Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 80 of 352
Found at i:25264465 original size:72 final size:72
Alignment explanation
Indices: 25264348--25264538 Score: 251
Period size: 72 Copynumber: 2.7 Consensus size: 72
25264338 TGACTTGAAA
* ** * * *
25264348 CACACGGTCAAGTTACACGCCCGTGTGCTAGGCTATGTGAGTAATTTAATTTGCATAAAATAGGT
1 CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
*
25264413 GTAAGGT
66 GCAAGGT
* *
25264420 CACACGGCCAAGCCACACGTCCGTATGCTAGGCCGTGTGAGTAATTTAATTTGCATAAAATAGGT
1 CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
*
25264485 GCAGGGT
66 GCAAGGT
*
25264492 CACATGGCCAAGCCACAC-ACCTGTATGCTAGGCTGTGTG-GATAATTT
1 CACACGGCCAAGCCACACGACC-GTATGCTAGGCTGTGTGAG-TAATTT
25264539 TAAGCATGCT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
71 3 0.03
72 102 0.97
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (72 bp):
CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
GCAAGGT
Found at i:25265661 original size:25 final size:25
Alignment explanation
Indices: 25265540--25265695 Score: 140
Period size: 25 Copynumber: 6.3 Consensus size: 25
25265530 GAAACTCTTT
* *
25265540 CGAGCCATATAACAGGAAGCTTATG
1 CGAGCCATGTAACAGGAAGCTCATG
* *
25265565 CGAGCCATGTAACAAGAAGCTTATG
1 CGAGCCATGTAACAGGAAGCTCATG
*
25265590 CGAGCCATGTAAC-GCGAAGCTCTTTG
1 CGAGCCATGTAACAG-GAAGCTC-ATG
*
25265616 -GAGCCATATAACAGGAAGCTCATG
1 CGAGCCATGTAACAGGAAGCTCATG
** *
25265640 TAAGCCATGTAACGGGAAGCTC-TGG
1 CGAGCCATGTAACAGGAAGCTCAT-G
* * * *
25265665 AGAGCCAT-TATCGGGAAGCTCATA
1 CGAGCCATGTAACAGGAAGCTCATG
25265689 CGAGCCA
1 CGAGCCA
25265696 ATGTCGGGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
24 21 0.19
25 86 0.78
26 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
CGAGCCATGTAACAGGAAGCTCATG
Found at i:25265670 original size:75 final size:74
Alignment explanation
Indices: 25265525--25265695 Score: 191
Period size: 75 Copynumber: 2.3 Consensus size: 74
25265515 TGAGTACATA
* * * *
25265525 AACGAGAAACTCTTTCGAGCCATATAACAGGAAGCTTATGCGAGCCATGTAACAAGAAGCTTATG
1 AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCAAGCCATGTAACAAGAAGCTTAGG
*
25265590 CGAGCCATGT
66 AGAGCCAT-T
* * * **
25265600 AACGCGAAGCTCTTTGGAGCCATATAACAGGAAGCTCATGTAAGCCATGTAACGGGAAGCTCT-G
1 AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCAAGCCATGTAACAAGAAGCT-TAG
25265664 GAGAGCCATT
65 GAGAGCCATT
* * * *
25265674 ATCGGGAAGCTCATACGAGCCA
1 AACGAGAAGCTCTTTCGAGCCA
25265696 ATGTCGGGAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
74 18 0.22
75 61 0.76
76 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (74 bp):
AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCAAGCCATGTAACAAGAAGCTTAGG
AGAGCCATT
Found at i:25265791 original size:26 final size:26
Alignment explanation
Indices: 25265723--25265796 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
25265713 GCATGCTAAT
* *
25265723 ATCGAGAAGCTC-TGGAGAGCCATTA
1 ATCGAGAAGCTCACGAAGAGCCATTA
* *
25265748 A-C-AGGAAGCTCACAAAGAGCCTTTA
1 ATCGA-GAAGCTCACGAAGAGCCATTA
25265773 ATCGAGAAGCTCACGAAGAGCCAT
1 ATCGAGAAGCTCACGAAGAGCCAT
25265797 ATATCGGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 11 0.28
26 18 0.46
27 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
ATCGAGAAGCTCACGAAGAGCCATTA
Found at i:25265810 original size:26 final size:25
Alignment explanation
Indices: 25265738--25265810 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
25265728 GAAGCTCTGG
* *
25265738 AGAGCCATTAACAGGAAGCTCACAA
1 AGAGCCATTATCGGGAAGCTCACAA
* * *
25265763 AGAGCCTTTAATCGAGAAGCTCACGA
1 AGAGCCATT-ATCGGGAAGCTCACAA
*
25265789 AGAGCCATATATCGGGATGCTC
1 AGAGCCAT-TATCGGGAAGCTC
25265811 GTAAGAGCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 8 0.21
26 29 0.76
27 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (25 bp):
AGAGCCATTATCGGGAAGCTCACAA
Found at i:25275682 original size:91 final size:92
Alignment explanation
Indices: 25275543--25275718 Score: 248
Period size: 91 Copynumber: 1.9 Consensus size: 92
25275533 TTTGACATGA
* * * * *
25275543 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
**
25275608 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATGTCACGC
* *
25275635 TGCCATGGTATCTTTCAACCATGG-CTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTTAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCTTTCAA
25275698 CCATGGTCTTACACATTTCAT
65 CCATGGTCTTACACATTTCAT
25275719 ATCAGAGAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
90 4 0.05
91 49 0.66
92 21 0.28
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATGTCACGC
Found at i:25275684 original size:45 final size:46
Alignment explanation
Indices: 25275543--25275723 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
25275533 TTTGACATGA
* * * * * *
25275543 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
25275589 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25275635 TGCCATGGTATCTTTCAACCATGG-CTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25275680 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
25275724 AGAGTACACT
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 43 0.36
46 78 0.64
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:25293298 original size:25 final size:24
Alignment explanation
Indices: 25293261--25293313 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 24
25293251 AGAGAAAACG
25293261 AAAAGAAAGAAAT-TTTTTTTTCT
1 AAAAGAAAGAAATATTTTTTTTCT
*
25293284 AAAAGAGAAGCAAATGATTTTTTTTTT
1 AAAAGA-AAG-AAAT-ATTTTTTTTCT
25293311 AAA
1 AAA
25293314 TTTCTGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 3 0.12
25 4 0.16
27 12 0.48
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (24 bp):
AAAAGAAAGAAATATTTTTTTTCT
Found at i:25295876 original size:29 final size:30
Alignment explanation
Indices: 25295829--25295896 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
25295819 TGGCCCAAGA
* *
25295829 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
25295859 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
25295889 GCAAATAT
1 GTAAATAT
25295897 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:25298322 original size:46 final size:46
Alignment explanation
Indices: 25298262--25298673 Score: 691
Period size: 46 Copynumber: 9.0 Consensus size: 46
25298252 AGTGTGCTCT
* *
25298262 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25298308 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25298354 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25298400 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25298446 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25298492 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25298538 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25298584 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
25298630 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
25298674 TTATGTCAAA
Statistics
Matches: 351, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 350 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25303629 original size:43 final size:42
Alignment explanation
Indices: 25303582--25303679 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
25303572 CCTAGACGTA
**
25303582 GTCTTACATGTAATTGAATATCGATGCC-ACTGTCCCAGACAGG
1 GTCTTACATGTAATCAAATA-CGATGCCGA-TGTCCCAGACAGG
* * *
25303625 GTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACATG
1 GTCTTACATGTAATCAAATACGATGCCGATGTCCCAGACAGG
25303667 GTCTTACATGTAA
1 GTCTTACATGTAA
25303680 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCTTACATGTAATCAAATACGATGCCGATGTCCCAGACAGG
Found at i:25307034 original size:44 final size:44
Alignment explanation
Indices: 25306873--25308332 Score: 416
Period size: 44 Copynumber: 31.9 Consensus size: 44
25306863 CATCGTGGTG
* * * * *
25306873 AATCTTATCTCC-TGAAGTTGTAGTGGAGCAGATTAAAGCCAC-
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * *
25306915 AATCTTATCTCCTTGAAGTTGCAGTTGAGCT-GATTGAAGATAGCA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAG-TAGATTGAAGCTA-CA
* ** * * *
25306960 AATCTTATC-CCTCTGAAGTTATAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * *
25307004 AACCTTATCTCCTTAAAGTTGCAGTGGAGTAGGTTGAAGTTA-A
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * ** * *
25307047 AAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAATATGCG
1 AA-TCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * *
25307092 AATCTTATTTCCCTAAAGTTGCAATGGAATGGATT-AATGCTACAAGTTA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAA-GCTAC-----A
* * * *
25307141 CAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACA
1 -AA-TCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCT-ACA
* * * * *
25307188 AATCTTATCT-CTCTAAAGTTGCAGTAGAGCATATTAAAGCTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * *
25307232 AACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * * *
25307276 AATCTTATCT-CTCTGAAGATACAGTAGAGTAGATTGAAGATGCG
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * *
25307320 AATCTTATCT-CTCTAAAGTTGCAGTGGAGCAGATTAAAGATGCG
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * *
25307364 AATCTTATTTTCC-TGATGTTACAGTGGAGTATG-TTGAAGTTATA
1 AATCTTA-TCTCCTTAAAGTTGCAGTGGAGTA-GATTGAAGCTACA
* * * * * ** * **
25307408 AGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCT-ACA
* ** * * * * *
25307453 AATCTTATCT-CTCTGAAGTTGCAGTAAAGCAGCTTAAAGTTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * **
25307497 AACCTTACCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* ** * * * * *
25307541 AGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATCG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTA-CA
* * * ** * *
25307586 AATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAATTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAG---C----TACA
* * * * *
25307637 AATCTTATCTTCC-TGAAGTTGCAATGGAGCATATTGAAGTTACA
1 AATCTTATC-TCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * *
25307681 GATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATAGC-
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTA-CA
* * *** ** * *
25307725 AATCGAAGATAGCAAAT-CTTATCTCTCTAAAGTTGTAGTAAAGCAGATTGAACCTACA
1 AATC----TTATC---TCCTTA-AAGT-TGCAG-TG--G-A--GTAGATTGAAGCTACA
* * ** * * * * *
25307783 AATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAAACTACT
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* *
25307827 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCGACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * *
25307871 AGTCCTAT-ACCTCTAAAGTTGCAGT-AAGTCAGATTAGATCTACCATAGCA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGT-AGATT-GA---AGC-TA-CA
* * * * * * *
25307921 AGTCTTATCACCCTAAAGTTGTAGTGGAATAGACTAAAGCTTAAAGTCATA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGC-T--A--C--A
* * ** * *
25307972 AATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATT---G----AAGCTACA
* * * ** *
25308023 AATCTTATCTCCCTAAAGATGCAGTGGTGTAGATTGAAAATACG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* ** * * *
25308067 AATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * *
