Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 83 of 204
Found at i:25399791 original size:27 final size:26
Alignment explanation
Indices: 25399774--25399843 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
25399764 ATATTAAGTC
25399774 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
25399801 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
25399829 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25399844 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:25399837 original size:28 final size:28
Alignment explanation
Indices: 25399774--25399871 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25399764 ATATTAAGTC
*
25399774 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25399801 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25399829 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25399858 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25399872 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25400335 original size:12 final size:12
Alignment explanation
Indices: 25400318--25400344 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25400308 TGGGCATACT
25400318 TATGTATATATA
1 TATGTATATATA
25400330 TATGTATATATA
1 TATGTATATATA
25400342 TAT
1 TAT
25400345 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:25407061 original size:56 final size:50
Alignment explanation
Indices: 25407029--25407321 Score: 320
Period size: 50 Copynumber: 5.9 Consensus size: 50
25407019 CATTGAGATT
* *
25407029 ATGAGAGTTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
* *
25407079 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
* *
25407129 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGAGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
** * * * *
25407179 ATGAGAGGTCCCCCGTAAGACCATGTCTGGG-CATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
** * * * * * * *
25407228 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGACAGT-AC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
* * ** * * *
25407277 AAGAAACATCCCATGTAAGACCATATCTAGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
25407322 TGTTATTATC
Statistics
Matches: 205, Mismatches: 37, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
49 76 0.37
50 129 0.63
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
Found at i:25413955 original size:29 final size:29
Alignment explanation
Indices: 25413923--25414033 Score: 97
Period size: 29 Copynumber: 3.9 Consensus size: 29
25413913 AAAATCTGGA
* *
25413923 AAGGTAAGCTTTTGTGGC-AACCTTTGTTT
1 AAGG-AAGCCTTTGTGGCAAACCTCTGTTT
25413952 AAGGACA-CCTTTGTGGCAAACCTCTGTTT
1 AAGGA-AGCCTTTGTGGCAAACCTCTGTTT
* * *
25413981 AAGGACGCCTTTGTGGCGAACATC---TT
1 AAGGAAGCCTTTGTGGCAAACCTCTGTTT
* *
25414007 AAGGAATGCCTTTGTGGAAAAGCTCTG
1 AAGGAA-GCCTTTGTGGCAAACCTCTG
25414034 AAGGAAATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.11
27 14 0.21
28 10 0.15
29 35 0.53
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCAAACCTCTGTTT
Found at i:25413968 original size:28 final size:29
Alignment explanation
Indices: 25413933--25413997 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
25413923 AAGGTAAGCT
*
25413933 TTTGTGGC-AACCTTTGTTTAAGGACACC
1 TTTGTGGCAAACCTCTGTTTAAGGACACC
*
25413961 TTTGTGGCAAACCTCTGTTTAAGGACGCC
1 TTTGTGGCAAACCTCTGTTTAAGGACACC
25413990 TTTGTGGC
1 TTTGTGGC
25413998 GAACATCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (29 bp):
TTTGTGGCAAACCTCTGTTTAAGGACACC
Found at i:25416644 original size:23 final size:23
Alignment explanation
Indices: 25416613--25416675 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
25416603 TTAAATTTAG
*
25416613 GACATGTGGCAAAATAAGATTGT
1 GACACGTGGCAAAATAAGATTGT
25416636 GACACGTGGCAAAATAAGATTGT
1 GACACGTGGCAAAATAAGATTGT
25416659 GACACGTGGCATAAATA
1 GACACGTGGCA-AAATA
25416676 TTTTTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 33 0.87
24 5 0.13
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (23 bp):
GACACGTGGCAAAATAAGATTGT
Found at i:25419591 original size:19 final size:19
Alignment explanation
Indices: 25419567--25419679 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
25419557 AATTTTTTAG
25419567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
25419586 GATATGTAATCCAAGATAT
1 GATATGCAATCTTAGATAT
25419605 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
25419626 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
25419645 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25419664 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
25419680 ATATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 64 0.80
21 16 0.20
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25419612 original size:40 final size:40
Alignment explanation
Indices: 25419568--25419674 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
25419558 ATTTTTTAGG
*
25419568 ATATGCAATCTTAGATATGATATGTAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
***
25419608 ATATGCAATCTTAGATATGATATGCAATATTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
25419648 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
25419675 TTAGAATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 22 0.35
40 40 0.65
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:25419634 original size:59 final size:56
Alignment explanation
Indices: 25419567--25419686 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
25419557 AATTTTTTAG
* *
25419567 GATATGCAATCTTAGATATGATATGTAATCCAAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATATTAGATATGATATATAATCCAAGATATG--ATATGCAATCTTAGA-AT
**
25419626 GATATGCAATATTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGAAT
1 GATATGCAATATTAGATATGATATATAATCCAAGATATGATATGCAATCTTAGAAT
25419682 -ATATG
1 GATATG
25419687 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 15 0.26
59 35 0.61
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (56 bp):
GATATGCAATATTAGATATGATATATAATCCAAGATATGATATGCAATCTTAGAAT
Found at i:25420493 original size:25 final size:26
Alignment explanation
Indices: 25420450--25420499 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
25420440 TGTATATATA
25420450 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTTAAAACGAATATTTTCC
* *
25420476 TATATTTTTT-TAATGAATATTTTC
1 TATATTTTTTAAAACGAATATTTTC
25420500 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTTTAAAACGAATATTTTCC
Found at i:25421293 original size:98 final size:98
Alignment explanation
Indices: 25421173--25421364 Score: 339
Period size: 98 Copynumber: 2.0 Consensus size: 98
25421163 AATCATGAAA
*
25421173 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTATGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTTAAA
25421238 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAG
66 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAG
* * *
25421271 GAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
25421336 TCTTGGATGAGTGGATGTTCTTTTAAAGT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGT
25421365 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAG
Found at i:25426908 original size:44 final size:44
Alignment explanation
Indices: 25426724--25426908 Score: 106
Period size: 44 Copynumber: 4.2 Consensus size: 44
25426714 AAAATTGTAG
* * *
25426724 ATCTTATCTCCCTAAACAGTAGTGGCGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAA
* * ** * *
25426768 ATCTTATCTTTCCC-AGATAGT-G-GGAAGCAGATTTAAGCCACCAA
1 ATCTTATC--TCCCTAAACAGTAGTGG-AGCAGATCGAAGACAGCAA
** * * * * * * * * * ** * *
25426812 GCCTTGTCTTCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAA
25426856 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAA
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAA
25426900 ATCTTATCT
1 ATCTTATCT
25426909 TTCCAAGATA
Statistics
Matches: 93, Mismatches: 42, Indels: 12
0.63 0.29 0.08
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 75 0.81
45 7 0.08
46 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAA
Found at i:25427157 original size:44 final size:44
Alignment explanation
Indices: 25427082--25427289 Score: 120
Period size: 44 Copynumber: 4.7 Consensus size: 44
25427072 CCAAGCCTTG
* * * *
25427082 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATTGTAGATCTTA
* * ** *
25427126 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATTGTAGATCTTA
* * * *** * *
25427170 TCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGAAGATTGAAG--ATTGTAGATCTTA
* * * * *
25427214 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAATATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATTGTAGATCTTA
* *
25427258 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA
25427290 CAGCAAATCT
Statistics
Matches: 115, Mismatches: 39, Indels: 20
0.66 0.22 0.11
Matches are distributed among these distances:
42 5 0.04
43 8 0.07
44 92 0.80
45 7 0.06
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATTGTAGATCTTA
Found at i:25428163 original size:44 final size:44
Alignment explanation
Indices: 25428115--25428551 Score: 219
Period size: 44 Copynumber: 10.1 Consensus size: 44
25428105 TGGGAAGAAA
* *
25428115 ATTAAAGTCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
1 ATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
25428159 ATTAAAATC-ACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAG
1 ATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
** * * *
25428202 ATTGCA-TC--TAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAG
1 ATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
25428243 ACT-AAGTAAGTA-AGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAG
1 ATTAAAGT-CG-ACAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG
* * *
25428287 AATGAAGAT-GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 ATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * * *
25428332 ATTAAAGCCGACAATCCTGTTTCCCTAAAGTTGCAGTGGAGCGG
1 ATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * * *
25428376 ATTAAAATC-ACAGATCTTATTTCTCTGAAGTTGTAG-AGAACAG
1 ATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*** * * *
25428419 ATCGCA-TC--TAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 ATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * ** *
