Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 181 of 438
Found at i:55826149 original size:51 final size:51
Alignment explanation
Indices: 55825953--55826189 Score: 165
Period size: 51 Copynumber: 4.6 Consensus size: 51
55825943 TTGTGAGAAA
* * * ** * **
55825953 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATAGTTTTAAGTC
1 ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTACAAAATAGCTTCGA-TC
* * * * * * * *
55826005 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTATG-TC
1 ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTACAAAATAGCTT-CGATC
* * * **
55826055 GCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTAATAGCTTCGATC
1 ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTACAAAATAGCTTCGATC
* * *
55826106 ACATGTGTGGTATTAAGTGCAGGCCACTATGTGT-CAAAGATAGCTTTGGTC
1 ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTACAAA-ATAGCTTCGATC
* * * * *
55826157 ACAAGTGTGGTACTATGTGAAGGTCACTTTGTG
1 ACATGTGTGGTACTAAGTGCAGGCCACTATGTG
55826190 AAGAAGGTAG
Statistics
Matches: 151, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
50 41 0.27
51 75 0.50
52 35 0.23
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTACAAAATAGCTTCGATC
Found at i:55829527 original size:40 final size:39
Alignment explanation
Indices: 55829363--55829545 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55829353 AAATTGAATG
* *
55829363 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55829402 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55829442 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55829482 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55829521 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55829546 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55829570 original size:80 final size:81
Alignment explanation
Indices: 55829402--55829590 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55829392 GCTGGAAATT
* * * *
55829402 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55829467 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55829483 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55829546 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55829562 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55829591 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55831076 original size:15 final size:15
Alignment explanation
Indices: 55831056--55831086 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55831046 TGTAACACCC
55831056 TATACTGGACCTAGT
1 TATACTGGACCTAGT
*
55831071 TATACTGGCCCTAGT
1 TATACTGGACCTAGT
55831086 T
1 T
55831087 TCCAAGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (15 bp):
TATACTGGACCTAGT
Found at i:55835065 original size:21 final size:20
Alignment explanation
Indices: 55835031--55835069 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
55835021 CCCTTGAAAC
55835031 AGGGCACACCCCCGTGTGAG
1 AGGGCACACCCCCGTGTGAG
*
55835051 AGGGCAACACGCCCGTGTG
1 AGGGC-ACACCCCCGTGTG
55835070 TTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.33, G:0.36, T:0.10
Consensus pattern (20 bp):
AGGGCACACCCCCGTGTGAG
Found at i:55836601 original size:28 final size:28
Alignment explanation
Indices: 55836536--55836636 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55836526 ATAGTGAATC
*
55836536 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
55836565 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55836593 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
55836623 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55836637 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55836685 original size:29 final size:29
Alignment explanation
Indices: 55836624--55836754 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
55836614 TTTTAAACCC
*** *
55836624 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
55836652 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
55836682 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
55836711 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55836740 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
55836755 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55844528 original size:28 final size:28
Alignment explanation
Indices: 55844463--55844563 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55844453 ATAGTGAATC
*
55844463 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
55844492 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55844520 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
55844550 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55844564 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55844612 original size:29 final size:29
Alignment explanation
Indices: 55844551--55844681 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
55844541 TTTTAAACCC
*** *
55844551 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
55844579 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
55844609 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
55844638 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55844667 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
55844682 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55847379 original size:47 final size:47
Alignment explanation
Indices: 55847310--55847438 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
55847300 GTATAATGCT
* *
55847310 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATGTTAAGT-C
1 GATGCCATGTCC-AGACATGGTCTTACACTGACTCTCACGTTAAGTAC
* **
55847357 GATGCCATGTCTCAGACATGGTCTTACAATGACTCTCACGTTCCGTACC
1 GATGCCATGTC-CAGACATGGTCTTACACTGACTCTCACGTTAAGTA-C
* * *
55847406 GACGCAATATCCCAGACATGGTCTTACACTGAC
1 GATGCCATGT-CCAGACATGGTCTTACACTGAC
55847439 ACATCATGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 39 0.57
48 1 0.01
49 28 0.41
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTGACTCTCACGTTAAGTAC
Found at i:55847503 original size:46 final size:45
Alignment explanation
Indices: 55847453--55847622 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
55847443 CATGTAGCTA
55847453 ATGCATGTCCCAAACATGTCTTACACTAGCT-TACATCTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCT-CATCTCGA-GCCG
* ** * * * *
55847499 ATGCATGTCTCGGACATGTCTTACACTAGGTCTCGTCTCAATGCCA
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCGA-GCCG
* * *
55847545 ATGTCATGTCCTAAACATGGTCTTACACTGGCTCTCATAAT-GTAGCCG
1 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCAT-CTCG-AGCCG
* *
55847593 ATGCATGTCCCAGACATCTCTTACACTAGC
1 ATGCATGTCCCAAACATGTCTTACACTAGC
55847623 ACACAAATAT
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 50 0.52
47 23 0.24
48 22 0.23
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCGAGCCG
Found at i:55851837 original size:44 final size:44
Alignment explanation
Indices: 55851774--55851901 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 44
55851764 ACATGTATCA
* *
55851774 CATCCATAATGATCTCGGACCAACTCAATGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGGACCAACTCAATGAGCTCAGATGCTCG
* *
55851818 CATCCATAATGAACTCGGACGAACTCAATGAGCTCAGATGC-CT
1 CATCCATAATGAACTCGGACCAACTCAATGAGCTCAGATGCTCG
* *
55851861 CA-CACATATCACGAAC-CTGGACCAACTCAACGAGCTCAGAT
1 CATC-CATA--ATGAACTC-GGACCAACTCAATGAGCTCAGAT
55851902 TTCTAAATTC
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 1 0.01
43 7 0.10
44 39 0.53
45 26 0.36
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (44 bp):
CATCCATAATGAACTCGGACCAACTCAATGAGCTCAGATGCTCG
Found at i:55853962 original size:26 final size:26
Alignment explanation
Indices: 55853910--55854007 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
55853900 CCTCTTTAAT
*
55853910 AACTGGGGCA-AAGCCCTTCTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
***
55853935 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
55853961 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
55853987 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
55854008 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 10 0.16
26 54 0.84
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:55853987 original size:52 final size:51
Alignment explanation
Indices: 55853910--55854007 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
55853900 CCTCTTTAAT
*
55853910 AACTGGGGCAAAGCCCTTCTCAATAAACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTCTCAATAAACTAGGGCATAAGCCCTTTTTGGTA
*
55853961 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTCTCAATAAACTAGGGCATAAGCCCTTTT
55854008 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTCTCAATAAACTAGGGCATAAGCCCTTTTTGGTA
Found at i:55854082 original size:20 final size:20
Alignment explanation
Indices: 55854057--55854123 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
55854047 TTATGAATTC
*
55854057 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
55854077 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