25308111 AATCTTATTTCCTTAAAGTTTCAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGA-T--TG----AAGCTACA
* * * * *
25308162 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * *
25308206 AATCTTATTTCCCTGAACTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * *
25308250 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCGACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
* * * * * * * *
25308294 ATTCCTATATCCCTGAAGTTGTAGTGGATTAGAATGAAG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAG
25308333 ATACTTGGAA
Statistics
Matches: 1056, Mismatches: 275, Indels: 172
0.70 0.18 0.11
Matches are distributed among these distances:
42 12 0.01
43 40 0.04
44 606 0.57
45 135 0.13
46 7 0.01
47 4 0.00
48 9 0.01
49 5 0.00
50 33 0.03
51 163 0.15
52 14 0.01
53 3 0.00
54 3 0.00
55 2 0.00
56 1 0.00
57 2 0.00
58 17 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCTACA
Found at i:25307078 original size:88 final size:87
Alignment explanation
Indices: 25306873--25308282 Score: 458
Period size: 88 Copynumber: 15.4 Consensus size: 87
25306863 CATCGTGGTG
* * ** *
25306873 AATCTTATCT-CCTGAAGTTGTAGTGGAGCAGATTAAAGCCAC-AATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTTG
* *
25306936 CAGTTGAGCT-GATTGAAGATAGCA
66 CAGTGGAG-TAGATTGAAGTTA--A
* ** * * * * *
25306960 AATCTTATC-CCTCTGAAGTTATAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCTTAAAGTT
1 AATCTTATCTCC-CTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTT
*
25307024 GCAGTGGAGTAGGTTGAAGTTAA
65 GCAGTGGAGTAGATTGAAGTTAA
* * * * * * * * *
25307047 AAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAATATGCGAATCTTATTTCCCTAAAGTT
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTT
* * *
25307112 GCAATGGAATGGATTAATGCTACAAGTTACA
65 GCAGTGGAGTAGA-T--TG----AAGTTA-A
* * *
25307143 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCT-CTCTAAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGAT-ACAAATCTTATCTCCT-TAAAGT
* * * * *
25307207 TGCAGTAGAGCATATTAAAGCTATA
64 TGCAGTGGAGTAGATTGAAGTTA-A
* * * * * * * *
25307232 AACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACAAATCTTATCT-CTCTGAAGAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCT-TAAAGTT
* * ***
25307296 ACAGTAGAGTAGATTGAAGATGCG
65 GCAGTGGAGTAGATTGAAG-TTAA
* * * * * *
25307320 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGATGCGAATCTTATTTTCC-TGATGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTA-TCTCCTTAAAGTT
*
25307384 ACAGTGGAGTATG-TTGAAGTTATA
65 GCAGTGGAGTA-GATTGAAGTTA-A
* * * * * * * * *
25307408 AGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACAAATCTTATCT-CTCTGAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGAT-ACAAATCTTATCTCCT-TAAAGT
** * * *
25307472 TGCAGTAAAGCAGCTTAAAGTTATA
64 TGCAGTGGAGTAGATTGAAGTTA-A
* * * * * * ** *
25307497 AACCTTACCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAA-TTACAAGTCTTATCTCCCAAAAATT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGATACAAATCTTATCTCCTTAAAGTT
* * **
25307561 GCAGTGGAGCAGACTGAAGATATCG
65 GCAGTGGAGTAGATTGAAG-T-TAA
* * * *
25307586 AATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAATTACAAATCTTATCTTCC-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG------A-TACAAATCTTATC-TCCT
* * * *
25307650 TGAAGTTGCAATGGAGCATATTGAAGTTACA
58 TAAAGTTGCAGTGGAGTAGATTGAAGTTA-A
* * * * ** * *
25307681 GATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATAGC-AATCGAAGATAGCAAAT-CT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATC----TTATC---TCCT
*** ** * **
25307744 TATCTCTCTAAAGTTGTAGTAAAGCAGATTGAACCTACA
58 TA-AAGT-TGCAG-TG--G-A--GTAGATTGAAGTTA-A
* ** * * *
25307783 AATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAA-ACTACTAATCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGA-TACAAATCTTATCTCCTTAAAGTT
**
25307847 GCAGTGGAGTAGATTGAAGCGACA
65 GCAGTGGAGTAGATTGAAGTTA-A
* * * * * * * *
25307871 AGTCCTATAC-CTCTAAAGTTGCAGT-AAGTCAGATTAGATCTACCATAGCAAGTCTTATCACCC
1 AATCTTAT-CTCCCTAAAGTTGCAGTGGAG-CAGATTA-A---A-GATA-CAAATCTTATCTCCT
* * * *
25307934 TAAAGTTGTAGTGGAATAGACTAAAGCTTAAAGTCATA
58 TAAAGTTGCAGTGG---AG--T--AGATTGAAGTTA-A
* * * * * *
25307972 AATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-----A--TACAAATCTTATCTCCTT
* * ** *
25308037 AAAGATGCAGTGGTGTAGATTGAAAATACG
59 AAAGTTGCAGTGGAGTAGATTGAAGTTA-A
* * ** * * * *
25308067 AATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCTTAAAGTTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTTG
* *
25308132 CAGTGGAATGGATTAATGCTACAAGTTACA
66 CAGTGGAGTAGA-T--TG----AAGTTA-A
* * * * * * * * *
25308162 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAACTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTTG
* * *
25308227 CAGTGGAGCAGATTGAAGCTACT
66 CAGTGGAGTAGATTGAAGTTA-A
* *
25308250 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
25308283 CTGAAGCGAC
Statistics
Matches: 983, Mismatches: 250, Indels: 179
0.70 0.18 0.13
Matches are distributed among these distances:
87 17 0.02
88 355 0.36
89 172 0.17
90 6 0.01
91 5 0.01
92 6 0.01
93 6 0.01
94 33 0.03
95 187 0.19
96 63 0.06
97 9 0.01
98 3 0.00
99 3 0.00
100 3 0.00
101 36 0.04
102 77 0.08
103 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (87 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCTTAAAGTTG
CAGTGGAGTAGATTGAAGTTAA
Found at i:25307321 original size:228 final size:227
Alignment explanation
Indices: 25306913--25307347 Score: 638
Period size: 228 Copynumber: 1.9 Consensus size: 227
25306903 GATTAAAGCC
* * * * * * *
25306913 ACAATCTTATCTCCTTGAAGTTGCAGTTGAGCTGATTGAAGATAGCAAATCTTATCCCTCTGAAG
1 ACAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCCCTCTAAAG
* * * *
25306978 TTATAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCTTAAAGTTGCAGTGGAGTAGGTTGAAG
66 TTACAGTAGAGCAGATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAAG
* * * * *
25307043 TTAAAAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAATATGCGAATCTTATTTCCCTAA
131 TTAAAAGTCTTATCTCCCTGAAGATACAATAGAGTAGATTGAAGATGCGAATCTTATCTCCCTAA
25307108 AGTTGCAATGGAATGGATTAATGCTACAAGTT
196 AGTTGCAATGGAATGGATTAATGCTACAAGTT
*
25307140 ACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCTCTAAA
1 ACAA-TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCCCTCTAAA
* *
25307205 GTTGCAGTAGAGCATATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAA
65 GTTACAGTAGAGCAGATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAA
* * *
25307270 GTTACAAA-TCTTATCTCTCTGAAGATACAGTAGAGTAGATTGAAGATGCGAATCTTATCTCTCT
130 GTTA-AAAGTCTTATCTCCCTGAAGATACAATAGAGTAGATTGAAGATGCGAATCTTATCTCCCT
*
25307334 AAAGTTGCAGTGGA
194 AAAGTTGCAATGGA
25307348 GCAGATTAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
227 4 0.02
228 176 0.96
229 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (227 bp):
ACAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCCCTCTAAAG
TTACAGTAGAGCAGATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGGTTGAAG
TTAAAAGTCTTATCTCCCTGAAGATACAATAGAGTAGATTGAAGATGCGAATCTTATCTCCCTAA
AGTTGCAATGGAATGGATTAATGCTACAAGTT
Found at i:25307461 original size:265 final size:266
Alignment explanation
Indices: 25307135--25307624 Score: 687
Period size: 265 Copynumber: 1.8 Consensus size: 266
25307125 TTAATGCTAC
* * * *
25307135 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
* * * *
25307200 CTAAAGTTGCAGTAGAGCATATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGG
66 CTAAAGTTGCAGTAAAGCAGATTAAAGCTATAAACCTTACATCCCTAAAGTTGCAGTGGAGCAGG
* ** * * *
25307265 TTGAAGTTACAAATCTTATCTCTCTGAAGA-TACAGTAGAGTAGATTGAAGAT-GCGAATCTTAT
131 TTGAAATTACAAATCTTATCTC-CCAAAAATTACAGTAGAGCAGACTGAAGATAGCGAATCTTAT
* *
25307328 CTCTCTAAAGTTGCAGTGGAGCAGATTAAAGATGCGAATCTTATTTTCCTGATGTTACAGTGGAG
195 CTCCCTAAAGTTGCAGTGGAACAGATTAAAGATGCGAATCTTATTTTCCTGATGTTACAGTGGAG
25307393 TATGTTG
260 TATGTTG
* *
25307400 AAGTTATAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
* * * * *
25307465 CTGAAGTTGCAGTAAAGCAGCTTAAAGTTATAAACCTTACCTCCTTAAAGTTGCAGTGGAGCAGG
66 CTAAAGTTGCAGTAAAGCAGATTAAAGCTATAAACCTTACATCCCTAAAGTTGCAGTGGAGCAGG
* * * * *
25307530 TTGAAATTACAAGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATCGAATCTTATT
131 TTGAAATTACAAATCTTATCTCCCAAAAATTACAGTAGAGCAGACTGAAGATAGCGAATCTTATC
* *
25307595 TCCCTGAAGTTGCAGTGGAACATATTAAAG
196 TCCCTAAAGTTGCAGTGGAACAGATTAAAG
25307625 CTACAAATTA
Statistics
Matches: 193, Mismatches: 30, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
264 4 0.02
265 153 0.79
266 36 0.19
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (266 bp):
AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
CTAAAGTTGCAGTAAAGCAGATTAAAGCTATAAACCTTACATCCCTAAAGTTGCAGTGGAGCAGG
TTGAAATTACAAATCTTATCTCCCAAAAATTACAGTAGAGCAGACTGAAGATAGCGAATCTTATC
TCCCTAAAGTTGCAGTGGAACAGATTAAAGATGCGAATCTTATTTTCCTGATGTTACAGTGGAGT
ATGTTG
Found at i:25307522 original size:133 final size:132
Alignment explanation
Indices: 25307135--25307624 Score: 516
Period size: 133 Copynumber: 3.7 Consensus size: 132
25307125 TTAATGCTAC
* *
25307135 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
* *
25307200 CTAAAGTTGCAGTAGAGCATATTAAAGCTATAAACCTTATATCCCTAAAGTTGCAGTGGAGTAGG
66 CTAAAGTTGCAGTAGAGCAGATTAAAGATATAAACCTTATAT-CCTAAAGTTGCAGTGGAGTAGG
25307265 TTG
130 TTG
* * * * * * * *
25307268 AAGTTACAAATCTTATCTCTCTGAAGA-TACAGTAGAGTAGATTGAAGAT-GCGAATCTTATCTC
1 AAGTTACAAGTCTTATCTCCCT-AAAATTACAATGGAGCAGATTGAAGATAACAAATCTTATCTC
* *** * * * * * *
25307331 TCTAAAGTTGCAGTGGAGCAGATTAAAGATGCGAATCTTATTTTCCTGATGTTACAGTGGAGTAT
65 TCTAAAGTTGCAGTAGAGCAGATTAAAGATATAAACCTTA-TATCCTAAAGTTGCAGTGGAGTAG
25307396 GTTG
129 GTTG
* * * *
25307400 AAGTTATAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * * ** *
25307465 CTGAAGTTGCAGTAAAGCAGCTTAAAGTTATAAACCTTACCTCCTTAAAGTTGCAGTGGAGCAGG
66 CTAAAGTTGCAGTAGAGCAGATTAAAGATATAAACCTTATATCC-TAAAGTTGCAGTGGAGTAGG
25307530 TTG
130 TTG
* * * * * * * * *
25307533 AAATTACAAGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATCGAATCTTATTTCC
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * *
25307598 CTGAAGTTGCAGTGGAACATATTAAAG
66 CTAAAGTTGCAGTAGAGCAGATTAAAG
25307625 CTACAAATTA
Statistics
Matches: 284, Mismatches: 68, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
131 3 0.01
132 104 0.37
133 175 0.62
134 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
CTAAAGTTGCAGTAGAGCAGATTAAAGATATAAACCTTATATCCTAAAGTTGCAGTGGAGTAGGT
TG
Found at i:25307675 original size:96 final size:95
Alignment explanation
Indices: 25307533--25307708 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 95
25307523 GAGCAGGTTG
* * *
25307533 AAATTACAAGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATC-GAATCTTATTTC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATA-CAG-ATCTTATCTC
25307597 CCTGAAGTTGCAGTGGAACATATTAAAGCTAC
64 CCTGAAGTTGCAGTGGAACATATTAAAGCTAC
* ** * * * *
25307629 AAATTACAAATCTTATCTTCCTGAAGTTGCAATGGAGCATATTGAAGTTACAGATCTTATCTCCC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATACAGATCTTATCTCCC
*
25307694 TGAAGTTGTAGTGGA
66 TGAAGTTGCAGTGGA
25307709 GTAGATCGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
95 26 0.38
96 42 0.62
