Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 9 of 295
Found at i:2837921 original size:54 final size:54
Alignment explanation
Indices: 2837857--2837962 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
2837847 AGCAACTACA
2837857 TTTCTGGGGATGAGTAGGTGGTTGTGGCAAGAGAGTAAGAGGATGCTTACGACG
1 TTTCTGGGGATGAGTAGGTGGTTGTGGCAAGAGAGTAAGAGGATGCTTACGACG
2837911 TTTCTGGGGATGAGTAGGTGGTTGTGGCAAGAGAGTAAGAGGATGCTTACGA
1 TTTCTGGGGATGAGTAGGTGGTTGTGGCAAGAGAGTAAGAGGATGCTTACGA
2837963 TCGTAGGGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.08, G:0.41, T:0.26
Consensus pattern (54 bp):
TTTCTGGGGATGAGTAGGTGGTTGTGGCAAGAGAGTAAGAGGATGCTTACGACG
Found at i:2839190 original size:15 final size:15
Alignment explanation
Indices: 2839189--2839222 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2839179 AAATTTTAAA
*
2839189 AAAAATGAATATTGT
1 AAAAATGAATATTTT
*
2839204 AAAAATGAATGTTTT
1 AAAAATGAATATTTT
2839219 AAAA
1 AAAA
2839223 GCATTCACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAAAATGAATATTTT
Found at i:2839195 original size:18 final size:18
Alignment explanation
Indices: 2839172--2839208 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2839162 GACATAATTT
*
2839172 AAAATGAAAATTTTAAAA
1 AAAATGAAAATTGTAAAA
*
2839190 AAAATGAATATTGTAAAA
1 AAAATGAAAATTGTAAAA
2839208 A
1 A
2839209 TGAATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (18 bp):
AAAATGAAAATTGTAAAA
Found at i:2860300 original size:90 final size:91
Alignment explanation
Indices: 2860155--2860339 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 91
2860145 GATAATGTCA
* * *
2860155 TATTTGGTATTTATATTTCTATAAAATGTCCATTGTGGTATTTATGTTTTGAAAATATTC-ATGT
1 TATTTGGTATTTATATTTCTATAAAATGTCCATTGTAGTATTTATATTTTAAAAATATTCAATGT
* *
2860219 GATACTTAAACTATTAATTTATGTGT
66 GATACTTAAACTATCAATTTATGTAT
* * *
2860245 TATTTGGTATTTATATTTTTGTAAAATGTCCGA-TGTAGTATTTATATTTTAAAAATGTTCAATG
1 TATTTGGTATTTATATTTCTATAAAATGTCC-ATTGTAGTATTTATATTTTAAAAATATTCAATG
* * *
2860309 TGGTGCTTAAACTATCAATTTGTGTAT
65 TGATACTTAAACTATCAATTTATGTAT
2860336 TATT
1 TATT
2860340 ACGGTACTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
90 52 0.63
91 30 0.37
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (91 bp):
TATTTGGTATTTATATTTCTATAAAATGTCCATTGTAGTATTTATATTTTAAAAATATTCAATGT
GATACTTAAACTATCAATTTATGTAT
Found at i:2860309 original size:29 final size:31
Alignment explanation
Indices: 2860251--2860309 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
2860241 GTGTTATTTG
* *
2860251 GTATTTATATTTTTGTAAAATGTCCGATGTA
1 GTATTTATATTTTTGAAAAATGTCCAATGTA
*
2860282 GTATTTATA-TTTT-AAAAATGTTCAATGT
1 GTATTTATATTTTTGAAAAATGTCCAATGT
2860310 GGTGCTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 4 0.16
31 9 0.36
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (31 bp):
GTATTTATATTTTTGAAAAATGTCCAATGTA
Found at i:2861220 original size:29 final size:29
Alignment explanation
Indices: 2861177--2861249 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
2861167 TTTCAAGTAT
*
2861177 TACATTGGATTTTTTCAAAGTATAGATAC
1 TACATTGGATATTTTCAAAGTATAGATAC
* *
2861206 TACATTGGACATTTTCAAAGTATAGGTAC
1 TACATTGGATATTTTCAAAGTATAGATAC
* *
2861235 CACATTAGATATTTT
1 TACATTGGATATTTT
2861250 AAAAAAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (29 bp):
TACATTGGATATTTTCAAAGTATAGATAC
Found at i:2863091 original size:30 final size:30
Alignment explanation
Indices: 2863051--2863128 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
2863041 GCTACCACTT
*
2863051 CCACCGCCACCACCACCAAAATGCATATGA
1 CCACCACCACCACCACCAAAATGCATATGA
* *
2863081 CCACCACCACCACCACCAAACTGCATGTGA
1 CCACCACCACCACCACCAAAATGCATATGA
*
2863111 CTACCACCACCACCACCA
1 CCACCACCACCACCACCA
2863129 CCACCACCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.35, C:0.49, G:0.08, T:0.09
Consensus pattern (30 bp):
CCACCACCACCACCACCAAAATGCATATGA
Found at i:2863156 original size:132 final size:132
Alignment explanation
Indices: 2862996--2863260 Score: 422
Period size: 132 Copynumber: 2.0 Consensus size: 132
2862986 AATGCATTTG
* * *
2862996 ACCACCACCTTCACCATGCCCTTTAGCCCCACCATCAACATTACTGCTACCACTTCCACCGCCAC
1 ACCACCACCTACACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
* *
2863061 CACCACCAAAATGCATATGACCACCACCACCACCACCAAACTGCATGTGACTACCACCACCACCA
66 CACCACCAAAATGCATATGACCACCACCACCACCACCAAAATGCATGTGACCACCACCACCACCA
2863126 CC
131 CC
2863128 ACCACCACCTACACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
1 ACCACCACCTACACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
* * * * * * *
2863193 CACCAGCAAAATGCATGTGACTACCACCGCCGCCGCCAAAATGCATGTGGCCACCACCACCACCA
66 CACCACCAAAATGCATATGACCACCACCACCACCACCAAAATGCATGTGACCACCACCACCACCA
2863258 CC
131 CC
2863260 A
1 A
2863261 AAATACATGT
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.30, C:0.47, G:0.09, T:0.14
Consensus pattern (132 bp):
ACCACCACCTACACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
CACCACCAAAATGCATATGACCACCACCACCACCACCAAAATGCATGTGACCACCACCACCACCA
CC
Found at i:2863219 original size:30 final size:30
Alignment explanation
Indices: 2863183--2863283 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
2863173 GCTACCACTT
2863183 CCACCACCACCACCAGCAAAATGCATGTGA
1 CCACCACCACCACCAGCAAAATGCATGTGA
* * * *
2863213 CTACCACCGCCGCC-GCCAAAATGCATGTGG
1 CCACCACCACCACCAG-CAAAATGCATGTGA
* *
2863243 CCACCACCACCACCACCAAAATACATGTGA
1 CCACCACCACCACCAGCAAAATGCATGTGA
2863273 CCACCACCACC
1 CCACCACCACC
2863284 GCCTCTACCA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 58 0.98
ACGTcount: A:0.33, C:0.45, G:0.13, T:0.10
Consensus pattern (30 bp):
CCACCACCACCACCAGCAAAATGCATGTGA
Found at i:2863563 original size:18 final size:18
Alignment explanation
Indices: 2863536--2863836 Score: 97
Period size: 18 Copynumber: 16.7 Consensus size: 18
2863526 CTTCGACTTT
* *
2863536 AGCTTTAGCTTTAGCCAC
1 AGCTTCAGCTTTAGCCTC
*
2863554 AGCTTCAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCCTC
* * *
2863572 GGCTTCAGCTTTAGCTTT
1 AGCTTCAGCTTTAGCCTC
* * * *
2863590 AGCTTCAGCTTCATCATT
1 AGCTTCAGCTTTAGCCTC
* *
2863608 AGCTTCGGCTTCAGCCTC
1 AGCTTCAGCTTTAGCCTC
* *
2863626 AGCTTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCCTC
* * * ** **
2863644 TGATTTAGCTTCGGATTC
1 AGCTTCAGCTTTAGCCTC
* *
2863662 AGCCTCAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCCTC
* * *
2863680 -GACTTCTGCTTTAGCTTT
1 AG-CTTCAGCTTTAGCCTC
* * * *
2863698 AACTTCGGCTTCAGCCTT
1 AGCTTCAGCTTTAGCCTC
* * * *
2863716 AGCTTTAGCTTCAGCTTT
1 AGCTTCAGCTTTAGCCTC
* * *
2863734 AGCTCCGGCTTCAGCCAT-
1 AGCTTCAGCTTTAGCC-TC
* *
2863752 AGCTTTAGCTTCAGCCAT-
1 AGCTTCAGCTTTAGCC-TC
* * *
2863770 AGCTTTAGCATTAGCTTC
1 AGCTTCAGCTTTAGCCTC
* * *
2863788 GGCTTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCCTC
* * *
2863806 AG-TATTAGCTTTAGCATT
1 AGCT-TCAGCTTTAGCCTC
*
2863824 AGCTTCGGCTTTA
1 AGCTTCAGCTTTA
2863837 ACTTTAGCTT
Statistics
Matches: 220, Mismatches: 57, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
17 3 0.01
18 215 0.98
19 2 0.01
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (18 bp):
AGCTTCAGCTTTAGCCTC
Found at i:2863563 original size:24 final size:24
Alignment explanation
Indices: 2863537--2863962 Score: 206
Period size: 24 Copynumber: 18.2 Consensus size: 24
2863527 TTCGACTTTA
* ** *
2863537 GCTTTAGCTTTAGCCACAGCTTCA
1 GCTTTAGCTTCAGCTTCAGCTTTA
*
2863561 GCTTTAGCTTCGGCTTCAGCTTTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
* *
2863585 GCTTTAGCTTCAGCTTCATCATTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
** *
2863609 GCTTCGGCTTCAGCCTCAGCTTTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
*
2863633 GCTTTAGCTT---C-T--GATTTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
** * *
2863651 GCTTCGGATTCAGCCTCAGCTTTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
* * *
2863675 GC-TTCGACTTCTGCTTTAGCTTTA
1 GCTTTAG-CTTCAGCTTCAGCTTTA
* **
2863699 ACTTCGGCTTCAGCCTT-AGCTTTA
1 GCTTTAGCTTCAG-CTTCAGCTTTA
* * * * *
2863723 GCTTCAGCTTTAGCTCCGGCTTCA
1 GCTTTAGCTTCAGCTTCAGCTTTA
** * **
2863747 GCCATAGCTTTAGCTTCAGCCATA
1 GCTTTAGCTTCAGCTTCAGCTTTA
*
2863771 GCTTTAGCATT-AGCTTCGGCTTTA
1 GCTTTAGC-TTCAGCTTCAGCTTTA
2863795 GCTTTAGCTTCAG--T-A---TTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
*
2863813 GCTTTAGCATT-AGCTTCGGCTTTA
1 GCTTTAGC-TTCAGCTTCAGCTTTA
* *
2863837 ACTTTAGCTTCAACATT-AGCTTTA
1 GCTTTAGCTTCAGC-TTCAGCTTTA
* * * * * *
2863861 ACATTAGTTTCGGCTTTAGCTCTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
* * *
2863885 GCTTCAG-TATTAGCTTTAGCTTTA
1 GCTTTAGCT-TCAGCTTCAGCTTTA
** *
2863909 GAATTAGCTTCAGCATT-AGCTTCA
1 GCTTTAGCTTCAGC-TTCAGCTTTA
* *
2863933 GCATTAGCTTCAGCTTTAGCTTTA
1 GCTTTAGCTTCAGCTTCAGCTTTA
*
2863957 ACTTTA
1 GCTTTA
2863963 TCTTTACTAT
Statistics
Matches: 302, Mismatches: 74, Indels: 52
0.71 0.17 0.12
Matches are distributed among these distances:
18 25 0.08
19 2 0.01
20 2 0.01
21 2 0.01
22 2 0.01
23 13 0.04
24 244 0.81
25 12 0.04
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
GCTTTAGCTTCAGCTTCAGCTTTA
Found at i:2863572 original size:42 final size:42
Alignment explanation
Indices: 2863526--2863954 Score: 233
Period size: 42 Copynumber: 10.1 Consensus size: 42
2863516 TTATTTTTTC
* * * *
2863526 CTTCGACTTTAGCTTTAGCTTTAGCCACAGCTTCAGCTTTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTACAGCTTTAGCTTTAG
* * * *
2863568 CTTCGGCTTCAGCTTTAGCTTTAGCTTCAGCTTCATCATTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTACAGCTTTAGCTTTAG
* * ** *
2863610 CTTCGGCTTCAGCCTCAGCTTTAGCTTTAGCTTCT-GATTTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTACAGCTT-TAGCTTTAG
* * * * *
2863652 CTTCGGATTCAGCCTCAGCTTTAGCTTCGACTTCTGCTTTAGCTTTAA
1 CTTCGGCTTCAGCTTTAGCTTTAGC-T--A---CAGCTTTAGCTTTAG
* * ***
2863700 CTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTTTAGCTCCGG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTACAGCTTTAGCTTTAG
* * * * * *
2863742 CTTCAGCCAT-AGCTTTAGCTTCAGCCATAGCTTTAGCATTAG
1 CTTC-GGCTTCAGCTTTAGCTTTAGCTACAGCTTTAGCTTTAG
* * * *
2863784 CTTCGGCTTTAGCTTTAGCTTCAG-TATTAGCTTTAGCATTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTA-CAGCTTTAGCTTTAG
* * * * * * *
2863826 CTTCGGCTTTAACTTTAGCTTCAAC-ATTAGCTTTAACATTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTA-CAGCTTTAGCTTTAG
* * * * *
2863868 TTTCGGCTTTAGCTCTAGCTTCAG-TATTAGCTTTAGCTTTAG
1 CTTCGGCTTCAGCTTTAGCTTTAGCTA-CAGCTTTAGCTTTAG
* * * * * *
2863910 AATT-AGCTTCAGCATTAGCTTCAGC-ATTAGCTTCAGCTTTAG
1 -CTTCGGCTTCAGCTTTAGCTTTAGCTA-CAGCTTTAGCTTTAG
2863952 CTT
1 CTT
2863955 TAACTTTATC
Statistics
Matches: 315, Mismatches: 57, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
41 6 0.02
42 269 0.85
43 6 0.02
47 2 0.01
48 32 0.10
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (42 bp):
CTTCGGCTTCAGCTTTAGCTTTAGCTACAGCTTTAGCTTTAG
Found at i:2863642 original size:84 final size:84
Alignment explanation
Indices: 2863554--2863954 Score: 287
Period size: 84 Copynumber: 4.7 Consensus size: 84
2863544 CTTTAGCCAC
* *
2863554 AGCTTCAGCTTTAGCTTCGGCTTCAGCTTTAGCTTTAGCTTCAGCTTCATCATTAGCTTCGGCTT
1 AGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTTCAGCATTAGCTTCGGCTT
*
2863619 CAGCCTCAGCTTTAGCT-TT
66 CAGCCTCAGCTTCAG-TATT
* * * * * * ***
2863638 AGCTTCTGATTTAGCTTCGGATTCAGCCTCAGCTTTAGCTTC-GACTTCTGCTTTAGCTTTAACT
1 AGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAG-CTTCAGCATTAGCTTCGGCT
* *
2863702 TCGGCTTCAGCCTT-AGCT-TT
65 TCAGCCTCAG-CTTCAG-TATT
* * *
2863722 AGCTTCAGCTTTAGCTCCGGCTTCAGCCATAGCTTTAGCTTCAGCCATAGCTTTAGCATTAGCTT