55854097 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
55854117 ATCATGT
1 ATCATGT
55854124 ATCAAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55854171 original size:25 final size:25
Alignment explanation
Indices: 55854143--55854192 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
55854133 ATAATTAAAT
* * *
55854143 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
55854168 CCTAGGGGCAAAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
55854193 TATTATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:55858455 original size:24 final size:24
Alignment explanation
Indices: 55858423--55858620 Score: 360
Period size: 24 Copynumber: 8.2 Consensus size: 24
55858413 GAATGTGACT
*
55858423 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
55858447 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
55858471 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
55858495 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
55858519 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
55858543 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
55858567 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
55858591 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
55858615 ATAGTA
1 ATAGTA
55858621 TGCCATAGTA
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 167 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:55858499 original size:48 final size:48
Alignment explanation
Indices: 55858423--55858699 Score: 446
Period size: 48 Copynumber: 5.6 Consensus size: 48
55858413 GAATGTGACT
* *
55858423 ATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
55858471 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
55858519 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
55858567 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTATGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCG--CAC--A----CATAG--TGCC
55858625 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
55858673 ATAGTAAATCGCACACATAGTGCCATA
1 ATAGTAAATCGCACACATAGTGCCATA
55858700 TGGTCTTTGC
Statistics
Matches: 217, Mismatches: 2, Indels: 20
0.91 0.01 0.08
Matches are distributed among these distances:
48 160 0.74
50 8 0.04
52 1 0.00
54 1 0.00
56 8 0.04
58 39 0.18
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (48 bp):
ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
Found at i:55858546 original size:72 final size:72
Alignment explanation
Indices: 55858429--55858699 Score: 425
Period size: 72 Copynumber: 3.6 Consensus size: 72
55858419 GACTATAGCA
55858429 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
55858494 CATAGTG
66 CATAGTG
*
55858501 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
*
55858566 CATAGTA
66 CATAGTG
*
55858573 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTATGCCATAGTAAATCGCA
1 AATCGCACACATAGTGCCATAGTAAATCG--CAC--A----CATAG--TGCCATAGTAAATCGCA
55858638 CACATAGTGCCATAGTG
56 CACATAGTGCCATAGTG
55858655 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
55858700 TGGTCTTTGC
Statistics
Matches: 183, Mismatches: 6, Indels: 20
0.88 0.03 0.10
Matches are distributed among these distances:
72 105 0.57
74 8 0.04
76 1 0.01
78 1 0.01
80 8 0.04
82 60 0.33
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (72 bp):
AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
CATAGTG
Found at i:55858628 original size:34 final size:34
Alignment explanation
Indices: 55858587--55858653 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
55858577 GCACACATAG
*
55858587 TGCCATAGTGAATCGCACACATAGTGCCATAGTA
1 TGCCATAGTAAATCGCACACATAGTGCCATAGTA
55858621 TGCCATAGTAAATCGCACACATAGTGCCATAGT
1 TGCCATAGTAAATCGCACACATAGTGCCATAGT
55858654 GAATCGCACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (34 bp):
TGCCATAGTAAATCGCACACATAGTGCCATAGTA
Found at i:55858633 original size:58 final size:58
Alignment explanation
Indices: 55858563--55858678 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
55858553 GCACACATAG
55858563 TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTA
1 TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTA
55858621 TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTA
1 TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTA
55858679 AATCGCACAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (58 bp):
TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTA
Found at i:55858640 original size:82 final size:82
Alignment explanation
Indices: 55858539--55858699 Score: 295
Period size: 82 Copynumber: 2.0 Consensus size: 82
55858529 GCACACATAG
* *
55858539 TGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCA
1 TGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCA
55858604 CACATAGTGCCATAGTA
66 CACATAGTGCCATAGTA
*
55858621 TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCA
1 TGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCA
55858686 CACATAGTGCCATA
66 CACATAGTGCCATA
55858700 TGGTCTTTGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (82 bp):
TGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCA
CACATAGTGCCATAGTA
Found at i:55858650 original size:24 final size:24
Alignment explanation
Indices: 55858621--55858699 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
55858611 TGCCATAGTA
55858621 TGCCATAGTAAATCGCACACATAG
1 TGCCATAGTAAATCGCACACATAG
*
55858645 TGCCATAGTGAATCGCACACATAG
1 TGCCATAGTAAATCGCACACATAG
55858669 TGCCATAGTAAATCGCACACATAG
1 TGCCATAGTAAATCGCACACATAG
55858693 TGCCATA
1 TGCCATA
55858700 TGGTCTTTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (24 bp):
TGCCATAGTAAATCGCACACATAG
Found at i:55862888 original size:27 final size:28
Alignment explanation
Indices: 55862831--55862900 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55862821 AAATTTGTAC
**
55862831 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55862859 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55862886 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55862901 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55862909 original size:27 final size:27
Alignment explanation
Indices: 55862831--55862912 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55862821 AAATTTGTAC
* *
55862831 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55862859 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55862886 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55862913 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55870812 original size:27 final size:28
Alignment explanation
Indices: 55870755--55870824 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55870745 AAATTTGTAC
**
55870755 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55870783 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55870810 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55870825 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55870833 original size:27 final size:27
Alignment explanation
Indices: 55870755--55870836 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55870745 AAATTTGTAC
* *
55870755 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55870783 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55870810 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55870837 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55876485 original size:26 final size:26
Alignment explanation
Indices: 55876440--55876537 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
55876430 CCTCTTTAAT
*
55876440 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAATA
* **
55876465 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCAATA
55876491 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAATA
55876517 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
55876538 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAATA
Found at i:55876526 original size:52 final size:51
Alignment explanation
Indices: 55876440--55876537 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
55876430 CCTCTTTAAT
* *
55876440 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
55876491 AACTAGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
55876538 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTA
Found at i:55876651 original size:77 final size:77
Alignment explanation
Indices: 55876524--55876677 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
55876514 ATAAACTAGG
55876524 GCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATGCATTTATGAATTCAT
1 GCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATGCATTTATGAATTCAT
55876589 CATGTGCATTTC
66 CATGTGCATTTC
55876601 GCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATGCATTTATGAATTCAT
1 GCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATGCATTTATGAATTCAT
55876666 CATGTGCATTTC
66 CATGTGCATTTC
