Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 77 of 190
Found at i:22137785 original size:22 final size:22
Alignment explanation
Indices: 22137757--22137825 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
22137747 AAGCCATGAT
22137757 CGTTAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
22137779 CGTTAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
*
22137801 CGTGAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
22137823 CGT
1 CGT
22137826 ACTATCAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (22 bp):
CGTTAAACATGAGAGCTTAGTA
Found at i:22155686 original size:12 final size:12
Alignment explanation
Indices: 22155671--22155699 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
22155661 TATAAGCTCA
22155671 TTTATTGACTTG
1 TTTATTGACTTG
22155683 TTTA-TGACTTG
1 TTTATTGACTTG
22155694 TTTATT
1 TTTATT
22155700 TATTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (12 bp):
TTTATTGACTTG
Found at i:22160838 original size:131 final size:131
Alignment explanation
Indices: 22160604--22160865 Score: 470
Period size: 131 Copynumber: 2.0 Consensus size: 131
22160594 GTAAGGGAAA
*
22160604 GTGTGAAGTACATCACAGCATCCACTATGCTTTTGACTATGTTCAGTGATATTGTCAAACAACTT
1 GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
* *
22160669 CAGTTGCCAAATAAGAGGTTGATTTTAGATTGTTGTACACGGTGGAATGCAACATATGCTATGTT
66 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
22160734 G
131 G
* * *
22160735 GTGTGAAGTACATCACAGTATCCACTGTGCCTTTGACTATGTTCAGTGATATTGTTAAACAACTT
1 GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
22160800 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
66 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
22160865 G
131 G
22160866 TTATGTGTAT
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (131 bp):
GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
G
Found at i:22164003 original size:73 final size:71
Alignment explanation
Indices: 22163920--22164442 Score: 443
Period size: 73 Copynumber: 7.2 Consensus size: 71
22163910 CAAGACCGAC
* * *
22163920 CTTTAAAAAGGGTTGAGATAGACCTGTCTAAGGCAACCATTAAAAAAGGGTAAGATAGAACCGTC
1 CTTTAAAAA-GGTTGGGATAGACCTGTCTAAGGCAACC-TTAAAAAAGGTTGAGATAGAACCGTC
*
22163985 TAAGACAA
64 TAAGGCAA
* * * * **
22163993 CTTTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACCTCTAAAAAAGGTCGAGATAGAGTCGTC
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCT-TAAAAAAGGTTGAGATAGAACCGTC
*
22164058 TATGGCAA
64 TAAGGCAA
* * ** * * * * *
22164066 CCTTAAAAAGGTTGGGATAGACCTCATCTAAAACAACCTTTAAAATATGTTGAGATAGACCCATT
1 CTTTAAAAAGGTTGGGATAGACCT-GTCTAAGGCAACC-TTAAAAAAGGTTGAGATAGAACCGTC
22164131 TAAGGCAA
64 TAAGGCAA
* * * * *
22164139 CCTGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAG-ACTCGT
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-CCTTAAAAAAGGTTGAGATAGAAC-CGT
22164203 CTAAGGCAA
63 CTAAGGCAA
* *
22164212 CCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGGTT-AGGATAGACCCGT
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-CCTTAAAAAAGGTTGA-GATAGAACCGT
22164276 CTAAGGCAA
63 CTAAGGCAA
* * ** * *
22164285 CCTTTAAAAAGGTTGAGATAGAGCC-ATCTAATACAACCTT-AAAAAGGTTGGGATA-TACCTTG
1 -CTTTAAAAAGGTTGGGATAGA-CCTGTCTAAGGCAACCTTAAAAAAGGTTGAGATAGAACC--G
*
22164347 TCTAAGACAA
62 TCTAAGGCAA
* * * *
22164357 CCTTTAAAAAGGTTGGGATAGACCCGTTTAAGGCAATCTT-TAAAAGGTTG-GAATA-AACTCGT
1 -CTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAAGGTTGAG-ATAGAAC-CGT
* *
22164419 TTAAGACAA
63 CTAAGGCAA
22164428 -TATTAAAAAGGTTGG
1 CT-TTAAAAAGGTTGG
22164443 AATAAACACG
Statistics
Matches: 371, Mismatches: 61, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
69 1 0.00
70 15 0.04
71 26 0.07
72 73 0.20
73 230 0.62
74 24 0.06
75 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (71 bp):
CTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAAGGTTGAGATAGAACCGTCTA
AGGCAA
Found at i:22164103 original size:36 final size:36
Alignment explanation
Indices: 22163922--22164442 Score: 457
Period size: 35 Copynumber: 14.4 Consensus size: 36
22163912 AGACCGACCT
*
22163922 TTAAAAAGGGTTGAGATAGACCT-GTCTAAGGCAACC
1 TTAAAAA-GGTTGGGATAGACCTCGTCTAAGGCAACC
* ** * * *
22163958 ATTAAAAAAGGGTAAGATAGAAC-CGTCTAAGACAACT
1 -TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
22163995 TTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
22164031 TCTAAAAAAGGTCGAGATAGA-GTCGTCTATGGCAACC
1 T-T-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* **
22164068 TTAAAAAGGTTGGGATAGACCTCATCTAAAACAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
22164104 TTTAAAATATGTTGAGATAGACC-CATTTAAGGCAACC
1 -TTAAAA-AGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
22164141 TGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAA-CC
22164178 TTAAAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
*
22164214 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAA-CC
*
22164251 TTAAAAAAGGTTAGGATAGACC-CGTCTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * **
22164287 TTTAAAAAGGTTGAGATAGAGC-CATCTAATACAACC
1 -TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * *
22164323 TTAAAAAGGTTGGGATATACCTTGTCTAAGACAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* *
22164359 TTTAAAAAGGTTGGGATAGACC-CGTTTAAGGCAATC
1 -TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * * * **
22164395 TTTAAAAGGTTGGAATA-AACTCGTTTAAGACAATA
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
22164430 TTAAAAAGGTTGG
1 TTAAAAAGGTTGG
22164443 AATAAACACG
Statistics
Matches: 395, Mismatches: 71, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.01
35 114 0.29
36 107 0.27
37 107 0.27
38 65 0.16
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (36 bp):
TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
Found at i:22164315 original size:219 final size:218
Alignment explanation
Indices: 22163918--22164442 Score: 600
Period size: 219 Copynumber: 2.4 Consensus size: 218
22163908 GTCAAGACCG
* * * * * **
22163918 ACCTTTAAAAAGGGTTGAGATAGACCTGTCTAAGGCAACCATTAAAAAAGGGTAAGATAGAAC-C
1 ACCTTGAAAAA-GGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAG-ACTC
* * *
22163982 GTCTAAGACAACTTTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACCTCTAAAAAAGGTCGAG
64 GTCTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTCTAAAAAAGGTAGAG
** * *
22164047 ATAGAGTCGTCTATGGCAACCTTAAAAAGGTTGGGATAGACCTCATCTAAAACAACCTTTAAAAT
129 ATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTCATCTAAAACAACC-TTAAAA-
* *
22164112 ATGTTGAGATAGACCCAT-T-TAAGGCA
192 AGGTTGAGATAGA-CCATGTCTAAGACA
*
22164138 ACC-TGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCG
1 ACCTTGAAAAAGGTTGGGATAGACC-TGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCG
* * * *
22164202 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-CTTAAAAAAGGTTAG-
65 TCTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTC-TAAAAAAGG-TAGA
* *
22164265 GATAGACCCGTCTAAGGCAACCTTTAAAAAGGTTGAGATAGAGC-CATCTAATACAACCTTAAAA
128 GATAGACCCGTCTAAGGCAACC-TTAAAAAGGTTGAGATAGACCTCATCTAAAACAACCTTAAAA
* * *
22164329 AGGTTGGGATATACCTTGTCTAAGACA
192 AGGTTGAGATAGACCATGTCTAAGACA
* * * * * *
22164356 ACCTTTAAAAAGGTTGGGATAGACCCGTTTAAGGCAA-TCTT-TAAAAGGTTGGAATAAACTCGT
1 ACCTTGAAAAAGGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCGT
* *
22164419 TTAAGACAATATTAAAAAGGTTGG
66 CTAAGACAACATTAAAAAGGTTGG
22164443 AATAAACACG
Statistics
Matches: 261, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
216 42 0.16
217 14 0.05
218 41 0.16
219 140 0.54
220 24 0.09
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (218 bp):
ACCTTGAAAAAGGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCGT
CTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTCTAAAAAAGGTAGAGAT
AGACCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTCATCTAAAACAACCTTAAAAAGGT
TGAGATAGACCATGTCTAAGACA
Found at i:22165978 original size:139 final size:139
Alignment explanation
Indices: 22165643--22166064 Score: 542
Period size: 139 Copynumber: 3.0 Consensus size: 139
22165633 AACACTTAGG
* * *
22165643 AAAGTGTCGGCATAGTGTTGGA-CAAGGGCAACTCTTATTTAAGCGTTGCCTTAGGCATGTATAT
1 AAAGTGTCAGCATAGTGTTGGACCAA-GCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
22165707 CTCAAGCCTTAAACAAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAA
65 CTCAACCCTTATAC-AAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAA
*
22165772 AGTGTTGGCCCA
129 AGTG-TCGCCCA
* * ** *
22165784 AAAGTGTCAGCATAGTGTTGGACAAAGCCGACTCTTATTTAATTGTTGCCCTAGGCATGCATATC
1 AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * *
22165849 TCAACCCTTATACAAATG-GTTGGCGAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAA
66 TCAACCCTTATACAAA-GAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAA
22165913 GTGTCGCCCA
130 GTGTCGCCCA
* * **
22165923 AAAGTGTCACCATAGTGTCGGACCAAGCCAACTCTTATTTAAGCGTTATCTTAGGCATGCATATC
1 AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * * ** * * *
22165988 CCAACCCTTATACAAAGAGTTGGCCAAAACATATATTGGCAAGTCTATTTCAACATTTACGAAAA
66 TCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAAG
22166053 TGTCGCCCA
131 TGTCGCCCA
22166062 AAA
1 AAA
22166065 ATTTCGTCTT
Statistics
Matches: 242, Mismatches: 36, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
138 1 0.00
139 125 0.52
140 48 0.20
141 66 0.27
142 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (139 bp):
AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
TCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAAG
TGTCGCCCA
Found at i:22170833 original size:57 final size:57
Alignment explanation
Indices: 22170766--22170891 Score: 238
Period size: 57 Copynumber: 2.2 Consensus size: 57
22170756 TTACATTTTT
22170766 AAAT-AAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
1 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
22170822 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
1 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
22170879 AAA-AAAAAAATAA
1 AAATAAAAAAATAA
22170892 TGACGAACAC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 14 0.20
57 55 0.80
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (57 bp):
AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
Found at i:22178902 original size:15 final size:15
Alignment explanation
Indices: 22178865--22178904 Score: 73
Period size: 14 Copynumber: 2.7 Consensus size: 15
22178855 CAAAATTATC
22178865 AAATCTATTTTAGAT
1 AAATCTATTTTAGAT
22178880 AAAT-TATTTTAGAT
1 AAATCTATTTTAGAT
22178894 AAATCTATTTT
1 AAATCTATTTT
22178905 CTGGCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (15 bp):
AAATCTATTTTAGAT
Found at i:22182016 original size:30 final size:30
Alignment explanation
Indices: 22181982--22182085 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 30
22181972 TTAAAAATTA
22181982 GGATTTTTTTTAAATTGGTCACCCAACTAT
1 GGATTTTTTTTAAATTGGTCACCCAACTAT
** * *
22182012 GGATTTATTTCTTTTA-TGGTCTCCCAATTAT
1 GGATTT-TTT-TTAAATTGGTCACCCAACTAT
* * *
22182043 GAATTTTCTTTAAATTGGTCATCCAACTAAT
1 GGATTTTTTTTAAATTGGTCACCCAACT-AT
*
22182074 TGAGTTTTTTTT
1 GGA-TTTTTTTT
22182086 TAATCCAATT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
29 3 0.05
30 18 0.33
31 24 0.44
32 10 0.18
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.49
Consensus pattern (30 bp):
GGATTTTTTTTAAATTGGTCACCCAACTAT
Found at i:22182590 original size:27 final size:27
Alignment explanation
Indices: 22182545--22182625 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
22182535 TGAGCGAACT
* **
22182545 AGGGGTTCACAAGCAGGTTTGGTGAGC
1 AGGGGTTCACTAGTTGGTTTGGTGAGC
*
22182572 AGGGGTTCACTAGTTGGTTTAGG-GAAC
1 AGGGGTTCACTAGTTGGTTT-GGTGAGC
* * *
22182599 TGGGGTTCGCTAGTTGGTCTGGTGAGC
1 AGGGGTTCACTAGTTGGTTTGGTGAGC
22182626 TGGGTTTGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.41, T:0.28
Consensus pattern (27 bp):
AGGGGTTCACTAGTTGGTTTGGTGAGC
Found at i:22182628 original size:27 final size:27
Alignment explanation
Indices: 22182560--22182659 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
22182550 TTCACAAGCA
* *
22182560 GGTTTGGTGAGCAGGGGTTCACTAGTT
1 GGTTTGGTGAGCTGGGGTTCGCTAGTT
*
22182587 GGTTTAGG-GAACTGGGGTTCGCTAGTT
1 GGTTT-GGTGAGCTGGGGTTCGCTAGTT
* * *
22182614 GGTCTGGTGAGCT-GGGTTTGCCAGTT
1 GGTTTGGTGAGCTGGGGTTCGCTAGTT
*
22182640 GGTTTTGCT-AGCTGGGGTTC
1 GG-TTTGGTGAGCTGGGGTTC
22182660 ACCAGTATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 19 0.32
27 38 0.64
28 2 0.03
ACGTcount: A:0.11, C:0.13, G:0.41, T:0.35
Consensus pattern (27 bp):
GGTTTGGTGAGCTGGGGTTCGCTAGTT
Found at i:22192726 original size:20 final size:20
Alignment explanation
Indices: 22192657--22192765 Score: 94
Period size: 20 Copynumber: 5.5 Consensus size: 20
22192647 ATGCACATTA
* *
22192657 GTGCCCCTGTTTGTACTTTG
1 GTGCCCCTGTTTGCACTTCG
* *
22192677 GTAG-TCCTGTTTGTACTTCG
1 GT-GCCCCTGTTTGCACTTCG
* *
22192697 GTACCTCTGTTTGCACTTCG
1 GTGCCCCTGTTTGCACTTCG
* * **
22192717 GTGCCCCTGTTCGCACATAT
1 GTGCCCCTGTTTGCACTTCG
* *
22192737 GTGCCCCTATTTGCACTTCA
1 GTGCCCCTGTTTGCACTTCG
22192757 GTGCCCCTG
1 GTGCCCCTG
22192766 ACTGCACGTA
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 68 0.99
21 1 0.01
ACGTcount: A:0.10, C:0.30, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGCCCCTGTTTGCACTTCG
Found at i:22192750 original size:40 final size:40
Alignment explanation
Indices: 22192706--22192788 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
22192696 GGTACCTCTG
* *
22192706 TTTGCACTTCGGTGCCCCTG-TTCGCACATATGTGCCCCTA
1 TTTGCACTTCAGTGCCCCTGACT-GCACATATGTGCCCCTA
*
22192746 TTTGCACTTCAGTGCCCCTGACTGCACGTATGTGCCCCTA
1 TTTGCACTTCAGTGCCCCTGACTGCACATATGTGCCCCTA
22192786 TTT
1 TTT
22192789 TTCATTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.19, T:0.34
Consensus pattern (40 bp):
TTTGCACTTCAGTGCCCCTGACTGCACATATGTGCCCCTA
Found at i:22193949 original size:23 final size:22
Alignment explanation
Indices: 22193889--22193949 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
22193879 AAGGCCCATG
22193889 TGAATATTTATTT-AA-TGAAT
1 TGAATATTTATTTAAATTGAAT
* *
22193909 TG-ATATATATTTATAATTTAAT
1 TGAATATTTATTTA-AATTGAAT
22193931 TGAATATTTATTCTAAATT
1 TGAATATTTATT-TAAATT
22193950 AAGATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 9 0.27
20 2 0.06
21 2 0.06
22 6 0.18
23 12 0.36
24 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TGAATATTTATTTAAATTGAAT
Found at i:22195097 original size:21 final size:18
Alignment explanation
Indices: 22195029--22195104 Score: 91
Period size: 18 Copynumber: 4.2 Consensus size: 18
22195019 ACTGTAAGGG
*
22195029 AACCCATGTT-TCTATCCA
1 AACCCATGTTAT-TATGCA
*
22195047 AACCTATGTTATTATGCA
1 AACCCATGTTATTATGCA
*
22195065 AACCCATGTTATTATGCC
1 AACCCATGTTATTATGCA
* *
22195083 AACCCATGATATTATGTA
1 AACCCATGTTATTATGCA
22195101 AACC
1 AACC
22195105 TATGATTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
18 49 0.98
19 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (18 bp):
AACCCATGTTATTATGCA
Found at i:22195830 original size:19 final size:17
Alignment explanation
Indices: 22195806--22195858 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
22195796 TGGATTATTT
22195806 TTATTTAATATTAATATCA
1 TTATTTAATATTAA-AT-A
*
22195825 TTATTT-TTATTAAATA
1 TTATTTAATATTAAATA
22195841 TTAATATTAATATTAAAT
1 TT-AT-TTAATATTAAAT
22195859 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 8 0.28
19 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATATTAAATA
Found at i:22195833 original size:25 final size:25
Alignment explanation
Indices: 22195799--22195847 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
22195789 AGGGAGATGG
*
22195799 ATTATTTTTATTTAATATTAATATC
1 ATTATTTTTATTAAATATTAATATC
22195824 ATTATTTTTATTAAATATTAATAT
1 ATTATTTTTATTAAATATTAATAT
22195848 TAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTTTATTAAATATTAATATC
Found at i:22195854 original size:25 final size:25
Alignment explanation
Indices: 22195801--22195854 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
22195791 GGAGATGGAT
* *
22195801 TATTTTTATTTAATATTAATATCAT
1 TATTTTTATTAAATATTAATATCAA
*
22195826 TATTTTTATTAAATATTAATATTAA
1 TATTTTTATTAAATATTAATATCAA
22195851 TATT
1 TATT
22195855 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTTTATTAAATATTAATATCAA
Found at i:22195895 original size:18 final size:19
Alignment explanation
Indices: 22195864--22195904 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22195854 TAAATTTAAA
*
22195864 TTTAAATTTATTAT-TATAT
1 TTTAAATATATTATGTAT-T
22195883 TTTAAATAT-TTATGTATT
1 TTTAAATATATTATGTATT
22195901 TTTA
1 TTTA
22195905 TATCTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATATATTATGTATT
Found at i:22200777 original size:20 final size:21
Alignment explanation
Indices: 22200752--22200809 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
22200742 AAGTACACCC
*
22200752 CAAAGGCT-TTTAGAATGCCA
1 CAAAGGCTAATTAGAATGCCA
22200772 CAAAGGCTAGATTAGAATGCCA
1 CAAAGGCTA-ATTAGAATGCCA
* *
22200794 TAAAGGACAAATTAGA
1 CAAAGG-CTAATTAGA
22200810 TTACGCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (21 bp):
CAAAGGCTAATTAGAATGCCA
Found at i:22202881 original size:43 final size:43
Alignment explanation
Indices: 22202834--22202934 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
22202824 CCTTACATGG
** *
22202834 AAATCTCGTATCGATGCCAATAGCCTAGCTATGGTCTTACACA
1 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
**
22202877 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACATG
1 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
22202920 AAATCTCAAATCGAT
1 AAATCTCAAATCGAT
22202935 ATTGGAACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
Found at i:22204898 original size:32 final size:32
Alignment explanation
Indices: 22204862--22204922 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
22204852 TATAATACTT
22204862 AGTAAGTTCGTAAATCATGAACATAGCTTACC
1 AGTAAGTTCGTAAATCATGAACATAGCTTACC
22204894 AGTAAGTTCGTAAATCATGAACATAGCTT
1 AGTAAGTTCGTAAATCATGAACATAGCTT
22204923 GCCATTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
AGTAAGTTCGTAAATCATGAACATAGCTTACC
Found at i:22208685 original size:24 final size:24
Alignment explanation
Indices: 22208658--22208706 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22208648 TTACATGTTC
22208658 AGATGTTGTGATCATCCATGAGTA
1 AGATGTTGTGATCATCCATGAGTA
22208682 AGATGTTGTGATCATCCATGAGTA
1 AGATGTTGTGATCATCCATGAGTA
22208706 A
1 A
22208707 ATTGCTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (24 bp):
AGATGTTGTGATCATCCATGAGTA
Found at i:22214443 original size:18 final size:18
Alignment explanation
Indices: 22214420--22214460 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
22214410 AGTATTCTTA
22214420 AAAGTGTCACCCTTGAAG
1 AAAGTGTCACCCTTGAAG
22214438 AAAGTGTCACCCTTGAAG
1 AAAGTGTCACCCTTGAAG
22214456 AAAGT
1 AAAGT
22214461 TCTTCGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (18 bp):
AAAGTGTCACCCTTGAAG
Found at i:22220475 original size:88 final size:88
Alignment explanation
Indices: 22220222--22220689 Score: 724
Period size: 88 Copynumber: 5.3 Consensus size: 88
22220212 CAATAAGCTT
*
22220222 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
* *
22220287 CAAGGTTGGTGTCTTTGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* *
22220310 TTCG-TGGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTACAACCCAAGGAA
1 TTCGCT-GTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAG
22220373 GCAAGGCTGGTGTCTTCGATCTGC
65 GCAAGGCTGGTGTCTTCGATCTGC
* * * *
22220397 TTCACTGTCAGTGCAAGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
22220462 CAAGGCTGGTGTCTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* * *
22220485 TACGCTGTCGGTGCAGGAAGGCAAGATCTTCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
*
22220550 CAAGGCTAGTGTCTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* * * * * *
22220573 TTCGCTATCGGTGCAAGAAGGCAAGATCTGCAATTTTTAACTTGCTCCGCTACAACTCAGGGAAG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
* *
22220638 CAAGGTTGGTGACTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
22220661 TTCGCTGTCGGTGCAGGAAGGCAAGATCT
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCT
22220690 ATTATCTTCA
Statistics
Matches: 344, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
87 77 0.22
88 267 0.78
