Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 329 of 378
Found at i:100008510 original size:47 final size:49
Alignment explanation
Indices: 100008435--100008558 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 49
100008425 AGATGTCGAC
* *
100008435 GCCATGTCCCAAACATGTTCTTACACTGGCTAGCA-C-ATCAAAGTCAAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTAGCATCTATCAAAGTCAAT
** *** *
100008483 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTAGCATCTATCAAAGTCAAT
* *
100008532 GCCATGTCCTAGATAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
100008559 ACATACAACA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 16 0.25
48 15 0.23
49 33 0.52
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTAGCATCTATCAAAGTCAAT
Found at i:100008644 original size:48 final size:48
Alignment explanation
Indices: 100008578--100008746 Score: 209
Period size: 48 Copynumber: 3.6 Consensus size: 48
100008568 AAGCTGACGC
*
100008578 CATGTCCCATG-CAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCA-GACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
100008626 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
100008672 TATGTCCCAGACATGTCTTACATTGGCTTGTATATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
*
100008720 CATGTCCCAGACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
100008747 ACACATATCA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.36
47 5 0.05
48 58 0.59
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:100013190 original size:104 final size:105
Alignment explanation
Indices: 100013015--100013218 Score: 243
Period size: 104 Copynumber: 2.0 Consensus size: 105
100013005 CTCTTGCCCG
* * * * * *
100013015 TGTGGCTCACACGGCCTGGGTACATGCACATGTCCTCTGCTCGTGTGGTTCTGAAACGTAAATAG
1 TGTGACTCACACGGCCTAGGCACACGCACATGTCCTCTGCTCGTGTGGTCCTGAAACATAAATAG
*
100013080 AGAGTTACACAGCCTGGACACACG-CTCATGTCCTTACTCA
66 AGAGTTACACAGCCTAGACACACGCCTC-TGTCCTTACTCA
* * * *
100013120 TGTGACTCACACGGTCTAGGCACACGCTCATGTGCT-TGCTCGTGTGGTCCT-AAGTCATAAATA
1 TGTGACTCACACGGCCTAGGCACACGCACATGTCCTCTGCTCGTGTGGTCCTGAA-ACATAAATA
* * *
100013183 GTGAGTTACACGGCTTAGACACACGCCTCTGTCCTT
65 GAGAGTTACACAGCCTAGACACACGCCTCTGTCCTT
100013219 TGCCCTTGTG
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
103 2 0.02
104 49 0.59
105 32 0.39
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (105 bp):
TGTGACTCACACGGCCTAGGCACACGCACATGTCCTCTGCTCGTGTGGTCCTGAAACATAAATAG
AGAGTTACACAGCCTAGACACACGCCTCTGTCCTTACTCA
Found at i:100014657 original size:2 final size:2
Alignment explanation
Indices: 100014650--100014684 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
100014640 TGGTAAAACT
100014650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100014685 GAAAATGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100014998 original size:36 final size:36
Alignment explanation
Indices: 100014908--100014999 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
100014898 CTAGCTCTTA
* *
100014908 TGAGCAT-TGATGTGTTTTAGAAGGATTGGCTCGTG
1 TGAGCATGTGGTGTGTTTTGGAAGGATTGGCTCGTG
*
100014943 TGAGCATGTGGTGTGTTTTGGAGGGATTGGCTCGTG
1 TGAGCATGTGGTGTGTTTTGGAAGGATTGGCTCGTG
* *
100014979 TGATCATTTGGTGTGTTTTGG
1 TGAGCATGTGGTGTGTTTTGG
100015000 TTGATCTGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 7 0.14
36 44 0.86
ACGTcount: A:0.14, C:0.08, G:0.38, T:0.40
Consensus pattern (36 bp):
TGAGCATGTGGTGTGTTTTGGAAGGATTGGCTCGTG
Found at i:100017594 original size:14 final size:14
Alignment explanation
Indices: 100017577--100017607 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100017567 TATATACAAA
100017577 TATATATATGTGTT
1 TATATATATGTGTT
*
100017591 TATATATGTGTGTT
1 TATATATATGTGTT
100017605 TAT
1 TAT
100017608 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
TATATATATGTGTT
Found at i:100018062 original size:24 final size:24
Alignment explanation
Indices: 100018035--100018199 Score: 156
Period size: 24 Copynumber: 6.9 Consensus size: 24
100018025 GAAATGACTT
100018035 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
100018059 TGGCACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
** *
100018083 TGGCACTATGTGTGTAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
100018107 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * *
100018131 TGTCAATACGTGTGTGGATTACT-AA
1 TGGCACTATGTGTGCGGATT--TGAA
* * *
100018156 -GACACTATGTGTGCGG-GTTAACA
1 TGGCACTATGTGTGCGGATTTGA-A
* *
100018179 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
100018200 CCTTGCTTGA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 2 0.02
24 107 0.92
25 4 0.03
26 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:100018162 original size:72 final size:72
Alignment explanation
Indices: 100018035--100018168 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 72
100018025 GAAATGACTT
* * ** * *
100018035 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGTATGGCACTATGTGTGTAG
1 TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTGTAG
100018100 ATTTGTA
66 ATTTGTA
* **
100018107 TGGCACTATGTGTGCGGATTTGAATGTCAATACGTGTGTGGATTACTAAGACACTATGTGTG
1 TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTG
100018169 CGGGTTAACA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (72 bp):
TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTGTAG
ATTTGTA
Found at i:100018182 original size:72 final size:72
Alignment explanation
Indices: 100018035--100018199 Score: 177
Period size: 72 Copynumber: 2.3 Consensus size: 72
100018025 GAAATGACTT
* * ** * * *
100018035 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGTATGGCACTATGTGTGTAG
1 TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTGCAG
***
100018100 ATTTGTA
66 ATTAACA
* ** *
100018107 TGGCACTATGTGTGCGGATTTGAATGTCAATACGTGTGTGGATTACTAAGACACTATGTGTGCGG
1 TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTGCAG
*
100018172 GTTAACA
66 ATTAACA
* *
100018179 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
100018200 CCTTGCTTGA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGGATTTGAATGGCAATACGTGTGCAGATTACTAAGACACTATGTGTGCAG
ATTAACA
Found at i:100033883 original size:31 final size:29
Alignment explanation
Indices: 100033816--100033892 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
100033806 AAGCTATGGA
* *
100033816 TTTAATCCCTATATTTTAATTCGATTAAG
1 TTTAGTCCCTATATTTTAATTCGATCAAG
*
100033845 TTTAGTCCCTATACTTTTCGAATTCG-TCAAT
1 TTTAGTCCCTATA-TTTT--AATTCGATCAAG
100033876 TTTAGT-CCTAGTATTTT
1 TTTAGTCCCTA-TATTTT
100033893 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 12 0.29
30 12 0.29
31 11 0.27
32 6 0.15
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (29 bp):
TTTAGTCCCTATATTTTAATTCGATCAAG
Found at i:100036659 original size:46 final size:46
Alignment explanation
Indices: 100036578--100036850 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
100036568 AGTGTGCTCT
* *
100036578 CTGATATGAAATGTGTAA-ACCATGGTTGAAGGATACCATTGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100036623 TTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100036669 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100036715 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
100036761 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
100036807 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100036851 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 17 0.08
46 190 0.92
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100038192 original size:22 final size:22
Alignment explanation
Indices: 100038154--100038195 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
100038144 TAGCACATTC
100038154 AGCACATTCGTGCTCTCTGTAT
1 AGCACATTCGTGCTCTCTGTAT
*
100038176 AGCAC-TTCAGTGTTCTCTGT
1 AGCACATTC-GTGCTCTCTGT
100038196 TTAATAGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (22 bp):
AGCACATTCGTGCTCTCTGTAT
Found at i:100041108 original size:38 final size:38
Alignment explanation
Indices: 100041038--100041110 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
100041028 CAAAATGACC
* * *
100041038 AAATTGCATGAAATGATTATTTTATTATTTAAATTACA
1 AAATTGAATGAAATGATTAATTTATGATTTAAATTACA
*
100041076 AAATTGAATGAAATTATTAATTTAGTGA-TTAAATT
1 AAATTGAATGAAATGATTAATTTA-TGATTTAAATT
100041111 GAAAAGTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (38 bp):
AAATTGAATGAAATGATTAATTTATGATTTAAATTACA
Found at i:100041999 original size:46 final size:46
Alignment explanation
Indices: 100041890--100042159 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
100041880 AGTGTGCTCT
100041890 CTGATATGAAATGTGTAA-ACCATGGTTG-AAGATACCATGGCAA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100041933 CTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100041979 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100042025 CTGAT-TGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
100042070 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
100042116 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100042160 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
43 17 0.08
44 10 0.05
45 58 0.28
46 122 0.59
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100042044 original size:91 final size:91
Alignment explanation
Indices: 100041890--100042159 Score: 375
Period size: 91 Copynumber: 3.0 Consensus size: 91
100041880 AGTGTGCTCT
*
100041890 CTGATATGAAATGTGTAA-ACCATGGTTG-AAGATACCATGGCAA-CTGATATGAAATGTGAAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT-TGAAATGTGTAAG