55876678 ATACGTATCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (77 bp):
GCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATGCATTTATGAATTCAT
CATGTGCATTTC
Found at i:55876689 original size:20 final size:20
Alignment explanation
Indices: 55876664--55876730 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
55876654 TTATGAATTC
*
55876664 ATCATGTGCATTTCATA-CG
1 ATCATGTGCATATCATACCG
55876683 TATCATGTGCATATCATACCG
1 -ATCATGTGCATATCATACCG
* * *
55876704 ACCATGTGCATATCATATCA
1 ATCATGTGCATATCATACCG
55876724 ATCATGT
1 ATCATGT
55876731 ATCAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACCG
Found at i:55881334 original size:28 final size:28
Alignment explanation
Indices: 55881261--55881368 Score: 105
Period size: 27 Copynumber: 4.0 Consensus size: 28
55881251 GCTACCAGAG
* ** * *
55881261 CAGATA-TTGTGACAGAATCACTAGATA
1 CAGATATTTGTGGCAGAGCCACCAGAAA
55881288 CAGATA-TTGTGGCAGAGCCACCAGAAA
1 CAGATATTTGTGGCAGAGCCACCAGAAA
* **
55881315 CAGATATTTGTGGCAAAGCCACCAG-GT
1 CAGATATTTGTGGCAGAGCCACCAGAAA
* *
55881342 CAAATATTTGTGGTAGAGCCACCAGAA
1 CAGATATTTGTGGCAGAGCCACCAGAA
55881369 CGCTTCCTCC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
27 50 0.75
28 17 0.25
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (28 bp):
CAGATATTTGTGGCAGAGCCACCAGAAA
Found at i:55882629 original size:19 final size:20
Alignment explanation
Indices: 55882591--55882630 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
55882581 TGTTTTGGCC
*
55882591 AAAGAAGAAAAGAAGGAGAA
1 AAAGAAGAAAAGAAGAAGAA
*
55882611 AAAGAA-AATAGAAGAAGAA
1 AAAGAAGAAAAGAAGAAGAA
55882630 A
1 A
55882631 GGAGAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (20 bp):
AAAGAAGAAAAGAAGAAGAA
Found at i:55889161 original size:27 final size:28
Alignment explanation
Indices: 55889125--55889238 Score: 175
Period size: 27 Copynumber: 4.2 Consensus size: 28
55889115 AGCATGGCTG
55889125 CCAG-AATAGATA-TTGTGGCAGAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
55889151 CCAGAAATAGATA-TTGTGGCAGAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
*
55889178 CTAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAATAGATATTTGTGGCAGAGCCA
55889206 CCAG--ATCAGATATTTGTGGCAGAGCCA
1 CCAGAAAT-AGATATTTGTGGCAGAGCCA
55889233 CCAGAA
1 CCAGAA
55889239 TGCTTCCTCC
Statistics
Matches: 81, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
26 6 0.07
27 58 0.72
28 17 0.21
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (28 bp):
CCAGAAATAGATATTTGTGGCAGAGCCA
Found at i:55889223 original size:55 final size:53
Alignment explanation
Indices: 55889125--55889238 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 53
55889115 AGCATGGCTG
55889125 CCAG-AATAGATATTGTGGCAGAGCCACCAGAAATAGATATTGTGGCAGAGCCA
1 CCAGAAATAGATATTGTGGCAGAGCCACCAG-AATAGATATTGTGGCAGAGCCA
*
55889178 CTAGAAATAGATATTTGTGGCAGAGCCACCAG-ATCAGATATTTGTGGCAGAGCCA
1 CCAGAAATAGATA-TTGTGGCAGAGCCACCAGAAT-AGATA-TTGTGGCAGAGCCA
55889233 CCAGAA
1 CCAGAA
55889239 TGCTTCCTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
53 5 0.09
54 13 0.24
55 37 0.67
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
CCAGAAATAGATATTGTGGCAGAGCCACCAGAATAGATATTGTGGCAGAGCCA
Found at i:55892538 original size:20 final size:20
Alignment explanation
Indices: 55892513--55892550 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55892503 CTAGGAACTA
55892513 TGTGATCTGAGCCCATGAGT
1 TGTGATCTGAGCCCATGAGT
*
55892533 TGTGATCTGAGCTCATGA
1 TGTGATCTGAGCCCATGA
55892551 TATATGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (20 bp):
TGTGATCTGAGCCCATGAGT
Found at i:55896498 original size:42 final size:42
Alignment explanation
Indices: 55896451--55896554 Score: 199
Period size: 42 Copynumber: 2.5 Consensus size: 42
55896441 TGGTCTCGGT
55896451 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
1 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
55896493 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
1 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
*
55896535 ACTAAGTGTGCGGGTTTAAA
1 ACTAAGTGTGCGGGTATAAA
55896555 ATTTGTACAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (42 bp):
ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
Found at i:55896620 original size:27 final size:28
Alignment explanation
Indices: 55896563--55896632 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55896553 AAATTTGTAC
**
55896563 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55896591 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55896618 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55896633 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55904482 original size:42 final size:42
Alignment explanation
Indices: 55904435--55904541 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
55904425 TATTGGTCTC
55904435 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
55904477 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
55904519 GGCACTAAGTGTGTGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
55904542 ATTTGTACAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:55904607 original size:27 final size:28
Alignment explanation
Indices: 55904550--55904619 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55904540 AAATTTGTAC
**
55904550 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55904578 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55904605 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55904620 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55918777 original size:39 final size:40
Alignment explanation
Indices: 55918677--55918859 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
55918667 TCGAATGATG
* * *
55918677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
55918717 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
55918757 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
55918796 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
* **
55918837 -CTGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55918860 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:55918843 original size:79 final size:81
Alignment explanation
Indices: 55918677--55918861 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
55918667 TCGAATGATG
* * *
55918677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
55918741 CGTGCGAGTTAATAAA
66 CGTGCGAGTCAATAAA
* **
55918757 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
55918819 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATA-AA
* **
55918837 -CTGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55918862 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATAAA
Found at i:55922316 original size:22 final size:22
Alignment explanation
Indices: 55922279--55922322 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55922269 TAGGAATTAG
55922279 GGTGTGTCGTTTTCTCT-TTTT
1 GGTGTGTCGTTTTCTCTCTTTT
*
55922300 GGTGTAGTCTTTTTCTCTCTTTT
1 GGTGT-GTCGTTTTCTCTCTTTT
55922323 CTTTTCCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.02, C:0.16, G:0.20, T:0.61
Consensus pattern (22 bp):
GGTGTGTCGTTTTCTCTCTTTT
Found at i:55923464 original size:25 final size:25
Alignment explanation
Indices: 55923436--55923483 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55923426 TTATAATATG
* * *
55923436 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
55923461 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
55923484 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:55923544 original size:20 final size:20
Alignment explanation
Indices: 55923509--55923585 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
55923499 TGATACGTGG
55923509 GATATGATAT--ACATGATT
1 GATATGATATGCACATGATT
**
55923527 GATATGATATGCACATGAAA
1 GATATGATATGCACATGATT
*
55923547 GGTATGATATGCACATGATAT
1 GATATGATATGCACATGAT-T
*
55923568 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
55923586 GTATTCATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.20
20 39 0.78
21 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (20 bp):
GATATGATATGCACATGATT
Found at i:55923744 original size:24 final size:26
Alignment explanation
Indices: 55923635--55923744 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
55923625 GAGGAAGTGC
*
55923635 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
55923661 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
55923687 AAAAGGGCTTATGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
55923712 AAAAGGGCTT-TGCACCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
55923735 AAAAGAGGCT
1 AAAAG-GGCT
55923745 AGGCCTCCAG
Statistics
Matches: 79, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
23 8 0.10
24 12 0.15
25 11 0.14
26 48 0.61
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:55931839 original size:40 final size:40
Alignment explanation
Indices: 55931792--55931976 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