25428460 ACTAAGGAAG-CAAGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAG
1 ATTAAAGTCGACAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG
* * * * *
25428504 ACTGAAGATAG-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAG
1 ATTAAAG-TCGACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
25428549 ATT
1 ATT
25428552 GAACCACTAA
Statistics
Matches: 300, Mismatches: 67, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
40 39 0.13
41 17 0.06
42 4 0.01
43 28 0.09
44 138 0.46
45 67 0.22
46 7 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
ATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
Found at i:25428164 original size:132 final size:132
Alignment explanation
Indices: 25426712--25428111 Score: 2301
Period size: 132 Copynumber: 10.6 Consensus size: 132
25426702 AACAGATCAG
* * * * *
25426712 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGCGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* *
25426777 TTCCCAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTTCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25426842 GT
131 GT
*
25426844 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* * *
25426909 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGCAGTAGCGGAGAAA
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25426974 GT
131 GT
* * * * *
25426976 TAAAAATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCTCATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
25427041 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427106 GT
131 GT
* *
25427108 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
*
25427173 TTCCAAGATAGTGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427238 GT
131 GT
*
25427240 TGAATATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* *
25427305 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAACGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427370 GT
131 GT
* * * *
25427372 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCAAAGACGGTAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
*
25427437 TTCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAG-CTTGTCTCCCTGAGCAGCAGC-GA-AAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427499 GT
131 GT
* *
25427501 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* *
25427566 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGAAAAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427631 GT
131 GT
*
25427633 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
*
25427698 TTCC-AGATAGTGGGCAGCAGATTTAAGCCACCAAG-CTTGTCTCCCTGAGCAAGCAGCGTAGAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGC-AGCAGCG--GAG
25427761 AAGGT
128 AAGGT
* *
25427766 TGAA-ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* * *
25427830 TTCCAAGATAGTGGGCAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAACAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25427895 GT
131 GT
*
25427897 TGAAGATTGTAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
* * * *
25427962 TTCCAAGATAGTGGGAAGCAGATTCAAGCCACCAAGCCTTGTTTCCCTGAGCAGCAGCAGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
25428027 GT
131 GT
* * *
25428029 TAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GACAAATCATATC
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-CAAATCTTATC
25428093 TTTCCAAGATAGTGGGAAG
65 TTTCCAAGATAGTGGGAAG
25428112 AAAATTAAAG
Statistics
Matches: 1189, Mismatches: 69, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
129 99 0.08
130 38 0.03
131 70 0.06
132 921 0.77
133 47 0.04
134 14 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
GT
Found at i:25428273 original size:84 final size:87
Alignment explanation
Indices: 25428127--25428337 Score: 220
Period size: 84 Copynumber: 2.4 Consensus size: 87
25428117 TAAAGTCGAC
* * * *
25428127 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTATCTCTCTGAAGTTA
* *
25428192 CAGAGA-GCAGATTG-CAT-CT
66 CAGAGAGGCAGAATGACATGCA
* *
25428211 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGT-A-AG-TCTTATC-CTCCTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AA-TCACAGATCTTATCTCT-CTGAA
* *
25428272 GTTACAGTGAGGCAGAATGAAGATGGCA
62 GTTACAGAGAGGCAGAATG-ACAT-GCA
*
25428300 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
25428338 GCCGACAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
83 2 0.02
84 52 0.50
85 9 0.09
86 3 0.03
87 4 0.04
89 35 0.33
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTATCTCTCTGAAGTTA
CAGAGAGGCAGAATGACATGCA
Found at i:25428373 original size:217 final size:217
Alignment explanation
Indices: 25428115--25428551 Score: 705
Period size: 217 Copynumber: 2.0 Consensus size: 217
25428105 TGGGAAGAAA
* *
25428115 ATTAAAGTCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATC
1 ATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATC
* *
25428180 TCTCTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTTCC-TGAAGTTGCAGTGGAGCAGA
66 TCTCTGAAGTTGCAGAGAACAGATCGCATCTAGTCTTATC-TCCTTGAAGTTGCAGTGGAGCAGA
* * * *
25428244 CTAAGTAAGTAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGAATGAAGATGGCAAATCTTATC
130 CTAAGGAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGAATGAAGATAGCAAATCTTATC
*
25428309 TCCCTGAAGTTGCAGTGGAGCAG
195 TCCCTAAAGTTGCAGTGGAGCAG
* * *
25428332 ATTAAAGCCGACAATCCTGTTTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATT
1 ATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATC
*
25428397 TCTCTGAAGTTGTAGAGAACAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
66 TCTCTGAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
* * *
25428462 TAAGGAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATAGCAAGTCTTATCT
131 TAAGGAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGAATGAAGATAGCAAATCTTATCT
*
25428527 CCCTAAAGTTGCAGTGGAGTAG
196 CCCTAAAGTTGCAGTGGAGCAG
25428549 ATT
1 ATT
25428552 GAACCACTAA
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 3 0.01
217 199 0.99
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
ATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATC
TCTCTGAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
TAAGGAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGAATGAAGATAGCAAATCTTATCT
CCCTAAAGTTGCAGTGGAGCAG
Found at i:25428771 original size:19 final size:19
Alignment explanation
Indices: 25428747--25428861 Score: 149
Period size: 19 Copynumber: 5.8 Consensus size: 19
25428737 AATTTTTTAG
25428747 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
25428766 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
25428785 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
25428806 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
25428825 GATATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
25428846 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
25428862 ATATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
19 49 0.60
21 33 0.40
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25428851 original size:59 final size:57
Alignment explanation
Indices: 25428747--25428868 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 57
25428737 AATTTTTTAG
* *
25428747 GATATGCAATCTTAGATATGATATGCAATCCAAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATATTAGATATGATATACAATCCAAGATATGA-ATATGCAATCTTAGA-AT
* **
25428806 GATATGCAATATTAGATATGATATATATAATCTTAGATATG-ATATGCAATCTTAGAAT
1 GATATGCAATATTAGATATG--ATATACAATCCAAGATATGAATATGCAATCTTAGAAT
25428864 -ATATG
1 GATATG
25428869 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.09
58 2 0.04
59 34 0.61
61 15 0.27
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (57 bp):
GATATGCAATATTAGATATGATATACAATCCAAGATATGAATATGCAATCTTAGAAT
Found at i:25428861 original size:40 final size:40
Alignment explanation
Indices: 25428748--25428861 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
25428738 ATTTTTTAGG
* **
25428748 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATACAATCTTAGATATGATATGCAATCTTAGATATGAT
* *
25428788 ATATGCAATCTTAGATATGATATGCAATATTAGATATGAT
1 ATATACAATCTTAGATATGATATGCAATCTTAGATATGAT
*
25428828 ATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATACAATCTTAGATATGATATGCAATCTTAGA
25428862 ATATATGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (40 bp):
ATATACAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:25433774 original size:19 final size:19
Alignment explanation
Indices: 25433750--25433786 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25433740 ATAGATATAT
*
25433750 TTTTATAGTTTATAATTTC
1 TTTTATAGTTTAAAATTTC
*
25433769 TTTTATATTTTAAAATTT
1 TTTTATAGTTTAAAATTT
25433787 TATATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAGTTTAAAATTTC
Found at i:25435087 original size:25 final size:28
Alignment explanation
Indices: 25435059--25435117 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
25435049 TGTACATATA
*
25435059 AAATATATATAGATT-T-AAAA-TAATT
1 AAATATATATACATTATCAAAATTAATT
*
25435084 AAATAATATCTACATTATCAAAATTAATT
1 AAAT-ATATATACATTATCAAAATTAATT
25435113 AAATA
1 AAATA
25435118 AAAAAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 9 0.32
27 1 0.04
28 5 0.18
29 9 0.32
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (28 bp):
AAATATATATACATTATCAAAATTAATT
Found at i:25435213 original size:27 final size:26
Alignment explanation
Indices: 25435173--25435229 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
25435163 AAAAAAATAT
*
25435173 ATATATGTACATAAAA-AATAAATATAC
1 ATATATATACATAAAATAAT-AAT-TAC
*
25435200 ATATATATAGATAAAATAATAATTAC
1 ATATATATACATAAAATAATAATTAC
25435226 ATAT
1 ATAT
25435230 GAAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 17 0.63
28 3 0.11
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATATATACATAAAATAATAATTAC
Found at i:25435634 original size:12 final size:12
Alignment explanation
Indices: 25435617--25435641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25435607 CTTAAACGGC
25435617 GCCGTTTCAATT
1 GCCGTTTCAATT
25435629 GCCGTTTCAATT
1 GCCGTTTCAATT
25435641 G
1 G
25435642 GCTATTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GCCGTTTCAATT
Found at i:25436909 original size:44 final size:44
Alignment explanation
Indices: 25436713--25437086 Score: 252
Period size: 44 Copynumber: 8.6 Consensus size: 44
25436703 TTCTAATCCA