1 AGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTT----C--AGCTTCAGCATTAGCTT
* * *
2863787 CGGCTTTAGCTTTAGCTTCAGTATT
60 CGGCTTCAGCCTCAGCTTCAGTATT
* * * * * * * * * *
2863812 AGCTTTAGCATTAGCTTCGGCTTTAACTTTAGCTTCAACATT-AGCTTTAACATTAGTTTCGGCT
1 AGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGC-TTCAGCTTCAGCATTAGCTTCGGCT
*
2863876 TTAG-CTCTAGCTTCAGTATT
65 TCAGCCTC-AGCTTCAGTATT
* * * * * *
2863896 AGCTTTAGCTTTAGAATT-AGCTTCAGCATTAGCTTCAGCATT-AGCTTCAGCTTTAGCTT
1 AGCTTCAGCTTTAG-CTTCGGCTTCAGCCTTAGCTTTAGC-TTCAGCTTCAGCATTAGCTT
2863955 TAACTTTATC
Statistics
Matches: 251, Mismatches: 52, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
83 2 0.01
84 181 0.72
85 5 0.02
88 1 0.00
89 4 0.02
90 55 0.22
91 3 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (84 bp):
AGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTTCAGCATTAGCTTCGGCTT
CAGCCTCAGCTTCAGTATT
Found at i:2863918 original size:18 final size:18
Alignment explanation
Indices: 2863876--2863918 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2863866 AGTTTCGGCT
* *
2863876 TTAGCTCTAGCTTCAGTA
1 TTAGCTTTAGCTTCAGAA
*
2863894 TTAGCTTTAGCTTTAGAA
1 TTAGCTTTAGCTTCAGAA
2863912 TTAGCTT
1 TTAGCTT
2863919 CAGCATTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (18 bp):
TTAGCTTTAGCTTCAGAA
Found at i:2863927 original size:18 final size:18
Alignment explanation
Indices: 2863893--2863927 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2863883 TAGCTTCAGT
* *
2863893 ATTAGCTTTAGCTTTAGA
1 ATTAGCTTCAGCATTAGA
2863911 ATTAGCTTCAGCATTAG
1 ATTAGCTTCAGCATTAG
2863928 CTTCAGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (18 bp):
ATTAGCTTCAGCATTAGA
Found at i:2864191 original size:24 final size:24
Alignment explanation
Indices: 2864157--2864219 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
2864147 TAGCTTTGTG
* *
2864157 TTCACTCTTATGATATGATTTAGT
1 TTCACTATTATGAGATGATTTAGT
*
2864181 TTCACTTTTATGAGATGATTTAGT
1 TTCACTATTATGAGATGATTTAGT
2864205 TTCACTATTATGAGA
1 TTCACTATTATGAGA
2864220 AGCACTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (24 bp):
TTCACTATTATGAGATGATTTAGT
Found at i:2865162 original size:444 final size:451
Alignment explanation
Indices: 2864327--2865462 Score: 1427
Period size: 444 Copynumber: 2.5 Consensus size: 451
2864317 CCACTGGCTG
* * * * *
2864327 CACCTCCTTGTCCTCCTATTTTACCTTCAAACCCGTTTTTAGCTTCACCCTTACTAGT-GAAACT
1 CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAG-CACT
* * * * * *
2864391 AGCTTTTT-CATCACTA-CCTTTTTCATTGCTATGAATACCACTTGCATCAGAACTACCACTGCC
65 A-ATTTTTCCATCATTATCC-TTTTCATAGCTATGAGTACCACTTGCATCAGTACTACCACTACC
* * *
2864454 AACACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCCACCACTCTTTC
128 AATACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCTACCACTATTTC
* * * *** * *
2864519 TACCAACCTCTCTTTGTCCTCTTATTTTACCTTCAAAACCTGTTTTACCCTCACTCTTACTAGTG
193 CACCAACCTCTCTTTGTCCTCCTACTTTACCTTCAAAACCAACTTTACCCTCACTCTTACGAGTA
* ** *
2864584 TCACTAGATTTGTTATCACTACTCTTTGATCCGTTAAGATCACTGCTTGTACTAGTTGCACCATT
258 TCACTAGATTTGTTATCACTACTCTTTGATCCGCTAAGATCACCACTTGTACTAGTTGCACCACT
* * * ** *
2864649 ACCAACACTTTCGGCTTGATCTCCAGCCTTTCCACCAACATTAGTGCCACCACTTCCACCACTAT
323 ACCAACACCTTCAGCTGGATCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACCAT
** *
2864714 TTCCACCAAAGCCTGCTCTTATTCCGCCTTTAAACCCAAACTT-A-A-A-ACCA-C-CC-CCAC
388 TTCCACCAAAGCCTGCTCGCATTCCGCCTCTAAACCCAAACTTCACACATACCACCACCACCAC
* *
2864771 CACCTCCTTGCCCTCCTACTTTACCTTTAAACCTATCTTTAGCTTCACCCTTACTAGTAGCACTA
1 CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
*
2864836 ATTTTTCCATCATTATCCTTTTCATCGCTATGAGTACCACTTGCATCAGTACTACCACTACCAAT
66 ATTTTTCCATCATTATCCTTTTCATAGCTATGAGTACCACTTGCATCAGTACTACCACTACCAAT
* * *
2864901 AGCTCCACCTTGCCCTCCTACCTTGCCAGCAACACTAGTGCTACCACTTCTACCATTATTTCCAC
131 ACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCTACCACTATTTCCAC
* * * *
2864966 CAACCTCACCTTGTCCTCCTACTTTACCTTCAAAACCAACTTTAGCCTCATTCTTACGAGTATCA
196 CAACCTCTCTTTGTCCTCCTACTTTACCTTCAAAACCAACTTTACCCTCACTCTTACGAGTATCA
* * *
2865031 CTAGCTTT-TTCATCACTACTCTTTGCTCCGCTAAG-GCTACCACTTGTACTAGTTGCACCACTA
261 CTAGATTTGTT-ATCACTACTCTTTGATCCGCTAAGATC-ACCACTTGTACTAGTTGCACCACTA
* * *
2865094 CCAACACCTTCAGCATGGCT-TGCAGCCCCTCCACCAACATTAGTGTCACCACTTCCACCACCAT
324 CCAACACCTTCAGC-TGGATCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACCAT
* * *
2865158 TTCCACTAAATCCTGTTCGCATTCCGCCTCTAAACCCAAACTTAAAACCACCCCCACCAGCTATA
388 TTCCACCAAAGCCTGCTCGCATTCCGCCTCTAAACCCAAACTT-----------CA-CA-C-ATA
2865223 CCACCACCACCAC
439 CCACCACCACCAC
* *
2865236 CACCTCCTTGCCCTCCTACTTTACCTCCAAACCGATCTTTAGCTTCACCCTTACTAGTAGCACTA
1 CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
* * *
2865301 ATTTTTCCATCATTATCTTTTTCATAGCTATGAGTACCACTTACATCAATACTACCACTACCAAC
66 ATTTTTCCATCATTATCCTTTTCATAGCTATGAGTACCACTTGCATCAGTACTACCACTACCAA-
*
2865366 T-CCTCCACCTTGCCCTCCTACCTTACCAGAAACACTAGTGCTACCACTTCTACCACTATTTCCA
130 TACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCTACCACTATTTCCA
* *
2865430 CCAACCTCTTTTTGTCCTCCAACTTTACCTTCA
195 CCAACCTCTCTTTGTCCTCCTACTTTACCTTCA
2865463 GCAGCCATAC
Statistics
Matches: 596, Mismatches: 68, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
443 8 0.01
444 357 0.60
445 6 0.01
456 1 0.00
458 1 0.00
461 1 0.00
462 4 0.01
463 1 0.00
464 2 0.00
465 214 0.36
466 1 0.00
ACGTcount: A:0.24, C:0.37, G:0.08, T:0.31
Consensus pattern (451 bp):
CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
ATTTTTCCATCATTATCCTTTTCATAGCTATGAGTACCACTTGCATCAGTACTACCACTACCAAT
ACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCTACCACTATTTCCAC
CAACCTCTCTTTGTCCTCCTACTTTACCTTCAAAACCAACTTTACCCTCACTCTTACGAGTATCA
CTAGATTTGTTATCACTACTCTTTGATCCGCTAAGATCACCACTTGTACTAGTTGCACCACTACC
AACACCTTCAGCTGGATCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACCATTTC
CACCAAAGCCTGCTCGCATTCCGCCTCTAAACCCAAACTTCACACATACCACCACCACCAC
Found at i:2869036 original size:3 final size:3
Alignment explanation
Indices: 2869021--2869079 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
2869011 CATTGTTGGC
* * * *
2869021 GGA GGA AGA GGA GGA GGA GGA GGA GAA GGA GGA GGA GGA GGA GGT GGT
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
*
2869069 GGT GGA GGA GG
1 GGA GGA GGA GG
2869080 TGGTGGTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.64, T:0.05
Consensus pattern (3 bp):
GGA
Found at i:2869075 original size:15 final size:15
Alignment explanation
Indices: 2869057--2869088 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2869047 AGGAGGAGGA
2869057 GGAGGAGGTGGTGGT
1 GGAGGAGGTGGTGGT
2869072 GGAGGAGGTGGTGGT
1 GGAGGAGGTGGTGGT
2869087 GG
1 GG
2869089 TGGTGGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.69, T:0.19
Consensus pattern (15 bp):
GGAGGAGGTGGTGGT
Found at i:2869075 original size:18 final size:18
Alignment explanation
Indices: 2869054--2869091 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2869044 AGAAGGAGGA
2869054 GGAGGAGGAGGTGGTGGT
1 GGAGGAGGAGGTGGTGGT
*
2869072 GGAGGAGGTGGTGGTGGT
1 GGAGGAGGAGGTGGTGGT
2869090 GG
1 GG
2869092 TGGTAGTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.68, T:0.18
Consensus pattern (18 bp):
GGAGGAGGAGGTGGTGGT
Found at i:2869440 original size:3 final size:3
Alignment explanation
Indices: 2869427--2869475 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
2869417 GCTGGCGTAA
* * * *
2869427 GAG GTG GAG GAG GAG GAG GAG GAG GAG GAA GAG GAA GAG GAA GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
2869475 G
1 G
2869476 TGGTAGTGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.61, T:0.02
Consensus pattern (3 bp):
GAG
Found at i:2870606 original size:18 final size:18
Alignment explanation
Indices: 2870583--2870938 Score: 261
Period size: 18 Copynumber: 19.8 Consensus size: 18
2870573 ATAGTAAAGA
2870583 TAAAGCT-AAGGCTGAAGC
1 TAAAGCTGAA-GCTGAAGC
** *
2870601 CGAAGCTAAAGCT-AAGGC
1 TAAAGCTGAAGCTGAA-GC
* * *
2870619 TGAAGCCGAAGCTAAAGC
1 TAAAGCTGAAGCTGAAGC
* *
2870637 TAAGGCTGAAGCCGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870655 TAAAGTTGAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870673 TAAAGCTAAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870691 TAAATCT-AAGGCTGAAGC
1 TAAAGCTGAA-GCTGAAGC
** * * * *
2870709 CGAAGCTAAATCTCATGC
1 TAAAGCTGAAGCTGAAGC
* *
2870727 TGAAGCTGAAGCTAAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870745 TAAAGCTGAAGCTAAAGC
1 TAAAGCTGAAGCTGAAGC
* * *
2870763 TGAGGCTGAAACTGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870781 TAAAGCCGAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870799 TAAAGCTGAAGCCGAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870817 TAAAGCTAAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGC
** ** **
2870835 CGAAGCAAAAGCTGGTGC
1 TAAAGCTGAAGCTGAAGC
* * * *
2870853 TGAAGCTAAAGATAAAGC
1 TAAAGCTGAAGCTGAAGC
* *
2870871 TAAAGCTGAAGCCGAAGG
1 TAAAGCTGAAGCTGAAGC
* *
2870889 AAAAGCTGAAGCTAAAGC
1 TAAAGCTGAAGCTGAAGC
*
2870907 AAAAGCT-AATGCTGAAGC
1 TAAAGCTGAA-GCTGAAGC
* *
2870925 TGAAGCTAAAGCTG
1 TAAAGCTGAAGCTG
2870939 GAATAGGAGG
Statistics
Matches: 267, Mismatches: 64, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
17 6 0.02
18 253 0.95
19 8 0.03
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (18 bp):
TAAAGCTGAAGCTGAAGC
Found at i:2870615 original size:42 final size:42
Alignment explanation
Indices: 2870583--2870938 Score: 266
Period size: 42 Copynumber: 8.3 Consensus size: 42
2870573 ATAGTAAAGA
*
2870583 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCT-A-----AAGCTGAAGC
* *
2870631 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGTTGAAGCTGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* ** * * * *
2870673 TAAAGCTAAAGCTGAAGCTAAATCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* * * *
2870715 TAAATCTCATGCTGAAGCTGAAGCTAAAGCTAAAGCTGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* * * **
2870757 TAAAGCTGAGGCTGAAACTGAAGCTAAAGCCGAAGCTGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* ** * *
2870799 TAAAGCTGAA-GCCGAAGCTAAAGCTAAAGCTGAAGCCGAAGC
1 TAAAGCT-AAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* * ** *
2870841 AAAAGCT-GGTGCTGAAGCTAAAGATAAAGCTAAAGCTGAAGC
1 TAAAGCTAAG-GCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
** ** * ** * *
2870883 CGAAGGAAAAGCTGAAGCTAAAGCAAAAGCTAATGCTGAAGC
1 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
* *
2870925 TGAAGCTAAAGCTG
1 TAAAGCTAAGGCTG
2870939 GAATAGGAGG
Statistics
Matches: 256, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
42 225 0.88
43 1 0.00
48 30 0.12
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (42 bp):
TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCTGAAGC
Found at i:2870688 original size:24 final size:24
Alignment explanation
Indices: 2870583--2870937 Score: 277
Period size: 24 Copynumber: 15.3 Consensus size: 24
2870573 ATAGTAAAGA
* *
2870583 TAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* *
2870607 TAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* *
2870631 TAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
2870655 TAAAG-T-----TGAAGCTGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* *
2870673 TAAAGCTAAAGCTGAAGCTAAATC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* * * * *
2870697 TAAGGCTGAAGCCGAAGCTAAATC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* * * *
2870721 TCATGCTGAAGCTGAAGCTAAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* * *
2870745 TAAAGCTGAAGCTAAAGCTGAGGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* * *