55931782 CTTGCACAAG
* *
55931792 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
55931832 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
55931872 GCCTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
55931912 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
55931953 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
55931977 CATTCGAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:55931967 original size:121 final size:118
Alignment explanation
Indices: 55931756--55931976 Score: 309
Period size: 121 Copynumber: 1.8 Consensus size: 118
55931746 CTCAAGTAAT
* * * *
55931756 CTTCAGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCA
1 CTTCAGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
* *
55931821 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
55931874 CTTCAGG-TCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CTTCAGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
55931938 TCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
63 TCA-CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
55931977 CATTCGAATA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 17 0.19
120 27 0.30
121 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCAGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:55934830 original size:25 final size:25
Alignment explanation
Indices: 55934802--55934849 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55934792 TTATAATAGG
* * *
55934802 AAAATAACTGTTTTGCCCCTAGGTA
1 AAAATAACTATTATACCCCTAGGTA
*
55934827 AAAATGACTATTATACCCCTAGG
1 AAAATAACTATTATACCCCTAGG
55934850 GTTTACTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATAACTATTATACCCCTAGGTA
Found at i:55934910 original size:20 final size:19
Alignment explanation
Indices: 55934877--55934955 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 19
55934867 ATACGTGGGA
55934877 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
55934894 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
55934915 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
* *
55934935 TATGAAATGCAAATGA-TG
1 TATGATATGCACATGATTG
55934953 TAT
1 TAT
55934956 TTATGAATGC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.25
20 38 0.72
21 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:55935044 original size:24 final size:24
Alignment explanation
Indices: 55935000--55935072 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
55934990 GGAGGAAGTG
55935000 CAAAAGGGCTTATGCCCCAGTTTAT
1 CAAAAGGGCTTATGCCCCAG-TTAT
55935025 CAAAAGGGCTT-TGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55935048 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
55935073 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.23
24 14 0.33
25 19 0.44
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55945728 original size:28 final size:28
Alignment explanation
Indices: 55945691--55945755 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
55945681 TCAGTGTACG
* *
55945691 AAATTTTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGGCACTTAATGTGCA
* *
55945719 AGATATTGAGAATGGCACTTAGTGTGCA
1 AAATATTGAGAATGGCACTTAATGTGCA
55945747 AAATATTGA
1 AAATATTGA
55945756 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGGCACTTAATGTGCA
Found at i:55945874 original size:39 final size:39
Alignment explanation
Indices: 55945830--55945984 Score: 197
Period size: 39 Copynumber: 4.0 Consensus size: 39
55945820 ATTTATAATG
55945830 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTA
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTA
* *
55945869 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTT
1 GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTA
* * * *
55945908 GTGTTATATCCGAGCAAAG-CCCTGAAGGCATTCGTACTG
1 GTGTTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTA
* * *
55945947 GTGTTATATCTGGGCTAAAGTCCCGCAGGC-TTTGTGCT
1 GTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCT
55945985 GGAATTGTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.03
39 86 0.86
40 8 0.08
41 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
GTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTA
Found at i:55945919 original size:78 final size:78
Alignment explanation
Indices: 55945830--55945984 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
55945820 ATTTATAATG
* * *
55945830 GTGTTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTAGTGTTATATCCGGGCT-AAGTCCCG
1 GTGTTATATCCGAGCAAAG-CCCTGAAGGCATTCGTACTAGTGTTATATCCGGGCTAAAGTCCCG
55945893 AAGGCATTTGTGCTT
65 AAGGC-TTTGTGCTT
* * *
55945908 GTGTTATATCCGAGCAAAGCCCTGAAGGCATTCGTACTGGTGTTATATCTGGGCTAAAGTCCCGC
1 GTGTTATATCCGAGCAAAGCCCTGAAGGCATTCGTACTAGTGTTATATCCGGGCTAAAGTCCCGA
55945973 AGGCTTTGTGCT
66 AGGCTTTGTGCT
55945985 GGAATTGTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 3 0.04
78 54 0.78
79 12 0.17
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (78 bp):
GTGTTATATCCGAGCAAAGCCCTGAAGGCATTCGTACTAGTGTTATATCCGGGCTAAAGTCCCGA
AGGCTTTGTGCTT
Found at i:55946023 original size:39 final size:39
Alignment explanation
Indices: 55945969--55946161 Score: 280
Period size: 39 Copynumber: 4.9 Consensus size: 39
55945959 GGCTAAAGTC
*
55945969 CCGCAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
55946008 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
*
55946047 CCGCAGGCTTCGTGCTGGAATTGTATCTGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
* * **
55946086 CCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGGT
* * *
55946126 CCGCAGGCTAT-ATGCTGGAATTATATCCGGGCTTAA
1 CCGCAGGCT-TCGTGCTGGAATTGTATCCGGACTTAA
55946162 AGACCCGTAG
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 109 0.77
40 32 0.23
41 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
Found at i:55946035 original size:117 final size:117
Alignment explanation
Indices: 55945911--55946155 Score: 257
Period size: 117 Copynumber: 2.1 Consensus size: 117
55945901 TGTGCTTGTG
** *
55945911 TTATATCC-GAGC-AAAGCCCTGAAGGCATTCGTACTGGTGTTATATCTGGGC-TAAAGTCCCGC
1 TTATATCCGGA-CTAAAGCCC-GAAGGC-TTCGTACTGGAATTATATCTGGACTTAAAGT-CCGC
* * ** *
55945973 AGGCTTTGTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAGGCT-TCGTGCTGGAA
62 AAGCTTCGTGCTGGAATTGTATCCGGACTTAAAGACCCGCAGGCTAT-ATGCTGGAA
* * * * * * *
55946028 TTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCTGGACTTAAGGTCCGCAAG
1 TTATATCCGGAC-TAAAGCCCGAAGGCTTCGTACTGGAATTATATCTGGACTTAAAGTCCGCAAG
*
55946093 CTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAA
65 CTTCGTGCTGGAATTGTATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAA
55946146 TTATATCCGG
1 TTATATCCGG
55946156 GCTTAAAGAC
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
117 58 0.55
118 41 0.39
119 6 0.06
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (117 bp):
TTATATCCGGACTAAAGCCCGAAGGCTTCGTACTGGAATTATATCTGGACTTAAAGTCCGCAAGC
TTCGTGCTGGAATTGTATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAA
Found at i:55953071 original size:41 final size:41
Alignment explanation
Indices: 55953026--55953143 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55953016 TGAAAGATAA
55953026 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55953067 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55953097 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55953138 ATGTAG
1 ATGTAG
55953144 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55953082 original size:71 final size:71
Alignment explanation
Indices: 55952994--55953157 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55952984 GAGATGTATC
55952994 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55953059 AGGACA
66 AGGACA
55953065 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55953130 AGGACA
66 AGGACA
55953136 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55953158 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55959203 original size:41 final size:41
Alignment explanation
Indices: 55959158--55959275 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55959148 TGAAAGATAA
55959158 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55959199 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55959229 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55959270 ATGTAG
1 ATGTAG
55959276 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55959214 original size:71 final size:71
Alignment explanation
Indices: 55959126--55959289 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55959116 GAGATGTATC
55959126 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55959191 AGGACA
66 AGGACA
55959197 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55959262 AGGACA
66 AGGACA
55959268 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55959290 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55962620 original size:80 final size:80
Alignment explanation