* * * * * *
25436713 CTCCACTACAACTTTAGGGAGATAGGATTTGTGTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGATTTAATCTG
* * ** *
25436757 CCCCACTGCAATTTCAAGGG-GATAAGA-CT-TGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGATCTGTG-GAT-TT-AATCTG
* * * * *
25436802 CTCCACTGCAATTTCAGGGAGATAAGA-C-CT-GATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGATTTAATCTG
* * * *
25436843 CTCTACAGTAACTTCAGAGAGATAAGATCTGTGGATTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGATTTAATCTG
* * * *
25436887 CTCCACTGCAACTTTAGGGAGATAGGAT-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGATTTAATCTG
* * ***
25436931 CTCCACTGCAACTTCAGGGATATAAGA-C--TAGATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGATTTAATCTG
** * *
25436972 CT-CTTTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGA-TTTAATCTG
* * * *
25437015 CTCCACTGTAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGATTTAATCTG
*
25437059 CTCCACTGTAACTTCAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
25437087 TCGCCATCTT
Statistics
Matches: 256, Mismatches: 56, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
40 20 0.08
41 36 0.14
42 6 0.02
43 15 0.06
44 145 0.57
45 34 0.13
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGATTTAATCTG
Found at i:25437018 original size:128 final size:129
Alignment explanation
Indices: 25436798--25437085 Score: 438
Period size: 128 Copynumber: 2.2 Consensus size: 129
25436788 CTTTCTTGAG
* * *
25436798 TCTGCTCCACTGCAATTTCAGGGAGATAAGACCTGATGTGATCTACTCTACAGTAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACAGCAACTTCAGAGA
* *
25436863 GATAAGATCTGTGGATTTAATCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAA
66 GATAAGATCTGTGGATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA
* * **
25436927 TCTGCTCCACTGCAACTTCAGGGATATAAGA-CTAGATGCGATCTGCTCT-TTGCAACTTCAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCT-GATGCGATCTACTCTACAGCAACTTCAGAG
*
25436990 AGATAAGATCTGT-GATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTA
65 AGATAAGATCTGTGGA-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
25437054 A
129 A
*
25437055 TCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
25437086 TTCGCCATCT
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
127 2 0.01
128 101 0.70
129 42 0.29
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACAGCAACTTCAGAGA
GATAAGATCTGTGGATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA
Found at i:25437580 original size:267 final size:266
Alignment explanation
Indices: 25437102--25437906 Score: 1263
Period size: 267 Copynumber: 3.0 Consensus size: 266
25437092 ATCTTCAGTC
* *
25437102 TTTTTAATTGAAATGTTGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGAAATGTTGAGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACTG
* * * ** *
25437167 CCAAGGAAGTAAGATTCGCCGTTGCGG-CTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGA
66 CCAGGGGAGTAAGATTCG-CATTGCGGCCTT-AATCTGCTCCACTGTAATGCCAAAGAGATAGGA
*
25437231 TTCGCTGCCCACAGCTTCAATCCA-CTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATA
129 TTCGCTGCCCACAGCTTCAAT-CAGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATA
* *
25437295 AGATTCGCTGTCGTGGCTTAAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCGCCGTTGCG
193 AGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCGCCGTTGCG
25437360 GTTTCAATA
258 GTTTCAATA
* * *
25437369 TTTTTAATTGTAATGTTGAGGAAACAAGATTCACCGTTGTAGCTTCAATCTATTCCACTACACTG
1 TTTTTAATTGAAATGTTGAGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACTG
*
25437434 CCAGGGGAGTAAGATTCGTCATTGAGGCCTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
66 CCAGGGGAGTAAGATTCG-CATTGCGGCCTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
* *
25437499 TCGCTACCCATAGCTTCAATCAGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAG
130 TCGCTGCCCACAGCTTCAATCAGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAG
* *
25437564 ATTCGCCGTTGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCTCCGTTGCGGT
195 ATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGGT
*
25437629 TTCAATC
260 TTCAATA
* * *
25437636 TTTTTAATTGCAATGCTGAGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACTG
1 TTTTTAATTGAAATGTTGAGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACTG
*
25437701 CCAGGGGAGTAAAATTCGCAGTTGCGGCCTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
66 CCAGGGGAGTAAGATTCGCA-TTGCGGCCTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
* *
25437766 TCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAATGCCAGGGAGATAAG
130 TCGCTGCCCACAGCTTCAATCAGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAG
* * * * * *
25437831 ATTCACCGTCGTGGCTTCAATCTGCTCCGCTATAACGCCAAGGAAATAAGATTCGCCGTTGTGGC
195 ATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGGT
25437896 TTCAATA
260 TTCAATA
25437903 TTTT
1 TTTT
25437907 CCATTGCTAC
Statistics
Matches: 494, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
266 4 0.01
267 487 0.99
268 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (266 bp):
TTTTTAATTGAAATGTTGAGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACTG
CCAGGGGAGTAAGATTCGCATTGCGGCCTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGATT
CGCTGCCCACAGCTTCAATCAGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGA
TTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGGTT
TCAATA
Found at i:25437751 original size:100 final size:100
Alignment explanation
Indices: 25437561--25437751 Score: 215
Period size: 100 Copynumber: 1.9 Consensus size: 100
25437551 CCAGGGAGAT
* * * * * *
25437561 AAGATTCGCCGTTGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCTCCGTTGC
1 AAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAAATTCGCAGTTGC
* ** * *
25437626 GGTTTCAATCTTTTTAATTGCAATGCTGAGGAAAC
66 GGCTTCAATCTGCTCAACTGCAATGCTGAGGAAAC
* *
25437661 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC-ACTGCCAGGGGAGTAAAATTCGCAGTTG
1 AAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAAC-GCCAGGGAAGTAAAATTCGCAGTTG
* *
25437725 CGGCCTT-AATCTGCTCCACTGTAATGC
65 CGG-CTTCAATCTGCTCAACTGCAATGC
25437752 CAAAGAGATA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
99 2 0.03
100 70 0.95
101 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (100 bp):
AAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAAATTCGCAGTTGC
GGCTTCAATCTGCTCAACTGCAATGCTGAGGAAAC
Found at i:25438041 original size:88 final size:88
Alignment explanation
Indices: 25437936--25438107 Score: 281
Period size: 88 Copynumber: 2.0 Consensus size: 88
25437926 ATAAGACTGA
* * *
25437936 TATCTTCGACCTACTTCACTGCCAATATAGGAAGGCAAGATCTGCTATTTTCAAACTACTCCACT
1 TATCTGCGACCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAACTACTCCACT
25438001 ACTGCTCAGGGAGACAAGGCTGG
66 ACTGCTCAGGGAGACAAGGCTGG
* *
25438024 TATCTGCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT
1 TATCTGCGACCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAACTACTCCACT
* *
25438089 GCTGTTCAGGGAGACAAGG
66 ACTGCTCAGGGAGACAAGG
25438108 TTGGAGTTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (88 bp):
TATCTGCGACCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAACTACTCCACT
ACTGCTCAGGGAGACAAGGCTGG
Found at i:25438089 original size:45 final size:45
Alignment explanation
Indices: 25437944--25438090 Score: 136
Period size: 45 Copynumber: 3.3 Consensus size: 45
25437934 GATATCTTCG
* * *
25437944 ACCTACTTCACTGCCAATATAGGAAGGCAAGATCTGCTATTTTCA
1 ACCTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
* * *** * * * * * *
25437989 AACTACTCCACTACTGCT-CAGGGAGACAAG-GCTGGTATCTGCG
1 ACCTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
* *
25438032 ATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
1 ACCTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
25438077 ACCTACTCCACTGC
1 ACCTACTCCACTGC
25438091 TGTTCAGGGA
Statistics
Matches: 72, Mismatches: 28, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 20 0.28
44 20 0.28
45 32 0.44
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (45 bp):
ACCTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
Found at i:25438104 original size:44 final size:44
Alignment explanation
Indices: 25437971--25438106 Score: 130
Period size: 44 Copynumber: 3.1 Consensus size: 44
25437961 TATAGGAAGG
* *
25437971 CAAGATCTGCTATTTTCAAACTACTCCACTACTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAAACTACTCCACTGCTGTTCAGGGAGA
* * * * * * * ** * *
25438015 CAAG-GCTGGTATCTGCGATCTACTTCACTGCCAATACAGGAAGA
1 CAAGATCTGCTATTTTCAAACTACTCCACTG-CTGTTCAGGGAGA
*
25438059 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
1 CAAGATCTGCTATTTTCAAACTACTCCACTGCTGTTCAGGGAGA
25438103 CAAG
1 CAAG
25438107 GTTGGAGTTT
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 18 0.27
44 29 0.44
45 19 0.29
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
CAAGATCTGCTATTTTCAAACTACTCCACTGCTGTTCAGGGAGA
Found at i:25439110 original size:35 final size:35
Alignment explanation
Indices: 25439064--25439134 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25439054 AAACTAGGTG
*
25439064 CCCCAGATATCGCAGGTTGAACTTCTCTGTACAAA
1 CCCCAGATATCGCAGCTTGAACTTCTCTGTACAAA
25439099 CCCCAGATATCGCAGCTTGAACTTCTCTGTACAAA
1 CCCCAGATATCGCAGCTTGAACTTCTCTGTACAAA
25439134 C
1 C
25439135 TTCCTAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (35 bp):
CCCCAGATATCGCAGCTTGAACTTCTCTGTACAAA
Found at i:25439419 original size:6 final size:6
Alignment explanation
Indices: 25439404--25439442 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
25439394 CATTTTCCTC
* *
25439404 TTCTTCT TTCTTT TTCTTT TTTTTT TTCTTT TCCTTT TT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
25439443 TCCATCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:25440308 original size:25 final size:25
Alignment explanation
Indices: 25440255--25440320 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
25440245 AAGAAGATCC
* *
25440255 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
25440280 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
25440305 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
25440321 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:25449664 original size:26 final size:25
Alignment explanation
Indices: 25449634--25449701 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
