Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 243 of 438
Found at i:75376321 original size:12 final size:12
Alignment explanation
Indices: 75376304--75376333 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
75376294 TCAGGCAATT
75376304 ACACGGCCTAGC
1 ACACGGCCTAGC
*
75376316 ACACGGCCTGGC
1 ACACGGCCTAGC
75376328 ACACGG
1 ACACGG
75376334 GCATGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:75376874 original size:29 final size:29
Alignment explanation
Indices: 75376841--75376899 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
75376831 GATCATCATG
75376841 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
75376870 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
75376899 T
1 T
75376900 TCCTTTGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (29 bp):
TAAGAATTCAGTTTAAGGAGCCCATTTAA
Found at i:75378788 original size:29 final size:29
Alignment explanation
Indices: 75378728--75378824 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 29
75378718 AAGTTTCAAT
* * *
75378728 TATATATTTAAACCACAATTAAAGTTTTATA
1 TATATAATTATACCA-AATTAAA-ATTTATA
* *
75378759 TGTATAATTGTACCAAATTAAAATTTATA
1 TATATAATTATACCAAATTAAAATTTATA
* *
75378788 TATATAATTATACATTAAATCAAAATTTATA
1 TATATAATTATAC--CAAATTAAAATTTATA
75378819 TATATA
1 TATATA
75378825 TTTTTAGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.31
30 7 0.13
31 31 0.56
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAATTATACCAAATTAAAATTTATA
Found at i:75378849 original size:14 final size:14
Alignment explanation
Indices: 75378832--75378863 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
75378822 ATATTTTTAG
75378832 ATTTATCCAAATAA
1 ATTTATCCAAATAA
75378846 ATTTATCCAAATAA
1 ATTTATCCAAATAA
75378860 ATTT
1 ATTT
75378864 TAAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTATCCAAATAA
Found at i:75384257 original size:28 final size:28
Alignment explanation
Indices: 75384208--75384267 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
75384198 ATTATCAACT
75384208 CCATAAATTATAAAACTCTTTCTATACC
1 CCATAAATTATAAAACTCTTTCTATACC
* * * *
75384236 CCATAAGTTATGAGACTTTTTCTATACC
1 CCATAAATTATAAAACTCTTTCTATACC
75384264 CCAT
1 CCAT
75384268 TAATATGGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (28 bp):
CCATAAATTATAAAACTCTTTCTATACC
Found at i:75387498 original size:71 final size:71
Alignment explanation
Indices: 75387414--75387577 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
75387404 CGATTTGTCT
75387414 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
75387479 CTTTCA
66 CTTTCA
* *
75387485 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
75387550 CTTTCA
66 CTTTCA
75387556 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
75387578 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:75387615 original size:71 final size:70
Alignment explanation
Indices: 75387414--75387611 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
75387404 CGATTTGTCT
* * * * *
75387414 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
75387479 CTTTCA
65 CTTTCA
* * * *
75387485 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
75387550 CTTTCA
65 CTTTCA
* * *
75387556 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCGCACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
75387612 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:75398322 original size:48 final size:48
Alignment explanation
Indices: 75398238--75398527 Score: 257
Period size: 48 Copynumber: 6.0 Consensus size: 48
75398228 ATGCTAGGGT
* * *
75398238 TATGTGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
* **
75398286 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATT-GA
* * * *
75398334 TAT-ATGAGCCAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTATA
1 TATGA-GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA-TT-GA
* ** *
75398384 TATGAGAGCTAGAGTAAGACCATGTCTAGG-ACATGGTTTCGGCCTTGA
1 TATGAGAGCTAGTGTAAGACCATGTCT-GGAACATGGCATCGGCATTGA
* * * * **
75398432 CATGTGAGCTAATGTAAGACCATGTTTGGAACATGGCATCGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTG--A
* * *
75398482 TATGAGAG-TCAGTGCAAAACCATGTCTAGG-ACATGGCATAGGCATT
1 TATGAGAGCT-AGTGTAAGACCATGTCT-GGAACATGGCATCGGCATT
75398528 TTACCCTTTT
Statistics
Matches: 190, Mismatches: 41, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
47 5 0.03
48 109 0.57
49 3 0.02
50 68 0.36
51 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
Found at i:75398440 original size:98 final size:97
Alignment explanation
Indices: 75398239--75398520 Score: 354
Period size: 98 Copynumber: 2.9 Consensus size: 97
75398229 TGCTAGGGTT
* *
75398239 ATGTGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATT-GATATGAGAGCTAGTGTAA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTAA
* *
75398303 GACCATGTCTGGGACATGGCATCAACTTCGAT
66 GACCATGTCTAGGACATGGCATCAACTTCGAC
* * * *
75398335 ATATGAGCCAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTATATATGAGAGCTAGAGTA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGTA
** **
75398400 AGACCATGTCTAGGACATGGTTTCGGCCTT-GAC
65 AGACCATGTCTAGGACATGGCATC-AACTTCGAC
* ** *
75398433 ATGTGAGCTAATGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAG-TCAGTGC
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCT-AGTGT
*
75398497 AAAACCATGTCTAGGACATGGCAT
64 AAGACCATGTCTAGGACATGGCAT
75398521 AGGCATTTTA
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
96 39 0.25
97 3 0.02
98 113 0.72
99 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (97 bp):
ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCAACTTCGAC
Found at i:75399759 original size:21 final size:21
Alignment explanation
Indices: 75399719--75399757 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75399709 GCCGTGTGAG
75399719 CCACACGGGCGTGTCGCCCTT
1 CCACACGGGCGTGTCGCCCTT
*
75399740 CCACACGGGTGTGT-GCCC
1 CCACACGGGCGTGTCGCCC
75399758 CTGTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.41, G:0.31, T:0.18
Consensus pattern (21 bp):
CCACACGGGCGTGTCGCCCTT
Found at i:75400733 original size:29 final size:29
Alignment explanation
Indices: 75400689--75400766 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
75400679 AGATTACACC
*
75400689 ACAAAAGCAT-TCCTTTTCAAAGATAGCT
1 ACAAAAGCATGTCCTTTTCAAAGATAGCG
* * *
75400717 ATGAAAA-CATGTCCTTTAACAAAGATCGCG
1 A-CAAAAGCATGTCCTTT-TCAAAGATAGCG
75400747 ACAAAAGCATGTCCTTTTCA
1 ACAAAAGCATGTCCTTTTCA
75400767 TTTAGTACTC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
28 4 0.10
29 16 0.40
30 20 0.50
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (29 bp):
ACAAAAGCATGTCCTTTTCAAAGATAGCG
Found at i:75405212 original size:12 final size:12
Alignment explanation
Indices: 75405195--75405220 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75405185 CACACACCCA
75405195 TGTGCTAGGCCG
1 TGTGCTAGGCCG
75405207 TGTGCTAGGCCG
1 TGTGCTAGGCCG
75405219 TG
1 TG
75405221 CAAAACCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:75413300 original size:26 final size:27
Alignment explanation
Indices: 75413236--75413314 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
75413226 TTTTGTGTAA
75413236 ATTAAGATAATTAGAAATTTAAATTAT
1 ATTAAGATAATTAGAAATTTAAATTAT
* * *
75413263 ATTATGACAATTA-AAATTTTAATT-T
1 ATTAAGATAATTAGAAATTTAAATTAT
*
75413288 AGTTAAGATAATTAGAAATCTAAATTA
1 A-TTAAGATAATTAGAAATTTAAATTA
75413315 ATAGGTTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTAAGATAATTAGAAATTTAAATTAT
Found at i:75413759 original size:15 final size:16
Alignment explanation
Indices: 75413734--75413763 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75413724 TGTACGAACA
75413734 GGGAGGTGGTAAGTTG
1 GGGAGGTGGTAAGTTG
75413750 GGGA-GTGGTAAGTT
1 GGGAGGTGGTAAGTT
75413764 AGCAGATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.53, T:0.27
Consensus pattern (16 bp):
GGGAGGTGGTAAGTTG
Found at i:75414657 original size:54 final size:53
Alignment explanation
Indices: 75414455--75414903 Score: 288
Period size: 54 Copynumber: 8.3 Consensus size: 53
75414445 GTATGAGAAA
* * *
75414455 GTTGCGGTCTTAAATTGGCAACTGCAAGATTTAG-AAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATTGGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * **
75414507 GCTGGGATCTTAAA-TGGCGAGCCACAAGATTCTTAAAATCTTGTAAGTATAAGG
1 GTTGCGATCTTAAATTGGC-AACCGCAAGATTCAGAAAATCTTGTAAGTATAA-G
* * **
75414561 TAAGTTGGGATCTTAAATCAATGAGCAA---CAAGGTTTGGAAAATCTTGTAAGTATAAG
1 ---GTTGCGATCTTAAAT---TG-GCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
* *
75414618 GTTGAGATCTTAAATTGGCAACCAGTAAGATTCAGAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATTGGCAACC-GCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * * * *
75414672 GTTTCGATCTTAAGTCAGTG-AGCCACAAGA-TCCGATAAACCTTGTAAGTATAAG
1 GTTGCGATCTTAAAT-TG-GCAACCGCAAGATTCAGA-AAATCTTGTAAGTATAAG
* ** * *
75414726 GTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAAGTATAAG
1 GTTGCGATCTTAAATTG-GCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
*** * * * * * *
75414780 GCAACGATCTTAAATCGACTAGCTGCAAGATTCAAAAAATTTTGTAAG-AGTAAG
1 GTTGCGATCTTAAATTGGC-AACCGCAAGATTCAGAAAATCTTGTAAGTA-TAAG
* * * *
75414834 GTTGCGATCTTAAATCGGCAAACCGTAAGA-T-AGGAAAAATCCTATAAGTATAAG
1 GTTGCGATCTTAAATTGGC-AACCGCAAGATTCA-G-AAAATCTTGTAAGTATAAG
*
75414888 GTTGGGATCTTAAATT
1 GTTGCGATCTTAAATT
75414904 AGTGAGCTGT
Statistics
Matches: 308, Mismatches: 64, Indels: 48
0.73 0.15 0.11
Matches are distributed among these distances:
50 4 0.01
51 6 0.02
52 21 0.07
53 25 0.08
54 199 0.65
55 9 0.03
56 1 0.00
57 14 0.05
58 24 0.08
61 3 0.01
62 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (53 bp):
GTTGCGATCTTAAATTGGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
Found at i:75414777 original size:162 final size:162
Alignment explanation
Indices: 75414462--75414848 Score: 392
Period size: 162 Copynumber: 2.4 Consensus size: 162
75414452 AAAGTTGCGG
* * * *
75414462 TCTTAAATTGGCAACTGCAAGATTTAG-AAATCTTGTAAGTATAAGGCTGGGATCTTAAATGGCG
1 TCTTAAATTGGCAACTGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGCG
* * * * **
75414526 AGCCACAAGATTCTTAAAATCTTGTAAGTATAAGGTAAGTTGGGATCTTAAATCAATGAGCAACA
66 AGCCACAAGATCCATAAAACCTTGTAAGTATAAGG--AGTTGCGATCTTAAATCAAAAAGCAACA
* ** * **
75414591 AGGTTTGGAAAATCTTGTAAGTATAAGGTTGA-GA
129 AGATTCAGAAAATCCTGTAAGTATAAGG-CAACGA
* * * *
75414625 TCTTAAATTGGCAACCAGTAAGATTCAGAAAATCTTGTAAGTATAAGGTTTCGATCTTAAGTCAG
1 TCTTAAATTGGCAA-CTGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-AG
* * *
75414690 TGAGCCACAAGATCCGAT-AAACCTTGTAAGTATAA-G-GTTGCGATCTTAAATCGAAAAATC-G
64 CGAGCCACAAGATCC-ATAAAACCTTGTAAGTATAAGGAGTTGCGATCTTAAATC-AAAAAGCAA
75414751 CAAGATTCAGAAAATCCTGTAAGTATAAGGCAACGA
127 CAAGATTCAGAAAATCCTGTAAGTATAAGGCAACGA
* * * * *
75414787 TCTTAAATCGACTAGCTGCAAGATTCAAAAAATTTTGTAAG-AGTAAGGTTGCGATCTTAAAT
1 TCTTAAATTGGC-AACTGCAAGATTCAGAAAATCTTGTAAGTA-TAAGGTTGCGATCTTAAAT
75414849 CGGCAAACCG
Statistics
Matches: 184, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
161 2 0.01
162 92 0.50
163 19 0.10
164 10 0.05
165 30 0.16
166 30 0.16
167 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (162 bp):
TCTTAAATTGGCAACTGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGCG
AGCCACAAGATCCATAAAACCTTGTAAGTATAAGGAGTTGCGATCTTAAATCAAAAAGCAACAAG
ATTCAGAAAATCCTGTAAGTATAAGGCAACGA
Found at i:75414912 original size:108 final size:108
Alignment explanation
Indices: 75414476--75414935 Score: 385
Period size: 108 Copynumber: 4.2 Consensus size: 108
75414466 AAATTGGCAA
* * * * * * **
75414476 CTGCAAGATT-TAGAAATCTTGTAAGTATAAGGCTGGGATCTTAAAT-GGCGAGCCACAAGATTC
1 CTGCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGGCAAACCGTAAGATTC
** * ** *
75414539 TTAAAATCTTGTAAGTATAAGGTAAGTTGGGATCTTAAATCAATGAG
66 AGAAAATCCTGTAAGTATAA-G---GTTACGATCTTAAATCAGTGAG
** * *** * *
75414586 CAACAAGGTTTGGAAAATCTTGTAAGTATAAGGTTGAGATCTTAAATTGGC-AACCAGTAAGATT
1 CTGCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGGCAAACC-GTAAGATT
* * *
75414650 CAGAAAATCTTGTAAGTATAAGGTTTCGATCTTAAGTCAGTGAG
65 CAGAAAATCCTGTAAGTATAAGGTTACGATCTTAAATCAGTGAG
** * * * * ** * *
75414694 CCACAAGATCCGATAAACCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTC
1 CTGCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGGCAAACCGTAAGATTC
** *
75414759 AGAAAATCCTGTAAGTATAAGGCAACGATCTTAAATCGACT-AG
66 AGAAAATCCTGTAAGTATAAGGTTACGATCTTAAATC-AGTGAG
*
75414802 CTGCAAGATTCAAAAAATTTTGTAAG-AGTAAGGTTGCGATCTTAAATCGGCAAACCGTAAGA-T
1 CTGCAAGATTCAAAAAATCTTGTAAGTA-TAAGGTTGCGATCTTAAATCGGCAAACCGTAAGATT
* ** *
75414865 -AGGAAAAATCCTATAAGTATAAGGTTGGGATCTTAAATTAGTGAG
65 CA-G-AAAATCCTGTAAGTATAAGGTTACGATCTTAAATCAGTGAG
* *
75414910 CTGTAAGACTCAAAAAATCTTGTAAG
1 CTGCAAGATTCAAAAAATCTTGTAAG
75414936 CAATGAATTG
Statistics
Matches: 284, Mismatches: 57, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
106 1 0.00
107 5 0.02
108 203 0.71
109 5 0.02
110 7 0.02
111 35 0.12
112 28 0.10
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (108 bp):
CTGCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGGCAAACCGTAAGATTC
AGAAAATCCTGTAAGTATAAGGTTACGATCTTAAATCAGTGAG
Found at i:75418291 original size:42 final size:42
Alignment explanation
Indices: 75418220--75418357 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 42
75418210 TCTTACATGT
* * * *
75418220 AATCAAATATCAATGCCACTATCCTAGACAAGGTCTTAAACAA
1 AATCAAATA-CGATGCCAATGTCCTAGACATGGTCTTAAACAA
*
75418263 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTAAACGTAA
1 AATCAAATACGATGCCAATGTCCTAGACATGGTCTTAAAC--AA
** * * * *
75418307 CTCTCAAAT-CGATGCCAACGTCCTAGACGTGATCTTACACAA
1 -AATCAAATACGATGCCAATGTCCTAGACATGGTCTTAAACAA
75418349 AATCAAATA
1 AATCAAATA
75418358 TCAAAAATCC
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
41 6 0.08
42 28 0.36
43 9 0.12
44 28 0.36
45 6 0.08
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCTAGACATGGTCTTAAACAA
Found at i:75429103 original size:42 final size:43
Alignment explanation
Indices: 75429017--75429184 Score: 145
Period size: 42 Copynumber: 4.0 Consensus size: 43
75429007 AGCTTGTACA
* * * * *
75429017 ATGCCAA-TGTCCC-GACGTGGTTTTATATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
75429059 ATGCC-ACTATCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATACG
* *
75429101 ATGCCTA-TGTCCCAGACGTGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AAA--TCAAATACG
75429145 ATGCCAAC-GTCCCA-A-ATGTGATCTTACACGAAATCAAATA
1 ATGCCAACTGTCCCAGACATG-G-TCTTACACGAAATCAAATA
75429185 TCGAAAATTC
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
41 7 0.07
42 39 0.38
43 29 0.28
44 23 0.22
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:75429158 original size:86 final size:84
Alignment explanation
Indices: 75429017--75429184 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 84
75429007 AGCTTGTACA
* * *
75429017 ATGCCAATGTCCCGACGTGGTTTTATATGTAATCAAATATCGATGCCACTATCCCAGACAAG-G-
1 ATGCCAATGTCCCGACGTGGTCTTACACGTAATCAAATATCGATGCCACTATCCCA-A-AAGTGA
75429080 TCTTACACGAAATCAAATACG
64 TCTTACACGAAATCAAATACG
* * * *
75429101 ATGCCTATGTCCCAGACGTGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAAATGT
1 ATGCCAATGTCCC-GACGTGGTCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCAAAAGT
75429164 GATCTTACACGAAATCAAATA
62 GATCTTACACGAAATCAAATA
75429185 TCGAAAATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
84 14 0.20
85 16 0.23
86 37 0.52
87 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (84 bp):
ATGCCAATGTCCCGACGTGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAAAGTGATC
TTACACGAAATCAAATACG
Found at i:75429170 original size:44 final size:44
Alignment explanation
Indices: 75429080--75429179 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
75429070 CCAGACAAGG
* * * *
75429080 TCTTACACGAAA--TCAAATACGATGCCTATGTCCCAGACGTGG
1 TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
*
75429122 TCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAAATGTGA
1 TCTTACACG-AAATCTCAAATACGATGCCAACGTCCCAAACGTGA
75429166 TCTTACACGAAATC
1 TCTTACACGAAATC
75429180 AAATATCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 9 0.18
43 8 0.16
44 27 0.54
45 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (44 bp):
TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
Found at i:75431771 original size:22 final size:22
Alignment explanation
Indices: 75431746--75431794 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
75431736 TGTTTTTTCC
75431746 TTATTTTGCTACAATTTTACTA
1 TTATTTTGCTACAATTTTACTA
* * * *
75431768 TTATGTTGTTACTATTTTATTA
1 TTATTTTGCTACAATTTTACTA
75431790 TTATT
1 TTATT
75431795 GTTTAGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTTTGCTACAATTTTACTA
Found at i:75431860 original size:30 final size:30
Alignment explanation
Indices: 75431822--75431885 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
75431812 AACTTATTTT
75431822 ATTT-TTAATTTTGTTATTATTTTAAAGGC
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
* *
75431851 ATTTGTTAATTTTGTTATTATTTTAGAGGT
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
75431881 ATTTG
1 ATTTG
75431886 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
ATTTGTTAATTTTGTTATTATTTTAAAGGC
Found at i:75432892 original size:34 final size:34
Alignment explanation
Indices: 75432849--75432916 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
75432839 TTAAACTTTT
75432849 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
75432883 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
75432917 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (34 bp):
GTACATTTTTCAATTTAGTCCCTATTATCATGTA
Found at i:75432901 original size:17 final size:17
Alignment explanation
Indices: 75432849--75432901 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
75432839 TTAAACTTTT
75432849 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
* * * *
75432866 GTCCCTATTATC-ATGTA
1 GTACAT-TTTTCAATTTA
75432883 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
75432900 GT
1 GT
75432902 CCCTATTATC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.49
Consensus pattern (17 bp):
GTACATTTTTCAATTTA
Found at i:75432925 original size:34 final size:34
Alignment explanation
Indices: 75432850--75432928 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
75432840 TAAACTTTTG
*
75432850 TACATTTTTCAATTTAGTCCCTATTATCATGTAG
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
75432884 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
**
75432918 TTTATTTTTCA
1 TACATTTTTCA
75432929 CCATATAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (34 bp):
TACATTTTTCAATTTAGTCCCTATTATCATGTAA
Found at i:75434367 original size:2 final size:2
Alignment explanation
Indices: 75434357--75434412 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
75434347 ATATGAATGC
* *
75434357 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
75434398 AT GAC AT AT AT AT AT
1 AT -AT AT AT AT AT AT
75434413 CTCCATTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:75441637 original size:29 final size:29
Alignment explanation
Indices: 75441600--75441677 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
75441590 AAAATATTAG
* *
75441600 TTAAACTAATTAAATTACTTAAACTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
* *
75441629 TTAACCTAATTGAATTAATTAATCTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
