Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 75 of 373
Found at i:23137748 original size:30 final size:31
Alignment explanation
Indices: 23137672--23137754 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
23137662 TCAGTCTTGA
* *
23137672 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
23137702 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
23137733 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
23137755 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:23138012 original size:26 final size:25
Alignment explanation
Indices: 23137975--23138045 Score: 115
Period size: 26 Copynumber: 2.8 Consensus size: 25
23137965 CTCTTTTAAT
23137975 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
23138000 AACTGGGGGCAAAGCCCTTTTCGGTA
1 AACT-GGGGCAAAGCCCTTTTCGGTA
* *
23138026 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
23138046 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 18 0.42
26 25 0.58
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:23138304 original size:27 final size:27
Alignment explanation
Indices: 23138274--23138490 Score: 317
Period size: 27 Copynumber: 8.0 Consensus size: 27
23138264 CAAGGGTGTC
* *
23138274 TCGGTAATTCTATCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
23138301 TCGGTATTTTTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
23138328 TCGGTAATTTTACCCTACATGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
23138355 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
23138382 TCGATAATTCTACCCTATAGGGTTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
23138409 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
23138436 TCGGTAATTCTACCCTACAGGGGTAGT
1 TCGGTAATTCTACCCTACAGGGGTATT
23138463 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
23138490 T
1 T
23138491 TGATATTTTA
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:23138396 original size:81 final size:81
Alignment explanation
Indices: 23138248--23138490 Score: 317
Period size: 81 Copynumber: 3.0 Consensus size: 81
23138238 GGGGCAAAAT
* * * * * * *
23138248 GGTAATTTTTACCCCACAAGGGTGTCTCGGTAATTCTATCCTATAGGGGTATTTCGGTATTTTTA
1 GGTAA-TTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
23138313 CCCTACAAGGGTATTTC
65 CCCTACAAGGGTATTTC
* * *
23138330 GGTAATTTTACCCTACATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
23138395 CCTA-TAGGGTTATTTC
66 CCTACAAGGG-TATTTC
* * * *
23138411 AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTAGTTCGGTAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
23138476 CCTACAGGGGTATTT
66 CCTACAAGGGTATTT
23138491 TGATATTTTA
Statistics
Matches: 140, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.03
81 128 0.91
82 8 0.06
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:23138582 original size:27 final size:27
Alignment explanation
Indices: 23138480--23138582 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
23138470 TTCTACCCTA
23138480 CAGGGGTATTTTGAT-ATTTTACAAAT
1 CAGGGGTATTTTGATAATTTTACAAAT
* * *
23138506 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTTGATAATTTTACAAAT
* * * **
23138533 CAGGGGTACTTTGGTAATCTTACAAGC
1 CAGGGGTATTTTGATAATTTTACAAAT
*
23138560 CAGGGGTATTTTGGTAATTTTAC
1 CAGGGGTATTTTGATAATTTTAC
23138583 TGATTGAGGG
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
25 1 0.02
26 11 0.18
27 48 0.79
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAT
Found at i:23138646 original size:27 final size:27
Alignment explanation
Indices: 23138563--23138783 Score: 147
Period size: 27 Copynumber: 8.2 Consensus size: 27
23138553 TACAAGCCAG
* *
23138563 GGGTATTTTGGTAATTTTACT-GATTGA
1 GGGTATTATGGTAATTTTA-TAAATTGA
* * ***
23138590 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTATGGTAATTTTATAAATTGA
* * *
23138617 GGGTATTGTAGTAATTTTGTAAATTGA
1 GGGTATTATGGTAATTTTATAAATTGA
** *
23138644 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTATTATGGTAATTTTATAAATTGA
** * *
23138671 GGGTAAAATGATAATTTTATAAATCGA
1 GGGTATTATGGTAATTTTATAAATTGA
** * *
23138698 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTATGGTAATTTTATAAATTGA
** * * *
23138725 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTATGGTAATTTTATAAATTGA
** * * *
23138752 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTATGGTAATTTTATAAATTGA
23138779 GGGTA
1 GGGTA
23138784 AAATAGTAGT
Statistics
Matches: 166, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 165 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (27 bp):
GGGTATTATGGTAATTTTATAAATTGA
Found at i:23138656 original size:54 final size:53
Alignment explanation
Indices: 23138598--23138837 Score: 243
Period size: 54 Copynumber: 4.5 Consensus size: 53
23138588 GAGGGTATTT
* * * * * *
23138598 TGGTAATTTTTTAAACCAAGGGTATTGTAGTAATTTTGTAAATTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAATG-AGTAATTTTGTAAATCGAGGGTAAAA
* *
23138652 TGGTAATTCTATAAATTGAGGGTAAAATGA-TAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGT--AATGAGTAATTTTGTAAATCGAGGGTAAAA
*
23138706 TGGTAATTCTATAAATCGAGGGTAA-AACGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAATGA--GTAATTTTGTAAATCGAGGGTAAAA
* * * *
23138760 CGGTAATTCTATAAATCGAGGGTAAAAT-AGTAGTTCTGTAAATCAAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGT--AATGAGTAATTTTGTAAATCGAGGGTAAAA
*** *
23138814 CAATAATTCTATAAATCGATGGTA
1 TGGTAATTCTATAAATCGAGGGTA
23138838 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
51 1 0.01
52 3 0.02
54 149 0.93
55 1 0.01
56 6 0.04
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (53 bp):
TGGTAATTCTATAAATCGAGGGTAATGAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:23138670 original size:81 final size:81
Alignment explanation
Indices: 23138601--23138829 Score: 242
Period size: 81 Copynumber: 2.8 Consensus size: 81
23138591 GGTATTTTGG
* *** * * * *
23138601 TAATTTTTTAAACCAAGGGTATTGTAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAA
23138666 ATTGAGGGTAAAATGA
66 ATTGAGGGTAAAATGA
* * * * *
23138682 TAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAA
1 TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAA
* * *
23138747 ATCGAGGGTAAAACGG
66 ATTGAGGGTAAAATGA
* * * * * * **
23138763 TAATTCTATAAATCGAGGGTAAAATAGTAGTTCTGTAAATCAAGGGTAAAACAATAATTCTATAA
1 TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAA
23138828 AT
66 AT
23138830 CGATGGTACT
Statistics
Matches: 123, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 123 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAA
ATTGAGGGTAAAATGA
Found at i:23138784 original size:27 final size:27
Alignment explanation
Indices: 23138627--23138837 Score: 260
Period size: 27 Copynumber: 7.8 Consensus size: 27
23138617 GGGTATTGTA
* * *
23138627 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
23138654 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
23138681 ATAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
23138708 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
23138735 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
23138762 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * **
23138789 GTAGTTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
23138816 ATAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
23138838 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:23138846 original size:81 final size:81
Alignment explanation
Indices: 23138655--23138862 Score: 254
Period size: 81 Copynumber: 2.6 Consensus size: 81
23138645 GGTAAAATGG
* * *
23138655 TAATTCTATAAATTGAGGGTAAAATGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAA
* **
23138720 ATCGAGGGTAAAACGG
66 ATCAAGGGTAAAACAA
* * * * * *
23138736 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAGTTCTGTAA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAA
23138801 ATCAAGGGTAAAACAA
66 ATCAAGGGTAAAACAA
* *** * *
23138817 TAATTCTATAAATCGATGGTACTTTGGTAATTTTACAAGTCGAGGG
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGG
23138863 CATTTCTGTA
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAA
ATCAAGGGTAAAACAA
Found at i:23140329 original size:13 final size:14
Alignment explanation
Indices: 23140311--23140339 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23140301 TGAAAAAAGA
23140311 AAAAAAATAA-AAT
1 AAAAAAATAACAAT
23140324 AAAAAAATAACAAT
1 AAAAAAATAACAAT
23140338 AA
1 AA
23140340 TTTTCTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAAATAACAAT
Found at i:23141232 original size:30 final size:31
Alignment explanation
Indices: 23141156--23141238 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
23141146 TCAGTCTCGA
23141156 CATAT-ACTCGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
*
23141186 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
23141217 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTCGGCCGAAGCCTTT
23141239 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTCGGCCGAAGCCTTTTCATAAAT
Found at i:23141487 original size:25 final size:24
Alignment explanation
Indices: 23141446--23141507 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
23141436 CTGGAGGCCT
* *
23141446 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAGTAAACTAGGGCAA
*
23141470 AGCCCTTTTCAGTAAACTAGGGCAT
1 AGCCCTTTT-AGTAAACTAGGGCAA
23141495 AGCCCTTTTAGTA
1 AGCCCTTTTAGTA
23141508 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.15
24 10 0.30
25 18 0.55
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAGTAAACTAGGGCAA
Found at i:23141998 original size:16 final size:15
Alignment explanation
Indices: 23141977--23142008 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
23141967 CACAAATGCC
23141977 GGCTTTTCGGCGTTTT
1 GGCTTTTCGGC-TTTT
23141993 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
23142008 G
1 G
23142009 CCGATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:23144307 original size:220 final size:220
Alignment explanation
Indices: 23143859--23144397 Score: 816