2870769 TGAAA-CTGAAGCTAAAGCCGAAGC
1 T-AAAGCTAAAGCTGAAGCTGAAGC
* *
2870793 TGAAGCTAAAGCTGAAGCCGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
*
2870817 TAAAGCTAAAGCTGAAGCCGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
**
2870841 ---A---AAAGCTGGTGCTGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* *
2870859 TAAAGATAAAGCTAAAGCTGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
** ** *
2870883 CGAAGGAAAAGCTGAAGCTAAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
* *
2870907 AAAAGCTAATGCTGAAGCTGAAGC
1 TAAAGCTAAAGCTGAAGCTGAAGC
2870931 TAAAGCT
1 TAAAGCT
2870938 GGAATAGGAG
Statistics
Matches: 277, Mismatches: 40, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
18 30 0.11
19 1 0.00
21 2 0.01
23 3 0.01
24 238 0.86
25 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (24 bp):
TAAAGCTAAAGCTGAAGCTGAAGC
Found at i:2871188 original size:30 final size:30
Alignment explanation
Indices: 2871154--2871224 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
2871144 TAGTGGAGGT
* *
2871154 GGTGGTGGTGGTCACATGCATTTTGGTGGC
1 GGTGGTGGTGGTCACATGCATTTTGCTAGC
* *
2871184 GGTGGTGGTGGTCACATGCGTTTTGCTAGT
1 GGTGGTGGTGGTCACATGCATTTTGCTAGC
2871214 GGTGGTGGTGG
1 GGTGGTGGTGG
2871225 AAGTGGTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.08, C:0.11, G:0.46, T:0.34
Consensus pattern (30 bp):
GGTGGTGGTGGTCACATGCATTTTGCTAGC
Found at i:2871309 original size:30 final size:30
Alignment explanation
Indices: 2871275--2871344 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
2871265 GGTGGAGGAA
*
2871275 GTGGTGGTGGTCACATGCAGTTTGGTGGTG
1 GTGGTGGTGGTCACATGCAGTTTGCTGGTG
*
2871305 GTGGTGGTGGTCACATGCATTTTGCTGGTG
1 GTGGTGGTGGTCACATGCAGTTTGCTGGTG
2871335 GTGGTGGTGG
1 GTGGTGGTGG
2871345 AAGTGGTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.09, C:0.10, G:0.47, T:0.34
Consensus pattern (30 bp):
GTGGTGGTGGTCACATGCAGTTTGCTGGTG
Found at i:2871448 original size:120 final size:120
Alignment explanation
Indices: 2871096--2871425 Score: 516
Period size: 120 Copynumber: 2.8 Consensus size: 120
2871086 CTAGTGGAAA
* * * * *
2871096 TGGTGGTGTAAGTGGTAGCAATAGTGTTGATGGTGGGGCTGAAGGGTATAGTGGAGGTGGTGGTG
1 TGGTGGTGGAAGTGGTAGCAATAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGAGGTGGTG
*
2871161 GTGGTCACATGCATTTTGGTGGCGGTGGTGGTGGTCACATGCGTTTTGCTAGTGG
66 GTGGTCACATGCATTTTGGTGGTGGTGGTGGTGGTCACATGCGTTTTGCTAGTGG
* * *
2871216 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAAGGCATGGTGGAGGAAGTGGTG
1 TGGTGGTGGAAGTGGTAGCAATAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGAGGTGGTG
* * *
2871281 GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTGCTGGTGG
66 GTGGTCACATGCATTTTGGTGGTGGTGGTGGTGGTCACATGCGTTTTGCTAGTGG
* *
2871336 TGGTGGTGGAAGTGGTAGCAATACTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGCGGTGGTG
1 TGGTGGTGGAAGTGGTAGCAATAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGAGGTGGTG
* *
2871401 GTGGTCATATGCATTTTGCTGGTGG
66 GTGGTCACATGCATTTTGGTGGTGG
2871426 CGGCGGTTTT
Statistics
Matches: 190, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 190 1.00
ACGTcount: A:0.16, C:0.08, G:0.45, T:0.30
Consensus pattern (120 bp):
TGGTGGTGGAAGTGGTAGCAATAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGAGGTGGTG
GTGGTCACATGCATTTTGGTGGTGGTGGTGGTGGTCACATGCGTTTTGCTAGTGG
Found at i:2874316 original size:50 final size:50
Alignment explanation
Indices: 2874241--2874338 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
2874231 TATTAATACA
*
2874241 TAGTATAATGTCATTCTCACGACCAAGAATAATTATTAACTCCTATTTCC
1 TAGTATAAAGTCATTCTCACGACCAAGAATAATTATTAACTCCTATTTCC
2874291 TAGTATAAAGTCATTCTCACGACCAAGAATAATTATTAACTCCTATTT
1 TAGTATAAAGTCATTCTCACGACCAAGAATAATTATTAACTCCTATTT
2874339 ACTCAATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (50 bp):
TAGTATAAAGTCATTCTCACGACCAAGAATAATTATTAACTCCTATTTCC
Found at i:2874941 original size:51 final size:51
Alignment explanation
Indices: 2874886--2875012 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
2874876 GATATTAAAT
* *
2874886 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTATAA
1 GATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTAATCTTAGAA
* ** * *
2874937 GATATTATTTTATAAGATTACATATCTTAGATAAGATATGTAATCTTAGAA
1 GATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTAATCTTAGAA
*
2874988 GATATGATTTTATATTCTTAGAGAT
1 GATATGATTTTATAATCTTAGAGAT
2875013 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (51 bp):
GATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTAATCTTAGAA
Found at i:2874982 original size:19 final size:19
Alignment explanation
Indices: 2874909--2874986 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
2874899 AATCTTAGAG
*
2874909 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
2874928 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
2874943 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
2874959 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
2874979 ATCTTAGA
1 ATCTTAGA
2874987 AGATATGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:2880132 original size:51 final size:51
Alignment explanation
Indices: 2880077--2880212 Score: 191
Period size: 51 Copynumber: 2.7 Consensus size: 51
2880067 TGGAAACATG
*
2880077 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * ** * *
2880128 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* *
2880179 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGAT
2880213 TTGATTGTAG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:2880182 original size:19 final size:19
Alignment explanation
Indices: 2880109--2880186 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
2880099 AATCTTAGAG
*
2880109 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
2880128 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
2880143 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
2880159 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
2880179 ATCTTAGA
1 ATCTTAGA
2880187 AGATATGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:2884832 original size:24 final size:24
Alignment explanation
Indices: 2884805--2884852 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2884795 AAGGTGAAGG
*
2884805 TTTGTGTATTCTAAAGGGAATTCT
1 TTTGTGCATTCTAAAGGGAATTCT
2884829 TTTGTGCATTCTAAAGGGAATTCT
1 TTTGTGCATTCTAAAGGGAATTCT
2884853 ACCTAGCAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (24 bp):
TTTGTGCATTCTAAAGGGAATTCT
Found at i:2893000 original size:3 final size:3
Alignment explanation
Indices: 2892992--2893031 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2892982 TTAATAGATG
*
2892992 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2893032 GTAAATATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:2894121 original size:15 final size:15
Alignment explanation
Indices: 2894101--2894129 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2894091 AAATTATATA
2894101 ACCCTATTTGGCAGT
1 ACCCTATTTGGCAGT
2894116 ACCCTATTTGGCAG
1 ACCCTATTTGGCAG
2894130 GAGTTTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (15 bp):
ACCCTATTTGGCAGT
Found at i:2898519 original size:3 final size:3
Alignment explanation
Indices: 2898511--2898571 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
2898501 TTTATTTCAT
*
2898511 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2898559 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
2898572 GTACTTTCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2901495 original size:12 final size:12
Alignment explanation
Indices: 2901478--2901593 Score: 126
Period size: 12 Copynumber: 9.7 Consensus size: 12
2901468 CTCCTCCTAT
2901478 TTCGGCTTTTGC
1 TTCGGCTTTTGC
*
2901490 TTCGGCCTTTGC
1 TTCGGCTTTTGC
* *
2901502 TTCAGCCTTTGC
1 TTCGGCTTTTGC
*
2901514 TTTGGCTTTTGC
1 TTCGGCTTTTGC
2901526 TTCGG-TGTTTGC
1 TTCGGCT-TTTGC
**
2901538 TTCGGCTTCAGC
1 TTCGGCTTTTGC
2901550 TTCGGCTTTTGC
1 TTCGGCTTTTGC
* **
2901562 TTCAGCTTCAGC
1 TTCGGCTTTTGC
2901574 TTCGGCTTTTGC
1 TTCGGCTTTTGC
*
2901586 TTCCGCTT
1 TTCGGCTT
2901594 CAGCTTTGGC
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
11 1 0.01
12 83 0.98
13 1 0.01
ACGTcount: A:0.03, C:0.28, G:0.23, T:0.46
Consensus pattern (12 bp):
TTCGGCTTTTGC
Found at i:2901544 original size:24 final size:24
Alignment explanation
Indices: 2901478--2901605 Score: 143
Period size: 24 Copynumber: 5.3 Consensus size: 24
2901468 CTCCTCCTAT
*
2901478 TTCGGCTTTTGCTTCGGCCTT-TGC
1 TTCGGCTTTTGCTTCGG-CTTCAGC
* * * **
2901502 TTCAGCCTTTGCTTTGGCTTTTGC
1 TTCGGCTTTTGCTTCGGCTTCAGC
2901526 TTCGG-TGTTTGCTTCGGCTTCAGC
1 TTCGGCT-TTTGCTTCGGCTTCAGC
*
2901550 TTCGGCTTTTGCTTCAGCTTCAGC
1 TTCGGCTTTTGCTTCGGCTTCAGC
*
2901574 TTCGGCTTTTGCTTCCGCTTCAGC
1 TTCGGCTTTTGCTTCGGCTTCAGC
*
2901598 TTTGGCTT
1 TTCGGCTT
2901606 CAGCTTCAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.03
24 86 0.96
25 1 0.01
ACGTcount: A:0.04, C:0.27, G:0.23, T:0.45
Consensus pattern (24 bp):
TTCGGCTTTTGCTTCGGCTTCAGC
Found at i:2901545 original size:6 final size:6
Alignment explanation
Indices: 2901536--2901661 Score: 94
Period size: 6 Copynumber: 21.0 Consensus size: 6
2901526 TTCGGTGTTT
* * ** * **
2901536 GCTTCG GCTTCA GCTTCG GCTTTT GCTTCA GCTTCA GCTTCG GCTTTT
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
* ** *
2901584 GCTTCC GCTTCA GCTTTG GCTTCA GCTTCA GCTTTA GCCTTTC- -CTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA G-C-TTCA GCTTCA
* * *
2901632 GCTTTA GCTTTA GCTTCA GCTTCG GCTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
2901662 CCACCACCAC
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
4 3 0.03
5 1 0.01
6 87 0.93
7 1 0.01
8 2 0.02
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.40
Consensus pattern (6 bp):
GCTTCA
Found at i:2901611 original size:24 final size:24
Alignment explanation
Indices: 2901536--2901661 Score: 112
Period size: 24 Copynumber: 5.2 Consensus size: 24
2901526 TTCGGTGTTT
* **
2901536 GCTTCGGCTTCAGCTTCGGCTTTT
1 GCTTCAGCTTCAGCTTCGGCTTCA
**
2901560 GCTTCAGCTTCAGCTTCGGCTTTT
1 GCTTCAGCTTCAGCTTCGGCTTCA
* *
2901584 GCTTCCGCTTCAGCTTTGGCTTCA
1 GCTTCAGCTTCAGCTTCGGCTTCA
*
2901608 GCTTCAGCTTTAGCCTTTC--CTTCA
1 GCTTCAGCTTCAG-C-TTCGGCTTCA
* * * *
2901632 GCTTTAGCTTTAGCTTCAGCTTCG
1 GCTTCAGCTTCAGCTTCGGCTTCA
2901656 GCTTCA
1 GCTTCA
2901662 CCACCACCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.03
23 1 0.01
24 80 0.92
25 1 0.01
26 2 0.02
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.40
Consensus pattern (24 bp):
GCTTCAGCTTCAGCTTCGGCTTCA
Found at i:2901736 original size:12 final size:11
Alignment explanation
Indices: 2901715--2901764 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
2901705 CAGCTTTTGC
*
2901715 TTTTGGTTCAG
1 TTTTGCTTCAG
2901726 TGTTTGCTTCAG
1 T-TTTGCTTCAG
*
2901738 CCTTTGCTTCAG
1 -TTTTGCTTCAG
2901750 CTTTTGCTTCAG
1 -TTTTGCTTCAG
2901762 TTT
1 TTT
2901765 CAGCTTCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.12
12 30 0.88
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.52
Consensus pattern (11 bp):
TTTTGCTTCAG
Found at i:2901766 original size:6 final size:6
Alignment explanation
Indices: 2901743--2901988 Score: 120
Period size: 6 Copynumber: 41.0 Consensus size: 6
2901733 TTCAGCCTTT
** *
2901743 GCTTCA GCTTTT GCTTCA GTTTCA GCTTCA GCTTCA GCCTTTC- -CTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA G-C-TTCA GCTTCA
* * * * * *
2901791 GCTTTA GCTTTA GCTTCA TCTTCG GCTTCA -CTTTTA GCTTCA GCTTTA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GC-TTCA GCTTCA GCTTCA