Indices: 55962536--55962684 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55962526 TATGGTAACC
* * * *
55962536 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55962600 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55962616 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55962681 CCGG
66 CCGG
55962685 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55962626 original size:40 final size:38
Alignment explanation
Indices: 55962577--55962684 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55962567 ATCACGATTT
*
55962577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55962617 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55962657 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55962685 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55970630 original size:80 final size:80
Alignment explanation
Indices: 55970546--55970694 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55970536 TATGGTAACC
* * * *
55970546 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55970610 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55970626 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55970691 CCGG
66 CCGG
55970695 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55970636 original size:40 final size:38
Alignment explanation
Indices: 55970587--55970694 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55970577 ATCACGATTT
*
55970587 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55970627 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55970667 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55970695 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55974741 original size:31 final size:31
Alignment explanation
Indices: 55974698--55974774 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
55974688 ATGTCCCAAG
55974698 CCACACGGGTGTGTGTGACCACACGGCCTAC
1 CCACACGGGTGTGTGTGACCACACGGCCTAC
*
55974729 CCACACGAGTGTGTGTGACCACACGGCCTAC
1 CCACACGGGTGTGTGTGACCACACGGCCTAC
55974760 CCACACGGGTGTGTG
1 CCACACGGGTGTGTG
55974775 ACTCACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (31 bp):
CCACACGGGTGTGTGTGACCACACGGCCTAC
Found at i:55979738 original size:40 final size:39
Alignment explanation
Indices: 55979702--55979808 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
55979692 ATATCCGGAC
*
55979702 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * * *
55979742 TAAGCCCGAAGGTATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
55979781 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
55979809 CTATAACCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:55979809 original size:40 final size:40
Alignment explanation
Indices: 55979708--55979846 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
55979698 GGACTAAGAT
* * *
55979708 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
55979747 CCGAAGGTATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
55979787 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
55979827 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
55979847 CATTATATCC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.38
40 45 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:55979861 original size:79 final size:79
Alignment explanation
Indices: 55979708--55979872 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
55979698 GGACTAAGAT
* * * *
55979708 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGTATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
*
55979773 ACCCGGGTTAAGTC
66 ACCCGGGTTAAATC
* * *
55979787 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCAT
1 CCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCAC
* * *
55979850 TATATCC-GGTTAAATT
63 TAAACCCGGGTTAAATC
55979866 CCGAAGG
1 CCGAAGG
55979873 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
ACCCGGGTTAAATC
Found at i:55988255 original size:47 final size:48
Alignment explanation
Indices: 55988139--55988255 Score: 114
Period size: 49 Copynumber: 2.4 Consensus size: 48
55988129 TGAGGTGTGT
** * * *
55988139 CAGTGTAAGACC-TGTTTGGGACATGGCATCGGCCTCGATGTATGAAAGT
1 CAGTGTAAGACCATGTTT-ACACATGGCATCGACCTAGATGTA-GAAAGC
* * *
55988188 CAGTGTAAGACCTAT-CTTACACATGGCATCGACTTAGATGTA-AGAGC
1 CAGTGTAAGACC-ATGTTTACACATGGCATCGACCTAGATGTAGAAAGC
55988235 CAGTGTAAGACCATGTTTACA
1 CAGTGTAAGACCATGTTTACA
55988256 AATATTACGT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
46 2 0.04
47 20 0.36
49 31 0.55
50 2 0.04
51 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCATGTTTACACATGGCATCGACCTAGATGTAGAAAGC
Found at i:55992168 original size:40 final size:40
Alignment explanation
Indices: 55992111--55992296 Score: 166
Period size: 40 Copynumber: 4.7 Consensus size: 40
55992101 TCGAATGATG
* *
55992111 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTGACTAAA
* * *
55992151 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
* *
55992191 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
** * * *
55992231 TCCGGGTTAAG-TCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTGACTA-AA
* *
55992272 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
55992297 AACTAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:55992248 original size:80 final size:82
Alignment explanation
Indices: 55992111--55992296 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 82
55992101 TCGAATGATG
*
55992111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATC
55992174 TCGTGCGAGTTACTA-AA
66 T-GTGCGAGTTACTATAA
* * * **
55992191 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
55992253 TCTGTGCGAGTTACTATAA
64 TCTGTGCGAGTTACTATAA
*
55992272 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55992297 AACTAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
79 2 0.02
80 79 0.86
81 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATC
TGTGCGAGTTACTATAA
Found at i:55992314 original size:80 final size:80
Alignment explanation
Indices: 55992111--55992319 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
55992101 TCGAATGATG
**
55992111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTAG-CTATATCCGGGTTAAGATCCGAAGGCAT
55992174 TCGTGCGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* * *
55992191 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TAGCTATATCCGGGTTAAGAT-CCGAAGGCA
55992253 -TCTGTGCGAGTTACTATAA
63 TTC-GTGCGAGTTACTA-AA
* **
55992272 -CCGGGCTATGTCCCGAAGGCATTTGAACTAGTAGCTATATCC-GGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGTTAA
55992320 ACTCTGAAGG
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
79 12 0.11
80 86 0.79
81 11 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:56000183 original size:40 final size:39
Alignment explanation
Indices: 56000035--56000218 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
56000025 TCGAATGATG
* * * *
56000035 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* *
56000075 TCCGGACTAAGAT-CCGAAGACATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56000115 TCCGGACTAAGAT-CCGAAGGCATGTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCAT-TGTGCGAGTTACTAAA
*
56000155 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCAT-TGTGCGAGTTACTA-AA
* *
56000196 -CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56000219 TGAACGGGTA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 116 0.92
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56006259 original size:41 final size:40
Alignment explanation
Indices: 56006139--56006327 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
56006129 ATAACCGCAA
* * * *** *
56006139 GCAC-AATCGCCTTTGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAAAT-GCCTTCGGGTCTTAGCCCGGATATAACAACTC
56006179 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
56006219 GCACGAATGCTTTCGGGTCTTAGCCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAG-CCCGGATATAACAACTC
* *
56006260 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
56006300 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56006328 GTATCATTCT
Statistics
Matches: 132, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 89 0.67
41 43 0.33
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:56006276 original size:81 final size:81
Alignment explanation
Indices: 56006174--56006325 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
56006164 CGGATTTGGT
* * * * *
56006174 AACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAATGCTTTCGGGTC
1 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGAC
56006238 TTAGCCCCGGATATAAC
65 TTAGCCCCGGATATAAC
* *
56006255 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACT
1 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
56006320 TAGCCC
66 TAGCCC
56006326 GGGTATCATT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (81 bp):
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
TAGCCCCGGATATAAC
