGAGAATTCAATTTGAAATTGGCTCGGCGA
* * * *
249583 CTGATGACTAGAGAATTCAATTTGGAATTGGC
1 TTGACGGCTAGAGAATTCAATTTGAAATTGGC
249615 CGGTGGCTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
37 1 0.02
38 61 0.98
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (39 bp):
TTGACGGCTAGAGAATTCAATTTGAAATTGGCTCGGCGA
Found at i:250952 original size:10 final size:11
Alignment explanation
Indices: 250933--250966 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
250923 TGGCACTTTA
250933 TTTTCAAAAAT
1 TTTTCAAAAAT
250944 TTTTCAAAAAT
1 TTTTCAAAAAT
250955 TTTTCAAAAAT
1 TTTTCAAAAAT
250966 T
1 T
250967 ATAGGTAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTTCAAAAAT
Found at i:254071 original size:38 final size:38
Alignment explanation
Indices: 254028--254136 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
254018 AATTGAATTA
*
254028 GTTGACGGTTAGAGAATTCAATTTGAAATTGGCT-AGCG
1 GTTGACGGCTAGAGAATTCAATTTGAAATTGGCTGA-CG
*
254066 GTTGACGGCTAGAGAATTCAATTTGAAATTGACTGACG
1 GTTGACGGCTAGAGAATTCAATTTGAAATTGGCTGACG
* * *
254104 GCTGACGACTAGAGAATTCAATTTGGAATTGGC
1 GTTGACGGCTAGAGAATTCAATTTGAAATTGGC
254137 CGGTGGCTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 63 0.98
39 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (38 bp):
GTTGACGGCTAGAGAATTCAATTTGAAATTGGCTGACG
Found at i:255901 original size:14 final size:14
Alignment explanation
Indices: 255887--255969 Score: 78
Period size: 15 Copynumber: 5.5 Consensus size: 14
255877 TATTAAAAAA
255887 TAAAATATTTTAAAT
1 TAAAA-ATTTTAAAT
255902 TAAAAATTTTAAATT
1 TAAAAATTTTAAA-T
255917 TAAAAATTTTAAATT
1 TAAAAATTTTAAA-T
*
255932 TAAATTAATTTTAACT
1 TAAA--AATTTTAAAT
*
255948 TGAAATAA-TTAAAAT
1 T-AAA-AATTTTAAAT
255963 TAAAAAT
1 TAAAAAT
255970 AATTTAAGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.03
14 11 0.18
15 31 0.52
16 5 0.08
17 11 0.18
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TAAAAATTTTAAAT
Found at i:256036 original size:17 final size:16
Alignment explanation
Indices: 256000--256047 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
255990 AACTCAAAAA
* *
256000 AATTTAAATTTAAGAT
1 AATTTAAATTAAACAT
256016 AATTTAAATCTAAACAT
1 AATTTAAAT-TAAACAT
256033 AATTTTAATATTAAA
1 AA-TTTAA-ATTAAA
256048 ATTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 9 0.33
19 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
AATTTAAATTAAACAT
Found at i:256047 original size:18 final size:17
Alignment explanation
Indices: 256000--256037 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
255990 AACTCAAAAA
* *
256000 AATTTAAAT-TTAAGAT
1 AATTTAAATCTAAACAT
256016 AATTTAAATCTAAACAT
1 AATTTAAATCTAAACAT
256033 AATTT
1 AATTT
256038 TAATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (17 bp):
AATTTAAATCTAAACAT
Found at i:256047 original size:24 final size:23
Alignment explanation
Indices: 256015--256060 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
256005 AAATTTAAGA
*
256015 TAATTT-AAATCTAAACATAATTT
1 TAATTTAAAAT-TAAAAATAATTT
256038 TAATATTAAAATTAAAAATAATT
1 TAAT-TTAAAATTAAAAATAATT
256061 AAATTATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTTAAAATTAAAAATAATTT
Found at i:257078 original size:13 final size:13
Alignment explanation
Indices: 257060--257085 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
257050 CATTTTATGG
257060 TGTATCGATACAT
1 TGTATCGATACAT
257073 TGTATCGATACAT
1 TGTATCGATACAT
257086 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:257082 original size:33 final size:32
Alignment explanation
Indices: 257040--257103 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
257030 TACAAGCCAA
*
257040 TGTATCGATACAT-TTTATGGTGTATCGATACAT
1 TGTATCGATACATACTT-T-GTGTATCGATACAT
257073 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
257104 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 14 0.48
34 2 0.07
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:257183 original size:20 final size:20
Alignment explanation
Indices: 257158--257224 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
257148 TCTTTTTCAA
257158 GTATCGATACAATGCAACAT
1 GTATCGATACAATGCAACAT
257178 GTATCGAT---A--C-A-AT
1 GTATCGATACAATGCAACAT
257191 GTATCGATACAATGCAACAT
1 GTATCGATACAATGCAACAT
257211 GTATCGATACAATG
1 GTATCGATACAATG
257225 TATCGATACT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.25
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 1 0.03
20 24 0.60
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATACAATGCAACAT
Found at i:257194 original size:13 final size:13
Alignment explanation
Indices: 257176--257233 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
257166 ACAATGCAAC
257176 ATGTATCGATACA
1 ATGTATCGATACA
257189 ATGTATCGATACA
1 ATGTATCGATACA
257202 ATG---C-A-AC-
1 ATGTATCGATACA
257209 ATGTATCGATACA
1 ATGTATCGATACA
257222 ATGTATCGATAC
1 ATGTATCGATAC
257234 TGTGCAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 1 0.03
10 2 0.05
11 1 0.03
12 2 0.05
13 28 0.72
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:257195 original size:33 final size:33
Alignment explanation
Indices: 257158--257256 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
257148 TCTTTTTCAA
257158 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
257191 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
257224 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
257257 TAAATGTGTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:258713 original size:18 final size:17
Alignment explanation
Indices: 258692--258726 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
258682 AGACTTTACA
258692 TACACATTAGATATTTTT
1 TACA-ATTAGATATTTTT
*
258710 TACATTTAGATATTTTT
1 TACAATTAGATATTTTT
258727 CATTTTCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (17 bp):
TACAATTAGATATTTTT
Found at i:260236 original size:9 final size:9
Alignment explanation
Indices: 260222--260255 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
260212 GGTAAGTTGA
260222 AAAAAAAAG
1 AAAAAAAAG
260231 AAAAAAAAG
1 AAAAAAAAG
* *
260240 GAAAGAAAG
1 AAAAAAAAG
260249 AAAAAAA
1 AAAAAAA
260256 TTTATATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:260664 original size:16 final size:17
Alignment explanation
Indices: 260622--260664 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
260612 TTTAATATTT
*
260622 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
*
260639 ATGAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
260654 ATAAAATTTAT
1 ATAAAATTTAT
260665 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:261702 original size:15 final size:16
Alignment explanation
Indices: 261682--261717 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
261672 TATTAAAAAT
261682 AATTAAAAATATAA-A
1 AATTAAAAATATAATA
261697 AATTAAAAATATAATA
1 AATTAAAAATATAATA
261713 AATTA
1 AATTA
261718 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAAAAATATAATA
Found at i:261846 original size:17 final size:18
Alignment explanation
Indices: 261826--261866 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
261816 AATTATTATT
261826 TAATAAAATTTATT-TT-A
1 TAATAAAATTT-TTATTAA
*
261843 TAATTAAATTTTTATTAA
1 TAATAAAATTTTTATTAA
261861 TAATAA
1 TAATAA
261867 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAAAATTTTTATTAA
Found at i:261883 original size:18 final size:21
Alignment explanation
Indices: 261842--261884 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
261832 AATTTATTTT
*
261842 ATAATTAAATTTTTATTAATA
1 ATAATTAAATATTTATTAATA
261863 ATAATTAAA-ATTTA-TAA-A
1 ATAATTAAATATTTATTAATA
261881 ATAA
1 ATAA
261885 AAATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 4 0.19
21 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATTAAATATTTATTAATA
Found at i:261883 original size:21 final size:22
Alignment explanation
Indices: 261842--261893 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
261832 AATTTATTTT
* *
261842 ATAATT-AAATTTTTATTAATA
1 ATAATTAAAATTTATATAAATA
261863 ATAATTAAAATTTATA-AAATA
1 ATAATTAAAATTTATATAAATA
* *
261884 AAAATAAAAA
1 ATAATTAAAA
261894 GCCCCGACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATTAAAATTTATATAAATA
Found at i:261994 original size:13 final size:13
Alignment explanation
Indices: 261976--262004 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
261966 ATTTTACCCA
261976 ATATTCTATACAT
1 ATATTCTATACAT
261989 ATATTCTATACAT
1 ATATTCTATACAT
262002 ATA
1 ATA
262005 ATTTTGCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTCTATACAT
Found at i:262028 original size:2 final size:2
Alignment explanation
Indices: 262021--262045 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
262011 CTCAATATTC
262021 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
262046 TCACCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:265263 original size:52 final size:52
Alignment explanation