* * * * * * * * *
2901839 GCTTTA GCTTCA ACTTTA GCTTCT TCTTTA GATTTA GCTTTA GCTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
* * * * * * * * *
2901887 GATTTA GCTTTA GCTTCA TCTTTA ACTTTA GCTTGA GCTTCA TCTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
* * ** * * * * *
2901935 GCTTTA ACTTCA TTTTTA GCTTTA GCTTGA GCTTGA GCTTCA GCTTTA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
2901983 GCTTCA
1 GCTTCA
2901989 TCTTTACCAC
Statistics
Matches: 182, Mismatches: 52, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
4 3 0.02
5 2 0.01
6 172 0.95
7 2 0.01
8 3 0.02
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (6 bp):
GCTTCA
Found at i:2901767 original size:30 final size:30
Alignment explanation
Indices: 2901733--2901808 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
2901723 CAGTGTTTGC
* *
2901733 TTCAGCCTTTGCTTCAGCTTTTGCTTCAG-T
1 TTCAG-CTTTGCTTCAGCCTTTCCTTCAGCT
*
2901763 TTCAGCTTCAGCTTCAGCCTTTCCTTCAGCT
1 TTCAGCTT-TGCTTCAGCCTTTCCTTCAGCT
2901794 TT-AGCTTTAGCTTCA
1 TTCAGCTTT-GCTTCA
2901809 TCTTCGGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.08
30 33 0.85
31 3 0.08
ACGTcount: A:0.13, C:0.29, G:0.14, T:0.43
Consensus pattern (30 bp):
TTCAGCTTTGCTTCAGCCTTTCCTTCAGCT
Found at i:2901767 original size:42 final size:42
Alignment explanation
Indices: 2901703--2901861 Score: 124
Period size: 42 Copynumber: 3.8 Consensus size: 42
2901693 GTCCTCCTAT
** ** *
2901703 TTCAGCTTTTGCTTTTGGTTCAG-TGTTTGCTTCAGCCTTTGC
1 TTCAGCTTTTGCTTCAGGTTCAGCT-TCAGCTTCAGCCTTTCC
*
2901745 TTCAGCTTTTGCTTCAGTTTCAGCTTCAGCTTCAGCCTTTCC
1 TTCAGCTTTTGCTTCAGGTTCAGCTTCAGCTTCAGCCTTTCC
* * * * * * *
2901787 TTCAGCTTTAGCTTTAGCTTCATCTTCGGCTTCA-CTTTTAGC
1 TTCAGCTTTTGCTTCAGGTTCAGCTTCAGCTTCAGCCTTT-CC
* * * * *
2901829 TTCAGCTTTAGCTTTAGCTTCAACTTTAGCTTC
1 TTCAGCTTTTGCTTCAGGTTCAGCTTCAGCTTC
2901862 TTCTTTAGAT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 4 0.04
42 94 0.95
43 1 0.01
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.46
Consensus pattern (42 bp):
TTCAGCTTTTGCTTCAGGTTCAGCTTCAGCTTCAGCCTTTCC
Found at i:2901776 original size:18 final size:18
Alignment explanation
Indices: 2901743--2901986 Score: 163
Period size: 18 Copynumber: 13.6 Consensus size: 18
2901733 TTCAGCCTTT
* *
2901743 GCTTCAGCTTTTGCTTCA
1 GCTTTAGCTTTAGCTTCA
*
2901761 G-TTTCAGCTTCAGCTTCA
1 GCTTT-AGCTTTAGCTTCA
* * *
2901779 GCCTTT-CCTTCAGCTTTA
1 G-CTTTAGCTTTAGCTTCA
* * *
2901797 GCTTTAGCTTCATCTTCG
1 GCTTTAGCTTTAGCTTCA
*
2901815 GCTTCA-CTTTTAGCTTCA
1 GCTTTAGC-TTTAGCTTCA
2901833 GCTTTAGCTTTAGCTTCA
1 GCTTTAGCTTTAGCTTCA
* * *
2901851 ACTTTAGCTTCT-TCTTTA
1 GCTTTAGCTT-TAGCTTCA
*
2901869 GATTTAGCTTTAGCTTCA
1 GCTTTAGCTTTAGCTTCA
*
2901887 GATTTAGCTTTAGCTTCA
1 GCTTTAGCTTTAGCTTCA
* * *
2901905 TCTTTAACTTTAGCTTGA
1 GCTTTAGCTTTAGCTTCA
* * * *
2901923 GCTTCATCTTCAGCTTTA
1 GCTTTAGCTTTAGCTTCA
* * ** *
2901941 ACTTCATTTTTAGCTTTA
1 GCTTTAGCTTTAGCTTCA
* *
2901959 GCTTGAGCTTGAGCTTCA
1 GCTTTAGCTTTAGCTTCA
2901977 GCTTTAGCTT
1 GCTTTAGCTT
2901987 CATCTTTACC
Statistics
Matches: 178, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
17 8 0.04
18 165 0.93
19 2 0.01
20 3 0.02
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (18 bp):
GCTTTAGCTTTAGCTTCA
Found at i:2901869 original size:42 final size:42
Alignment explanation
Indices: 2901739--2901994 Score: 248
Period size: 42 Copynumber: 6.1 Consensus size: 42
2901729 TTGCTTCAGC
* * * * *
2901739 CTTT-GCTTCAGCTTTTGCTTCAGTTTCAGCTTCAGCTTCAGC
1 CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCA-T
* * * * **
2901781 CTTT-CCTTCAGCTTTAGCTTTAGCTTCATCTTCGGCTTCA-
1 CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
* * * *
2901821 CTTTTAGCTTCAGCTTTAGCTTTAGCTTCAACTTTAGCTTCTT
1 C-TTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
* * *
2901864 CTTTAGATTTAGCTTTAGCTTCAGATTTAGCTTTAGCTTCAT
1 CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
* * * *
2901906 CTTTAACTTTAGCTTGAGCTTCATCTTCAGCTTTAACTTCAT
1 CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
* * *
2901948 TTTTAGCTTTAGCTTGAGCTTGAGCTTCAGCTTTAGCTTCAT
1 CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
2901990 CTTTA
1 CTTTA
2901995 CCACTTGCAC
Statistics
Matches: 180, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 175 0.97
43 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (42 bp):
CTTTAGCTTTAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCAT
Found at i:2901993 original size:12 final size:12
Alignment explanation
Indices: 2901731--2901994 Score: 139
Period size: 12 Copynumber: 23.0 Consensus size: 12
2901721 TTCAGTGTTT
2901731 GCTTCAGCCTTT-
1 GCTTCAG-CTTTA
*
2901743 GCTTCAGCTTTT
1 GCTTCAGCTTTA
2901755 GCTTCAG-TTTCA
1 GCTTCAGCTTT-A
*
2901767 GCTTCAGCTTCA
1 GCTTCAGCTTTA
*
2901779 GCCTTTC--CTTCA
1 G-C-TTCAGCTTTA
*
2901791 GCTTTAGCTTTA
1 GCTTCAGCTTTA
* **
2901803 GCTTCATCTTCG
1 GCTTCAGCTTTA
2901815 GCTTCA-CTTTTA
1 GCTTCAGC-TTTA
2901827 GCTTCAGC--T-
1 GCTTCAGCTTTA
2901836 --TT-AGCTTTA
1 GCTTCAGCTTTA
*
2901845 GCTTCAACTTTA
1 GCTTCAGCTTTA
**
2901857 GCTTCTTCTTTA
1 GCTTCAGCTTTA
* *
2901869 GATTTAGCTTTA
1 GCTTCAGCTTTA
*
2901881 GCTTCAGATTTA
1 GCTTCAGCTTTA
* *
2901893 GCTTTAGCTTCA
1 GCTTCAGCTTTA
* * *
2901905 TCTTTAACTTTA
1 GCTTCAGCTTTA
* *
2901917 GCTTGAGCTTCA
1 GCTTCAGCTTTA
*
2901929 TCTTCAGCTTTA
1 GCTTCAGCTTTA
*
2901941 ACTTCA--TTT-
1 GCTTCAGCTTTA
2901950 --TT-AGCTTTA
1 GCTTCAGCTTTA
* *
2901959 GCTTGAGCTTGA
1 GCTTCAGCTTTA
2901971 GCTTCAGCTTTA
1 GCTTCAGCTTTA
*
2901983 GCTTCATCTTTA
1 GCTTCAGCTTTA
2901995 CCACTTGCAC
Statistics
Matches: 193, Mismatches: 38, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
6 4 0.02
7 4 0.02
8 4 0.02
10 6 0.03
11 13 0.07
12 155 0.80
13 4 0.02
14 3 0.02
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (12 bp):
GCTTCAGCTTTA
Found at i:2902220 original size:54 final size:54
Alignment explanation
Indices: 2902145--2902252 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
2902135 TTTAGCTTCA
* * * *
2902145 TCTTTACCACTTGCATTTGTATTACCACTACCATATCCTCCATCTTGTCCTTTT
1 TCTTTACCACTTACATCTGTATCACCACTACCATATCCTCCACCTTGTCCTTTT
* *
2902199 TCTTTACCACTTACATCTGTATCACCACTACCATCTCTTCCACCTTGTCCTTTT
1 TCTTTACCACTTACATCTGTATCACCACTACCATATCCTCCACCTTGTCCTTTT
2902253 ACCCCACCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.19, C:0.34, G:0.05, T:0.43
Consensus pattern (54 bp):
TCTTTACCACTTACATCTGTATCACCACTACCATATCCTCCACCTTGTCCTTTT
Found at i:2902351 original size:210 final size:210
Alignment explanation
Indices: 2901989--2902750 Score: 1168
Period size: 210 Copynumber: 3.6 Consensus size: 210
2901979 TTTAGCTTCA
*
2901989 TCTTTACCACTTGCA-CTTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCGG
1 TCTTTACCACTTGCATC-TGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAG
* *
2902053 AATCATTAGAGCTATCAGTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCT
65 AATCACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCT
* * *
2902118 TCAACTCCATCTTTATCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATATCC
130 TCAACTTCAGCTTTATCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCC
*
2902183 TCCATCTTGTCCTTTT
195 TCCACCTTGTCCTTTT
* * * *
2902199 TCTTTACCACTTACATCTGTATCACCACTACCATCTCTTCCACCTTGTCCTTTTACCCCACCGGA
1 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAGA
* * * * * * * *
2902264 ATCATTAGAGCTGTTATTTCCACCATTATTTTCATCAACCTTTCCCTGCCCTCCAAATTTTCCTT
66 ATCACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCTT
* *
2902329 CAACTTCAGCTTTATCTTTAGCTTCATCTTTACCTCTTGCATTTGTATTACCATTACCATCTCCT
131 CAACTTCAGCTTTATCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCT
*
2902394 CCACCTTTTCCTTTT
196 CCACCTTGTCCTTTT
2902409 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAGA
1 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAGA
* * * * *
2902474 ATCACTAGAGCTGTCACTTCCACCAATATTTCCATCGACATTTCCCTGTCCTCCAAAATTTCCTC
66 ATCACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCTT
* * * *
2902539 CAGCTTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATCTATATTACCACTACCATCTCCT
131 CAACTTCAGCTTTATCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCT
2902604 CCACCTTGT-CTCTTT
196 CCACCTTGTCCT-TTT
* * *
2902619 TCTCTACCACTGGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCTCACCAGA
1 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAGA
* *
2902684 ATAACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCTCTGTCCTCCAAATTTTCCTT
66 ATCACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCTT
2902749 CA
131 CA
2902751 TCTTTACCAC
Statistics
Matches: 502, Mismatches: 48, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
209 2 0.00
210 499 0.99
211 1 0.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (210 bp):
TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTTACCCCACCAGA
ATCACTAGAGCTATCACTTCCACCACTATTTCCATCGACCTTTCCCTGTCCTCCAAATTTTCCTT
CAACTTCAGCTTTATCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCT
CCACCTTGTCCTTTT
Found at i:2902441 original size:54 final size:54
Alignment explanation
Indices: 2902355--2902462 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
2902345 TTTAGCTTCA
* * * *
2902355 TCTTTACCTCTTGCATTTGTATTACCATTACCATCTCCTCCACCTTTTCCTTTT
1 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
2902409 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
1 TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
2902463 ACCCCACCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.16, C:0.35, G:0.05, T:0.44
Consensus pattern (54 bp):
TCTTTACCACTTGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
Found at i:2902642 original size:54 final size:53
Alignment explanation
Indices: 2902569--2902672 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 53
2902559 GCTTCATCTT
*
2902569 TACCACTTGCATCTATATTACCACTACCATCTCCTCCACCTTGTCTCTTTTCTC
1 TACCACTGGCATCTATATTACCACTACCATCTCCTCCACCTTGTC-CTTTTCTC
*
2902623 TACCACTGGCATCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
1 TACCACTGGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTT
2902673 ACCTCACCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.10
54 43 0.90
ACGTcount: A:0.18, C:0.38, G:0.06, T:0.38
Consensus pattern (53 bp):
TACCACTGGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTTCTC
Found at i:2902802 original size:54 final size:54
Alignment explanation
Indices: 2902751--2902912 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
2902741 TTTTCCTTCA
2902751 TCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
1 TCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
* *
2902805 TCTCTATCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
1 TCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
* * * * *
2902859 TCTTTACCGCTGGCGTCTGTATTACCACTACCATCTCCTCCACCTTGTCCTTTT
1 TCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
2902913 ACCCTACCAG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.17, C:0.36, G:0.06, T:0.41
Consensus pattern (54 bp):
TCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTT
Found at i:2903935 original size:3 final size:3
Alignment explanation
Indices: 2903927--2903961 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
2903917 GCTACCACTT
* *
2903927 CCA CCA CCA CCA CCA TCA CCA CTA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
2903962 TCCTCCTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.63, G:0.00, T:0.06
Consensus pattern (3 bp):
CCA
Found at i:2906703 original size:24 final size:24
Alignment explanation
Indices: 2906676--2906725 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2906666 TATGAGGTAC