25449624 CACACTAGTA
25449634 CATA-AACAAGAAGCTC-TTGTGAGC
1 CATATAACAAGAAGCTCATT-TGAGC
**
25449658 CATATAACGGGAAGCTCATTTGAGC
1 CATATAACAAGAAGCTCATTTGAGC
* **
25449683 CATGTAACGGGAAGCTCAT
1 CATATAACAAGAAGCTCAT
25449702 ACGAGCCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 4 0.10
25 33 0.85
26 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
CATATAACAAGAAGCTCATTTGAGC
Found at i:25449671 original size:25 final size:25
Alignment explanation
Indices: 25449643--25449701 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
25449633 ACATAAACAA
25449643 GAAGCTC-TTGTGAGCCATATAACGG
1 GAAGCTCATT-TGAGCCATATAACGG
*
25449668 GAAGCTCATTTGAGCCATGTAACGG
1 GAAGCTCATTTGAGCCATATAACGG
25449693 GAAGCTCAT
1 GAAGCTCAT
25449702 ACGAGCCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (25 bp):
GAAGCTCATTTGAGCCATATAACGG
Found at i:25449707 original size:25 final size:25
Alignment explanation
Indices: 25449654--25449713 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
25449644 AAGCTCTTGT
**
25449654 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGGGAAGCTCATAC
*
25449679 GAGCCATGTAACGGGAAGCTCATAC
1 GAGCCATATAACGGGAAGCTCATAC
25449704 GAGCCA-ATAA
1 GAGCCATATAA
25449714 TAGGAAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAC
Found at i:25449782 original size:26 final size:26
Alignment explanation
Indices: 25449752--25449807 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
25449742 GAATCTCTAG
25449752 AGAGCCATTAATCGAGAAGCTCACAA
1 AGAGCCATTAATCGAGAAGCTCACAA
* *
25449778 AGAGCCTTTAATCGAGAAGCTCACGA
1 AGAGCCATTAATCGAGAAGCTCACAA
25449804 AGAG
1 AGAG
25449808 TCATATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAGCTCACAA
Found at i:25453709 original size:51 final size:51
Alignment explanation
Indices: 25453522--25453709 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 51
25453512 CATGAGAACT
* * * * * *
25453522 CATGTGTAGTACTATGTGTAGGCTACAATGAGTA-TAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-GGATAGCTATGGTCA
* * *
25453573 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGCTTTCGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAGCTATGGTCA
** * * * *
25453624 TGTGTGTAGTATTATGTGCAGGCTACTACGTGTACTGGAT-GGTAGTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAGCTA-TGGTCA
* *
25453675 CATGTTTAGTACTAAGTGTAGGCTACTATGTGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
25453710 CAGATAGCAT
Statistics
Matches: 110, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
50 2 0.02
51 108 0.98
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAGCTATGGTCA
Found at i:25462180 original size:6 final size:6
Alignment explanation
Indices: 25462169--25462194 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25462159 ATATCACATA
25462169 TCTCTT TCTCTT TCTCTT TCTCTT TC
1 TCTCTT TCTCTT TCTCTT TCTCTT TC
25462195 ACTCATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (6 bp):
TCTCTT
Found at i:25466492 original size:15 final size:16
Alignment explanation
Indices: 25466472--25466515 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
25466462 AATAAAAAGG
*
25466472 ATGAAAAGGTTTTC-A
1 ATGAAAAGGTTATCGA
25466487 ATGAAAAGGTTATCGA
1 ATGAAAAGGTTATCGA
*
25466503 TTGAAAAGGTTAT
1 ATGAAAAGGTTAT
25466516 TGATTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (16 bp):
ATGAAAAGGTTATCGA
Found at i:25466509 original size:16 final size:16
Alignment explanation
Indices: 25466473--25466531 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
25466463 ATAAAAAGGA
* *
25466473 TGAAAAGGTTTTC-AA
1 TGAAAAGGTTATCGAT
25466488 TGAAAAGGTTATCGAT
1 TGAAAAGGTTATCGAT
*
25466504 TGAAAAGGTTATTGAT
1 TGAAAAGGTTATCGAT
25466520 T-AGAAAGGTTAT
1 TGA-AAAGGTTAT
25466532 ACTAATAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.33
16 26 0.67
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (16 bp):
TGAAAAGGTTATCGAT
Found at i:25481397 original size:61 final size:62
Alignment explanation
Indices: 25481262--25481412 Score: 164
Period size: 61 Copynumber: 2.5 Consensus size: 62
25481252 ATTTACACAT
* * *
25481262 TCTATCAATTT-GATCCTAAATATAAAAAAATTCAATAAATTTAGCCCTCAATATTTAAAAAA
1 TCTATCAATTTAG-TTCTAATTATAAAAAAATTCAATAAATTTAACCCTCAATATTTAAAAAA
** * * * * *
25481324 AATTTCATTTTAGTTCTAATTGTAAAAAAATT-AATAAATTTAACTCTCAATATTTATAAAA
1 TCTATCAATTTAGTTCTAATTATAAAAAAATTCAATAAATTTAACCCTCAATATTTAAAAAA
*
25481385 TCTATCAATTTAG-TCTTAATTCTAAAAA
1 TCTATCAATTTAGTTC-TAATTATAAAAA
25481413 TTAAAAATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
60 2 0.03
61 46 0.64
62 23 0.32
63 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (62 bp):
TCTATCAATTTAGTTCTAATTATAAAAAAATTCAATAAATTTAACCCTCAATATTTAAAAAA
Found at i:25481849 original size:23 final size:22
Alignment explanation
Indices: 25481814--25481857 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
25481804 ACTAAATTCA
*
25481814 TAAATTTTGTAAATATTGAAAAT
1 TAAATTTTGTAAA-ATTAAAAAT
25481837 TAAATTTAT-TAAAATTAAAAA
1 TAAATTT-TGTAAAATTAAAAA
25481858 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
TAAATTTTGTAAAATTAAAAAT
Found at i:25482425 original size:211 final size:211
Alignment explanation
Indices: 25482061--25482474 Score: 810
Period size: 211 Copynumber: 2.0 Consensus size: 211
25482051 AAAATAGAAC
* *
25482061 AAAAAGAATAGTTGTGTAAACATTTTTGTAGTTTAGCCATAAAAAATAATTTTTATCATGTCCAC
1 AAAAAGAATAGTTGTGTAAACATTTTTGTAGCTTAGCCATAAAAAATAATTTTTAACATGTCCAC
25482126 ATCATCATTTAACAGAAAATTTAACAGAAAGACTAATTTGCATGTTTAAAAATATATAAGGGCTA
66 ATCATCATTTAACAGAAAATTTAACAGAAAGACTAATTTGCATGTTTAAAAATATATAAGGGCTA
25482191 ATTTGTCCATTTTTTTTCAATTGCGGGACCAAACTGCAATCCACCCCTAAGTAAGGGGCTTCCCT
131 ATTTGTCCATTTTTTTTCAATTGCGGGACCAAACTGCAATCCACCCCTAAGTAAGGGGCTTCCCT
25482256 GGTACTTTAAATTCAA
196 GGTACTTTAAATTCAA
25482272 AAAAAGAATAGTTGTGTAAACATTTTTGTAGCTTAGCCATAAAAAATAATTTTTAACATGTCCAC
1 AAAAAGAATAGTTGTGTAAACATTTTTGTAGCTTAGCCATAAAAAATAATTTTTAACATGTCCAC
25482337 ATCATCATTTAACAGAAAATTTAACAGAAAGACTAATTTGCATGTTTAAAAATATATAAGGGCTA
66 ATCATCATTTAACAGAAAATTTAACAGAAAGACTAATTTGCATGTTTAAAAATATATAAGGGCTA
25482402 ATTTGTCCATTTTTTTTCAATTGCGGGACCAAACTGCAATCCACCCCTAAGTAAGGGGCTTCCCT
131 ATTTGTCCATTTTTTTTCAATTGCGGGACCAAACTGCAATCCACCCCTAAGTAAGGGGCTTCCCT
25482467 GGTACTTT
196 GGTACTTT
25482475 TACCAACCAA
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 201 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (211 bp):
AAAAAGAATAGTTGTGTAAACATTTTTGTAGCTTAGCCATAAAAAATAATTTTTAACATGTCCAC
ATCATCATTTAACAGAAAATTTAACAGAAAGACTAATTTGCATGTTTAAAAATATATAAGGGCTA
ATTTGTCCATTTTTTTTCAATTGCGGGACCAAACTGCAATCCACCCCTAAGTAAGGGGCTTCCCT
GGTACTTTAAATTCAA
Found at i:25485633 original size:5 final size:5
Alignment explanation
Indices: 25485623--25485653 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
25485613 TAATGTATTC
25485623 CATAT CATAT CATAT CATAT CATAT C-TAT CA
1 CATAT CATAT CATAT CATAT CATAT CATAT CA
25485654 CATATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:25488196 original size:25 final size:25
Alignment explanation
Indices: 25488122--25488197 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
25488112 TTCTCATTCT
* *
25488122 AATTTTACCCCAGTAAATTTTTTGAC
1 AATTTTACCCCGGTAAA-ATTTTGAC
* *
25488148 AATTTTACCTCCGATAAAATTTTGAT
1 AATTTTACC-CCGGTAAAATTTTGAC
*
25488174 GATTTTACCCCGGTAAAATTTTGA
1 AATTTTACCCCGGTAAAATTTTGA
25488198 GAAAATTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
25 14 0.33
26 23 0.53
27 6 0.14
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (25 bp):
AATTTTACCCCGGTAAAATTTTGAC
Found at i:25516345 original size:50 final size:50
Alignment explanation
Indices: 25516288--25516389 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
25516278 TGGAAAGGTT
25516288 AAATTGTGTAAATTTGATTATATACGTGCTAAAATTGGCTTAAATGAATA
1 AAATTGTGTAAATTTGATTATATACGTGCTAAAATTGGCTTAAATGAATA
25516338 AAATTGTGTAAATTTGATTATATACGTGCTAAAATTGGCTTAAATGAATA
1 AAATTGTGTAAATTTGATTATATACGTGCTAAAATTGGCTTAAATGAATA
25516388 AA
1 AA
25516390 CTTACTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (50 bp):
AAATTGTGTAAATTTGATTATATACGTGCTAAAATTGGCTTAAATGAATA
Found at i:25518366 original size:17 final size:18
Alignment explanation
Indices: 25518344--25518379 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25518334 CCTCCAGCCA
25518344 ATGTTT-ATAGATGAAAC
1 ATGTTTGATAGATGAAAC
*
25518361 ATGTTTGATAGATTAAAC
1 ATGTTTGATAGATGAAAC
25518379 A
1 A
25518380 ATAAGAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (18 bp):
ATGTTTGATAGATGAAAC
Found at i:25521834 original size:20 final size:20
Alignment explanation
Indices: 25521800--25521906 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
25521790 GCATCATAGA
25521800 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* *
25521821 TGCAAACAGAGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
*
25521841 TGCAAACAGGGGCACCGTAG
1 TGCAAACAGGGGCACCGAAG
** * * * *
25521861 TGGGAATAGAGACACCAAAG
1 TGCAAACAGGGGCACCGAAG
* *
25521881 TGTATACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
25521901 TGCAAA
1 TGCAAA
25521907 TCCCATACAA
Statistics
Matches: 63, Mismatches: 21, Indels: 5
0.71 0.24 0.06
Matches are distributed among these distances:
19 3 0.05
20 54 0.86
21 6 0.10
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:25521849 original size:40 final size:40
Alignment explanation
Indices: 25521800--25521906 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
25521790 GCATCATAGA
*
25521800 TGCATAACAGGGGCACCGAAGTGCAAACAGAGGCA-CAAATG
1 TGCA-AACAGGGGCACCGAAGTGCAAACAGAGACACCAAA-G
* ** *
25521841 TGCAAACAGGGGCACCGTAGTGGGAATAGAGACACCAAAG
1 TGCAAACAGGGGCACCGAAGTGCAAACAGAGACACCAAAG
* *
25521881 TGTATACAGGGGCACCGAAGTGCAAA
1 TGCAAACAGGGGCACCGAAGTGCAAA
25521907 TCCCATACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 47 0.85
41 8 0.15
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.11
Consensus pattern (40 bp):
TGCAAACAGGGGCACCGAAGTGCAAACAGAGACACCAAAG
Found at i:25530103 original size:16 final size:16
Alignment explanation
Indices: 25530091--25530123 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25530081 TAAGAGAGTT
25530091 GAGAGAATTGAGAGAA
1 GAGAGAATTGAGAGAA
25530107 GAGAGAA-TGATGAGAA
1 GAGAGAATTGA-GAGAA
25530123 G
1 G
25530124 TGAGGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.12