100041952 ACCATGGTTGAAAGATACCATGGCAAC
65 ACCATGGTTGAAAGATACCATGGCAAC
*
100041979 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATTGAGATGTGTAAGA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATTGAAATGTGTAAGA
100042044 CCATGGTTGAAAGATACCATGGCAAC
66 CCATGGTTGAAAGATACCATGGCAAC
* * * ** * ** *
100042070 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATTG-AAATGTGTAAG
* * *
100042135 ACCATAGTTGAAAGACACTATGGCA
65 ACCATGGTTGAAAGATACCATGGCA
100042160 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
89 18 0.11
90 10 0.06
91 98 0.60
92 36 0.22
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (91 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATTGAAATGTGTAAGA
CCATGGTTGAAAGATACCATGGCAAC
Found at i:100042134 original size:137 final size:135
Alignment explanation
Indices: 100041890--100042159 Score: 384
Period size: 137 Copynumber: 2.0 Consensus size: 135
100041880 AGTGTGCTCT
* * *
100041890 CTGATATGAAATGTGTAAACCATGGTTGAAGATACCATGGCAACTGATATGAAATGTGAAAGACC
1 CTGATATGAAATGTGTAAACCATGGTTGAAGATACCATGGCAACTGACATGAAAAGTAAAAGACC
* * * * *
100041955 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATG
66 ATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATG
100042020 GCAAC
131 GCAAC
*
100042025 CTGAT-TGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-AATAA
1 CTGATATGAAATGTGTAA-ACCATGGTTG-AAGATACCATGGCAAC-TGACATGAAAAGTAA-AA
100042088 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACA
62 GACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACA
*
100042152 CTATGGCA
126 CCATGGCA
100042160 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
134 11 0.09
135 15 0.12
136 18 0.15
137 76 0.63
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (135 bp):
CTGATATGAAATGTGTAAACCATGGTTGAAGATACCATGGCAACTGACATGAAAAGTAAAAGACC
ATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATG
GCAAC
Found at i:100043579 original size:60 final size:60
Alignment explanation
Indices: 100043515--100043636 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
100043505 GTTCTAGTTC
100043515 TCATTTCATACATTTTATGAATTCAAATTCCTTTTTAATTAGATTGATCTATAAATTCAT
1 TCATTTCATACATTTTATGAATTCAAATTCCTTTTTAATTAGATTGATCTATAAATTCAT
*
100043575 TCATTTCATACCTTTTATGAATTCAAATTCCTTTTTAATTAGATTGATCTATAAATTCAT
1 TCATTTCATACATTTTATGAATTCAAATTCCTTTTTAATTAGATTGATCTATAAATTCAT
100043635 TC
1 TC
100043637 TTCATTTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (60 bp):
TCATTTCATACATTTTATGAATTCAAATTCCTTTTTAATTAGATTGATCTATAAATTCAT
Found at i:100043631 original size:28 final size:28
Alignment explanation
Indices: 100043539--100043632 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 28
100043529 TTATGAATTC
100043539 AAATTCCTTTTTAATTAGATTGATCTAT
1 AAATTCCTTTTTAATTAGATTGATCTAT
* * ** * **
100043567 AAATTCATTCATTTCA-TACCTTTTATGAATT
1 AAATTCCTT--TTTAATTA-GATTGATCTA-T
100043598 CAAATTCCTTTTTAATTAGATTGATCTAT
1 -AAATTCCTTTTTAATTAGATTGATCTAT
100043627 AAATTC
1 AAATTC
100043633 ATTCTTCATT
Statistics
Matches: 46, Mismatches: 14, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
28 14 0.30
29 3 0.07
30 18 0.39
31 3 0.07
32 8 0.17
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (28 bp):
AAATTCCTTTTTAATTAGATTGATCTAT
Found at i:100055787 original size:19 final size:19
Alignment explanation
Indices: 100055750--100055787 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
100055740 ACTTGTCAGA
*
100055750 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
100055769 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
100055788 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:100070371 original size:12 final size:12
Alignment explanation
Indices: 100070354--100070390 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
100070344 CATATCAGTG
100070354 GTGGAATACTTT
1 GTGGAATACTTT
100070366 GTGGAATACTTT
1 GTGGAATACTTT
*
100070378 GTGGAATAATTT
1 GTGGAATACTTT
100070390 G
1 G
100070391 ATATCAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (12 bp):
GTGGAATACTTT
Found at i:100070406 original size:22 final size:22
Alignment explanation
Indices: 100070378--100070424 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
100070368 GGAATACTTT
100070378 GTGGAATAATTTGATATCAGTG
1 GTGGAATAATTTGATATCAGTG
*
100070400 GTGGAATACTTTGATATCAGTG
1 GTGGAATAATTTGATATCAGTG
100070422 GTG
1 GTG
100070425 CTAAGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.06, G:0.30, T:0.36
Consensus pattern (22 bp):
GTGGAATAATTTGATATCAGTG
Found at i:100070721 original size:21 final size:21
Alignment explanation
Indices: 100070697--100070738 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100070687 AATTTGTTGT
100070697 GTTAGTCGACAAAGCTTGCAA
1 GTTAGTCGACAAAGCTTGCAA
100070718 GTTAGTCGACAAAGCTTGCAA
1 GTTAGTCGACAAAGCTTGCAA
100070739 AGCTGAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
GTTAGTCGACAAAGCTTGCAA
Found at i:100073945 original size:12 final size:12
Alignment explanation
Indices: 100073928--100073952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100073918 CCGAAGTCAG
100073928 AAGCTTTCTGGT
1 AAGCTTTCTGGT
100073940 AAGCTTTCTGGT
1 AAGCTTTCTGGT
100073952 A
1 A
100073953 TTAGTTGGCT
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGCTTTCTGGT
Found at i:100075800 original size:13 final size:13
Alignment explanation
Indices: 100075784--100075809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100075774 GATAAGATCC
100075784 ATCGCATATCATT
1 ATCGCATATCATT
100075797 ATCGCATATCATT
1 ATCGCATATCATT
100075810 TCTCCAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCGCATATCATT
Found at i:100080663 original size:55 final size:55
Alignment explanation
Indices: 100080571--100080674 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
100080561 CGTGCGACAT
* * * *
100080571 GGCCGTGGGTGAATCTGTCAAAATAACATGGGTGTGCGACACGCCCATGTCTAGA
1 GGCCGTGGGTGAAACTGACAAAACAACACGGGTGTGCGACACGCCCATGTCTAGA
* * *
100080626 GGCCGTGGTTGAAACTGAGAAAACAACACGGGTGTGCGACATGCCCATG
1 GGCCGTGGGTGAAACTGACAAAACAACACGGGTGTGCGACACGCCCATG
100080675 CTCACTACTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (55 bp):
GGCCGTGGGTGAAACTGACAAAACAACACGGGTGTGCGACACGCCCATGTCTAGA
Found at i:100097275 original size:23 final size:23
Alignment explanation
Indices: 100097246--100097301 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
100097236 ATCTAATAAA
**
100097246 AATAAAAAATAAAAAC-TAATTT
1 AATAAAAAATAAAAACATAAAAT
*
100097268 AATAAAAATTAAAAACATAAAAT
1 AATAAAAAATAAAAACATAAAAT
100097291 AATAAATAAAT
1 AATAAA-AAAT
100097302 GTTTTTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 15 0.54
23 10 0.36
24 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (23 bp):
AATAAAAAATAAAAACATAAAAT
Found at i:100103920 original size:48 final size:48
Alignment explanation
Indices: 100103862--100104337 Score: 736
Period size: 48 Copynumber: 10.0 Consensus size: 48
100103852 TTGATGCATA
100103862 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
100103910 AGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
100103958 AGATATGTATATGTGGT--A----AA--GCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
100103998 AGATATGTATAGGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
100104046 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
100104094 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
100104142 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
*
100104194 AGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
100104242 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTAAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGT-GAA-ATATGTATG
*
100104292 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
100104338 GGCGATGTGT
Statistics
Matches: 393, Mismatches: 19, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
40 36 0.09
42 3 0.01
46 3 0.01
47 1 0.00
48 259 0.66
49 5 0.01
50 42 0.11
51 2 0.01
52 42 0.11
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:100104592 original size:37 final size:37
Alignment explanation
Indices: 100104488--100104592 Score: 183
Period size: 37 Copynumber: 2.8 Consensus size: 37
100104478 ATATATTCCA
*
100104488 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
100104525 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
100104562 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
100104593 CATCTGAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:100107614 original size:18 final size:18
Alignment explanation
Indices: 100107588--100107674 Score: 52
Period size: 18 Copynumber: 4.8 Consensus size: 18
100107578 CATTGCTTTT
*
100107588 ATTAAAAATTAGAAAAAA
1 ATTATAAATTAGAAAAAA
*
100107606 ATTATAAA-TA-ATAAAA
1 ATTATAAATTAGAAAAAA
* ** *
100107622 ATAATAAATTTTAGAAAA
1 ATTATAAATTAGAAAAAA
**
100107640 ATTATTAAATTCTAATAAAA
1 ATTA-TAAATTAGAA-AAAA
*
100107660 ATATAAAAATTAGAA
1 AT-TATAAATTAGAA
100107675 TTTTTATAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
16 12 0.23
17 3 0.06
18 15 0.28
19 8 0.15
20 13 0.25
21 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATTATAAATTAGAAAAAA
Found at i:100107640 original size:35 final size:36
Alignment explanation
Indices: 100107596--100107666 Score: 85
Period size: 38 Copynumber: 1.9 Consensus size: 36
100107586 TTATTAAAAA
100107596 TTAGAAAAAAATTA-TAAA-TAATAAAAATAATAAATT
1 TTAG-AAAAAATTATTAAATTAATAAAAAT-ATAAATT
100107632 TTAG-AAAAATTATTAAATTCTAATAAAAATATAAA