2906676 CCTCACGCGAAACTACTAAGTTGT
1 CCTCACGCGAAACTACTAAGTTGT
2906700 CCTCACGCGAAACTACTAAGTTGT
1 CCTCACGCGAAACTACTAAGTTGT
2906724 CC
1 CC
2906726 AACTTCGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (24 bp):
CCTCACGCGAAACTACTAAGTTGT
Found at i:2908056 original size:16 final size:17
Alignment explanation
Indices: 2908029--2908063 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2908019 TTCAGGTGGG
*
2908029 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
2908046 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
2908062 TT
1 TT
2908064 AAATTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:2908656 original size:20 final size:20
Alignment explanation
Indices: 2908628--2908677 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2908618 GGGCACACGC
*
2908628 CCATGTGGCCTGGGACATGG
1 CCATGTGGCCTGGAACATGG
*
2908648 CCGTGTGGCCTGGAACATGG
1 CCATGTGGCCTGGAACATGG
2908668 CCATGTGGCC
1 CCATGTGGCC
2908678 AGGCCATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.28, G:0.38, T:0.20
Consensus pattern (20 bp):
CCATGTGGCCTGGAACATGG
Found at i:2913885 original size:25 final size:25
Alignment explanation
Indices: 2913839--2913890 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
2913829 TGCCAAAATA
* * *
2913839 TATAGTGCAGGTATACCGCCAGAAT
1 TATAGTGCAGATAAACCACCAGAAT
*
2913864 TATAGTGCAGATAAACTACCAGAAT
1 TATAGTGCAGATAAACCACCAGAAT
2913889 TA
1 TA
2913891 GACTTCCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (25 bp):
TATAGTGCAGATAAACCACCAGAAT
Found at i:2918982 original size:6 final size:6
Alignment explanation
Indices: 2918971--2918995 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2918961 ATTAAAAATA
2918971 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
2918996 AAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:2919118 original size:33 final size:30
Alignment explanation
Indices: 2919066--2919134 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 30
2919056 TTTGGCCATA
*
2919066 TAATACATTATTAATATTTCAATTTATTATTT
1 TAATAAATTATTAATATTTCAA-TT-TTATTT
2919098 TAATAAATTATTTAATATTTCAATTTTATTT
1 TAATAAATTA-TTAATATTTCAATTTTATTT
2919129 TAATAA
1 TAATAA
2919135 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 12 0.34
32 11 0.31
33 12 0.34
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATAAATTATTAATATTTCAATTTTATTT
Found at i:2919141 original size:13 final size:14
Alignment explanation
Indices: 2919125--2919166 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
2919115 TTTCAATTTT
2919125 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
2919138 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
2919153 ATTTTAAATAATAT
1 ATTTT-AATAATAT
2919167 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:2919151 original size:16 final size:16
Alignment explanation
Indices: 2919129--2919165 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2919119 AATTTTATTT
2919129 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
2919146 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
2919161 TAATA
1 TAATA
2919166 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:2919228 original size:19 final size:19
Alignment explanation
Indices: 2919201--2919237 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2919191 CAACATTAAA
*
2919201 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
2919220 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
2919238 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:2919250 original size:15 final size:16
Alignment explanation
Indices: 2919186--2919250 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 16
2919176 ATTATTGAAA
* *
2919186 ATATTCAACATTAAAT
1 ATATTCAATAATAAAT
2919202 AT-TTCAATAATAAAT
1 ATATTCAATAATAAAT
*
2919217 ATTTATTACAATTATAAAT
1 A--TATT-CAATAATAAAT
2919236 ATATT-AATAATAAAT
1 ATATTCAATAATAAAT
2919251 GTTTTGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 21 0.51
16 2 0.05
17 5 0.12
18 2 0.05
19 11 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTCAATAATAAAT
Found at i:2919725 original size:14 final size:14
Alignment explanation
Indices: 2919706--2919744 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2919696 CCAGAAAAGT
2919706 AAATCATTTTCTAG
1 AAATCATTTTCTAG
2919720 AAATCATATTT-TAG
1 AAATCAT-TTTCTAG
*
2919734 AAGTCATTTTC
1 AAATCATTTTC
2919745 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:2923337 original size:66 final size:66
Alignment explanation
Indices: 2923258--2923404 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
2923248 CAAGTCACCT
*
2923258 CTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGGCCTCCTACTCCA-CTAGCAACATTAG
1 CTACCACTTCCACCACCTTTTCCACCAAACCCACCTTGGCCTCCTACTCCACCTA-CAACATTAG
2923322 CG
65 CG
** * * * *
2923324 CTACCACTTCCACCACCTTTTCCACCAAACTGACCTTGTCCTCTTACTCCACCTATAACATTAGT
1 CTACCACTTCCACCACCTTTTCCACCAAACCCACCTTGGCCTCCTACTCCACCTACAACATTAGC
2923389 G
66 G
2923390 CTACCACTTCCACCA
1 CTACCACTTCCACCA
2923405 AACCCTCCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 70 0.96
67 3 0.04
ACGTcount: A:0.24, C:0.44, G:0.06, T:0.27
Consensus pattern (66 bp):
CTACCACTTCCACCACCTTTTCCACCAAACCCACCTTGGCCTCCTACTCCACCTACAACATTAGC
G
Found at i:2923466 original size:120 final size:127
Alignment explanation
Indices: 2923262--2924164 Score: 812
Period size: 132 Copynumber: 6.8 Consensus size: 127
2923252 TCACCTCTAC
* ** *
2923262 CACTTCCACCACCTTTTCCACCAAACCCTCCTTGGCCTCCTACTCCACTAGCAACATTAGCGCTA
1 CACTT-CACCATC-TTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGCTA
*** * * *
2923327 CCACTTCCACCACCTTTTCCACCAAACTGACCTTGTCCTCTTACTCCACCTA-TAACATTAG-T
64 CCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTAGCT
* * * *
2923389 -GC-T-ACCA-C-TTCCACCAAACCCTCCTTTCCCTCCTATTCCACCAGCAACATTAGCGTTGCC
1 CACTTCACCATCTTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGCTACC
* *
2923449 ACTTCCACCACTTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCA-TTAGCAACATTAGCACT
66 ACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTAG--CT
* *
2923512 ACCACTTCCACCATCTTTTCCACCAAACCCTTCTTTCCCTCCTACTCCACCAGCAACATTAGCAC
1 --CACTT-CACCATC-TTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGC
2923577 TACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACC-AGCAACATTAGC
62 TACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTAG-
2923641 TCTAT
126 -C--T
* * * *
2923646 CACTTGCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCACCAAATCCACCAGCA
1 CACTT---C-ACCA--T-------C-TTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCA
* * ** * * *
2923711 ATATTAGCGCTACCAGTTCCACCACCTTTTCCACCAAATTCTCCTTTCCCTCCAAATCCACC-AG
52 ACATTAGCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAG
2923775 CAACATTAGCACTGCCACCT
117 CAACATT---A--G----CT
* * *
2923795 CCACTTCCACCACCTTTACCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGTGCT
1 -CACTT-CACCATCTTT-CCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGCT
* * *
2923860 ACCACTTCCACTACCTTTTCCATCAAACCCTCCTTGCCCTCCTACTCCACC-AACAACATTAGCG
63 ACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTA--G
2923924 CT
126 CT
* * * *
2923926 ACTACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGTGC
1 -C-ACTT-CACCATC-TTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGC
2923991 TACCACTTCCACCACCTTTTCCACCAAACCCTCCTTG---TCCTACTCCACC-AGCAACATTAGC
62 TACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTA--
2924052 GCT
125 GCT
* * * * * *
2924055 ACCACTTCCACCACCTTTTCCTCCAAATCCTCCTTGCCCTCCTACTCCACCAGCAATATTA-CTA
1 --CACTT-CACCATC-TTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGC-G
* *
2924119 TTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTA
61 CTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTA
2924165 TGTTACCTCC
Statistics
Matches: 661, Mismatches: 71, Indels: 83
0.81 0.09 0.10
Matches are distributed among these distances:
119 2 0.00
120 94 0.14
122 1 0.00
123 5 0.01
125 1 0.00
126 2 0.00
127 1 0.00
129 121 0.18
130 2 0.00
131 3 0.00
132 207 0.31
133 3 0.00
134 2 0.00
135 6 0.01
137 4 0.01
138 94 0.14
144 99 0.15
147 5 0.01
148 1 0.00
149 2 0.00
150 5 0.01
151 1 0.00
ACGTcount: A:0.24, C:0.45, G:0.05, T:0.26
Consensus pattern (127 bp):
CACTTCACCATCTTTCCACCAAACCCTCCTTTCCCTCCTACTCCACCAGCAACATTAGCGCTACC
ACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCTAGCAACATTAGCT
Found at i:2923467 original size:66 final size:66
Alignment explanation
Indices: 2923397--2924164 Score: 1004
Period size: 66 Copynumber: 11.4 Consensus size: 66
2923387 GTGCTACCAC
* * * * *
2923397 TTCCACCAAACCCTCCTTTCCCTCCTATTCCACCAGCAACATTAGCGTTGCCACTTCCACCACTT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923462 T
66 T
** * *
2923463 TTCCACCAAACCCTCCTTGCCCTCCTACTCCATTAGCAACATTAGCACTACCACTTCCACCATCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923528 T
66 T
* * *
2923529 TTCCACCAAACCCTTCTTTCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923594 T
66 T
2923595 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCTCTATCACTTGCGCTACCA
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAC---A----T-T-A---GCGCTACCA
2923660 CTTCCACCACCTT
54 CTTCCACCACCTT
* * * * *
2923673 TTCCACCAAACCCTCCTTGCCCACCAAATCCACCAGCAATATTAGCGCTACCAGTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923738 T
66 T
** * * * *
2923739 TTCCACCAAATTCTCCTTTCCCTCCAAATCCACCAGCAACATTAGCACTGCCACCTCCACTTCCA
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAG--C-GCTA---CCACTTCCA
2923804 CCACCTT
60 CCACCTT
* * *
2923811 TACCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGTGCTACCACTTCCACTACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923876 T
66 T
* * *
2923877 TTCCATCAAACCCTCCTTGCCCTCCTACTCCACCAACAACATTAGCGCTACTACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2923942 T
66 T
* *
2923943 TTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGTGCTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2924008 T
66 T
2924009 TTCCACCAAACCCTCCTTG---TCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
2924071 T
66 T
* * * **
2924072 TTCCTCCAAATCCTCCTTGCCCTCCTACTCCACCAGCAATATTA-CTATTACCACTTCCACCACC
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGC-GCTACCACTTCCACCACC
2924136 TT
65 TT
*
2924138 TTCCACCAAACCCTCCTTGTCCTCCTA
1 TTCCACCAAACCCTCCTTGCCCTCCTA
2924165 TGTTACCTCC
Statistics
Matches: 621, Mismatches: 59, Indels: 44
0.86 0.08 0.06
Matches are distributed among these distances:
63 60 0.10
65 1 0.00
66 434 0.70
68 1 0.00
69 8 0.01
70 1 0.00
71 1 0.00
72 54 0.09
73 1 0.00
74 1 0.00
75 2 0.00
78 57 0.09
ACGTcount: A:0.24, C:0.46, G:0.05, T:0.26
Consensus pattern (66 bp):
TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
T
Found at i:2923840 original size:348 final size:329
Alignment explanation
Indices: 2923258--2924164 Score: 1105
Period size: 348 Copynumber: 2.7 Consensus size: 329
2923248 CAAGTCACCT
* * * *
2923258 CTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGGCCTCCTACTCCACTAGCAACATTAGC
1 CTACCACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGT
*** *
2923323 GCTACCACTTCCACCACCTTTTCCACCAAACTGACCTTGTCCTCTTACTCCACCTA-TAACATTA
66 GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCC-C--ACTCCACC-AGCAACATTA
* * *
2923387 --G-T---GC-T--ACCA-C--TTCCACCAAACCCTCCTTTCCCTCCTATTCCACCAGCAACATT
127 GCGCTACCACTTCCACCACCTTTTCCACCAAATCCTCCTTTCCCTCCTAATCCACCAGCAACATT
** * **
2923440 AGCGTTG--CCACTTCCACCACTTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCATTAGCAAC
192 AGCACTGATCCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAC
* * * *
2923503 ATTAGCACTACCACTTCCACCATCTTTTCCACCAAACCCTTCTTTCCCTCCTACTCCACCAGCAA
257 ATTAGCACTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAACAA
2923568 CATTAGCA
322 CATTAGCA
*
2923576 CTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGC
1 CTACCACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAG-
2923641 TCTATCACTTGCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTG-CCCACCAAATCCA
65 ---------T--GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCCA-C---TCCA
* * * *
2923705 CCAGCAATATTAGCGCTACCAGTTCCACCACCTTTTCCACCAAATTCTCCTTTCCCTCCAAATCC
115 CCAGCAACATTAGCGCTACCACTTCCACCACCTTTTCCACCAAATCCTCCTTTCCCTCCTAATCC
*
2923770 ACCAGCAACATTAGCACTGCCACCTCCACTTCCACCACCTTTACCACCAAACCCTCCTTGCCCTC
180 ACCAGCAACATTAGCACTG--A--TCCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTC
** * *
2923835 CTACTCCACCAGCAACATTAGTGCTACCACTTCCACTACCTTTTCCATCAAACCCTCCTTGCCCT
241 CTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCT
*
2923900 CCTACTCCACCAACAACATTAGCG
306 CCTACTCCACCAACAACATTAGCA
*
2923924 CTACTACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGT
1 CTACCACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGT
*
2923989 GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTACTCCACCAGCAACATTAGCGC
66 GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCCACTCCACCAGCAACATTAGCGC
* * * *
2924054 TACCACTTCCACCACCTTTTCCTCCAAATCCTCCTTGCCCTCCTACTCCACCAGCAATATTA-CT
131 TACCACTTCCACCACCTTTTCCACCAAATCCTCCTTTCCCTCCTAATCCACCAGCAACATTAGC-
* *
2924118 A-TTA-CCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTA
195 ACTGATCCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTA
2924165 TGTTACCTCC
Statistics
Matches: 509, Mismatches: 43, Indels: 65
0.82 0.07 0.11
Matches are distributed among these distances:
318 62 0.12
326 1 0.00
327 42 0.08
328 1 0.00
329 3 0.01
330 49 0.10
332 3 0.01
333 76 0.15
336 40 0.08
337 4 0.01
338 1 0.00
339 4 0.01
340 1 0.00
342 44 0.09
348 178 0.35
ACGTcount: A:0.24, C:0.45, G:0.05, T:0.26
Consensus pattern (329 bp):
CTACCACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATTAGT
GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCCACTCCACCAGCAACATTAGCGC
TACCACTTCCACCACCTTTTCCACCAAATCCTCCTTTCCCTCCTAATCCACCAGCAACATTAGCA
CTGATCCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
GCACTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAACAACATT
AGCA
Found at i:2924124 original size:129 final size:129
Alignment explanation
Indices: 2923651--2924160 Score: 682
Period size: 129 Copynumber: 3.9 Consensus size: 129
2923641 TCTATCACTT
* * * *
2923651 GCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCACCAAATCCACCAGCAATATT
1 GCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
* ** *
2923716 AGC-GCTACCAGTTCCACCACCTTTTCCACCAAATTCTCCTT-TCCCTCCAAATCCACCAGCAAC
66 A-CTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGT-CCT---ACTCCACCAGCAAC
2923779 ATTA
126 ATTA
* *
2923783 GCACTGCCACCTCCACTTCCACCACCTTTACCACCAAACCCTCCTTGCCCTCCTACTCCACCAGC
1 G--C-GCTA---CCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGC
* * * *
2923848 AACATTAGTGCTACCACTTCCACTACCTTTTCCATCAAACCCTCCTTGCCCTCCTACTCCACCAA
60 AACATTACTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTG---TCCTACTCCACCAG
2923913 CAACATTA
122 CAACATTA
* *
2923921 GCGCTACTACTTCCACCACCTTTTCCACCAAACCCCCCTTGCCCTCCTACTCCACCAGCAACATT
1 GCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
*
2923986 AGTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTACTCCACCAGCAACATTA
66 ACTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTACTCCACCAGCAACATTA
* * *
2924050 GCGCTACCACTTCCACCACCTTTTCCTCCAAATCCTCCTTGCCCTCCTACTCCACCAGCAATATT
1 GCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
**
2924115 ACTATTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCT
66 ACTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCT
2924161 CCTATGTTAC
Statistics
Matches: 338, Mismatches: 29, Indels: 25
0.86 0.07 0.06
Matches are distributed among these distances:
129 124 0.37
132 97 0.29
134 1 0.00
135 6 0.02
136 1 0.00
138 105 0.31
141 3 0.01
142 1 0.00
ACGTcount: A:0.24, C:0.46, G:0.05, T:0.25
Consensus pattern (129 bp):
GCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
ACTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTACTCCACCAGCAACATTA
Found at i:2924206 original size:90 final size:90
Alignment explanation
Indices: 2924101--2924376 Score: 444
Period size: 90 Copynumber: 3.1 Consensus size: 90
2924091 CCCTCCTACT
***
2924101 CCACCAGCAATATTACTATTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
1 CCACCAGCAATATTACCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
*
2924166 GTTACCTCCAAATCCAACACTTTTA
66 ATTACCTCCAAATCCAACACTTTTA
* * ** *
2924191 CCACCAGCAATATTACCGCTACTACTTCCATCACCTTTTTGACCAAATCCTCCTTGTCCTCCTAT
1 CCACCAGCAATATTACCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
2924256 ATTACCTCCAAATCCAACACTTTTA
66 ATTACCTCCAAATCCAACACTTTTA
*
2924281 CCACCAGCAATATTACCGCTGCCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
1 CCACCAGCAATATTACCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
* *
2924346 ATTACCTCCAACTCCAACACCTTTA
66 ATTACCTCCAAATCCAACACTTTTA
2924371 CCACCA
1 CCACCA
2924377 CCTCTTGCTA
Statistics
Matches: 169, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 169 1.00
ACGTcount: A:0.26, C:0.41, G:0.04, T:0.29
Consensus pattern (90 bp):
CCACCAGCAATATTACCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTCCTAT
ATTACCTCCAAATCCAACACTTTTA
Found at i:2925681 original size:6 final size:6
Alignment explanation
Indices: 2925670--2925701 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2925660 ATTAAGCCTT
*
2925670 TTTTCC TTTTCC TTTTCC TTTTCA TTTTCC TT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TT
2925702 CTAAGGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCC
Found at i:2926812 original size:17 final size:18
Alignment explanation
Indices: 2926799--2926923 Score: 91
Period size: 19 Copynumber: 6.9 Consensus size: 18
2926789 TAATCTTCAA
2926799 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
2926818 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
2926835 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
2926854 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
2926870 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
* *
2926889 TGAT-TGCAATATTAGATA
1 TGATATGCAATCTTAGA-G
*
2926907 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
2926924 AGATATGATT
Statistics
Matches: 89, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.27
18 27 0.30
19 29 0.33
20 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:2926868 original size:35 final size:35
Alignment explanation
Indices: 2926806--2926923 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
2926796 CAATGATATG
*
2926806 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
2926842 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
2926877 CAATCTTAGATATGATTGCAATATTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
2926914 CAATCTTAGA
1 CAATCTTAGA
2926924 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:2927436 original size:18 final size:17
Alignment explanation
Indices: 2927412--2927471 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
2927402 CCAATATATT
2927412 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
2927429 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
2927445 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
2927463 TTATATTTT
1 TTATATTTT
2927472 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:2927456 original size:15 final size:16
Alignment explanation
Indices: 2927413--2927471 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
2927403 CAATATATTT
2927413 TATATTTTTTATATAA
1 TATATTTTTTATATAA
2927429 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
2927445 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
2927463 TTATATTTT
1 -TATATTTT
2927472 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:2927496 original size:26 final size:26
Alignment explanation
Indices: 2927448--2927497 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
2927438 TTATAAATAT
* * * *
2927448 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
2927474 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
2927498 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:2932937 original size:66 final size:66
Alignment explanation
Indices: 2932854--2933036 Score: 159
Period size: 66 Copynumber: 2.8 Consensus size: 66
2932844 TCCACTAGAA
* * * ** * * *
2932854 CCTCCTTACCCTACTACTCTACCAGCAACATTAATACTACCACTGCCACTACCTTCTCCACCAAA
1 CCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTTTTCCACCAAA
*
2932919 T
66 C
* * * * * * *
2932920 CCTCTTTGTCCTTCTACTCCACTAACAACATTAGCGCTACCACTTTCACCACCTTTTCCACCAAA
1 CCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTTTTCCACCAAA
2932985 C
66 C
* ** ** * *
2932986 CCTCTTTGTTCTCCTACTCCACCAATAACATTAGTACTACCACTTCTACCA
1 CCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCA
2933037 AACCCTCCTT
Statistics
Matches: 94, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
66 94 1.00
ACGTcount: A:0.26, C:0.40, G:0.04, T:0.30
Consensus pattern (66 bp):
CCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTTTTCCACCAAA
C
Found at i:2933781 original size:66 final size:66
Alignment explanation
Indices: 2933033--2933773 Score: 867
Period size: 66 Copynumber: 11.2 Consensus size: 66
2933023 TACCACTTCT
* * * * *
2933033 ACCAAACCCTCCTTTCCCTCCTATTCCACTAGCAACATTAGCGTTGCCACTTCCACCACCTTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933098 C
66 C
* * * * * *
2933099 ACCAAACCCTCATTGCCCTCTTACTCCACTAGCAAAATTTGCGCTACCACTTCCACCACATTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933164 C
66 C
* * * * * *
2933165 ACCAAACCCTCCTTGCCCTGCTACTCCACAAGCAAAATTTGTGCTACCACTTCCACCACATTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933230 C
66 C
* * * * * * *
2933231 ACCAAACCTTCATTGCCCTCCTATTCCACCACCAACATTAGCGCTACTAGTTCCACCACTTTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933296 C
66 C
* * * * * * * *
2933297 ACCAAACTCTCTTTTCCCTCCTAATCCACCAGTAACATTAACACTACCACTTCTACCACC-TTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933361 TC
66 -C
* * * * * *
2933363 ACCCAACCCTCCTTGCCCTTCTACTCCGCCAGCAACATTAGTGCTACCACTTCCACTACCGTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933428 C
66 C
* ** *
2933429 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAATATTAGCATTACCACTTCCACTACCTTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933494 C
66 C
* * * * ** * **
2933495 ACCAAACCCTCCTTACGCTCCTACTCTACCAGCAACATTAACATTAACACTTCCACCATTTTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933560 C
66 C
* * * *
2933561 ACCAAACCC-CCATTGCCCTCCTACTCTACCAACGACATTAGCACTACCACTTCCACCACCTTTT
1 ACCAAACCCTCC-TTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTT
2933625 CC
65 CC
* * * * *
2933627 ACCAAACCCTCATTGCCCTCCTACTCTACCAACAACATTAGCGTTACCACTTCCACCACATTTTC
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
2933692 C
66 C
* * *
2933693 TCCAAACCCTCCTTGCCTTCCTACTCCACCAGCAACATT-GCCACTACCACTTCCACCACCTTTT
1 ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAG-CGCTACCACTTCCACCACCTTTT
2933757 CC
65 CC
2933759 ACCAAACCCTCCTTG
1 ACCAAACCCTCCTTG
2933774 TCTTCCTATA
Statistics
Matches: 578, Mismatches: 92, Indels: 10
0.85 0.14 0.01
Matches are distributed among these distances:
65 7 0.01
