Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 16
Found at i:2176874 original size:28 final size:27
Alignment explanation
Indices: 2176843--2176975 Score: 137
Period size: 28 Copynumber: 4.9 Consensus size: 27
2176833 TTTCATTTCA
2176843 TTTCTTTATTTTCTTTTTTTCTCTTTAT
1 TTTCTTTATTTTCTTTTTTTCTCTTT-T
2176871 TTTCTTTATTTTC-TTTTTTC-CTTTT
1 TTTCTTTATTTTCTTTTTTTCTCTTTT
* * *
2176896 TTCCTTT-TTTCCTTTTTTCCTCCTTTT
1 TTTCTTTATTTTCTTTTTTTCT-CTTTT
* * * *
2176923 TTCCTTTTTTTTCCTTTTTTCTTTTTTT
1 TTTCTTTATTTTCTTTTTTTC-TCTTTT
*
2176951 TTTCTTTTTTTTCCTTTTTTTCTCT
1 TTTCTTTATTTT-CTTTTTTTCTCT
2176976 GATGGATGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.04
25 13 0.15
26 4 0.04
27 19 0.21
28 40 0.45
29 9 0.10
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTCTTTATTTTCTTTTTTTCTCTTTT
Found at i:2176895 original size:7 final size:8
Alignment explanation
Indices: 2176851--2176970 Score: 97
Period size: 8 Copynumber: 14.5 Consensus size: 8
2176841 CATTTCTTTA
*
2176851 TTTTCTTT
1 TTTTCCTT
2176859 TTTTCTCTT
1 TTTTC-CTT
*
2176868 TATTTTCTT
1 T-TTTCCTT
*
2176877 TATTTTCTT
1 T-TTTCCTT
2176886 TTTTCCTT
1 TTTTCCTT
2176894 TTTTCCTT
1 TTTTCCTT
2176902 TTTTCCTTT
1 TTTTCC-TT
2176911 TTTCCTCCTT
1 TTT--TCCTT
2176921 TTTTCCTTTT
1 TTTTCC--TT
2176931 TTTTCCTT
1 TTTTCCTT
2176939 TTTT-CTT
1 TTTTCCTT
2176946 TTTT--TT
1 TTTTCCTT
2176952 TTCTT--TT
1 TT-TTCCTT
2176959 TTTTCCTT
1 TTTTCCTT
2176967 TTTT
1 TTTT
2176971 TCTCTGATGG
Statistics
Matches: 99, Mismatches: 3, Indels: 20
0.81 0.02 0.16
Matches are distributed among these distances:
6 6 0.06
7 13 0.13
8 40 0.40
9 21 0.21
10 16 0.16
11 3 0.03
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCCTT
Found at i:2176896 original size:9 final size:9
Alignment explanation
Indices: 2176846--2176972 Score: 106
Period size: 9 Copynumber: 14.0 Consensus size: 9
2176836 CATTTCATTT
2176846 CTTTATTTT-
1 CTTT-TTTTC
2176855 CTTTTTTTC
1 CTTTTTTTC
2176864 TCTTTATTTT-
1 -CTTT-TTTTC
2176874 CTTTATTTT-
1 CTTT-TTTTC
2176883 C-TTTTTTC
1 CTTTTTTTC
2176891 C-TTTTTTC
1 CTTTTTTTC
2176899 C-TTTTTTC
1 CTTTTTTTC
2176907 C-TTTTTTC
1 CTTTTTTTC
2176915 CTCCTTTTTTC
1 CT--TTTTTTC
2176926 CTTTTTTTTC
1 C-TTTTTTTC
*
2176936 CTTTTTTCTT
1 CTTTTTT-TC
*
2176946 TTTTTTTTC
1 CTTTTTTTC
*
2176955 TTTTTTTTC
1 CTTTTTTTC
2176964 CTTTTTTTC
1 CTTTTTTTC
2176973 TCTGATGGAT
Statistics
Matches: 105, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.04
8 31 0.30
9 38 0.36
10 19 0.18
11 12 0.11
12 1 0.01
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (9 bp):
CTTTTTTTC
Found at i:2176921 original size:11 final size:11
Alignment explanation
Indices: 2176905--2176937 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2176895 TTTCCTTTTT
2176905 TCCTTTTTTCC
1 TCCTTTTTTCC
2176916 TCCTTTTTTCC
1 TCCTTTTTTCC
*
2176927 T-TTTTTTTCC
1 TCCTTTTTTCC
2176937 T
1 T
2176938 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TCCTTTTTTCC
Found at i:2176941 original size:52 final size:51
Alignment explanation
Indices: 2176851--2176972 Score: 130
Period size: 52 Copynumber: 2.5 Consensus size: 51
2176841 CATTTCTTTA
* * *
2176851 TTTTCTTTTTTTCTCTTTATTTTCTTTATTTTCTTTTTTCCTTTTTTCCTT
1 TTTTCTTTTTTCCTCTTTATTTCCTTTATTTTCCTTTTTCCTTTTTTCCTT
* *
2176902 TTTTCCTTTTTTCCTCCTTT-TTTCCTTTTTTTTCCTTTTTTCTTTTTT--TT
1 TTTT-CTTTTTTCCT-CTTTATTTCCTTTATTTTCCTTTTTCCTTTTTTCCTT
2176952 TTCTT-TTTTTTCCT-TTT-TTTC
1 TT-TTCTTTTTTCCTCTTTATTTC
2176973 TCTGATGGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
47 7 0.11
49 9 0.14
50 4 0.06
51 6 0.10
52 33 0.52
53 4 0.06
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (51 bp):
TTTTCTTTTTTCCTCTTTATTTCCTTTATTTTCCTTTTTCCTTTTTTCCTT
Found at i:2179878 original size:55 final size:54
Alignment explanation
Indices: 2179791--2179934 Score: 168
Period size: 55 Copynumber: 2.6 Consensus size: 54