1 TTAGAAAAAATTATTAAA-T-TAATAAAAATATAAA
100107667 AATTAGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
34 8 0.26
35 4 0.13
36 4 0.13
37 5 0.16
38 10 0.32
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
TTAGAAAAAATTATTAAATTAATAAAAATATAAATT
Found at i:100107659 original size:19 final size:19
Alignment explanation
Indices: 100107614--100107666 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
100107604 AAATTATAAA
*
100107614 TAATAAAAATAATAAATTT
1 TAATAAAAATAATAAATTC
* *
100107633 TAGA-AAAATTATTAAATTC
1 TA-ATAAAAATAATAAATTC
100107652 TAATAAAAAT-ATAAA
1 TAATAAAAATAATAAA
100107667 AATTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 5 0.19
19 21 0.78
20 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATAAAAATAATAAATTC
Found at i:100107975 original size:28 final size:28
Alignment explanation
Indices: 100107893--100107981 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
100107883 ATTTACGAAA
* *
100107893 TTTATATTTCTTTACATTTTGTATAATTTT
1 TTTATATTTCTATA-AATTT-TATAATTTT
* *
100107923 CTTACGACTTTCTA-AAATTTTATAATTTT
1 TTTA-TA-TTTCTATAAATTTTATAATTTT
*
100107952 TTTATATTTCTATATATTTTATAATTTT
1 TTTATATTTCTATAAATTTTATAATTTT
100107980 TT
1 TT
100107982 AGGATTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.12
28 17 0.35
29 12 0.24
30 7 0.14
31 2 0.04
32 5 0.10
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATATTTCTATAAATTTTATAATTTT
Found at i:100107998 original size:57 final size:59
Alignment explanation
Indices: 100107893--100108010 Score: 143
Period size: 57 Copynumber: 2.0 Consensus size: 59
100107883 ATTTACGAAA
* * *
100107893 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTCTAAAATTTTATAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTTT
* * * *
100107952 TTTATATTTCTATATA-TTT-TATAATTTT-TTAGGATTTTTATAAAATTTTACACTTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTACAATTTT
100108009 TT
1 TT
100108011 AAAAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
56 5 0.10
57 29 0.57
58 3 0.06
59 14 0.27
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (59 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTTT
Found at i:100108000 original size:19 final size:18
Alignment explanation
Indices: 100107968--100108032 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
100107958 TTTCTATATA
**
100107968 TTTTATAATTTTTTAGGAT
1 TTTTATAAAATTTTA-GAT
*
100107987 TTTTATAAAATTTTACACTT
1 TTTTATAAAATTTTAGA--T
*
100108007 TTTTAAAAAATTTTACGAT
1 TTTTATAAAATTTTA-GAT
100108026 TTTTATA
1 TTTTATA
100108033 TTTTTTTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 15 0.41
21 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTATAAAATTTTAGAT
Found at i:100108280 original size:94 final size:92
Alignment explanation
Indices: 100108148--100108341 Score: 248
Period size: 94 Copynumber: 2.1 Consensus size: 92
100108138 AAAGCAGGGG
* * * * *
100108148 CTTAATTACTTTTTTTGAAAAAAGTTTGTGGGTCTTTTTGA-TGCATTTTGAAAGTTCAAGTACT
1 CTTAATTTCTTTTTTTAAAAAAAGTTTGAGGGCCTTTTTGATTG-ATTTTGAAAGTTCAAGTACC
* *
100108212 CAATTGAGTGCAAAAAAA-AAAGTAGGAA
65 CAAATGAGTG-AAAAAAATAAAATAGGAA
*
100108240 CTTAATTTCTCTTTTTTAAAAAAAGGTTTGAGGGCCTTTTTGATTGATTTTGAAAGTTTAAGTAC
1 CTTAATTTCT-TTTTTTAAAAAAA-GTTTGAGGGCCTTTTTGATTGATTTTGAAAGTTCAAGTAC
**
100108305 CCAAATGAGTGAAAAAAATAAAATAGGGG
64 CCAAATGAGTGAAAAAAATAAAATAGGAA
100108334 CTTAATTT
1 CTTAATTT
100108342 ATTGGTACAT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
92 9 0.10
93 19 0.22
94 58 0.66
95 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (92 bp):
CTTAATTTCTTTTTTTAAAAAAAGTTTGAGGGCCTTTTTGATTGATTTTGAAAGTTCAAGTACCC
AAATGAGTGAAAAAAATAAAATAGGAA
Found at i:100112841 original size:14 final size:14
Alignment explanation
Indices: 100112822--100112860 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
100112812 AAATCAATAA
100112822 AATTTTCTTATCAG
1 AATTTTCTTATCAG
*
100112836 AATTTTCTTAGCAG
1 AATTTTCTTATCAG
100112850 AATTTTCTTAT
1 AATTTTCTTAT
100112861 GACATTCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (14 bp):
AATTTTCTTATCAG
Found at i:100113320 original size:2 final size:2
Alignment explanation
Indices: 100113313--100113340 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
100113303 GTTTATTTTG
100113313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100113341 GTTTGAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100113476 original size:31 final size:31
Alignment explanation
Indices: 100113441--100113511 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 31
100113431 GACATGATAT
* *
100113441 AGGGTATAAATATGAAAACATGAATGATTAC
1 AGGGTATAAATACGAAAACATGAATAATTAC
* * * * *
100113472 AGGGTGT-GATACGTAAATATGGATAATTAC
1 AGGGTATAAATACGAAAACATGAATAATTAC
100113502 AGGGTATAAA
1 AGGGTATAAA
100113512 CATGTAGAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.27
Consensus pattern (31 bp):
AGGGTATAAATACGAAAACATGAATAATTAC
Found at i:100113773 original size:31 final size:31
Alignment explanation
Indices: 100113735--100113798 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
100113725 TTTGGTGTGG
100113735 TGGAGGGATGTAATTGAAAATGTTATACATT
1 TGGAGGGATGTAATTGAAAATGTTATACATT
100113766 TGGAGGGATGTAATTGAAAATGTTATACATT
1 TGGAGGGATGTAATTGAAAATGTTATACATT
100113797 TG
1 TG
100113799 ATGCCTACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (31 bp):
TGGAGGGATGTAATTGAAAATGTTATACATT
Found at i:100114955 original size:26 final size:26
Alignment explanation
Indices: 100114926--100115033 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100114916 TGGTACAAAT
100114926 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100114952 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100114978 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100115004 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100115030 TGAT
1 TGAT
100115034 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100116507 original size:28 final size:28
Alignment explanation
Indices: 100116476--100116538 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
100116466 AAAAGCAGCT
100116476 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTATGTATGGA
* *
100116504 AAATTACTGTTATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTATGTATGGA
100116532 AAATTAC
1 AAATTAC
100116539 CGTTATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (28 bp):
AAATTACTATAATACCCCTATGTATGGA
Found at i:100116543 original size:28 final size:28
Alignment explanation
Indices: 100116487--100116551 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
100116477 AATTACTATA
*
100116487 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTATGTATGGAAAATTACCGTT
100116515 ATACCCCTATGTATGGAAAATTACCGTT
1 ATACCCCTATGTATGGAAAATTACCGTT
100116543 ATACCCCTA
1 ATACCCCTA
100116552 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGGAAAATTACCGTT
Found at i:100116697 original size:27 final size:26
Alignment explanation
Indices: 100116657--100116797 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
100116647 AGGAAGCGTC
*
100116657 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
100116684 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
100116711 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
100116738 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
100116765 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
100116792 CTGGTG
1 CTGGTG
100116798 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 89 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:100116739 original size:54 final size:53
Alignment explanation
Indices: 100116657--100116797 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
100116647 AGGAAGCGTC
100116657 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
100116711 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
100116765 CTGGTGGCTCTACCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
100116798 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:100116808 original size:27 final size:26
Alignment explanation
Indices: 100116657--100116815 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 26
100116647 AGGAAGCGTC
*
100116657 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCT-CGCCACAA-TATCTGTAT
100116684 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTC-GCCACA-ATATCTGTAT
* *
100116711 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCT-CGCCAC-AATATCTGTAT
100116738 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTC-GCCACA-ATATCTGTAT
*
100116765 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTC-GCCACAATATCTGTAT
* *
100116792 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGC-TCGCCACAATATCTG
100116816 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 4 0.04
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCGCCACAATATCTGTAT
Found at i:100118577 original size:20 final size:19
Alignment explanation
Indices: 100118545--100118594 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
100118535 TTATAAATTT
*
100118545 TAAAAAGTG-AAAATAATA
1 TAAAAATTGAAAAATAATA
**
100118563 TATAAAATTGAAAAATGTTA
1 TA-AAAATTGAAAAATAATA
100118583 TAAAAATTGAAA
1 TAAAAATTGAAA
100118595 TTTTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 16 0.59
20 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
TAAAAATTGAAAAATAATA
Found at i:100118683 original size:29 final size:30
Alignment explanation
Indices: 100118651--100118707 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