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.26
Consensus pattern (88 bp):
TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
CAAGGCTGGTGTCTTCGATCTGC
Found at i:22221919 original size:25 final size:25
Alignment explanation
Indices: 22221890--22221937 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22221880 TCACCTTGGC
22221890 CTCTC-CATTTTCTTTCTTCTTTTCT
1 CTCTCTCATTTTCTTT-TTCTTTTCT
**
22221915 CTCTCTTTTTTTCTTTTTCTTTT
1 CTCTCTCATTTTCTTTTTCTTTT
22221938 TGTTTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
CTCTCTCATTTTCTTTTTCTTTTCT
Found at i:22226770 original size:10 final size:10
Alignment explanation
Indices: 22226755--22226786 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
22226745 CATGAATATA
22226755 AAATAAAAAT
1 AAATAAAAAT
22226765 AAATAAAAAT
1 AAATAAAAAT
*
22226775 AAATAATAAT
1 AAATAAAAAT
22226785 AA
1 AA
22226787 TGATAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:22226782 original size:17 final size:17
Alignment explanation
Indices: 22226749--22226783 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22226739 CATGCGCATG
22226749 AATATAAAATAAAAATA
1 AATATAAAATAAAAATA
22226766 AATA-AAAATAAATAATA
1 AATATAAAATAAA-AATA
22226783 A
1 A
22226784 TAATGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATATAAAATAAAAATA
Found at i:22227297 original size:19 final size:19
Alignment explanation
Indices: 22227273--22227364 Score: 141
Period size: 19 Copynumber: 4.8 Consensus size: 19
22227263 AATCATATCT
22227273 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22227292 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
22227311 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
22227330 TTTAAGA-TGACATATCATA
1 TCTAAGATTG-CATATCATA
22227349 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22227365 CTTGAGAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 2 0.03
19 61 0.94
20 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22227319 original size:38 final size:38
Alignment explanation
Indices: 22227266--22227364 Score: 157
Period size: 38 Copynumber: 2.7 Consensus size: 38
22227256 ACTACAAAAT
*
22227266 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATGA
* *
22227302 CATATCATATCTAAGATTGTATATCATATTTAAGATGA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATGA
22227340 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
22227365 CTTGAGAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
36 6 0.11
37 1 0.02
38 50 0.88
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATGA
Found at i:22230321 original size:38 final size:38
Alignment explanation
Indices: 22230248--22230321 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
22230238 AAAATATTTT
* * * *
22230248 TAAACGGTTACGATTTGACAAAGTTAGAATGTAGCTTC
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
*
22230286 TAAACGGTTATGATTTGACAAAATCAAAATCTAGCT
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
22230322 ATTGAGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (38 bp):
TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
Found at i:22233333 original size:24 final size:23
Alignment explanation
Indices: 22233306--22233388 Score: 60
Period size: 24 Copynumber: 3.3 Consensus size: 23
22233296 TAGAACTTAA
22233306 TATAATCAGCACACACATACTTTG
1 TATAAT-AGCACACACATACTTTG
*
22233330 TATAGATAGCTCACACATAAAACTTT-
1 TATA-ATAGCACACACAT---ACTTTG
* * *
22233356 TATAATTAGTACACATATGCTTTG
1 TATAA-TAGCACACACATACTTTG
22233380 TATAGATAG
1 TATA-ATAG
22233389 TTCATACATA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
23 4 0.09
24 21 0.45
25 4 0.09
26 13 0.28
27 5 0.11
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (23 bp):
TATAATAGCACACACATACTTTG
Found at i:22233359 original size:26 final size:26
Alignment explanation
Indices: 22233324--22233404 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 26
22233314 GCACACACAT
22233324 ACTTTGTATAGATAGCTCACACATAAA
1 ACTTTGTATAGATAG-TCACACATAAA
*
22233351 ACTTT-TATA-ATTAGT-ACACAT-AT
1 ACTTTGTATAGA-TAGTCACACATAAA
* * *
22233374 GCTTTGTATAGATAGTTCATACATAGA
1 ACTTTGTATAGATAG-TCACACATAAA
22233401 ACTT
1 ACTT
22233405 ATATAATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
23 5 0.12
24 13 0.31
25 4 0.10
26 12 0.29
27 8 0.19
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (26 bp):
ACTTTGTATAGATAGTCACACATAAA
Found at i:22233370 original size:50 final size:50
Alignment explanation
Indices: 22233285--22233542 Score: 293
Period size: 50 Copynumber: 5.1 Consensus size: 50
22233275 ACTACAATGT
* *
22233285 TAGTTCGCATATAGAACTTAATATAATCAGCACACACATACTTTGTATAGA
1 TAGTTCACACATAGAACTT-ATATAATCAGCACACACATACTTTGTATAGA
* * * * * * *
22233336 TAGCTCACACATAAAACTTTTATAATTAGTACACATATGCTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
* * *
22233386 TAGTTCATACATAGAACTTATATAATCCA-CACACACATACTTCGTATAAA
1 TAGTTCACACATAGAACTTATATAAT-CAGCACACACATACTTTGTATAGA
* * * * *
22233436 CAATTCGCACATAGAACTTATATAATCAGCACGCACATGCTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
* * * * *
22233486 CAGTTTACACATAGAACTTATTTAATTAGCTCACACATACTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
22233536 TAGTTCA
1 TAGTTCA
22233543 TGGACCCTTC
Statistics
Matches: 168, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 2 0.01
50 150 0.89
51 16 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (50 bp):
TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
Found at i:22233389 original size:24 final size:25
Alignment explanation
Indices: 22233315--22233398 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
22233305 ATATAATCAG
*
22233315 CACACACATACTTTGTATAGATAGCT
1 CACACATATACTTTGTATAGATAG-T
*
22233341 CACACATAAAACTTT-TATA-ATTAGT
1 CACACAT-ATACTTTGTATAGA-TAGT
*
22233366 -ACACATATGCTTTGTATAGATAGTT
1 CACACATATACTTTGTATAGATAG-T
*
22233391 CATACATA
1 CACACATA
22233399 GAACTTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 5 0.11
24 13 0.28
25 4 0.09
26 19 0.40
27 6 0.13
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (25 bp):
CACACATATACTTTGTATAGATAGT
Found at i:22238420 original size:16 final size:16
Alignment explanation
Indices: 22238399--22238430 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22238389 TGATTGAAAG
*
22238399 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
22238415 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
22238431 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:22250748 original size:25 final size:24
Alignment explanation
Indices: 22250720--22250861 Score: 100
Period size: 24 Copynumber: 6.0 Consensus size: 24
22250710 TATATTTATT
22250720 TTTTTAATTTTAAAATACTTTTTAA
1 TTTTTAATTTTAAAATA-TTTTTAA
22250745 TTTTTAATTTTAAAATATTTTTAA
1 TTTTTAATTTTAAAATATTTTTAA
** * *** *
22250769 --AATACTTTT-TTTTA-ATTT--
1 TTTTTAATTTTAAAATATTTTTAA
22250787 TTTTTAATTTTAAAATATTTTTTTAA
1 TTTTTAATTTTAAAATA--TTTTTAA
22250813 TTTTTTTAATTTTAAAATATTTTTAA
1 --TTTTTAATTTTAAAATATTTTTAA
** *
22250839 AATATAATTTTAAAAT-TTTTTAA
1 TTTTTAATTTTAAAATATTTTTAA
22250862 AAATTTTAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
20 9 0.10
21 4 0.04
22 6 0.07
23 7 0.08
24 23 0.26
25 17 0.19
26 7 0.08
28 17 0.19
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTAATTTTAAAATATTTTTAA
Found at i:22250768 original size:11 final size:11
Alignment explanation
Indices: 22250752--22250874 Score: 63
Period size: 11 Copynumber: 11.9 Consensus size: 11
22250742 TAATTTTTAA
22250752 TTTTAAAATAT
1 TTTTAAAATAT
22250763 TTTTAAAATACTT
1 TTTTAAAATA--T
**
22250776 TTTTTTAAT-T
1 TTTTAAAATAT
* *
22250786 TTTT---TTAA
1 TTTTAAAATAT
22250794 TTTTAAAATAT
1 TTTTAAAATAT
**
22250805 TTTTTTAAT-T
1 TTTTAAAATAT
*
22250815 TTTT--TA-AT
1 TTTTAAAATAT
22250823 TT-TAAAATAT
1 TTTTAAAATAT
22250833 TTTTAAAATAT
1 TTTTAAAATAT
22250844 AATTTTAAAAT-T
1 --TTTTAAAATAT
22250856 TTTTAAAA-A-
1 TTTTAAAATAT
22250865 TTTTAAAATA
1 TTTTAAAATA
22250875 AAAATGGGCC
Statistics
Matches: 87, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
7 2 0.02
8 8 0.09
9 9 0.10
10 23 0.26
11 27 0.31
12 1 0.01
13 17 0.20
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22250789 original size:10 final size:10
Alignment explanation
Indices: 22250774--22250825 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
22250764 TTTAAAATAC
22250774 TTTTTTTTAA
1 TTTTTTTTAA
22250784 TTTTTTTTAA
1 TTTTTTTTAA
**
22250794 --TTTTAAAA
1 TTTTTTTTAA
22250802 TATTTTTTTAA
1 T-TTTTTTTAA
22250813 -TTTTTTTAA
1 TTTTTTTTAA
22250822 TTTT
1 TTTT
22250826 AAAATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 6 0.18
9 9 0.26
10 13 0.38
11 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:22250816 original size:8 final size:9
Alignment explanation
Indices: 22250775--22250825 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
22250765 TTAAAATACT
22250775 TTTTTTTAA
1 TTTTTTTAA
22250784 TTTTTTTTAA
1 -TTTTTTTAA
***
22250794 TTTTAAAATA
1 TTTTTTTA-A
22250804 TTTTTTTAA
1 TTTTTTTAA
22250813 TTTTTTTAA
1 TTTTTTTAA
22250822 TTTT
1 TTTT
22250826 AAAATATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:22250856 original size:70 final size:67
Alignment explanation
Indices: 22250718--22250874 Score: 208
Period size: 70 Copynumber: 2.3 Consensus size: 67
22250708 AATATATTTA
* **
22250718 TTTTTTTAATTTTAAAATACTTTTTAATTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 TTTTTTTAATTTTAAAATACTTTTTAATTTTTAATTTTAAAATATTTTTAAAATACTATTTTAAA
22250783 AT
66 AT
*
22250785 TTTTTTTAATTTTAAAATATTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATA-TAATTT
1 TTTTTTTAATTTTAAAATA-CTTTTTAA--TTTTTAATTTTAAAATATTTTTAAAATACT-ATTT
22250849 TAAAAT
62 TAAAAT
**
22250855 TTTTTAAAAATTTTAAAATA
1 TTTTT-TTAATTTTAAAATA
22250875 AAAATGGGCC
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
67 19 0.24
68 7 0.09
69 1 0.01
70 40 0.51
71 12 0.15
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (67 bp):
TTTTTTTAATTTTAAAATACTTTTTAATTTTTAATTTTAAAATATTTTTAAAATACTATTTTAAA
AT
Found at i:22256002 original size:17 final size:16
Alignment explanation
Indices: 22255982--22256013 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22255972 AACCATGGTT