Period size: 220 Copynumber: 2.5 Consensus size: 220
23143849 CAAGCTAAAG
* * * * * *
23143859 CATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGC-AGATCCAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
* *
23143923 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCGTATTCGACGGAGAGCAGATCAAA
66 ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
* *
23143988 GACATAGCAGATCTAACCTTCGGATGTTTTCATACCGAAGTAGATCCAAGATGATTTGGCATCCT
131 GACATAGCAGATCTAACCTTCGGATGTTTTCATA-CAAAGCAGATCCAAGATGATTTGGCATCCT
*
23144053 TGCGTTTACAAGGAGCAGATAGAAGA
195 TGCGCTTACAAGGAGCAGATAGAAGA
*
23144079 CATAGCAGATTTGGCTTTCACGTGTTTACAATGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
* *
23144144 ATTATCAGAGAGTAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
66 ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
*
23144209 GACATAGCAGATCTAACCTTCGGATGTTTTGCAT-CAAAGCAGATCCAAGATGATTTGGCATCTT
131 GACATAGCAGATCTAACCTTCGGATGTTTT-CATACAAAGCAGATCCAAGATGATTTGGCATCCT
*
23144273 TGCGCTTACAAGGAGCAGATCGAAGA
195 TGCGCTTACAAGGAGCAGATAGAAGA
* * * *
23144299 CGTAGCAGATTTGGCTTTCACGTGTTTACACT-AA-AATAGATCTAAGATGATTTGACATCTCTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCA-AGATCTAAGATGATTTGGCATCTCTG
* *
23144362 TATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGG
65 TATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGG
23144398 TGTCTCTGAA
Statistics
Matches: 290, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
218 1 0.00
219 47 0.16
220 122 0.42
221 117 0.40
222 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
GACATAGCAGATCTAACCTTCGGATGTTTTCATACAAAGCAGATCCAAGATGATTTGGCATCCTT
GCGCTTACAAGGAGCAGATAGAAGA
Found at i:23144672 original size:16 final size:16
Alignment explanation
Indices: 23144651--23144683 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23144641 CGGGCCCATG
23144651 AATAAATAAAAAAATA
1 AATAAATAAAAAAATA
*
23144667 AATAAATAATAAAATA
1 AATAAATAAAAAAATA
23144683 A
1 A
23144684 CAGTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAATAAAAAAATA
Found at i:23145666 original size:22 final size:23
Alignment explanation
Indices: 23145627--23145671 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
23145617 GATCCTCCTG
*
23145627 CATTTTAGTTTTTTTTTTAAATT
1 CATTTTAGTTTTTATTTTAAATT
*
23145650 CATTTTA-TTTTTATTTTGAATT
1 CATTTTAGTTTTTATTTTAAATT
23145672 GGCCCTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (23 bp):
CATTTTAGTTTTTATTTTAAATT
Found at i:23145981 original size:12 final size:12
Alignment explanation
Indices: 23145939--23145983 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
23145929 TAAAATAGTA
23145939 TATATTATT-TT
1 TATATTATTATT
23145950 TATA-TATTATT
1 TATATTATTATT
*
23145961 CAT-TATATTATT
1 TATAT-TATTATT
23145973 TATATTATTAT
1 TATATTATTAT
23145984 ACATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 15 0.54
13 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTATTATT
Found at i:23146219 original size:12 final size:12
Alignment explanation
Indices: 23146204--23146235 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
23146194 TTACATATCA
23146204 TATATTATTCCC
1 TATATTATTCCC
23146216 TATATTATTCCC
1 TATATTATTCCC
23146228 TATATTAT
1 TATATTAT
23146236 CTTTCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATTATTCCC
Found at i:23150505 original size:42 final size:44
Alignment explanation
Indices: 23150412--23150507 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 44
23150402 CATTTCAAAC
* **
23150412 GTGGTCTTACATGTAATCAAATATAGATTTCACTATCCCAGATA
1 GTGGTCTTACATGAAATCAAATATAGATGCCACTATCCCAGATA
*
23150456 G-GGTCTTACATGAAATCAAATA-CGATGCCAAC-ATCCCAGAT-
1 GTGGTCTTACATGAAATCAAATATAGATGCC-ACTATCCCAGATA
23150497 GTGGTCTTACA
1 GTGGTCTTACA
23150508 CAAAATCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 22 0.48
43 22 0.48
44 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
GTGGTCTTACATGAAATCAAATATAGATGCCACTATCCCAGATA
Found at i:23151066 original size:27 final size:29
Alignment explanation
Indices: 23151007--23151066 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
23150997 TTTCATTTAT
* * * *
23151007 TTCACATTTTAGTCCCTCAATTTCTCAAT
1 TTCACAATTTAGTCCCTAAATTACTCAAA
23151036 TTCACAATTTAG-CCC-AAATTACTCAAA
1 TTCACAATTTAGTCCCTAAATTACTCAAA
23151063 TTCA
1 TTCA
23151067 TCAAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.48
28 3 0.11
29 11 0.41
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (29 bp):
TTCACAATTTAGTCCCTAAATTACTCAAA
Found at i:23153476 original size:14 final size:15
Alignment explanation
Indices: 23153453--23153493 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23153443 TTAATACTAC
23153453 GTTATGTATATATAT
1 GTTATGTATATATAT
*
23153468 -TTATATATAT-TAT
1 GTTATGTATATATAT
23153481 GTTATGTATATAT
1 GTTATGTATATAT
23153494 TTTGAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
GTTATGTATATATAT
Found at i:23169153 original size:70 final size:71
Alignment explanation
Indices: 23168956--23169233 Score: 308
Period size: 70 Copynumber: 3.9 Consensus size: 71
23168946 TTTGGGTACT
* ** * *
23168956 CTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGCTGAGTCAAGCCTCA
1 CTGAGGTATTTTTAATTTATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
*
23169021 GGTCACG
65 GGACACG
* * *
23169028 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
*
23169093 CAAGACACG
63 CAGGACACG
* * * * *
23169102 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
*
23169166 GGCACG
66 GACACG
* ** * *
23169172 CTGAGGTATTTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
23169234 TTTAATTTCT
Statistics
Matches: 172, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
70 60 0.35
71 36 0.21
72 17 0.10
74 53 0.31
75 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
GACACG
Found at i:23169397 original size:88 final size:88
Alignment explanation
Indices: 23169252--23169491 Score: 256
Period size: 88 Copynumber: 2.7 Consensus size: 88
23169242 CTGTTTTTCA
* * *
23169252 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGT-C-GAGGTATTTTCAATT
*
23169316 TCTATTTTCCAA-ATTT-CGTTCGT
64 TCTATTTTCCAATATTTACGTTCCT
* *
23169339 CAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCACACGTCGAGGTATTTTCAAAT
1 -AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG-CACACGTCGAGGTATTTTCAATT
* ** * *
23169404 TCTGTTTTTTAATTTTTACTTTCCT
64 TCTATTTTCCAATATTTACGTTCCT
* * ** *
23169429 AAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGGG-GCACG-CTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGTC-GAGGTATTTTCAATTT
23169492 TTGTGTTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
86 1 0.01
87 19 0.15
88 57 0.44
89 41 0.32
90 11 0.09
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGTCGAGGTATTTTCAATTTC
TATTTTCCAATATTTACGTTCCT
Found at i:23169464 original size:89 final size:87
Alignment explanation
Indices: 23169340--23169510 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 87
23169330 TTCGTTCGTC
* ** *
23169340 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCACACGTCGAGGTATTTTCAAATT
1 AAAACCAACTCATATTGCAAGAGATGAGTCAAGCCTCGGGGCACAC-T-GAGGTATTTTCAAATT
* *
23169405 CTGTTTTTTAATTTTTACTTTCCT
64 CTGTGTTTTAATTTATACTTTCCT
* * * * *
23169429 AAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAACCAACTCATATTGCAAGAGATGAGTCAAGCCTCGGGGCACACTGAGGTATTTTCAAATTCT
23169494 GTGTTTTAATTTATACT
66 GTGTTTTAATTTATACT
23169511 CATATGGCGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 31 0.44
88 1 0.01
89 39 0.55
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAACCAACTCATATTGCAAGAGATGAGTCAAGCCTCGGGGCACACTGAGGTATTTTCAAATTCT
GTGTTTTAATTTATACTTTCCT
Found at i:23169614 original size:75 final size:74
Alignment explanation
Indices: 23169429--23169614 Score: 196
Period size: 72 Copynumber: 2.5 Consensus size: 74
23169419 TTACTTTCCT
* ** * * * *
23169429 AAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
***
23169494 GTGTTTTAA
66 GTGTCAAAA
*** * *
23169503 TTTAT--ACTCATATGGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
23169566 GTTGTCAAAA
66 G-TGTCAAAA
* *
23169576 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
23169615 TTCACATGCT
Statistics
Matches: 87, Mismatches: 22, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
72 51 0.59
73 7 0.08
74 1 0.01
75 28 0.32
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTGTCAAAA
Found at i:23171893 original size:14 final size:15
Alignment explanation
Indices: 23171870--23171910 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23171860 TTAATACTAC
23171870 GTTATGTATATATAT
1 GTTATGTATATATAT
*
23171885 -TTATATATAT-TAT
1 GTTATGTATATATAT
23171898 GTTATGTATATAT
1 GTTATGTATATAT
23171911 TTTGAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
GTTATGTATATATAT
Found at i:23172293 original size:35 final size:31
Alignment explanation
Indices: 23172228--23172321 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 31
23172218 CTAGATTTTA
* *
23172228 TATTCTTATATGTATATTATTACATTTATTT
1 TATTCTTATATATATATTATTACATGTATTT
23172259 TATTCTTATCATATATATTATCAATACATGTATTT
1 TATTCTTAT-ATATATATTAT---TACATGTATTT
*
23172294 TATTATATGTATATATATATTATGTACA
1 TA-T-TCT-TATATATATATTAT-TACA
23172322 CATATTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 9 0.17
32 10 0.19
35 16 0.31
36 1 0.02
37 13 0.25
38 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATGTATTT
Found at i:23177223 original size:42 final size:42
Alignment explanation
Indices: 23177107--23177297 Score: 136
Period size: 43 Copynumber: 4.5 Consensus size: 42
23177097 ATGCCAATGC
* * * *
23177107 CATATCCCAGATATGGTCTTACATG-GGATCACATATCGACGT
1 CATATCCCAGATATGGTCTTACACGAAG-TCTCATATCGATGT
* *
23177149 CAATAGCCCAGCTATGGTCTTACAC-AATGTCTCATATCGATGT
1 C-ATATCCCAGATATGGTCTTACACGAA-GTCTCATATCGATGT
* * * * *
23177192 CATATCCCAAATATGGTCTTATACGAAGTCTCATTTTCGAAGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCA-TATCGATGT
* * ** * * **
23177235 CATGTCCTAGACGTGGTCTTACACGAAATCGCATGCCGAT-T