Found at i:56014006 original size:40 final size:40
Alignment explanation
Indices: 56013962--56014189 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
56013952 ATAACCGCAA
* * *** *
56013962 GCAC-AATCGCCTTTGGGTCTTAACTCGGATTTGGTAACTT
1 GCACAAAT-GCCTTTGGGTCTTAACCCGGATATAACAACTC
* *
56014002 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTTGGGTCTTAACCCGGATATAACAACTC
* *
56014042 GCACGAATGCCTTTGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTTGGGTCTTAACCCGGATATAACAACTC
* * * * *
56014082 GTACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTT
1 GCACAAATGCCTTTGGGTCTTAACCCGGATATAACAACTC
* * * *
56014122 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTTGGGTCTTAACCCGGATATAA-CAACTC
* * * *
56014162 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTTGGGTCTTAACCCGG
56014190 GTATCATTCT
Statistics
Matches: 168, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
40 164 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTTGGGTCTTAACCCGGATATAACAACTC
Found at i:56014091 original size:80 final size:80
Alignment explanation
Indices: 56014002--56014189 Score: 297
Period size: 80 Copynumber: 2.4 Consensus size: 80
56013992 TTGGTAACTT
*
56014002 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTTGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
*
56014067 CGGATATAA-CAACTC
66 CGGATATAATC-ACTA
* * *
56014082 GTACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
56014147 CGGATATAATCACTA
66 CGGATATAATCACTA
* *
56014162 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56014190 GTATCATTCT
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 97 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
CGGATATAATCACTA
Found at i:56018510 original size:48 final size:48
Alignment explanation
Indices: 56018447--56018554 Score: 171
Period size: 48 Copynumber: 2.2 Consensus size: 48
56018437 CGACCACAAT
* * *
56018447 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATATCATACATATTTCACACTAGCCATTCGGCTTTACCAC
56018495 ATATACATATATCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATATCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
56018543 ACATATATATAT
1 ATATACATATAT
56018555 TTATCTTGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATATCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:56023291 original size:45 final size:45
Alignment explanation
Indices: 56023234--56023324 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
56023224 GAACTATATG
* ** *
56023234 ATCTGAATTCATTGAGTTGTGGCCTGAGTTCATGATATATGTAGC
1 ATCTGAACTCATTGAGTAATGGCCTAAGTTCATGATATATGTAGC
* *
56023279 ATCTGAACTCATTGAGTAATGGTCTAAGTTCATGATGTATGTAGC
1 ATCTGAACTCATTGAGTAATGGCCTAAGTTCATGATATATGTAGC
56023324 A
1 A
56023325 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTAATGGCCTAAGTTCATGATATATGTAGC
Found at i:56033415 original size:43 final size:43
Alignment explanation
Indices: 56033362--56033495 Score: 106
Period size: 51 Copynumber: 2.9 Consensus size: 43
56033352 AAGATATGTG
** * *
56033362 GCATCCGAGCTAGTTGGGATGTCCGAGTTCATTATGGATGCAA
1 GCATCCGAGCTAGTTGAAAGGTCCGAGTTCATAATGGATGCAA
* * *
56033405 GCATTCGAGCTCGTTGAAAGGTCTGAGTTCATAATGGATGCGATTTA
1 GCATCCGAGCTAGTTGAAAGGTCCGAGTTCATAATGGATGC-A---A
* * *
56033452 TGTAACATCCGAGCTCGTTGAGAGGTCCGAGTTCATATTGGATG
1 -G---CATCCGAGCTAGTTGAAAGGTCCGAGTTCATAATGGATG
56033496 TGTTACATGT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 34 0.47
44 1 0.01
47 1 0.01
48 1 0.01
51 35 0.49
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTAGTTGAAAGGTCCGAGTTCATAATGGATGCAA
Found at i:56036971 original size:51 final size:51
Alignment explanation
Indices: 56036849--56036971 Score: 128
Period size: 51 Copynumber: 2.4 Consensus size: 51
56036839 AAAAACATGT
* * *
56036849 GTGGTACTAAGTGT-AGACCACTATGTGTAAAAGATAGCTTTGGTCACAAGT
1 GTGGTACTATGTGTAAG-CCACTATGTGTAAAAGATAGCTTTGCTCACAAGG
* * *
56036900 GTGGTACAATGTG-AAGGCCACTTTGTG-AATAAGGTAGCTTTGACT-ACAAGG
1 GTGGTACTATGTGTAA-GCCACTATGTGTAA-AAGATAGCTTTG-CTCACAAGG
56036951 GTGGTACTATGTGTAAGCCAC
1 GTGGTACTATGTGTAAGCCAC
56036972 CGGGCATTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
50 2 0.03
51 54 0.90
52 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
GTGGTACTATGTGTAAGCCACTATGTGTAAAAGATAGCTTTGCTCACAAGG
Found at i:56040212 original size:45 final size:45
Alignment explanation
Indices: 56040143--56040448 Score: 274
Period size: 45 Copynumber: 7.0 Consensus size: 45
56040133 CCATAGTATT
56040143 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * * * *
56040188 TCTAAATATGTGATTTTGTGTAAGACCATGTCTGGGACGTTAGCA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* *
56040233 TCGATATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * * *
56040278 TCGATATATGTGGTTACGTGTAAGACCATGTCTGGAACATTGACA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * * * * *
56040323 TTG-TAT-T-CGA-TTCATGTAAAACCATGTCTGGGACATCGACA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * * *
56040364 TCG-TAT-T-CGA-TTCGTATAAGACCCA-GTTTGGGACAGTGGCA
1 TCGATATATGTGATTTCGTGTAAGA-CCATGTCTGGGACATTGGCA
* * ** * * *
56040405 TCG--ACATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
56040448 T
1 T
56040449 TGTTCGATAA
Statistics
Matches: 215, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
40 1 0.00
41 59 0.27
42 9 0.04
43 22 0.10
44 3 0.01
45 121 0.56
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (45 bp):
TCGATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:56040350 original size:41 final size:41
Alignment explanation
Indices: 56040296--56040376 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
56040286 TGTGGTTACG
* * *
56040296 TGTAAGACCATGTCTGGAACATTGACATTGTATTCGATTCA
1 TGTAAAACCATGTCTGGAACATCGACATCGTATTCGATTCA
*
56040337 TGTAAAACCATGTCTGGGACATCGACATCGTATTCGATTC
1 TGTAAAACCATGTCTGGAACATCGACATCGTATTCGATTC
56040377 GTATAAGACC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
TGTAAAACCATGTCTGGAACATCGACATCGTATTCGATTCA
Found at i:56042779 original size:46 final size:46
Alignment explanation
Indices: 56042712--56042885 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56042702 TGTAACCCGC
*
56042712 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
56042758 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
56042808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
56042850 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
56042886 ATGCCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:56042878 original size:92 final size:93
Alignment explanation
Indices: 56042720--56042890 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
56042710 GCCCATAAGT
* *
56042720 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56042785 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56042813 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56042877 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56042891 AACCATCCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56045280 original size:30 final size:30
Alignment explanation
Indices: 56045236--56045324 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56045226 CAAAGATAAC
56045236 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56045265 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56045295 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56045325 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56045284 original size:15 final size:15
Alignment explanation
Indices: 56045236--56045315 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56045226 CAAAGATAAC
*
56045236 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56045250 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56045265 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56045280 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56045295 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56045310 AAGAAA
1 AAGAAA
56045316 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56045324 original size:15 final size:15
Alignment explanation
Indices: 56045247--56045324 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56045237 AGAAAACCGA
56045247 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56045262 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56045276 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56045291 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56045307 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56045322 ATA
1 ATA
56045325 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56048331 original size:46 final size:46
Alignment explanation
Indices: 56048264--56048437 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56048254 TGTAACCCGC
*
56048264 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
56048310 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
56048360 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