2179781 TTTAAAGGAA
*
2179791 GTCTTCAATCAGCTTT-AGATTTCTTCATTCATC-AGATATCTTTCTTCACAGATCT
1 GTCTTCAATCAG-TTTAAGATTTCTTCATTCATCGA-ATATCTTTCTTCACAAAT-T
* * * * *
2179846 GTCTTCAATCTGTTTAAGATTTCTTCAATCATCGAATGTTTTTCTTCATAAATT
1 GTCTTCAATCAGTTTAAGATTTCTTCATTCATCGAATATCTTTCTTCACAAATT
2179900 GTTCTTCAATCAGTTTCAA-ATTTCTTCATTCATCG
1 G-TCTTCAATCAGTTT-AAGATTTCTTCATTCATCG
2179935 GATGTCCAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
54 5 0.06
55 69 0.90
56 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (54 bp):
GTCTTCAATCAGTTTAAGATTTCTTCATTCATCGAATATCTTTCTTCACAAATT
Found at i:2181826 original size:35 final size:35
Alignment explanation
Indices: 2181787--2181860 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
2181777 CAATAAAAAG
*
2181787 TTTGCTAAAAGTTAGAATAGTAAAATATATATACA
1 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
2181822 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
1 TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
2181857 TTTG
1 TTTG
2181861 AACACATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTGCTAAAAGTTAGAATAGAAAAATATATATACA
Found at i:2187470 original size:12 final size:12
Alignment explanation
Indices: 2187443--2187488 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
2187433 GAACAAAAAC
*
2187443 AAAAACTTAAAG
1 AAAAACTTAATG
2187455 -AAAACTTAATG
1 AAAAACTTAATG
*
2187466 AAAAACTTGATG
1 AAAAACTTAATG
*
2187478 TAAAAC-TAATG
1 AAAAACTTAATG
2187489 TCCTAGCTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (12 bp):
AAAAACTTAATG
Found at i:2192801 original size:17 final size:17
Alignment explanation
Indices: 2192776--2192811 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2192766 TAAAAAACAG
2192776 TTTAATTAAAATTAAAA
1 TTTAATTAAAATTAAAA
* *
2192793 TTTATTTAAAATTACAA
1 TTTAATTAAAATTAAAA
2192810 TT
1 TT
2192812 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATTAAAATTAAAA
Found at i:2196412 original size:121 final size:121
Alignment explanation
Indices: 2196198--2196444 Score: 467
Period size: 121 Copynumber: 2.0 Consensus size: 121
2196188 TCATTTATTC
2196198 AAAATTTAAAGATTTGAACATTTACCTGCCGTGACCAGAAGTGAGCGCAAGTTTGGATAAATTGT
1 AAAATTTAAAGATTTGAACATTTACCTGCCGTGACCAGAAGTGAGCGCAAGTTTGGATAAATTGT
2196263 CTTCCCCTTGTGTTGAGAGAATATTAAGCCACTAAACTAAACAACTACAAAACCAG
66 CTTCCCCTTGTGTTGAGAGAATATTAAGCCACTAAACTAAACAACTACAAAACCAG
* *
2196319 AAAATTTAAAGATTTGAACATTTACCTGTCGTGACCAGAAGTGAGCGTAAGTTTGGATAAATTGT
1 AAAATTTAAAGATTTGAACATTTACCTGCCGTGACCAGAAGTGAGCGCAAGTTTGGATAAATTGT
*
2196384 CTTCCCCTTGTGTTGAGAGAATGTTAAGCCACTAAACTAAACAACTACAAAACCAG
66 CTTCCCCTTGTGTTGAGAGAATATTAAGCCACTAAACTAAACAACTACAAAACCAG
2196440 AAAAT
1 AAAAT
2196445 AATGTTTTCC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (121 bp):
AAAATTTAAAGATTTGAACATTTACCTGCCGTGACCAGAAGTGAGCGCAAGTTTGGATAAATTGT
CTTCCCCTTGTGTTGAGAGAATATTAAGCCACTAAACTAAACAACTACAAAACCAG
Found at i:2198697 original size:20 final size:20
Alignment explanation
Indices: 2198672--2198710 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2198662 CCTGGAAATA
*
2198672 TAAACACTTCCATCACTTGC
1 TAAACACGTCCATCACTTGC
2198692 TAAACACGTCCATCACTTG
1 TAAACACGTCCATCACTTG
2198711 TGTTGCGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAACACGTCCATCACTTGC
Found at i:2201731 original size:21 final size:23
Alignment explanation
Indices: 2201705--2201755 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2201695 CCGAAATAAT
*
2201705 AATAAAA-TA-TTATTTTTATTC
1 AATAAAAGTAGTTATTTATATTC
2201726 AATAAAAGTAGTTATTTATATTC
1 AATAAAAGTAGTTATTTATATTC
2201749 AATAAAA
1 AATAAAA
2201756 ACAATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 18 0.67
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AATAAAAGTAGTTATTTATATTC
Found at i:2201763 original size:23 final size:23
Alignment explanation