22255982 TTCAGAGTGCCATAGTC
1 TTCAGAGTGCC-TAGTC
22255999 TTCAGAGTGCCTAGT
1 TTCAGAGTGCCTAGT
22256014 ACTTTGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (16 bp):
TTCAGAGTGCCTAGTC
Found at i:22256987 original size:39 final size:37
Alignment explanation
Indices: 22256920--22257012 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
22256910 ACCAGAATGG
* *
22256920 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
22256959 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
22256996 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
22257013 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:22257373 original size:3 final size:3
Alignment explanation
Indices: 22257365--22257405 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
22257355 TAATTCCCAC
* * *
22257365 TAA TAA TAA TAA TAA TAA TAA TAC TAA TAC TAA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22257406 CTTACCTCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:22258320 original size:5 final size:5
Alignment explanation
Indices: 22258299--22258332 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
22258289 TATTTCTTTT
*
22258299 ATATA ATAATC ATATA ATATA ATATA ATATA ATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATA
22258333 AATTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:22261070 original size:29 final size:29
Alignment explanation
Indices: 22260968--22261244 Score: 193
Period size: 28 Copynumber: 9.9 Consensus size: 29
22260958 CACGTAGGTG
* * *
22260968 TCCTTTTAACAGAGTTTGCCAC-AAGACA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
22260996 TTCATTTAACTGAGATAGCCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* *
22261025 TCTTTTTAATATG-GATAGCCACAAAGGCA
1 TCCTTTTAACA-GAGATAGCCACAAAGGCA
* * *
22261054 TCCTTTTAACAAAGATAACCACAAACGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * **
22261083 TCC-TTT--CAGATATAGTCACAAAGGTT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
22261109 TCC-TTTAATAGATATAGCCACAAAGGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * *
22261137 TTC-TTTAATAGAGATTGCCACAAAGGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
*
22261165 TCCTTTT---AGAGATAACCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
22261191 CTTCCTTATAACAGAGATCGCCACAAAGGCT
1 --TCCTTTTAACAGAGATAGCCACAAAGGCA
*
22261222 TCCTTTT---AGAGATAGCCATAAAG
1 TCCTTTTAACAGAGATAGCCACAAAG
22261245 ACACTTCTTT
Statistics
Matches: 198, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
26 49 0.25
28 70 0.35
29 62 0.31
30 1 0.01
31 16 0.08
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (29 bp):
TCCTTTTAACAGAGATAGCCACAAAGGCA
Found at i:22261130 original size:28 final size:28
Alignment explanation
Indices: 22261007--22261244 Score: 202
Period size: 28 Copynumber: 8.5 Consensus size: 28
22260997 TCATTTAACT
* *
22261007 GAGATAGCCACAAAGGCATCTTTTTAATA
1 GAGATAGCCACAAAGGCTTC-CTTTAATA
* *
22261036 TG-GATAGCCACAAAGGCATCCTTTTAACA
1 -GAGATAGCCACAAAGGCTTCC-TTTAATA
* * * * *
22261065 AAGATAACCACAAACGCATCCTTT--CA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* * *
22261091 GATATAGTCACAAAGGTTTCCTTTAATA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* *
22261119 GATATAGCCACAAAGGCTTTCTTTAATA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
*
22261147 GAGATTGCCACAAAGGCTTCCTTT--TA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* *
22261173 GAGATAACCACAAAGGCACTTCCTTATAACA
1 GAGATAGCCACAAAGG--CTTCCTT-TAATA
*
22261204 GAGATCGCCACAAAGGCTTCCTTT--TA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
*
22261230 GAGATAGCCATAAAG
1 GAGATAGCCACAAAG
22261245 ACACTTCTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
26 49 0.28
28 58 0.34
29 49 0.28
30 1 0.01
31 15 0.09
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (28 bp):
GAGATAGCCACAAAGGCTTCCTTTAATA
Found at i:22261218 original size:57 final size:56
Alignment explanation
Indices: 22261007--22261255 Score: 203
Period size: 57 Copynumber: 4.5 Consensus size: 56
22260997 TCATTTAACT
* * *
22261007 GAGATAGCCACAAAGGCATCTT--TTTAATATG-GATAGCCACAAAGGCATCCTTTTAACA
1 GAGATAGCCACAAAGGCA-CTTCCTTTAACA-GAGATCGCCACAAAGGCTTCCTTTT---A
* * * * * * *
22261065 AAGATAACCACAAACGCA--TCCTTT--CAGATATAGTCACAAAGGTTTCCTTTAATA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTT--TA
* * * *
22261119 GATATAGCCACAAAGG--CTTTCTTTAATAGAGATTGCCACAAAGGCTTCCTTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTTTA
*
22261173 GAGATAACCACAAAGGCACTTCCTTATAACAGAGATCGCCACAAAGGCTTCCTTTTA
1 GAGATAGCCACAAAGGCACTTCCTT-TAACAGAGATCGCCACAAAGGCTTCCTTTTA
* *
22261230 GAGATAGCCATAAAGACACTT-CTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTA
22261256 GATTGTGCTA
Statistics
Matches: 153, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
54 35 0.23
55 22 0.14
56 30 0.20
57 51 0.33
58 15 0.10
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (56 bp):
GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTTTA
Found at i:22273866 original size:33 final size:33
Alignment explanation
Indices: 22273823--22274059 Score: 128
Period size: 33 Copynumber: 6.8 Consensus size: 33
22273813 ATATAAAGGG
*
22273823 GGTTGATAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * * *
22273856 GGTTGCTAAGTGTTGATTCCACTGTACTTTAAACGTGAAGGA
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT---CAT--TGGT
**
22273898 GGTTGCTAAGTGCTGATTCCCC---T-A-AAG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
22273925 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
22273958 GGTTGCTAAGTGCTGATCCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
* *
22273995 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
22274034 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
22274060 AACGGATAAC
Statistics
Matches: 158, Mismatches: 18, Indels: 55
0.68 0.08 0.24
Matches are distributed among these distances:
27 22 0.14
28 2 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 57 0.36
34 15 0.09
35 2 0.01
37 4 0.03
39 2 0.01
40 2 0.01
41 1 0.01
42 29 0.18
43 19 0.12
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:22273943 original size:102 final size:103
Alignment explanation
Indices: 22273822--22274022 Score: 316
Period size: 102 Copynumber: 2.0 Consensus size: 103
22273812 AATATAAAGG
* * * *
22273822 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACTGTA-CTTT
1 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCATT
22273886 AAACGTG-AAGGAGGTTGCTAAGTGCTGATTCCCCTAAA
66 AAACGTGAAAGG-GGTTGCTAAGTGCTGATTCCCCTAAA
*
22273924 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCATT
1 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCATT
* *
22273989 GAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAACGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
22274023 GAATCACTGG
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 56 0.62
103 30 0.33
104 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (103 bp):
GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCATT
AAACGTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAAA
Found at i:22281488 original size:102 final size:102
Alignment explanation
Indices: 22281307--22281506 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 102
22281297 GAATATAAAT
* * *
22281307 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTTCTGATTCCACCATATTTT
1 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
*
22281372 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
* *
22281409 GGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
22281474 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
22281507 AGATTCATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (102 bp):
GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:22281530 original size:75 final size:74
Alignment explanation
Indices: 22281407--22281616 Score: 323
Period size: 75 Copynumber: 2.8 Consensus size: 74
22281397 TGATTCCCCC
* *
22281407 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAT-CCACCGTATA
22281472 TTAAATGTGA
65 TTAAATGTGA
* *
22281482 AAGGGGTTGCTAAGTGCTGATTCCCAGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGA-TCCACCGTATA
*
22281547 TTGAATGTGA
65 TTAAATGTGA
* *
22281557 AAGGGGTTGC-AAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTG-ATCCACCG
22281617 ATAACGGATA
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
74 44 0.35
75 79 0.64
76 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCACCGTATAT
TAAATGTGA
Found at i:22296785 original size:23 final size:23
Alignment explanation
Indices: 22296755--22296810 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
22296745 TATTTGTGAA
*
22296755 GCCTTTGTGGCGTATTCTATAAT
1 GCCTTTGTGGCGTACTCTATAAT
* *
22296778 GCCTTTGTGGCGTACTCTGTAGT
1 GCCTTTGTGGCGTACTCTATAAT
22296801 GCCTTTGTGG
1 GCCTTTGTGG
22296811 TAAGTCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.41
Consensus pattern (23 bp):
GCCTTTGTGGCGTACTCTATAAT
Found at i:22298457 original size:10 final size:10
Alignment explanation
Indices: 22298432--22298473 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
22298422 AATTTTGGGG
22298432 AAAACAAAAT
1 AAAACAAAAT
*
22298442 --AACAAAAC
1 AAAACAAAAT
22298450 AAAACAAAAT
1 AAAACAAAAT
*
22298460 AAAATAAAAT
1 AAAACAAAAT
22298470 AAAA
1 AAAA
22298474 TAATATCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:22303841 original size:24 final size:24
Alignment explanation
Indices: 22303809--22303856 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22303799 GACAAGTTGC
22303809 ACGTGGTGGACAAACCACTCAATA
1 ACGTGGTGGACAAACCACTCAATA
* * * *
22303833 ACGTTGTGGCCAAGCCACTTAATA
1 ACGTGGTGGACAAACCACTCAATA
22303857 TCGTAGAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (24 bp):
ACGTGGTGGACAAACCACTCAATA
Found at i:22303843 original size:63 final size:63
Alignment explanation
Indices: 22303770--22303895 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
22303760 ATGACATACC
* * *
22303770 ACGTTGTGGCCAAGCTACTCAATATTGCAGACA-AGTTGCACGTGGTGGACAAACCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGA-AGAGTTGCACGTGATGGACAAACCACTCAATA
* * * *