100118641 TTTTAGAATT
100118651 TTATAAAAAATTATT-TTTAT-TTTTTAAAA
1 TTATAAAAAATT-TTATTTATATTTTTAAAA
*
100118680 TTATAAATAATTTTATTTATATTTTTAA
1 TTATAAAAAATTTTATTTATATTTTTAA
100118708 TCAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TTATAAAAAATTTTATTTATATTTTTAAAA
Found at i:100121872 original size:25 final size:25
Alignment explanation
Indices: 100121844--100121921 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
100121834 ACAAAGCGGG
**
100121844 AGTCCTAATCTAATTCCTAATTTGA
1 AGTCCTAATAGAATTCCTAATTTGA
* *
100121869 AGTCCTAATAGAATTCTTAATTTAA
1 AGTCCTAATAGAATTCCTAATTTGA
*
100121894 AGTTCTAATAGAATTCCTAATTTGA
1 AGTCCTAATAGAATTCCTAATTTGA
100121919 AGT
1 AGT
100121922 TTATAAAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (25 bp):
AGTCCTAATAGAATTCCTAATTTGA
Found at i:100126570 original size:25 final size:25
Alignment explanation
Indices: 100126531--100126608 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
100126521 ACAAAGGGAG
** * *
100126531 AGTCCTAATCTAATTCCTAATTTGA
1 AGTCCTAATAGAATTCTTAATTTAA
**
100126556 AGTCCTGGTAGAATTCTTAATTTAA
1 AGTCCTAATAGAATTCTTAATTTAA
*
100126581 AGTTCTAATAGAATTCTTAATTTAA
1 AGTCCTAATAGAATTCTTAATTTAA
100126606 AGT
1 AGT
100126609 TTATAAAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (25 bp):
AGTCCTAATAGAATTCTTAATTTAA
Found at i:100129577 original size:6 final size:6
Alignment explanation
Indices: 100129566--100129590 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100129556 ATTAGATTAC
100129566 TACATT TACATT TACATT TACATT T
1 TACATT TACATT TACATT TACATT T
100129591 GAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TACATT
Found at i:100130266 original size:17 final size:17
Alignment explanation
Indices: 100130244--100130276 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
100130234 AAGGATGGTT
100130244 TTTACAAAGAGAGAATG
1 TTTACAAAGAGAGAATG
100130261 TTTACAAAGAGAGAAT
1 TTTACAAAGAGAGAAT
100130277 TCTAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
TTTACAAAGAGAGAATG
Found at i:100130284 original size:15 final size:17
Alignment explanation
Indices: 100130246--100130284 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
100130236 GGATGGTTTT
*
100130246 TACAAAGAGAGAATGTT
1 TACAAAGAGAGAATGTC
100130263 TACAAAGAGAGAAT-TC
1 TACAAAGAGAGAATGTC
100130279 TA-AAAG
1 TACAAAG
100130285 TAAGATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 3 0.14
17 14 0.67
ACGTcount: A:0.51, C:0.08, G:0.21, T:0.21
Consensus pattern (17 bp):
TACAAAGAGAGAATGTC
Found at i:100136160 original size:21 final size:21
Alignment explanation
Indices: 100136134--100136184 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
100136124 CTATATTTTC
100136134 TTCTTCATCTGTTGAAGTCTT
1 TTCTTCATCTGTTGAAGTCTT
100136155 TTCTTCATCTGTTGAAGTCTT
1 TTCTTCATCTGTTGAAGTCTT
100136176 TTCTTCATC
1 TTCTTCATC
100136185 AGATTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.22, G:0.12, T:0.53
Consensus pattern (21 bp):
TTCTTCATCTGTTGAAGTCTT
Found at i:100137171 original size:17 final size:17
Alignment explanation
Indices: 100137149--100137181 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100137139 AATGATGGTT
*
100137149 TTTACAAAGAGGAAATG
1 TTTACAAAGAGAAAATG
100137166 TTTACAAAGAGAAAAT
1 TTTACAAAGAGAAAAT
100137182 ACTAAAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (17 bp):
TTTACAAAGAGAAAATG
Found at i:100144591 original size:22 final size:22
Alignment explanation
Indices: 100144566--100144611 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
100144556 TAAATCGTAA
*
100144566 AAATGCAACTATTAAGTTTTTT
1 AAATGCAACAATTAAGTTTTTT
100144588 AAATGCAACAATTAAGTTTTTT
1 AAATGCAACAATTAAGTTTTTT
100144610 AA
1 AA
100144612 CTAACATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
AAATGCAACAATTAAGTTTTTT
Found at i:100146888 original size:14 final size:14
Alignment explanation
Indices: 100146869--100146898 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100146859 TGCTTGATTG
100146869 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
100146883 TTAGTCCATTATTT
1 TTAGTCCATCATTT
100146897 TT
1 TT
100146899 GTGTCATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:100147412 original size:130 final size:132
Alignment explanation
Indices: 100147260--100147500 Score: 332
Period size: 130 Copynumber: 1.8 Consensus size: 132
100147250 GATATTTAGT
* *
100147260 AATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGC-ATTTGCTCAAAATAATCGAAT
1 AATTCGTGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCGA-TTGCTCAAAATAATCAAAT
* *
100147324 ATCGCTT-TAAAATTTCACTCGTG-TCTT-TTAAAATCC-CTAAAACGAAGGCGATATCTGTTAT
65 ATCCCTTCT-AAATTTCACTCG-GCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATCTGTTAT
100147385 TTGAC
128 TTGAC
* * *
100147390 AATTCGTAGG-ATCGTGCCCTAACGTGTTGGGTAGCAATTTCTCGATTGTTTAAAATAATCAAAT
1 AATTCGT-GGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCGATTGCTCAAAATAATCAAAT
*
100147454 ATCCCTTCTAAATTTCACTCGGCTCTTCTAAAAATCCTTTAAAACGA
65 ATCCCTTCTAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGA
100147501 GGGCAATACT
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
129 1 0.01
130 76 0.78
131 12 0.12
132 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (132 bp):
AATTCGTGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCGATTGCTCAAAATAATCAAATA
TCCCTTCTAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATCTGTTATTTG
AC
Found at i:100148705 original size:25 final size:25
Alignment explanation
Indices: 100148671--100148722 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
100148661 TAGTTAGATG
100148671 AGAACACCCAACCATATGATATTAA
1 AGAACACCCAACCATATGATATTAA
100148696 AGAACACCCAACCATATGATATTAA
1 AGAACACCCAACCATATGATATTAA
100148721 AG
1 AG
100148723 GTAGAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (25 bp):
AGAACACCCAACCATATGATATTAA
Found at i:100150803 original size:16 final size:17
Alignment explanation
Indices: 100150760--100150803 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
100150750 TTGTTGTTAC
100150760 CATCTCTGAATGAGCTG
1 CATCTCTGAATGAGCTG
100150777 CTATCTCTGAATGAGCTG
1 C-ATCTCTGAATGAGCTG
*
100150795 -ATCTATGAA
1 CATCTCTGAA
100150804 AATTGAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 16 0.64
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (17 bp):
CATCTCTGAATGAGCTG
Found at i:100151557 original size:19 final size:19
Alignment explanation
Indices: 100151533--100151570 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100151523 GCCACTGCCA
*
100151533 CCCACCATAATTAAATTTG
1 CCCACCATAATCAAATTTG
*
100151552 CCCACCGTAATCAAATTTG
1 CCCACCATAATCAAATTTG
100151571 TTCTTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:100155956 original size:17 final size:17
Alignment explanation
Indices: 100155889--100155956 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
100155879 GCTCTCAAGC
** *
100155889 TTGGTGAGCTCGTGGTC
1 TTGGTGAGCTCGCAGTT
* *
100155906 TTGGTAAGCTCGCAATT
1 TTGGTGAGCTCGCAGTT
*
100155923 TTGGTGAGCTCGTAGTT
1 TTGGTGAGCTCGCAGTT
*
100155940 TTGGTGAGCTTGCAGTT
1 TTGGTGAGCTCGCAGTT
100155957 CACAGTTTGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.13, C:0.15, G:0.34, T:0.38
Consensus pattern (17 bp):
TTGGTGAGCTCGCAGTT
Found at i:100160329 original size:17 final size:17
Alignment explanation
Indices: 100160307--100160342 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
100160297 TCGCAGTTCA
100160307 CAGTTCACATGGATGAT
1 CAGTTCACATGGATGAT
100160324 CAGTTCACATGGATGAT
1 CAGTTCACATGGATGAT
100160341 CA
1 CA
100160343 TTTCGCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (17 bp):
CAGTTCACATGGATGAT
Found at i:100163235 original size:41 final size:40
Alignment explanation
Indices: 100163184--100163352 Score: 126
Period size: 41 Copynumber: 4.1 Consensus size: 40
100163174 ACAAAAATTG
**
100163184 TAAAACCCAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAA-CCAGAGCAATAGCGGCGTTTTACGTAAAACGCCGC
* * * ** *
100163225 TAAAAGCCAGAGCATTTGTGGCGTTTTTGGTAAAACGCCAC
1 TAAAA-CCAGAGCAATAGCGGCGTTTTACGTAAAACGCCGC
* * *
100163266 TAAAAACCAAAG-AATTAGCGGCGCTTTATGTAAAACGCCGC
1 T-AAAACCAGAGCAA-TAGCGGCGTTTTACGTAAAACGCCGC
* * ** *
100163307 TAGAAACTAGAGCATTAGCGGCACTTT-CGGTAAAACGCAGC
1 TA-AAACCAGAGCAATAGCGGCGTTTTAC-GTAAAACGCCGC
100163348 TAAAA
1 TAAAA
100163353 GTCATATAAC
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
40 5 0.05
41 90 0.90
42 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAACCAGAGCAATAGCGGCGTTTTACGTAAAACGCCGC
Found at i:100163406 original size:45 final size:45
Alignment explanation
Indices: 100163357--100163462 Score: 131
Period size: 45 Copynumber: 2.4 Consensus size: 45
100163347 CTAAAAGTCA
* *
100163357 TATAACCCCTAAAACCCTAAACCCTAAAAAACATAAACACTAATC
1 TATAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAAAC
* ** * *
100163402 TATAACCCCTAAAACACTAAACCCCCTAAACCCTAAACACTAAAC
1 TATAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAAAC
**
100163447 TATAACCTTTAAAACC
1 TATAACCCCTAAAACC
100163463 TTAATTAAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (45 bp):
TATAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAAAC
Found at i:100164466 original size:114 final size:115
Alignment explanation
Indices: 100164321--100164842 Score: 520
Period size: 114 Copynumber: 4.6 Consensus size: 115
100164311 CCATTTTCTT
* * *
100164321 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCACAATAGGGTTG-ATTTAGCGGCGCAAGGGAA