66 566 0.98
67 5 0.01
ACGTcount: A:0.25, C:0.43, G:0.05, T:0.27
Consensus pattern (66 bp):
ACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCTTTTC
C
Found at i:2933815 original size:132 final size:128
Alignment explanation
Indices: 2932910--2933815 Score: 531
Period size: 132 Copynumber: 7.0 Consensus size: 128
2932900 CACTACCTTC
* * * * * * * *
2932910 TCCACCAAATCCTCTTTGTCCTTCTACTCCACTAACAACATTAGCGCTACCACTTTCACCACCTT
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
* * ** *
2932975 TTCCACCAAACCCTCTTTGTTCTCCTA--CT-CC-ACCAAT-AACA--TTAGTACTACCAC---T
66 TTCCACCAAACCCTCCTTG--CTCCTACTCTACCAACAAATCAACACTTTACCACCACCACATTT
* * * * ** *
2933030 TCTACCAAACCCTCCTTTCCCTCCTATTCCACTAGCAACATTAGCGTTGCCACTTCCACCACCTT
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
* * * * * *** *
2933095 TTCCACCAAACCCTCATTGCCCTCTTACTCCACTAGCAAAATTTGCGC--TACCACTTCCACCAC
66 TTCCACCAAACCCTCCTTG--CTCCTACTCTACCAAC-AAATCAACACTTTACCA---CCACCAC
2933158 ATTT
125 ATTT
* * * * ** *
2933162 TCCACCAAACCCTCCTTGCCCTGCTACTCCACAAGCAAAATTTGTGCTACCACTTCCACCACATT
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
* * * * * * * * * *** *
2933227 TTCCACCAAACCTTCATTGCCCTCCTATTCCACCACCAACATTAGCGCTACTAGTTCCACCACTT
66 TTCCACCAAACCCTCCTTG--CTCCTACTCTACCAACAA-ATCAACACT-TTACCACCACCACAT
2933292 TT
127 TT
* * * * * * *
2933294 TCCACCAAACTCTCTTTTCCCTCCTAATCCACCAGTAACATTAACACTACCACTTCTACCACC-T
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
* * ** * ** * * *
2933358 TTCTCACCCAACCCTCCTTGCCCTTCTACTCCGCCAGC-AA-CATTAGTGCTACCACTTCCACTA
66 TTC-CACCAAACCCTCCTTG--CTCCTACTCTACCAACAAATCAACACT-TTACCA---CCACCA
**
2933421 CCGTT
124 CATTT
* * *
2933426 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAATATTAGCATTACCACTTCCACTACCTT
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
* * * * **
2933491 TTCCACCAAACCCTCCTTACGCTCCTACTCTACCAGCAACATTAACA-TTAACACTTCCACCATT
66 TTCCACCAAACCCTCCTT--GCTCCTACTCTACCAACAA-ATCAACACTTTAC-C-ACCACCACA
2933555 TTT
126 TTT
* * *
2933558 TCCACCAAACCC-CCATTGCCCTCCTACTCTACCAACGACATTAGCACTACCACTTCCACCACCT
1 TCCACCAAACCCTCC-TTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCT
* * * *
2933622 TTTCCACCAAACCCTCATTGCCCTCCTACTCTACCAACAACAT-TA-GCGTTACCACTTCCACCA
65 TTTCCACCAAACCCTCCTTG--CTCCTACTCTACCAACAA-ATCAACACTTTACCA---CCACCA
2933685 CATTT
124 CATTT
* *
2933690 TCCTCCAAACCCTCCTTGCCTTCCTACTCCACCAGCAACATT-GCCACTACCACTTCCACCACCT
1 TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAG-CACTACCACTTCCACCACCT
* **
2933754 TTTCCACCAAACCCTCCTTGTCTTCCTA-TATTACCTCCAAATCCAACACCTTTACCACCACC
65 TTTCCACCAAACCCTCCTTG-C-TCCTACT-CTACCAACAAAT-CAACA-CTTTACCACCACC
2933816 TCCTGCTACA
Statistics
Matches: 611, Mismatches: 131, Indels: 76
0.75 0.16 0.09
Matches are distributed among these distances:
120 77 0.13
122 1 0.00
123 1 0.00
124 1 0.00
125 3 0.00
126 4 0.01
129 11 0.02
130 3 0.00
131 18 0.03
132 467 0.76
133 10 0.02
134 4 0.01
135 11 0.02
ACGTcount: A:0.25, C:0.43, G:0.05, T:0.28
Consensus pattern (128 bp):
TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTACCACTTCCACCACCTT
TTCCACCAAACCCTCCTTGCTCCTACTCTACCAACAAATCAACACTTTACCACCACCACATTT
Found at i:2934216 original size:11 final size:11
Alignment explanation
Indices: 2934200--2934224 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2934190 TACCATTTGA
2934200 TTTTTTTTCTT
1 TTTTTTTTCTT
2934211 TTTTTTTTCTT
1 TTTTTTTTCTT
2934222 TTT
1 TTT
2934225 CTCATTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:2935420 original size:21 final size:20
Alignment explanation
Indices: 2935387--2935426 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2935377 TAATTTTTCG
2935387 ATATTCGATAATAAATAAAA
1 ATATTCGATAATAAATAAAA
* *
2935407 ATATTTGATTAATAATTAAA
1 ATATTCGA-TAATAAATAAA
2935427 TTGGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATTCGATAATAAATAAAA
Found at i:2935605 original size:17 final size:17
Alignment explanation
Indices: 2935563--2935605 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2935553 CAATAATTTT
*
2935563 TATTAAAAAGTTAAAAA
1 TATTAAAAAATTAAAAA
*
2935580 T-TCATAAAAATTAAAAA
1 TATTA-AAAAATTAAAAA
2935597 TATTAAAAA
1 TATTAAAAA
2935606 GTTTTTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TATTAAAAAATTAAAAA
Found at i:2938793 original size:21 final size:23
Alignment explanation
Indices: 2938755--2938804 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2938745 TATTATTAAA
2938755 AATTTTTTAACACTAAAAAAGAT-
1 AATTTTTTAACAC-AAAAAAGATC
*
2938778 AATTTTTTAATA-AAAAAAGATC
1 AATTTTTTAACACAAAAAAGATC
2938800 AATTT
1 AATTT
2938805 ACTTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 5 0.20
23 11 0.44
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (23 bp):
AATTTTTTAACACAAAAAAGATC
Found at i:2942358 original size:146 final size:146
Alignment explanation
Indices: 2942094--2942384 Score: 417
Period size: 146 Copynumber: 2.0 Consensus size: 146
2942084 GTCCAAATAT
* * * *
2942094 GCTATCAACCCCAAGACTGCTTTTGCCTATTTAAACACAATTCAATCATTCAACATTAGAATACT
1 GCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAATTCAATCATTCAACATTACAACACT
** * * *
2942159 TGATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTCCACACTA
66 CAATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACAAACCA
2942224 ACAAATTCAAACAAAA
131 ACAAATTCAAACAAAA
**
2942240 GCTATCAACCCCAAGACTGCTGTT-CC-AATTAAA-ACAATTTTCAATCATTCAGTATTACAACA
1 GCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAA--TTCAATCATTCAACATTACAACA
* *
2942302 CTCAATTTCTACTTAAAAATCCAGCAACAATACAAGCACATAAGTAGATTATTCATCCCTACAAA
64 CTCAATTTCGACTT-AAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACAAA
2942367 CCAACAAATTCAAACAAA
128 CCAACAAATTCAAACAAA
2942385 TGAGAATAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
143 4 0.03
144 6 0.05
145 32 0.25
146 87 0.67
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (146 bp):
GCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAATTCAATCATTCAACATTACAACACT
CAATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACAAACCA
ACAAATTCAAACAAAA
Found at i:2943711 original size:23 final size:22
Alignment explanation
Indices: 2943685--2943728 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
2943675 TTTTTATTTT
* *
2943685 TTTTTCTTGAATTTTTTAGAAAA
1 TTTTGCTTAAATTTTTT-GAAAA
*
2943708 TTTTGGTTAAATTTTTTGAAA
1 TTTTGCTTAAATTTTTTGAAA
2943729 GTCCTCATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTGCTTAAATTTTTTGAAAA
Found at i:2945526 original size:20 final size:20
Alignment explanation
Indices: 2945497--2945553 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
2945487 AAATTATGAA
2945497 ATTTTAGAATTTTTTATAAA-T
1 ATTTT-GAATTTTTTA-AAATT
*
2945518 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTTAAAATT
2945538 ATTTTGAATTATTTTA
1 ATTTTGAATT-TTTTA
2945554 GATTTTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.09
20 20 0.62
21 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:2945777 original size:23 final size:25
Alignment explanation
Indices: 2945726--2945778 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
2945716 AGTTAACTCA
*
2945726 AAAAATTGAATAACTCGAATAATTC
1 AAAATTTGAATAACTCGAATAATTC
*
2945751 --AATTTGATTAACTCG-A-AATTC
1 AAAATTTGAATAACTCGAATAATTC
2945772 AAAATTT
1 AAAATTT
2945779 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 5 0.21
22 1 0.04
23 18 0.75
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (25 bp):
AAAATTTGAATAACTCGAATAATTC
Found at i:2947079 original size:17 final size:17
Alignment explanation
Indices: 2947059--2947092 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2947049 AAATTTAGGT
2947059 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
2947076 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
2947093 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:2948934 original size:22 final size:21
Alignment explanation
Indices: 2948901--2948949 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
2948891 TCATATATAC
2948901 ATTTT-TAGTTTTAT-ATTTAT
1 ATTTTATAGTTTTATAATTT-T
2948921 ATTTTATAGTTTTTATAATTTT
1 ATTTTATAG-TTTTATAATTTT
2948943 ATTTTAT
1 ATTTTAT
2948950 TTAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 14 0.54
23 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
ATTTTATAGTTTTATAATTTT
Found at i:2949384 original size:23 final size:25
Alignment explanation
Indices: 2949340--2949390 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
2949330 CCTTTATTTT
*
2949340 AAATATTAACAAAATTATAATTATA
1 AAATATTAACAAAATTAAAATTATA
2949365 AAATATTAA-AAAA-TAAAATTATA
1 AAATATTAACAAAATTAAAATTATA
2949388 AAA
1 AAA
2949391 CCAAAACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.48
24 4 0.16
25 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATATTAACAAAATTAAAATTATA
Found at i:2950447 original size:18 final size:17
Alignment explanation
Indices: 2950371--2950448 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 17
2950361 AAATTTGGAA
*
2950371 TTTTTATA-TTTACTAT
1 TTTTTATATTTTAATAT
2950387 TTTTTAATAAATATTTAATAT
1 TTTTT-AT--AT-TTTAATAT
* * *
2950408 TATTTTTTATTTTTATAA
1 T-TTTTATATTTTAATAT
2950426 TTTTTATACTTTTAATAT
1 TTTTTATA-TTTTAATAT
2950444 TTTTT
1 TTTTT
2950449 GAATTGTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 5 0.10
17 8 0.17
18 19 0.40
19 3 0.06
21 9 0.19
22 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTAATAT
Found at i:2950565 original size:22 final size:20
Alignment explanation
Indices: 2950498--2950566 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
2950488 AAACTTTGGA
*
2950498 AATTTTT-AATAAT-TCTTT
1 AATTTTTAAATAATATTTTT
*
2950516 AATTTTTAAATAATATTTTA
1 AATTTTTAAATAATATTTTT
*
2950536 AACATTTTAAATATATATTTTTT
1 AA-TTTTTAAATA-ATA-TTTTT
2950559 AATTTTTA
1 AATTTTTA
2950567 TGATCTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 7 0.17
19 6 0.15
20 5 0.12
21 9 0.22
22 8 0.20
23 6 0.15
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTTAAATAATATTTTT
Found at i:2952781 original size:103 final size:101
Alignment explanation
Indices: 2952603--2952822 Score: 352
Period size: 103 Copynumber: 2.2 Consensus size: 101
2952593 TGTATATAAA
** * * *
2952603 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGGTGCTATGTGCGTGATCCACCATATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGGTGCTAAGTGCATGATCCACCATATCTTTG
2952668 AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 AAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
*
2952705 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCAT-ATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGG-GGTGCTAAGTGCATGATCCACCATATCTT
2952769 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
64 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
2952807 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
2952823 GATATCCATT
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 48 0.44
103 50 0.45
104 12 0.11
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGGTGCTAAGTGCATGATCCACCATATCTTTG
AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:2952861 original size:70 final size:71
Alignment explanation
Indices: 2952743--2952892 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
2952733 TCATTGGTGG
* *
2952743 TGCTAAGTGCATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
1 TGCTAAGTGCATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
2952807 AGGGGT
66 AGGGGT
***
2952813 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGC-ATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
2952877 GAGGGGT
65 GAGGGGT
2952884 TGCTAAGTG