Indices: 265185--265334 Score: 223
Period size: 52 Copynumber: 2.9 Consensus size: 52
265175 CGAAATATGA
*
265185 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * *
265237 AAATTTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
265289 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
265335 TTTTTTGGCA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:265394 original size:13 final size:13
Alignment explanation
Indices: 265376--265400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
265366 CAAAAAAATA
265376 TGTATCGATACAT
1 TGTATCGATACAT
265389 TGTATCGATACA
1 TGTATCGATACA
265401 ACACTTTATG
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:265396 original size:33 final size:33
Alignment explanation
Indices: 265354--265420 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
265344 AGTAGCTTAA
265354 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
265387 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
265420 A
1 A
265421 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:266169 original size:16 final size:17
Alignment explanation
Indices: 266150--266181 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
266140 TGTAAATATA
266150 TTTTTTTAA-CCAAAAC
1 TTTTTTTAACCCAAAAC
266166 TTTTTTTAACCCAAAA
1 TTTTTTTAACCCAAAA
266182 TAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTTTTAACCCAAAAC
Found at i:266795 original size:17 final size:16
Alignment explanation
Indices: 266738--266796 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
266728 TATATTTAAA
266738 AAATTTTATATTTTTAT
1 AAATTTTA-ATTTTTAT
266755 AAATTTTAATATTTTA-
1 AAATTTTAAT-TTTTAT
266771 ATAA--TTAATTTTATAT
1 A-AATTTTAATTTT-TAT
266787 AAATTTTAAT
1 AAATTTTAAT
266797 ATATTCGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.08
15 9 0.25
16 4 0.11
17 20 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTTAATTTTTAT
Found at i:267435 original size:17 final size:17
Alignment explanation
Indices: 267413--267447 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
267403 GATTACATCT
267413 AACATAAAATAAAAATA
1 AACATAAAATAAAAATA
* *
267430 AACATAAATTCAAAATA
1 AACATAAAATAAAAATA
267447 A
1 A
267448 CCCTAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (17 bp):
AACATAAAATAAAAATA
Found at i:268464 original size:25 final size:25
Alignment explanation
Indices: 268436--268485 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
268426 TAATATTTTA
*
268436 AATATAATTATAA-CATAAAAAATTT
1 AATAT-ATGATAATCATAAAAAATTT
*
268461 AATATATGATAATTATAAAAAATTT
1 AATATATGATAATCATAAAAAATTT
268486 TCTTGCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATATGATAATCATAAAAAATTT
Found at i:268997 original size:30 final size:29
Alignment explanation
Indices: 268937--269005 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
268927 AATTTTGACA
*
268937 TATTGATGTATTTATTCATGTTATTATTAT
1 TATTG-TGTATTTATTCATATTATTATTAT
*
268967 TATTGTGTATTATATTTATATT-TTAGTTAT
1 TATTGTGTATT-TATTCATATTATTA-TTAT
268997 T-TT-TGTATT
1 TATTGTGTATT
269006 GTATCTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 6 0.17
29 11 0.31
30 18 0.51
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (29 bp):
TATTGTGTATTTATTCATATTATTATTAT
Found at i:269282 original size:29 final size:30
Alignment explanation
Indices: 269249--269325 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
269239 TTTGGTTTTT
**
269249 ATAATATTA-AA-TAAAAAATTATTATATTG
1 ATAATATTATAAGT-AAAAATTAAAATATTG
269278 ATAAT-TTATAAGTAAAAATTAAAATATTG
1 ATAATATTATAAGTAAAAATTAAAATATTG
*
269307 AGTAATAATATAAGATAAA
1 A-TAATATTATAAG-TAAA
269326 TTGGTGTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 3 0.08
29 22 0.55
30 5 0.12
31 6 0.15
32 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (30 bp):
ATAATATTATAAGTAAAAATTAAAATATTG
Found at i:269387 original size:23 final size:22
Alignment explanation
Indices: 269343--269387 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
269333 AAGTAAAATT
*
269343 TTTAAAAGAAATTAGATCTTAA
1 TTTAAAAGAAATTAGATATTAA
269365 TTTAAAA-AAATTATGATTATTAA
1 TTTAAAAGAAATTA-GA-TATTAA
269388 ATAGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
TTTAAAAGAAATTAGATATTAA
Found at i:269572 original size:38 final size:37
Alignment explanation
Indices: 269506--269578 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
269496 ATATAATTTG
*
269506 AATAAATTAAATTTTAATTTTTTATATATATTATATAT
1 AATAAATTAAATTTTAATTTTATATATAT-TTATATAT
269544 AATAAATTAAA-TTTATATTATTAT-TATATTTATAT
1 AATAAATTAAATTTTA-ATT-TTATATATATTTATAT
269579 TTTTTATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 10 0.31
38 19 0.59
39 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
AATAAATTAAATTTTAATTTTATATATATTTATATAT
Found at i:269587 original size:15 final size:16
Alignment explanation
Indices: 269549--269599 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
269539 TATATAATAA
*
269549 ATTAAATTTATATTATT
1 ATTATATTTATATT-TT
269566 ATTATATTTATATTTT
1 ATTATATTTATATTTT
*
269582 -TTATATCTATATTTT
1 ATTATATTTATATTTT
269597 ATT
1 ATT
269600 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 14 0.45
16 4 0.13
17 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATATTTATATTTT
Found at i:275784 original size:95 final size:95
Alignment explanation
Indices: 275621--275809 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
275611 GAATAGCGTG
275621 ATGTTGTCTCCTGTTTTTGGTTGTGGCCAAAATTGATTTATTTTCTCGGGTTTCATCTCGAGACA
1 ATGTTGTCTCCTGTTTTTGGTTGTGGCCAAAATTGATTTATTTTCTCGGGTTTCATCTCGAGACA
275686 CTTGAAATTCTTTGAGACACCTTGGCCAGT
66 CTTGAAATTCTTTGAGACACCTTGGCCAGT
* *
275716 ATGTTGTCTCTTGTTTTTGGTTGTGGCCAAAATTGATTTATTTTCTTGGGTTTCATCTCGAGACA
1 ATGTTGTCTCCTGTTTTTGGTTGTGGCCAAAATTGATTTATTTTCTCGGGTTTCATCTCGAGACA
275781 CTTGAAATTCTTTGAGACACCTTGGCCAG
66 CTTGAAATTCTTTGAGACACCTTGGCCAG
275810 CCTCAAAACC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (95 bp):
ATGTTGTCTCCTGTTTTTGGTTGTGGCCAAAATTGATTTATTTTCTCGGGTTTCATCTCGAGACA
CTTGAAATTCTTTGAGACACCTTGGCCAGT
Found at i:276515 original size:8 final size:9
Alignment explanation
Indices: 276478--276535 Score: 77
Period size: 8 Copynumber: 6.7 Consensus size: 9
276468 ATATAAAATT
276478 AAAAATCAA
1 AAAAATCAA
*
276487 AGAAATCAA
1 AAAAATCAA
276496 AAAAATTCAA
1 AAAAA-TCAA
276506 AAAAAT-AA
1 AAAAATCAA
276514 AAAAA-CAA
1 AAAAATCAA
276522 AAAAA-CAA
1 AAAAATCAA
276530 AAAAAT
1 AAAAAT
276536 GATGATGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
8 22 0.50
9 13 0.30
10 9 0.20
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAATCAA
Found at i:276689 original size:15 final size:15
Alignment explanation
Indices: 276665--276708 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
276655 AGCAATGAGG
*
276665 GGACAGCAATGAAAT
1 GGACATCAATGAAAT
276680 GGACATCAATGAAAT
1 GGACATCAATGAAAT
276695 GG-CATGCAATGAAA
1 GGACAT-CAATGAAA
276709 AGAAGAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.16
Consensus pattern (15 bp):
GGACATCAATGAAAT
Found at i:277049 original size:97 final size:96
Alignment explanation
Indices: 276889--277222 Score: 390
Period size: 97 Copynumber: 3.5 Consensus size: 96
276879 AATTTTGTTT
* * * * * *
276889 ATCGGGGATACACCAACCCCATTCCTCTGAGGGGATACTCTAACCTCGCTTTTAAACTTATCAAA
1 ATCGGGG-TACTCCAACCTCATTCCTCCGAGGGGATACTCAAACCTCGTTTTTAAACTCATCAAA
*
276954 ATTTAAATCTTATTTTTGGTTAAATTGTCATA
65 ATTTAAATCTTATTTTTGGTTAAATTATCATA
276986 ATCGGGGTCACTCCAACCTCATTCCTCCGAGGGGATACTCAAACCTCGTTTTTAAACTCATCAAA
1 ATCGGGGT-ACTCCAACCTCATTCCTCCGAGGGGATACTCAAACCTCGTTTTTAAACTCATCAAA
* * *
277051 TTTTAAATCTTATTTTCGGTTAAATTATCATC
65 ATTTAAATCTTATTTTTGGTTAAATTATCATA
* * * *
277083 ATCGGGGATACTTCAACC-CTATTTCTCCGAGGGGATACTTCAACCCT-ATTTTTAAACTCATCA
1 ATCGGGG-TACTCCAACCTC-ATTCCTCCGAGGGGATAC-TCAAACCTCGTTTTTAAACTCATCA
* *
277146 AAATTTAAATCTTA-TTTT-GTCCAAATTATCATT
63 AAATTTAAATCTTATTTTTGGT-TAAATTATCATA
* * * *
277179 TTCGAGGATACTCCAACCT-ATTCCTCTGAGGGGATACTCCAACC
1 ATCG-GGGTACTCCAACCTCATTCCTCCGAGGGGATACTCAAACC
277223 CTATTTTTCA
Statistics
Matches: 205, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
94 5 0.02
95 18 0.09
96 27 0.13
97 147 0.72
98 8 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (96 bp):
ATCGGGGTACTCCAACCTCATTCCTCCGAGGGGATACTCAAACCTCGTTTTTAAACTCATCAAAA
TTTAAATCTTATTTTTGGTTAAATTATCATA
Found at i:284405 original size:20 final size:20
Alignment explanation
Indices: 284382--284419 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
284372 AAAATACCCA
284382 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
284402 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
284420 GTGTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:292353 original size:11 final size:11
Alignment explanation
Indices: 292337--292371 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
292327 TGTCCTTCAT
292337 AAAAAAACAAA