1 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCAAGGGAA
* * * *
100164385 TAAACGCCACTAAGGGTTATTTTGTTTAGATCAAAACGGTGTAGTTTTTA
66 TAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTTTA
* * * * * * * *
100164435 TGGATTTTTAGTGGCGTTTTTGGTTTAAACGCCACAATAGGTTTG-ATTTAGCAGCGCTAGAGTA
1 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCAAGGGAA
* * *
100164499 TAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGATGTAGTTTTGA
66 TAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTTTA
* * * * * **
100164549 TCGATTCTTAGTGGCGTTTTAGGGTAAAATGCCGCAATA-ATTTCGCCTTTAGCGGCGC-TTGGA
1 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTT-GCCTTTAGCGGCGCAAGGGA
* * * * * * *
100164612 GATAAAACGCCACTAAATGTTATTCTGCTCATATGAAAACGACGTCGTTTTTT
65 -AT-AAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTTTA
* * * * * *
100164665 TGGATTTTTAGTGGCGTTTTAGGGTGAAACGCTGCAATTGATTTGCCTTTAGCGGCGCTATGGG-
1 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGC-AAGGGA
* * *
100164729 A-AAACGCCACTAAAGTTTATTCTGTTTATATCAAAACGGTGTCGTTTTGT-
65 ATAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTT-TA
* * * * * *
100164779 TTGTTTTTTAGTGGCG-TTTATGTTAAAACGCGGCAATTGGTTTGCCTTTAGCGGCGCTAGGGAA
1 TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCAAGGGAA
100164843 AAAGGCCGCA
Statistics
Matches: 341, Mismatches: 58, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
112 3 0.01
113 40 0.12
114 191 0.56
115 13 0.04
116 87 0.26
117 4 0.01
118 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (115 bp):
TGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCAAGGGAA
TAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTTTA
Found at i:100165048 original size:59 final size:58
Alignment explanation
Indices: 100164928--100165048 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 58
100164918 ATTCATTTTC
* ** * *
100164928 CCCCTTCTCCCTGGTTTATTTCCCCTATTTTCCCTTCTTCGAATCCCTAAAATAATCA
1 CCCCTTCTCCCTAGTTTATTTCCCCTATTTTCCCTAATTCAAAACCCTAAAATAATCA
*
100164986 CCCCTTCTCCCTAGTTTATTTCCCCTCATTTTCCCTAATTCAAAACCCTAAAATAATTA
1 CCCCTTCTCCCTAGTTTATTTCCCCT-ATTTTCCCTAATTCAAAACCCTAAAATAATCA
100165045 CCCC
1 CCCC
100165049 CTTTTCCTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 25 0.45
59 31 0.55
ACGTcount: A:0.22, C:0.37, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCCTTCTCCCTAGTTTATTTCCCCTATTTTCCCTAATTCAAAACCCTAAAATAATCA
Found at i:100166539 original size:19 final size:18
Alignment explanation
Indices: 100166507--100166556 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
100166497 AATCAATTAA
100166507 AATTTATAAT-AATAAAAAT
1 AATTT-TAATAAAT-AAAAT
100166526 AATTTTAATAAATAAAAT
1 AATTTTAATAAATAAAAT
*
100166544 ATTTTTAAATAAA
1 AATTTT-AATAAA
100166557 CTGAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTTAATAAATAAAAT
Found at i:100168036 original size:26 final size:26
Alignment explanation
Indices: 100168007--100168114 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
100167997 TGGTATAAAT
*
100168007 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100168033 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100168059 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100168085 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100168111 TGAT
1 TGAT
100168115 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100174991 original size:26 final size:26
Alignment explanation
Indices: 100174962--100175068 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
100174952 TGGTACAAAT
100174962 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100174988 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100175014 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100175040 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100175065 TGAT
1 TGAT
100175069 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 21 0.28
26 54 0.72
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100179039 original size:25 final size:24
Alignment explanation
Indices: 100179011--100179084 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 24
100179001 TTTATTTTGG
100179011 ATTAATCAGGACACAATTTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
**
100179036 ATT-A-C-GACAC-ATATTTTGCAA
1 ATTAATCAGACACAAT-TTTTTTAA
*
100179057 TTTAATCACGACACAA-TTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
100179081 ATTA
1 ATTA
100179085 CATATTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 1 0.03
23 2 0.05
24 10 0.27
25 8 0.22
26 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAATCAGACACAATTTTTTTAA
Found at i:100179172 original size:9 final size:9
Alignment explanation
Indices: 100179160--100179207 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
100179150 ATATCATATA
100179160 ATAACTTAC
1 ATAACTTAC
100179169 ATAACTTAC
1 ATAACTTAC
*
100179178 AAAACTTAC
1 ATAACTTAC
100179187 ATAACTTAC
1 ATAACTTAC
*
100179196 A-AAATTAC
1 ATAACTTAC
100179204 ATAA
1 ATAA
100179208 TACATAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:100179185 original size:18 final size:18
Alignment explanation
Indices: 100179162--100179207 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
100179152 ATCATATAAT
100179162 AACTTACATAACTTACAA
1 AACTTACATAACTTACAA
100179180 AACTTACATAACTTACAA
1 AACTTACATAACTTACAA
100179198 AA-TTACATAA
1 AACTTACATAA
100179208 TACATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (18 bp):
AACTTACATAACTTACAA
Found at i:100179232 original size:42 final size:42
Alignment explanation
Indices: 100179186--100179268 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
100179176 ACAAAACTTA
*
100179186 CATAACTTACA-AAATTACATAATACATAAATATATATCATAT
1 CATAACTTACACAAATAACATAATACAT-AATATATATCATAT
* * *
100179228 CATAAGTTACACAACTAACATAATACATAATATATTTCATA
1 CATAACTTACACAAATAACATAATACATAATATATATCATA
100179269 AATATGTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 22 0.61
43 14 0.39
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.33
Consensus pattern (42 bp):
CATAACTTACACAAATAACATAATACATAATATATATCATAT
Found at i:100179281 original size:55 final size:56
Alignment explanation
Indices: 100179168--100179381 Score: 281
Period size: 57 Copynumber: 3.8 Consensus size: 56
100179158 TAATAACTTA
* *
100179168 CATAACTTACAAAACTTACATAACTTACA-AAATTACATAATACATAAATATATATCATAT
1 CATAACTTACACAACTTACATAA--TACATAAA-TATAT-AT-CATAAATATATATCATAT
* * * *
100179228 CATAAGTTACACAACTAACATAATACAT-AATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
100179283 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCATAAATATATATCATAT
100179340 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
100179382 TCATAACTTA
Statistics
Matches: 138, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
54 1 0.01
55 41 0.30
56 15 0.11
57 54 0.39
58 7 0.05
60 20 0.14
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:100179347 original size:48 final size:44
Alignment explanation
Indices: 100179295--100179394 Score: 89
Period size: 43 Copynumber: 2.2 Consensus size: 44
100179285 TAACTTACAC
*
100179295 AACTTACATAATACTCCAAATATATATCAT-AA-ATATATATCTTATCAT
1 AACTTACATAA-ACT-CAAATA-ATA-CATAAATATA--TATCATATCAT
* * *
100179343 AACTTACA-CAACTTACATAATACATAAATATATATCATATCAT
1 AACTTACATAAACTCAAATAATACATAAATATATATCATATCAT
100179386 AACTTACAT
1 AACTTACAT
100179395 GCCTTACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
43 21 0.47
44 5 0.11
45 7 0.16
46 3 0.07
47 1 0.02
48 8 0.18
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (44 bp):
AACTTACATAAACTCAAATAATACATAAATATATATCATATCAT
Found at i:100179436 original size:9 final size:9
Alignment explanation
Indices: 100179335--100179454 Score: 54
Period size: 9 Copynumber: 13.6 Consensus size: 9
100179325 AAATATATAT
100179335 CTTATCATAA
1 CTTA-CATAA
*
100179345 CTTACACAA
1 CTTACATAA
100179354 CTTACATAA
1 CTTACATAA
100179363 --TACATAA
1 CTTACATAA
* * *
100179370 -ATATATAT
1 CTTACATAA
*
100179378 CATATCATAA
1 CTTA-CATAA
**
100179388 CTTACATGC
1 CTTACATAA
100179397 CTTACATAA
1 CTTACATAA
* * *
100179406 ATGTATATCA
1 CT-TACATAA
*
100179416 -TAACAT-A
1 CTTACATAA
100179423 CTTACATAA
1 CTTACATAA
100179432 CTTACA-AA
1 CTTACATAA
*
100179440 GCTTACTTAA
1 -CTTACATAA
100179450 CTTAC
1 CTTAC
100179455 GTAATATATA
Statistics
Matches: 84, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
7 8 0.10
8 15 0.18
9 44 0.52
10 17 0.20
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (9 bp):
CTTACATAA
Found at i:100185131 original size:21 final size:21
Alignment explanation
Indices: 100185021--100185120 Score: 123
Period size: 21 Copynumber: 4.8 Consensus size: 21
100185011 ACAACTTAGA
* ** *
100185021 GCAGATGCAGCAAAGAGGGAC
1 GCAGAGGCAGCAGCGAGGGAG
100185042 GCAGCA-GCAGCAGCGAGGGAG
1 GCAG-AGGCAGCAGCGAGGGAG
*
100185063 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
100185084 GCAGAGGCA-CGAGCGAGGGAG
1 GCAGAGGCAGC-AGCGAGGGAG
100185105 GCAGAGGCAGCAGCGA
1 GCAGAGGCAGCAGCGA
100185121 TGGCAGCAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.01
21 67 0.96
22 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.47, T:0.01
Consensus pattern (21 bp):
GCAGAGGCAGCAGCGAGGGAG
Found at i:100185424 original size:31 final size:32
Alignment explanation
Indices: 100185356--100185433 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
100185346 AATTAATGTT
* *
100185356 TTTGGTTGTATTTTTTATGCTAAATTTGCTGTT
1 TTTGGTTGCATTTTTTA-GCTAAATTTGCTGTA
* * *