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
*
23177276 CCATATCCCAAATATGGTCTTA
1 -CATATCCCAGATATGGTCTTA
23177298 TACGGAATCT
Statistics
Matches: 113, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 46 0.41
43 66 0.58
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
Found at i:23178956 original size:27 final size:27
Alignment explanation
Indices: 23178918--23178971 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23178908 ACTCAGGTAA
23178918 ATGGTGTTACACTCACTAAGTTCTCCC
1 ATGGTGTTACACTCACTAAGTTCTCCC
23178945 ATGGTGTTACACTCACTAAGTTCTCCC
1 ATGGTGTTACACTCACTAAGTTCTCCC
23178972 GAACTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (27 bp):
ATGGTGTTACACTCACTAAGTTCTCCC
Found at i:23190315 original size:54 final size:54
Alignment explanation
Indices: 23190248--23190351 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
23190238 TTAGTGTATT
** * * *
23190248 AAGTCAGTGAGTTACATGACCTAGCACACGGCCTGTGACACGGCTGTGTGTCGC
1 AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTGTCGC
* ** *
23190302 AAGTCAGAAAGTTATACGGTCTAGCACACGGCTTGCGACACGGCCGTGTG
1 AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTG
23190352 ACCCAACTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (54 bp):
AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTGTCGC
Found at i:23190369 original size:54 final size:54
Alignment explanation
Indices: 23190268--23190374 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
23190258 GTTACATGAC
* * * * * *
23190268 CTAGCACACGGCCTGTGACACGGCTGTGTGTCGCAAGTCAGAAAGTTATACGGT
1 CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGGT
* **
23190322 CTAGCACACGGCTTGCGACACGGCCGTGTGACCCAACTCAGTGAGTTACACGG
1 CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGG
23190375 GTGAAGACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.20
Consensus pattern (54 bp):
CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGGT
Found at i:23194942 original size:15 final size:15
Alignment explanation
Indices: 23194924--23194953 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23194914 AAATTTTAAT
23194924 TTTTTATAATTTATA
1 TTTTTATAATTTATA
23194939 TTTTTATAATTTATA
1 TTTTTATAATTTATA
23194954 AAAGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:23202423 original size:40 final size:40
Alignment explanation
Indices: 23202273--23202483 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
23202263 CATTTGAATG
* * *
23202273 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
23202313 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
23202353 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
23202392 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
23202432 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
23202472 ATATCC-GGCTAA
1 ATATCCGGGCTAA
23202484 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.25
40 115 0.75
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:23202491 original size:79 final size:80
Alignment explanation
Indices: 23202277--23202492 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 80
23202267 TGAATGATAT
* * * * *
23202277 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAATCCCGAAGGCATTTA
* * * *
23202342 TGCTAGTGATTTTAT
66 TGCGAGTGACTATAC
* * *
23202357 CCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGA-CCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA-ATCCCGAAGGCATTT
*
23202420 GTGCGAGTTG-CTATAC
65 ATGCGAG-TGACTATAC
* * * *
23202436 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAAATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAATCCCGAAG
23202493 AAACTTGGGT
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
78 1 0.01
79 74 0.66
80 37 0.33
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAATCCCGAAGGCATTTA
TGCGAGTGACTATAC
Found at i:23210414 original size:40 final size:41
Alignment explanation
Indices: 23210355--23210506 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 41
23210345 CATTTGAATG
* * * *
23210355 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
23210395 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
23210435 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
23210475 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
23210507 TTGTGGTTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
40 98 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:23210518 original size:80 final size:80
Alignment explanation
Indices: 23210355--23210526 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
23210345 CATTTGAATG
* * * * * *
23210355 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
23210420 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
23210435 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
23210499 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
23210515 ATATCC-GGCTAA
1 ATATCCGGGCTAA
23210527 ATTCCGAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:23221078 original size:55 final size:55
Alignment explanation
Indices: 23220994--23221103 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
23220984 TTAAGGAGAA
23220994 GGATCTCTTCAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
1 GGATCTCTTCAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
* *
23221049 GGATCTCTTTAAGGGAGGAAGTACTTGTTATGGAAGGAATGTTTTCTATTGATTC
1 GGATCTCTTCAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
23221104 TGTTAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (55 bp):
GGATCTCTTCAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
Found at i:23226377 original size:38 final size:38
Alignment explanation
Indices: 23226322--23226416 Score: 88
Period size: 38 Copynumber: 2.4 Consensus size: 38
23226312 TAATTTTATC
*
23226322 ATATATTAAAAATTTAT-ATAAA-CTGATAAAATTCATAA
1 ATATATTAAAAATTTATAATAAATCT--TAAAATTAATAA
*
23226360 ATAT-TTATAAATATTATAATAAATCTTAAAATTAATAAAA
1 ATATATTAAAAAT-TTATAATAAATCTTAAAATTAAT--AA
*
23226400 ACATATTAAAATATTTA
1 ATATATTAAAA-ATTTA
23226417 AAACATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
37 7 0.15
38 17 0.37
39 5 0.11
40 7 0.15
41 8 0.17
42 2 0.04
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (38 bp):
ATATATTAAAAATTTATAATAAATCTTAAAATTAATAA
Found at i:23227385 original size:30 final size:33
Alignment explanation
Indices: 23227346--23227415 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
23227336 AACAAATTAT
* *
23227346 ATTTTTTTTTATAATTTTTATAAGTTTATA-CA
1 ATTTTTTTATATAATTTTTATAAGTATATATCA
23227378 ATTTTTTTATATAATTTTTATAAGTATATATCA
1 ATTTTTTTATATAATTTTTATAAGTATATATCA
23227411 ATTTT
1 ATTTT
23227416 AATAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 28 0.80
33 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (33 bp):
ATTTTTTTATATAATTTTTATAAGTATATATCA
Found at i:23227416 original size:30 final size:30
Alignment explanation
Indices: 23227349--23227424 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
23227339 AAATTATATT
* *
23227349 TTTTTTTATAATTTTTATAAGTTTATACAA
1 TTTTTATATAATTTTTATAAGTATATACAA
23227379 TTTTTTTATATAATTTTTATAAGTATATATCAA
1 --TTTTTATATAATTTTTATAAGTATATA-CAA
23227412 -TTTTA-ATAATTTT
1 TTTTTATATAATTTT
23227425 ATGAGAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 8 0.20
30 5 0.12
32 25 0.61
33 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTTTATATAATTTTTATAAGTATATACAA
Found at i:23227425 original size:9 final size:10
Alignment explanation
Indices: 23227350--23227426 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 10
23227340 AATTATATTT
*
23227350 TTTTTTATAA
1 TTTTATATAA
23227360 TTTT-TATAA
1 TTTTATATAA
* *
23227369 GTTTATACAA
1 TTTTATATAA
23227379 TTTTTTTATATAA
1 ---TTTTATATAA
23227392 TTTT-TATAA
1 TTTTATATAA
* *
23227401 GTATATATCAA
1 TTTTATAT-AA
23227412 TTTTA-ATAA
1 TTTTATATAA
23227421 TTTTAT
1 TTTTAT
23227427 GAGAAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
9 22 0.42
10 17 0.33
11 5 0.10
13 8 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (10 bp):
TTTTATATAA
Found at i:23227436 original size:28 final size:28
Alignment explanation
Indices: 23227382--23227444 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
23227372 TATACAATTT
* *
23227382 TTTTATATAATTTTTATAAGTATATATCAA
1 TTTTA-ATAATTTTTATAAGAAAATAT-AA
*
23227412 TTTTAATAA-TTTTATGAGAAAATATAA
1 TTTTAATAATTTTTATAAGAAAATATAA
*
23227439 TATTAA
1 TTTTAA
23227445 ACCAGGATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.24
28 13 0.45
29 4 0.14
30 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTTAATAATTTTTATAAGAAAATATAA
Found at i:23228909 original size:29 final size:27
Alignment explanation
Indices: 23228874--23228953 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 27
23228864 TTATTGTAAT
23228874 TTTTATGAATTTTATATTTTTTATAAAAG
1 TTTTATGAATTTTATATTTTTTAT--AAG
* *
23228903 TTTTATGATTTTTTTATAATTTTTATAAG
1 TTTTATGA--ATTTTATATTTTTTATAAG
*
23228932 TTTATATCAATTTTAATATTTT
1 TTT-TATGAATTTT-ATATTTT
23228954 AATAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 4 0.10
29 20 0.48
30 4 0.10
31 14 0.33
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTATGAATTTTATATTTTTTATAAG
Found at i:23228925 original size:8 final size:9
Alignment explanation
Indices: 23228858--23228977 Score: 55
Period size: 9 Copynumber: 12.6 Consensus size: 9
23228848 ATAAAAAAAA
23228858 TATAATTTAT
1 TATAATTT-T
*
23228868 TGTAATTTT
1 TATAATTTT
23228877 TATGAA-TTT
1 TAT-AATTTT
*
23228886 TATATTTTT
1 TATAATTTT
*
23228895 TATAAAAGTTT
1 TAT--AATTTT
*
23228906 TATGATTTTTT
1 TAT-A-ATTTT
23228917 TATAATTTT
1 TATAATTTT
*
23228926 TATAAGTTTA
1 TATAA-TTTT
23228936 TATCAATTTT
1 TAT-AATTTT
*
23228946 AAT-ATTTT
1 TATAATTTT
* *
23228954 AATAAATTT
1 TATAATTTT
* *
23228963 AATGATTTTT
1 TAT-AATTTT
23228973 TATAA
1 TATAA
23228978 GAAAATATAA
Statistics
Matches: 84, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
8 9 0.11
9 32 0.38
10 28 0.33
11 15 0.18
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:23228926 original size:20 final size:18