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATACAGATCTTATCTCCC
TGAAGTTGCAGTGGAACATATTAAAGCTAC
Found at i:25307731 original size:13 final size:13
Alignment explanation
Indices: 25307713--25307739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25307703 AGTGGAGTAG
25307713 ATCGAAGATAGCA
1 ATCGAAGATAGCA
25307726 ATCGAAGATAGCA
1 ATCGAAGATAGCA
25307739 A
1 A
25307740 ATCTTATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (13 bp):
ATCGAAGATAGCA
Found at i:25307989 original size:51 final size:51
Alignment explanation
Indices: 25307923--25308049 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 51
25307913 CCATAGCAAG
* * * *
25307923 TCTTATCACCCTAAAGTTGTAGTGGAATAGACTAAAGCTTAAAGTCATAAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGCTCAAAGTCACAAA
* * * * * *
25307974 TCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGCTCAAAGTCACAAA
* *
25308025 TCTTATCTCCCTAAAGATGCAGTGG
1 TCTTATCTCCCTAAAGTTGTAGTGG
25308050 TGTAGATTGA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (51 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGCTCAAAGTCACAAA
Found at i:25308248 original size:95 final size:95
Alignment explanation
Indices: 25308067--25308248 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 95
25308057 TGAAAATACG
* * * * *
25308067 AATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCTTAAAGTTT
1 AATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAACTTG
**
25308132 CAGTGGAATGGATTAATGCTACAAGTTACA
66 CAGTGGAACAGATTAATGCTACAAGTTACA
* * * *
25308162 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAACTTG
1 AATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAACTTG
*
25308227 CAGTGGAGCAGATTGAA-GCTAC
66 CAGTGGAACAGATT-AATGCTAC
25308249 TAATCTTATC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 72 0.97
96 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (95 bp):
AATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAACTTG
CAGTGGAACAGATTAATGCTACAAGTTACA
Found at i:25308276 original size:139 final size:139
Alignment explanation
Indices: 25307971--25308282 Score: 401
Period size: 139 Copynumber: 2.2 Consensus size: 139
25307961 TTAAAGTCAT
* * *
25307971 AAATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAATCTTATCTCCC
1 AAATCTTATCTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * *
25308036 TAAAGATGCAGTGGTGTAGATTGAAAATACGAATCTTATCTCCTTGAAGTAACAGTGGAGCAGAT
66 TAAAGATACAGTGGAGTAGATTGAAAATACGAATCTTATCTCCCTGAACTAACAGTGGAGCAGAT
*
25308101 TGAAGATGC
131 TGAAGATAC
* ** *
25308110 AAATCTTATTTCCTTAAAGTT-TCAGTGGAATGGATTAATGCTACAAGTTACAAATCTTATCTCC
1 AAATCTTATCTCCTTAAAGTTGT-AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* * * * **
25308174 CTAAAGTTACAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAACTTGCAGTGGAGCAGA
65 CTAAAGATACAGTGGAGTAGATTGAAAATACGAATCTTATCTCCCTGAACTAACAGTGGAGCAGA
*
25308239 TTGAAGCTAC
130 TTGAAGATAC
* * * *
25308249 TAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 AAATCTTATCTCCTTAAAGTTGTAGTGGAACAGA
25308283 CTGAAGCGAC
Statistics
Matches: 145, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
138 1 0.01
139 143 0.99
140 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (139 bp):
AAATCTTATCTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
TAAAGATACAGTGGAGTAGATTGAAAATACGAATCTTATCTCCCTGAACTAACAGTGGAGCAGAT
TGAAGATAC
Found at i:25309734 original size:3 final size:3
Alignment explanation
Indices: 25309726--25309780 Score: 51
Period size: 3 Copynumber: 17.7 Consensus size: 3
25309716 TTTTTCTCAC
*
25309726 TAT TAT TAT TAT TAT T-T TAT CTAT TAT TAG TAT TATT TATT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TA-T TAT -TAT
25309774 T-T TAT TA
1 TAT TAT TA
25309781 CAAATTGCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 4 0.09
3 28 0.62
4 13 0.29
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25309743 original size:24 final size:25
Alignment explanation
Indices: 25309715--25309767 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
25309705 TATTTTTGTG
* *
25309715 TTTTTTCTCACTATTATTATTA-TTA
1 TTTTATCT-ACTATTAGTATTATTTA
*
25309740 TTTTATCTATTATTAGTATTATTTA
1 TTTTATCTACTATTAGTATTATTTA
25309765 TTT
1 TTT
25309768 ATGTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTATCTACTATTAGTATTATTTA
Found at i:25309749 original size:21 final size:20
Alignment explanation
Indices: 25309725--25309780 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
25309715 TTTTTTCTCA
25309725 CTATTATTATTATTATTTTAT
1 CTATTATTATTATTA-TTTAT
*
25309746 CTATTATTAGTATTATTTAT
1 CTATTATTATTATTATTTAT
*
25309766 TTATGTATT-TTATTA
1 CTAT-TATTATTATTA
25309781 CAAATTGCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
CTATTATTATTATTATTTAT
Found at i:25313342 original size:137 final size:137
Alignment explanation
Indices: 25313086--25313351 Score: 363
Period size: 137 Copynumber: 1.9 Consensus size: 137
25313076 TTGATAGCAT
* * *
25313086 CACCAATATTATTCCTGCTTTGTCAGCTCAAAAATGTGTTCAAAAAGGGTTTGAGGCATATCTAG
1 CACCAATATTATTCATGCTTTGTCAGCTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
** * **
25313151 CATATATTTTAGATACTAGAACTTCAAAATTGAAGTTGGAATAATTTTTTATCATTTGTAATTTG
66 CATATATTTTAGATACTAGAACTTCAAAATCCAAGTTGGAATAAGTTTCAATCATTTGTAATTTG
25313216 ACAACGC
131 ACAACGC
* ** **
25313223 CACCAATATTATTTATGCTTTGTCAGCTCAAAAATGTGTTTGAAAAGGGTGTGAGGTGTATCTAA
1 CACCAATATTATTCATGCTTTGTCAGCTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
* * * *
25313288 CATATATTTTAGATATTAGAATTTCAAAA-CCACAGTTGGAATCAGTTTCAATCATTTGTGATTT
66 CATATATTTTAGATACTAGAACTTCAAAATCCA-AGTTGGAATAAGTTTCAATCATTTGTAATTT
25313352 TGTGGATGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
136 1 0.01
137 110 0.99
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (137 bp):
CACCAATATTATTCATGCTTTGTCAGCTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
CATATATTTTAGATACTAGAACTTCAAAATCCAAGTTGGAATAAGTTTCAATCATTTGTAATTTG
ACAACGC
Found at i:25322863 original size:12 final size:13
Alignment explanation
Indices: 25322844--25322898 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
25322834 CATTAAAGTC
*
25322844 AAATTTAATTATA
1 AAATTAAATTATA
*
25322857 AAATTAAATT-TT
1 AAATTAAATTATA
*
25322869 AAATTTAATTATA
1 AAATTAAATTATA
25322882 AAATTAAATT-TA
1 AAATTAAATTATA
25322894 AAATT
1 AAATT
25322899 TAAGTACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 17 0.47
13 19 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTAAATTATA
Found at i:25322874 original size:25 final size:25
Alignment explanation
Indices: 25322844--25322915 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
25322834 CATTAAAGTC
*
25322844 AAATTTAATTATAAAATTAAATTTT
1 AAATTTAATTATAAAATTAAATTTA
25322869 AAATTTAATTATAAAATTAAATTTA
1 AAATTTAATTATAAAATTAAATTTA
*
25322894 AAATTTAAGTACT-AAATTAAAT
1 AAATTTAATTA-TAAAATTAAAT
25322916 CTTGAACCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 43 0.98
26 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
AAATTTAATTATAAAATTAAATTTA
Found at i:25326698 original size:12 final size:12
Alignment explanation
Indices: 25326683--25326713 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25326673 TTCTCTTTTA
25326683 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
25326695 TTTTTCTTTCTC
1 TTTTTCTTTCCC
25326707 TTTTTCT
1 TTTTTCT
25326714 CCCCTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:25328262 original size:12 final size:13
Alignment explanation
Indices: 25328245--25328275 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
25328235 TGTTTTAAGC
25328245 TTTAATT-TTATT
1 TTTAATTATTATT
25328257 TTTAATTATTATT
1 TTTAATTATTATT
25328270 TTTAAT
1 TTTAAT
25328276 AGATTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:25330580 original size:62 final size:62
Alignment explanation
Indices: 25330402--25330840 Score: 528
Period size: 62 Copynumber: 7.1 Consensus size: 62
25330392 GCCTGGACAA
* * * *
25330402 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTAGGCACACGTCCGTGTCCATG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
** * * *
25330464 GTTGTGTGGTTATTAAGTACAAACAGT---TTACAAGGCCTGGGTACATGCCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * * *
25330523 GCTGTGTGGCTCTTAAGCACAAACAGTGAGTTACAAGGCCTGGGCACATGCCTGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * * *
25330585 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTATACA-GCCTGGGCTCACGCTCATGTCCTTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACA-AGGCCTGGGCACACGCCCGTGTCCCTG
* * * *
25330647 GCCGTATGGTTTTTAAGTACAAACAGTGAGTTACACGACCTGGGCACACGCCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * * * *
25330709 GCCATGTGGTTCTTAAGCACAAACAGTGAGTTACATA-GCTTGGGCACACACCCCTGTCCTTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACA-AGGCCTGGGCACACGCCCGTGTCCCTG
* * * *
25330771 GCCGTGTGGTTCTTAAGCACAAACAGTGAGTTACATGGCCTGGGCACGCACCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
25330833 GCCGTGTG
1 GCCGTGTG
25330841 AACCCTGCAC
Statistics
Matches: 320, Mismatches: 50, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
59 49 0.15
62 270 0.84
63 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (62 bp):
GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
Found at i:25332751 original size:11 final size:11
Alignment explanation
Indices: 25332735--25332773 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25332725 ATTTATGTTC
25332735 ATTTAAAACTT
1 ATTTAAAACTT
*
25332746 ATTTAATAAATT
1 ATTTAA-AACTT
*
25332758 ATTTAAAGCTT
1 ATTTAAAACTT
25332769 ATTTA
1 ATTTA
25332774 TTGTTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (11 bp):
ATTTAAAACTT
Found at i:25333799 original size:27 final size:27
Alignment explanation
Indices: 25333761--25333813 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
25333751 GATTTTTTAG
25333761 CTTTAAATGCACCCAAGTTAGCCTAAA
1 CTTTAAATGCACCCAAGTTAGCCTAAA
*
25333788 CTTTAAATGCACCTAAGTTAGCCTAA
1 CTTTAAATGCACCCAAGTTAGCCTAA
25333814 CTATTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (27 bp):
CTTTAAATGCACCCAAGTTAGCCTAAA
Found at i:25334131 original size:23 final size:23
Alignment explanation
Indices: 25334083--25334129 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
25334073 AAAAACAATC
*
25334083 TACAAATCAAATCTCTTATGATT
1 TACAAATCAAATCTCTTAAGATT
25334106 TACAGAATCAAATCT-TCTAAGATT
1 TACA-AATCAAATCTCT-TAAGATT
25334130 ACTTCCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (23 bp):
TACAAATCAAATCTCTTAAGATT
Found at i:25337281 original size:25 final size:25
Alignment explanation
Indices: 25337253--25337326 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
25337243 AGGGTTACCG
*
25337253 ATTTATAGCTCGTCAGAGCATACTA
1 ATTTATAGCTCGTAAGAGCATACTA
**
25337278 ATTTATAGCTCGTAAGAGCATACCG
1 ATTTATAGCTCGTAAGAGCATACTA
* *
25337303 ATTCATAGCTCGTGAGAGCATACT
1 ATTTATAGCTCGTAAGAGCATACT
25337327 GATCTTCAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (25 bp):
ATTTATAGCTCGTAAGAGCATACTA
Found at i:25337323 original size:50 final size:50
Alignment explanation
Indices: 25337248--25337357 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