1 AAAAAAACAAA
292348 AAAAAAACACAA
1 AAAAAAACA-AA
*
292360 AAAAAAATAAA
1 AAAAAAACAAA
292371 A
1 A
292372 GAGGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:292359 original size:13 final size:12
Alignment explanation
Indices: 292337--292366 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
292327 TGTCCTTCAT
292337 AAAAAAACAAAA
1 AAAAAAACAAAA
292349 AAAAAACACAAAA
1 AAAAAA-ACAAAA
292362 AAAAA
1 AAAAA
292367 TAAAAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:293692 original size:28 final size:28
Alignment explanation
Indices: 293647--293723 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
293637 ATCCCTTCTA
* *
293647 AAAGCCCACTAGTCAGTGGCACCTCTTC
1 AAAGTCCACAAGTCAGTGGCACCTCTTC
* * * *
293675 GAAGTCCACAAGTCAGTGTCATCTTTTC
1 AAAGTCCACAAGTCAGTGGCACCTCTTC
293703 AAAGTCCACAA-TCAGTGGCAC
1 AAAGTCCACAAGTCAGTGGCAC
293724 TTGCTGTATA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGTCCACAAGTCAGTGGCACCTCTTC
Found at i:293968 original size:28 final size:29
Alignment explanation
Indices: 293922--294534 Score: 464
Period size: 28 Copynumber: 21.8 Consensus size: 29
293912 ATACAAGTTG
* * *
293922 GTGGCAACCTTCTCCAAAGCCCATGAGTCGA
1 GTGGC-ACCTT-TTCAAAGCCCACGAGTCTA
*
293953 -TGGCACCTTTTCAAAGCCCACAAGTC-A
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
* * * **
293980 ATGGCAACTTTTTAAAGCCCATAAGT-TA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
294008 GTGGCACCCTTTT-AAAGCCCACGAGTC-A
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
* *
294036 GTGGCACCTTTTCAAAGCCCACCAG-CCA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
* *
294064 GTGGCACCCTTTT-TAAGCCCACAAGTC-A
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
* * *
294092 GTGGCATCC-TTCCAATGCCCATGAGT-TA
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
294120 GTGGCATCC-TTTCAAAGCCCACGAGTC-A
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
* *
294148 GTGGCAACTTTTCAAAGCCC-CTAAGT-TA
1 GTGGCACCTTTTCAAAGCCCAC-GAGTCTA
294176 GTGGCACCCTTTT-AAAGCCCACGAGT-TA
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
*
294204 GTGACACC-TTTCAAAGCCCACGAGTC-A
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
* * *
294231 GTGGCACCCTTCCAAAGTCCACGAGT-TA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
** * *
294259 GTGGCACCCGTTCAAAACCCACAAGT-TA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
* *
294287 GTGACACCCTTTT-AAAGCCCATGAGTC-A
1 GTGGCA-CCTTTTCAAAGCCCACGAGTCTA
* *
294315 GTGGCACCCTTTCAAAGCCCATGTA-TC-A
1 GTGGCACCTTTTCAAAGCCCACG-AGTCTA
* * *
294343 GTGACACCTTTCCAAAGCCCACAAGTC-A
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
** *
294371 GTGGCACCCATTCAAAGCCCACAAGTC-A
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
**
294399 GTGGCATCCGCTT-AAAGCCCAC-AGGT-TA
1 GTGGCA-CCTTTTCAAAGCCCACGA-GTCTA
* *
294427 GTGGCATCTTTTTAAAGCCCACGAGT-TA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
294455 GTGGCACCTTTTCAAAGCCCACGAGT-TA
1 GTGGCACCTTTTCAAAGCCCACGAGTCTA
* *
294483 GTGGCATCC-TTTCAAAAGCCCACAAGTC-G
1 GTGGCA-CCTTTTC-AAAGCCCACGAGTCTA
* *
294512 GTGGCACCCTTCCAAAAGCCCAC
1 GTGGCACCTTTTC-AAAGCCCAC
294535 ACAAGCTGGT
Statistics
Matches: 486, Mismatches: 62, Indels: 70
0.79 0.10 0.11
Matches are distributed among these distances:
26 3 0.01
27 45 0.09
28 368 0.76
29 66 0.14
30 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (29 bp):
GTGGCACCTTTTCAAAGCCCACGAGTCTA
Found at i:294013 original size:56 final size:57
Alignment explanation
Indices: 293953--294522 Score: 549
Period size: 56 Copynumber: 10.2 Consensus size: 57
293943 CATGAGTCGA
* * * * * *
293953 TGGCA-CCTTTTCAAAGCCCACAAGTCAATGGCAACTTTTTAAAGCCCATAAGTTAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * **
294009 TGGCACCCTTTT-AAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCACCAGCCAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * * * * **
294065 TGGCACCCTTTT-TAAGCCCACAAGTCAGTGGCATCCTTCCAATGCCCATGAGTTAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * *
294121 TGGCATCC-TTTCAAAGCCCACGAGTCAGTGGCAACTTTTCAAAGCCC-CTAAGTTAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCAC-AAGTTAG
* * * *
294177 TGGCACCCTTTT-AAAGCCCACGAGTTAGTGACA-CCTTTCAAAGCCCACGAGTCAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * * * *
294232 TGGCACCC-TTCCAAAGTCCACGAGTTAGTGGCACCCGTTCAAAACCCACAAGTTAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * *
294288 TGACACCCTTTT-AAAGCCCATGAGTCAGTGGCACCCTTTCAAAG-CC-CATGTATCAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGT-T-AG
* * * * *
294344 TGACA-CCTTTCCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* ** * * * * *
294400 TGGCATCCGCTT-AAAGCCCAC-AGGTTAGTGGCATCTTTTTAAAGCCCACGAGTTAG
1 TGGCACCCTTTTCAAAGCCCACGA-GTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
* * **
294456 TGGCA-CCTTTTCAAAGCCCACGAGTTAGTGGCATCCTTTCAAAAGCCCACAAGTCGG
1 TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTTAG
294513 TGGCACCCTT
1 TGGCACCCTT
294523 CCAAAAGCCC
Statistics
Matches: 423, Mismatches: 72, Indels: 36
0.80 0.14 0.07
Matches are distributed among these distances:
54 6 0.01
55 60 0.14
56 314 0.74
57 35 0.08
58 8 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (57 bp):
TGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
Found at i:294049 original size:84 final size:84
Alignment explanation
Indices: 293904--294598 Score: 593
Period size: 84 Copynumber: 8.1 Consensus size: 84
293894 AAACCTTCTC
* * * *
293904 TAAAGCCCATACAAGTTGGTGGCAACCTTCTCCAAAGCCCATGAG-TCGATGGCACCTTTTCAAA
1 TAAAGCCC--ACAAGTTAGTGGCACCCTT-T-CAAAGCCCACGAGTTAG-TGGCACCTTTTCAAA
* * *
293968 GCCCACAAGTCAATGGCAACTTTT
61 GCCCACGAGTCAGTGGCACCTTTT
* * *
293992 TAAAGCCCATAAGTTAGTGGCACCCTTTTAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCA
1 TAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCCA
* *
294057 CCAGCCAGTGGCACCCTTTT
66 CGAGTCAGTGGCA-CCTTTT
* * * * *
294077 T-AAGCCCACAAGTCAGTGGCATCCTTCCAATGCCCATGAGTTAGTGGCATCC-TTTCAAAGCCC
1 TAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCA-CCTTTTCAAAGCCC
*
294140 ACGAGTCAGTGGCAACTTTT
65 ACGAGTCAGTGGCACCTTTT
* * *
294160 CAAAGCCC-CTAAGTTAGTGGCACCCTTTTAAAGCCCACGAGTTAGTGACACC-TTTCAAAGCCC
1 TAAAGCCCAC-AAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCC
* *
294223 ACGAGTCAGTGGCACCCTTC
65 ACGAGTCAGTGGCACCTTTT
* * * * * * *
294243 CAAAGTCCACGAGTTAGTGGCACCCGTTCAAAACCCACAAGTTAGTGACACCCTTTT-AAAGCCC
1 TAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCA-CCTTTTCAAAGCCC
* *
294307 ATGAGTCAGTGGCACCCTTT
65 ACGAGTCAGTGGCACCTTTT
* * * * * **
294327 CAAAG-CC-CATGTATCAGTGACA-CCTTTCCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGC
1 TAAAGCCCACAAGT-T-AGTGGCACCCTTT-CAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGC
* **
294389 CCACAAGTCAGTGGCATCC-GCT
63 CCACGAGTCAGTGGCA-CCTTTT
* * * *
294411 TAAAGCCCACAGGTTAGTGGCATCTTTTTAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCCA
1 TAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCCA
* *
294476 CGAGTTAGTGGCATCCTTTC
66 CGAGTCAGTGGCA-CCTTTT
* ** * * * *
294496 AAAAGCCCACAAGTCGGTGGCACCCTTCCAAAAGCCCACACAAGCTGGTGGCAACCTTTCTCAAA
1 TAAAGCCCACAAGTTAGTGGCACCCTTTC-AAAG-CC-CACGAGTTAGTGGC-ACCTTT-TCAAA
* *
294561 GCCTACACAAGTCGGTGGCAAGCC-TTT
61 GCC--CACGAGTCAGTGGC-A-CCTTTT
294588 TAAAGCCCACA
1 TAAAGCCCACA
294599 TAACCCTTCT
Statistics
Matches: 497, Mismatches: 85, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
82 3 0.01
83 89 0.18
84 277 0.56
85 43 0.09
86 24 0.05
87 2 0.00
88 19 0.04
89 6 0.01
90 8 0.02
92 23 0.05
93 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (84 bp):
TAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCCA
CGAGTCAGTGGCACCTTTT
Found at i:294569 original size:32 final size:30
Alignment explanation
Indices: 293895--294598 Score: 246
Period size: 28 Copynumber: 24.7 Consensus size: 30
293885 CTAGTGGAGA
*
293895 AACC-TTCTCTAAAGCCCATACAAGTTGGTGGC
1 AACCTTTCTC-AAAGCCC--ACAAGTCGGTGGC
** *
293927 AACC-TTCTCCAAAGCCCATGAGTCGATGGC
1 AACCTTTCT-CAAAGCCCACAAGTCGGTGGC
**
293957 -ACCTTT-TCAAAGCCCACAAGTCAATGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * **
293985 AA-CTTT-TTAAAGCCCATAAGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * *
294013 ACCCTTT-T-AAAGCCCACGAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * *
294041 -ACCTTT-TCAAAGCCCACCAGCCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * *
294069 ACCCTTT-T-TAAGCCCACAAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * ** **
294097 ATCC-TTC-CAATGCCCATGAGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * *
294125 ATCC-TT-TCAAAGCCCACGAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
**
294153 AA-CTTT-TCAAAGCCC-CTAAGTTAGTGGC
1 AACCTTTCTCAAAGCCCAC-AAGTCGGTGGC
* * ** *
294181 ACCCTTT-T-AAAGCCCACGAGTTAGTGAC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* *