Alignment explanation
Indices: 23228873--23228953 Score: 63
Period size: 20 Copynumber: 4.1 Consensus size: 18
23228863 TTTATTGTAA
23228873 TTTTTATGAATTTTATATT
1 TTTTTAT-AATTTTATATT
*
23228892 TTTTATAAAAGTTTTATGATT
1 TTTT-TATAA-TTTTAT-ATT
**
23228913 TTTTTATAATTTTTATAAG
1 TTTTTATAA-TTTTATATT
*
23228932 TTTATATCAATTTTAATATT
1 TTTTTAT-AATTTT-ATATT
23228952 TT
1 TT
23228954 AATAAATTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 17 0.35
20 25 0.51
21 7 0.14
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTATAATTTTATATT
Found at i:23228945 original size:31 final size:30
Alignment explanation
Indices: 23228883--23228945 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
23228873 TTTTTATGAA
* *
23228883 TTTTATATTTTTTATAAAAGTTTTATGATTT
1 TTTTATAATTTTTAT-AAAGTTTTATAATTT
23228914 TTTTATAATTTTTAT-AAGTTTATATCAATTT
1 TTTTATAATTTTTATAAAGTTT-TAT-AATTT
23228945 T
1 T
23228946 AATATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 3 0.11
31 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTATAATTTTTATAAAGTTTTATAATTT
Found at i:23228973 original size:28 final size:30
Alignment explanation
Indices: 23228906--23228974 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
23228896 ATAAAAGTTT
* * *
23228906 TATGATTTTTTTATAATTTTTATAAGTTTA
1 TATGATTTTTTAATAATTTTAATAAATTTA
* *
23228936 TATCA-ATTTTAAT-ATTTTAATAAATTTA
1 TATGATTTTTTAATAATTTTAATAAATTTA
23228964 -ATGATTTTTTA
1 TATGATTTTTTA
23228975 TAAGAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
27 3 0.10
28 18 0.58
29 6 0.19
30 4 0.13
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (30 bp):
TATGATTTTTTAATAATTTTAATAAATTTA
Found at i:23229520 original size:18 final size:19
Alignment explanation
Indices: 23229486--23229521 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23229476 TAATAAATTA
*
23229486 TTTAATATTACAATTTTAC
1 TTTAATAATACAATTTTAC
23229505 TTTAATAATA-AATTTTA
1 TTTAATAATACAATTTTA
23229522 ACAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATAATACAATTTTAC
Found at i:23229609 original size:14 final size:14
Alignment explanation
Indices: 23229590--23229616 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23229580 ATTGATATTT
23229590 TAATAATAAATATG
1 TAATAATAAATATG
23229604 TAATAATAAATAT
1 TAATAATAAATAT
23229617 TTTATAGTGT
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:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
TAATAATAAATATG
Found at i:23229788 original size:17 final size:17
Alignment explanation
Indices: 23229757--23229796 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23229747 TATTATTGAT
*
23229757 TATTAAATTTATATATAA
1 TATT-AATTTATATAAAA
*
23229775 TATTAATTTTTATAAAA
1 TATTAATTTATATAAAA
23229792 TATTA
1 TATTA
23229797 TCACATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTAATTTATATAAAA
Found at i:23232974 original size:199 final size:197
Alignment explanation
Indices: 23232609--23233122 Score: 699
Period size: 199 Copynumber: 2.6 Consensus size: 197
23232599 AAAAGAAAAG
** ** *
23232609 AAACTATTTTAACTTCCAAGTATTTCAAGTTTC-AAACCGAGGAATGATGTTCCATATACCAATA
1 AAACTATTTTAACTTCCAAGTATTT-AAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAA
* *
23232673 TGGAGGTGCTACTATAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTT
* *
23232738 CAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCTGTTGAAGCT
130 CAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGCT
23232803 AGT
195 AGT
*
23232806 AAACTATTTTAACTTCCAAGTATTTAAAAATTCAAAACCGAGGTATGATGTTCCATATGTCAAAA
1 AAACTATTTTAACTTCCAAGTATTT-AAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAA
* * * *
23232871 TAGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGTAAACTATTTTTAACTTTAAGTATTTCAAGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA-TTTTAACTTCAAGTATTTCAAGT
** *
23232936 TCAAAACCGAGGACTGATGTTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGCAGC
129 TCAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGC
*
23233001 TCGT
194 TAGT
* * * * * *
23233005 AAACAATTTTAACTTCTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGT-AAAT
1 AAACTATTTTAACTTC-CAAGTATTTAAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAA-
* * * * * *
23233069 ATGGAGCAGATACTGTAAATTTCAGTTGAAGCTAACAAAGTATTTCAAGTTCAA
64 ATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAA
23233123 AACTGAGGAC
Statistics
Matches: 277, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
197 30 0.11
198 75 0.27
199 163 0.59
200 9 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (197 bp):
AAACTATTTTAACTTCCAAGTATTTAAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAAT
GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTTC
AAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGCTA
GT
Found at i:23232992 original size:99 final size:99
Alignment explanation
Indices: 23232609--23233102 Score: 688
Period size: 100 Copynumber: 5.0 Consensus size: 99
23232599 AAAAGAAAAG
**
23232609 AAACTATTTTAACTTCCAAGTATTTCAAGTTTC-AAACCGAGGAATGATGTTCCATATACCAATA
1 AAACTATTTTAACTTCCAAGTATTTCAAG-TTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* * *
23232673 TGGAGGTGCTACTATAAATTTCAGTTGAAGCTAGC
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* **
23232708 AAACTATTTTAACTT-CAAGTATTTCAAGTTCAAAACCGAGGACTGATACTCCATATGTCAATAT
1 AAACTATTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
*
23232772 GGAGCTGCTACTGTAAATTTCTGTTGAAGCTAGT
66 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * *
23232806 AAACTATTTTAACTTCCAAGTATTTAAAAATTCAAAACCGAGGTATGATGTTCCATATGTCAAAA
1 AAACTATTTTAACTTCCAAGTATTT-CAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* *
23232871 TAGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* *
23232906 AAACTATTTTTAACTT-TAAGTATTTCAAGTTCAAAACCGAGGACTGATGTTCCATATGTCAATA
1 AAACTA-TTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* * *
23232970 TGGAGCAGCTACTGTAAATTTCAGTTGCAGCTCGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * * *
23233005 AAACAATTTTAACTTCTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGTAAATA
1 AAACTATTTTAACTTC-CAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* *
23233070 TGGAGCAGATACTGTAAATTTCAGTTGAAGCTA
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTA
23233103 ACAAAGTATT
Statistics
Matches: 349, Mismatches: 40, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
97 3 0.01
98 94 0.27
99 93 0.27
100 150 0.43
101 9 0.03
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (99 bp):
AAACTATTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
Found at i:23233148 original size:29 final size:29
Alignment explanation
Indices: 23233115--23233176 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
23233105 AAAGTATTTC
** *
23233115 AAGTTCAAAACTGAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
23233144 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
23233173 AAGT
1 AAGT
23233177 CAATATGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:23235188 original size:23 final size:23
Alignment explanation
Indices: 23235162--23235208 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23235152 GATAGTATTT
23235162 TAATTAACTCCTTAAATAATATA
1 TAATTAACTCCTTAAATAATATA
*
23235185 TAATTTACTCCTTAAATAATATA
1 TAATTAACTCCTTAAATAATATA
23235208 T
1 T
23235209 CAAACTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTAACTCCTTAAATAATATA
Found at i:23240521 original size:33 final size:33
Alignment explanation
Indices: 23240484--23240552 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
23240474 TTCAAGTAGG
23240484 AGGGGAACAGGAGTTGTCGAAGGTTCTGATAGA
1 AGGGGAACAGGAGTTGTCGAAGGTTCTGATAGA
23240517 AGGGGAACAGGAGTTGTCGAAGGTTCTGATAGA
1 AGGGGAACAGGAGTTGTCGAAGGTTCTGATAGA
23240550 AGG
1 AGG
23240553 TGACTCCCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.09, G:0.41, T:0.20
Consensus pattern (33 bp):
AGGGGAACAGGAGTTGTCGAAGGTTCTGATAGA
Found at i:23244644 original size:26 final size:26
Alignment explanation
Indices: 23244611--23244670 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
23244601 GGTCATATAG
23244611 AAAATAAAATATTT-TTA-TTTTAATA
1 AAAATAAAATATTTATTATTTTTAA-A
23244636 AAAAGT-AAATATTTATTATTTTTAAA
1 AAAA-TAAAATATTTATTATTTTTAAA
23244662 AAAATAAAA
1 AAAATAAAA
23244671 AAAAAGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 13 0.42
26 12 0.39
27 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATAAAATATTTATTATTTTTAAA
Found at i:23249760 original size:40 final size:40
Alignment explanation
Indices: 23249616--23249763 Score: 122
Period size: 40 Copynumber: 3.7 Consensus size: 40
23249606 CAACTTATAA
* * * *
23249616 TAATTCACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATC
1 TAATTCACCAGCACAAAGCCTGCTAGGCATAAGCCTG-ATT
* * * * *
23249657 TCA--CACCAGCACAAGGCCTGCTAGACTTTAAGTCTGATT
1 TAATTCACCAGCACAAAGCCTGCTAGGC-ATAAGCCTGATT
* * *
23249696 TTATACACCGGCA-ATAAGCCTGCTAGGCATAAGCCTGATT
1 TAATTCACCAGCACA-AAGCCTGCTAGGCATAAGCCTGATT
* *
23249736 TAATTCACCAGCACAAGGCTTGCTAGGC
1 TAATTCACCAGCACAAAGCCTGCTAGGC
23249764 TCAAATCCCG
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
39 23 0.28
40 39 0.47
41 21 0.25
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TAATTCACCAGCACAAAGCCTGCTAGGCATAAGCCTGATT
Found at i:23252891 original size:10 final size:11
Alignment explanation
Indices: 23252871--23252927 Score: 59
Period size: 10 Copynumber: 5.5 Consensus size: 11
23252861 TTAGGACTTA
23252871 TTTTCATTTATC
1 TTTT-ATTTATC
23252883 TTTTA-TTATC
1 TTTTATTTATC
*
23252893 -TTTAATTATC
1 TTTTATTTATC
23252903 -TTTATTTAT-
1 TTTTATTTATC
*
23252912 TTGTATTTATC
1 TTTTATTTATC
23252923 TTTTA
1 TTTTA
23252928 GAATTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.10
10 26 0.67
11 5 0.13
12 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATTTATC
Found at i:23255109 original size:5 final size:5
Alignment explanation
Indices: 23255094--23255174 Score: 69
Period size: 5 Copynumber: 15.6 Consensus size: 5