25337238 TCATTAGGGT
* * *
25337248 TACCGATTTATAGCTCGTCAGAGCATACTAAT-TTATAGCTCGTAA-GAGCA
1 TACCGATTCATAGCTCGTCAGAGCATACTAATCTT-CAGCTC-AAATGAGCA
* *
25337298 TACCGATTCATAGCTCGTGAGAGCATACTGATCTTCAGCTCAAATGAGCA
1 TACCGATTCATAGCTCGTCAGAGCATACTAATCTTCAGCTCAAATGAGCA
25337348 TACCGATTCA
1 TACCGATTCA
25337358 CAACTTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
49 2 0.04
50 49 0.92
51 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (50 bp):
TACCGATTCATAGCTCGTCAGAGCATACTAATCTTCAGCTCAAATGAGCA
Found at i:25337337 original size:25 final size:24
Alignment explanation
Indices: 25337258--25337338 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
25337248 TACCGATTTA
* * *
25337258 TAGCTCGTCAGAGCATACTAATTT
1 TAGCTCGTAAGAGCATACTGATCT
* *
25337282 ATAGCTCGTAAGAGCATACCGATTCA
1 -TAGCTCGTAAGAGCATACTGA-TCT
*
25337308 TAGCTCGTGAGAGCATACTGATCT
1 TAGCTCGTAAGAGCATACTGATCT
25337332 TCAGCTC
1 T-AGCTC
25337339 AAATGAGCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 3 0.07
25 42 0.91
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
TAGCTCGTAAGAGCATACTGATCT
Found at i:25342601 original size:54 final size:54
Alignment explanation
Indices: 25342543--25342687 Score: 150
Period size: 54 Copynumber: 2.7 Consensus size: 54
25342533 CTACCCAGTG
* * * **
25342543 TTTATTGTCCTAATGAACTACCCCGTTTTTATTGTTCTGGCAGACTA-TCCTGTT
1 TTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGCAGACTATTCC-GTT
* * *
25342597 TTTATTGTCCTAGTGGACTACCCCGTGTTTATTATCCCAGCGGACTATTCCGTT
1 TTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGCAGACTATTCCGTT
* * * *
25342651 TTTATTGTCCCAA-GAAACTATCTCATGTTTATTATCC
1 TTTATTGTCCTAATG-AACTACCCCGTGTTTATTATCC
25342688 TGGAAGACTC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 71 0.95
55 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (54 bp):
TTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGCAGACTATTCCGTT
Found at i:25342641 original size:27 final size:27
Alignment explanation
Indices: 25342531--25342662 Score: 93
Period size: 27 Copynumber: 4.9 Consensus size: 27
25342521 CATTTTGGTA
* * **
25342531 GACTACCCAGTGTTTATTGTCCTAATG
1 GACTACCCCGTGTTTATTGTCCCAGCG
* * * ** *
25342558 AACTACCCCGTTTTTATTGTTCTGGCA
1 GACTACCCCGTGTTTATTGTCCCAGCG
* * * * *
25342585 GACTATCCTGTTTTTATTGTCCTAGTG
1 GACTACCCCGTGTTTATTGTCCCAGCG
*
25342612 GACTACCCCGTGTTTATTATCCCAGCG
1 GACTACCCCGTGTTTATTGTCCCAGCG
** *
25342639 GACTATTCCGTTTTTATTGTCCCA
1 GACTACCCCGTGTTTATTGTCCCA
25342663 AGAAACTATC
Statistics
Matches: 80, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (27 bp):
GACTACCCCGTGTTTATTGTCCCAGCG
Found at i:25342836 original size:67 final size:67
Alignment explanation
Indices: 25342703--25342860 Score: 160
Period size: 67 Copynumber: 2.4 Consensus size: 67
25342693 GACTCTCTAT
* * * *
25342703 GTTTCCATAGTCGAGCTATGGTTTTACACATCATACCCCATATTTAATGTCCTGATGAACTTTAT
1 GTTTCCATAGTCGAGCTATGGTCTTACACATCAAACACCATATTTAATGTCCTGATGAACTCTAT
25342768 TG
66 TG
* * * * * *
25342770 GTTTCCATAG-CTGAGCTATGGTCTTACACCTTAAACACCATGTTTAGTGTTCTGGT-AGACTCT
1 GTTTCCATAGTC-GAGCTATGGTCTTACACATCAAACACCATATTTAATGTCCTGATGA-ACTCT
25342833 ATTG
64 ATTG
* *
25342837 GTTGCCATAGACGTA-CTATGGTCT
1 GTTTCCATAGTCG-AGCTATGGTCT
25342861 CATACCTTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
66 2 0.03
67 72 0.95
68 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (67 bp):
GTTTCCATAGTCGAGCTATGGTCTTACACATCAAACACCATATTTAATGTCCTGATGAACTCTAT
TG
Found at i:25352658 original size:6 final size:6
Alignment explanation
Indices: 25352640--25352750 Score: 163
Period size: 6 Copynumber: 18.3 Consensus size: 6
25352630 AAGAAACATT
25352640 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
25352688 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
25352737 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
25352751 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
5 3 0.03
6 88 0.92
7 4 0.04
8 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:25352923 original size:27 final size:26
Alignment explanation
Indices: 25352875--25352976 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
25352865 GCTCAGTTAT
* *
25352875 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
* *
25352902 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
*
25352928 CAGATAGTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
25352956 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
25352977 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:25353163 original size:22 final size:22
Alignment explanation
Indices: 25353135--25353198 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
25353125 GCAAATACGT
*
25353135 TTGGCACACAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* * *
25353157 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAAG
*
25353179 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
25353199 GAAGGCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:25353669 original size:27 final size:27
Alignment explanation
Indices: 25353611--25354259 Score: 677
Period size: 27 Copynumber: 24.3 Consensus size: 27
25353601 AGGGGTAAAA
* * * *
25353611 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25353637 CGGTAATTCCACCATACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25353664 TAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25353691 TGGTAATTC-ACCCTACAGGGGTATTA
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25353717 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
25353744 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
25353771 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25353798 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
25353825 CGGTATTTCTACCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
25353852 CGATATTTCTACCCTACA-AGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25353878 CGGTAATTCTACCATACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** * * *
25353905 CAGTATTTCTACCCCACA-AGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
25353931 CAGTAATTCTACCCTACAGGGGAATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25353958 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25353985 CGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25354012 CGGT-ATTCTACCCTACA-AGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25354037 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
25354064 CGATATTTCTACCCTACA-AGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25354090 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25354117 TAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25354144 TAGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25354171 CGATAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * **
25354198 TAGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* * **
25354225 TGATAATTTTA-CAAACCAGGGGTATTT
1 TGGTAATTCTACCCTA-CAGGGGTATTT
25354252 TGGTAATT
1 TGGTAATT
25354260 TTATAAACAA
Statistics
Matches: 537, Mismatches: 77, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
25 11 0.02
26 130 0.24
27 395 0.74
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:25353735 original size:80 final size:81
Alignment explanation
Indices: 25353612--25354197 Score: 774
Period size: 80 Copynumber: 7.3 Consensus size: 81
25353602 GGGGTAAAAT
* * * * * * *
25353612 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCATACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
* * *
25353676 CCTATAGGGGTATTTT
66 CCTACAAGGGTATTTC
* * * *
25353692 GGTAATTC-ACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGGTATTTTGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
* *
25353756 CCTACAGGGGTATTTT
66 CCTACAAGGGTATTTC
* **
25353772 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCCACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
*
25353837 CCTATAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * *
25353853 GATATTTCTACCCTACA-AGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
*
25353917 CCCACAA-GGTATTTC
66 CCTACAAGGGTATTTC
* * **
25353932 AGTAATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
25353997 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
25354013 GGT-ATTCTACCCTACA-AGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCGATATTTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TATTTCTA
25354075 CCCTACAA-GGTATTTC
65 CCCTACAAGGGTATTTC
** *
25354091 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
25354156 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
25354172 GATAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
25354198 TAGTAATTTT
Statistics
Matches: 451, Mismatches: 46, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
78 14 0.03
79 88 0.20
80 224 0.50
81 125 0.28
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
CCTACAAGGGTATTTC
Found at i:25353782 original size:54 final size:54
Alignment explanation
Indices: 25353612--25354197 Score: 736
Period size: 53 Copynumber: 11.0 Consensus size: 54
25353602 GGGGTAAAAT
* * * * * * *
25353612 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
25353665 AGTAATTCTACCCTATAGGGGTATTTTGGTAATTC-ACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
25353718 GATAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
25353772 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * * *
25353826 GGTATTTCTACCCTATAAGGGTATTTCGATATTTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
25353879 GGTAATTCTACCATACAGGGGTATTTCAGTATTTCTACCCCACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
25353932 AGTAATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
25353986 GGTATTTCTACCCTACAAGGGTATTTCGGT-ATTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
25354038 GGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * *
25354091 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
25354145 AGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
25354198 TAGTAATTTT
Statistics
Matches: 466, Mismatches: 62, Indels: 9
0.87 0.12 0.02
Matches are distributed among these distances:
52 35 0.08
53 225 0.48
54 206 0.44
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:25354260 original size:54 final size:54
Alignment explanation
Indices: 25354188--25354429 Score: 330
Period size: 54 Copynumber: 4.5 Consensus size: 54
25354178 TCTACCCTAT
* * * *
25354188 AGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACC
* *
25354242 AGGGGTATTTTGGTAATTTTATAAACAAAGTGTATTTT-AGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGA-TAATTTTACAAACC
* * *
25354296 AGGGTTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACC
* * *
25354350 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTA--TAG-TAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACC
*
25354401 AGGGGTATTTTGGTAATTTTGTAAACCAA
1 AGGGGTATTTTGGTAATTTTATAAACCAA
25354430 AGTATTCTAA
Statistics
Matches: 169, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
51 40 0.24
52 2 0.01
53 1 0.01
54 126 0.75
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGATAATTTTACAAACC
Found at i:25354426 original size:27 final size:27