*
75441658 -TAACCTAATGAAATTAATTA
1 TTAACCTAATTAAATTAATTA
75441678 GTCTAAGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAACCTAATTAAATTAATTAAACTAAAA
Found at i:75441689 original size:28 final size:27
Alignment explanation
Indices: 75441612--75441683 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
75441602 AAACTAATTA
* *
75441612 AATTACTTAAACTAAAATTAACCTAATTG
1 AATTAATTAATCTAAAA-TAACCTAA-TG
75441641 AATTAATTAATCTAAAATAACCTAATG
1 AATTAATTAATCTAAAATAACCTAATG
*
75441668 AAATTAATTAGTCTAA
1 -AATTAATTAATCTAA
75441684 GGTAACTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 22 0.56
29 15 0.38
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (27 bp):
AATTAATTAATCTAAAATAACCTAATG
Found at i:75451869 original size:7 final size:7
Alignment explanation
Indices: 75451857--75451881 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
75451847 AAAAATAATT
75451857 GAGAATC
1 GAGAATC
75451864 GAGAATC
1 GAGAATC
75451871 GAGAATC
1 GAGAATC
75451878 GAGA
1 GAGA
75451882 TAAATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (7 bp):
GAGAATC
Found at i:75452210 original size:2 final size:2
Alignment explanation
Indices: 75452203--75452241 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
75452193 TAGCCGAAAT
*
75452203 TA TA TA TA TA TA TA TA TA TA T- TA TA AA TA TA GTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
75452242 TAGACTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:75464356 original size:40 final size:40
Alignment explanation
Indices: 75464297--75464465 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
75464287 CGGGACTTTA
* * *
75464297 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
75464337 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
75464377 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
75464417 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
75464457 CCCGGATAT
1 CCCGGATAT
75464466 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:75472395 original size:40 final size:40
Alignment explanation
Indices: 75472336--75472504 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
75472326 CGGGACTTTA
* * *
75472336 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
75472376 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
75472416 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
75472456 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
75472496 CCCGGATAT
1 CCCGGATAT
75472505 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:75476275 original size:47 final size:47
Alignment explanation
Indices: 75476157--75476289 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 47
75476147 ATAATCTCAC
* * * * *
75476157 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGAAACACAACTCAATGAGTTCGGATGCTTCGCAT
*
75476203 CCATAATAAACTCGAAACACAACTCAATGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGAAACACAACTCAATGAGTTCGGATGCTTCGCAT
75476249 CCATAAGTGAACTCGAAACACAACTCAATGAGTTCGGATGC
1 CCATAA-TGAACTCGAAACACAACTCAATGAGTTCGGATGC
75476290 CTCATAATTC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
46 43 0.55
47 35 0.45
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGAAACACAACTCAATGAGTTCGGATGCTTCGCAT
Found at i:75479521 original size:3 final size:3
Alignment explanation
Indices: 75479513--75479550 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
75479503 ATTTAGGATT
75479513 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
75479551 TTCTTTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75486646 original size:37 final size:37
Alignment explanation
Indices: 75486577--75486647 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
75486567 TTTAAGTTAC
* * *
75486577 AAGTATATAGTTATTTGTTATGTGAACTAAAATGAAT
1 AAGTATATAGTTATTTGATACGTGAACGAAAATGAAT
* * *
75486614 AAGTGTATGGTTATTTGATACGTGTACGAAAATG
1 AAGTATATAGTTATTTGATACGTGAACGAAAATG
75486648 TAACAGCCTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (37 bp):
AAGTATATAGTTATTTGATACGTGAACGAAAATGAAT
Found at i:75487525 original size:30 final size:30
Alignment explanation
Indices: 75487468--75487525 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
75487458 TTTTCGAGCA
* **
75487468 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
75487498 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
75487526 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:75487936 original size:47 final size:45
Alignment explanation
Indices: 75487865--75488125 Score: 240
Period size: 47 Copynumber: 5.6 Consensus size: 45
75487855 TGATTTGTGT
*
75487865 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CATAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATAG-A-GAGA
* *
75487911 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATAGA-GAGA
* * * *
75487959 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAC-ATAGAGAGA
* * * * *
75488006 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-TA-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATAGAG-AGA
* ** * *
75488050 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CATAGA-GAGA
75488098 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
75488126 GCAACGACAA
Statistics
Matches: 176, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.02
44 30 0.17
46 20 0.11
47 61 0.35
48 41 0.23
49 20 0.11
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATAGAGAGA
Found at i:75488024 original size:94 final size:91
Alignment explanation
Indices: 75487863--75488128 Score: 292
Period size: 94 Copynumber: 2.9 Consensus size: 91
75487853 GGTGATTTGT
*
75487863 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGG-CC-ATAGTATGAGAGCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCGATAG-A-GA-AGCCAGTGTAAGACCA
75487926 TGTCTGGGACATGGCATCGGC-ACAGAGACGA
63 TGTCTGGGACATGGCATCGGCTA-AGAG--GA
* * *
75487957 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGATAGCCAGTGTAAGA-CGT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CGATAGAGA-AGCCAGTGTAAGACCAT
* **
75488021 GTCTGGGACA-CGCATCGGCTAAGAGTT
64 GTCTGGGACATGGCATCGGCTAAGAGGA
* **
75488048 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAG-AGCCAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-CG-ATA-GAGAAGCCAGTGTAAGACC
75488112 ATGTCTGGGACATGGCA
62 ATGTCTGGGACATGGCA
75488129 ACGACAATAT
Statistics
Matches: 147, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
91 32 0.22
92 16 0.11
93 26 0.18
94 52 0.35
95 16 0.11
96 2 0.01
97 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCGATAGAGAAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCTAAGAGGA
Found at i:75489671 original size:95 final size:95
Alignment explanation
Indices: 75489508--75489786 Score: 398
Period size: 95 Copynumber: 2.9 Consensus size: 95
75489498 ACTGGTGGTG
* * * *
75489508 GATACCTCACCGATGGCTAAGATCATGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAACA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
75489573 TCGTGTAATAGTTAATGTCTCAATTTACTA
66 TCGTGTAATGGTTAATGTCTCAATTTACTA
* * *
75489603 GATACCTTACTGATGGCTAAGATCCTGCATATATTACGGATTCTTCACAGCTCGTGTGAGCAGCA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
75489668 TCGTGTAATGGTTAATGTCTCAATTTTCTA
66 TCGTGTAATGGTTAATGTCTCAATTTACTA
* * * * * * *
75489698 GATACCTTACTGATTGTTAAGATTCTGCATGTGTTGCAAATTCTTCATAGCTCGTGTGAGGAGCA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
75489763 TTGTGTAATGGTTAATGTC-CAATT
66 TCGTGTAATGGTTAATGTCTCAATT
75489787 CACAGCTCAT
Statistics
Matches: 164, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
94 5 0.03
95 159 0.97
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (95 bp):
GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
TCGTGTAATGGTTAATGTCTCAATTTACTA
Found at i:75491038 original size:25 final size:25
Alignment explanation
Indices: 75490947--75491051 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 25
75490937 TACCCGTCAT
* *
75490947 TGGCTCACATGAGCTTCCTAAT-TA
1 TGGCTCACATGAGCTTCCCATTATA
**
75490971 TGGCTCTTATGAGCTTCCCATTATA
1 TGGCTCACATGAGCTTCCCATTATA
** * ** * * *
75490996 CAGCCCGGATAAGTTTCCCATTACA
1 TGGCTCACATGAGCTTCCCATTATA
*
75491021 TGGCTCACATGAGCTTCCCATTTTA
1 TGGCTCACATGAGCTTCCCATTATA
75491046 TGGCTC
1 TGGCTC
75491052 GAGAGAGTGC
Statistics
Matches: 59, Mismatches: 21, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
24 18 0.31
25 41 0.69
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCATTATA
Found at i:75491401 original size:17 final size:17
Alignment explanation
Indices: 75491357--75491402 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
75491347 GAAATACATG
*
75491357 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
75491372 GAAAT-ACTGATATAAT
1 GAAATGAATGATATAAT
75491388 GAAATGAATGATATA
1 GAAATGAATGATATA
75491403 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:75500023 original size:53 final size:54
Alignment explanation
Indices: 75499940--75500041 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
75499930 AACGGTGACG
75499940 AAATACCCCCATAGGATAAAATAACTGAAATA-CCCAATAGGGTAAAATGACCT
1 AAATACCCCCATAGGATAAAATAACTGAAATACCCCAATAGGGTAAAATGACCT
* *
75499993 AAATACCCCCATAAGG-TAAAATGA-TCGAAATACCCCCATAGGGTAAAAT
1 AAATACCCCCAT-AGGATAAAATAACT-GAAATACCCCAATAGGGTAAAAT
75500042 AACCGAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
52 1 0.02
53 25 0.57
54 18 0.41
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.19
Consensus pattern (54 bp):
AAATACCCCCATAGGATAAAATAACTGAAATACCCCAATAGGGTAAAATGACCT
Found at i:75500052 original size:27 final size:27
Alignment explanation
Indices: 75499938--75500066 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