Consensus pattern (16 bp):
GAGAGAATTGAGAGAA
Found at i:25542506 original size:13 final size:13
Alignment explanation
Indices: 25542488--25542512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25542478 TCAAACGACT
25542488 AAATTTTCACACG
1 AAATTTTCACACG
25542501 AAATTTTCACAC
1 AAATTTTCACAC
25542513 ATATAACGTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:25548045 original size:35 final size:35
Alignment explanation
Indices: 25547994--25548063 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
25547984 ACACTCTCGG
*
25547994 GCATATTTGTTTAGTATAACAAATTCCTGCTCATA
1 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
25548029 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
1 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
25548064 CTCTACACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (35 bp):
GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
Found at i:25552762 original size:28 final size:28
Alignment explanation
Indices: 25552699--25552930 Score: 341
Period size: 28 Copynumber: 8.5 Consensus size: 28
25552689 ATATTAAATC
*
25552699 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25552726 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25552754 CGCACACTTAGTGCT-CATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25552781 TGCACACTTAGTGCTATAT-A-CAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25552807 CGCACACTTAGTGC--TATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25552833 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25552861 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25552889 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25552918 CGCACACTTAGTG
1 CGCACACTTAGTG
25552931 TCAATCTCAT
Statistics
Matches: 186, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
24 3 0.02
25 1 0.01
26 39 0.21
27 48 0.26
28 78 0.42
29 17 0.09
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25552840 original size:107 final size:108
Alignment explanation
Indices: 25552699--25552906 Score: 375
Period size: 107 Copynumber: 1.9 Consensus size: 108
25552689 ATATTAAATC
25552699 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGC-ATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
25552764 GTGCT-CATAATCAAACTTGCACACTTAGTGCTATATACAAACT
65 GTGCTACATAATCAAACTTGCACACTTAGTGCTATATACAAACT
*
25552807 CGCACACTTAGTGC-TATAATCAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
25552871 GTGCTACATAATCAAACTTGCACACTTAGTGCTATA
65 GTGCTACATAATCAAACTTGCACACTTAGTGCTATA
25552907 CAATTTAAAC
Statistics
Matches: 97, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
106 7 0.07
107 47 0.48
108 43 0.44
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (108 bp):
CGCACACTCAGTGCATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAG
TGCTACATAATCAAACTTGCACACTTAGTGCTATATACAAACT
Found at i:25552958 original size:107 final size:107
Alignment explanation
Indices: 25552698--25552930 Score: 315
Period size: 107 Copynumber: 2.1 Consensus size: 107
25552688 TATATTAAAT
* * * *
25552698 CCGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACTCGCACACT
1 CCGCACACTTAGTGC--TACAATCAAACTCGCACACTAAATGCTATATAATCAAACTCGCACACT
25552762 TAGTGCTCATAATCAAACTTGCACACTTAGTGCTATATACAAAC
64 TAGTGCTCATAATCAAACTTGCACACTTAGTGCTATATACAAAC
* * * *
25552806 TCGCACACTTAGTGCTATAATCAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CCGCACACTTAGTGCTACAATCAAACTCGCACACTAAATGCTATATAATCAAACTCGCACACTTA
**
25552871 GTGCTACATAATCAAACTTGCACACTTAGTGCTATACAATTTAAAC
66 GTGCT-CATAATCAAACTTGCACACTTAGTGCTAT---ATACAAAC
25552917 CCGCACACTTAGTG
1 CCGCACACTTAGTG
25552931 TCAATCTCAT
Statistics
Matches: 115, Mismatches: 5, Indels: 7
0.91 0.04 0.06
Matches are distributed among these distances:
106 7 0.06
107 47 0.41
108 42 0.37
111 19 0.17
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (107 bp):
CCGCACACTTAGTGCTACAATCAAACTCGCACACTAAATGCTATATAATCAAACTCGCACACTTA
GTGCTCATAATCAAACTTGCACACTTAGTGCTATATACAAAC
Found at i:25560721 original size:28 final size:28
Alignment explanation
Indices: 25560658--25560892 Score: 370
Period size: 28 Copynumber: 8.5 Consensus size: 28
25560648 ATATTAAGTC
*
25560658 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25560685 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25560713 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25560741 -GCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25560768 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25560796 CGCACACTTAGTGCTAGATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25560824 CGCACACTTAGTGCTACATAATCAAA--
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
25560850 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25560879 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25560893 CAATCTCATG
Statistics
Matches: 195, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.10
27 52 0.27
28 110 0.56
29 14 0.07
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25560728 original size:55 final size:56
Alignment explanation
Indices: 25560658--25560892 Score: 370
Period size: 55 Copynumber: 4.2 Consensus size: 56
25560648 ATATTAAGTC
* *
25560658 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
25560713 CGCACACTTAGTGCTACATAATCAAACT-GCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* *
25560768 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTAGATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * *
25560824 CGCACACTTAGTGCTACATAATCAAA--CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACT
25560879 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25560893 CAATCTCATG
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
54 19 0.11
55 94 0.56
56 55 0.33
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:25560883 original size:111 final size:110
Alignment explanation
Indices: 25560657--25560892 Score: 402
Period size: 111 Copynumber: 2.1 Consensus size: 110
25560647 TATATTAAGT
* *
25560657 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTT
1 CCGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCTAGATAATCAAACTCGCACACTT
*
25560722 AGTGCTACATAATCAAACTGCACACTTAGTGCTATATAATCAAAC
66 AGTGCTACATAATCAAACTGCACACTTAGTGCTATACAATCAAAC
*
25560767 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTAGATAATCAAACTCGCACACT
1 CCGCACACTTAGTGCTATATAATC-AACTCGCACACTTAGTGCTAGATAATCAAACTCGCACACT
*
25560832 TAGTGCTACATAATCAAAC-GCACACTTAGTGCTATACAATTTAAAC
65 TAGTGCTACATAATCAAACTGCACACTTAGTGCTATACAA-TCAAAC
25560878 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25560893 CAATCTCATG
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
110 41 0.35
111 77 0.65
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (110 bp):
CCGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCTAGATAATCAAACTCGCACACTT
AGTGCTACATAATCAAACTGCACACTTAGTGCTATACAATCAAAC
Found at i:25562279 original size:15 final size:15
Alignment explanation
Indices: 25562259--25562288 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25562249 ACATACTCAT
25562259 GCACACACATAATAA
1 GCACACACATAATAA
25562274 GCACACACATAATAA
1 GCACACACATAATAA
25562289 TTGGCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.07, T:0.13
Consensus pattern (15 bp):
GCACACACATAATAA
Found at i:25565376 original size:20 final size:20
Alignment explanation
Indices: 25565340--25565389 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25565330 ATGATGATCT
* *
25565340 TTACTTTCTTCTTTACTTAC
1 TTACTTACTTGTTTACTTAC
25565360 TCT-CTTACTTGTTTACTTAC
1 T-TACTTACTTGTTTACTTAC
25565380 TTACTTACTT
1 TTACTTACTT
25565390 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (20 bp):
TTACTTACTTGTTTACTTAC
Found at i:25576307 original size:21 final size:20
Alignment explanation
Indices: 25576262--25576307 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
25576252 TTGTTGGAAT
25576262 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
25576281 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
25576302 GGTTGA
1 GGTTGA
25576308 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:25593246 original size:317 final size:317
Alignment explanation
Indices: 25592666--25593305 Score: 1244
Period size: 317 Copynumber: 2.0 Consensus size: 317
25592656 CTAAAGAAAG
* *
25592666 TGTAAGCATAAAGAATGCACCTGAAAGTATGTTTCTGTCTACTATAAGTAACTATTTACATGCAT
1 TGTAGGCATAAAGAATGCACCTGAAAGTATGTTTCTATCTACTATAAGTAACTATTTACATGCAT
25592731 AAACATGCCTGAAAGCACGATGGAGCCTCTGCATGAGTAAATCATTGCATGAGGAGTCTGTGCAT
66 AAACATGCCTGAAAGCACGATGGAGCCTCTGCATGAGTAAATCATTGCATGAGGAGTCTGTGCAT
25592796 AAGTTGCATGAGTTGCATAAGTCTGCATGTTGAGTCTGCTTGTGTCTTTAAGTCCATCAGGATAG
131 AAGTTGCATGAGTTGCATAAGTCTGCATGTTGAGTCTGCTTGTGTCTTTAAGTCCATCAGGATAG
25592861 TAAACACGGATTCTGATATGGAAGTCCATGGCCATGTCATGTGAAGACCATATTGTTGGATCGTT
196 TAAACACGGATTCTGATATGGAAGTCCATGGCCATGTCATGTGAAGACCATATTGTTGGATCGTT
25592926 GGTACACCTCGTAGCACAATAGAAAAGTTATTCCGATGATCATCAACCAAGGACCTA
261 GGTACACCTCGTAGCACAATAGAAAAGTTATTCCGATGATCATCAACCAAGGACCTA
*
25592983 TGTAGGCATAAAGAATGCATCTGAAAGTATGTTTCTATCTACTATAAGTAACTATTTACATGCAT
1 TGTAGGCATAAAGAATGCACCTGAAAGTATGTTTCTATCTACTATAAGTAACTATTTACATGCAT
25593048 AAACATGCCTGAAAGCACGATGGAGCCTCTGCATGAGTAAATCATTGCATGAGGAGTCTGTGCAT
66 AAACATGCCTGAAAGCACGATGGAGCCTCTGCATGAGTAAATCATTGCATGAGGAGTCTGTGCAT
*
25593113 AAGTTGCATGAGTTGCATAAGTCTGCATGTTGAGTCTGCTTGTGTCTTTAAGTCCATCGGGATAG
131 AAGTTGCATGAGTTGCATAAGTCTGCATGTTGAGTCTGCTTGTGTCTTTAAGTCCATCAGGATAG
25593178 TAAACACGGATTCTGATATGGAAGTCCATGGCCATGTCATGTGAAGACCATATTGTTGGATCGTT
196 TAAACACGGATTCTGATATGGAAGTCCATGGCCATGTCATGTGAAGACCATATTGTTGGATCGTT
25593243 GGTACACCTCGTAGCACAATAGAAAAGTTATTCCGATGATCATCAACCAAGGACCTA
261 GGTACACCTCGTAGCACAATAGAAAAGTTATTCCGATGATCATCAACCAAGGACCTA
25593300 TGTAGG
1 TGTAGG
25593306 AGGAATGAAT
Statistics
Matches: 319, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
317 319 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (317 bp):
TGTAGGCATAAAGAATGCACCTGAAAGTATGTTTCTATCTACTATAAGTAACTATTTACATGCAT
AAACATGCCTGAAAGCACGATGGAGCCTCTGCATGAGTAAATCATTGCATGAGGAGTCTGTGCAT
AAGTTGCATGAGTTGCATAAGTCTGCATGTTGAGTCTGCTTGTGTCTTTAAGTCCATCAGGATAG
TAAACACGGATTCTGATATGGAAGTCCATGGCCATGTCATGTGAAGACCATATTGTTGGATCGTT
GGTACACCTCGTAGCACAATAGAAAAGTTATTCCGATGATCATCAACCAAGGACCTA