Alignment explanation
Indices: 25354188--25354420 Score: 292
Period size: 27 Copynumber: 8.7 Consensus size: 27
25354178 TCTACCCTAT
* *
25354188 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
25354215 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
25354242 AGGGGTATTTTGGTAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
25354269 AAGTGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
25354296 AGGGTTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
25354323 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
25354350 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
25354377 AAGGGTA---TAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
25354401 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
25354421 GTAAACCAAA
Statistics
Matches: 172, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.11
27 153 0.89
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:25357695 original size:28 final size:28
Alignment explanation
Indices: 25357663--25357717 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
25357653 CTCCATGAAT
25357663 GCTTTCCTTTCCATAAATTGCCACAAAG
1 GCTTTCCTTTCCATAAATTGCCACAAAG
** * *
25357691 GCTTTTGTTTTCATATATTGCCACAAA
1 GCTTTCCTTTCCATAAATTGCCACAAA
25357718 AGCGTCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (28 bp):
GCTTTCCTTTCCATAAATTGCCACAAAG
Found at i:25357736 original size:26 final size:27
Alignment explanation
Indices: 25357700--25357777 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
25357690 GGCTTTTGTT
* *
25357700 TTCATATATTGCCACAAAAGCGTC-TA
1 TTCATAGATTGCCACAAAGGCGTCATA
* * *
25357726 TTCATAGATTGCCATAAAGGCATCCATT
1 TTCATAGATTGCCACAAAGGCGT-CATA
*
25357754 TTCATAGATTACCACAAAGGCGTC
1 TTCATAGATTGCCACAAAGGCGTC
25357778 CATTTCTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.45
27 2 0.05
28 21 0.50
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (27 bp):
TTCATAGATTGCCACAAAGGCGTCATA
Found at i:25357760 original size:28 final size:28
Alignment explanation
Indices: 25357726--25357782 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
25357716 AAAGCGTCTA
* *
25357726 TTCATAGATTGCCATAAAGGCATCCATT
1 TTCATAGATTACCACAAAGGCATCCATT
*
25357754 TTCATAGATTACCACAAAGGCGTCCATT
1 TTCATAGATTACCACAAAGGCATCCATT
25357782 T
1 T
25357783 CTATACGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (28 bp):
TTCATAGATTACCACAAAGGCATCCATT
Found at i:25359587 original size:10 final size:10
Alignment explanation
Indices: 25359572--25359596 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25359562 AAGGTAATCC
25359572 TATTTCCCCT
1 TATTTCCCCT
25359582 TATTTCCCCT
1 TATTTCCCCT
25359592 TATTT
1 TATTT
25359597 TCTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTTCCCCT
Found at i:25361896 original size:17 final size:17
Alignment explanation
Indices: 25361874--25361906 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25361864 AAGATGATAA
25361874 TTTCTT-TCTTCTTATCC
1 TTTCTTATCTT-TTATCC
25361891 TTTCTTATCTTTTATC
1 TTTCTTATCTTTTATC
25361907 GTCTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCTTATCTTTTATCC
Found at i:25362824 original size:11 final size:11
Alignment explanation
Indices: 25362808--25362832 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25362798 TCACATGGCC
25362808 AAAACACATTT
1 AAAACACATTT
25362819 AAAACACATTT
1 AAAACACATTT
25362830 AAA
1 AAA
25362833 GCATACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAACACATTT
Found at i:25364373 original size:62 final size:62
Alignment explanation
Indices: 25364298--25364416 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
25364288 AAGTACAAGA
** * *
25364298 TAGAGATCACACAGGTTAGGGACATGAGCATGTGTCCAGGCCGTGTGACTTACTGTTGCTTT
1 TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTTGCTTT
* ** *
25364360 TAGAGTTCACACAGGCCATTGACACGGGCATGTGTCCAGGCCGTGTGACTCACTGTT
1 TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTT
25364417 TACAATTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (62 bp):
TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTTGCTTT
Found at i:25364872 original size:19 final size:19
Alignment explanation
Indices: 25364824--25364883 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 19
25364814 AATCTTTAAG
25364824 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25364843 G--ATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25364860 GATATGCAATCTTGAGGATAT
1 GATATGCAATCTT-A-GATAT
25364881 GAT
1 GAT
25364884 CTTGTAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 16 0.46
19 10 0.29
20 1 0.03
21 8 0.23
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25370148 original size:40 final size:39
Alignment explanation
Indices: 25370043--25370258 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 39
25370033 TGGATGATAA
*
25370043 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
*
25370083 CCGGGCTAAG-CCCGAAGGCAGTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
25370122 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
25370162 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
25370202 CCGGGCT-AGTCCCGAAGGCATTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
25370241 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25370259 TACTTGGTGT
Statistics
Matches: 160, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
38 6 0.04
39 70 0.44
40 84 0.52
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:25370213 original size:79 final size:79
Alignment explanation
Indices: 25370039--25370248 Score: 293
Period size: 79 Copynumber: 2.7 Consensus size: 79
25370029 TATTTGGATG
* *
25370039 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCA
25370103 GTTGTGCGAGCTACT
65 GTTGTGCGAGCTACT
* * *
25370118 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCTGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
* *
25370183 TTTGTGCGAGTTACT
65 GTTGTGCGAGCTACT
*
25370198 ATAACCGGGCT-AGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAA
25370249 ATTCCGAAGG
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
78 8 0.07
79 77 0.65
80 33 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAG
TTGTGCGAGCTACT
Found at i:25378177 original size:40 final size:39
Alignment explanation
Indices: 25378073--25378277 Score: 203
Period size: 40 Copynumber: 5.2 Consensus size: 39
25378063 TGGATGATAA
*
25378073 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
* *
25378113 CCGAGCTAAG--CCGAAGGCAGTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
25378151 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTA-TATAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG--TACTAT-AT
*
25378192 CCGGGCT-AGTCCCGAAGGCATTGTGTGCG-GTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATT-TGTGCGAG-TACTATAT
*
25378231 CCGGGCT-AGTCCCGAAGGCCA-TTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGG-CATTTGTGCGAGTA-CTATAT
25378270 CC-GGCTAA
1 CCGGGCTAA
25378278 ATTCCAATTC
Statistics
Matches: 144, Mismatches: 9, Indels: 25
0.81 0.05 0.14
Matches are distributed among these distances:
38 42 0.29
39 35 0.24
40 51 0.35
41 16 0.11
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:25382459 original size:19 final size:19
Alignment explanation
Indices: 25382431--25382508 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
25382421 CCAAGTTACA
25382431 ATATCA-ATCTCAAGA-TGC
1 ATATCATATCT-AAGATTGC
25382449 ATATCATATCTAAAGATTGC
1 ATATCATATCT-AAGATTGC
*
25382469 A-ATCATATCTTAGATTG-
1 ATATCATATCTAAGATTGC
25382486 -TATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
25382504 ATATC
1 ATATC
25382509 CTTAAAGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
17 15 0.29
18 12 0.23
19 21 0.40
20 4 0.08
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:25383319 original size:176 final size:175
Alignment explanation
Indices: 25382956--25383538 Score: 909
Period size: 175 Copynumber: 3.3 Consensus size: 175
25382946 GTAAACACGT
* * * *
25382956 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * *
25383021 ATCTGCTTCAGTA-AAATCATCTAAAGGTTACATCTGCTATGTATCTACTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
* *
25383085 GATGCCAGATCTATTATCTTGGATCTGTTTTGGTGTAAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
**
25383131 GAAAGTCAAATCTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
25383196 ATCTGC-TCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCAAAATAGAA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAAT-G-G
*
25383260 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
129 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
25383307 AAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
25383372 ATTTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATCTACCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
* *
25383437 ATGCCAAATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCT
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
* * *
25383482 GAAAGTCAAATCTGCTATGTCTTCGGTTTTTTCCTTGTAAACACAAGGATGCCAAAT
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
25383539 ATGCTATCTT
Statistics
Matches: 374, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
174 44 0.12
175 166 0.44
176 112 0.30
177 52 0.14
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
Found at i:25383568 original size:44 final size:43
Alignment explanation
Indices: 25383519--25383805 Score: 141
Period size: 44 Copynumber: 6.5 Consensus size: 43
25383509 TTTTTCCTTG
*
25383519 TAAACACAAGGATGCCAAATATGCTATCTTCAA-CTTGTTCCCTA
1 TAAACAC-AGGATGCCAAATCTGCTATCTTCAATC-TGTTCCCTA
** *** ** * *
25383563 TAAACACAGAGATGCCAGGT-TAAAATCTTTGATCTGTTTCGCTG
1 TAAACACAG-GATGCCAAATCTGCTATCTTCAATCTG-TTCCCTA
* ** * * *
25383607 TAAGCACAGGAATGTTAGATCTTCTATCTTCGATCTGTTCCCTA
1 TAAACACAGG-ATGCCAAATCTGCTATCTTCAATCTGTTCCCTA
*
25383651 TAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTGCTCCCTA
1 TAAACACA-GGATGCCAAATCTGCTATCTTCAATC-TGTTCCCTA
* * * ** * * *
25383695 TAAATATAGGGATGCCATA-CTGAAATCTTCGATCTGCTCTCGCTG
1 TAAACACA-GGATGCCAAATCTGCTATCTTCAATCTG-T-TCCCTA
** ** * * *
25383740 TAGGCACAGGAGTTTCAGATCTGTTATCTTCGATCTGTTTCCCTA
1 TAAACACAGGA-TGCCAAATCTGCTATCTTCAATCTG-TTCCCTA
*
25383785 TAAACACGGGATGCCAAATCT
1 TAAACACAGGATGCCAAATCT
25383806 TGTTTCTTTG
Statistics
Matches: 178, Mismatches: 53, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
43 25 0.14
44 99 0.56
45 38 0.21
46 16 0.09
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
TAAACACAGGATGCCAAATCTGCTATCTTCAATCTGTTCCCTA
Found at i:25383802 original size:133 final size:132
Alignment explanation
Indices: 25383519--25383805 Score: 391
Period size: 132 Copynumber: 2.2 Consensus size: 132
25383509 TTTTTCCTTG
* * * **
25383519 TAAACACAAGGATGCCAAATATGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCAGGTT
1 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGCTCCCTATAAACACAGAGATGCCAGACT
* *
25383584 AAAATCTTTGATCTGTTTCGCTGTAAGCACAGGAATGTTAGATCTTCTATCTTCGATCTGTTCCC
66 AAAATCTTCGATCTGTCTCGCTGTAAGCACAGGAATGTTAGATCTTCTATCTTCGATCTGTTCCC
25383649 TA
131 TA
* * * *