75499928 GAAACGGTGA
*
75499938 CGAAATACCCCCATAGGATAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATAAC
* * *
75499965 TGAAATA-CCCAATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATAAC
* * * *
75499991 CTAAATACCCCCATAAGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATAAC
75500018 CGAAATACCCCCATAGGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATAAC
* *
75500045 CGAGATA--CCCTTAGGGTAAAAT
1 CGAAATACCCCCATAGGGTAAAAT
75500067 GATTGTATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
25 14 0.16
26 21 0.24
27 51 0.59
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATAAC
Found at i:75500091 original size:27 final size:27
Alignment explanation
Indices: 75500059--75500124 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
75500049 ATACCCTTAG
* * * *
75500059 GGTAAAATGATTGTATTACCTCTGTAA
1 GGTAAAATGACTATATTACCCCTATAA
*
75500086 GGTAAAATGACTATTTTACCCCTATAA
1 GGTAAAATGACTATATTACCCCTATAA
75500113 GGTAAAATGACT
1 GGTAAAATGACT
75500125 GATTTGCCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
GGTAAAATGACTATATTACCCCTATAA
Found at i:75500522 original size:34 final size:34
Alignment explanation
Indices: 75500476--75500570 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
75500466 TTGCATACTA
75500476 TACTGATT-CTGAAATGGGCTCAGGCCCAGACTGC
1 TACTG-TTACTGAAATGGGCTCAGGCCCAGACTGC
*
75500510 TACTGTTACTGAAATGGGCTCAGACCCAGACTGC
1 TACTGTTACTGAAATGGGCTCAGGCCCAGACTGC
* *
75500544 TACTGTTACTGAAATGGTCTAAGGCCC
1 TACTGTTACTGAAATGGGCTCAGGCCC
75500571 TAATTGAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 2 0.04
34 54 0.96
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTCAGGCCCAGACTGC
Found at i:75507587 original size:25 final size:25
Alignment explanation
Indices: 75507505--75507625 Score: 107
Period size: 26 Copynumber: 4.7 Consensus size: 25
75507495 AACACGTTAG
* * *
75507505 GAAAAAAAGCCTTTATGGCGTAATAT
1 GAAAGAAAGCCTTTGT-GCTTAATAT
* * *
75507531 GAAAGAAAGCTTTTTTGGTATAATAT
1 GAAAGAAAGCCTTTGTGCT-TAATAT
75507557 GAAAGAAAGCCTTTGTGCTTAATAT
1 GAAAGAAAGCCTTTGTGCTTAATAT
* **
75507582 GGAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGT-GCTTAATAT
* *
75507608 GAAGGAAATTCCTTTGTG
1 GAAAGAAA-GCCTTTGTG
75507626 GCAAACTCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
25 22 0.28
26 49 0.63
27 7 0.09
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (25 bp):
GAAAGAAAGCCTTTGTGCTTAATAT
Found at i:75507607 original size:51 final size:51
Alignment explanation
Indices: 75507505--75507625 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 51
75507495 AACACGTTAG
* * * * *
75507505 GAAAAAAAGCCTTTATGGCGTAATATGAAAGAAAGCTTTTTTGGTATAATAT
1 GAAAGAAAGCCTTTGT-GCGTAATATGAAAGAAAGCCTTTGTGGGATAATAT
* *
75507557 GAAAGAAAGCCTTTGTGCTTAATATGGAAGAAAGCCTTTGTGGCGA-AATAT
1 GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGG-GATAATAT
* *
75507608 GAAGGAAATTCCTTTGTG
1 GAAAGAAA-GCCTTTGTG
75507626 GCAAACTCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
51 35 0.60
52 23 0.40
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (51 bp):
GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGGGATAATAT
Found at i:75509364 original size:68 final size:66
Alignment explanation
Indices: 75509292--75509463 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
75509282 CATCATGTGT
* * * *
75509292 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
75509355 TGTAG
62 TGTAG
** * *
75509360 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
75509425 AG
65 AG
* * * *
75509427 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
75509464 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:75509397 original size:64 final size:64
Alignment explanation
Indices: 75509316--75509499 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
75509306 AGACATTATG
* * *
75509316 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
75509380 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
75509445 AA
63 AA
* * *
75509447 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
75509500 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:75512014 original size:2 final size:2
Alignment explanation
Indices: 75512007--75512057 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
75511997 GAGCTTTTTG
75512007 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
75512048 CT CT CT CT CT
1 CT CT CT CT CT
75512058 TCTTTTTGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:75513317 original size:80 final size:80
Alignment explanation
Indices: 75513220--75513381 Score: 281
Period size: 80 Copynumber: 2.0 Consensus size: 80
75513210 CACGCCTTGT
*
75513220 ATGTATGATTATATTGGAAACATTGCATGGTGGATCCATTGGAT-TCAGTGGGCATGCCATGGGA
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATAT-AGTGGGCATGCCATGGGA
75513284 TTTGTGAGTACCCACC
65 TTTGTGAGTACCCACC
*
75513300 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATATAGTTGGCATGCCATGGGAT
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATATAGTGGGCATGCCATGGGAT
*
75513365 TTGTGAGTACTCACC
66 TTGTGAGTACCCACC
75513380 AT
1 AT
75513382 TATTTGTGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 77 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (80 bp):
ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATATAGTGGGCATGCCATGGGAT
TTGTGAGTACCCACC
Found at i:75519882 original size:93 final size:93
Alignment explanation
Indices: 75519761--75519930 Score: 331
Period size: 93 Copynumber: 1.8 Consensus size: 93
75519751 GTTTCATATC
75519761 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
75519826 ACTAATACTACTCCTTACCATCCTTCAT
66 ACTAATACTACTCCTTACCATCCTTCAT
*
75519854 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTTATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
75519919 ACTAATACTACT
66 ACTAATACTACT
75519931 TACCATCTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (93 bp):
ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
ACTAATACTACTCCTTACCATCCTTCAT
Found at i:75520622 original size:22 final size:22
Alignment explanation
Indices: 75520589--75520640 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
75520579 CATCAGTGTT
*
75520589 ATCAATGGCAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
*
75520611 ATTAGTGGCAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
75520633 ATCAGTGG
1 ATCAGTGG
75520641 TGGCTTGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTGCAA
Found at i:75521238 original size:2 final size:2
Alignment explanation
Indices: 75521233--75521264 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
75521223 ACAAAAAATG
75521233 AT AT 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 AT AT
75521265 TAAATCTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75523241 original size:29 final size:28
Alignment explanation
Indices: 75523207--75523309 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
75523197 TACTCAATCA
*
75523207 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
75523236 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* * *
75523265 TGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
75523294 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
75523310 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:75526364 original size:49 final size:49
Alignment explanation
Indices: 75526292--75526631 Score: 410
Period size: 49 Copynumber: 6.8 Consensus size: 49
75526282 TAGCCGAAGC
* * *
75526292 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
75526341 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
75526391 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
75526442 TATCAGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * ** *
75526491 AATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * * * *
75526542 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
75526591 TATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACG
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
75526632 TGACTTCACA
Statistics
Matches: 242, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
49 116 0.48
50 51 0.21
51 75 0.31
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:75526528 original size:100 final size:99
Alignment explanation
Indices: 75526293--75526634 Score: 470
Period size: 100 Copynumber: 3.4 Consensus size: 99
75526283 AGCCGAAGCT
* * * * * * * *
75526293 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCTGGTACACGTAG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATCAGGTACGCATAG
* * **
75526357 TAGCCTGCACTTAGTACTACACACGTGACCTAACC
66 TAGCCTGCACTTAGTACTACACATGCGACC-AATA
* *
75526392 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGCACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AAGTTATCAGGTACGCATA
75526457 GTAGCCTGCACTTAGTACTACACATGCGACCAATA
65 GTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * *
75526492 ATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCACAGTTTTCGGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCA-AGTTATCAGGTACGCATA
*
75526557 GTAGCCTGCACTTAGTACTACACATGCGACCAATT
65 GTAGCCTGCACTTAGTACTACACATGCGACCAATA
*
75526592 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
75526635 CTTCACAATA
Statistics
Matches: 216, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
99 40 0.19
100 135 0.62
101 41 0.19
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATCAGGTACGCATAG
TAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:75530265 original size:26 final size:26
Alignment explanation
Indices: 75530217--75530308 Score: 121
Period size: 26 Copynumber: 3.5 Consensus size: 26
75530207 AACACGTTAG
*
75530217 GAAAGAAAGCATTTATGGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
* * *
75530243 GAAAGAAAGTCTTTGTGGTGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
* *
75530269 GAAATAAAGCCTTTATAGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
*
75530295 AAAAGAAAGCCTTT
1 GAAAGAAAGCCTTT
75530309 GTACGGATTC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (26 bp):
GAAAGAAAGCCTTTATGGCGTAATAT
Found at i:75531474 original size:13 final size:13
Alignment explanation
Indices: 75531456--75531480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75531446 ACGCTCATGC
75531456 CCCCAGGCCGTGG
1 CCCCAGGCCGTGG
75531469 CCCCAGGCCGTG
1 CCCCAGGCCGTG
75531481 TCCCTCTCAC
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:0.08, C:0.48, G:0.36, T:0.08
Consensus pattern (13 bp):
CCCCAGGCCGTGG
Found at i:75536282 original size:15 final size:15
Alignment explanation
Indices: 75536262--75536317 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
75536252 TCAAGATAAG
* *
75536262 GAAATCCATAATGGA
1 GAAATCCAGAATAGA
*
75536277 GAAATCCAGAATATA
1 GAAATCCAGAATAGA
*
75536292 GAAATCCA-ACATAAA
1 GAAATCCAGA-ATAGA
75536307 GAAATCCAGAA
1 GAAATCCAGAA
75536318 GAAAATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (15 bp):
GAAATCCAGAATAGA
Found at i:75540603 original size:40 final size:40
Alignment explanation
Indices: 75540559--75540707 Score: 255
Period size: 40 Copynumber: 3.7 Consensus size: 40
75540549 GACCATATCT
*
75540559 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATTC
1 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
75540599 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
1 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
75540639 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
1 GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
**
75540679 GGGTTAAG-TCCCGAAGGCATTTGTGCGAG
1 GGACTAAGAT-CCGAAGGCATTTGTGCGAG
75540708 CTATTATAAC
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
GGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCC
Found at i:75540655 original size:80 final size:80
Alignment explanation
Indices: 75540516--75540707 Score: 262
Period size: 80 Copynumber: 2.4 Consensus size: 80
75540506 TCGAATGATG
* * * ** * *
75540516 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTCCCAAATCCGGACTAAGATCCGAAGGCATT
75540580 TGTGCGAGTTCCCAAA
65 TGTGCGAGTTCCCAAA
*
75540596 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGATCCGAAGGCATT
75540660 TGTGCGAGTTCCCAAA
65 TGTGCGAGTTCCCAAA
**
75540676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAG
75540708 CTATTATAAC
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 90 0.92
81 7 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTCCCAAA
Found at i:75540721 original size:40 final size:40
Alignment explanation
Indices: 75540516--75540746 Score: 179
Period size: 40 Copynumber: 5.8 Consensus size: 40
75540506 TCGAATGATG
* * *
75540516 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * * *
75540556 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* * * *
75540596 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* * *
75540636 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
75540676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
75540717 -CCGGGCTATGTCCTGAAGGC-TTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
75540747 TCGCTATATC
Statistics
Matches: 167, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
39 10 0.06
40 147 0.88
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:75540735 original size:80 final size:80
Alignment explanation
Indices: 75540550--75540773 Score: 244
Period size: 80 Copynumber: 2.8 Consensus size: 80
75540540 GTGCTAAGTG
* * *
75540550 ACCATATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATTCGGACTAAGATCCGAAG
1 ACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGATCCGAAG
*
75540615 GCATTTGTGCGAGTT
66 GCATTTGTGCGAGCT
* **
75540630 CCCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG-TCCCGAA
1 ACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT-CCGAA
75540694 GGCATTTGTGCGAGCT
65 GGCATTTGTGCGAGCT
** * * * * *
75540710 ATTATAA-CCGGGCTATG-TCCTGAAGGC-TTTGAGCGAG-TCGCTATATCCGGA-TAAGATCCG
1 ACCA-AATCCGGACTAAGATCC-GAAGGCATTTGTGCGAGTTC-CCAAATCCGGACTAAGATCCG
75540770 AAGG
63 AAGG
75540774 TACGTGATTC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 13 0.11
79 22 0.18
80 86 0.70
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCGAGCT
Found at i:75546334 original size:12 final size:12
Alignment explanation
Indices: 75546319--75546360 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
75546309 AAAACTTTAT
*
75546319 TTTTTTTATATA
1 TTTTTATATATA
75546331 TTTTTAATATATA
1 TTTTT-ATATATA
75546344 TTTTTATATATA
1 TTTTTATATATA
75546356 TTTTT
1 TTTTT
75546361 TATCCAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTATATATA
Found at i:75546334 original size:13 final size:13
Alignment explanation
Indices: 75546316--75546363 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
75546306 ATCAAAACTT
*
75546316 TATTTTTTTTATA
1 TATTTTTTATATA
*
75546329 TATTTTTAATATA
1 TATTTTTTATATA
75546342 TA-TTTTTATATA
1 TATTTTTTATATA
75546354 TATTTTTTAT
1 TATTTTTTAT
75546364 CCAAGAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTTTTATATA
Found at i:75549182 original size:48 final size:48
Alignment explanation
Indices: 75549111--75549973 Score: 1388
Period size: 48 Copynumber: 18.0 Consensus size: 48
75549101 AGATAAATAT
* * *
75549111 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
75549159 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGG-TGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAA
* *
75549207 ATATGTATGAGATATGTATATGTTGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * * *
75549255 ATATATGTGTGATATGCAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
75549303 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
75549351 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
75549399 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
75549447 ATATATGTGAGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
75549495 ATATATATGAGATATGTATATGTGGTAAAGCGGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
75549543 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
75549591 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
75549639 ATATGTATGAGATATGTA-ATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
75549686 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
75549734 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
75549782 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
75549830 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
75549878 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
75549926 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
75549974 TGTTGTAACA
Statistics
Matches: 759, Mismatches: 53, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 45 0.06
48 713 0.94
49 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:75550068 original size:37 final size:37
Alignment explanation
Indices: 75550018--75550103 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
75550008 GGAAATATAT
*
75550018 TCCGGGTGAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
*
75550055 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
75550092 TCCGGGTAAGAC
1 TCCGGGTAAGAC
75550104 TTCGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
Found at i:75554879 original size:16 final size:16
Alignment explanation
Indices: 75554855--75554911 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
75554845 TGAATTACTT
*
75554855 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
*
75554871 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
75554887 ATTACA-ATCCTATTCA
1 ATTACAGCT-CTATTCA
75554903 ATTACAGCT
1 ATTACAGCT
75554912 GACCAAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:75555902 original size:21 final size:21
Alignment explanation
Indices: 75555878--75555929 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
75555868 AACCAGATGA
*
75555878 ATTTTAATTTGAATTGATTTT
1 ATTTTAATTTAAATTGATTTT
* * *
75555899 A-TTTAAGGTAAAATTGTTTTT
1 ATTTTAA-TTTAAATTGATTTT
75555920 ATTTTAATTT
1 ATTTTAATTT
75555930 CATTTTTTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTTAATTTAAATTGATTTT
Found at i:75569142 original size:40 final size:40
Alignment explanation
Indices: 75569013--75569195 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
75569003 CGATATCTCA
* * **
75569013 CACACTAAGTGCCAATACAAAGCCAAAGCTAT-TATAATCTTG
1 CACACTAAGTGCC-ATATATAGCCAAAGCTATCTCGAATC--G
* * * * * **
75569055 CACAGTAAGTGCCTTACATAACCGAAGCTATCTCGGTCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTC-GAATCG
* *
75569096 CACACTACA-TGCCATATATAGCCGAAGCTAT-TCCTAATCG
1 CACACTA-AGTGCCATATATAGCCAAAGCTATCT-CGAATCG
*
75569136 CACACTAAGTGCCATATATAGCCAAAGCTATCTCGAATTG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCGAATCG
75569176 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
75569196 TATATATCTG
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 57 0.49
41 42 0.36
42 14 0.12
43 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCTCGAATCG
Found at i:75572872 original size:40 final size:40
Alignment explanation
Indices: 75572809--75573051 Score: 284
Period size: 40 Copynumber: 6.1 Consensus size: 40
75572799 TGGAATTTAA
** *
75572809 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75572849 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75572889 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75572928 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