294209 -ACC-TT-TCAAAGCCCACGAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * * **
294236 -ACCCTTC-CAAAGTCCACGAGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
** * ** *
294264 -ACCCGT-TCAAAACCCACAAGTTAGTGAC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* ** *
294292 ACCCTTT-T-AAAGCCCATGAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* ** * *
294320 -ACCCTT-TCAAAGCCCATGTA-TCAGTGAC
1 AACCTTTCTCAAAGCCCA-CAAGTCGGTGGC
*
294348 -ACCTTTC-CAAAGCCCACAAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
** *
294376 -ACCCAT-TCAAAGCCCACAAGTCAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * * * **
294404 ATCC--GCTTAAAGCCCACAGGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* * * **
294432 -ATCTTT-TTAAAGCCCACGAGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* **
294460 -ACCTTT-TCAAAGCCCACGAGTTAGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
* *
294488 ATCCTTTC-AAAAGCCCACAAGTCGGTGGC
1 AACCTTTCTCAAAGCCCACAAGTCGGTGGC
*
294517 -ACCCTTC-CAAAAGCCCACACAAG-CTGGTGGC
1 AACCTTTCTC-AAAG-CC-CACAAGTC-GGTGGC
294548 AACCTTTCTCAAAGCCTACACAAGTCGGTGGC
1 AACCTTTCTCAAAGCC--CACAAGTCGGTGGC
294580 AAGCCTTT-T-AAAGCCCACA
1 AA-CCTTTCTCAAAGCCCACA
294599 TAACCCTTCT
Statistics
Matches: 547, Mismatches: 87, Indels: 79
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.01
27 40 0.07
28 362 0.66
29 59 0.11
30 14 0.03
31 20 0.04
32 41 0.07
33 8 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (30 bp):
AACCTTTCTCAAAGCCCACAAGTCGGTGGC
Found at i:294754 original size:61 final size:59
Alignment explanation
Indices: 294604--295007 Score: 271
Period size: 61 Copynumber: 6.7 Consensus size: 59
294594 CCACATAACC
* * * * *
294604 CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTA-AATCT-TCAT
1 CTTC-AAGCCCAATATCATTGGCCTTGAATCAACACATTGGCAC-CTTTATATTTTCTCAT
* * *
294663 CTTTAAGTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTTTTCTCAT
1 CTTCAAGCCCAATATCATTGGCCTTGAATCAACACATTGGCACCTTTAT-A-TTTTCTCAT
* * * * * *
294724 CTTCAAGCCCGATGTCGTTGGCCTTGAATCAACACATTGGCACTTTTTAAATCTTCTC-T
1 CTTCAAGCCCAATATCATTGGCCTTGAATCAACACATTGGCAC-CTTTATATTTTCTCAT
* * * *
294783 CTTTCAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTCTCAT
1 C-TTCAAGCCCAATATCATTGGCCTTGAATCAACACATTGGCACCTTTA-TATT-TTCTCAT
* * * * * * * * *
294845 CTTTCAAACCTAATATCACTGGCCGTGAATCAGCATATCGGCACATTTATCATTCTTCGCAT
1 C-TTCAAGCCCAATATCATTGGCCTTGAATCAACACATTGGCACCTTTAT-ATT-TTCTCAT
* * * ** * *
294907 CTTTAAGTCCAA-AGTCACTGATCTTGAATCAACACATTGGCACTCTTT-TCATCTTTATTAT
1 CTTCAAGCCCAATA-TCATTGGCCTTGAATCAACACATTGGCAC-CTTTAT-AT-TTTCTCAT
* * * **
294968 CTTTAAGTCCAA-AGTCACTGATCTTGAATCAACACATTGG
1 CTTCAAGCCCAATA-TCATTGGCCTTGAATCAACACATTGG
295008 AACTTTTCTC
Statistics
Matches: 284, Mismatches: 48, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.01
58 35 0.12
59 10 0.04
60 48 0.17
61 126 0.44
62 61 0.21
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (59 bp):
CTTCAAGCCCAATATCATTGGCCTTGAATCAACACATTGGCACCTTTATATTTTCTCAT
Found at i:294847 original size:121 final size:120
Alignment explanation
Indices: 294604--294847 Score: 375
Period size: 121 Copynumber: 2.0 Consensus size: 120
294594 CCACATAACC
294604 CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAA
1 CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAA
*
294669 GTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTTTTCTCAT
66 GCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTTTTCTCAT
* ** *
294724 CTTC-AAGCCCGATGTCGTTGGCCTTGAATCAACACATTGGCACTTTTTAAATCTTCTCTCTTTC
1 CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTC-ATCTTT-
* * *
294788 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAT-TGTTCTTCTCAT
64 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTT-TTCTCAT
294845 CTT
1 CTT
294848 TCAAACCTAA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
119 49 0.43
120 12 0.11
121 52 0.46
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (120 bp):
CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAA
GCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTTTTCTCAT
Found at i:294874 original size:62 final size:62
Alignment explanation
Indices: 294609--294954 Score: 302
Period size: 61 Copynumber: 5.7 Consensus size: 62
294599 TAACCCTTCT
* * * * *
294609 AAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-C-TCATTAAATC-T-TCATCTTT-
1 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATT-ATTCTTCTCATCTTTC
* *
294667 AAGTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTT-TTCTCATC-TTC
1 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATTA-TTCTTCTCATCTTTC
* * * * *
294728 AAGCCCGATGTCGTTGGCCTTGAATCAACACATTGGCA-CTTT-TTAAATCTTCTC-TCTTTC
1 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATT-ATTCTTCTCATCTTTC
* * *
294788 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATTGTTCTTCTCATCTTTC
1 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATTATTCTTCTCATCTTTC
* * * * * * * * *
294850 AAACCTAATATCACTGGCCGTGAATCAGCATATCGGCACATTTATCATTCTTCGCATCTTT-
1 AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATTATTCTTCTCATCTTTC
* * ** *
294911 AAGTCCAA-AGTCACTGATCTTGAATCAACACATTGGCACTCTTT
1 AAGCCCAATA-TCATTGGCCTTGAATCAACATATTGGCAC-CTTT
294955 TCATCTTTAT
Statistics
Matches: 234, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
58 34 0.15
59 6 0.03
60 55 0.24
61 77 0.33
62 62 0.26
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (62 bp):
AAGCCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATTATTCTTCTCATCTTTC
Found at i:294935 original size:183 final size:180
Alignment explanation
Indices: 294609--294955 Score: 414
Period size: 183 Copynumber: 1.9 Consensus size: 180
294599 TAACCCTTCT
* *
294609 AAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAAGTCCA
1 AAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAAGACCA
* * * * * * *
294674 ATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCAGTTTTCTCATCTTCAAGCCCGATGT
66 ATATCACTGGCCGTGAATCAACATATCGGCACATTTATCAGTTTTCGCATCTTCAAGCCCAAAGT
** *
294739 CGTTGGCCTTGAATCAACACATTGGCACT-TTTTAAATCTTCTCTCTTTC
131 CACTGACCTTGAATCAACACATTGGCACTCTTTTAAATCTTCTCTCTTTC
* * * **
294788 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC-CTTTATTGTTCTTCTCATCTTTCAA
1 AAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACTCATTA--AATC-T-TCATCTTT-AA
* * *
294852 -ACCTAATATCACTGGCCGTGAATCAGCATATCGGCACATTTATCA-TTCTTCGCATCTTTAAGT
61 GACC-AATATCACTGGCCGTGAATCAACATATCGGCACATTTATCAGTT-TTCGCATCTTCAAGC
*
294915 CCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTTT
124 CCAAAGTCACTGACCTTGAATCAACACATTGGCACTCTTTT
294956 CATCTTTATT
Statistics
Matches: 139, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
178 4 0.03
179 36 0.26
180 2 0.01
181 1 0.01
182 12 0.09
183 80 0.58
184 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (180 bp):
AAGCCCAATATCGTTGGCCTTGAATCAACACATTGGCACTCATTAAATCTTCATCTTTAAGACCA
ATATCACTGGCCGTGAATCAACATATCGGCACATTTATCAGTTTTCGCATCTTCAAGCCCAAAGT
CACTGACCTTGAATCAACACATTGGCACTCTTTTAAATCTTCTCTCTTTC
Found at i:295020 original size:61 final size:61
Alignment explanation
Indices: 294905--295036 Score: 239
Period size: 61 Copynumber: 2.2 Consensus size: 61
294895 CATTCTTCGC
*
294905 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGCACTCTTTTCATCTTTATT
1 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGAACTCTTTTCATCTTTATT
294966 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGAACT-TTTCTCATCTTTATT
1 ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGAACTCTTT-TCATCTTTATT
295027 ATCTTTAAGT
1 ATCTTTAAGT
295037 TCAGGCCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
60 3 0.04
61 66 0.96
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (61 bp):
ATCTTTAAGTCCAAAGTCACTGATCTTGAATCAACACATTGGAACTCTTTTCATCTTTATT
Found at i:295789 original size:7 final size:8
Alignment explanation
Indices: 295740--295787 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 8
295730 ATAAAAAATT
295740 AAAAATCA
1 AAAAATCA
*
295748 AAGAAATAA
1 AA-AAATCA
295757 AAAAATCA
1 AAAAATCA
295765 AAAAGATCA
1 AAAA-ATCA
295774 ACAAAAT-A
1 A-AAAATCA
295782 AAAAAT
1 AAAAAT
295788 AATAATAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 5 0.14
8 13 0.37
9 14 0.40
10 3 0.09
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (8 bp):
AAAAATCA
Found at i:297506 original size:96 final size:97
Alignment explanation
Indices: 297371--297626 Score: 340
Period size: 96 Copynumber: 2.6 Consensus size: 97
297361 ATATACCAAT
* * *
297371 CCATTCTTCCAAGGGGATACTCCAACCTCACTTTTAAACTTATCAAAATTTAAATCTTATTTTCA
1 CCATTCCTCCAAAGGGATACTCCAACCTCATTTTTAAACTTATCAAAATTTAAATCTTATTTTCA
* * *
297436 GTTAAATTGTCATAATCGGGGACA-TTCCAA-C
66 GTTAAATTATAATAATCGAGGACACTT-CAACC
** * *
297467 CCATTCCTCTGAAGGGATACTCCAACCTCATTTTTAAACTCATCAAAATTTAAATCTTATTTTCG