22303833 ACGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTGCACGTTATGGACAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGATGGACAAACCACTCAATA
22303896 TCGCAGTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 54 0.98
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (63 bp):
ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGATGGACAAACCACTCAATA
Found at i:22303887 original size:39 final size:39
Alignment explanation
Indices: 22303833--22303934 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
22303823 CCACTCAATA
* * * * *
22303833 ACGTTGTGGCCAAGCCACTTAATATCGTAG-AAGAGTTGC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAA-AGCTAC
* *
22303872 ACGTTATGGACAAGCCACTCAATATCGCAGTCAAGCTAC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
22303911 ACGTTGTGGACAAGCCACTCAATA
1 ACGTTGTGGACAAGCCACTCAATA
22303935 ACATTATGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (39 bp):
ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
Found at i:22303949 original size:102 final size:102
Alignment explanation
Indices: 22303769--22303964 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 102
22303759 AATGACATAC
* * * * * *
22303769 CACGTTGTGGCCAAGCTACTCAATATTGCAGACAAGTTGCACGTGGTGGACAAACCACTCAATAA
1 CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
* *
22303834 CGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTG
66 CATTATGGCCAAGCCACTTAATATCGTAGAAGAGTTG
* * *
22303871 CACGTTATGGACAAGCCACTCAATATCGCAGTCAAGCTACACGTTGTGGACAAGCCACTCAATAA
1 CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
* *
22303936 CATTATGGTCAAGCCACTTAATATTGTAG
66 CATTATGGCCAAGCCACTTAATATCGTAG
22303965 TAAAACTGCC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (102 bp):
CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
CATTATGGCCAAGCCACTTAATATCGTAGAAGAGTTG
Found at i:22307344 original size:27 final size:28
Alignment explanation
Indices: 22307280--22307344 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
22307270 ATCATAAAAT
*
22307280 AATTA-GAATTCAATATTTTAGTAATTT
1 AATTACGAATTCAATATTTTAGTAATTA
* * *
22307307 CAGTACAAATT-AATTATTTTA-TAATTA
1 AATTACGAATTCAA-TATTTTAGTAATTA
22307334 AATTACGAATT
1 AATTACGAATT
22307345 TCGACAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (28 bp):
AATTACGAATTCAATATTTTAGTAATTA
Found at i:22310769 original size:20 final size:22
Alignment explanation
Indices: 22310744--22310784 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22310734 TACAAGGTTA
22310744 ATAAAAT-TAA-TATATATTAT
1 ATAAAATATAATTATATATTAT
22310764 ATAAAATATAATTATATATTA
1 ATAAAATATAATTATATATTA
22310785 GTTGTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAAATATAATTATATATTAT
Found at i:22310779 original size:15 final size:16
Alignment explanation
Indices: 22310752--22310781 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22310742 TAATAAAATT
22310752 AATATATATTATATAA
1 AATATATATTATATAA
22310768 AATATA-ATTATATA
1 AATATATATTATATA
22310782 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:22317137 original size:23 final size:23
Alignment explanation
Indices: 22317099--22317144 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22317089 ATGAAACATA
*
22317099 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
22317122 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
22317145 AGTCAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:22317332 original size:30 final size:31
Alignment explanation
Indices: 22317298--22317366 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
22317288 TTGCTCAAGA
* *
22317298 GTAAATACTCAAAA-TTTGAGGGATTA-AAGT
1 GTAAATA-TCAAAAGTTTGAAGGACTAGAAGT
* *
22317328 GTAAATATGAAAAGTTTGAAGGACTAGTAGT
1 GTAAATATCAAAAGTTTGAAGGACTAGAAGT
22317359 GTAAATAT
1 GTAAATAT
22317367 TTTAAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (31 bp):
GTAAATATCAAAAGTTTGAAGGACTAGAAGT
Found at i:22326834 original size:35 final size:35
Alignment explanation
Indices: 22326795--22326862 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
22326785 TATGAAATAT
*
22326795 AAATGGATTCAATAATTAAA-T-AAATTAAATTAAAG
1 AAATGGATT-AA-AAATAAATTAAAATTAAATTAAAG
*
22326830 AAATGTATTAAAAATAAATTAAAATTAAATTAA
1 AAATGGATTAAAAATAAATTAAAATTAAATTAA
22326863 GGGTCATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 3 0.10
35 20 0.69
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (35 bp):
AAATGGATTAAAAATAAATTAAAATTAAATTAAAG
Found at i:22328567 original size:23 final size:24
Alignment explanation
Indices: 22328537--22328582 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22328527 ATAATTTATC
*
22328537 TTAAAAAA-ATTTTAAACGTAATG
1 TTAAAAAACATTTAAAACGTAATG
*
22328560 TTAAAAAACATTTAAAACTTAAT
1 TTAAAAAACATTTAAAACGTAAT
22328583 TTCCCACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
TTAAAAAACATTTAAAACGTAATG
Found at i:22333607 original size:19 final size:19
Alignment explanation
Indices: 22333579--22333617 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22333569 ATAAAATTAG
22333579 ATTTTCTAAAAATATT-TTT
1 ATTTTCT-AAAATATTATTT
*
22333598 ATTTTTTAAAATATTATTT
1 ATTTTCTAAAATATTATTT
22333617 A
1 A
22333618 CCAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTCTAAAATATTATTT
Found at i:22349297 original size:18 final size:18
Alignment explanation
Indices: 22349274--22349309 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22349264 CCTCTTCTTT
*
22349274 TTTTTCATCTTTAGCAAC
1 TTTTTCATCTTCAGCAAC
*
22349292 TTTTTCTTCTTCAGCAAC
1 TTTTTCATCTTCAGCAAC
22349310 AACTTTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (18 bp):
TTTTTCATCTTCAGCAAC
Found at i:22349320 original size:18 final size:19
Alignment explanation
Indices: 22349294--22349330 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22349284 TTAGCAACTT
22349294 TTTCTTCTTCAGCAACAAC
1 TTTCTTCTTCAGCAACAAC
*
22349313 TTTC-TCTTCTGCAACAAC
1 TTTCTTCTTCAGCAACAAC
22349331 AACTTCCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTCTTCTTCAGCAACAAC
Found at i:22349345 original size:18 final size:21
Alignment explanation
Indices: 22349288--22349347 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
22349278 TCATCTTTAG
* * *
22349288 CAACTTTTTCTTCTTCAGCAA
1 CAACTTTCTCTTCTGCAACAA
22349309 CAACTTTCTCTTCTGCAACAA
1 CAACTTTCTCTTCTGCAACAA
22349330 CAAC-TTC-CTTCT-CAACAA
1 CAACTTTCTCTTCTGCAACAA
22349348 TAGTGTCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
20 3 0.08
21 22 0.61
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.35
Consensus pattern (21 bp):
CAACTTTCTCTTCTGCAACAA
Found at i:22354088 original size:22 final size:22
Alignment explanation
Indices: 22354060--22354142 Score: 103
Period size: 22 Copynumber: 3.8 Consensus size: 22
22354050 TGCCATCCAT
**
22354060 GTACGTTAGCCATGAGAGCTTA
1 GTACGTTAAACATGAGAGCTTA
** * *
22354082 GTACGTTAGCCATGAGGGTTTA
1 GTACGTTAAACATGAGAGCTTA
*
22354104 GTTCGTTAAACATGAGAGCTTA
1 GTACGTTAAACATGAGAGCTTA
22354126 GTACGTTAAACATGAGA
1 GTACGTTAAACATGAGA
22354143 TCGATCAGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (22 bp):
GTACGTTAAACATGAGAGCTTA
Found at i:22354859 original size:23 final size:23
Alignment explanation
Indices: 22354833--22355000 Score: 327
Period size: 23 Copynumber: 7.3 Consensus size: 23
22354823 ATAAGTGCCA
22354833 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354856 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
22354879 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354902 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354925 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354948 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354971 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
22354994 CACTGAT
1 CACTGAT
22355001 CAATAACACT
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 143 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:22358218 original size:50 final size:50
Alignment explanation
Indices: 22358112--22358297 Score: 212
Period size: 50 Copynumber: 3.6 Consensus size: 50
22358102 AGGAATGAGA
* * * * *
22358112 TCCCATGTAAGACCATATTTGGGATATGGCATTGGAATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG---CATCGAGA-TA--AGAGG
22358168 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
* * * *
22358218 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
*
22358268 TCTC-TCGTAAGACCATGTCTGGGACATGGC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGC
22358298 ATGGGCACTG
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
49 1 0.01
50 78 0.66
52 2 0.02
53 7 0.06
56 31 0.26
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
Found at i:22358328 original size:50 final size:50
Alignment explanation
Indices: 22358160--22358341 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
22358150 CATTGAGATT
**
22358160 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-TCGAG
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACT-GAG
* ** **
22358210 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
* * * * *
22358260 ATGATAGGTCTCT-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCT-TATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
** *
22358310 ATGAGAACTCTTATGTAAGACCATATCTGGGA
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGA
22358342 TATGACATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 110 0.99
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
Found at i:22358729 original size:18 final size:18
Alignment explanation
Indices: 22358706--22358741 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22358696 AGATAACTCC
22358706 TTGTGCTCGATTTCAAAA
1 TTGTGCTCGATTTCAAAA
22358724 TTGTGCTCGATTTCAAAA
1 TTGTGCTCGATTTCAAAA
22358742 ACATTCTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGTGCTCGATTTCAAAA
Found at i:22362895 original size:6 final size:6
Alignment explanation
Indices: 22362886--22362926 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
22362876 ACTAGAGATA
22362886 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
22362927 AATTCATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:22368275 original size:125 final size:125