Indices: 2201713--2201766 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2201703 ATAATAAAAT
* **
2201713 ATTATTTTTATTCAATAAAAGTA
1 ATTATTTATATTCAATAAAAACA
*
2201736 GTTATTTATATTCAATAAAAACA
1 ATTATTTATATTCAATAAAAACA
2201759 ATTATTTA
1 ATTATTTA
2201767 ATTGAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTATTTATATTCAATAAAAACA
Found at i:2202489 original size:23 final size:23
Alignment explanation
Indices: 2202435--2202499 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
2202425 AATTTAACCC
* *
2202435 TTATATTTATATGTATATATTTAA
1 TTATATTT-TATTTATTTATTTAA
2202459 TTATATTTTATTTATTTATTT-A
1 TTATATTTTATTTATTTATTTAA
*
2202481 TTATAATTTTTTTTCATTT
1 TTAT-ATTTTATTT-ATTT
2202500 TTCTTTGCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 5 0.14
23 19 0.53
24 12 0.33
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATATTTTATTTATTTATTTAA
Found at i:2202820 original size:22 final size:20
Alignment explanation
Indices: 2202752--2202813 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
2202742 TTATACATAC
* *
2202752 ATTTTTATATTT-TTATATAT
1 ATTTATATATTTATTAT-TTT
*
2202772 ATATATATATTTATTATTTT
1 ATTTATATATTTATTATTTT
2202792 ATTTATACTATTTATTTATTTT
1 ATTTATA-TATTTA-TTATTTT
2202814 CATTATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 18 0.51
21 10 0.29
22 7 0.20
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTATATATTTATTATTTT
Found at i:2207280 original size:16 final size:15
Alignment explanation
Indices: 2207259--2207317 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 15
2207249 CAAAAAGGGC
2207259 AAAAACAAAAAAGAA
1 AAAAACAAAAAAGAA
2207274 AATAAACAAAAAAGAA
1 AA-AAACAAAAAAGAA
2207290 GAAAGAACAAAAAA-AGA
1 -AAA-AACAAAAAAGA-A
*
2207307 AAGAACAAAAA
1 AAAAACAAAAA
2207318 TCAAAAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 10 0.26
16 17 0.44
17 12 0.31
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (15 bp):
AAAAACAAAAAAGAA
Found at i:2207301 original size:15 final size:15
Alignment explanation
Indices: 2207282--2207317 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
2207272 AAAATAAACA
2207282 AAAAAGAAGAAAGAAC
1 AAAAA-AAGAAAGAAC
2207298 AAAAAAAGAAAGAAC
1 AAAAAAAGAAAGAAC
2207313 AAAAA
1 AAAAA
2207318 TCAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAC
Found at i:2207322 original size:22 final size:21
Alignment explanation
Indices: 2207272--2207340 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
2207262 AACAAAAAAG
* *
2207272 AAAAT-AAACAAAAAAGAAGA
1 AAAATCAAAAAAAAAAGAACA
2207292 AAGAA-CAAAAAAAGAAAGAACA
1 AA-AATCAAAAAAA-AAAGAACA
*
2207314 AAAATCAAAAAGAAAAAGGGACA
1 AAAATCAAAAA-AAAAA-GAACA
2207337 AAAA
1 AAAA
2207341 AGCACATGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.05
21 10 0.25
22 18 0.45
23 10 0.25
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (21 bp):
AAAATCAAAAAAAAAAGAACA
Found at i:2209029 original size:106 final size:106
Alignment explanation
Indices: 2208901--2210176 Score: 2045
Period size: 106 Copynumber: 12.0 Consensus size: 106
2208891 ATATCGTGCC
* * *
2208901 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
*
2208965 CAAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2209007 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2209072 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2209113 ACTCCAGACAACGTAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2209178 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2209219 ACTCAAGACAACTCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2209284 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2209325 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
2209390 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTTA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2209431 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