23255084 TTTATTATTC
*
23255094 TTTATT TTTAT TTTAT TTTA- -TTAT TTTAT TTTATT ATTTATT TATTAC
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T -TTTA-T T-TTAT
*
23255142 TTTAT TTTAT TTTAT TATT-T ATTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTT
23255175 GTTTGGGTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.05
4 2 0.03
5 41 0.64
6 9 0.14
7 9 0.14
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:23255117 original size:13 final size:13
Alignment explanation
Indices: 23255083--23255174 Score: 106
Period size: 13 Copynumber: 7.3 Consensus size: 13
23255073 ACAACCCAAT
23255083 TTTTATTATTCTT-
1 TTTTATTATT-TTA
23255096 TATTT-TTATTTTA
1 T-TTTATTATTTTA
23255109 TTTTATTATTTTA
1 TTTTATTATTTTA
23255122 TTTTATTA-TTTA
1 TTTTATTATTTTA
*
23255134 -TTTATTACTTTA
1 TTTTATTATTTTA
23255146 TTTTATT-TTATTA
1 TTTTATTATT-TTA
23255159 -TTTATTATTTTA
1 TTTTATTATTTTA
23255171 TTTT
1 TTTT
23255175 GTTTGGGTGA
Statistics
Matches: 70, Mismatches: 1, Indels: 16
0.80 0.01 0.18
Matches are distributed among these distances:
11 7 0.10
12 23 0.33
13 37 0.53
14 3 0.04
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:23255127 original size:29 final size:29
Alignment explanation
Indices: 23255094--23255172 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
23255084 TTTATTATTC
23255094 TTTATT-TTTATTTTATTTTATTATTTTAT
1 TTTATTATTTA-TTTATTTTATTATTTTAT
*
23255123 TTTATTATTTATTTATTACT-TTATTTTAT
1 TTTATTATTTATTTATT-TTATTATTTTAT
23255152 TTTATTATTTA-TTATTTTATT
1 TTTATTATTTATTTATTTTATT
23255173 TTGTTTGGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.02
28 7 0.16
29 32 0.71
30 5 0.11
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTATTATTTATTTATTTTATTATTTTAT
Found at i:23256204 original size:12 final size:12
Alignment explanation
Indices: 23256184--23256225 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
23256174 ATTTCTAAGC
23256184 AAAAATTAA-TA
1 AAAAATTAATTA
*
23256195 AATTAATTAATTA
1 AA-AAATTAATTA
23256208 AAAAATTAATTA
1 AAAAATTAATTA
23256220 AAAAAT
1 AAAAAT
23256226 AAAAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 21 0.78
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATTAATTA
Found at i:23256889 original size:10 final size:11
Alignment explanation
Indices: 23256864--23256925 Score: 62
Period size: 10 Copynumber: 6.1 Consensus size: 11
23256854 TAATTTTAGG
*
23256864 ATTTAT-TTTC
1 ATTTATCTTTT
23256874 ATTTATCTTTT
1 ATTTATCTTTT
23256885 A-TTATC-TTT
1 ATTTATCTTTT
*
23256894 AATTATC-TTT
1 ATTTATCTTTT
*
23256904 ATTTAT-TTGT
1 ATTTATCTTTT
23256914 ATTTATCTTTT
1 ATTTATCTTTT
23256925 A
1 A
23256926 GAATTTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.09
10 32 0.73
11 8 0.18
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (11 bp):
ATTTATCTTTT
Found at i:23259884 original size:16 final size:15
Alignment explanation
Indices: 23259858--23259887 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23259848 AATGGAAGTG
23259858 CTTTCCTTCTCAATA
1 CTTTCCTTCTCAATA
23259873 CTTTCACTTCTCAAT
1 CTTTC-CTTCTCAAT
23259888 CTAAAATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTTCCTTCTCAATA
Found at i:23268963 original size:20 final size:21
Alignment explanation
Indices: 23268938--23268982 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23268928 TTACTTAAGA
23268938 AAACTTGT-ATAA-CTATCATC
1 AAACTT-TCATAATCTATCATC
*
23268958 AAACTTTCATAATCTATCATT
1 AAACTTTCATAATCTATCATC
23268979 AAAC
1 AAAC
23268983 ATCAAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
AAACTTTCATAATCTATCATC
Found at i:23270163 original size:20 final size:20
Alignment explanation
Indices: 23270127--23270218 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
23270117 GAGGCAATGC
**
23270127 ACACGCCCGTGACCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
* *
23270147 ACAAGCCCATGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
23270167 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
23270187 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
23270207 ACACACCCGTGT
1 ACACGCCCGTGT
23270219 CCCTTACCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:23272747 original size:17 final size:16
Alignment explanation
Indices: 23272706--23272747 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23272696 AAACTTCTAA
*
23272706 AATTTTTCATGCTTGC
1 AATTTTTCATGCATGC
23272722 ACA-TTTTCATGCATGC
1 A-ATTTTTCATGCATGC
23272738 AATTTATTCA
1 AATTT-TTCA
23272748 ATTTGGTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTTTTCATGCATGC
Found at i:23284454 original size:13 final size:13
Alignment explanation
Indices: 23284438--23284462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23284428 TTAAATCAGT
23284438 TAATTAGTTTAAA
1 TAATTAGTTTAAA
23284451 TAATTAGTTTAA
1 TAATTAGTTTAA
23284463 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:23293497 original size:31 final size:33
Alignment explanation
Indices: 23293459--23293531 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 33
23293449 TCTTCTATTT
23293459 TTTTATTTATTCTTATGTTTATTTT-A-TTTTA
1 TTTTATTTATTCTTATGTTTATTTTAATTTTTA
* * *
23293490 TTTTATTTATTTTTATTTTTCTTTTAATTTTTA
1 TTTTATTTATTCTTATGTTTATTTTAATTTTTA
23293523 TTTTCATTT
1 TTTT-ATTT
23293532 CAACTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.61
32 1 0.03
33 9 0.25
34 4 0.11
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (33 bp):
TTTTATTTATTCTTATGTTTATTTTAATTTTTA
Found at i:23293521 original size:7 final size:6
Alignment explanation
Indices: 23293454--23293531 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
23293444 TGAATTCTTC
* * *
23293454 TATTTT T-TTATT TATTCT TATGTT TA-TTT TATTTT ATTTTATT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT -TATT-TT TATTTT
* * *
23293503 TATTTT TCTTTT AATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTT
23293532 CAACTTTATT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
5 6 0.11
6 40 0.71
7 8 0.14
8 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:23293551 original size:5 final size:5
Alignment explanation
Indices: 23293459--23293531 Score: 60
Period size: 5 Copynumber: 13.6 Consensus size: 5
23293449 TCTTCTATTT
23293459 TTTTA -TTTA TTCTTA TGTTTA TTTTA TTTTA TTTTA -TTTA TTTTTA
1 TTTTA TTTTA TT-TTA T-TTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
*
23293505 TTTTTC TTTTAA TTTTTA TTTTCA TTT
1 -TTTTA TTTT-A -TTTTA TTTT-A TTT
23293532 CAACTTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
4 8 0.14
5 23 0.40
6 22 0.38
7 5 0.09
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:23298672 original size:144 final size:143
Alignment explanation
Indices: 23298411--23298696 Score: 405
Period size: 144 Copynumber: 2.0 Consensus size: 143
23298401 GTTACATAGA
* * * *
23298411 CATTTAACCTCTAAATATGTATAAGAAGTTTTCTCTTCATACGACTCGAGAAAAAAAGATCAATT
1 CATTTAACCCCTAAATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAATT
** * *
23298476 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAAATCCATATATTA
66 AAAAGTTATACCTATGTATGAAATTATAATGTATGAAATTAAAATAT-AAAAAATCCATAAATCA
*
23298541 ACAAATCAATTAGG
130 AAAAATCAATTAGG
* *
23298555 CATTTAACCCCTAGAA-ATGTATAAGAAATTTTCTCCTCATACGACTTAAGAAAAAAAGATTAAT
1 CATTTAACCCCTA-AATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAAT
* * *
23298619 TAAAAGTTATACCTATGTATGAAATTATAATGTAT-ATAATTAGAATATCAAAAATTCATAAATC
65 TAAAAGTTATACCTATGTATGAAATTATAATGTATGA-AATTAAAATATAAAAAATCCATAAATC
23298683 AAAAAATCAATTAG
129 AAAAAATCAATTAG
23298697 TCTTTCAAGA
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
143 26 0.21
144 98 0.78
145 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (143 bp):
CATTTAACCCCTAAATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAATT
AAAAGTTATACCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCAA
AAAATCAATTAGG
Found at i:23299157 original size:18 final size:19
Alignment explanation
Indices: 23299116--23299156 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
23299106 AAAAAACTGG
23299116 AAAATATTATTAAAAATTA
1 AAAATATTATTAAAAATTA
23299135 AAAATATT-TTAAAAAATTA
1 AAAATATTATT-AAAAATTA
23299154 AAA
1 AAA
23299157 TTGATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATTATTAAAAATTA
Found at i:23299323 original size:20 final size:21
Alignment explanation
Indices: 23299282--23299335 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
23299272 AAACATATTT
* *
23299282 AAAACAT-TTAAAATTTTATA
1 AAAACATATAAAAATTCTATA
23299302 AAAACATATAAAAATTCT-TA
1 AAAACATATAAAAATTCTATA
*
23299322 AAAACTTATAAAAA
1 AAAACATATAAAAA
23299336 AATCATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATATAAAAATTCTATA
Found at i:23299344 original size:22 final size:20
Alignment explanation
Indices: 23299300--23299346 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
23299290 TAAAATTTTA
*
23299300 TAAAAACATATAAAAATTCT
1 TAAAAACATATAAAAAATCT
*
23299320 TAAAAACTTATAAAAAAATCAT
1 TAAAAACATAT-AAAAAATC-T
23299342 TAAAA
1 TAAAA
23299347 TATAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 7 0.30
22 6 0.26
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAACATATAAAAAATCT
Found at i:23299500 original size:29 final size:28
Alignment explanation
Indices: 23299459--23299530 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
23299449 AAAAAATATA
*
23299459 AAAATCTAATAAATTATTGAAATCATTTAT
1 AAAATCTAATAAAATATTGAAAT--TTTAT
*
23299489 AAAAT-TAATAAAATATTTAAATTTTAT
1 AAAATCTAATAAAATATTGAAATTTTAT
* *
23299516 AAAAACTTATAAAAT
1 AAAATCTAATAAAAT
23299531 TAGTAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.24
28 8 0.22
29 15 0.41
30 5 0.14
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATCTAATAAAATATTGAAATTTTAT
Found at i:23299527 original size:10 final size:9
Alignment explanation
Indices: 23299408--23299603 Score: 113
Period size: 9 Copynumber: 21.0 Consensus size: 9
23299398 TGATATACAC
23299408 TTATAAAAA
1 TTATAAAAA
23299417 TTATAAAAAAA
1 TTAT--AAAAA
*
23299428 TCATAAAAA