Alignment explanation
Indices: 22368053--22368430 Score: 594
Period size: 125 Copynumber: 3.0 Consensus size: 125
22368043 TTAGGGTTTT
* * *
22368053 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAACAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
* * * * * *
22368118 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* *
22368178 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
* *
22368243 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCTCTTTTTCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* * * *
22368303 TAGGTCATGGAAGAAATAATTTCGAGTTGATGGTTCTAAACAAATAATATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
*
22368368 AGGATGCTATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACGCACTTTTTCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
22368428 TAG
1 TAG
22368431 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 234 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
Found at i:22370931 original size:42 final size:42
Alignment explanation
Indices: 22370878--22371309 Score: 179
Period size: 45 Copynumber: 9.8 Consensus size: 42
22370868 AAATAAATTT
* * *
22370878 AAGTTAAGGGTTATGGTTTTTAAGTTCTA-GTTTAAAATTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTT-AAGGGTTAAAATTTTA
* *
22370920 AAGTTAAGGGTTAAGGGTTTTTAAGTTAAGGGTTAAGATTTTT
1 AAGTTAAGGGTT-AGGGTTTTTAAGTTAAGGGTTAAAATTTTA
* *** *
22370963 AAGTTGAGGGTTAGGGTTTTTAAAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTT-AAGTTAAGGG-TTAAAATTTTA
* * * **
22371007 AAGTAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGAGTTTTTA
1 AAGTTAA--GGGTTAGGGTTTTTAAGTTAA-GGGTTA-AAATTTTA
* * * *** *
22371053 AATTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTTAAGTT-AA--GGGTTAAAATTTTA
*** *
22371098 AAGTTAAGGGGTTAGGGTTTTTAAGTTTAAGGGTTTAGGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTTAAG-TTAAGGG-TTAAAATTTTA
* * * ***
22371143 AA-TTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTA
1 AAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGG-TTA-AAATTTTA
** * * * ***
22371189 ATTTTAAAGGTTTTGGGTTTTTAATTTAAGGGTT-AGGGTTTA
1 AAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTAAAATTTTA
* * ****
22371231 TAAGTTAAGGATTTAGGGTTTTTAATTTTAAGGGTTTTGGGTTTTA
1 -AAGTTAAGG-GTTAGGGTTTTTAA-GTTAAGGG-TTAAAATTTTA
* *
22371277 AATTTAAGGGTTAGGGTTTTTAAGTTAAAGGTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
22371310 TAGGGTTTTT
Statistics
Matches: 316, Mismatches: 50, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
42 34 0.11
43 66 0.21
44 43 0.14
45 104 0.33
46 62 0.20
47 7 0.02
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (42 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAAATTTTA
Found at i:22371003 original size:23 final size:22
Alignment explanation
Indices: 22370875--22371641 Score: 632
Period size: 23 Copynumber: 34.3 Consensus size: 22
22370865 ATCAAATAAA
*
22370875 TTTAAGTTAAGGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* ***
22370896 TTTAAGTTCTA--GTTTAAAATT
1 TTTAAGTT-AAGGGTTTAGGGTT
* *
22370917 TTAAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
22370939 TTTAAGTTAAGGG-TTAAGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
22370960 TTTAAGTTGAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
22370981 TTTAAAGTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGGTTTAGGGTT
* **
22371004 TTTAAGTAAATTAGTTTAGGGTT
1 TTTAAGTTAA-GGGTTTAGGGTT
* *
22371027 TTTAAGTTAAGGGGTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
22371049 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGGTTTAGGGTT
**
22371072 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
*
22371095 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
22371117 TTTAAGTTTAAGGGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
** *
22371140 TTTAA-TTAAATTAGTTTAAGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
* *
22371163 TTTAAGTTAAGGGATTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
22371185 TTTAATTTTAAAGGTTTTGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
*
22371208 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
22371229 TATAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
22371251 TTTAATTTTAAGGGTTTTGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
* *
22371274 TTAAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
22371295 TTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
22371317 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
22371340 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
22371362 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
22371385 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
22371406 TTTAAGTTTAAAGGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
**
22371429 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
22371452 TTTAAGTTAAGGGTTAGGGTTTAGGGTT
1 TTTAAGTT-A-----AGGGTTTAGGGTT
** * * * ** *
22371480 TTTATTTTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
22371502 TTTAATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
22371523 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
22371545 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
**
22371568 TTTAA-TTGAATTAGTTTAGGG-T
1 TTTAAGTT-AA-GGGTTTAGGGTT
* *
22371590 TTTAAGTTGAA-TGTTTAGAGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
*
22371612 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
22371635 TTTAAGT
1 TTTAAGT
22371642 AATAACTCAA
Statistics
Matches: 604, Mismatches: 99, Indels: 85
0.77 0.13 0.11
Matches are distributed among these distances:
20 2 0.00
21 131 0.22
22 193 0.32
23 249 0.41
24 12 0.02
28 16 0.03
29 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:22371050 original size:45 final size:44
Alignment explanation
Indices: 22370933--22371639 Score: 602
Period size: 45 Copynumber: 15.8 Consensus size: 44
22370923 TTAAGGGTTA
* * * *
22370933 AGGGTTTTTAAGTTAAGGG-TTAAGATTTTTAAGTT-GAG-GGTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAAGAGTTT
* *
22370975 AGGGTTTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTAAATTAGTTT
1 AGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATTAAA-GAGTTT
* * * *
22371021 AGGGTTTTTAAGTTAAGGGGTTAGAGTTTTTAAATTTAAGGGTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT-AATTAAAGAGTTT
** * *
22371066 AGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AAGGGGTT
1 AGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAAGAGTTT
*
22371111 AGGGTTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
1 AGGGTTTTTAAG-TTAAGGGTTTAGGGTTTTTAATTAAA-GAGTTT
* * *
22371157 AAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAG-GTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA--TTAAAGAGTTT
* * * *
22371202 TGGGTTTTTAATTTAAGGG-TTAGGGTTTATAAGTTAAGGA-TTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAAGAGTTT
* * * * *
22371245 AGGGTTTTTAATTTTAAGGGTTTTGGGTTTTAAATTTAAG-GGTT
1 AGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTTAATTAAAGAGTTT
* *
22371289 AGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTAAATTAGTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAA-GAGTTT
*
22371334 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAA-GAGTTT
22371379 AGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTTAAAG-GTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA--TTAAAGAGTTT
** *
22371423 AGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
1 AGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAA-----AGAGTTT
** * *
22371474 AGGGTTTTTATTTTTAAGGGTTTAGGG-TTTTAATTTAAG-GGTT
1 AGGGTTTTTA-AGTTAAGGGTTTAGGGTTTTTAATTAAAGAGTTT
* * *
22371517 AAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTT
1 AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAAGAGTTT
** * *
22371562 AGGGTTTTTAA-TTGAATTAGTTTAGGG-TTTTAAGTTGAA-TGTTT
1 AGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAAGAGTTT
* *
22371606 AGAGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA
1 AGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTTAA
22371640 GTAATAACTC
Statistics
Matches: 553, Mismatches: 70, Indels: 81
0.79 0.10 0.12
Matches are distributed among these distances:
42 23 0.04
43 71 0.13
44 114 0.21
45 227 0.41
46 74 0.13
47 7 0.01
49 3 0.01
50 8 0.01
51 22 0.04
52 2 0.00
53 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.48
Consensus pattern (44 bp):
AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAAGAGTTT
Found at i:22371492 original size:29 final size:29
Alignment explanation
Indices: 22371442--22371503 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
22371432 AATTAAATTA
22371442 GTTTAGGGTTTTTAAGTTAAGGG-TTAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGG
**
22371470 GTTTAGGGTTTTTATTTTTAAGGGTTTAGG
1 GTTTAGGGTTTTTA-AGTTAAGGGTTTAGG
22371500 GTTT
1 GTTT
22371504 TAATTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.47
29 7 0.23
30 9 0.30
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (29 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTTAGG
Found at i:22372135 original size:18 final size:18
Alignment explanation
Indices: 22372109--22372151 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22372099 GACTCAGAAA
* *
22372109 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
22372127 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
22372145 AGGAAAC
1 AGGAAAC
22372152 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:22372803 original size:7 final size:7
Alignment explanation
Indices: 22372793--22372818 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22372783 TTATATACAT
22372793 AATACTA
1 AATACTA
22372800 AATACTA
1 AATACTA
22372807 AATACTA
1 AATACTA
22372814 AATAC
1 AATAC
22372819 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:22373938 original size:11 final size:11
Alignment explanation
Indices: 22373922--22373959 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
22373912 TTTACGGTTT
22373922 AAAAAATTTTA
1 AAAAAATTTTA
22373933 AAAAAATTTTA
1 AAAAAATTTTA
**
22373944 AAATTA-TTTA
1 AAAAAATTTTA
22373954 AAAAAA
1 AAAAAA