56048402 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
56048438 ATGCCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:56048430 original size:92 final size:93
Alignment explanation
Indices: 56048272--56048442 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
56048262 GCCCATAAGT
* *
56048272 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56048337 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56048365 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56048429 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56048443 AACCATCCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56054540 original size:40 final size:39
Alignment explanation
Indices: 56054376--56054558 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56054366 AAATTGAATG
* *
56054376 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56054415 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56054455 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56054495 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56054534 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56054559 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56054583 original size:80 final size:81
Alignment explanation
Indices: 56054415--56054603 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56054405 GCTGGAAATT
* * * *
56054415 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56054480 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56054496 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56054559 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56054575 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56054604 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56061745 original size:40 final size:39
Alignment explanation
Indices: 56061580--56061763 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56061570 AAATTGAATG
* * *
56061580 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56061620 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56061660 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56061700 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56061739 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56061764 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56061788 original size:80 final size:81
Alignment explanation
Indices: 56061620--56061808 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56061610 GCTGGAAATT
* * * *
56061620 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56061685 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56061701 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56061764 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56061780 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56061809 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56063791 original size:30 final size:30
Alignment explanation
Indices: 56063747--56063835 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
56063737 CAAAGATAAC
*
56063747 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
* *
56063776 GAGAAACCCGGAATAAATAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
56063806 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
56063836 CGATACTATG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
29 9 0.19
30 32 0.67
31 7 0.15
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:56063806 original size:15 final size:15
Alignment explanation
Indices: 56063747--56063826 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
56063737 CAAAGATAAC
*
56063747 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56063761 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
56063776 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
*
56063791 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56063806 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56063821 AAGAAA
1 AAGAAA
56063827 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 41 0.80
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56063835 original size:15 final size:15
Alignment explanation
Indices: 56063758--56063835 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
56063748 AGAAAACCGA
56063758 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
56063773 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
*
56063787 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56063802 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56063818 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56063833 ATA
1 ATA
56063836 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56066901 original size:93 final size:93
Alignment explanation
Indices: 56066789--56066959 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56066779 GCCCATAAGT
* *
56066789 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56066854 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56066882 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56066947 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56066960 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56066956 original size:46 final size:46
Alignment explanation
Indices: 56066781--56066956 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56066771 TGTAACCCGC
* * *
56066781 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56066827 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
56066877 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56066920 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56066957 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56075086 original size:41 final size:45
Alignment explanation
Indices: 56074888--56075146 Score: 245
Period size: 45 Copynumber: 6.0 Consensus size: 45
56074878 ATAGGATTTT
* * * **
56074888 GATATATGTGATTTCGTGTAAGACCACGTTTGAGATGTTGGCATC
1 GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
56074933 AATATATGTGATTTCGTGTAAGACCACGTCTGGAACGTTGGCATC
1 GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
*
56074978 GATATATGTGATTTCGTGTAAGACCACT-TCT-GGACGTTGGCATC
1 GATATATGTGATTTCGTGTAAGACCA-TGTCTGGGACATTGGCATC
* * * *
56075022 GATATATGTGGTTAC--GTAAGACCATGTTTGGGACATCGGCATC
1 GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
* *
56075065 -ATAT-T-TGATTT-GTGTAAGACCATGTCTGGGACATCGACATC
1 GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
56075106 G-TAT-T-CGA-TTCGTGTAAGACCCTGTTTGGGACAGTGGCATC
1 GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
56075147 AGTATGAGAT
Statistics
Matches: 184, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
40 6 0.03
41 59 0.32
42 15 0.08
43 11 0.06
44 25 0.14
45 68 0.37
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
GATATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:56087122 original size:25 final size:25
Alignment explanation
Indices: 56087084--56087157 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
56087074 TATAAAACCT
*
56087084 TTGTGGCAAATTATATGG-AAAGCCC
1 TTGTGGCGAATTATATGGAAAAG-CC
* *
56087109 TTGTGGCGAGTTATCTGGAAAAGCC
1 TTGTGGCGAATTATATGGAAAAGCC
* *
56087134 TATGTGGCGTATTAT-TCGAAAAGC
1 T-TGTGGCGAATTATATGGAAAAGC
56087158 TTTAGAGATG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 26 0.63
26 15 0.37
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (25 bp):
TTGTGGCGAATTATATGGAAAAGCC
Found at i:56089000 original size:18 final size:19
Alignment explanation
Indices: 56088974--56089011 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56088964 CTCCCTCTTC
56088974 TTTCATTTT-TTTTATTTT
1 TTTCATTTTCTTTTATTTT
* *
56088992 TTTCCTTTTCTTTTCTTTT
1 TTTCATTTTCTTTTATTTT
56089011 T
1 T
56089012 CTTTGTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTCATTTTCTTTTATTTT
Found at i:56101390 original size:196 final size:196
Alignment explanation
Indices: 56101043--56101443 Score: 606
Period size: 196 Copynumber: 2.0 Consensus size: 196
56101033 AAGGCCTGGA
**
56101043 CACACGGGC-GTGTCCAAGGCTGTGTGAAAACTAGAGCTTAACTTTCAAATTTTAATTAAGTCAG
1 CACACGGGCAG-GTCCAAGGCCATGTGAAAACTAGAGCTTAACTTTCAAATTTTAATTAAGTCAG
* *
56101107 GAAGCCACACGGGCAAGGCACACGGCCGTGTGTTCGGACACACAAAAGTGCAAAATACCACACGG
65 GAAGCCACACGGGCAAGGCACACGGCCGTGTGTTCAGACACACAAAAGTACAAAATACCACACGG
* *
56101172 GCGTGGGAGAAGCGAAGAACCTCGCACACGGGCGTGCGACGCGACCGTGTACACCACACGGCCTA
130 GCGTGGAAGAAGCGAAGAACCTCACACACGGGCGTGCGACGCGACCGTGTACACCACACGGCCTA
56101237 AC
195 AC
* * * *
56101239 CACATGGGCAGGTCCAAGGCCATGTGAAAATTGGATCTTAACTTTCAAATTTTAATTAAGTCAGG
1 CACACGGGCAGGTCCAAGGCCATGTGAAAACTAGAGCTTAACTTTCAAATTTTAATTAAGTCAGG
* *** *
56101304 AAGCCACACGGGCAAGGCACACGGCCGTGTGTTCAGACATACGGGAGTACAAAATACCACATGGG
66 AAGCCACACGGGCAAGGCACACGGCCGTGTGTTCAGACACACAAAAGTACAAAATACCACACGGG
* * * * *
56101369 CGTGGAAGAAGCGACGAACCTCATACACGGGCGTGCGACGCGACCGTTTGCACCACATGGCCTAA
131 CGTGGAAGAAGCGAAGAACCTCACACACGGGCGTGCGACGCGACCGTGTACACCACACGGCCTAA