Found at i:25598949 original size:25 final size:25
Alignment explanation
Indices: 25598889--25598949 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
25598879 AGCTCGTATG
* * *
25598889 AGCATACCAATTTATAGCTCATGAA
1 AGCATACCGATCTATAGCTCAAGAA
*
25598914 AGCATATCGATCTATAGCTCAAGAA
1 AGCATACCGATCTATAGCTCAAGAA
25598939 AGCATACCGAT
1 AGCATACCGAT
25598950 TAACAGCTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (25 bp):
AGCATACCGATCTATAGCTCAAGAA
Found at i:25608681 original size:25 final size:25
Alignment explanation
Indices: 25608647--25608742 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
25608637 TTCATGTACA
25608647 TGTATGCTCATACGAGCTGTGAATC
1 TGTATGCTCATACGAGCTGTGAATC
* *
25608672 TGTATGCTCACT-TGAGCT-TTAGATC
1 TGTATGCTCA-TACGAGCTGTGA-ATC
* * * *
25608697 GGTATGCTC-TCATGAGCTATAAATC
1 TGTATGCTCAT-ACGAGCTGTGAATC
* *
25608722 AGTATGCTCACACGAGCTGTG
1 TGTATGCTCATACGAGCTGTG
25608743 GGTTGGAACG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 50 0.89
26 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (25 bp):
TGTATGCTCATACGAGCTGTGAATC
Found at i:25613811 original size:28 final size:28
Alignment explanation
Indices: 25613771--25613887 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
25613761 TATGCAAATA
*
25613771 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
25613798 ACAGTAACAATGTGGGCCTTATCCGAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
25613826 ACAATAACAATGTGGGCCTTATCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
25613854 ACAATAACAATGTGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
25613882 ACAGTA
1 ACAGTA
25613888 TCGGTACAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 5 0.06
28 76 0.94
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:25614273 original size:27 final size:27
Alignment explanation
Indices: 25614243--25614420 Score: 116
Period size: 27 Copynumber: 6.6 Consensus size: 27
25614233 ATCTCCTAGC
25614243 GGTATAAT-AGTCATTTTACCCTATGAG
1 GGTAT-ATCAGTCATTTTACCCTATGAG
* *
25614270 GGTATTTCGGTCATTTTACCCTATGAG
1 GGTATATCAGTCATTTTACCCTATGAG
* * *
25614297 GGTATTTC-GATTATTTTACCGTATTG-G
1 GGTATATCAG-TCATTTTACCCTA-TGAG
* * *
25614324 GGTATTTTAGTTATTTTACCCTATG-G
1 GGTATATCAGTCATTTTACCCTATGAG
* * *
25614350 AGGTATTTCAGTTATTTTATCCTAT-AGG
1 -GGTATATCAGTCATTTTACCCTATGA-G
* ** *
25614378 GGTATTTTGGTTATTTTACCCTAT-AG
1 GGTATATCAGTCATTTTACCCTATGAG
*
25614404 AGGTATTTCAGTCATTT
1 -GGTATATCAGTCATTT
25614421 ATTGACCTCT
Statistics
Matches: 129, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.05
27 119 0.92
28 4 0.03
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.46
Consensus pattern (27 bp):
GGTATATCAGTCATTTTACCCTATGAG
Found at i:25614301 original size:54 final size:53
Alignment explanation
Indices: 25614250--25614420 Score: 179
Period size: 54 Copynumber: 3.2 Consensus size: 53
25614240 AGCGGTATAA
* * *
25614250 TAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATT
1 TAGTTATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTATGAGGGTATT
* * *
25614303 TCGATTATTTTACCGTATTG-GGGTATTTTAGTTATTTTACCCTATG-GAGGTATT
1 TAG-TTATTTTACCCTA-TGAGGGTATTTTGGTTATTTTACCCTATGAG-GGTATT
*
25614357 TCAGTTATTTTATCCTAT-AGGGGTATTTTGGTTATTTTACCCTAT-AGAGGTATT
1 T-AGTTATTTTACCCTATGA-GGGTATTTTGGTTATTTTACCCTATGAG-GGTATT
*
25614411 TCAGTCATTT
1 T-AGTTATTT
25614421 ATTGACCTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
53 4 0.04
54 93 0.93
55 3 0.03
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (53 bp):
TAGTTATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTATGAGGGTATT
Found at i:25614381 original size:81 final size:81
Alignment explanation
Indices: 25614250--25614420 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
25614240 AGCGGTATAA
*
25614250 TAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATTATTTTA
1 TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTA
* * *
25614315 CCGTATTGGGGTATTT
66 CCCTATAGAGGTATTT
* * * * *
25614331 TAGTTATTTTACCCTATG-GAGGTATTTCAGTTATTTTATCCTAT-AGGGGTATTTTGGTTATTT
1 TAGTCATTTTACCCTATGAG-GGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCGATTATTT
25614394 TACCCTATAGAGGTATTT
64 TACCCTATAGAGGTATTT
*
25614412 CAGTCATTT
1 TAGTCATTT
25614421 ATTGACCTCT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.03
81 75 0.97
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (81 bp):
TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTA
CCCTATAGAGGTATTT
Found at i:25615849 original size:14 final size:14
Alignment explanation
Indices: 25615830--25615856 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25615820 GTCTCCCTAC
25615830 AGTTTCCAGTTTCT
1 AGTTTCCAGTTTCT
25615844 AGTTTCCAGTTTC
1 AGTTTCCAGTTTC
25615857 CTACAGTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
AGTTTCCAGTTTCT
Found at i:25616971 original size:22 final size:22
Alignment explanation
Indices: 25616946--25616998 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
25616936 TGGACATACC
*
25616946 ACCATTAATTTGTAGATAAACT
1 ACCATTAATTTGCAGATAAACT
*
25616968 ACCATTGATTTGCAGATAAACT
1 ACCATTAATTTGCAGATAAACT
* *
25616990 TCCACTAAT
1 ACCATTAAT
25616999 AACACTGATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (22 bp):
ACCATTAATTTGCAGATAAACT
Found at i:25632263 original size:14 final size:14
Alignment explanation
Indices: 25632244--25632270 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25632234 GTAGTCTAGT
25632244 TGAACTGAACCGAG
1 TGAACTGAACCGAG
25632258 TGAACTGAACCGA
1 TGAACTGAACCGA
25632271 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:25642293 original size:13 final size:13
Alignment explanation
Indices: 25642275--25642300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25642265 AGGTAAAGAA
25642275 GATAGGCTATAGC
1 GATAGGCTATAGC
25642288 GATAGGCTATAGC
1 GATAGGCTATAGC
25642301 CAGGGCACAA
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:0.31, T:0.23
Consensus pattern (13 bp):
GATAGGCTATAGC
Found at i:25645236 original size:47 final size:47
Alignment explanation
Indices: 25645170--25645547 Score: 616
Period size: 47 Copynumber: 8.1 Consensus size: 47
25645160 GAAATGATAG
25645170 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
25645217 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
25645264 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
25645311 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
25645358 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25645404 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25645451 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
25645498 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25645544 TAAG
1 TAAG
25645548 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 82 0.26
47 232 0.74
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:25645722 original size:37 final size:37
Alignment explanation
Indices: 25645666--25645744 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25645656 CCGAGCTCTA
* *
25645666 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
25645703 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25645740 AAGAC
1 AAGAC
25645745 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25652706 original size:50 final size:50
Alignment explanation
Indices: 25652593--25652759 Score: 158
Period size: 50 Copynumber: 3.4 Consensus size: 50
25652583 TAAAGAGATG
* **
25652593 CCATGTAAGACCATGTCTGGGAAATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATGAGAACTC
** * * * *
25652643 CCCCGTAAAACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATGAGAACTC
* * * * ** * *
25652693 CTATGTAAGACCATATCTGGCATATGGCATTGGCA-TTACAAG-GAACATC
1 CCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATGAGAAC-TC
25652742 CCATGTAAGACCATGTCT
1 CCATGTAAGACCATGTCT
25652760 AGGACTTCGC
Statistics
Matches: 93, Mismatches: 23, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
48 4 0.04
49 21 0.23
50 68 0.73
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATGAGAACTC
Found at i:25653179 original size:51 final size:51
Alignment explanation
Indices: 25653119--25653220 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
25653109 ACTTTGTTTA
25653119 TTTTCTTTTTATATAGAATTATTAATCAAAGTCGAGGATCCTAAAGACGTC
1 TTTTCTTTTTATATAGAATTATTAATCAAAGTCGAGGATCCTAAAGACGTC
25653170 TTTTCTTTTTATATAGAATTATTAATCAAAGTCGAGGATCCTAAAGACGTC
1 TTTTCTTTTTATATAGAATTATTAATCAAAGTCGAGGATCCTAAAGACGTC
25653221 GGCGATCATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (51 bp):
TTTTCTTTTTATATAGAATTATTAATCAAAGTCGAGGATCCTAAAGACGTC
Found at i:25660030 original size:50 final size:50
Alignment explanation
Indices: 25659966--25660087 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
25659956 AGATCCCATA
* * * * ** *
25659966 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCACG
* * *
25660016 TAAGACCATATCTGGGACATGGCATGGGCACCGATATAAGAACTCCTATG
1 TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCACG
*
25660066 TAAGACCATATCTGGGATATGG
1 TAAGACCATATCTGGGACATGG
25660088 TATTGGCAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCACG
Found at i:25661703 original size:19 final size:21
Alignment explanation
Indices: 25661679--25661717 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
25661669 ATTCAAACCC
25661679 CAAGATT-AAACA-ATAACAG
1 CAAGATTGAAACAGATAACAG
25661698 CAAGATTGAAACAGATAACA
1 CAAGATTGAAACAGATAACA
25661718 TTTAACGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (21 bp):
CAAGATTGAAACAGATAACAG
Found at i:25671496 original size:48 final size:49
Alignment explanation
Indices: 25671444--25671547 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
25671434 AATTCATCAC
* *
25671444 TTTCATAA-ACATAAGTATACTTCCA-TTG-AAGCTTACCATTTCAATCCT
1 TTTCATAATACATAA-TATACTT-CATTTGAAAACTTACCATTCCAATCCT
* **
25671492 TTTCATAATTACATAATATAGTTCATTTGAAAACTTACCATTCCTTTCCT
1 TTTCATAA-TACATAATATACTTCATTTGAAAACTTACCATTCCAATCCT
25671542 TTTCAT
1 TTTCAT
25671548 GCCCATTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 10 0.21
49 9 0.19
50 28 0.60
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (49 bp):
TTTCATAATACATAATATACTTCATTTGAAAACTTACCATTCCAATCCT
Found at i:25685853 original size:41 final size:40
Alignment explanation