22373960 GGGAGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:22374055 original size:11 final size:12
Alignment explanation
Indices: 22374012--22374078 Score: 88
Period size: 11 Copynumber: 5.9 Consensus size: 12
22374002 GATTAAATAT
*
22374012 AAATTTGAGAGA
1 AAATTTGAGAGG
*
22374024 AAATTGGA-AGG
1 AAATTTGAGAGG
22374035 -AATTTGAGAGG
1 AAATTTGAGAGG
22374046 AAATTT-AGAGG
1 AAATTTGAGAGG
22374057 AAA-TTGAGAGG
1 AAATTTGAGAGG
22374068 AAATTTGAGAG
1 AAATTTGAGAG
22374079 AGGATTAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.17
11 21 0.44
12 19 0.40
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (12 bp):
AAATTTGAGAGG
Found at i:22374073 original size:34 final size:34
Alignment explanation
Indices: 22374012--22374078 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
22374002 GATTAAATAT
22374012 AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
1 AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
*
22374046 AAATTT-AGAGGAAATT-GAGAGGAAATTTGAGAG
1 AAATTTGAGAGAAAATTGGA-AGG-AATTTGAGAG
22374079 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 2 0.07
33 12 0.40
34 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (34 bp):
AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
Found at i:22377049 original size:22 final size:22
Alignment explanation
Indices: 22377021--22377173 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
22377011 TGTTGATAGT
*
22377021 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
22377043 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
22377065 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
22377087 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
22377109 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
22377131 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
22377153 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
22377174 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:22378758 original size:29 final size:29
Alignment explanation
Indices: 22378720--22379078 Score: 339
Period size: 29 Copynumber: 12.4 Consensus size: 29
22378710 TCATCGACCA
*
22378720 ATGAAGAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
22378749 ATGAAAAGGGATAGCTTCTGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
22378778 ATGAGAAGGGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* ** *
22378807 ATGAGAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22378836 ATGAGAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22378865 ATGATAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
22378894 ATGAGAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
22378923 ATGAAAAGGGATAGCTTCGGTTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
* * * * *
22378952 ATGGAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
22378981 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
*
22379010 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
22379039 ATGAAAAGGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
22379068 ATGAAAAGGGA
1 ATGAAAAGGGA
22379079 CGATTACGAC
Statistics
Matches: 285, Mismatches: 41, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.01
29 277 0.97
30 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:22379088 original size:87 final size:87
Alignment explanation
Indices: 22378720--22379078 Score: 409
Period size: 87 Copynumber: 4.1 Consensus size: 87
22378710 TCATCGACCA
* * * *
22378720 ATGAAGAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCTGCTATCGATTATGAGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* *
22378785 GGGATAGTTTCGACTATCGATT
66 GGGATAGTTTCGACCATCGAAT
* * * * * *
22378807 ATGAGAAGGGATAGCTTCGATTATCGATTATGAGAAGGGATAGCTTTGGCTATCGATTATGATAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* * * * *
22378872 GGGATAGCTTCGGCTATTGATT
66 GGGATAGTTTCGACCATCGAAT
* * * *
22378894 ATGAGAAGGGATAGCTTC-AGCTATCGAATATGAAAAGGGATAGCTTCGGTTATCAATTATGGAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
* **
22378958 AGGGATGGTGACGACCATC-AACT
65 AGGGATAGTTTCGACCATCGAA-T
* * *
22378981 ATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
* *
22379045 AGGGATGGTTTTGACCATCGAAT
65 AGGGATAGTTTCGACCATCGAAT
22379068 ATGAAAAGGGA
1 ATGAAAAGGGA
22379079 CGATTACGAC
Statistics
Matches: 229, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
86 4 0.02
87 222 0.97
88 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
GGGATAGTTTCGACCATCGAAT
Found at i:22396355 original size:50 final size:50
Alignment explanation
Indices: 22396282--22396527 Score: 267
Period size: 50 Copynumber: 4.8 Consensus size: 50
22396272 TCTTGTACTA
* * * **
22396282 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * *** * *
22396332 CCCATGCCATGTCCTAGACATGGTCTTATGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * *
22396382 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * *
22396432 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
*
22396488 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22396528 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 123 0.75
53 1 0.01
56 40 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:22396397 original size:100 final size:102
Alignment explanation
Indices: 22396282--22396519 Score: 300
Period size: 100 Copynumber: 2.3 Consensus size: 102
22396272 TCTTGTACTA
* * ** * *
22396282 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCT
** *
22396347 AGACATGGTCTTATGGGGGACCTCTC-ATCT-TGGTG
66 AGACATGGTCTTACAGGGGACCTCTCAATCTATGATG
* * * *
22396382 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCT
*
22396447 AGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
66 AGACATGGTCTTACAGGGGACCTCTC--AATCT--ATGATG
22396488 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
22396520 GGATCTCTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
100 78 0.67
103 4 0.03
106 35 0.30
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (102 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCT
AGACATGGTCTTACAGGGGACCTCTCAATCTATGATG
Found at i:22398814 original size:15 final size:15
Alignment explanation
Indices: 22398782--22398817 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
22398772 ATCTGTTCCG
*
22398782 TTTCAAATTTTACTT
1 TTTCAAATTTCACTT
22398797 TTTCATAATTTCACTT
1 TTTCA-AATTTCACTT
22398813 TTTCA
1 TTTCA
22398818 CTTTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCAAATTTCACTT
Found at i:22399122 original size:51 final size:51
Alignment explanation
Indices: 22399046--22399236 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 51
22399036 CCGGTTCACA
* *
22399046 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * *
22399097 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGA-TACACG
* * *
22399148 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
*
22399198 TAGTAGCCTGCACATAATACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
22399237 TTCACTTTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 71 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:22399266 original size:101 final size:102
Alignment explanation
Indices: 22399039--22399228 Score: 294
Period size: 102 Copynumber: 1.9 Consensus size: 102
22399029 AATGATACCG
*
22399039 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
* *
22399104 CTGCACATAGTACTACACACGTGATCGAAGCTATCCA
66 CTGCACATAATACTACACACGTGATCCAAGCTATCCA
* * * *
22399141 GTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAG
22399204 CCTGCACATAATACTACACACGTGA
65 CCTGCACATAATACTACACACGTGA
22399229 CCATCACTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 38 0.47
102 39 0.48
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAATACTACACACGTGATCCAAGCTATCCA
Found at i:22402589 original size:50 final size:50
Alignment explanation
Indices: 22402514--22402612 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
22402504 GAGAAAACCA
* *
22402514 TTTTCGAAGTCGTTTTGGAAACCTAGTTGCCTTATC-GATTTGTTTTTCAG
1 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAG-TTTATTTTTCAG
22402564 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCA
1 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCA
22402613 AAAATGGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (50 bp):
TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCAG
Found at i:22411869 original size:20 final size:18
Alignment explanation
Indices: 22411836--22411872 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22411826 TGTGATGTTG
22411836 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
22411854 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
22411873 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:22413514 original size:20 final size:20
Alignment explanation
Indices: 22413489--22413527 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22413479 TACTTTCTTC
*
22413489 TTTACTTAATCTCTTACTTG
1 TTTACTTAATCACTTACTTG
*
22413509 TTTACTTACTCACTTACTT
1 TTTACTTAATCACTTACTT
22413528 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTAATCACTTACTTG
Found at i:22427097 original size:16 final size:15
Alignment explanation
Indices: 22427070--22427103 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22427060 ATAATTAGTA
*
22427070 TATAATTATATTTAT
1 TATAATTATATTAAT
22427085 TATAATATATATTAAT
1 TATAAT-TATATTAAT
22427101 TAT
1 TAT
22427104 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:22430131 original size:16 final size:15
Alignment explanation
Indices: 22430097--22430134 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22430087 TTCTTAGACA
*
22430097 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
22430111 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
22430127 TTTTAATT
1 TTTTAATT
22430135 CCTATAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:22430769 original size:26 final size:26
Alignment explanation
Indices: 22430732--22430781 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
22430722 TATCTAACTT
*
22430732 AAGGCTCTTCGTGCACACCAATGGAC
1 AAGGCTCATCGTGCACACCAATGGAC
*
22430758 AAGGCTCATCGTGCACATCAATGG
1 AAGGCTCATCGTGCACACCAATGG
22430782 TCACAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGGCTCATCGTGCACACCAATGGAC