1 CCATTCCTCCAAAGGGATACTCCAACCTCATTTTTAAACTTATCAAAATTTAAATCTTATTTTCA
* * *
297532 GTTAAATTATAATCATCGAGGATACTTTAACC
66 GTTAAATTATAATAATCGAGGACACTTCAACC
297564 CCATTCCTCCAAAGGGATACTCCAACC-CTATTTTTAAA-TTCATCAAAATTTAAATCTTATTTT
1 CCATTCCTCCAAAGGGATACTCCAACCTC-ATTTTTAAACTT-ATCAAAATTTAAATCTTATTTT
297627 GTCCAAATTA
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
96 81 0.58
97 59 0.42
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.36
Consensus pattern (97 bp):
CCATTCCTCCAAAGGGATACTCCAACCTCATTTTTAAACTTATCAAAATTTAAATCTTATTTTCA
GTTAAATTATAATAATCGAGGACACTTCAACC
Found at i:297656 original size:69 final size:69
Alignment explanation
Indices: 297577--297729 Score: 243
Period size: 69 Copynumber: 2.2 Consensus size: 69
297567 TTCCTCCAAA
* * *
297577 GGGATACTCCAACCCTATTTTTAAATTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
1 GGGATACTCCAACCCAATTTCTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
*
297642 GTTG
66 GTCG
* *
297646 GGGATACTCCAATCCAATTTCTAAACTCATCAAAATTTAAGTCTTATTTTGTCCAAATTATCATT
1 GGGATACTCCAACCCAATTTCTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
297711 GTCG
66 GTCG
*
297715 GGGATACTTCAACCC
1 GGGATACTCCAACCC
297730 CATTCCTTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (69 bp):
GGGATACTCCAACCCAATTTCTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
GTCG
Found at i:306217 original size:15 final size:15
Alignment explanation
Indices: 306192--306231 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
306182 CTTATTTGAA
306192 AAAATACAAAAAAATT
1 AAAA-ACAAAAAAATT
306208 AAAAACAAAAAAATT
1 AAAAACAAAAAAATT
306223 AAAAA-AAAA
1 AAAAACAAAA
306232 TGAGTGGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAACAAAAAAATT
Found at i:307023 original size:3 final size:3
Alignment explanation
Indices: 307006--307057 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
306996 TATGGGTGAG
* *
307006 GAA GAA GGAA AAA GAA GAA GAA -AG GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
307051 GAA GAA G
1 GAA GAA G
307058 GAAAAGAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.91
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:307884 original size:16 final size:16
Alignment explanation
Indices: 307849--307915 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
307839 TTATAAAATT
* *
307849 TTCGGGTTATTTTTGAG
1 TTCGGGTCA-TTTTGGG
307866 TTCGGGTCATTTTGGG
1 TTCGGGTCATTTTGGG
* * *
307882 TTCGGGCCACTTTGGA
1 TTCGGGTCATTTTGGG
*
307898 TTCGGGTCATTTCGGG
1 TTCGGGTCATTTTGGG
307914 TT
1 TT
307916 TAGGTTGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
16 33 0.80
17 8 0.20
ACGTcount: A:0.09, C:0.15, G:0.33, T:0.43
Consensus pattern (16 bp):
TTCGGGTCATTTTGGG
Found at i:307942 original size:16 final size:16
Alignment explanation
Indices: 307865--307970 Score: 81
Period size: 16 Copynumber: 6.6 Consensus size: 16
307855 TTATTTTTGA
**
307865 GTTCGGGTCATTTTGG
1 GTTCGGGTCATTTCAG
*
307881 GTTCGGGCCACTTT--G
1 GTTCGGGTCA-TTTCAG
*
307896 GATTCGGGTCATTTCGG
1 G-TTCGGGTCATTTCAG
** ** *
307913 GTTTAGGTTGTTTCAA
1 GTTCGGGTCATTTCAG
307929 GTTCGGGTCATTTCAG
1 GTTCGGGTCATTTCAG
*
307945 GTTCGGATCATTTCAG
1 GTTCGGGTCATTTCAG
*
307961 GTTCTGGTCA
1 GTTCGGGTCA
307971 ATCGAGTTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
15 5 0.07
16 60 0.86
17 5 0.07
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (16 bp):
GTTCGGGTCATTTCAG
Found at i:309038 original size:16 final size:16
Alignment explanation
Indices: 309018--309099 Score: 85
Period size: 16 Copynumber: 5.1 Consensus size: 16
309008 GGGTTAATTG
*
309018 TTCGGGTCATTTCGGG
1 TTCGGGTCATTTCGGA
*
309034 TTCGGGTCATTTTGGA
1 TTCGGGTCATTTCGGA
* *
309050 TTCGGATCA-TTCTGAA
1 TTCGGGTCATTTC-GGA
*
309066 TTCGGGTCATTTCCGA
1 TTCGGGTCATTTCGGA
* *
309082 TTCGTGTCAGTTCGGA
1 TTCGGGTCATTTCGGA
309098 TT
1 TT
309100 TGGATTGTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
15 2 0.04
16 48 0.91
17 3 0.06
ACGTcount: A:0.13, C:0.18, G:0.28, T:0.40
Consensus pattern (16 bp):
TTCGGGTCATTTCGGA
Found at i:316115 original size:32 final size:31
Alignment explanation
Indices: 316077--316579 Score: 275
Period size: 33 Copynumber: 16.1 Consensus size: 31
316067 AAAGTGGTGT
*
316077 TTTGAAATAGGTTGCCACTAACTTGTGTGGAC
1 TTTGAAA-AGGTTGCCACCAACTTGTGTGGAC
* * * *
316109 TATGAAAAGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAAA-GGTTGCCACCAACTTGTGTGGAC
* * *
316141 TTTGAAAAGGGTTGCCACCGACTTGTGTTGATT
1 TTTGAAAA-GGTTGCCACCAACTTGTGTGGA-C
***
316174 TTTGGAAAACAATGCCACCAACTTGTGTGGAC
1 TTT-GAAAAGGTTGCCACCAACTTGTGTGGAC
* * * *
316206 TTTTAAAAAAAAGG-TACCACCAACTTATGTGAAC
1 -TTT---GAAAAGGTTGCCACCAACTTGTGTGGAC
*
316240 TTTGAAAAAGGTTGCCACCAACTTGTGTGGGC
1 TTTG-AAAAGGTTGCCACCAACTTGTGTGGAC
* * * *
316272 TTTGAAAAGGGTTGCCATCGACTTATGTGGGC
1 TTTGAAAA-GGTTGCCACCAACTTGTGTGGAC
* *
316304 TTTGAAAAAGGGTTGCCATCGACTTGTGTGGAC
1 TTTG-AAAA-GGTTGCCACCAACTTGTGTGGAC
* *
316337 TTTTGGAAAATGATGCCACCAACTTGTGTGGAC
1 -TTT-GAAAAGGTTGCCACCAACTTGTGTGGAC
* * * * *
316370 ATTTGGAAAACGATGCCACCAACTTATGCGAAC
1 -TTT-GAAAAGGTTGCCACCAACTTGTGTGGAC
* * * * * *
316403 TTTTAAAAGAAGGTGTCGCCGACTTATG-GG-C
1 TTTGAAAAG--GTTGCCACCAACTTGTGTGGAC
* *
316434 TTTGAAAAGGATGCCACTAACTTGTG-GG-C
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGAC
* * ** *
316463 TTTGAAAATG-TGCCGCTGACTTATG-GG-C
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGAC
*
316491 TTTGAAAAGGGATGCCA-CAACTTGTG-GG-C
1 TTTGAAAA-GGTTGCCACCAACTTGTGTGGAC
* *
316520 TTTGAAAA-GATGCCACTAACTTGTG-GG-C
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGAC
* * *
316548 TTT-AAAAGGGTGCTACTAACTTGTG-GG-C
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGAC
316576 TTTG
1 TTTG
316580 GAAGGGTGCC
Statistics
Matches: 384, Mismatches: 68, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
27 11 0.03
28 58 0.15
29 41 0.11
30 4 0.01
31 24 0.06
32 100 0.26
33 112 0.29
34 29 0.08
35 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
TTTGAAAAGGTTGCCACCAACTTGTGTGGAC
Found at i:316318 original size:33 final size:33
Alignment explanation
Indices: 316077--316379 Score: 235
Period size: 32 Copynumber: 9.3 Consensus size: 33
316067 AAAGTGGTGT
* **
316077 TTTGAAATA-GGTTGCCACTAACTTGTGTGGAC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
* * *
316109 TATG-AAAAGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
* *
316141 TTTG-AAAAGGGTTGCCACCGACTTGTGTTGATT
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGA-C
* *** *
316174 TTTGGAAAA-CAATGCCACCAACTTGTGTGGAC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
* * * * * *
316206 TTTTAAAAAAAAGG-TACCACCAACTTATGTGAAC
1 -TTT-GAAAAAGGGTTGCCACCGACTTGTGTGGAC
* *
316240 TTTGAAAAA-GGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
* * *
316272 TTTG-AAAAGGGTTGCCATCGACTTATGTGGGC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
*
316304 TTTGAAAAAGGGTTGCCATCGACTTGTGTGGAC
1 TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
* * * *
316337 TTTTGGAAAA-TGATGCCACCAACTTGTGTGGAC
1 -TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
*
316370 ATTTGGAAAA
1 -TTTGAAAAA
316380 CGATGCCACC
Statistics
Matches: 221, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
31 9 0.04
32 98 0.44
33 81 0.37
34 33 0.15
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (33 bp):
TTTGAAAAAGGGTTGCCACCGACTTGTGTGGAC
Found at i:316330 original size:131 final size:130
Alignment explanation
Indices: 316091--316394 Score: 340
Period size: 131 Copynumber: 2.3 Consensus size: 130
316081 AAATAGGTTG
* * * * *
316091 CCACTAACTTGTGTGGACTATGAAAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGC
1 CCACCAACTTGTGTGGACTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGC
* ** * *
316156 CACCGACTTGTGTTGATTTTTGGAAAACAATGCCACCAACTTGTGTGGACTTTTAAAAAAAAGGT
66 CACCGACTTATGTTGAGCTTTGAAAAACAATGCCACCAACTTGTGTGGACTTTT-AAAAAAAGAT
316221 A
130 A
* *
316222 CCACCAACTTATGTGAACTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGC
1 CCACCAACTTGTGTGGACTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGC
* * *** * * ** *
316287 CATCGACTTATG-TGGGCTTTGAAAAAGGGTTGCCATCGACTTGTGTGGACTTTTGGAAAATGAT
66 CACCGACTTATGTTGAGCTTTGAAAAA-CAATGCCACCAACTTGTGTGGACTTTTAAAAAAAGAT
*
316351 G
130 A
* * *
316352 CCACCAACTTGTGTGGACATTTGGAAAACGATGCCACCAACTT
1 CCACCAACTTGTGTGGAC-TTTGAAAAAGGTTGCCACCAACTT
316395 ATGCGAACTT
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
130 32 0.22
131 111 0.78
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (130 bp):
CCACCAACTTGTGTGGACTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGC
CACCGACTTATGTTGAGCTTTGAAAAACAATGCCACCAACTTGTGTGGACTTTTAAAAAAAGATA
Found at i:316489 original size:28 final size:29
Alignment explanation
Indices: 316424--316617 Score: 222
Period size: 28 Copynumber: 6.9 Consensus size: 29
316414 GGTGTCGCCG
*
316424 ACTTATGGGCTTTGAAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTA
* * *
316453 ACTTGTGGGCTTTGAAAATG-TGCCGCTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTA
*
316481 ACTTATGGGCTTTGAAAAGGGATGCCAC-A
1 ACTTGTGGGCTTTGAAAA-GGATGCCACTA
316510 ACTTGTGGGCTTTGAAAA-GATGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTA
* *
316538 ACTTGTGGGCTTT-AAAAGGGTGCTACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTA
* * * *
316566 ACTTGTGGGCTTTG-GAAGGGTGCCAATG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTA
*
316594 ACTTATGGGC-TT-AAAAGGATGCCA
1 ACTTGTGGGCTTTGAAAAGGATGCCA
316618 TAGAGTTGTG
Statistics
Matches: 141, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
27 23 0.16
28 77 0.55
29 36 0.26
30 5 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ACTTGTGGGCTTTGAAAAGGATGCCACTA
Found at i:316497 original size:57 final size:55
Alignment explanation
Indices: 316423--316617 Score: 250
Period size: 57 Copynumber: 3.5 Consensus size: 55
316413 AGGTGTCGCC
*
316423 GACTTATGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAATGTGCCGCT
1 GACTTATGGGCTTT-AAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GTGCCACT
316480 GACTTATGGGCTTTGAAAAGGGATGCCAC-AACTTGTGGGCTTTGAAAAGATGCCACT
1 GACTTATGGGCTTT-AAAA-GGATGCCACTAACTTGTGGGCTTTGAAAAG-TGCCACT
* * * * ** *
316537 AACTTGTGGGCTTTAAAAGGGTGCTACTAACTTGTGGGCTTTGGAAGGGTGCCAAT
1 GACTTATGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTT-GAAAAGTGCCACT
316593 GACTTATGGGC-TTAAAAGGATGCCA
1 GACTTATGGGCTTTAAAAGGATGCCA
316618 TAGAGTTGTG
Statistics
Matches: 122, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
55 19 0.16
56 34 0.28
57 60 0.49
58 9 0.07
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (55 bp):
GACTTATGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGTGCCACT
Found at i:316634 original size:27 final size:27
Alignment explanation
Indices: 316581--317267 Score: 580
Period size: 27 Copynumber: 25.4 Consensus size: 27
316571 TGGGCTTTGG
* * *
316581 AAGGGTGCCA-ATGACTTATGGGCTTAA
1 AAGGGTGCCATA-GAGTTGTGGACTTAA
* *
316608 AAGGATGCCATAGAGTTGTGGAGTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
** * *
316635 AAGATTGCCATGGAAG-TGTGGGCTTAA
1 AAGGGTGCCATAG-AGTTGTGGACTTAA
* ** * *
316662 AAAGGTGCCACGGAGTTATGGATTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* *
316689 AAGGGTGCCA-CGAAGTTGTGGATTTAA
1 AAGGGTGCCATAG-AGTTGTGGACTTAA
*
316716 AAGGGTGCCATGGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* * *
316743 AAGGGTGCCACAAAGTTATGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* * *
316770 AAGGGTACCACAAAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* *
316797 AAGGTTGCCATGGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* ** *
316824 AAGGGTGCCA-CGATGTTGTTAACCTAA
1 AAGGGTGCCATAGA-GTTGTGGACTTAA
* * * *
316851 AAGGCTACCATGGAGTTGTGGACTTCA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* * * *
316878 AAGGATGCTACAGAGTTTTGGACTTTAA
1 AAGGGTGCCATAGAGTTGTGGAC-TTAA
* *
316906 AAGGATGCCATGGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* *
316933 AAGGATGCCACAGAGTTGTGGACCTTAA
1 AAGGGTGCCATAGAGTTGTGGA-CTTAA
* * * *
316961 AAGGATGCCACAAAATTGTGGACTTTAA
1 AAGGGTGCCATAGAGTTGTGGAC-TTAA
* * * *
316989 AAGGGTGCCAGATAGTTATTGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* **
317016 AAAGGTGCCACGGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
** * *
317043 AAGATTGCCATGGAGTTGTGGGCTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
317070 AAGGGTGCCATAGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
*
317097 AAGGGTGCCATAGATTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* * *
317124 AA-GGTACGACAGAGTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
* * ** *
317150 AAAGATGCCAGGGATTTGTGGACTTAA
1 AAGGGTGCCATAGAGTTGTGGACTTAA
*
317177 AAGGGTGCCA-CGAAGTTGTGGACTTAA
1 AAGGGTGCCATAG-AGTTGTGGACTTAA
* * *
317204 AAGTGTGCCA-CGATGTTATGGACTTAA
1 AAGGGTGCCATAGA-GTTGTGGACTTAA
* *
317231 AAGGGTGCCA-CGTAGTTGTGAACTTAA
1 AAGGGTGCCATAG-AGTTGTGGACTTAA
*
317258 AAAGGTGCCA
1 AAGGGTGCCA
317268 CGGAATTATG
Statistics
Matches: 544, Mismatches: 102, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
26 29 0.05
27 440 0.81
28 75 0.14
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (27 bp):
AAGGGTGCCATAGAGTTGTGGACTTAA
Found at i:318678 original size:21 final size:22
Alignment explanation
Indices: 318631--318679 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
318621 TGTTGTTCCC
318631 CTTTTTTTATTTTACTTTTGCA
1 CTTTTTTTATTTTACTTTTGCA
* *
318653 CTTTTTTTGTTTTTCTTTT-CA
1 CTTTTTTTATTTTACTTTTGCA
318674 -TTTTTT
1 CTTTTTT
318680 GTGCTTTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.24
21 2 0.08
22 17 0.68
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (22 bp):
CTTTTTTTATTTTACTTTTGCA
Found at i:325826 original size:50 final size:50
Alignment explanation
Indices: 325741--325851 Score: 170
Period size: 50 Copynumber: 2.2 Consensus size: 50
325731 AATTAACTAG
* * * *
325741 ATGTATTGATACATTGAAAAATGTATCGATACATCTGGGTTAAAAAAGAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGG-TAAAAAACAAA
325792 ATGTATCGATACATTG-AAAATGTATCGATACATCTAGGTAAAAAACAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAACAAA
325841 ATGTATCGATA
1 ATGTATCGATA
325852 AATGTACTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
49 20 0.36
50 21 0.38
51 15 0.27
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAACAAA
Found at i:330079 original size:27 final size:27
Alignment explanation
Indices: 330030--330081 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
330020 TTCAAAAATG
**
330030 GGGTTGGAGTATCCCCTCGGAATAATT
1 GGGTTGGAGTATCCCCGAGGAATAATT
*
330057 GGGTTGGAGTATCCCCGATGAATAA
1 GGGTTGGAGTATCCCCGAGGAATAA
330082 AAATTTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAATAATT
Found at i:334425 original size:65 final size:64
Alignment explanation
Indices: 334354--334606 Score: 348
Period size: 64 Copynumber: 4.0 Consensus size: 64
334344 TCTTTCCCTT
** *
334354 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCATTTTTAGTTTTCAAAGAGCAGGACGTC
1 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCA-TTTTAGTCCTCAAAGAGCAGGACGCC
* * * * **
334419 TTTTTCTTTTAAAAGCCCACGCAAGTTGGTGGTACCCCTTTTAGTCCTCAAAGAGCAGAATACC
1 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCATTTTAGTCCTCAAAGAGCAGGACGCC
* * *
334483 TTTTTCTTTTAAAAGTCCACACAAGTCGGTGGCACCCATTTTAGTCCTCAAAGAGCAAGACGCC
1 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCATTTTAGTCCTCAAAGAGCAGGACGCC
* *
334547 TTTTT-TTTTAAAAGCCCACACAAGTTGGTGGTACCTC-TTTTAGTCCTCAAAGAGCTGGAC
1 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACC-CATTTTAGTCCTCAAAGAGCAGGAC
334607 ATCTCTTCCC
Statistics
Matches: 164, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
63 48 0.29
64 81 0.49
65 35 0.21
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (64 bp):
TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCATTTTAGTCCTCAAAGAGCAGGACGCC
Found at i:334598 original size:127 final size:129
Alignment explanation
Indices: 334354--334601 Score: 410
Period size: 127 Copynumber: 1.9 Consensus size: 129
334344 TCTTTCCCTT
* ** * *
334354 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCATTTTTAGTTTTCAAAGAGCAGGACGTC
1 TTTTTCTTTTAAAAGCCCACACAAGTCGGTGGCACCCATTTTTAGTCCTCAAAGAGCAAGACGCC
*
334419 TTTTTCTTTTAAAAGCCCACGCAAGTTGGTGGTACCCCTTTTAGTCCTCAAAGAGCAGAATACC
66 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGTACCCCTTTTAGTCCTCAAAGAGCAGAATACC
*
334483 TTTTTCTTTTAAAAGTCCACACAAGTCGGTGGCACCCA-TTTTAGTCCTCAAAGAGCAAGACGCC
1 TTTTTCTTTTAAAAGCCCACACAAGTCGGTGGCACCCATTTTTAGTCCTCAAAGAGCAAGACGCC
*
334547 TTTTT-TTTTAAAAGCCCACACAAGTTGGTGGTACCTCTTTTAGTCCTCAAAGAGC
66 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGTACCCCTTTTAGTCCTCAAAGAGC
334602 TGGACATCTC
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
127 48 0.43
128 27 0.24
129 36 0.32
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (129 bp):
TTTTTCTTTTAAAAGCCCACACAAGTCGGTGGCACCCATTTTTAGTCCTCAAAGAGCAAGACGCC
TTTTTCTTTTAAAAGCCCACACAAGTTGGTGGTACCCCTTTTAGTCCTCAAAGAGCAGAATACC
Found at i:335445 original size:13 final size:13
Alignment explanation
Indices: 335427--335451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
335417 CATTTTATGG
335427 TGTATCGATACAA
1 TGTATCGATACAA
335440 TGTATCGATACA
1 TGTATCGATACA
335452 TACTATGTGT
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:335467 original size:32 final size:33
Alignment explanation
Indices: 335404--335471 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
335394 CGTTACAAGC
**
335404 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
335437 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
335469 CAA
1 CAA
335472 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:337156 original size:20 final size:21
Alignment explanation