56101434 C
196 C
56101435 CACACGGGC
1 CACACGGGC
56101444 GTATCCCAAG
Statistics
Matches: 183, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
196 182 0.99
197 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (196 bp):
CACACGGGCAGGTCCAAGGCCATGTGAAAACTAGAGCTTAACTTTCAAATTTTAATTAAGTCAGG
AAGCCACACGGGCAAGGCACACGGCCGTGTGTTCAGACACACAAAAGTACAAAATACCACACGGG
CGTGGAAGAAGCGAAGAACCTCACACACGGGCGTGCGACGCGACCGTGTACACCACACGGCCTAA
C
Found at i:56101739 original size:15 final size:14
Alignment explanation
Indices: 56101719--56101782 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 14
56101709 ACCCCTTTCC
56101719 CTTTCTTTTCTCTT
1 CTTTCTTTTCTCTT
56101733 ACTTTCTTTT-TCTTT
1 -CTTTCTTTTCTC-TT
*
56101748 CTTTCTCGCTTCT-TT
1 CTTTCT--TTTCTCTT
56101763 CTTTCTTTTCTCCTT
1 CTTTCTTTTCT-CTT
56101778 CTTTC
1 CTTTC
56101783 CCTTTCTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 4 0.10
14 8 0.20
15 26 0.63
16 2 0.05
17 1 0.02
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (14 bp):
CTTTCTTTTCTCTT
Found at i:56101747 original size:25 final size:25
Alignment explanation
Indices: 56101719--56101766 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
56101709 ACCCCTTTCC
*
56101719 CTTTCTTT-TCTCTTACTTTCTTTTT
1 CTTTCTTTCTCGCTT-CTTTCTTTTT
56101744 CTTTCTTTCTCGCTTCTTTCTTT
1 CTTTCTTTCTCGCTTCTTTCTTT
56101767 CTTTTCTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTCTTTCTCGCTTCTTTCTTTTT
Found at i:56101792 original size:19 final size:19
Alignment explanation
Indices: 56101741--56101782 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
56101731 TTACTTTCTT
56101741 TTTCTTTCTTTCTCGCTTC
1 TTTCTTTCTTTCTCGCTTC
56101760 TTTCTTTCTTTTCTC-CTTC
1 TTTCTTTC-TTTCTCGCTTC
56101779 TTTC
1 TTTC
56101783 CCTTTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTCTTTCTTTCTCGCTTC
Found at i:56103612 original size:6 final size:6
Alignment explanation
Indices: 56103601--56103651 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
56103591 AGTCCATCTA
* *
56103601 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTCAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
56103649 TTT
1 TTT
56103652 ATCTTTCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:56103658 original size:12 final size:11
Alignment explanation
Indices: 56103600--56103666 Score: 64
Period size: 12 Copynumber: 5.8 Consensus size: 11
56103590 GAGTCCATCT
*
56103600 ATTTTATTTTT
1 ATTTTATTTTC
*
56103611 ATTTTTATTTTT
1 A-TTTTATTTTC
*
56103623 ATTTTTATTTTT
1 A-TTTTATTTTC
56103635 ATCTTTATTTTC
1 AT-TTTATTTTC
56103647 ATTTTATCTTTC
1 ATTTTAT-TTTC
56103659 -TTTTATTT
1 ATTTTATTT
56103667 ATTTTTGAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
10 2 0.04
11 13 0.25
12 37 0.71
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:56105923 original size:27 final size:28
Alignment explanation
Indices: 56105866--56105935 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56105856 AAATTTGTAC
**
56105866 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56105894 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56105921 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56105936 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56105944 original size:27 final size:27
Alignment explanation
Indices: 56105866--56105947 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56105856 AAATTTGTAC
* *
56105866 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56105894 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56105921 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56105948 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56113999 original size:27 final size:28
Alignment explanation
Indices: 56113942--56114011 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56113932 AAATTTGTAC
**
56113942 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56113970 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56113997 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56114012 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56114020 original size:27 final size:27
Alignment explanation
Indices: 56113942--56114023 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56113932 AAATTTGTAC
* *
56113942 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56113970 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56113997 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56114024 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56116337 original size:9 final size:9
Alignment explanation
Indices: 56116323--56116348 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56116313 CATAAACACA
56116323 TTGAGTGAT
1 TTGAGTGAT
56116332 TTGAGTGAT
1 TTGAGTGAT
56116341 TTGAGTGA
1 TTGAGTGA
56116349 ACCTTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (9 bp):
TTGAGTGAT
Found at i:56121570 original size:40 final size:40
Alignment explanation
Indices: 56121462--56121711 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
56121452 CGGGATTTAA
* * * * *
56121462 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56121502 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56121542 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56121582 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56121622 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56121662 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56121702 CCGGATATAT
1 CCGGATATAT
56121712 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56128832 original size:40 final size:40
Alignment explanation
Indices: 56128724--56128973 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
56128714 CGGGATTTAA
* * * * *
56128724 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56128764 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56128804 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56128844 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56128884 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56128924 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56128964 CCGGATATAT
1 CCGGATATAT
56128974 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56129939 original size:13 final size:13
Alignment explanation
Indices: 56129921--56129946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56129911 CTTTGGTTTT
56129921 TTTATTTTACTAA
1 TTTATTTTACTAA
56129934 TTTATTTTACTAA
1 TTTATTTTACTAA
56129947 ATTACATTTT
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:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTTTACTAA
Found at i:56133704 original size:59 final size:59
Alignment explanation
Indices: 56133612--56133733 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
56133602 AATTACACAA
*
56133612 ACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTATAGCTATTCG
1 ACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTATAACTATTCG
56133671 ACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTATAACTATTCG
1 ACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTATAACTATTCG
56133730 ACTA
1 ACTA
56133734 TCACAAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (59 bp):
ACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTATAACTATTCG
Found at i:56134038 original size:2 final size:2
Alignment explanation
Indices: 56134031--56134061 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
56134021 TGACATTCTC
56134031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56134062 ATCCCATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56140277 original size:27 final size:27
Alignment explanation
Indices: 56140241--56140351 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
56140231 AGCACGGCTG
*
56140241 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGACAGAGCCA
**
56140267 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGATACAGATATTGTGACAGAGCCA
* * *
56140294 CTAGAAACAGATATCTGTGGCAGAGCCA
1 CCAGATACAGATAT-TGTGACAGAGCCA
*
56140322 CCAGAT-CAGATATTTGTGACAAAGCCA
1 CCAGATACAGATA-TTGTGACAGAGCCA
56140349 CCA
1 CCA
56140352 AAATGCTTCC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.07
27 50 0.69
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGATACAGATATTGTGACAGAGCCA
Found at i:56140348 original size:55 final size:54
Alignment explanation
Indices: 56140245--56140349 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 54
56140235 CGGCTGCCAG
* ** *
56140245 AACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCACTAGA
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGACAAAGCCACTAGA
*
56140299 AACAGATATCTGTGGCAGAGCCACCAGAT-CAGATATTTGTGACAAAGCCAC
1 AACAGATAT-TGTGACAGAGCCACCAGATACAGATA-TTGTGACAAAGCCAC
56140350 CAAAATGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 15 0.34
55 29 0.66
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (54 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGACAAAGCCACTAGA
Done.