Indices: 25685730--25685861 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 40
25685720 GGGTACCCAA
* * *
25685730 GTGC-ATTCAGGAGTACTGAAGTATAAACAGGGGCACGCAT
1 GTGCAATTCAGGGGTAC-GAAGTACAAACAGGGGCACGTAT
* * * * *
25685770 GTGCAATTTAGGGGTACCAACGTACAGATAGGGGAACGTAT
1 GTGCAATTCAGGGGTACGAA-GTACAAACAGGGGCACGTAT
**
25685811 GTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCATATAT
1 GTGCAATTCAGGGGTA-CGAAGTACAAACAGGGGCACGTAT
*
25685852 GTGTAATTCA
1 GTGCAATTCA
25685862 AAAATATTCT
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 6 0.08
41 64 0.88
42 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (40 bp):
GTGCAATTCAGGGGTACGAAGTACAAACAGGGGCACGTAT
Found at i:25689204 original size:20 final size:20
Alignment explanation
Indices: 25689179--25689218 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25689169 ATATATCCCA
25689179 TTTCTAGCTTTCATGAAGGG
1 TTTCTAGCTTTCATGAAGGG
25689199 TTTCTAGCTTTCATGAAGGG
1 TTTCTAGCTTTCATGAAGGG
25689219 GATAGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCTAGCTTTCATGAAGGG
Found at i:25692444 original size:20 final size:20
Alignment explanation
Indices: 25692419--25692465 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
25692409 AAGCTTATGC
*
25692419 TAAGTAAATGAAATGGAAAT
1 TAAGTAAATGAAATGGAAAG
*
25692439 TAAGTAAATGAATTGGAAAG
1 TAAGTAAATGAAATGGAAAG
25692459 TAAGTAA
1 TAAGTAA
25692466 GAATGGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:25694200 original size:24 final size:24
Alignment explanation
Indices: 25694169--25694224 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
25694159 TAAAGGAAAC
* *
25694169 ACAGAATACGCCATAAAGGCATTT
1 ACAGAATAAGCCATAAAGGAATTT
*
25694193 ACAGAATAAGCCGTAAAGGAATTT
1 ACAGAATAAGCCATAAAGGAATTT
*
25694217 ATAGAATA
1 ACAGAATA
25694225 TGCACAAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (24 bp):
ACAGAATAAGCCATAAAGGAATTT
Found at i:25695522 original size:22 final size:23
Alignment explanation
Indices: 25695495--25695539 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
25695485 CAAAAGAAAC
25695495 TGAAATAG-CATT-AAGAAAAGAT
1 TGAAAT-GTCATTAAAGAAAAGAT
25695517 TGAAATGTCATTACAAGAAAAGA
1 TGAAATGTCATTA-AAGAAAAGA
25695540 AAATGACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.05
22 10 0.50
24 9 0.45
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.22
Consensus pattern (23 bp):
TGAAATGTCATTAAAGAAAAGAT
Found at i:25698044 original size:21 final size:22
Alignment explanation
Indices: 25698020--25698062 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25698010 GAAGAATGTA
* *
25698020 TATAAAA-CGATCCTATAAATT
1 TATAAAAGCAATCCTAAAAATT
25698041 TATAAAAGCAATCCTAAAAATT
1 TATAAAAGCAATCCTAAAAATT
25698063 CTAAAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (22 bp):
TATAAAAGCAATCCTAAAAATT
Found at i:25698079 original size:21 final size:23
Alignment explanation
Indices: 25698055--25698098 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25698045 AAAGCAATCC
*
25698055 TAAAAAT-TCTAAA-ATGTATTA
1 TAAAAATATATAAACATGTATTA
25698076 TAAAAATATATAAACATGTATTA
1 TAAAAATATATAAACATGTATTA
25698099 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
TAAAAATATATAAACATGTATTA
Found at i:25700648 original size:21 final size:21
Alignment explanation
Indices: 25700624--25700663 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25700614 ATTCCAAAGA
* *
25700624 TAACTCATTAGAAGTATATTG
1 TAACTCACTAAAAGTATATTG
25700645 TAACTCACTAAAAGTATAT
1 TAACTCACTAAAAGTATAT
25700664 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
TAACTCACTAAAAGTATATTG
Found at i:25705730 original size:31 final size:30
Alignment explanation
Indices: 25705695--25705755 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
25705685 TCCACAGAAG
25705695 TAGTCCATTGGGACAGTAAACACAAGATAGA
1 TAGTCCATTGGGACAGTAAACA-AAGATAGA
**
25705726 TAGTCTGTTGGGACAGTAAACAAAGATAGA
1 TAGTCCATTGGGACAGTAAACAAAGATAGA
25705756 GTCCGCCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (30 bp):
TAGTCCATTGGGACAGTAAACAAAGATAGA
Found at i:25705786 original size:28 final size:28
Alignment explanation
Indices: 25705736--25705796 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
25705726 TAGTCTGTTG
*
25705736 GGACAGTAAACAAAGATAGAGTCCGCCA
1 GGACAGTAAACAAAGATAGAGTCCACCA
**
25705764 GGACAGTAAACACGGAGTA-AGTCCACCA
1 GGACAGTAAACAAAGA-TAGAGTCCACCA
25705792 GGACA
1 GGACA
25705797 AGTGAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.41, C:0.23, G:0.26, T:0.10
Consensus pattern (28 bp):
GGACAGTAAACAAAGATAGAGTCCACCA
Found at i:25711158 original size:18 final size:18
Alignment explanation
Indices: 25711135--25711172 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25711125 TATGCTAGCA
25711135 AAACTCTTACAGAAGCTC
1 AAACTCTTACAGAAGCTC
*
25711153 AAACTCTTATAGAAGCTC
1 AAACTCTTACAGAAGCTC
25711171 AA
1 AA
25711173 CTCAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (18 bp):
AAACTCTTACAGAAGCTC
Found at i:25713691 original size:18 final size:18
Alignment explanation
Indices: 25713668--25713725 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
25713658 GCTACTATAG
25713668 AAGAGGAAGTTGTTGCAA
1 AAGAGGAAGTTGTTGCAA
25713686 AAGAGGAAG-TGCTTGCTAAA
1 AAGAGGAAGTTG-TTGC--AA
*
25713706 GAAGAAGAAGTTGTTG-AA
1 -AAGAGGAAGTTGTTGCAA
25713724 AA
1 AA
25713726 TGAGAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
20 2 0.06
21 11 0.32
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.31, T:0.21
Consensus pattern (18 bp):
AAGAGGAAGTTGTTGCAA
Found at i:25713693 original size:39 final size:38
Alignment explanation
Indices: 25713650--25713725 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
25713640 GTTGTTGAGA
* *
25713650 AGGAAGTTGC-TACTATAGAAGAGGAAGTTGTTGCAAAAG
1 AGGAAG-TGCTTACTAAAGAAGAAGAAGTTGTTG-AAAAG
*
25713689 AGGAAGTGCTTGCTAAAGAAGAAGAAGTTGTTGAAAA
1 AGGAAGTGCTTACTAAAGAAGAAGAAGTTGTTGAAAA
25713726 TGAGAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (38 bp):
AGGAAGTGCTTACTAAAGAAGAAGAAGTTGTTGAAAAG
Found at i:25715731 original size:142 final size:143
Alignment explanation
Indices: 25715547--25715832 Score: 556
Period size: 142 Copynumber: 2.0 Consensus size: 143
25715537 TTTTTCGTCT
25715547 TTTGTGCAAATATGTCGAAAATAACCAAAATTCATCAAAATTAATTATAAAATTAACTAAAATTC
1 TTTGTGCAAATATGTCGAAAATAACCAAAATTCATCAAAATTAATTATAAAATTAACTAAAATTC
25715612 AACATGTTCATATTTTAAGTGCACTTTAATTA-TTTTTAAAAATTAATTATTTTTCGACAAGAAT
66 AACATGTTCATATTTTAAGTGCACTTTAATTATTTTTTAAAAATTAATTATTTTTCGACAAGAAT
25715676 TTTATCAAAACTG
131 TTTATCAAAACTG
*
25715689 TTTGTGCAAATCTGTCGAAAATAACCAAAATTCATCAAAATTAATTATAAAATTAACTAAAATTC
1 TTTGTGCAAATATGTCGAAAATAACCAAAATTCATCAAAATTAATTATAAAATTAACTAAAATTC
25715754 AACATGTTCATATTTTAAGTGCACTTTAATTATTTTTTAAAAATTAATTATTTTTCGACAAGAAT
66 AACATGTTCATATTTTAAGTGCACTTTAATTATTTTTTAAAAATTAATTATTTTTCGACAAGAAT
25715819 TTTATCAAAACTG
131 TTTATCAAAACTG
25715832 T
1 T
25715833 ATGATTTTAA
Statistics
Matches: 142, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
142 96 0.68
143 46 0.32
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (143 bp):
TTTGTGCAAATATGTCGAAAATAACCAAAATTCATCAAAATTAATTATAAAATTAACTAAAATTC
AACATGTTCATATTTTAAGTGCACTTTAATTATTTTTTAAAAATTAATTATTTTTCGACAAGAAT
TTTATCAAAACTG
Found at i:25721489 original size:50 final size:50
Alignment explanation
Indices: 25721379--25721657 Score: 346
Period size: 50 Copynumber: 5.5 Consensus size: 50
25721369 ACATTAAGAG
* * *
25721379 GATGAGA--TCCCATGTAACACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA
25721430 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* *
25721483 GATGAGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCGTTGGCATCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
25721533 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * *
25721583 GATAAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** *
25721633 TATGAGAACTCCTATGTAAGACCAT
1 GATGAGAGGTCCCATGTAAGACCAT
25721658 ATATAGGGTA
Statistics
Matches: 202, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
50 156 0.77
51 1 0.00
53 3 0.01
54 6 0.03
55 1 0.00
56 35 0.17
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:25721979 original size:20 final size:20
Alignment explanation
Indices: 25721941--25721979 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25721931 TAAGCAAGCA
*
25721941 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
25721961 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
25721980 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:25724407 original size:19 final size:19
Alignment explanation
Indices: 25724380--25724416 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25724370 TAGTTCATAC
*
25724380 TTTCTATTCACATTTTCAT
1 TTTCAATTCACATTTTCAT
25724399 TTTCAATTCACATTTTCA
1 TTTCAATTCACATTTTCA
25724417 AATTATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCAATTCACATTTTCAT
Found at i:25724426 original size:19 final size:20
Alignment explanation
Indices: 25724384--25724426 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
25724374 TCATACTTTC
**
25724384 TATTCACATTTTCATTTTCA
1 TATTCACATTTTCAAATTCA
25724404 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
25724422 TATTC
1 TATTC
25724427 CACTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:25724651 original size:51 final size:50
Alignment explanation
Indices: 25724555--25724729 Score: 160
Period size: 51 Copynumber: 3.5 Consensus size: 50
25724545 GTATTCGGTT
* **
25724555 CACATAGTACTACACATGTGA-CCATTTCCA-TCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGATCCA--AGCATTCCGATACAC-TAGTAGCCTG
* * * *
25724606 CACATAGTACTACACACGTGATCGAAGCTATTCGGTATGCA-TAGTAGCCTA
1 CACATAGTACTACACACGTGATCCAAGC-ATTCCG-ATACACTAGTAGCCTG
* * * *
25724657 CACATAGTACTACACATGCGA-CCCATCATTCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGATCCAAGCATTCCGATACAC-TAGTAGCCTG
*
25724707 CACATAGGACTACACACGTGATC
1 CACATAGTACTACACACGTGATC
25724730 ATCACTTTCA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
48 4 0.04
49 5 0.05
50 31 0.31
51 50 0.51
52 5 0.05
53 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CACATAGTACTACACACGTGATCCAAGCATTCCGATACACTAGTAGCCTG
Found at i:25728794 original size:24 final size:25
Alignment explanation
Indices: 25728749--25728801 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
25728739 TTTTCTCAAA