1 TTATAAAAA
23299437 TT-TATAAAA
1 TTATA-AAAA
23299446 -TATAAAAA
1 TTATAAAAA
*
23299454 ATATAAAAA
1 TTATAAAAA
*
23299463 TCTA-ATAAA
1 T-TATAAAAA
*
23299472 TTATTGAAATCA
1 TTA-T-AAA-AA
23299484 TT-TATAAAA
1 TTATA-AAAA
23299493 TTAATAAAATA
1 TT-ATAAAA-A
**
23299504 TT-TAAATT
1 TTATAAAAA
23299512 TTATAAAAA
1 TTATAAAAA
23299521 CTTAT-AAAA
1 -TTATAAAAA
23299530 TTAGTAAAAA
1 TTA-TAAAAA
23299540 TTATAAAAA
1 TTATAAAAA
23299549 -TATAAAAAA
1 TTAT-AAAAA
*
23299558 TTCTAATAAA
1 TTATAA-AAA
23299568 TTTATAAAAA
1 -TTATAAAAA
*
23299578 ATATTAAAAA
1 TTA-TAAAAA
23299588 -T-TAAAAA
1 TTATAAAAA
23299595 TTATAAAAA
1 TTATAAAAA
23299604 AGCTATTTAA
Statistics
Matches: 148, Mismatches: 14, Indels: 50
0.70 0.07 0.24
Matches are distributed among these distances:
7 6 0.04
8 18 0.12
9 68 0.46
10 33 0.22
11 20 0.14
12 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:23300041 original size:15 final size:15
Alignment explanation
Indices: 23300021--23300053 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23300011 TCAATTATAT
*
23300021 AAAAAATAAAAAATA
1 AAAAAAGAAAAAATA
23300036 AAAAAAGAAAAAATA
1 AAAAAAGAAAAAATA
23300051 AAA
1 AAA
23300054 TTAAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAAGAAAAAATA
Found at i:23300061 original size:7 final size:7
Alignment explanation
Indices: 23300019--23300053 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
23300009 ATTCAATTAT
23300019 ATAAAAA
1 ATAAAAA
23300026 ATAAAAA
1 ATAAAAA
23300033 ATAAAAAA
1 AT-AAAAA
*
23300041 AGAAAAA
1 ATAAAAA
23300048 ATAAAA
1 ATAAAA
23300054 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (7 bp):
ATAAAAA
Found at i:23300271 original size:51 final size:48
Alignment explanation
Indices: 23300180--23300282 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 48
23300170 CCAATTCAAA
* *
23300180 TTATTATTATTTTTTTATATTTTATAAGTTTATATCAATTTTAATGTT
1 TTATTATTATTTTTTTATATTTTATAAGTTTATAACAATTTTAATATT
* * * *
23300228 TTATTTTTAATTTTTTTATGATTTTTATAAGTTTTTAAGAATTTTTATATT
1 TTATTATT-ATTTTTTTAT-A-TTTTATAAGTTTATAACAATTTTAATATT
23300279 TTAT
1 TTAT
23300283 AAAATTTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 7 0.15
49 10 0.22
50 1 0.02
51 28 0.61
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (48 bp):
TTATTATTATTTTTTTATATTTTATAAGTTTATAACAATTTTAATATT
Found at i:23300280 original size:18 final size:18
Alignment explanation
Indices: 23300230--23300290 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
23300220 TTAATGTTTT
* *
23300230 ATTTTTAATTTTTTTATG-
1 ATTTTT-ATATTTTTAAGA
23300248 ATTTTTATAAGTTTTTAAGA
1 ATTTTTAT-A-TTTTTAAGA
23300268 ATTTTTATATTTTATAA-A
1 ATTTTTATATTTT-TAAGA
23300286 ATTTT
1 ATTTT
23300291 AAATATTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.05
18 16 0.43
19 11 0.30
20 8 0.22
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATATTTTTAAGA
Found at i:23300382 original size:9 final size:9
Alignment explanation
Indices: 23300240--23300466 Score: 118
Period size: 9 Copynumber: 24.8 Consensus size: 9
23300230 ATTTTTAATT
*
23300240 TTTTTATGA
1 TTTTTATAA
23300249 TTTTTATAA
1 TTTTTATAA
*
23300258 GTTTTTAAGAA
1 -TTTTT-ATAA
23300269 TTTTTAT-A
1 TTTTTATAA
23300277 -TTTTATAAA
1 TTTTTAT-AA
*
23300286 ATTTTA-AA
1 TTTTTATAA
*
23300294 TATTTGTATTAG
1 T-TTT-TA-TAA
*
23300306 TTTTATAAAA
1 TTTT-TATAA
23300316 TTTTTCATAA
1 TTTTT-ATAA
23300326 TTTATTATAA
1 TTT-TTATAA
23300336 --TTT-T-A
1 TTTTTATAA
23300341 TTTTTATAA
1 TTTTTATAA
* *
23300350 TATTTACAA
1 TTTTTATAA
*
23300359 TTTTTAATTAT
1 TTTTT-A-TAA
23300370 TTTTTATAA
1 TTTTTATAA
23300379 TTTTTATAA
1 TTTTTATAA
*
23300388 GTTTATATAA
1 -TTTTTATAA
*
23300398 ATTTTAGT-A
1 TTTTTA-TAA
23300407 TTTTTAT--
1 TTTTTATAA
23300414 TTTTTAATAA
1 TTTTT-ATAA
*
23300424 -TTATATAA
1 TTTTTATAA
*
23300432 TAATTTATAA
1 T-TTTTATAA
23300442 TTTTTAT-A
1 TTTTTATAA
23300450 TTTTTAATAA
1 TTTTT-ATAA
23300460 TTTTTAT
1 TTTTTAT
23300467 GAGAAAATAT
Statistics
Matches: 169, Mismatches: 23, Indels: 52
0.69 0.09 0.21
Matches are distributed among these distances:
5 1 0.01
6 1 0.01
7 16 0.09
8 18 0.11
9 59 0.35
10 56 0.33
11 16 0.09
12 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23300431 original size:44 final size:42
Alignment explanation
Indices: 23300366--23300455 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 42
23300356 CAATTTTTAA
*
23300366 TTATTTTTTATAATTTTTATAAGT-TTATATAAATTTTAGTATTT
1 TTATTTTTTATAATTTATATAA-TATT-TATAAATTTTA-TATTT
*
23300410 TTATTTTTTAATAA-TTATATAATAATTTATAATTTTTATATTT
1 TTATTTTTT-ATAATTTATATAAT-ATTTATAAATTTTATATTT
23300453 TTA
1 TTA
23300456 ATAATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
43 9 0.22
44 26 0.63
45 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (42 bp):
TTATTTTTTATAATTTATATAATATTTATAAATTTTATATTT
Found at i:23300454 original size:36 final size:35
Alignment explanation
Indices: 23300370--23300461 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 35
23300360 TTTTAATTAT
*
23300370 TTTTTATAATTTTT-ATAAGTTTATATAAATTTTAGTA
1 TTTTTAT-ATTTTTAATAA--TTATATAAAATTTAGTA
23300407 TTTTTAT-TTTTTAATAATTATATAATAATTTA-TAA
1 TTTTTATATTTTTAATAATTATATAA-AATTTAGT-A
23300442 TTTTTATATTTTTAATAATT
1 TTTTTATATTTTTAATAATT
23300462 TTTATGAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
34 9 0.18
35 18 0.36
36 16 0.32
37 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (35 bp):
TTTTTATATTTTTAATAATTATATAAAATTTAGTA
Found at i:23300786 original size:20 final size:20
Alignment explanation
Indices: 23300763--23300806 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
23300753 TGAAATAATT
* *
23300763 AAAATTCCTTAAAAATATAA
1 AAAATTCATGAAAAATATAA
23300783 AAAATTCATGAAAAATATAA
1 AAAATTCATGAAAAATATAA
23300803 AAAA
1 AAAA
23300807 ATCCCTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATTCATGAAAAATATAA
Found at i:23301037 original size:21 final size:21
Alignment explanation
Indices: 23301013--23301061 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
23301003 TTTAAAATAA
*
23301013 TTATTTTGGTTTTTTATGATT
1 TTATTTTAGTTTTTTATGATT
* *
23301034 TTATTTAAGTTTTTTTTGATT
1 TTATTTTAGTTTTTTATGATT
23301055 TT-TTTTA
1 TTATTTTA
23301062 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (21 bp):
TTATTTTAGTTTTTTATGATT
Found at i:23301062 original size:21 final size:21
Alignment explanation
Indices: 23301021--23301067 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23301011 AATTATTTTG
23301021 GTTTTTTATGATTTTATTTAA
1 GTTTTTTATGATTTTATTTAA
* *
23301042 GTTTTTTTTGATTTTTTTTAA
1 GTTTTTTATGATTTTATTTAA
*
23301063 ATTTT
1 GTTTT
23301068 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (21 bp):
GTTTTTTATGATTTTATTTAA
Found at i:23301535 original size:5 final size:5
Alignment explanation
Indices: 23301525--23301550 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23301515 TGTTTATAAC
23301525 CAGAT CAGAT CAGAT CAGAT CAGAT C
1 CAGAT CAGAT CAGAT CAGAT CAGAT C
23301551 GGGGGGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (5 bp):
CAGAT
Found at i:23316167 original size:21 final size:21
Alignment explanation
Indices: 23316138--23316178 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23316128 TGCTGGACAG
**
23316138 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAAAGTGTTTA
*
23316159 GAGCTGGAATGAAAGTGTTT
1 GAGCCGGAATGAAAGTGTTT
23316179 GGTTGCTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAAAGTGTTTA
Found at i:23319137 original size:13 final size:13
Alignment explanation
Indices: 23319121--23319158 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
23319111 TAAACCAAAT
23319121 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
23319134 TTTTCAACAA-CAC
1 TTTTCAA-AAGCAC
23319147 TTTTCAAAAGCA
1 TTTTCAAAAGCA
23319159 TTGCCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:23334669 original size:80 final size:79
Alignment explanation
Indices: 23334536--23334840 Score: 339
Period size: 80 Copynumber: 3.8 Consensus size: 79
23334526 TTGAATGCTG
* * * * * *
23334536 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGCCCCGAAGGCTTTGTGCGAGA-T-ACTAAATCCGGACTAAGATCCGAAGGCATT
*
23334600 TGTGCGAAATACAAAT
64 TGTGCGAGATACAAAT
23334616 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGG-CTTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTT
23334681 GTGCGAGATACAAAT
65 GTGCGAGATACAAAT
**
23334696 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGTTAAGCCCCGAAGG-CTTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATT
* * *
23334760 CGTGCGAGTTATTAAA-
64 TGTGCGAGATA-CAAAT
* * * * * * * *
23334776 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATG-TCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCTTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTT
23334840 G
65 G
23334841 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
79 39 0.19
80 147 0.74
81 13 0.06
82 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGCCCCGAAGGCTTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACAAAT
Found at i:23334820 original size:39 final size:39
Alignment explanation
Indices: 23334536--23334838 Score: 265
Period size: 40 Copynumber: 7.6 Consensus size: 39
23334526 TTGAATGCTG
* * * * *
23334536 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
** * *
23334576 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAAATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
23334615 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
**
23334656 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
23334695 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
23334736 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
23334776 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
23334815 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23334839 TGAACGAGGA
Statistics
Matches: 220, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
39 44 0.20
40 159 0.72
41 16 0.07
42 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:23334858 original size:79 final size:80