100185389 TTTGGCTGCATTTTTTA-CTATATTTGTTGTA
1 TTTGGTTGCATTTTTTAGCTAAATTTGCTGTA
*
100185420 TTTGGTTGGATTTT
1 TTTGGTTGCATTTT
100185434 AATGCAGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 23 0.61
33 15 0.39
ACGTcount: A:0.14, C:0.06, G:0.19, T:0.60
Consensus pattern (32 bp):
TTTGGTTGCATTTTTTAGCTAAATTTGCTGTA
Found at i:100187998 original size:20 final size:20
Alignment explanation
Indices: 100187973--100188037 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
100187963 CACGCTTATT
100187973 CTGTTTGCACTTTGGTGCCC
1 CTGTTTGCACTTTGGTGCCC
*
100187993 CTGTTTGCACTATGGTGCCC
1 CTGTTTGCACTTTGGTGCCC
* *
100188013 TTGTATGCACATTT-GTGCCC
1 CTGTTTGCAC-TTTGGTGCCC
*
100188033 TTGTT
1 CTGTT
100188038 CAAACAGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 37 0.95
21 2 0.05
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (20 bp):
CTGTTTGCACTTTGGTGCCC
Found at i:100188881 original size:17 final size:17
Alignment explanation
Indices: 100188859--100188894 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
100188849 TGTTTGATTG
100188859 AAGGAAGCATCAAATGT
1 AAGGAAGCATCAAATGT
100188876 AAGGAAGCATCAAATGT
1 AAGGAAGCATCAAATGT
100188893 AA
1 AA
100188895 CACCCCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (17 bp):
AAGGAAGCATCAAATGT
Found at i:100191054 original size:94 final size:94
Alignment explanation
Indices: 100190887--100191102 Score: 276
Period size: 94 Copynumber: 2.3 Consensus size: 94
100190877 TGATTTGTAC
* * * * *
100190887 GCCAGTGTAAGACATGTCTGGGACATCCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTC
100190952 TGGAACATGGCATCTG-CATC-CAGACGAGG
66 TGGAACATGGCATC-GACA-CACAGACGAGG
* * *
100190981 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAATAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTC
* * *
100191046 TAGG-ACATGGCATCGACACAGAGATGAGT
66 T-GGAACATGGCATCGACACACAGACGAGG
*
100191075 GCCAGTGTAAGACATGTTTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
100191103 GTCGGCCTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.02
94 102 0.96
95 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATGTC
TGGAACATGGCATCGACACACAGACGAGG
Found at i:100191091 original size:47 final size:47
Alignment explanation
Indices: 100190887--100191293 Score: 176
Period size: 47 Copynumber: 8.7 Consensus size: 47
100190877 TGATTTGTAC
* * * ** *
100190887 GCCAGTGTAAGACATGTCTGGGACAT-CCTTCGGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCATACGATGAGT
* *
100190933 GCCAGTGTAAGACCATGTCTGGAACATGGCATCTGCATCCAGACGA-G-G-
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATC-G-A-CCATACGATGAGT
* * *
100190981 GCTAGTGTAAGACATGTCTGGGACAT-GCATC-AGCCATACTAT-AAT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CCATACGATGAGT
* * *
100191026 AGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGA-GATGAGT
1 -GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-CATACGATGAGT
* * *
100191075 GCCAGTGTAAGACATGTTTGGGACAT-GCGTCGGCC-TCAAC-A-GAGAT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCAT--ACGATGAG-T
* * * * *
100191121 AGCCAGTGTAAGACGTGTCTGGGACA-GGTATTG-CC-TAAGA-GTTGT
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCATACGATG-AGT
* * * * * *
100191166 GCTAGTGTAAGACGTGTCTGGGACA-CGCATTG-CC-TAAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCATACGATG-AGT
* * * *
100191210 GCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCACGCGT--GTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-G-AC-CATACG-ATGAGT
* *
100191258 GCCCGTGTAAGACCATGTCTGGGACATGGAATCGAC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC
100191294 AATATATCTC
Statistics
Matches: 287, Mismatches: 42, Indels: 62
0.73 0.11 0.16
Matches are distributed among these distances:
43 7 0.02
44 69 0.24
45 8 0.03
46 42 0.15
47 79 0.28
48 48 0.17
49 24 0.08
50 5 0.02
51 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCATACGATGAGT
Found at i:100191146 original size:94 final size:95
Alignment explanation
Indices: 100190887--100191146 Score: 259
Period size: 94 Copynumber: 2.8 Consensus size: 95
100190877 TGATTTGTAC
* * **
100190887 GCCAGTGTAAGACATGTCTGGGACATCCTTCGGCCAT-ATTATGAG--AGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAACA-GAGATAGCCAGTGTAAGACCAT
*
100190949 GTCTGGAACATGGCATCTGCATCCAGACGAGG
64 GTCTGGGACATGGCATCTGCATCCAGACGAGG
* * * *
100190981 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATACTATA-ATAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AC-AGAGATAGCCAGTGTAAGACCAT
* * * *
100191043 GTCTAGGACATGGCATC-GACA-CAGAGATGAGT
64 GTCTGGGACATGGCATCTG-CATC-CAGACGAGG
* * *
100191075 GCCAGTGTAAGACATGTTTGGGACATGCGTCGGCCTCAACAGAGATAGCCAGTGTAAGA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCCAGTGTAAGACCATGT
100191139 CTGGGACA
66 CTGGGACA
100191147 GGTATTGCCT
Statistics
Matches: 135, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
92 1 0.01
93 4 0.03
94 111 0.82
95 17 0.13
96 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (95 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCTGCATCCAGACGAGG
Found at i:100191181 original size:44 final size:44
Alignment explanation
Indices: 100191125--100191239 Score: 185
Period size: 44 Copynumber: 2.6 Consensus size: 44
100191115 AGAGATAGCC
* *
100191125 AGTGTAAGACGTGTCTGGGACAGGTATTGCCTAAGAGTTGTGCT
1 AGTGTAAGACGTGTCTGGGACACGCATTGCCTAAGAGTTGTGCT
100191169 AGTGTAAGACGTGTCTGGGACACGCATTGCCTAAGAGTTGTGCT
1 AGTGTAAGACGTGTCTGGGACACGCATTGCCTAAGAGTTGTGCT
* * *
100191213 AGTGTAAGACATGTTTGGGACATGCAT
1 AGTGTAAGACGTGTCTGGGACACGCAT
100191240 CAGCACGCGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (44 bp):
AGTGTAAGACGTGTCTGGGACACGCATTGCCTAAGAGTTGTGCT
Found at i:100200947 original size:3 final size:3
Alignment explanation
Indices: 100200941--100200988 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
100200931 TCAATGCCAA
100200941 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100200989 TTAAAGCCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100204306 original size:13 final size:13
Alignment explanation
Indices: 100204288--100204320 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
100204278 GGTTATTTAT
100204288 TAAACTAATTAAC
1 TAAACTAATTAAC
100204301 TAAACTAATTAAC
1 TAAACTAATTAAC
100204314 T-AACTAA
1 TAAACTAA
100204321 ACTAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:100206007 original size:22 final size:22
Alignment explanation
Indices: 100205982--100206025 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100205972 GAGACAAAGG
100205982 TTAGAATCAAGATAATTTCAAT
1 TTAGAATCAAGATAATTTCAAT
100206004 TTAGAATCAAGATAATTTCAAT
1 TTAGAATCAAGATAATTTCAAT
100206026 ATATTACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
TTAGAATCAAGATAATTTCAAT
Found at i:100207290 original size:6 final size:6
Alignment explanation
Indices: 100207276--100207308 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
100207266 AATACAATTG
*
100207276 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
100207309 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:100214389 original size:17 final size:17
Alignment explanation
Indices: 100214350--100214393 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
100214340 AATTAGGAAT
*
100214350 GTAATTTTTCAGTTTTA
1 GTAATTTTTCAGTTTAA
100214367 GT-ATTTTTCTAG-TTAA
1 GTAATTTTTC-AGTTTAA
100214383 GTAATTTTTCA
1 GTAATTTTTCA
100214394 ATTCAATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (17 bp):
GTAATTTTTCAGTTTAA
Found at i:100219159 original size:5 final size:5
Alignment explanation
Indices: 100219149--100219190 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
100219139 AGTATAAATA
100219149 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-T TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
100219191 TATATATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:100219281 original size:4 final size:4
Alignment explanation
Indices: 100219267--100219305 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
100219257 AACGAAACAG
* *
100219267 AGAA GGAA AGAA AGAAA AGAA AAAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AGAA AG
100219306 GAGAAAAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:100219287 original size:17 final size:17
Alignment explanation
Indices: 100219273--100219304 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100219263 ACAGAGAAGG
100219273 AAAGAAAGAAAAGAAAA
1 AAAGAAAGAAAAGAAAA
100219290 AAAGAAAG-AAAGAAA
1 AAAGAAAGAAAAGAAA
100219305 GGAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAGAAAA
Found at i:100219296 original size:21 final size:21
Alignment explanation
Indices: 100219272--100219314 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
100219262 AACAGAGAAG
100219272 GAAAGAAAGAAAAGAAAAAAA
1 GAAAGAAAGAAAAGAAAAAAA
* *
100219293 GAAAGAAAGAAAGGAGAAAAA
1 GAAAGAAAGAAAAGAAAAAAA
100219314 G
1 G
100219315 CTAGGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAGAAAAAAA
Found at i:100220919 original size:9 final size:9
Alignment explanation
Indices: 100220905--100220981 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
100220895 ATAAGTATAA
100220905 AATTAACCG
1 AATTAACCG
100220914 AATTAACCG
1 AATTAACCG
*
100220923 AATTACCCG
1 AATTAACCG
*
100220932 AATTACCCG
1 AATTAACCG
*
100220941 AATT-ACCTA
1 AATTAACC-G
100220950 AATTAACCG
1 AATTAACCG
*
100220959 AATTAACCA
1 AATTAACCG
* *
100220968 AATAAATCG
1 AATTAACCG
100220977 AATTA
1 AATTA
100220982 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.04