25383651 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGCTCCCTATAAATATAGGGATGCCATACT
1 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGCTCCCTATAAACACAGAGATGCCAGACT
* * *
25383716 GAAATCTTCGATCTGCTCTCGCTGTAGGCACAGGAGT-TTCAGATCTGT-TATCTTCGATCTGTT
66 AAAATCTTCGATCTG-TCTCGCTGTAAGCACAGGAATGTT-AGATCT-TCTATCTTCGATCTG-T
25383779 TCCCTA
127 TCCCTA
25383785 TAAACAC-GGGATGCCAAATCT
1 TAAACACAGGGATGCCAAATCT
25383806 TGTTTCTTTG
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
132 71 0.52
133 51 0.37
134 15 0.11
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (132 bp):
TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGCTCCCTATAAACACAGAGATGCCAGACT
AAAATCTTCGATCTGTCTCGCTGTAAGCACAGGAATGTTAGATCTTCTATCTTCGATCTGTTCCC
TA
Found at i:25384741 original size:18 final size:17
Alignment explanation
Indices: 25384718--25384760 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
25384708 TTTTTTTCTT
25384718 TTTTCTTTTATTTATTTC
1 TTTTCTTTTATTT-TTTC
*
25384736 TTTTCTTTTCTTTTTTC
1 TTTTCTTTTATTTTTTC
25384753 TTTT-TTTT
1 TTTTCTTTT
25384761 GAAATAGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 12 0.50
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTATTTTTTC
Found at i:25387258 original size:32 final size:31
Alignment explanation
Indices: 25387217--25387279 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
25387207 ATAATTATCT
25387217 CTGGTTAATTTATAGTGAA-TTCCAAAATTCA
1 CTGGTTAATTTATAGTGAATTTCC-AAATTCA
25387248 CTGGTTTAATTTATAGTGAATTTCCAAATTCA
1 CTGG-TTAATTTATAGTGAATTTCCAAATTCA
25387280 GATCAGTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 4 0.13
32 22 0.73
33 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
CTGGTTAATTTATAGTGAATTTCCAAATTCA
Found at i:25388277 original size:42 final size:39
Alignment explanation
Indices: 25388230--25388400 Score: 131
Period size: 40 Copynumber: 4.3 Consensus size: 39
25388220 CTTCAGGGAC
25388230 TAGCCCGGTTTATTAGTAACTCGCAACAAAT-CCTTCGGATCT
1 TAGCCCGG-TTA-TAGTAACTCGC-AC-AATGCCTTCGGATCT
25388272 TAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGCA-CTT
1 TAGCCCGGTTATAGTAACTCGCACAATGCCTTCGG-ATC-T
* * *
25388312 TAGCCC-GATATAGTAGCTCGCACAACTGCTCTTCGG-GCT
1 TAGCCCGGTTATAGTAACTCGCACAA-TGC-CTTCGGATCT
* * *
25388351 TAGCTCGG-AATTAGTTCACT-GCACAAATGCCTTCGGGA-CT
1 TAGCCCGGTTA-TAG-TAACTCGCAC-AATGCCTTC-GGATCT
25388391 TAGCCCGGTT
1 TAGCCCGGTT
25388401 TATTCATCCA
Statistics
Matches: 108, Mismatches: 8, Indels: 27
0.76 0.06 0.19
Matches are distributed among these distances:
38 3 0.03
39 38 0.35
40 45 0.42
41 14 0.13
42 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (39 bp):
TAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGATCT
Found at i:25388292 original size:40 final size:41
Alignment explanation
Indices: 25388230--25388347 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 41
25388220 CTTCAGGGAC
25388230 TAGCCCGGTTTATTAGTAACTCGCAACAAAT-CCTTCGG-A-TCT
1 TAGCCCGG-TTA-TAGTAACTCGCAAC-AATGCCTTCGGCACT-T
25388272 TAGCCCGGTTATAGTAACTCGC-ACAATGCCTTCGGCACTT
1 TAGCCCGGTTATAGTAACTCGCAACAATGCCTTCGGCACTT
* *
25388312 TAGCCC-GATATAGTAGCTCGC-ACAACTGCTCTTCGG
1 TAGCCCGGTTATAGTAACTCGCAACAA-TGC-CTTCGG
25388348 GCTTAGCTCG
Statistics
Matches: 69, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
38 3 0.04
39 26 0.38
40 22 0.32
41 10 0.14
42 8 0.12
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCCCGGTTATAGTAACTCGCAACAATGCCTTCGGCACTT
Found at i:25389096 original size:13 final size:13
Alignment explanation
Indices: 25389073--25389111 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
25389063 ATTTTGATAA
25389073 TATATTT-AAAAT
1 TATATTTAAAAAT
25389085 TATATTTAAAAAT
1 TATATTTAAAAAT
*
25389098 TATTTTTAATAAAT
1 TATATTTAA-AAAT
25389112 AATAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 7 0.29
13 13 0.54
14 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATTTAAAAAT
Found at i:25389157 original size:15 final size:15
Alignment explanation
Indices: 25389137--25389170 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25389127 AAATAAAAAA
25389137 TAAAAAAAATATT-AT
1 TAAAAAAAAT-TTAAT
25389152 TAAAAAAAATTTAAT
1 TAAAAAAAATTTAAT
25389167 TAAA
1 TAAA
25389171 TTAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAAAAATTTAAT
Found at i:25389240 original size:44 final size:46
Alignment explanation
Indices: 25389191--25389280 Score: 114
Period size: 48 Copynumber: 2.0 Consensus size: 46
25389181 TTAATTTTAA
* *
25389191 AATTTTAATATAAGTTTTT-TA-T-ATTAATAAATATTTATTAATTC
1 AATTTTAA-ATAAATTTTTATATTAATTAAAAAATATTTATTAATTC
25389235 AATTTTAAATAAATTTTTCAATATTAATTAAAAAATATTTATTAAT
1 AATTTTAAATAAATTTTT--ATATTAATTAAAAAATATTTATTAAT
25389281 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 9 0.23
44 8 0.21
46 2 0.05
47 1 0.03
48 19 0.49
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (46 bp):
AATTTTAAATAAATTTTTATATTAATTAAAAAATATTTATTAATTC
Found at i:25389295 original size:17 final size:18
Alignment explanation
Indices: 25389256--25389291 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
25389246 AATTTTTCAA
25389256 TATTAATTAAAAAATATT
1 TATTAATTAAAAAATATT
25389274 TATTAA-TAAAAAA-ATT
1 TATTAATTAAAAAATATT
25389290 TA
1 TA
25389292 ATTATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTAATTAAAAAATATT
Found at i:25389439 original size:22 final size:24
Alignment explanation
Indices: 25389414--25389457 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25389404 CATAATATTT
*
25389414 AAAA-TTTATATA-ATTTTAAAAA
1 AAAATTTTATAAAGATTTTAAAAA
25389436 AAAATTTTATAAAGATTTTAAA
1 AAAATTTTATAAAGATTTTAAA
25389458 TAATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AAAATTTTATAAAGATTTTAAAAA
Found at i:25389474 original size:18 final size:18
Alignment explanation
Indices: 25389453--25389506 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 18
25389443 TATAAAGATT
25389453 TTAAATAATATAATAAAA
1 TTAAATAATATAATAAAA
*
25389471 TTAAAT-ATGTAA-AAAA
1 TTAAATAATATAATAAAA
* * *
25389487 -AAAACAATTTAATAAAA
1 TTAAATAATATAATAAAA
25389504 TTA
1 TTA
25389507 TTTAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 9 0.32
17 9 0.32
18 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAAATAATATAATAAAA
Found at i:25389956 original size:51 final size:51
Alignment explanation
Indices: 25389901--25390006 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
25389891 TGATACAAAT
25389901 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATATTCCA
*
25389952 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
25390003 TGAT
1 TGAT
25390007 GGGATTTCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 12 0.23
51 41 0.77
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:25389959 original size:25 final size:26
Alignment explanation
Indices: 25389901--25390006 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
25389891 TGATACAAAT
25389901 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25389927 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
25389952 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25389978 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25390003 TGAT
1 TGAT
25390007 GGGATTTCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 45 0.60
26 30 0.40
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25396971 original size:26 final size:26
Alignment explanation
Indices: 25396942--25397049 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
25396932 TGATACAAAT
25396942 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25396968 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25396994 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25397020 TGATAATGGGTTAGGTAAATGTTCCT
1 TGATAATGGGTTAGGTAAATGTTCCA
25397046 TGAT
1 TGAT
25397050 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25403274 original size:12 final size:12
Alignment explanation
Indices: 25403246--25403280 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
25403236 TACATATCTA
*
25403246 TTCATATAAACAT
1 TTCATAT-AACAC
25403259 TTCATATAACAC
1 TTCATATAACAC
25403271 TTCATATAAC
1 TTCATATAAC
25403281 TATTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (12 bp):
TTCATATAACAC
Found at i:25403357 original size:26 final size:26
Alignment explanation
Indices: 25403327--25403446 Score: 107
Period size: 26 Copynumber: 4.6 Consensus size: 26
25403317 TATATGTTTC
25403327 CGTATAA-CAGATTCATATAACCATTT
1 CGTATAACCA-ATTCATATAACCATTT
* * * * *
25403353 TGTATATCCATTTTTATATAACCAATT
1 CGTATAACCA-ATTCATATAACCATTT
* * * * *
25403380 CTTATAATCATTTCACATAACCAATT
1 CGTATAACCAATTCATATAACCATTT
25403406 CGTATAACCAATTCATATAACCATTT
1 CGTATAACCAATTCATATAACCATTT
* *
25403432 CGTATAGCCATTTCA
1 CGTATAACCAATTCA
25403447 AACTGTTAAC
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
26 53 0.72
27 21 0.28
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (26 bp):
CGTATAACCAATTCATATAACCATTT
Found at i:25403358 original size:13 final size:13
Alignment explanation
Indices: 25403338--25403446 Score: 92
Period size: 13 Copynumber: 8.3 Consensus size: 13
25403328 GTATAACAGA
25403338 TTCATATAACCAT
1 TTCATATAACCAT
** *
25403351 TTTGTATATCCATT
1 TTCATATAACCA-T
* *
25403365 TTTATATAACCAA
1 TTCATATAACCAT
* *
25403378 TTCTTATAATCAT
1 TTCATATAACCAT
* *
25403391 TTCACATAACCAA
1 TTCATATAACCAT
* *
25403404 TTCGTATAACCAA
1 TTCATATAACCAT
25403417 TTCATATAACCAT
1 TTCATATAACCAT
* *
25403430 TTCGTATAGCCAT
1 TTCATATAACCAT
25403443 TTCA
1 TTCA
25403447 AACTGTTAAC
Statistics
Matches: 74, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
13 63 0.85
14 11 0.15
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:25407506 original size:14 final size:15
Alignment explanation
Indices: 25407481--25407509 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25407471 ATGATGTGTT
25407481 GATGTCTTGGTTGTA
1 GATGTCTTGGTTGTA
25407496 GATGT-TTGGTTGTA
1 GATGTCTTGGTTGTA
25407510 TGTATATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
GATGTCTTGGTTGTA
Found at i:25407962 original size:31 final size:31
Alignment explanation
Indices: 25407927--25408000 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
25407917 CAGGGTCGGG
*
25407927 ACACGGGCGTGTGTGTCTACACAGCCTACCC
1 ACACGGGCGTGTGTGTCCACACAGCCTACCC
* * *
25407958 ACACGAGCGTGTGTGTCCACATAGCCTGCCC
1 ACACGGGCGTGTGTGTCCACACAGCCTACCC
*
25407989 ACACAGGCGTGT
1 ACACGGGCGTGT
25408001 CCCATATCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.19
Consensus pattern (31 bp):
ACACGGGCGTGTGTGTCCACACAGCCTACCC
Found at i:25409308 original size:25 final size:25
Alignment explanation
Indices: 25409258--25409371 Score: 140
Period size: 25 Copynumber: 4.6 Consensus size: 25
25409248 TCTCTCGAGC
* ***
25409258 ATAT-ACGGGAAGCTTATGTAATCT
1 ATATAACGGGAAGCTTATTTGGGCT
* *
25409282 ATGTAATGGGAAGCTTATTTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
25409307 ATATAACGGGAAGCTTATTTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
*
25409332 ATATAACGGGAAGCTTATCTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
* *
25409357 GTATAACAGGAAGCT
1 ATATAACGGGAAGCT
25409372 CATAAGAGCC