Indices: 337127--337167 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
337117 TGTTTTTGAT
337127 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
337146 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
337168 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:337321 original size:13 final size:13
Alignment explanation
Indices: 337299--337337 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
337289 ATAATCCCCT
337299 TGTATCGATACAG
1 TGTATCGATACAG
* *
337312 TGTATTGATACAA
1 TGTATCGATACAG
337325 TGTATCGATACAG
1 TGTATCGATACAG
337338 AGAATGCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:343350 original size:32 final size:33
Alignment explanation
Indices: 343287--343358 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
343277 CGTTACAAGC
*
343287 CAATGTATCGATACATCTTATGGTGTATCGATA
1 CAATGTTTCGATACATCTTATGGTGTATCGATA
*
343320 CAATGTTTCGATACATAC-TGT-GTGTATCGATA
1 CAATGTTTCGATACAT-CTTATGGTGTATCGATA
343352 CAA-GTTT
1 CAATGTTT
343359 AGCTACTGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 4 0.11
32 14 0.39
33 17 0.47
34 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (33 bp):
CAATGTTTCGATACATCTTATGGTGTATCGATA
Found at i:343413 original size:20 final size:20
Alignment explanation
Indices: 343388--343439 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
343378 CAATGACTTG
**
343388 TATCGATACATTTTTTCAAA
1 TATCGATACATTTAGTCAAA
**
343408 TATCGATACATTTAGTCATG
1 TATCGATACATTTAGTCAAA
343428 TATCGATACATT
1 TATCGATACATT
343440 GTATCGATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTAGTCAAA
Found at i:354643 original size:20 final size:21
Alignment explanation
Indices: 354614--354652 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
354604 TATAATTAAA
354614 TTTAAATAAAAATA-TATTAT
1 TTTAAATAAAAATACTATTAT
*
354634 TTTAATTAAAAATACTATT
1 TTTAAATAAAAATACTATT
354653 TTGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAATAAAAATACTATTAT
Found at i:355311 original size:31 final size:31
Alignment explanation
Indices: 355248--355312 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
355238 TTCAAATTTT
* * **
355248 AAAATTTTAAATTTTAATTTTTATGAGTTTA
1 AAAATTTTAAATTTAAATATTTATGAAATTA
355279 AAAATTTTAAATTTAAATAATTT-TGAAATTA
1 AAAATTTTAAATTTAAAT-ATTTATGAAATTA
355310 AAA
1 AAA
355313 TTTGAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
AAAATTTTAAATTTAAATATTTATGAAATTA
Found at i:355545 original size:35 final size:38
Alignment explanation
Indices: 355483--355556 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 38
355473 TCAAACCCCC
355483 TTTTTTTTTTTGTTCAGATAGATTTTTCCACTTCTATTCT
1 TTTTTTTTTTTGTTCA-ATA-ATTTTTCCACTTCTATTCT
355523 TTTTTTTTTTTGTTC-AT-A-TTTTCCACTTCTATTC
1 TTTTTTTTTTTGTTCAATAATTTTTCCACTTCTATTC
355557 GTGATGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 16 0.47
36 1 0.03
38 2 0.06
40 15 0.44
ACGTcount: A:0.14, C:0.16, G:0.05, T:0.65
Consensus pattern (38 bp):
TTTTTTTTTTTGTTCAATAATTTTTCCACTTCTATTCT
Found at i:356058 original size:8 final size:8
Alignment explanation
Indices: 356045--356069 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
356035 CCTCCTCCTT
356045 GCACAAAA
1 GCACAAAA
356053 GCACAAAA
1 GCACAAAA
356061 GCACAAAA
1 GCACAAAA
356069 G
1 G
356070 TGGGTTCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (8 bp):
GCACAAAA
Found at i:356172 original size:19 final size:18
Alignment explanation
Indices: 356150--356211 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
356140 TATAAATTAA
356150 AATATAATATAAATTATTT
1 AATATAATA-AAATTATTT
* *
356169 AATATATTAAAATTTTTT
1 AATATAATAAAATTATTT
* * * *
356187 AAAAAAATAATATATATTA
1 AATATAATAAAAT-TATTT
356206 AATATA
1 AATATA
356212 TGATATTAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAATAAAATTATTT
Found at i:356187 original size:18 final size:19
Alignment explanation
Indices: 356150--356188 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
356140 TATAAATTAA
356150 AATATAATATAAATTATTT
1 AATATAATATAAATTATTT
* *
356169 AATATATTA-AAATTTTTT
1 AATATAATATAAATTATTT
356187 AA
1 AA
356189 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATAATATAAATTATTT
Found at i:356217 original size:14 final size:13
Alignment explanation
Indices: 356191--356240 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
356181 TTTTTTAAAA
356191 AAATAATATATATT
1 AAAT-ATATATATT
356205 AAATATATGATATT
1 AAATATAT-ATATT
356219 -AAT-TATAT-TT
1 AAATATATATATT
356229 AAATATAT-TATT
1 AAATATATATATT
356241 TTTATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.06
11 6 0.19
12 8 0.25
13 7 0.22
14 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AAATATATATATT
Found at i:356221 original size:24 final size:24
Alignment explanation
Indices: 356194--356256 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
356184 TTTAAAAAAA
356194 TAATATATATTAAATATATGATAT
1 TAATATATATTAAATATATGATAT
* *
356218 TAAT-TATATTTAAATATATTATTT
1 TAATATATA-TTAAATATATGATAT
* *
356242 TTATATTTATTAAAT
1 TAATATATATTAAAT
356257 TATTTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TAATATATATTAAATATATGATAT
Found at i:356260 original size:20 final size:20
Alignment explanation
Indices: 356221--356275 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
356211 ATGATATTAA
* *
356221 TTATATTTAAATATATTATTT
1 TTATATTT-ATTAAATTATTT
356242 TTATATTTATTAAATTATTT
1 TTATATTTATTAAATTATTT
*
356262 TTATA-CTATTAAAT
1 TTATATTTATTAAAT
356276 ATATAATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 8 0.26
20 15 0.48
21 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATATTTATTAAATTATTT
Found at i:356919 original size:22 final size:23
Alignment explanation
Indices: 356868--356920 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
356858 TATTATTTTT
*
356868 ATTTATTATA-ATTATATTTAAA
1 ATTTAATATATATTATATTTAAA
*
356890 A--TACTATATATT-TATTTAAA
1 ATTTAATATATATTATATTTAAA
356910 ATTTAATATAT
1 ATTTAATATAT
356921 TAATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 15 0.58
21 3 0.12
22 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTAATATATATTATATTTAAA
Found at i:356933 original size:19 final size:19
Alignment explanation
Indices: 356909--356962 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
356899 ATTTATTTAA
356909 AATTTAATATATTAATAAT
1 AATTTAATATATTAATAAT
356928 AA-TT--TATATTATATAA-
1 AATTTAATATATTA-ATAAT
* *
356944 ATTTTAATATATTATTAAT
1 AATTTAATATATTAATAAT
356963 TATATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 5 0.18
19 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTAATATATTAATAAT
Found at i:357465 original size:30 final size:30
Alignment explanation
Indices: 357431--357501 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
357421 TATTTTTCAC
357431 TTCATTCATAAATTTTAAAAATTAT-ATTT
1 TTCATTCATAAATTTTAAAAATTATAATTT
* * *
357460 GTTCATTAATCACTTTTAAAAATTATAATTT
1 -TTCATTCATAAATTTTAAAAATTATAATTT
357491 TTCATTCATAA
1 TTCATTCATAA
357502 CCTCTCTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (30 bp):
TTCATTCATAAATTTTAAAAATTATAATTT
Found at i:357782 original size:13 final size:13
Alignment explanation
Indices: 357764--357788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
357754 ATCAACTTTT
357764 TTTAAAATCAATA
1 TTTAAAATCAATA
357777 TTTAAAATCAAT
1 TTTAAAATCAAT
357789 TTCTTCAAAT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTAAAATCAATA
Found at i:358498 original size:21 final size:21
Alignment explanation
Indices: 358466--358506 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
358456 TTTATGATTT
358466 TTAAGAGTAAAGATCGATCCC
1 TTAAGAGTAAAGATCGATCCC
*
358487 TTAAG-GTAAAAGATTGATCC
1 TTAAGAGT-AAAGATCGATCC
358507 GTTGGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (21 bp):
TTAAGAGTAAAGATCGATCCC
Found at i:360197 original size:19 final size:20
Alignment explanation
Indices: 360170--360210 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
360160 TAATTTAATT
360170 ATAAAAT-AAATAAATAAAA
1 ATAAAATAAAATAAATAAAA
* *
360189 ATAATATAAAATAATTAAAA
1 ATAAAATAAAATAAATAAAA
360209 AT
1 AT
360211 GAATCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAATAAAATAAATAAAA
Found at i:360464 original size:21 final size:20
Alignment explanation
Indices: 360425--360464 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
360415 ATATCATATT
* *
360425 TTAATTTTTTCACATAAAAA
1 TTAATTTTTTCAAACAAAAA
360445 TTAATTTTATTCAAACAAAA
1 TTAATTTT-TTCAAACAAAA
360465 TAAATATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTTTTTCAAACAAAAA
Found at i:362527 original size:11 final size:11
Alignment explanation
Indices: 362511--362548 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
362501 ATAATCACCG
362511 TATATTATATT
1 TATATTATATT
*
362522 TATATT-TTTT
1 TATATTATATT
*
362532 TATATTATAAT
1 TATATTATATT
362543 TATATT
1 TATATT
362549 CATAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTATATT
Found at i:362532 original size:35 final size:33
Alignment explanation
Indices: 362459--362533 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
362449 ATTTTTTAAA
362459 ATTTTTTTAATAATCACCGTATATTATATTTAT
1 ATTTTTTTAATAATCACCGTATATTATATTTAT
362492 ATTTTTTTAATAATCACCGTATATTATATTTAT
1 ATTTTTTTAATAATCACCGTATATTATATTTAT
362525 ATTTTTTTA
1 ATTTTTTTA
362534 TATTATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTTTTTTAATAATCACCGTATATTATATTTAT
Found at i:362625 original size:12 final size:13
Alignment explanation
Indices: 362608--362645 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
362598 TTTATAAATT
362608 TTTATTAT-TTTA
1 TTTATTATATTTA
362620 TTTATTATATTT-
1 TTTATTATATTTA
362632 TTTAATTATATTTA
1 TTT-ATTATATTTA
362646 ATGTGCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTATATTTA
Found at i:362643 original size:22 final size:22
Alignment explanation
Indices: 362596--362645 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
362586 AATTTCGACG
* *
362596 TATTTATAAATTTTTATTATTT
1 TATTTATAAATTTTTATAATTA
*
362618 TATTTATTATATTTTT-TAATTA
1 TATTTA-TAAATTTTTATAATTA
362640 TATTTA
1 TATTTA
362646 ATGTGCATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTATAAATTTTTATAATTA
Found at i:362982 original size:21 final size:20
Alignment explanation
Indices: 362958--362998 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
362948 CATTTATATA
*
362958 TTTATATTGTATTATTATTTT
1 TTTATATTATATTA-TATTTT
*
362979 TTTATGTTATATTATATTTT
1 TTTATATTATATTATATTTT
362999 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTATATTATATTATATTTT
Found at i:362988 original size:26 final size:27
Alignment explanation
Indices: 362959--363013 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
362949 ATTTATATAT
*
362959 TTATATTGTATTAT-TATTTTTTTATG
1 TTATATTATATTATATATTTTTTTATG
* *
362985 TTATATTATATTTTATATTTTTTTGTG
1 TTATATTATATTATATATTTTTTTATG
363012 TT
1 TT
363014 GATGCGGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (27 bp):
TTATATTATATTATATATTTTTTTATG
Found at i:364702 original size:27 final size:27
Alignment explanation
Indices: 364672--364939 Score: 189
Period size: 27 Copynumber: 9.9 Consensus size: 27
364662 TAACCAGGAT
364672 CTATAGAATTGTT-AATTAAACTTTTTA
1 CTATAGAATT-TTCAATTAAACTTTTTA
* * *
364699 CTATAAAATTTTTAATTGAA-TTTTTA
1 CTATAGAATTTTCAATTAAACTTTTTA
* *
364725 CATATAGAATTTTCAACTAAAATTTTTAGA
1 C-TATAGAATTTTCAATTAAACTTTTT--A
* *
364755 C-ATAGAATTTTCAACTAAAATTTTTA
1 CTATAGAATTTTCAATTAAACTTTTTA
* * *
364781 CATATAAAATTTTTAAATTGAAC-TTTTA
1 C-TATAGAA-TTTTCAATTAAACTTTTTA
* * *
364809 GATATAAAATTTTTAATTAAACTTTTATA
1 -CTATAGAATTTTCAATTAAACTTTT-TA
*
364838 -TATAGAATTTTCAATTAAA-ATTTTA
1 CTATAGAATTTTCAATTAAACTTTTTA
* * *
364863 CGTATAGAATTTTTAATTGAAC-CTTTA
1 C-TATAGAATTTTCAATTAAACTTTTTA
* *
364890 C-ACTAAAATTTTCAATTAGAC-TTTTA
1 CTA-TAGAATTTTCAATTAAACTTTTTA
364916 CATATAGAATTTT-AATTAAA-TTTT
1 C-TATAGAATTTTCAATTAAACTTTT
364940 CATGCATAAA
Statistics
Matches: 196, Mismatches: 27, Indels: 37
0.75 0.10 0.14
Matches are distributed among these distances:
25 3 0.02
26 42 0.21
27 88 0.45
28 50 0.26
29 11 0.06
30 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (27 bp):
CTATAGAATTTTCAATTAAACTTTTTA
Found at i:364750 original size:13 final size:13
Alignment explanation
Indices: 364732--364778 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
364722 TTACATATAG
364732 AATTTTCAACTAA
1 AATTTTCAACTAA
* *
364745 AATTTTTAGACATAG
1 AATTTTCA-AC-TAA
364760 AATTTTCAACTAA
1 AATTTTCAACTAA
364773 AATTTT
1 AATTTT
364779 TACATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 15 0.54
14 4 0.14
15 9 0.32
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (13 bp):
AATTTTCAACTAA
Found at i:364759 original size:28 final size:28
Alignment explanation
Indices: 364673--364875 Score: 164
Period size: 28 Copynumber: 7.4 Consensus size: 28
364663 AACCAGGATC
* *
364673 TATAGAATTGTT-AATTAAACTTTTTAC-
1 TATAGAATT-TTCAACTAAAATTTTTACA
* * **
364700 TATAAAATTTTTAA-TTGAATTTTTACA
1 TATAGAATTTTCAACTAAAATTTTTACA
*
364727 TATAGAATTTTCAACTAAAATTTTTAGA
1 TATAGAATTTTCAACTAAAATTTTTACA
*
364755 CATAGAATTTTCAACTAAAATTTTTACA
1 TATAGAATTTTCAACTAAAATTTTTACA
* * * ** * *
364783 TATAAAATTTTTAAATTGAACTTTTAGA
1 TATAGAATTTTCAACTAAAATTTTTACA
* * * * *
364811 TATAAAATTTTTAA-TTAAACTTTTATA
1 TATAGAATTTTCAACTAAAATTTTTACA
* *
364838 TATAGAATTTTCAATTAAAA-TTTTACG
1 TATAGAATTTTCAACTAAAATTTTTACA
364865 TATAGAATTTT
1 TATAGAATTTT
364876 TAATTGAACC
Statistics
Matches: 146, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
26 11 0.08
27 61 0.42
28 74 0.51
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (28 bp):
TATAGAATTTTCAACTAAAATTTTTACA
Found at i:364861 original size:13 final size:13
Alignment explanation
Indices: 364732--364861 Score: 57
Period size: 13 Copynumber: 9.5 Consensus size: 13
364722 TTACATATAG
*
364732 AATTTTCAACTAA
1 AATTTTCAATTAA
* * *
364745 AATTTTTAGACATAG
1 AATTTTCA-A-TTAA
*
364760 AATTTTCAACTAA
1 AATTTTCAATTAA
*
364773 AATTTTTACATATAA
1 AATTTTCA-AT-TAA
* *
364788 AATTTTTAAATTGA
1 AA-TTTTCAATTAA
*
364802 ACTTTT-AGATATAA
1 AATTTTCA-AT-TAA
*
364816 AATTTTTAATTAA
1 AATTTTCAATTAA
* *
364829 ACTTTT-ATATATAG
1 AATTTTCA-AT-TAA
364843 AATTTTCAATTAA
1 AATTTTCAATTAA
364856 AATTTT
1 AATTTT
364862 ACGTATAGAA
Statistics
Matches: 89, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
12 2 0.02
13 40 0.45
14 24 0.27
15 18 0.20
16 5 0.06
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (13 bp):
AATTTTCAATTAA
Found at i:365686 original size:19 final size:20
Alignment explanation
Indices: 365642--365689 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
365632 TCGATATATT
*
365642 GTATCAATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
365662 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
365681 GTATCGATA
1 GTATCGATA
365690 AAAATTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:365778 original size:21 final size:21
Alignment explanation
Indices: 365754--365807 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
365744 TAGATACAAA
* *
365754 GTATCGATATATACTTGAATT
1 GTATCGATACATACTTAAATT
* **
365775 GTATTGATACATGGTTAAATT
1 GTATCGATACATACTTAAATT
365796 GTATCGATACAT
1 GTATCGATACAT
365808 TGAGCCCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (21 bp):
GTATCGATACATACTTAAATT
Found at i:372886 original size:13 final size:13
Alignment explanation
Indices: 372868--372924 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
372858 CATAAAGTGT
372868 TGTATCGATACAA
1 TGTATCGATACAA
372881 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
372896 GTGTTGTATTGATACAA
1 ----TGTATCGATACAA
372913 TGTATCGATACA
1 TGTATCGATACA
372925 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:372903 original size:32 final size:32
Alignment explanation
Indices: 372848--372945 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
372838 TTCAACGATT
372848 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
372881 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
372913 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
372945 T
1 T
372946 ATAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:372937 original size:19 final size:18
Alignment explanation
Indices: 372846--372943 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
372836 ATTTCAACGA
372846 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
372865 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
372881 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
372897 TGTTGTATTGATAC--AA-
1 T-TTGTATCGATACATAAG
372913 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
372929 TTTTGTATCGATACA
1 -TTTGTATCGATACA
372944 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:373004 original size:13 final size:13
Alignment explanation
Indices: 372986--373010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372976 ATTACCCAAA
372986 TGTATCGATACAT
1 TGTATCGATACAT
372999 TGTATCGATACA
1 TGTATCGATACA
373011 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:373061 original size:52 final size:50
Alignment explanation
Indices: 372999--373147 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 50
372989 ATCGATACAT
*
372999 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
373051 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
373103 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
373148 TCATATTTCG
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:376325 original size:12 final size:12
Alignment explanation
Indices: 376304--376338 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
376294 CCCTAGTGAC
*
376304 GATTAATCATAG
1 GATTAGTCATAG
376316 GATTAGTCATAG
1 GATTAGTCATAG
*
376328 GAGTAGTCATA
1 GATTAGTCATA
376339 TGCTAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (12 bp):
GATTAGTCATAG
Done.