1 TGCTAAGTG
2952893 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 34 0.47
71 39 0.53
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (71 bp):
TGCTAAGTGCATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:2957372 original size:26 final size:26
Alignment explanation
Indices: 2957337--2957387 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2957327 AATGTGAAAG
*
2957337 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
2957363 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
2957388 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:2957399 original size:103 final size:103
Alignment explanation
Indices: 2957259--2957480 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
2957249 TGTATATAAA
** * *
2957259 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
2957323 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
2957362 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
2957427 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
2957465 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
2957481 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:2957532 original size:70 final size:71
Alignment explanation
Indices: 2957400--2957549 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
2957390 TCATTGGTGG
* *
2957400 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
2957465 AGGGGT
66 AGGGGT
***
2957471 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
2957535 AGGGGT
66 AGGGGT
2957541 TGCTAAGTG
1 TGCTAAGTG
2957550 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
AGGGGT
Found at i:2957545 original size:26 final size:26
Alignment explanation
Indices: 2957510--2957561 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2957500 AAATGAAAAG
* *
2957510 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
2957536 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
2957562 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:2959023 original size:2 final size:2
Alignment explanation
Indices: 2959016--2959047 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2959006 ATTATGTAAA
2959016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2959048 GCATGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2963121 original size:17 final size:17
Alignment explanation
Indices: 2963096--2963129 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2963086 TTATAATAGC
* *
2963096 ATATCATATTTACATAT
1 ATATAATATTAACATAT
2963113 ATATAATATTAACATAT
1 ATATAATATTAACATAT
2963130 TTTATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATATTAACATAT
Found at i:2963290 original size:24 final size:24
Alignment explanation
Indices: 2963258--2963303 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2963248 TTAAACTATT
*
2963258 ATTATGAAGCATCTTACAGTTTTC
1 ATTATGAAGCATCTTAAAGTTTTC
*
2963282 ATTATGAAGTATCTTAAAGTTT
1 ATTATGAAGCATCTTAAAGTTT
2963304 ATCTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (24 bp):
ATTATGAAGCATCTTAAAGTTTTC
Found at i:2969869 original size:20 final size:21
Alignment explanation
Indices: 2969844--2969884 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2969834 GTTGATATTG
2969844 ACCGAAA-TGAACCAAAACAC
1 ACCGAAACTGAACCAAAACAC
*
2969864 ACCGAAACTTTAACCAAAACA
1 ACCGAAAC-TGAACCAAAACA
2969885 AAATATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.54, C:0.29, G:0.07, T:0.10
Consensus pattern (21 bp):
ACCGAAACTGAACCAAAACAC
Found at i:2970869 original size:69 final size:69
Alignment explanation
Indices: 2970758--2970896 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
2970748 GGATTCTCCT
2970758 TACTATAGCGGAATTGAAATCCCCACTTATTCCATCCTTAATGATGCTAAATGGTGTGTTGTGTC
1 TACTATAGCGGAATTGAAATCCCCACTTATTCCATCCTTAATGATGCTAAATGGTGTGTTGTGTC
2970823 TATG
66 TATG
2970827 TACTATAGCGGAATTGAAATCCCCACTTATTCCATCCTTAATGATGCTAAATGGTGTGTTGTGTC
1 TACTATAGCGGAATTGAAATCCCCACTTATTCCATCCTTAATGATGCTAAATGGTGTGTTGTGTC
2970892 TATG
66 TATG
2970896 T
1 T
2970897 TTTAGATTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (69 bp):
TACTATAGCGGAATTGAAATCCCCACTTATTCCATCCTTAATGATGCTAAATGGTGTGTTGTGTC
TATG
Found at i:2974566 original size:20 final size:21
Alignment explanation
Indices: 2974541--2974583 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2974531 TTATATATAT
2974541 TTTTTAGTTTTAGTT-TTAAA
1 TTTTTAGTTTTAGTTATTAAA
* *
2974561 TTTTTATTTTTATTTATTAAA
1 TTTTTAGTTTTAGTTATTAAA
2974582 TT
1 TT
2974584 ATTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTAGTTTTAGTTATTAAA
Found at i:2976789 original size:18 final size:20
Alignment explanation
Indices: 2976766--2976803 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
2976756 TCAATAGTTG
2976766 TTTTAACAT-TAT-TATTAT
1 TTTTAACATGTATATATTAT
*
2976784 TTTTAATATGTATATATTAT
1 TTTTAACATGTATATATTAT
2976804 GTATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTAACATGTATATATTAT
Found at i:2976881 original size:23 final size:22
Alignment explanation
Indices: 2976851--2976893 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
2976841 TTTACGTATA
*
2976851 TATTTCTAATATCATATATTAAG
1 TATTTCTAAGATCAT-TATTAAG
2976874 TATTTCTAAGATCATTATTA
1 TATTTCTAAGATCATTATTA
2976894 TATACGTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TATTTCTAAGATCATTATTAAG
Found at i:2977305 original size:21 final size:21
Alignment explanation
Indices: 2977281--2977334 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
2977271 TTTTTACATC
2977281 ATTATATTTATTATTA-TACCT
1 ATTAT-TTTATTATTATTACCT
* *
2977302 ATTATTTTCACTATTATTACTT
1 ATTATTTT-ATTATTATTACCT
2977324 ATTATTTTATT
1 ATTATTTTATT
2977335 TTAAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 13 0.46
22 12 0.43
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTATTATTATTACCT
Found at i:2980841 original size:28 final size:27
Alignment explanation
Indices: 2980789--2980847 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
2980779 AAAGTTGTCA
*
2980789 TTTTTTTTAATTTGGTACTTAAAATTT
1 TTTTTTTTAATTTAGTACTTAAAATTT
*
2980816 TTTTTTGTCTAATTTAGTAC-TGAAATTT
1 TTTTTT-T-TAATTTAGTACTTAAAATTT
2980844 TTTT
1 TTTT
2980848 GTCCAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 12 0.43
29 10 0.36
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (27 bp):
TTTTTTTTAATTTAGTACTTAAAATTT
Found at i:2982337 original size:23 final size:22
Alignment explanation
Indices: 2982305--2982347 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2982295 AGTTTATGTA
*
2982305 TTTTAATTTTATCAATTTTAGT
1 TTTTAATTTTATAAATTTTAGT
*
2982327 TTTTATATTTTCTAAATTTTA
1 TTTTA-ATTTTATAAATTTTA
2982348 AAATTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTAATTTTATAAATTTTAGT
Found at i:2988655 original size:14 final size:14
Alignment explanation
Indices: 2988636--2988662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2988626 CCAATTCTTC
2988636 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
2988650 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
2988663 GAGTTGGGAT
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:2990440 original size:20 final size:19
Alignment explanation
Indices: 2990417--2990485 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
2990407 TAAAATTTTG
*
2990417 TATTTTTATATCAATATCAA
1 TATTTTTATAT-AATATTAA
2990437 TA---TTA-ATAAT-TTAA
1 TATTTTTATATAATATTAA
*
2990451 TAATTTTATATAAATATTAA
1 TATTTTTATAT-AATATTAA
2990471 TATTTTTATA-AATAT
1 TATTTTTATATAATAT
2990486 GTATTATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
14 5 0.12
15 3 0.07
16 2 0.05
17 6 0.15
18 7 0.17
19 3 0.07
20 15 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTTTTATATAATATTAA
Found at i:2990480 original size:18 final size:20
Alignment explanation
Indices: 2990447--2990485 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
2990437 TATTAATAAT
2990447 TTAATAATTTTATATAAATA
1 TTAATAATTTTATATAAATA
2990467 TTAAT-ATTTT-TATAAATA
1 TTAATAATTTTATATAAATA
2990485 T
1 T
2990486 GTATTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 5 0.26
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATAATTTTATATAAATA
Found at i:2995077 original size:31 final size:30
Alignment explanation
Indices: 2995000--2995077 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
2994990 CCCAAAAAGT
* * *
2995000 TTTAAGTACCAACTTAAGAAAAAATGTAAG
1 TTTAAGTACCAAATTAGGAAAAAATATAAG
* *
2995030 TTTAAATACTAAATTAGGAAAAAATATCAAG
1 TTTAAGTACCAAATTAGGAAAAAATAT-AAG
*
2995061 TTTAGGTACCAAATTAG
1 TTTAAGTACCAAATTAG
2995078 ACCAAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 22 0.56
31 17 0.44
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (30 bp):
TTTAAGTACCAAATTAGGAAAAAATATAAG
Found at i:3005430 original size:36 final size:36
Alignment explanation
Indices: 3005381--3005453 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
3005371 AATAATTGAG
3005381 AAAGGTTTATTTTTCAAGGATTTATGCATCATAGTA
1 AAAGGTTTATTTTTCAAGGATTTATGCATCATAGTA
*
3005417 AAAGGTTTGTTTTTCAAGGATTTATGCATCATAGTA
1 AAAGGTTTATTTTTCAAGGATTTATGCATCATAGTA
3005453 A
1 A
3005454 CAATTAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (36 bp):
AAAGGTTTATTTTTCAAGGATTTATGCATCATAGTA
Found at i:3005772 original size:47 final size:47
Alignment explanation
Indices: 3005703--3005797 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
3005693 TGTAAGTAAG
3005703 AAATCTTTATGAAAAACGTACTTTCGCCTGTTGTATAGTGCTGTTGC
1 AAATCTTTATGAAAAACGTACTTTCGCCTGTTGTATAGTGCTGTTGC
*
3005750 AAATCTTTATGAAAAACTTACTTTCGCCTGTTGTATAGTGCTGTTGC
1 AAATCTTTATGAAAAACGTACTTTCGCCTGTTGTATAGTGCTGTTGC
3005797 A
1 A
3005798 TTAGTCATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (47 bp):
AAATCTTTATGAAAAACGTACTTTCGCCTGTTGTATAGTGCTGTTGC
Found at i:3012204 original size:19 final size:20
Alignment explanation
Indices: 3012171--3012209 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
3012161 TCAAATACAT
3012171 TTAAAACACAAAAACAAATA
1 TTAAAACACAAAAACAAATA
3012191 TTAAAACA-AAAAACAAATA
1 TTAAAACACAAAAACAAATA
3012210 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (20 bp):
TTAAAACACAAAAACAAATA
Found at i:3012311 original size:12 final size:12
Alignment explanation
Indices: 3012289--3012317 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3012279 AAATTGAAAC
3012289 AAATT-AGAACT
1 AAATTAAGAACT
3012300 AAATTAAGAACT
1 AAATTAAGAACT
3012312 AAATTA
1 AAATTA
3012318 TATTAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (12 bp):
AAATTAAGAACT
Found at i:3012418 original size:15 final size:16
Alignment explanation
Indices: 3012398--3012427 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3012388 AAAGTTACTT
3012398 AAAA-TTAAAAATAAA
1 AAAATTTAAAAATAAA
3012413 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
3012428 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAAAATAAA
Found at i:3016008 original size:18 final size:19
Alignment explanation
Indices: 3015967--3016008 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3015957 GTATATAAGG
3015967 AAAAAGTTCCTTTCAATGC
1 AAAAAGTTCCTTTCAATGC
3015986 AAAAAGTTCCTTTCAATGC
1 AAAAAGTTCCTTTCAATGC
3016005 AAAA
1 AAAA
3016009 GGTTAGCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAAGTTCCTTTCAATGC
Found at i:3020131 original size:17 final size:18
Alignment explanation
Indices: 3020111--3020148 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3020101 TTAAGAATGA
* *
3020111 TATAAATTTATTAAAA-T
1 TATAAAATTAATAAAACT
3020128 TATAAAATTAATAAAACT
1 TATAAAATTAATAAAACT
3020146 TAT
1 TAT
3020149 TTAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAAATTAATAAAACT
Done.