75572968 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
75573007 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
75573047 CCGGA
1 CCGGA
75573052 CATCATTCGA
Statistics
Matches: 178, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 71 0.40
40 95 0.53
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:75572943 original size:79 final size:78
Alignment explanation
Indices: 75572828--75573051 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 78
75572818 GCTACTCGTT
* * *
75572828 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
75572893 ATTTAGTAACTCGCA
65 A-TTAGTAACTCGCA
* * *
75572908 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
75572971 GATTAGTAACTCGCA
64 GATTAGTAACTCGCA
* * * *
75572986 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
75573050 GA
64 GA
75573052 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
78 28 0.22
79 73 0.58
80 24 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTAGTAACTCGCA
Found at i:75581786 original size:40 final size:40
Alignment explanation
Indices: 75581703--75581854 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
75581693 AAATTGAATG
* * * ** *
75581703 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCACT
* * *
75581743 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTC-ACT
* *
75581783 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCACT
* *
75581823 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
75581855 ACATGCTTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 85 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCACT
Found at i:75581868 original size:40 final size:39
Alignment explanation
Indices: 75581741--75581870 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
75581731 ATGCTGGAAA
* * *
75581741 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* * *
75581782 -TATATCCGGGCTAAGACCCAAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
75581820 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
75581861 TTATATCCGG
1 TTATATCCGG
75581871 TTATATTCCG
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 68 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:75584940 original size:56 final size:56
Alignment explanation
Indices: 75584880--75585072 Score: 298
Period size: 56 Copynumber: 3.4 Consensus size: 56
75584870 TCCCAGACAG
*
75584880 GGTCTTACTCGCACACATAAATC-AGAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATAAATCGA-AATCACATATCGATGCCAACGTATTAAACGT
* *
75584936 GGTCTTACTCGCACACATAAATCGAAATCACGTATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
* ** *
75584992 GGTTTTACTTACACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
*
75585048 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATAAATCGA
75585073 TGCCATGGTC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
56 123 0.99
57 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:75587698 original size:27 final size:28
Alignment explanation
Indices: 75587642--75587711 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
75587632 AAATTTGTAC
75587642 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
75587670 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
75587697 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75587712 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:75592582 original size:40 final size:40
Alignment explanation
Indices: 75592538--75592738 Score: 262
Period size: 40 Copynumber: 5.0 Consensus size: 40
75592528 GGGATTTAAT
* **
75592538 CGGATATAGCT-ACTCGCTCAAATGCCTTCAAGACTTAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
** * *
75592578 CGGATATAGTAGTTCGTACAAATGCCTTCGAGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
75592618 CGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
** *
75592658 CAAAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
75592698 TGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
75592738 C
1 C
75592739 CGTTATCATC
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 139 0.99
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:75596749 original size:21 final size:21
Alignment explanation
Indices: 75596720--75596789 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
75596710 CTCATACATC
75596720 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
* * *
75596741 ATGAGCTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
75596765 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
75596786 ATGA
1 ATGA
75596790 GTTCAGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 4 0.11
24 11 0.29
25 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:75596781 original size:45 final size:45
Alignment explanation
Indices: 75596707--75596797 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
75596697 CCAAAACATG
*
75596707 TGTCTCATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
* *
75596752 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
75596797 T
1 T
75596798 TACAAAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
Found at i:75604266 original size:43 final size:42
Alignment explanation
Indices: 75604219--75604364 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 42
75604209 TCCCAGGTAT
* * * *
75604219 GGTCTTACATGTTATCATATATCGGTGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCA-ATAACGATGCCAATGTCCCAGACAG
* * *
75604262 GGTCTTACACGAAATCGAATAACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATC-AATAACGATGCCAATGTCCCAGACAG
* * ** *
75604305 GGTTTTACATGTAATCACGAT-ACAATGCCAATGTCCTGGACAT
1 GGTCTTACATGTAATCA--ATAACGATGCCAATGTCCCAGACAG
75604348 GGTCTTACATGTAATCA
1 GGTCTTACATGTAATCA
75604365 CATCTCGGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 82 0.95
44 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAATAACGATGCCAATGTCCCAGACAG
Found at i:75610391 original size:18 final size:17
Alignment explanation
Indices: 75610361--75610402 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
75610351 TTACATTTCT
*
75610361 CACATGAAAATCCATTAA
1 CACAT-AAAATCCATCAA
75610379 CACATAAACATCCATCAA
1 CACATAAA-ATCCATCAA
75610397 -ACATAA
1 CACATAA
75610403 TCTCATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (17 bp):
CACATAAAATCCATCAA
Found at i:75611891 original size:43 final size:43
Alignment explanation
Indices: 75611841--75611997 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
75611831 TATCCCAAAT
* *
75611841 ATGGTCTTTCATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAC
* * * *
75611884 A-GAGTCTTACACT-AAATTGA-ATAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACA-TGTAA-TCACATATCGATGCCACTGTCCCAGAC
** *
75611927 ATGGTCTTACACATAATCACA-ATCCAATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCACTGTCCCAGAC
75611970 ATGGTCTTACATGTAATCACATATCGAT
1 ATGGTCTTACATGTAATCACATATCGAT
75611998 AACCTAATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.04
43 81 0.89
44 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAC
Found at i:75614232 original size:24 final size:24
Alignment explanation
Indices: 75614197--75614246 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
75614187 CATAGCCGAA
75614197 GCTATTCCGAATCACACACTAAGT
1 GCTATTCCGAATCACACACTAAGT
* **
75614221 GCTATTCTGAATCGTACACTAAGT
1 GCTATTCCGAATCACACACTAAGT
75614245 GC
1 GC
75614247 CATATATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (24 bp):
GCTATTCCGAATCACACACTAAGT
Found at i:75616534 original size:10 final size:10
Alignment explanation
Indices: 75616519--75616558 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
75616509 TCGTCCCACC
75616519 CTCTCATTTT
1 CTCTCATTTT
75616529 CTCTCATTTT
1 CTCTCATTTT
75616539 CT-TCAATTTTT
1 CTCTC-A-TTTT
75616550 CTCTCATTT
1 CTCTCATTT
75616559 CTTCCTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 16 0.59
11 7 0.26
12 2 0.07
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (10 bp):
CTCTCATTTT
Found at i:75618407 original size:46 final size:47
Alignment explanation
Indices: 75618352--75618441 Score: 128
Period size: 46 Copynumber: 1.9 Consensus size: 47
75618342 ATGATATTTG
* *
75618352 AAGACATATTAAAATGCTGCACT-ATTAAGACATAATTAATAAACTT
1 AAGACATATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
* * *
75618398 AAGACATATTAAAATTCTGTATTAAATAAGACACAATTAATAAA
1 AAGACATATTAAAATGCTGCACTAAATAAGACACAATTAATAAA
75618442 ACTAAATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
46 20 0.53
47 18 0.47
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (47 bp):
AAGACATATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
Found at i:75620345 original size:27 final size:28
Alignment explanation
Indices: 75620289--75620358 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
75620279 AAATTTGTAC
75620289 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75620317 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75620344 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
75620359 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75620369 original size:27 final size:27
Alignment explanation
Indices: 75620289--75620370 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
75620279 AAATTTGTAC
* *
75620289 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75620317 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
75620344 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75620371 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75631507 original size:27 final size:28
Alignment explanation
Indices: 75631451--75631520 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
75631441 AAATTTGTAC