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 3 0.04
25 75 0.96
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (25 bp):
ATATAACGGGAAGCTTATTTGGGCT
Found at i:25416516 original size:26 final size:26
Alignment explanation
Indices: 25416476--25416525 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
25416466 CGGTGAGTTT
*
25416476 AAATGTATTGTGTATTAAAAGAATGA
1 AAATGTATTGAGTATTAAAAGAATGA
*
25416502 AAATGTATTGAGTATTGAAAGAAT
1 AAATGTATTGAGTATTAAAAGAAT
25416526 TATTTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (26 bp):
AAATGTATTGAGTATTAAAAGAATGA
Found at i:25421596 original size:26 final size:26
Alignment explanation
Indices: 25421563--25421612 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
25421553 TGGTGAGTTG
*
25421563 AAATGTATTGTGTATTGAAAGAATGA
1 AAATGTATTGAGTATTGAAAGAATGA
25421589 AAATGTATTGAGTATTGAAAGAAT
1 AAATGTATTGAGTATTGAAAGAAT
25421613 TCTTTGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (26 bp):
AAATGTATTGAGTATTGAAAGAATGA
Found at i:25430849 original size:19 final size:19
Alignment explanation
Indices: 25430827--25430885 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
25430817 ATACCAACCC
25430827 AAATTTATAAACATTAAAT
1 AAATTTATAAACATTAAAT
* * *
25430846 AAATTT-T--A-TTTTAAG
1 AAATTTATAAACATTAAAT
25430861 AAATTTATAAACATTAAAT
1 AAATTTATAAACATTAAAT
25430880 AAATTT
1 AAATTT
25430886 TATTTTAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
18 2 0.07
19 16 0.53
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTTATAAACATTAAAT
Found at i:25430865 original size:34 final size:34
Alignment explanation
Indices: 25430827--25430897 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
25430817 ATACCAACCC
25430827 AAATTTATAAACATTAAATAAATTTTATTTTAAG
1 AAATTTATAAACATTAAATAAATTTTATTTTAAG
25430861 AAATTTATAAACATTAAATAAATTTTATTTTAAG
1 AAATTTATAAACATTAAATAAATTTTATTTTAAG
25430895 AAA
1 AAA
25430898 CTGGAATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (34 bp):
AAATTTATAAACATTAAATAAATTTTATTTTAAG
Found at i:25436852 original size:48 final size:48
Alignment explanation
Indices: 25436691--25436977 Score: 265
Period size: 48 Copynumber: 5.9 Consensus size: 48
25436681 GACCATGGAG
*
25436691 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGGT-
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CC-TTA
* * * * * * *
25436741 ATATGCGAGTCAGTGTAAAACCAT-TTTGGAACATGGCATCGGCATTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * *
25436788 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATTGGCCTTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * * * *
25436836 ATATGCGAGCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * * **
25436884 TTAT-ATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 ATATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTA
* *
25436933 TGTATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 -ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
25436978 ATTTTACCCT
Statistics
Matches: 188, Mismatches: 43, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
46 1 0.01
47 21 0.11
48 91 0.48
49 16 0.09
50 58 0.31
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
Found at i:25436898 original size:96 final size:95
Alignment explanation
Indices: 25436697--25436980 Score: 372
Period size: 96 Copynumber: 2.9 Consensus size: 95
25436687 GGAGATATGA
* * *
25436697 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGGT-ATATGCGAGTCAGTGTAAAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-CC--TAATATGCGAGCCAGTGTAAGA
*
25436761 CCATTTTGGAACATGGCATCGGCATTGTTATGT
63 CCATTTTGGAACATGGCATCGGCATTGTTATAT
* *
25436794 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATTGGCCTTAATATGCGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCCTAATATGCGAGCCAGTGTAAGACCA
25436859 TATTTGGAACATGGCATCGGCATTGTTATAT
66 T-TTTGGAACATGGCATCGGCATTGTTATAT
* * * * *
25436890 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATGTATGAGAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-CCTA-ATATGCGAGCCAGTGTAAGAC
** *
25436955 CATGTCCGGGACATGGCATCGGCATT
64 CAT-TTTGGAACATGGCATCGGCATT
25436981 TTACCCTTTT
Statistics
Matches: 166, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
94 1 0.01
95 22 0.13
96 64 0.39
97 38 0.23
98 41 0.25
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (95 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCCTAATATGCGAGCCAGTGTAAGACCA
TTTTGGAACATGGCATCGGCATTGTTATAT
Found at i:25443712 original size:96 final size:96
Alignment explanation
Indices: 25443548--25443739 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
25443538 TCAGATCGAC
25443548 TCGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTG
1 TCGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTG
*
25443613 AACTTTTCATATAACGCTTATCTCTCAGAGT
66 AACTTTGCATATAACGCTTATCTCTCAGAGT
25443644 TCGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTG
1 TCGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTG
25443709 AACTTTGCATATAACGCTTATCTCTCAGAGT
66 AACTTTGCATATAACGCTTATCTCTCAGAGT
25443740 CTGCAATACA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (96 bp):
TCGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTG
AACTTTGCATATAACGCTTATCTCTCAGAGT
Found at i:25446109 original size:43 final size:42
Alignment explanation
Indices: 25446054--25446186 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 42
25446044 ATATCGTACA
* * *
25446054 ATGCCAAC-GTCCCAGATGTGGTTTTACATGCAATCACATATCG
1 ATGCC-ACTGTCCCAGAAGTGGTCTTACACG-AATCACATATCG
*
25446097 ATGCCACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCACTGTCCCAGA-AGTGGTCTTACACGAATCACATATCG
* *
25446138 ATGCCAATGTCCCAGACA-TGGTCTTACACGTAATCACATATAG
1 ATGCCACTGTCCCAGA-AGTGGTCTTACACG-AATCACATATCG
25446181 ATGCCA
1 ATGCCA
25446187 ACGTCCTAGC
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
41 30 0.38
42 18 0.23
43 29 0.37
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGAAGTGGTCTTACACGAATCACATATCG
Found at i:25446208 original size:43 final size:42
Alignment explanation
Indices: 25446054--25446192 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 42
25446044 ATATCGTACA
** * * *
25446054 ATGCCAACGTCCCAGATGTGGTTTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATAG
*
25446097 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAATCA-A-ATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAATCACATATA-G
*
25446138 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATAG
25446181 ATGCCAACGTCC
1 ATGCCAACGTCC
25446193 TAGCTTTGGT
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.35
42 13 0.16
43 35 0.43
44 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCACATATAG
Found at i:25447352 original size:14 final size:14
Alignment explanation
Indices: 25447341--25447372 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
25447331 TAAAACATGA
25447341 AAATTCACACATAT
1 AAATTCACACATAT
25447355 AAATTCACACATAAT
1 AAATTCACACAT-AT
25447370 AAA
1 AAA
25447373 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATTCACACATAT
Found at i:25448108 original size:56 final size:56
Alignment explanation
Indices: 25448022--25448190 Score: 199
Period size: 56 Copynumber: 3.1 Consensus size: 56
25448012 TGCAACGTTA
25448022 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
1 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
* * * * *
25448078 GCCAATCCATACTCAGGATTATATCAAACTC-ACAATAGCATCGT-GCAGCGTT--A---
1 GCCAATCCATACTCAGGATTATATCAAACTCGTC-A-A--ATGGTAACAACATTAAATCG
*
25448131 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAATATTAAATCG
1 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
25448187 GCCA
1 GCCA
25448191 GAAAACAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
50 4 0.04
51 4 0.04
52 1 0.01
53 33 0.36
54 1 0.01
55 1 0.01
56 37 0.41
57 1 0.01
58 5 0.05
59 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (56 bp):
GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
Found at i:25448158 original size:53 final size:52
Alignment explanation
Indices: 25447998--25448161 Score: 181
Period size: 53 Copynumber: 3.0 Consensus size: 52
25447988 CTTTTGCAAT
25447998 TCACAACAGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
1 TCACAA-AGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
* * * *
25448051 TCGTC-AA--ATGGTAACAACATTAAATCGGCCAATCCATACTCAGGATTATATCAAAC
1 TC-ACAAAGCATCGT-GCAACGTT--A---GCCAATCCATACTCAGGATTATATCAAAC
*
25448107 TCACAATAGCATCGTGCAGCGTTAGCCAATCCATACTCAGGATTATATCAAAC
1 TCACAA-AGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
25448160 TC
1 TC
25448162 GTCAAATGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
50 4 0.04
51 6 0.07
52 1 0.01
53 35 0.38
54 1 0.01
55 1 0.01
56 33 0.36
57 1 0.01
58 5 0.05
59 4 0.04
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (52 bp):
TCACAAAGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
Found at i:25449770 original size:32 final size:33
Alignment explanation
Indices: 25449722--25449823 Score: 100
Period size: 32 Copynumber: 3.1 Consensus size: 33
25449712 GTACCTAAAT
*
25449722 TGTACAACTTGAAAAGGTTATGTACACTTTGTG
1 TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
* *
25449755 TGTAC-ACTTGGAAAGGTTAGGTATACTTTGTG
1 TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
* * ** * *
25449787 TATACCA-TATGAAAAGGAAAGGTATATTTTGTG
1 TGTACAACT-TGAAAAGGTTAGGTACACTTTGTG
25449820 TGTA
1 TGTA
25449824 TGACTTCGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 29 0.50
33 29 0.50
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (33 bp):
TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
Found at i:25453458 original size:16 final size:17
Alignment explanation
Indices: 25453437--25453470 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
25453427 TTATTTAAGA
25453437 AATTAATAATT-ATAAT
1 AATTAATAATTAATAAT
25453453 AATTAATAATTAATAAT
1 AATTAATAATTAATAAT
25453470 A
1 A
25453471 TAATAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAATAATTAATAAT
Found at i:25453459 original size:7 final size:7
Alignment explanation
Indices: 25453437--25453476 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
25453427 TTATTTAAGA
25453437 AATTAAT
1 AATTAAT
25453444 AATTATAAT
1 AA-T-TAAT
25453453 AATTAAT
1 AATTAAT
25453460 AATTAAT
1 AATTAAT
25453467 AATATAAT
1 AAT-TAAT
25453475 AA
1 AA
25453477 AAGAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.53
8 8 0.27
9 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATTAAT
Found at i:25453485 original size:12 final size:12
Alignment explanation
Indices: 25453470--25453494 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25453460 AATTAATAAT
25453470 ATAATAAAAGAA
1 ATAATAAAAGAA
25453482 ATAATAAAAGAA
1 ATAATAAAAGAA
25453494 A
1 A
25453495 AAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAATAAAAGAA
Found at i:25454406 original size:6 final size:6
Alignment explanation
Indices: 25454395--25454426 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25454385 CCTGACTATG
*
25454395 ACTGTT ATTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