Alignment explanation
Indices: 23334616--23334873 Score: 240
Period size: 80 Copynumber: 3.2 Consensus size: 80
23334606 AAATACAAAT
* * * *
23334616 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAG-TCCCGAAGGCATT
* **
23334680 TGTGCGAGAT-AC-AAA
65 CGAACGAG-TGACTAAA
* * * *
23334695 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
** * *
23334760 CGTGCGAGTTATTAAA
65 CGAACGAGTGACTAAA
* * * * *
23334776 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
23334840 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
23334855 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23334874 TACGTGATTT
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.10
79 50 0.32
80 86 0.56
81 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:23342110 original size:80 final size:80
Alignment explanation
Indices: 23341965--23342269 Score: 352
Period size: 80 Copynumber: 3.8 Consensus size: 80
23341955 TTGAATGCTG
* * * * *
23341965 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGA-T-ACTAAATCCGGACTAAG-TCCCGAAGGCA
23342027 TTTGTGCGAGATACAAAT
63 TTTGTGCGAGATACAAAT
*
23342045 TCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAG-TCCCGAAGGCATT
23342109 TGTGCGAGATACAAAT
65 TGTGCGAGATACAAAT
** *
23342125 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTT
* *
23342190 GTGCGAGTTATTAAA-
66 GTGCGAGATA-CAAAT
* * * * * * * *
23342205 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTT
23342269 G
66 G
23342270 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
79 39 0.19
80 147 0.74
81 13 0.06
82 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTT
GTGCGAGATACAAAT
Found at i:23342249 original size:39 final size:39
Alignment explanation
Indices: 23341965--23342267 Score: 274
Period size: 40 Copynumber: 7.6 Consensus size: 39
23341955 TTGAATGCTG
* * * * *
23341965 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
23342005 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
23342044 TTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
**
23342085 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
23342124 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
23342165 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
23342205 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
23342244 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23342268 TGAACGAGGA
Statistics
Matches: 221, Mismatches: 28, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
39 44 0.20
40 159 0.72
41 17 0.08
42 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:23342287 original size:79 final size:80
Alignment explanation
Indices: 23342048--23342302 Score: 234
Period size: 80 Copynumber: 3.2 Consensus size: 80
23342038 TACAAATTCT
* * * * * *
23342048 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAG-TCCCGAAGGCATTCGA
*
23342112 GCGAGAT-AC-AAATTCC
65 ACGAG-TGACTAAA-TCC
* * * * **
23342128 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
* *
23342193 CGAGTTATTAAATCC
66 CGAGTGACTAAATCC
* * * * *
23342208 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
23342272 CGAG-GAGCTATATCC
66 CGAGTGA-CTAAATCC
*
23342287 -GGTTAAATCCCGAAGG
1 GGGTTAAGTCCCGAAGG
23342303 TACGTGATTT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
78 15 0.10
79 50 0.33
80 83 0.55
81 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGTGACTAAATCC
Found at i:23350213 original size:32 final size:32
Alignment explanation
Indices: 23350177--23350243 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
23350167 CCATTTAAGG
23350177 ACCCTCAATTTAAAATTTCATAACAACTGGAC
1 ACCCTCAATTTAAAATTTCATAACAACTGGAC
*
23350209 ACCCTCAATTTAAAATTTCATAACAATTGGAC
1 ACCCTCAATTTAAAATTTCATAACAACTGGAC
23350241 ACC
1 ACC
23350244 TTTAGTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.28
Consensus pattern (32 bp):
ACCCTCAATTTAAAATTTCATAACAACTGGAC
Found at i:23352170 original size:6 final size:6
Alignment explanation
Indices: 23352152--23352300 Score: 126
Period size: 6 Copynumber: 24.3 Consensus size: 6
23352142 AAGAAACATT
23352152 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
23352200 ATCAAA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
23352251 A-CCGA ATCAAA ATCAGA ATCAGC ATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
23352299 AT
1 AT
23352301 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
5 6 0.05
6 97 0.85
7 8 0.07
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23352232 original size:31 final size:31
Alignment explanation
Indices: 23352161--23352300 Score: 176
Period size: 31 Copynumber: 4.5 Consensus size: 31
23352151 TATCAGAACT
23352161 AGAATCAGAATCAGAATCAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
* * *
23352191 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
23352222 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
23352253 CGAATCAAAATCAGAATCAGCATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
23352284 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
23352301 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
30 23 0.24
31 71 0.75
32 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:23352463 original size:27 final size:26
Alignment explanation
Indices: 23352422--23352505 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
23352412 CATGGCTGCT
* *
23352422 AGAACAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
23352448 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
* *
23352475 AGAACAAATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
23352502 AGAA
1 AGAA
23352506 TTGGATAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 9 0.17
27 43 0.83
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:23352610 original size:32 final size:31
Alignment explanation
Indices: 23352541--23352610 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
23352531 ATAGAATACG
* *
23352541 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACGGTAATAAAT
* * *
23352572 TCGGCACATAGCCATCAGTGACGGTAATATAAT
1 T-GGCACAAAGCCATCAATAACGGTAATA-AAT
23352605 TGGCAC
1 TGGCAC
23352611 CCAACCTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 28 0.88
33 3 0.09
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACGGTAATAAAT
Found at i:23352718 original size:22 final size:22
Alignment explanation
Indices: 23352686--23352743 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
23352676 TAAATATGTT
*
23352686 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * *
23352708 TGGCACAAAGCCATATTTAAGT
1 TGGCACAAAGCCATAGTCAAGA
*
23352730 TGGCACAAATCCAT
1 TGGCACAAAGCCAT
23352744 TGATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:23353121 original size:27 final size:27
Alignment explanation
Indices: 23353091--23353277 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
23353081 AGGGAAAAAT
* * *
23353091 GGTAATTTTACCCCA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
23353118 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23353145 AGTATTTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23353172 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23353199 GGTAATTCTACCTTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
23353225 AATAATTCTACCCTAAAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23353252 GATAATTCTACCTTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
23353278 TAGTAATTTT
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 22 0.16
27 115 0.83
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23353249 original size:53 final size:54
Alignment explanation
Indices: 23353120--23353277 Score: 246
Period size: 53 Copynumber: 2.9 Consensus size: 54
23353110 GGTATCTCGG
* * **
23353120 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
23353174 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
* * *
23353227 TAATTCTACCCTAAAGGAGTATTTCGATAATTCTACCTTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT
23353278 TAGTAATTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.50
54 48 0.50
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
Found at i:23353260 original size:80 final size:81
Alignment explanation
Indices: 23353109--23353277 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 81
23353099 TACCCCAAGA
* * * * * * *
23353109 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
23353174 TAATTCTACCCTACAG
66 TAATTCTACCCTACAG
*
23353190 GGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
*
23353254 TAATTCTACCTTACAG
66 TAATTCTACCCTACAG
23353270 GGGTATTT
1 GGGTATTT
23353278 TAGTAATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 55 0.70
81 24 0.30
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
TAATTCTACCCTACAG
Found at i:23353300 original size:27 final size:28
Alignment explanation
Indices: 23353268--23353394 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 28
23353258 TCTACCTTAC
**
23353268 AGGGGTATTTTAGTAATTTTACAGGTCG
1 AGGGGTATTTTAGTAATTTTACAAATCG
* *
23353296 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTAGTAATTTTACAAATCG
* *
23353322 AGGGGTATTTTGGTAATTTTACAAAT-T
1 AGGGGTATTTTAGTAATTTTACAAATCG
* * *
23353349 AGGGGTATTTTGGTAATTTTGCTAATCG
1 AGGGGTATTTTAGTAATTTTACAAATCG
*
23353377 A-GGGTATTTCAGTAATTT
1 AGGGGTATTTTAGTAATTT
23353395 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 81 0.96
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.41
Consensus pattern (28 bp):
AGGGGTATTTTAGTAATTTTACAAATCG
Found at i:23353303 original size:54 final size:52
Alignment explanation
Indices: 23353109--23353312 Score: 214
Period size: 54 Copynumber: 3.8 Consensus size: 52
23353099 TACCCCAAGA
* * *
23353109 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCT-CA-GGGTATTTCAGTAATTCTACCTTACAG
* *
23353163 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACA-
1 GGGTATTTCAGTAATTCTACCCT-CA-GGGTATTTCAGTAATTCTACCTTACAG
* *