75631451 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75631479 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75631506 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
75631521 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75631531 original size:27 final size:27
Alignment explanation
Indices: 75631451--75631532 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
75631441 AAATTTGTAC
* *
75631451 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75631479 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
75631506 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75631533 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75635521 original size:29 final size:28
Alignment explanation
Indices: 75635487--75635589 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
75635477 TACTCAATCA
*
75635487 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
75635516 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
75635545 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
75635574 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
75635590 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:75638980 original size:13 final size:13
Alignment explanation
Indices: 75638957--75638996 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
75638947 AACTTGTTCA
75638957 TTTTCACCTCAAT
1 TTTTCACCTCAAT
75638970 TTTTC-CTCTC-A-
1 TTTTCAC-CTCAAT
75638981 TTTTCACCTCAAT
1 TTTTCACCTCAAT
75638994 TTT
1 TTT
75638997 CCCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
11 8 0.35
12 4 0.17
13 11 0.48
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTCACCTCAAT
Found at i:75646910 original size:26 final size:26
Alignment explanation
Indices: 75646815--75646935 Score: 104
Period size: 26 Copynumber: 4.7 Consensus size: 26
75646805 GCACATATGT
** ** *
75646815 AGGGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTCAGTAATTTTGTAAACA
* * *
75646841 AGGGTATTTTAGTAATTTTGCTAATCG
1 AGGGTATTTCAGTAATTTTG-TAAACA
*
75646868 AGGGTA-TT-GGTAATTTTGTAAACTA
1 AGGGTATTTCAGTAATTTTGTAAAC-A
75646893 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAA-CA
*
75646919 AAGGTATTTCAGTAATT
1 AGGGTATTTCAGTAATT
75646936 CTACCCTATA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
24 4 0.05
25 17 0.21
26 39 0.49
27 20 0.25
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTGTAAACA
Found at i:75646954 original size:27 final size:27
Alignment explanation
Indices: 75646924--75646997 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
75646914 AACCAAAGGT
75646924 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
*
75646951 ATTTCAGTAATTCTACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
75646978 ATTTCAGTAATCCTAGCCTA
1 ATTTCAGTAATTCTACCCTA
75646998 CAGATATGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:75650300 original size:16 final size:16
Alignment explanation
Indices: 75650279--75650331 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
75650269 ATGAATCGCT
*
75650279 ATTATCAATCCACATG
1 ATTATCAATCCATATG
75650295 ATTATCAATCCATATG
1 ATTATCAATCCATATG
75650311 ATTATCAATCCATATG
1 ATTATCAATCCATATG
75650327 ATTAT
1 ATTAT
75650332 AATTAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTATCAATCCATATG
Found at i:75655330 original size:6 final size:6
Alignment explanation
Indices: 75655312--75655461 Score: 67
Period size: 6 Copynumber: 24.3 Consensus size: 6
75655302 AAGAAACATT
* * *
75655312 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTA-A GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
75655361 ATCAGA ATTAGT ATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * * *
75655412 A-CAGA ATCAAA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
75655460 AT
1 AT
75655462 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 25, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
5 9 0.09
6 81 0.77
7 10 0.10
8 5 0.05
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:75655357 original size:31 final size:31
Alignment explanation
Indices: 75655321--75655461 Score: 192
Period size: 31 Copynumber: 4.5 Consensus size: 31
75655311 TATCAGAACT
* * * * *
75655321 AGAATCAGAATTAGAATCAGAATTAAGTGAC
1 AGAATCAAAATTAGAATCAGTATCAGGTAAC
* * *
75655352 AGAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATTAGAATCAGTATCAGGTAAC
* *
75655383 CGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATTAGAATCAGTATCAGGTAAC
75655414 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATTAGAATCAGTATCAGGTAAC
75655445 AGAATCAAAATTAGAAT
1 AGAATCAAAATTAGAAT
75655462 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAAAATTAGAATCAGTATCAGGTAAC
Found at i:75655610 original size:26 final size:27
Alignment explanation
Indices: 75655581--75655646 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
75655571 AGCATGGCTG
75655581 CCAGAACAGATA-TTGTGACAGAGCCA
1 CCAGAACAGATATTTGTGACAGAGCCA
* * *
75655607 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGACAGAGCCA
75655634 CCAGAATCAGATA
1 CCAGAA-CAGATA
75655647 ATGTACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.32
27 18 0.53
28 5 0.15
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGACAGAGCCA
Found at i:75655852 original size:22 final size:22
Alignment explanation
Indices: 75655820--75655877 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
75655810 TAAATACGTT
*
75655820 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
75655842 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
75655864 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
75655878 CGATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:75656264 original size:27 final size:27
Alignment explanation
Indices: 75656226--75656636 Score: 527
Period size: 27 Copynumber: 15.3 Consensus size: 27
75656216 GGGCAAAAAG
* * * * *
75656226 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
75656253 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656280 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656307 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
75656334 AGTAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
75656360 GATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656387 GGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
75656414 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656441 GGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
75656468 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656495 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
75656522 AGTAATTCTACATTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656549 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656576 GGTAATTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
75656603 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
75656630 GGTAATT
1 GGTAATT
75656637 TTATAAATTG
Statistics
Matches: 336, Mismatches: 47, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.07
27 314 0.93
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:75656650 original size:27 final size:26
Alignment explanation
Indices: 75656593--75656849 Score: 148
Period size: 27 Copynumber: 9.7 Consensus size: 26
75656583 CTACTCTACA
* *** *
75656593 AGGGTATTTCAGTAATTCTACCCTACA
1 AGGGTATTTCAGTAATTTTAAAAT-CG
* *
75656620 AGGGTATTTCGGTAATTTTATAAATTG
1 AGGGTATTTCAGTAATTTTA-AAATCG
* *
75656647 AGGGTATTTCAGTAATTTTACAATCA
1 AGGGTATTTCAGTAATTTTAAAATCG
* *
75656673 ACGGTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTA-AAATCG
* ** *
75656700 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTA-AAATCG
* * *
75656727 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTA-AAATCG
* *
75656754 AGGGTATTTTAGTAATTTTACAATCG
1 AGGGTATTTCAGTAATTTTAAAATCG
* * *
75656780 ACGGCATTTTC-GTAATTTTATAAACCG
1 AGGGTA-TTTCAGTAATTTTA-AAATCG
* *
75656807 -GGTGTACTTT-GGTAATTTTACAA-CTG
1 AGG-GTA-TTTCAGTAATTTTAAAATC-G
75656833 -GGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
75656850 GGTAAACTAA
Statistics
Matches: 181, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
24 3 0.02
25 11 0.06
26 48 0.27
27 115 0.64
28 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTAAAATCG
Found at i:75656652 original size:81 final size:78
Alignment explanation
Indices: 75656244--75656689 Score: 452
Period size: 81 Copynumber: 5.5 Consensus size: 78
75656234 TACCCCATAA
* * *
75656244 GGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
*
75656309 TAATTCTATCCTATAG
65 TAATTCTATAC-AT-G
* *
75656325 GGGTATTTCAGTAATTCTACCTACAGGGGTATTTC-GATATTTCTACCCTACAAGGGTATTTTGG
1 GGGTATTTCAGTAATTCTACCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTTCGG
*
75656389 TATTTCTATCCTACA-G
65 TAATTCTA---TACATG
* * * * *
75656405 GGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTGG
1 GGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
75656470 TAATTCTACCCTACA-G
65 TAATTCTA---TACATG
* * ** * *
75656486 GGGTATTTCGGTAATTTTACCTTACAGGGGTATTTCAGTAATTCTACATTACAGGGGTATTTCAG
1 GGGTATTTCAGTAATTCTACC-TACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
75656551 TAATTCTACCTTACA-G
65 TAATTCTA---TACATG
* *
75656567 GGGTATTTCGGTAATTCTACTCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCAGTAATTCTAC-CTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
* *
75656632 TAATTTTATAAATTG
65 TAATTCTATACA-TG
* * **
75656647 AGGGTATTTCAGTAATTTTA-CAATCAACGGTATTTCAGTAATT
1 -GGGTATTTCAGTAATTCTACCTA-CAGGGGTATTTCAGTAATT
75656690 TTACAAATCA
Statistics
Matches: 323, Mismatches: 30, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.01
79 3 0.01
80 89 0.28
81 223 0.69
82 3 0.01
83 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (78 bp):
GGGTATTTCAGTAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT
AATTCTATACATG
Found at i:75656795 original size:80 final size:79
Alignment explanation
Indices: 75656593--75656849 Score: 274
Period size: 80 Copynumber: 3.2 Consensus size: 79
75656583 CTACTCTACA
* ** * ** *
75656593 AGGGTATTTCAGTAATTCTAC-CCTACAAGGGTATTTCGGTAATTTTATAAATTGAGGGTA-TTT
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGATATTTC-GTAATTTTATAAACCGGGGGTACTTT
* *
75656656 CAGTAATTTTACAATCA
64 -GGTAATTTTACAATCG
* *
75656673 ACGGTATTTCAGTAATTTTACAAATCAAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTACAAATCAAGGATATTT-CGTAATTTTATAAACCGGGGGTACTTTG
75656738 GTAATTTTACAAGTCG
65 GTAATTTTACAA-TCG
* * *
75656754 AGGGTATTTTAGTAATTTTAC-AATCGACGGCAT-TTTCGTAATTTTATAAACCGGGTGTACTTT
1 AGGGTATTTCAGTAATTTTACAAATC-AAGG-ATATTTCGTAATTTTATAAACCGGGGGTACTTT
75656817 GGTAATTTTACAA-CTG
64 GGTAATTTTACAATC-G
75656833 -GGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
75656850 GGTAAACTAA
Statistics
Matches: 153, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
78 17 0.11
79 1 0.01
80 102 0.67
81 31 0.20
82 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (79 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGATATTTCGTAATTTTATAAACCGGGGGTACTTTGG
TAATTTTACAATCG
Found at i:75657856 original size:31 final size:31
Alignment explanation
Indices: 75657821--75657889 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
75657811 ACCAAATTTT
*
75657821 GTCTAAATAAGAAATT-AAGATAATGTTCATA
1 GTCTAAACAAGAAATTGAA-ATAATGTTCATA
*
75657852 GTCTAAACAAGAAATTGAAATAATGTTCTTA
1 GTCTAAACAAGAAATTGAAATAATGTTCATA
75657883 GTC-AAAC
1 GTCTAAAC
75657890 TGGGCACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 4 0.11
31 29 0.83
32 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.30
Consensus pattern (31 bp):
GTCTAAACAAGAAATTGAAATAATGTTCATA
Found at i:75661977 original size:40 final size:40
Alignment explanation
Indices: 75661912--75662079 Score: 191
Period size: 40 Copynumber: 4.2 Consensus size: 40
75661902 TCTTCGGAAT
* * * *
75661912 TTAG-CCGGATATAACCAC-AAGCACAATTGCTTTCGGGTC
1 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTC
* * *
75661951 TTAACCCGGGTATAGCAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
*
75661991 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
* *
75662031 TTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTC
75662071 TTAGCCCGG
1 TTAGCCCGG
75662080 GTATCATTCA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 106 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
Found at i:75670142 original size:40 final size:40
Alignment explanation
Indices: 75670077--75670244 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
75670067 TCTTCGGAAT
* ** *
75670077 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
75670116 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
75670156 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
75670196 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
75670236 TTAGCCCGG
1 TTAGCCCGG
75670245 GTATCATTCA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.03
40 110 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:75673917 original size:30 final size:30
Alignment explanation
Indices: 75673881--75673981 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
75673871 GACAAGATTG
* * *
75673881 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
75673911 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
75673939 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
75673968 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75673982 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:75673993 original size:29 final size:28
Alignment explanation
Indices: 75673910--75673985 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
75673900 AAAATTGTAC
* *
75673910 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
75673938 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
75673967 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
75673986 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:75685043 original size:80 final size:80
Alignment explanation
Indices: 75684959--75685107 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
75684949 TATGGTAACC
* * * *
75684959 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75685023 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
75685039 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75685104 CCGG
66 CCGG
75685108 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75685049 original size:40 final size:38
Alignment explanation
Indices: 75685000--75685107 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
75684990 ATCACGATTT
*
75685000 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
75685040 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
75685080 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
75685108 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:75696362 original size:2 final size:2
Alignment explanation
Indices: 75696350--75696388 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
75696340 TCATTTTAAC
75696350 TA TA T- TA TA 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 TA TA TA TA TA
75696389 CAAATCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75698338 original size:13 final size:13
Alignment explanation
Indices: 75698320--75698345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75698310 ATTTAAAACA
75698320 ATTTTTAGAAAAT
1 ATTTTTAGAAAAT
75698333 ATTTTTAGAAAAT
1 ATTTTTAGAAAAT
75698346 TTGCCAAACA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTTAGAAAAT
Found at i:75698395 original size:33 final size:31
Alignment explanation
Indices: 75698324--75698400 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
75698314 AAAACAATTT
*
75698324 TTAGAAAATATTTTTAGAAAATTTGCCAAACA
1 TTAGAAAATA-TTTTACAAAATTTGCCAAACA
** * *
75698356 CCAGAAAATATTTTACATAGATTTATCCAAACA
1 TTAGAAAATATTTTACA-AAATTT-GCCAAACA
75698389 TTAGAAAATATT
1 TTAGAAAATATT
75698401 AACTTTTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 6 0.17
32 13 0.36
33 17 0.47
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAGAAAATATTTTACAAAATTTGCCAAACA
Found at i:75698945 original size:35 final size:38
Alignment explanation
Indices: 75698905--75698985 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 38
75698895 CCTTTTACTT
*
75698905 TCTTTTTTTC-ATTTTTACCTTTTTT-AACTTTTGTCC
1 TCTTTTTTTCTATTTTTACCTTTTTTAAAATTTTGTCC
* *
75698941 -C-TTTTTTCTTTTTTTACTTTTTTTAAAATTTTGTCC
1 TCTTTTTTTCTATTTTTACCTTTTTTAAAATTTTGTCC
75698977 TCTTTTTTT
1 TCTTTTTTT
75698986 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 7 0.18
35 14 0.37
36 10 0.26
37 1 0.03
38 6 0.16
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.70
Consensus pattern (38 bp):
TCTTTTTTTCTATTTTTACCTTTTTTAAAATTTTGTCC
Found at i:75699138 original size:33 final size:34
Alignment explanation
Indices: 75699082--75699148 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
75699072 ATAATATATA
75699082 TATTTTTTAAATCTTAAATATATATTTTTGAAAT
1 TATTTTTTAAATCTTAAATATATATTTTTGAAAT
*
75699116 TATTTTTTAAAATTTTAAATATAT-TTTTT-AAAT
1 TATTTTTT-AAATCTTAAATATATATTTTTGAAAT
75699149 ATTAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 4 0.13
34 13 0.42
35 14 0.45
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (34 bp):
TATTTTTTAAATCTTAAATATATATTTTTGAAAT
Found at i:75699144 original size:13 final size:13
Alignment explanation
Indices: 75699095--75699150 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
75699085 TTTTTAAATC
75699095 TTAAATATATATTT
1 TTAAATATAT-TTT
75699109 TTGAAAT-TATTTT
1 TT-AAATATATTTT
75699122 TT-AA-A-A--TT
1 TTAAATATATTTT
75699130 TTAAATATATTTT
1 TTAAATATATTTT
75699143 TTAAATAT
1 TTAAATAT
75699151 TAAATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
8 4 0.11
9 2 0.06
10 2 0.06
11 3 0.09
13 15 0.43
14 5 0.14
15 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TTAAATATATTTT
Found at i:75699167 original size:18 final size:20
Alignment explanation
Indices: 75699079--75699163 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
75699069 TTTATAATAT
*
75699079 ATATATTTTTTAAATCTTAA
1 ATATATTTTTTAAATATTAA
*
75699099 ATATATATTTTTGAA-A-T--
1 ATATAT-TTTTTAAATATTAA
* *
75699116 -TAT-TTTTTAAAATTTTAA
1 ATATATTTTTTAAATATTAA
75699134 ATATATTTTTTAAATATTAA
1 ATATATTTTTTAAATATTAA
75699154 ATATATTTTT
1 ATATATTTTT
75699164 AATAATATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
14 6 0.12
15 1 0.02
16 4 0.08
19 4 0.08
20 29 0.57
21 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
ATATATTTTTTAAATATTAA
Found at i:75699174 original size:20 final size:20
Alignment explanation
Indices: 75699119--75699171 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
75699109 TTGAAATTAT
*
75699119 TTTTTAAAATTTTAAATATA
1 TTTTTAAAATATTAAATATA
*
75699139 TTTTTTAAATATTAAATATA
1 TTTTTAAAATATTAAATATA
75699159 TTTTTAATAATAT
1 TTTTTAA-AATAT
75699172 AAAACATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAAAATATTAAATATA
Found at i:75699931 original size:40 final size:40
Alignment explanation
Indices: 75699885--75699961 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
75699875 GTTAGTTATA
*
75699885 AATTTTTTTATTTTAGTACACATTCATAAATTTATATTTT
1 AATTTTTTAATTTTAGTACACATTCATAAATTTATATTTT
75699925 AATTTTTTAATTTTAGTACACATTCATAAATTTATAT
1 AATTTTTTAATTTTAGTACACATTCATAAATTTATAT
75699962 ACTTAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.55
Consensus pattern (40 bp):
AATTTTTTAATTTTAGTACACATTCATAAATTTATATTTT
Done.