25454427 CCTACGGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:25455015 original size:61 final size:61
Alignment explanation
Indices: 25454941--25455067 Score: 254
Period size: 61 Copynumber: 2.1 Consensus size: 61
25454931 AATGATAAGA
25454941 ATGAGCATGAAAGATGTTAAAACATGATATGAAATATACATATTTTGGAAGTTAAACTTAC
1 ATGAGCATGAAAGATGTTAAAACATGATATGAAATATACATATTTTGGAAGTTAAACTTAC
25455002 ATGAGCATGAAAGATGTTAAAACATGATATGAAATATACATATTTTGGAAGTTAAACTTAC
1 ATGAGCATGAAAGATGTTAAAACATGATATGAAATATACATATTTTGGAAGTTAAACTTAC
25455063 ATGAG
1 ATGAG
25455068 TTTGATTAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (61 bp):
ATGAGCATGAAAGATGTTAAAACATGATATGAAATATACATATTTTGGAAGTTAAACTTAC
Found at i:25456643 original size:68 final size:68
Alignment explanation
Indices: 25456564--25456719 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 68
25456554 CATCATGTGT
* ** * * *
25456564 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
25456626 ATGTAG
63 ATGTAG
* *
25456632 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
25456697 ATGTAG
63 ATGTAG
25456703 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
25456720 CATCGGCTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 33 0.45
69 8 0.11
70 6 0.08
71 27 0.36
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:25473108 original size:25 final size:25
Alignment explanation
Indices: 25473069--25473135 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
25473059 ACAGAACAGG
*
25473069 GAAAGAAA-AAAGAAAAATGGGAAA
1 GAAAAAAAGAAAGAAAAATGGGAAA
25473093 GAAAAAAAGAAAGAAAAATGGGAAA
1 GAAAAAAAGAAAGAAAAATGGGAAA
25473118 G--AAAAAGAAAGGAAAAAT
1 GAAAAAAAGAAA-GAAAAAT
25473136 AAGGTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 17 0.43
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (25 bp):
GAAAAAAAGAAAGAAAAATGGGAAA
Found at i:25473122 original size:12 final size:13
Alignment explanation
Indices: 25473077--25473123 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
25473067 GGGAAAGAAA
25473077 AAAGAAAAATGGG
1 AAAGAAAAATGGG
**
25473090 AAAGAAAAA-AAG
1 AAAGAAAAATGGG
25473102 AAAGAAAAATGGG
1 AAAGAAAAATGGG
25473115 AAAGAAAAA
1 AAAGAAAAA
25473124 GAAAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (13 bp):
AAAGAAAAATGGG
Found at i:25480842 original size:13 final size:13
Alignment explanation
Indices: 25480824--25480848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25480814 AATATTGCAT
25480824 GAAAATTTTTATA
1 GAAAATTTTTATA
25480837 GAAAATTTTTAT
1 GAAAATTTTTAT
25480849 CAATTATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:25482139 original size:33 final size:33
Alignment explanation
Indices: 25482050--25482141 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
25482040 GGTTATGTAC
* **
25482050 ACTTTGTGTGTA-CACTTGGAAATGTCAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* ** *
25482082 ATTTTGTGTAAACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
25482115 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
25482142 TGTACATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
32 10 0.22
33 35 0.76
34 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:25482169 original size:65 final size:65
Alignment explanation
Indices: 25482050--25482177 Score: 147
Period size: 65 Copynumber: 2.0 Consensus size: 65
25482040 GGTTATGTAC
** * *
25482050 ACTTTGTGTGTACACTTGGAAATGTCAGGTATATTTTGTGTAAACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACACTTGGAAATGGAAGGTACATTTTGTGTAAACCATATGAAAAAGAAAGGTAT
*
25482115 ACTTTGTGTGTACCACTTGGAAA-GGAATGTACATTTTAGTTGTACAA-C-TA-GAAAAAGAAAG
1 ACTTTGTGTGTA-CACTTGGAAATGGAAGGTACATTTT-G-TGTA-AACCATATGAAAAAGAAAG
25482176 GT
62 GT
25482178 CCATCTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
65 34 0.63
66 13 0.24
67 5 0.09
68 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (65 bp):
ACTTTGTGTGTACACTTGGAAATGGAAGGTACATTTTGTGTAAACCATATGAAAAAGAAAGGTAT
Found at i:25486807 original size:42 final size:41
Alignment explanation
Indices: 25486761--25486839 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
25486751 ACAGGTTCTA
* *
25486761 AACTGAAACCCATAAGGGTTACACTGAAGCTCGAAAGAACTG
1 AACTGAAACCCAAAAGGATTACACTGAAGCTC-AAAGAACTG
* *
25486803 AACTGAAACCTAAAAGGATTATACTGAAGCTCAAAGA
1 AACTGAAACCCAAAAGGATTACACTGAAGCTCAAAGA
25486840 GCTAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 5 0.15
42 28 0.85
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (41 bp):
AACTGAAACCCAAAAGGATTACACTGAAGCTCAAAGAACTG
Found at i:25486853 original size:41 final size:42
Alignment explanation
Indices: 25486774--25486853 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
25486764 TGAAACCCAT
* * **
25486774 AAGGGTTACACTGAAGCTCGAAAGAACTGAACTGAAACCTAA
1 AAGGATTACACTGAAGCTCGAAAGAACTAAACAAAAACCTAA
* *
25486816 AAGGATTATACTGAAGCTC-AAAGAGCTAAACAAAAACC
1 AAGGATTACACTGAAGCTCGAAAGAACTAAACAAAAACC
25486854 CATTAGGTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 15 0.47
42 17 0.53
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (42 bp):
AAGGATTACACTGAAGCTCGAAAGAACTAAACAAAAACCTAA
Found at i:25493201 original size:22 final size:23
Alignment explanation
Indices: 25493176--25493221 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25493166 CAACCAAATC
25493176 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
25493198 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
25493221 A
1 A
25493222 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:25493227 original size:23 final size:23
Alignment explanation
Indices: 25493183--25493227 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25493173 ATCAATTCAA
*
25493183 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
25493206 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
25493228 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:25499087 original size:20 final size:21
Alignment explanation
Indices: 25499048--25499100 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
25499038 TCGTGTTTAC
*
25499048 CTTCAGTTTAGCTCTCATGAG
1 CTTCAGTTTAACTCTCATGAG
*
25499069 CTTCAG-TTAACTCTTATGAG
1 CTTCAGTTTAACTCTCATGAG
* *
25499089 TTTCAATTTAAC
1 CTTCAGTTTAAC
25499101 CCTAATTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTCAGTTTAACTCTCATGAG
Found at i:25499147 original size:22 final size:22
Alignment explanation
Indices: 25499065--25499149 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 22
25499055 TTAGCTCTCA
*
25499065 TGAGCTTCAG-TTAA-CTCTTA-
1 TGAGTTTCAGTTTAACCT-TTAT
* * *
25499085 TGAGTTTCAATTTAACCCTAAT
1 TGAGTTTCAGTTTAACCTTTAT
* * *
25499107 TGGGTTTCAG-TTAAGCTTTTT
1 TGAGTTTCAGTTTAACCTTTAT
25499128 TGAGTTTCAGTTTAACCTTTAT
1 TGAGTTTCAGTTTAACCTTTAT
25499150 GGGTTTCCGT
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
20 8 0.17
21 22 0.46
22 18 0.38
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (22 bp):
TGAGTTTCAGTTTAACCTTTAT
Found at i:25499153 original size:42 final size:42
Alignment explanation
Indices: 25499070--25499202 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 42
25499060 TCTCATGAGC
* *
25499070 TTCAGTTAA-CTCTTATGAGTTTCAATTTAACCCTAATTGGGT
1 TTCAGTTAAGCTCTTATGAGTTTCAGTTTAACCCTTA-TGGGT
* * *
25499112 TTCAGTTAAGCTTTTTTGAGTTTCAGTTTAACCTTTATGGGT
1 TTCAGTTAAGCTCTTATGAGTTTCAGTTTAACCCTTATGGGT
* * * * * *
25499154 TTCCGTTCAGCTCCTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTAAGCTCTTATGAGTTTCAGTTTAACCCTTATGGGT
*
25499196 TCCAGTT
1 TTCAGTT
25499203 TAACAATTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 52 0.70
43 22 0.30
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (42 bp):
TTCAGTTAAGCTCTTATGAGTTTCAGTTTAACCCTTATGGGT
Found at i:25499171 original size:21 final size:21
Alignment explanation
Indices: 25499131--25499196 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
25499121 GCTTTTTTGA
* * *
25499131 GTTTCAGTTTAACCTTTATGG
1 GTTTCCGTTCAACCCTTATGG
* *
25499152 GTTTCCGTTCAGCTCC-TATGA
1 GTTTCCGTTCAAC-CCTTATGG
*
25499173 GCTTCCGTTCAACCCTTATGG
1 GTTTCCGTTCAACCCTTATGG
25499194 GTT
1 GTT
25499197 CCAGTTTAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (21 bp):
GTTTCCGTTCAACCCTTATGG
Found at i:25501895 original size:14 final size:15
Alignment explanation
Indices: 25501860--25501895 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25501850 CATAAATTTT
25501860 CTTTTATAGGCCTGC
1 CTTTTATAGGCCTGC
*
25501875 ATTTTATAGGCCT-C
1 CTTTTATAGGCCTGC
25501889 CTTTTAT
1 CTTTTAT
25501896 CATACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (15 bp):
CTTTTATAGGCCTGC
Found at i:25514243 original size:38 final size:38
Alignment explanation
Indices: 25514200--25514275 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
25514190 TTCATCCTTT
*
25514200 TTCATTTCTTTTGGCCGAAAATTCTAAGGAATGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
25514238 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
25514276 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:25515556 original size:40 final size:40
Alignment explanation
Indices: 25515462--25515606 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
25515452 TACTCGAATG
*
25515462 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
25515503 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
25515543 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
25515583 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
25515607 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:25520042 original size:20 final size:19
Alignment explanation
Indices: 25519988--25520036 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
25519978 ACTAAATTTT
*
25519988 AAAAATAAAACTAAAATAA
1 AAAAATATAACTAAAATAA
*
25520007 AAAAATATAACCAAAATAA
1 AAAAATATAACTAAAATAA
25520026 AAAAAT-TAACT
1 AAAAATATAACT
25520037 TTAAAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATATAACTAAAATAA
Found at i:25520683 original size:11 final size:11
Alignment explanation
Indices: 25520669--25520714 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
25520659 ATCCTCTCAC
25520669 AATTCTCTCTA
1 AATTCTCTCTA
*
25520680 AATTCTTTCTA
1 AATTCTCTCTA
25520691 AATTCTCTC-A
1 AATTCTCTCTA
25520701 AATT-TCTCTA
1 AATTCTCTCTA
25520711 AATT
1 AATT
25520715 TTTGTCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 4 0.12
10 10 0.31
11 18 0.56
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:25520710 original size:20 final size:22
Alignment explanation
Indices: 25520669--25520714 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
25520659 ATCCTCTCAC
*
25520669 AATTCTCTCTAAATTCTTTCTA
1 AATTCTCTCTAAATTCTCTCTA
25520691 AATTCTCTC-AAATT-TCTCTA
1 AATTCTCTCTAAATTCTCTCTA
25520711 AATT
1 AATT
25520715 TTTGTCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTCTCTCTAAATTCTCTCTA
Found at i:25522379 original size:13 final size:14
Alignment explanation
Indices: 25522363--25522398 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
25522353 CAATCTCATA
25522363 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
25522376 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
25522389 TCTC-ATTTCA
1 TCTCAATTTCA
25522399 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Done.