23353216 GGGTATTTCAATAATTCTACCCTAAAGGAGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCT-CAGG-GTATTTCAG-TAATTCTACCTTACAG
* * **
23353270 GGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTCAGTAATT
1 GGGTATTTCAGTAATTCTAC-CCTC-AGGGTATTTCAGTAATT
23353313 TCACAAATCA
Statistics
Matches: 132, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
52 3 0.02
53 45 0.34
54 79 0.60
55 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (52 bp):
GGGTATTTCAGTAATTCTACCCTCAGGGTATTTCAGTAATTCTACCTTACAG
Found at i:23353325 original size:107 final size:108
Alignment explanation
Indices: 23353120--23353331 Score: 238
Period size: 107 Copynumber: 2.0 Consensus size: 108
23353110 GGTATCTCGG
* * * *
23353120 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
* **
23353185 TACAGGGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAA
66 TACAGGGGTATTTCAGTAATTCTACAATACAGGGGTATTTCAA
* *
23353227 TAATTCTACCCTAAAGGAGTATTTC-GATAATTCTACCTTACAGGGGTATTTTAGTAATTTTACA
1 TAATTCTACCCTAAAGGAGTATTTCAG-TAATTCTACCTTACAGGGGTATTTCAGTAATTCTAC-
**
23353291 GGT-C-GAGGGTATTTCAGTAATT-TCACAA-ATCAGGGGTATTT
64 CCTACAG-GGGTATTTCAGTAATTCT-ACAATA-CAGGGGTATTT
23353332 TGGTAATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
106 4 0.05
107 75 0.85
108 9 0.10
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (108 bp):
TAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTCAGTAATTCTACAATACAGGGGTATTTCAA
Found at i:23356122 original size:18 final size:18
Alignment explanation
Indices: 23356083--23356125 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23356073 CATCTAGTGG
* *
23356083 AGGAACATGCTTGGTAGG
1 AGGAACATGCTTGATAGC
23356101 AGGAACATGCTCTGAT-GC
1 AGGAACATGCT-TGATAGC
23356119 AGGAACA
1 AGGAACA
23356126 CTCCCATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.19
Consensus pattern (18 bp):
AGGAACATGCTTGATAGC
Found at i:23385270 original size:6 final size:6
Alignment explanation
Indices: 23385259--23385298 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
23385249 TAGGTTTCCA
*
23385259 AAATGG AAATGG AAATGG AAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
23385299 AATTTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:23387220 original size:71 final size:71
Alignment explanation
Indices: 23387134--23387302 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 71
23387124 TGGGTTGTAG
* * *
23387134 ATTCACTAAAGCTTGTGTAAGTAGCTTCGAATCATCAGATAATGATGGCTTGAG-GTCCA-ACAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
23387197 TTGTTTGA
66 TTG--TGA
* * * * *** * *
23387205 ATTCTCTAAAGCTTGTGTGAGCAACATCGAATTATCCTTTATTGATGGCTTGAGATTCAACACAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
23387270 TTGTGA
66 TTGTGA
* *
23387276 ATTCTCTGAAGCTTGTGTTAGTAGCAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCAT
23387303 TAGGTAAAGC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
71 70 0.88
72 3 0.04
73 7 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (71 bp):
ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
TTGTGA
Found at i:23388924 original size:52 final size:52
Alignment explanation
Indices: 23388859--23388981 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
23388849 TATCTAGGAT
* *
23388859 ATGGCATTGTGCTAAGTGAAATAAGACCAAGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCAAGGCATCTAACTGAAATAAGTCC
* *
23388911 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAACTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCAAGGCATCTAACTGAAATAAGTCC
*
23388963 AT-GCCATAGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
23388982 GAAATTTCCC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 4 0.06
52 61 0.94
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCAAGGCATCTAACTGAAATAAGTCC
Found at i:23388934 original size:28 final size:27
Alignment explanation
Indices: 23388859--23388981 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 27
23388849 TATCTAGGAT
*
23388859 ATGGCATTGTGCTAAGTGAAATAAGACC
1 ATGGCA-TGTGCTAAGTGAAATAAGTCC
*
23388887 AAGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
23388911 ATGGCAATGTGCTAAGTGAAATAAGTCC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
*
23388939 ATGGCA--T-CTAACTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
*
23388963 ATGCCATAGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
23388982 GAAATTTCCC
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
24 41 0.51
25 3 0.04
27 3 0.04
28 34 0.42
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGTCC
Found at i:23389089 original size:51 final size:51
Alignment explanation
Indices: 23389005--23389203 Score: 281
Period size: 51 Copynumber: 3.9 Consensus size: 51
23388995 TGAACCTTAG
* * * *
23389005 GAATACAATAACTTTAGACACAAATGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
23389056 GAATATAATAGCTTTGGACACAAGTGTGCTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
23389107 GACTAAAATAGCTTTGGACACAAGTGTGGTACAACGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
** *
23389158 GAATAAAATAGCTTTGGTTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
23389204 CGTGTATCCG
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 130 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:23411049 original size:30 final size:30
Alignment explanation
Indices: 23411015--23411075 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23411005 TCCTTAACTC
23411015 AAACTTTGGCAAAATTAAAATTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
* * * * *
23411045 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
23411075 A
1 A
23411076 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTAAAATTTTGCCCCT
Found at i:23413893 original size:50 final size:50
Alignment explanation
Indices: 23413762--23414010 Score: 234
Period size: 50 Copynumber: 5.0 Consensus size: 50
23413752 GTAATCGAAG
** * * * *
23413762 CTATCTGGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
23413811 CAATCCGGTACATGTAGTAGCCTGGACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
23413861 CCATCTGATACACGTAATAGCCTGCACTTAGTAC-ACACACATGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * ** * * *
23413910 GTTGTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
23413961 CTATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
23414011 AACCATTTTA
Statistics
Matches: 154, Mismatches: 41, Indels: 9
0.75 0.20 0.04
Matches are distributed among these distances:
48 1 0.01
49 48 0.31
50 95 0.62
51 9 0.06
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:23416721 original size:47 final size:47
Alignment explanation
Indices: 23416665--23416927 Score: 373
Period size: 47 Copynumber: 5.6 Consensus size: 47
23416655 CACATCCAGG
* * **
23416665 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
* ** * *
23416712 TTTATCACATTGGCCATTCGGCCTTATTACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
* * *
23416759 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
* *
23416806 TTCATCACATTTGCCATTCGGCCTTAGCACAAAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
* *
23416853 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
*
23416900 TTCATCACATTTGCCATTCGGCCTTAGC
1 TTCATCACATTGGCCATTCGGCCTTAGC
23416928 TCATGTATAC
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTAGCACATAAATGCATGTTCACA
Found at i:23416945 original size:141 final size:141
Alignment explanation
Indices: 23416650--23416956 Score: 371
Period size: 141 Copynumber: 2.2 Consensus size: 141
23416640 TTTCCCACGT
* ** * * *** *
23416650 ATATACACATCCAGGTTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTT
1 ATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAGCACAAAAATGCATGTTCACATTC
** * *
23416715 ATCACATTGGCCATTCGGCCTTATTACATATATACATGTTCACATTCATCACATTGGCCATTCGG
66 ATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACATTGGCCATTCGG
* *
23416780 TCTTATCACAC
131 CCTTAGCACAC
* * ** *
23416791 AAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACAAAAATGCATGTTCACATTC
1 ATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAGCACAAAAATGCATGTTCACATTC
* * *
23416856 ATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGG
66 ATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACATTGGCCATTCGG
* *
23416921 CCTTAGCTCAT
131 CCTTAGCACAC
* *
23416932 GTATACACATTCACATCCATCACAT
1 ATATACACATTCACATTCATCACAT
23416957 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (141 bp):
ATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAGCACAAAAATGCATGTTCACATTC
ATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACATTCATCACATTGGCCATTCGG
CCTTAGCACAC
Found at i:23422345 original size:42 final size:42
Alignment explanation
Indices: 23422280--23422649 Score: 472
Period size: 42 Copynumber: 8.8 Consensus size: 42
23422270 CGTTGACATT
*
23422280 GTATCTGATTTCGTGTAAGACCATGTCTGGGACATCGGCATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
* *
23422322 ATATCTGATTTTGTGTAACACCATGTCTGGGACATCGGCATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
23422364 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
* * * *
23422406 GTATCTGATTTTGTGTAAGACCGTGCCTGGGACATCGGTAAC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
* * * *
23422448 GTATTTGATTTTGTGTAAGACCGTGTCTGAGACATCGACATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
* * * *
23422490 ATATCTAATTTTGTGTAAGACCATGTCTGAGACATCGACATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
* * * *
23422532 CTATCTGATTTTGTGTAAGGCCAATTTCTAGGACATCGGCATC
1 GTATCTGATTTTGTGTAAGACC-ATGTCTGGGACATCGGCATC
* **
23422575 GTATCTGATTTTGTGTAAGACCTTGTCTGGGACAGAGGCATC
1 GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
*** *
23422617 G-ATACTGAATTACATGTAAGACCACGTCTGGGA
1 GTAT-CTG-ATTTTGTGTAAGACCATGTCTGGGA
23422650 TGTCGACATT
Statistics
Matches: 287, Mismatches: 38, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
41 2 0.01
42 229 0.80
43 56 0.20
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
GTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATC
Done.