*
25728749 AATTTAATTAATATAAATATTA-AT
1 AATTTAATAAATATAAATATTAGAT
*
25728773 AATTTAATAAAT-TGAATAATTAGAT
1 AATTTAATAAATATAAAT-ATTAGAT
25728798 AATT
1 AATT
25728802 AAATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTTAATAAATATAAATATTAGAT
Found at i:25729385 original size:14 final size:14
Alignment explanation
Indices: 25729366--25729410 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
25729356 AAAGCTGATA
25729366 ATAATTAATATATT
1 ATAATTAATATATT
*
25729380 ATAATTGATATAATT
1 ATAATTAATAT-ATT
25729395 ATATATTAATA-ATT
1 ATA-ATTAATATATT
25729409 AT
1 AT
25729411 CATCTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.56
15 6 0.22
16 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATAATTAATATATT
Found at i:25729406 original size:23 final size:24
Alignment explanation
Indices: 25729361--25729408 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
25729351 TAAATAAAGC
25729361 TGATAATAATTAATATATTATAAT
1 TGATAATAATTAATATATTATAAT
25729385 TGAT-ATAATT-ATATATTAATAAT
1 TGATAATAATTAATATATT-ATAAT
25729408 T
1 T
25729409 ATCATCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 12 0.52
24 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TGATAATAATTAATATATTATAAT
Found at i:25729529 original size:30 final size:30
Alignment explanation
Indices: 25729472--25729531 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25729462 GCTTTTTGAA
* *
25729472 AATATTGACAAAAAGAGGCATCTAATTTTT
1 AATATTGACAAAAAGAGGCACCAAATTTTT
*
25729502 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTGACAAAAAGAGGC-ACCAAATTTTT
25729532 TAAAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (30 bp):
AATATTGACAAAAAGAGGCACCAAATTTTT
Found at i:25737585 original size:17 final size:17
Alignment explanation
Indices: 25737563--25737596 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25737553 GATAAGTATA
*
25737563 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
25737580 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
25737597 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:25738526 original size:21 final size:22
Alignment explanation
Indices: 25738502--25738542 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25738492 TATATTTTAG
*
25738502 CATTTT-CAATTTAGTGAATTT
1 CATTTTACAACTTAGTGAATTT
*
25738523 CATTTTATAACTTAGTGAAT
1 CATTTTACAACTTAGTGAAT
25738543 CCTAGCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (22 bp):
CATTTTACAACTTAGTGAATTT
Found at i:25749403 original size:41 final size:40
Alignment explanation
Indices: 25749353--25749711 Score: 387
Period size: 41 Copynumber: 8.6 Consensus size: 40
25749343 GGATCCCGGT
* *
25749353 GGAATCAACACTTGGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
25749394 GGAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
25749436 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * *
25749478 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
* *
25749520 TTGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* *
25749562 GGAATCAGCACATAGCAACCCCTT-TCACCATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTAT-A--ATCAATGATACGG
* *
25749604 TGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * * *
25749646 GGAATCAGCACATAGCAACCCCTTTTTGATCAATGATTCGA
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
*
25749687 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACTTAGCAACCCCTTA
25749712 CATTCAAAGA
Statistics
Matches: 269, Mismatches: 34, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.00
40 12 0.04
41 110 0.41
42 79 0.29
43 58 0.22
44 8 0.03
45 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:25749455 original size:84 final size:84
Alignment explanation
Indices: 25749349--25749670 Score: 572
Period size: 84 Copynumber: 3.8 Consensus size: 84
25749339 CAAAGGATCC
* *
25749349 CGGTGGAATCAACACTTGGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25749414 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
25749433 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25749498 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
25749517 CGGTTGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
25749582 CCTTTCACCATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
25749601 CGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
25749666 CCTTT
66 CCTTT
25749671 TTGATCAATG
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 228 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:25753055 original size:14 final size:14
Alignment explanation
Indices: 25753036--25753063 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25753026 CCAATTTATT
25753036 AATGAAATATTAAA
1 AATGAAATATTAAA
25753050 AATGAAATATTAAA
1 AATGAAATATTAAA
25753064 TTCAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:25756930 original size:27 final size:27
Alignment explanation
Indices: 25756899--25757073 Score: 192
Period size: 27 Copynumber: 6.4 Consensus size: 27
25756889 TAAATTGTAC
25756899 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
25756926 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25756951 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
25756980 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25757008 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25757035 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25757062 AGCACTGAGTGT
1 AGCACTAAGTGT
25757074 AGACTCAATA
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.03
27 96 0.76
28 23 0.18
29 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25757040 original size:82 final size:81
Alignment explanation
Indices: 25756900--25757055 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
25756890 AAATTGTACA
* *
25756900 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
25756965 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
25756981 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
25757044 TGTGCGAGTTGA
63 TGTGCGAATTGA
25757056 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25757067 original size:82 final size:81
Alignment explanation
Indices: 25756896--25757073 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 81
25756886 GATTAAATTG
* *
25756896 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
25756961 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
25756977 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
25757040 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
25757059 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
25757074 AGACTCAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.21
82 60 0.74
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25765086 original size:27 final size:27
Alignment explanation
Indices: 25765055--25765231 Score: 196
Period size: 27 Copynumber: 6.5 Consensus size: 27
25765045 TAAATTGTAC
25765055 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
25765082 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25765107 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
25765136 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25765164 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25765191 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25765218 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
25765232 AGACTCAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25765196 original size:82 final size:81
Alignment explanation
Indices: 25765056--25765211 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
25765046 AAATTGTACA
* *
25765056 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
25765121 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
25765137 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
25765200 TGTGCGAGTTGA
63 TGTGCGAATTGA
25765212 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25765223 original size:82 final size:81
Alignment explanation
Indices: 25765052--25765231 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
25765042 GATTAAATTG
* *
25765052 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
25765117 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
25765133 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
25765196 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
25765215 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
25765232 AGACTCAATA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 62 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25768996 original size:6 final size:6
Alignment explanation
Indices: 25768987--25769013 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25768977 TAATTTAGCC
25768987 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
25769014 AGTTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:25771791 original size:14 final size:14
Alignment explanation
Indices: 25771749--25771792 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
25771739 CTGAGTGTTT
*
25771749 TTATTATTATTTAC
1 TTATTTTTATTTAC
*
25771763 TTATCTTTTA-ATAC
1 TTAT-TTTTATTTAC
25771777 TTATTTTTATTTAC
1 TTATTTTTATTTAC
25771791 TT
1 TT
25771793 TGATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 5 0.20
14 16 0.64
15 4 0.16
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTTATTTAC
Found at i:25772706 original size:21 final size:21
Alignment explanation
Indices: 25772664--25772727 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
25772654 TCCCTTTATC
* *
25772664 TTATTTTATTATACT-TTGTTG
1 TTATTTTATT-TATTATTCTTG
25772685 TT-TTATTATTTATTATTCTTG
1 TTATT-TTATTTATTATTCTTG
*
25772706 TTATTTTATTTTTTATTCTTG
1 TTATTTTATTTATTATTCTTG
25772727 T
1 T
25772728 GCTTAGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.14
21 30 0.81
22 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.06, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTATTATTCTTG
Found at i:25772712 original size:24 final size:25
Alignment explanation
Indices: 25772668--25772722 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
25772658 TTTATCTTAT
*
25772668 TTTATTATACTTTGTTGTTTTATTA
1 TTTATTATACTTTGTTATTTTATTA
* *
25772693 TTTATTATTC-TTGTTATTTTATTT
1 TTTATTATACTTTGTTATTTTATTA
25772717 TTTATT
1 TTTATT
25772723 CTTGTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (25 bp):
TTTATTATACTTTGTTATTTTATTA
Done.