Found at i:22436736 original size:16 final size:15
Alignment explanation
Indices: 22436702--22436739 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22436692 TTCTTAGACA
*
22436702 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
22436716 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
22436732 TTTTAATT
1 TTTTAATT
22436740 CCTACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:22437364 original size:26 final size:26
Alignment explanation
Indices: 22437335--22437385 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
22437325 TTGTCCAACT
*
22437335 CAAGGCTCTTCGTGCACACCAATGGA
1 CAAGGCTCATCGTGCACACCAATGGA
* *
22437361 CAAGGCTCATCGTGCGCATCAATGG
1 CAAGGCTCATCGTGCACACCAATGG
22437386 TAACAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (26 bp):
CAAGGCTCATCGTGCACACCAATGGA
Found at i:22447043 original size:34 final size:35
Alignment explanation
Indices: 22446999--22447065 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22446989 CAGTAAAATG
22446999 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTGC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTGC
* *
22447033 TTTTCTGTAAAATGATTTACTGGACAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
22447066 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTGC
Found at i:22458951 original size:50 final size:50
Alignment explanation
Indices: 22458876--22458979 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
22458866 ATACTGATTC
22458876 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
1 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
22458926 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
1 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
22458976 CCTA
1 CCTA
22458980 TCTTTGATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
Found at i:22460722 original size:90 final size:90
Alignment explanation
Indices: 22460569--22460749 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
22460559 CATTTTCAAA
22460569 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
1 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
22460634 CTGCATCAGAATTGTTGTGCATATG
66 CTGCATCAGAATTGTTGTGCATATG
22460659 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
1 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
22460724 CTGCATCAGAATTGTTGTGCATATG
66 CTGCATCAGAATTGTTGTGCATATG
22460749 T
1 T
22460750 CCTGCAAATT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (90 bp):
TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
CTGCATCAGAATTGTTGTGCATATG
Found at i:22464672 original size:28 final size:28
Alignment explanation
Indices: 22464632--22464691 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
22464622 CATTTAAAAG
*
22464632 AATTAGAAATTAGAAATTTCTATCTTTA
1 AATTAGAAATTAGAAATTTATATCTTTA
22464660 AATTAGAAATTAGAAATTTATATCTTTA
1 AATTAGAAATTAGAAATTTATATCTTTA
22464688 AATT
1 AATT
22464692 TTTATATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (28 bp):
AATTAGAAATTAGAAATTTATATCTTTA
Found at i:22465931 original size:50 final size:51
Alignment explanation
Indices: 22465877--22466045 Score: 146
Period size: 50 Copynumber: 3.3 Consensus size: 51
22465867 TATCCCAAAT
** * *
22465877 ATGGTCTTACATG-AGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
* * * *
22465927 ATGGTCTTAC-GGCGGACCTCTCATCTTGGTACCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
* * ** *
22465977 ATGGTCTTACATG-GGACCTCTGATAACCTCAATAATGCCAATGTCATGTCCCAGAC
1 ATGGTCTTACATGCAGACCTCTCAT-A--TCGGT-A--CCAATGCCATGTCCCAGAC
22466033 ATGGTCTTACATG
1 ATGGTCTTACATG
22466046 GGGTCTCTTC
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 60 0.62
51 1 0.01
53 2 0.02
54 1 0.01
56 31 0.32
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
Found at i:22468351 original size:72 final size:72
Alignment explanation
Indices: 22468263--22468396 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 72
22468253 CAAATTATAT
* * * * *
22468263 ATGATGCCATAATGTCTTCCAGCTATGGTCTTA-TAGAATATAACCCCGTGTTTACTGTCCCGGT
1 ATGATGCCATAATGTCTTCCAGCTATGATATTACT-CAATATAACCCCGAGTTTACTATCCCGGT
22468327 GGACTATC
65 GGACTATC
* *
22468335 ATGATGCCATAGTGTCTTCCAGTTATGATATTACTCAATATAACCCCGAGTTTACTATCCCG
1 ATGATGCCATAATGTCTTCCAGCTATGATATTACTCAATATAACCCCGAGTTTACTATCCCG
22468397 ACGGACTACC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 53 0.98
73 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (72 bp):
ATGATGCCATAATGTCTTCCAGCTATGATATTACTCAATATAACCCCGAGTTTACTATCCCGGTG
GACTATC
Found at i:22479056 original size:15 final size:15
Alignment explanation
Indices: 22479031--22479069 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22479021 TGGCTAGACC
*
22479031 ACCATCACCACCTTG
1 ACCAGCACCACCTTG
* *
22479046 AGCAGCACCACGTTG
1 ACCAGCACCACCTTG
22479061 ACCAGCACC
1 ACCAGCACC
22479070 TCTACCACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.44, G:0.15, T:0.13
Consensus pattern (15 bp):
ACCAGCACCACCTTG
Found at i:22481440 original size:15 final size:15
Alignment explanation
Indices: 22481420--22481448 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22481410 TTCACACACA
22481420 GTGTTATCAATCAAT
1 GTGTTATCAATCAAT
22481435 GTGTTATCAATCAA
1 GTGTTATCAATCAA
22481449 CAAAACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
GTGTTATCAATCAAT
Found at i:22486973 original size:30 final size:29
Alignment explanation
Indices: 22486917--22486977 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
22486907 GCTTTTTGTA
* *
22486917 AATATTTAAAAAAGAGACATCTAATTTTT
1 AATATTTAAAAAAGAGACACCAAATTTTT
22486946 AATATTTACAAAAAGAG-CAACCAAATTTTT
1 AATATTTA-AAAAAGAGAC-ACCAAATTTTT
22486976 AA
1 AA
22486978 AAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTAAAAAAGAGACACCAAATTTTT
Found at i:22486974 original size:29 final size:29
Alignment explanation
Indices: 22486917--22486974 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22486907 GCTTTTTGTA
* * *
22486917 AATATTTAAAAAAGAGACATCTAATTTTT
1 AATATTTAAAAAAGAGACAACCAAATTTT
22486946 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTA-AAAAAGAGACAACCAAATTTT
22486975 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTAAAAAAGAGACAACCAAATTTT
Found at i:22491617 original size:24 final size:24
Alignment explanation
Indices: 22491574--22491622 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
22491564 ATTTTCCAGT
*
22491574 AACTTGTTTTCTTAATAATT-CAA
1 AACTTGTTTTCTTAACAATTACAA
22491597 AACTTGTTTT-TTAACACAATTACAA
1 AACTTGTTTTCTT-A-ACAATTACAA
22491622 A
1 A
22491623 TAATTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.09
23 11 0.50
24 5 0.23
25 4 0.18
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (24 bp):
AACTTGTTTTCTTAACAATTACAA
Found at i:22493259 original size:14 final size:14
Alignment explanation
Indices: 22493240--22493266 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22493230 CATTTCTTGG
22493240 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
22493254 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
22493267 ACTAGATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:22495661 original size:29 final size:29
Alignment explanation
Indices: 22495627--22495684 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
22495617 AGTGCACCTT
*
22495627 AGACTCTCAGTTGGGGAGAATTGCAGCTC
1 AGACTCTCAGCTGGGGAGAATTGCAGCTC
22495656 AGACTCTCAGCTGGGGAGAATTGCAGCTC
1 AGACTCTCAGCTGGGGAGAATTGCAGCTC
22495685 TTCTATTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (29 bp):
AGACTCTCAGCTGGGGAGAATTGCAGCTC
Found at i:22499330 original size:20 final size:18
Alignment explanation
Indices: 22499283--22499331 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
22499273 ATAGATAAAC
22499283 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
22499300 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
22499320 ATTAAATTAATA
1 ATTAAATTAATA
22499332 ACATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:22499376 original size:19 final size:18
Alignment explanation
Indices: 22499345--22499386 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
22499335 TACTATTAAG
**
22499345 ATATT-AAATTTAATTTA
1 ATATTAAAATTTAAAATA
22499362 ATATTAAAATATTAAAATA
1 ATATTAAAAT-TTAAAATA
22499381 ATATTA
1 ATATTA
22499387 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTAAAATTTAAAATA
Found at i:22501474 original size:50 final size:51
Alignment explanation
Indices: 22501350--22501592 Score: 258
Period size: 50 Copynumber: 4.7 Consensus size: 51
22501340 GATAAAGTGA
* *
22501350 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG--TATGAGAGG
** * **
22501406 TCTAATGTAAAACCATGTCTGGGACATGGTGTTGGCACCAAGT-TGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
* **
22501456 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
** * * **
22501506 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
* *
22501556 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22501593 GTACAAGAAA
Statistics
Matches: 160, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
50 124 0.77
51 1 0.01
53 2 0.01
56 33 0.21
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
Found at i:22513040 original size:16 final size:16
Alignment explanation
Indices: 22513001--22513065 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
22512991 CTTAAATAGA
22513001 ATTTTAATTAAAGTTAATT
1 ATTTTAATT-AA-TT-ATT
*
22513020 TTTTTAATTAATTATT
1 ATTTTAATTAATTATT
*
22513036 ATTTTAAATAA-TATT
1 ATTTTAATTAATTATT
22513051 ACTTTGT-ATTAATTA
1 A-TTT-TAATTAATTA
22513066 CATAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.13
16 19 0.49
17 5 0.13
18 2 0.05
19 8 0.21
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAATTATT
Found at i:22513862 original size:20 final size:21
Alignment explanation
Indices: 22513837--22513876 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22513827 GGATGTCTTA
*
22513837 GGGAGATG-GACGAAGAAAGT
1 GGGAGAAGCGACGAAGAAAGT
*
22513857 GGGAGAAGCGACGAGGAAAG
1 GGGAGAAGCGACGAAGAAAG
22513877 CCGAGGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.47, T:0.05
Consensus pattern (21 bp):
GGGAGAAGCGACGAAGAAAGT
Done.