9 52 0.91
10 3 0.05
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:100221077 original size:5 final size:5
Alignment explanation
Indices: 100221067--100221118 Score: 50
Period size: 5 Copynumber: 9.2 Consensus size: 5
100221057 ATTTTTATGA
100221067 TTGGG TTGGG TAATTGGG TTGGG TTGGG TAATTGGG TTGGG TTGGG TTGGG
1 TTGGG TTGGG T---TGGG TTGGG TTGGG ---TTGGG TTGGG TTGGG TTGGG
100221118 T
1 T
100221119 ACTTGAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 31 0.76
8 10 0.24
ACGTcount: A:0.08, C:0.00, G:0.52, T:0.40
Consensus pattern (5 bp):
TTGGG
Found at i:100221090 original size:18 final size:18
Alignment explanation
Indices: 100221067--100221113 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
100221057 ATTTTTATGA
100221067 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
100221085 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
100221103 TTGGGTTGGGT
1 TTGGGTTGGGT
100221114 TGGGTACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:100221108 original size:13 final size:13
Alignment explanation
Indices: 100221066--100221090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100221056 AATTTTTATG
100221066 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
100221079 ATTGGGTTGGGT
1 ATTGGGTTGGGT
100221091 TGGGTAATTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:100223586 original size:2 final size:2
Alignment explanation
Indices: 100223579--100223608 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100223569 GTGAAAATAC
100223579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100223609 AAACTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100225976 original size:17 final size:17
Alignment explanation
Indices: 100225947--100225988 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
100225937 AAGCAGAAAC
100225947 AAAACAGAGAAGAAA-AG
1 AAAA-AGAGAAGAAAGAG
100225964 AAAAAGAGAAAGAAAGGAG
1 AAAAAGAG-AAGAAA-GAG
100225983 AAAAAG
1 AAAAAG
100225989 CTAGGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
19 8 0.36
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAGAAAGAG
Found at i:100228288 original size:3 final size:3
Alignment explanation
Indices: 100228280--100228336 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
100228270 TAAGAAGTAA
100228280 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100228328 AAT AAT AAT
1 AAT AAT AAT
100228337 GCCATCGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100239071 original size:16 final size:16
Alignment explanation
Indices: 100239050--100239089 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
100239040 AGGGCATGAG
100239050 GGCATTTTGGTCATTA
1 GGCATTTTGGTCATTA
100239066 GGCATTTTGGTCATTA
1 GGCATTTTGGTCATTA
100239082 GGCATTTT
1 GGCATTTT
100239090 AATGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.45
Consensus pattern (16 bp):
GGCATTTTGGTCATTA
Found at i:100244210 original size:33 final size:33
Alignment explanation
Indices: 100244173--100244237 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
100244163 TATATCAATG
*
100244173 TGCGAGTCGTAATGATGTGTGAGCTGTGTAATT
1 TGCGAGTCATAATGATGTGTGAGCTGTGTAATT
*
100244206 TGCGAGTCATAGTGATGTGTGAGCTGTGTAAT
1 TGCGAGTCATAATGATGTGTGAGCTGTGTAAT
100244238 GTGTGAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.34, T:0.35
Consensus pattern (33 bp):
TGCGAGTCATAATGATGTGTGAGCTGTGTAATT
Found at i:100244255 original size:33 final size:33
Alignment explanation
Indices: 100244183--100244312 Score: 104
Period size: 33 Copynumber: 3.9 Consensus size: 33
100244173 TGCGAGTCGT
*
100244183 AATGATGTGTGAGCTGTGTAATTTGCGAG-T-C
1 AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
*
100244214 ATAGTGATGTGTGAGCTGTGTAATGTGTGAGCTAC
1 A-A-TGATGTGTGAGCTGTGTAATGTGCGAGCTAC
** ** *
100244249 AATGATGTGCAAATTGTGTAATGTGCAAGCTA-
1 AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
** * * *
100244281 TGTAATGTGTGAGCTGTAGTATTGTGTGAGCT
1 AATGATGTGTGAGCTGT-GTAATGTGCGAGCT
100244313 GTGAAAATAT
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
31 1 0.01
32 11 0.14
33 60 0.79
34 2 0.03
35 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.32, T:0.35
Consensus pattern (33 bp):
AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
Found at i:100248213 original size:22 final size:20
Alignment explanation
Indices: 100248170--100248208 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100248160 TAATTTAAAA
100248170 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
100248190 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
100248209 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:100250984 original size:11 final size:11
Alignment explanation
Indices: 100250963--100251009 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
100250953 TAATAACAAT
*
100250963 AAAATAGTAGC
1 AAAATAATAGC
*
100250974 AATATAATAGC
1 AAAATAATAGC
*
100250985 AAAATGATAGC
1 AAAATAATAGC
*
100250996 AAAACAATAGC
1 AAAATAATAGC
100251007 AAA
1 AAA
100251010 TAGCAACAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.60, C:0.11, G:0.13, T:0.17
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:100251268 original size:63 final size:63
Alignment explanation
Indices: 100251159--100251278 Score: 222
Period size: 63 Copynumber: 1.9 Consensus size: 63
100251149 CCCTCCCACT
* *
100251159 TTTCTAATGGACATTCAAATCTGGACAGATAACCCGACTCATGATGAGGCCTAAATTTTCACA
1 TTTCGAATGAACATTCAAATCTGGACAGATAACCCGACTCATGATGAGGCCTAAATTTTCACA
100251222 TTTCGAATGAACATTCAAATCTGGACAGATAACCCGACTCATGATGAGGCCTAAATT
1 TTTCGAATGAACATTCAAATCTGGACAGATAACCCGACTCATGATGAGGCCTAAATT
100251279 GTGGGAGAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (63 bp):
TTTCGAATGAACATTCAAATCTGGACAGATAACCCGACTCATGATGAGGCCTAAATTTTCACA
Found at i:100253042 original size:3 final size:3
Alignment explanation
Indices: 100253034--100253215 Score: 99
Period size: 3 Copynumber: 59.3 Consensus size: 3
100253024 TAGTATCATG
* * * *
100253034 ATA ATA ATA AGA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA ATA TGTCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A
* * *
100253083 CTA ATA ATA ATAA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A
1 ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* * *
100253128 ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
* * *
100253171 ATA ATA ATA AGTA ATA ATA TATA ATA ATA ACA ATA TTA AAA ATA A
1 ATA ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
100253216 CACTCTCCCC
Statistics
Matches: 139, Mismatches: 25, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
2 11 0.08
3 101 0.73
4 26 0.19
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:100253127 original size:31 final size:29
Alignment explanation
Indices: 100253089--100253177 Score: 79
Period size: 35 Copynumber: 2.8 Consensus size: 29
100253079 GTCACTAATA
**
100253089 ATAATAAATAAATAAATAATGGTAATAAAT
1 ATAATAAATAAATAAATAAT-AAAATAAAT
100253119 ATATATAAAATAATAGTAACAGTAATAAAATAAAT
1 ATA-AT-AAATAA-A-TAA-A-TAATAAAATAAAT
100253154 ATAATATAATAAATATAATAATAA
1 ATAATA-AATAAATA-AATAATAA
100253178 TAAGTAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
30 3 0.06
31 8 0.16
32 9 0.18
33 4 0.08
34 10 0.20
35 11 0.22
36 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (29 bp):
ATAATAAATAAATAAATAATAAAATAAAT
Found at i:100253198 original size:23 final size:22
Alignment explanation
Indices: 100253034--100253205 Score: 113
Period size: 23 Copynumber: 7.7 Consensus size: 22
100253024 TAGTATCATG
*
100253034 ATAATAATAAGAATAATAATAAT
1 ATAATAATAATAATAATAAT-AT
* * *
100253057 AAAATAATAAAAATAACAATAT
1 ATAATAATAATAATAATAATAT
* *
100253079 GTCACTAATAATAATAAATAA-AT
1 AT-AATAATAATAAT-AATAATAT
**
100253102 A-AATAATGGTAATAAATATATAT
1 ATAATAATAATAAT-AATA-ATAT
* * *
100253125 AAAATAATAGTAACAGTAATAAAAT
1 ATAATAATAAT-A-A-TAATAATAT
100253150 A-AAT-ATAAT-ATAATAA-AT
1 ATAATAATAATAATAATAATAT
100253168 ATAATAATAATAAGTAATAATAT
1 ATAATAATAATAA-TAATAATAT
*
100253191 ATAATAATAACAATA
1 ATAATAATAATAATA
100253206 TTAAAAATAA
Statistics
Matches: 120, Mismatches: 16, Indels: 27
0.74 0.10 0.17
Matches are distributed among these distances:
18 3 0.03
19 9 0.08
20 6 0.05
21 15 0.12
22 11 0.09
23 50 0.42
24 15 0.12
25 5 0.04
26 5 0.04
27 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAATAATAATAATAATAATAT
Found at i:100253696 original size:25 final size:25
Alignment explanation
Indices: 100253668--100253716 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
100253658 TTAATTGGAC
100253668 TGTTAATTTATTTGGTGTTTTGGGT
1 TGTTAATTTATTTGGTGTTTTGGGT
100253693 TGTTAATTTATTTGGTGTTTTGGG
1 TGTTAATTTATTTGGTGTTTTGGG
100253717 CTCTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (25 bp):
TGTTAATTTATTTGGTGTTTTGGGT
Found at i:100254184 original size:132 final size:130
Alignment explanation
Indices: 100253977--100254513 Score: 710
Period size: 132 Copynumber: 4.1 Consensus size: 130
100253967 CCGCTACTGT
* *
100253977 TTAAGGAGATAAGATCTACATTCTTCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGT
1 TTAAGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGC
* * *
100254042 TTAAGTCTGCTTCCCTACTACCCCGGGAAGATAAGATTCGTCGTCTTCGATCTGCTTCATTAC-A
66 TTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCG-CGTCTTCGATCTGCTCCATTACTA
100254106 GC
130 -C
* * *
100254108 TTAAGGAGATAAGATCTATAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGTGG
1 TTAAGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGG
* * *
100254173 CTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACT
65 CTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCG-CGTCTTCGATCTGCTCCATTACT
100254238 AC
129 AC
* * * * *
100254240 TTAGGGAGATAAGATCTACAATCTTCAACTTGCTCACTGCTGCTCAGAAAGATAAGGCTGGTGGC
1 TTAAGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGC
* *
100254305 TTAAATCTGCTTCCCTACTACCTCGGGAAGATGAGATTCGCTGTCTTCAATCTGCTCCATTACTA
66 TTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGC-GTCTTCGATCTGCTCCATTACTA
100254370 C
130 C
* ** *
100254371 TTACA-AAGATAAGATCTGTAATCTTCAGCCTGCTCTACTGCTGCTCAGTGAGATAAGGCTAGTG
1 TTA-AGGAGATAAGATCTACAATCTTCAGCCTGCTC-ACTGCTGCTCAGAGAGATAAGGCTAGTG
* * * *
100254435 GCTTAAATCAGCTTCTCTACTACCTCAGGAAGATAAGATT--C-T-TT-GATCTGCTCCACTACT
64 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCGTCTTCGATCTGCTCCATTACT
100254495 AC
129 AC
* *
100254497 TTAGGGAAATAAGATCT
1 TTAAGGAGATAAGATCT
100254514 GTACTCTTCT
Statistics
Matches: 359, Mismatches: 41, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
126 29 0.08
127 2 0.01
128 1 0.00
130 2 0.01
131 148 0.41
132 176 0.49
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (130 bp):
TTAAGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGC
TTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCGTCTTCGATCTGCTCCATTACTAC
Found at i:100254426 original size:263 final size:257
Alignment explanation
Indices: 100253959--100254513 Score: 776
Period size: 263 Copynumber: 2.1 Consensus size: 257
100253949 TTGTAGCTTA
* ** * * *
100253959 GATCTACTCCGCTACTGTTTAAGGAGATAAGATCTACATTCTTCAGCCTGCTCACTGCTGCTCAG
1 GATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTGCTCACTGCTGCTCAG
* * *
100254024 AGAGATAAGGCTAGTGGTTTAAGTCTGCTTCCCTACTACCCCGGGAAGATAAGATTCGTCGTCTT
66 AAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCGGGAAGATAAGATTCGTCGTCTT
* * *
100254089 CGATCTGCTTCATTACAGCTTAAGGAGATAAGATCTATAATCTTCAGCCTGCTCCACTGCTGCTC
131 CAATCTGCTCCATTACAGCTTAAGAAGATAAGATCTATAATCTTCAGCCTGCTCCACTGCTGCTC
* *
100254154 AGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTC-GGAAAGATAAGATTCGCCGT
196 AGGGAGATAAGGCTAGTGGCTTAAATCAGCTTCCCTACTACCTCAGG-AAGATAAGATT---C-T
100254218 CTT
256 -TT
*
100254221 CGATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACTTGCTCACTGCTGCTCA
1 -GATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTGCTCACTGCTGCTCA
* * *
100254286 GAAAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATGAGATTCG-CTGTC
65 GAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCGGGAAGATAAGATTCGTC-GTC
* *
100254350 TTCAATCTGCTCCATTACTA-CTTACA-AAGATAAGATCTGTAATCTTCAGCCTGCTCTACTGCT
129 TTCAATCTGCTCCATTAC-AGCTTA-AGAAGATAAGATCTATAATCTTCAGCCTGCTCCACTGCT
* *
100254413 GCTCAGTGAGATAAGGCTAGTGGCTTAAATCAGCTTCTCTACTACCTCAGGAAGATAAGATTCTT
192 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCAGCTTCCCTACTACCTCAGGAAGATAAGATTCTT
100254478 T
257 T
* *
100254479 GATCTGCTCCACTACTACTTAGGGAAATAAGATCT
1 GATCTACTCCACTACTACTTAGGGAGATAAGATCT
100254514 GTACTCTTCT
Statistics
Matches: 264, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
257 33 0.12
258 2 0.01
259 1 0.00
260 1 0.00
262 1 0.00
263 222 0.84
264 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (257 bp):
GATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTGCTCACTGCTGCTCAG
AAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCGGGAAGATAAGATTCGTCGTCTT
CAATCTGCTCCATTACAGCTTAAGAAGATAAGATCTATAATCTTCAGCCTGCTCCACTGCTGCTC
AGGGAGATAAGGCTAGTGGCTTAAATCAGCTTCCCTACTACCTCAGGAAGATAAGATTCTTT
Found at i:100254578 original size:46 final size:46
Alignment explanation
Indices: 100254520--100254745 Score: 267
Period size: 46 Copynumber: 4.9 Consensus size: 46
100254510 ATCTGTACTC
* * * *
100254520 TTCTTCATTCCATTCCACTGAGTCTCAAGGGTATAGGATCTACATT
1 TTCTTCAATCCATCCCACTGAGTCTCAGGGGTATAGGATCTGCATT
* * *
100254566 TTCTTCAATCCATCTCAC-CACGTCTCAGGGGTATAGGATCTGTATT
1 TTCTTCAATCCATCCCACTGA-GTCTCAGGGGTATAGGATCTGCATT
* * * * * *
100254612 CTCTTCGATCCATCCCACTGCGTCTCAAGGATATAGGATTTGCATT
1 TTCTTCAATCCATCCCACTGAGTCTCAGGGGTATAGGATCTGCATT
* * *
100254658 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGTTCTGCATT
1 TTCTTCAATCCATCCCACTGAGTCTCAGGGGTATAGGATCTGCATT
*
100254704 TTCTTCAATCCATCCCACT-ACATCTCAGGGGTATAGGATCTG
1 TTCTTCAATCCATCCCACTGA-GTCTCAGGGGTATAGGATCTG
100254746 TAATTTCATG
Statistics
Matches: 150, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
45 1 0.01
46 149 0.99
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGAGTCTCAGGGGTATAGGATCTGCATT
Found at i:100254834 original size:12 final size:12
Alignment explanation
Indices: 100254817--100254841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100254807 TTATGCCGAA
100254817 TGATTAGGATGC
1 TGATTAGGATGC
100254829 TGATTAGGATGC
1 TGATTAGGATGC
100254841 T
1 T
100254842 ATAAACAGAA
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGATTAGGATGC
Found at i:100261865 original size:3 final size:3
Alignment explanation
Indices: 100261857--100262045 Score: 129
Period size: 3 Copynumber: 62.3 Consensus size: 3
100261847 TAGTACCATG
* * * *
100261857 ATA ATA ATA AGA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
100261903 TTA CTA ATA ATA ATA ATA ATA ATA AGTAA ATA ATG GTA ATAA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA AT-A ATA -ATA
* * * *
100261952 TATA ATA GTA ACA GTA ATA A-A AAA AT- ATA AT- ATA ATA A-A TATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
100261995 ATA ATA ATA ATA ATA AGTA ATA ATA TATA ATA ATA AAA ATA TTA AAA
1 ATA ATA ATA ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
100262042 ATA A
1 ATA A
100262046 CACTCTCCCC
Statistics
Matches: 146, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
2 11 0.08
3 114 0.78
4 19 0.13
5 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:100261885 original size:23 final size:23
Alignment explanation
Indices: 100261859--100262032 Score: 79
Period size: 26 Copynumber: 7.1 Consensus size: 23
100261849 GTACCATGAT
100261859 AATAATAAGAATAATAATAATAA
1 AATAATAAGAATAATAATAATAA
* * * *
100261882 AATAATAAAAATAACAATATGTTACT
1 AATAATAAGAATAATAATA--ATA-A
*
100261908 AATAATAATAATAATAATAAGT-A
1 AATAATAAGAATAATAATAA-TAA
*
100261931 AATAAT-GGTAATAAATATATATATAA
1 AATAATAAG-AAT-AATA-ATA-ATAA
* * *
100261957 TAGTAA-CAGTAATAA-AAAAATATA
1 -AATAATAAG-AATAATAATAATA-A
100261981 ATATAATAA-ATATAATAATAATAA
1 A-ATAATAAGA-ATAATAATAATAA
*
100262005 TAATAAGTAATAATATATAATAATAA
1 -AATAA-TAAGAATA-ATAATAATAA
100262031 AA
1 AA
100262033 ATATTAAAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 38
0.68 0.09 0.22
Matches are distributed among these distances:
23 31 0.27
24 19 0.17
25 24 0.21
26 32 0.28
27 9 0.08
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAAGAATAATAATAATAA
Found at i:100261968 original size:27 final size:23
Alignment explanation
Indices: 100261916--100262045 Score: 62
Period size: 23 Copynumber: 5.6 Consensus size: 23
100261906 CTAATAATAA
*
100261916 TAAT-AATAATAAGTAA-ATAATGG
1 TAATAAATAATAA-TAATATAA-AG
100261939 TAATAAATATATATATAATAGTAACAG
1 TAATAAATA-ATA-ATAATA-TAA-AG
*
100261966 TAATAAA-AAAATATAATAT-AA-
1 TAATAAATAATA-ATAATATAAAG
100261987 TAAATATAATAATAATAATA-ATAAG
1 T-AATA-AATAATAATAATATA-AAG
*
100262012 TAAT-AATATATAATAATA-AAAA
1 TAATAAATA-ATAATAATATAAAG
*
100262034 TATTAAA-AATAA
1 TAATAAATAATAA
100262046 CACTCTCCCC
Statistics
Matches: 88, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
21 5 0.06
22 15 0.17
23 25 0.28
24 13 0.15
25 16 0.18
26 3 0.03
27 11 0.12
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATAAATAATAATAATATAAAG
Found at i:100261984 original size:36 final size:37
Alignment explanation
Indices: 100261940--100262045 Score: 93
Period size: 35 Copynumber: 3.0 Consensus size: 37
100261930 AAATAATGGT
*
100261940 AATA-AATATATATATAATAGTAACAGTAATAA-AA-A
1 AATATAATATATATATAATA-TAACAATAATAATAATA
*
100261975 AATATAATATA-ATA-AATATAATAATAATAATAATA
1 AATATAATATATATATAATATAACAATAATAATAATA
* * *
100262010 AGTAATAATATATA-ATAATA-AA-AATATTAAAAATA
1 AAT-ATAATATATATATAATATAACAATAATAATAATA
100262045 A
1 A
100262046 CACTCTCCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
33 10 0.17
34 6 0.10
35 22 0.37
36 17 0.28
37 5 0.08
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (37 bp):
AATATAATATATATATAATATAACAATAATAATAATA
Found at i:100262892 original size:55 final size:55
Alignment explanation
Indices: 100262788--100262894 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
100262778 TTTAAAAATA
* * * *
100262788 TTTAGAATTAAAATTAAATTGATAATTTTTGTAAATGTTAAGAGTTAAATTTTTT
1 TTTAGAATTAAAATTAAAATAATAATTTTTGTAAATATTAAGAGCTAAATTTTTT
* * *
100262843 TTTAGAATTCAAATTAAAATAATTATTTTTGTAAATATTGAG-GACTAAATTT
1 TTTAGAATTAAAATTAAAATAATAATTTTTGTAAATATTAAGAG-CTAAATTT
100262895 GTTGAATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 1 0.02
55 43 0.98
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (55 bp):
TTTAGAATTAAAATTAAAATAATAATTTTTGTAAATATTAAGAGCTAAATTTTTT
Found at i:100263562 original size:26 final size:26
Alignment explanation
Indices: 100263533--100263586 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
100263523 TTTAATAATA
100263533 TATAGATAATTTTAAATTAAGAAATT
1 TATAGATAATTTTAAATTAAGAAATT
100263559 TATAGATAATTTTAAATTAAGAAATT
1 TATAGATAATTTTAAATTAAGAAATT
100263585 TA
1 TA
100263587 CTTGTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (26 bp):
TATAGATAATTTTAAATTAAGAAATT
Done.