2209496 AATTTTGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2209537 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAGA-AATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-ACAACTTCC
*
2209601 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2209643 ATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2209708 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2209749 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2209814 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2209855 ACTCCAGACAGCACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2209920 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2209961 ACTCAATACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** **
2210026 AATTTTGGAGCCAATTTCAACTTCACAGCGAAATATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** *
2210067 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
2210132 GATTCCAGAGTCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2210173 ACTC
1 ACTC
2210177 GGAACAATGC
Statistics
Matches: 1089, Mismatches: 77, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
105 2 0.00
106 1084 1.00
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2211016 original size:37 final size:37
Alignment explanation
Indices: 2210927--2211030 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
2210917 TTTTTCGTCC
* *
2210927 TACTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* *
2210964 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
** * *
2211001 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
2211031 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:2211442 original size:2 final size:2
Alignment explanation
Indices: 2211423--2211467 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
2211413 ATTTAACCCT
* *
2211423 TA TA TT TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2211463 TA TA T
1 TA TA T
2211468 TTTATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2211775 original size:21 final size:20
Alignment explanation
Indices: 2211749--2211817 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 20
2211739 TACATACATT
2211749 TTTTTTATTTTTATATATATA
1 TTTTTTATTTTTAT-TATATA
2211770 TTTTTTATTATTTTATTTATACTA
1 TTTTTTA-T-TTTTA-TTATA-TA
*
2211794 TTTATTTATTTTCATTATAT-
1 TTT-TTTATTTTTATTATATA
2211814 TTTT
1 TTTT
2211818 AGTTTCTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 8 0.19
22 6 0.14
23 13 0.31
24 7 0.17
25 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTATTTTTATTATATA
Found at i:2211784 original size:23 final size:23
Alignment explanation
Indices: 2211728--2211803 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
2211718 CTATTTAGTA
* * *
2211728 TTTA-TATATTATACATACATTT
1 TTTATTATTTTATATATATATTT
2211750 TTT-TTATTTTTATATATATATTT
1 TTTATTA-TTTTATATATATATTT
*
2211773 TTTATTATTTTATTTATACTATTT
1 TTTATTATTTTATATATA-TATTT
2211797 ATTTATT
1 -TTTATT
2211804 TTCATTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 5 0.11
23 26 0.58
24 8 0.18
25 6 0.13
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTATTTTATATATATATTT
Found at i:2211788 original size:27 final size:25
Alignment explanation
Indices: 2211662--2211815 Score: 80
Period size: 28 Copynumber: 5.7 Consensus size: 25
2211652 CTATGATTAC
* *
2211662 TATTTTTTTTAGTTAATATTATATGTA
1 TATTTTTTTTA-TTTAT-TTATATATA
*
2211689 TATTTATTTTCATTTATTTATTATTATTA
1 TATTT-TTTTTATTTATTTA-TA-TA-TA
* * *
2211718 CTATTTAGTATTTATATA-TTATACATA
1 -TATTT--TTTTTATTTATTTATATATA
*
2211745 CATTTTTTTTA-TT-TTTATATATA
1 TATTTTTTTTATTTATTTATATATA
*
2211768 TATTTTTTATTATTTTATTTATACTATT
1 TATTTTTT-TTA-TTTATTTATA-TATA
*
2211796 TATTTATTTTCATTATATTT
1 TATTT-TTTTTATT-TATTT
2211816 TTAGTTTCTT
Statistics
Matches: 98, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
23 16 0.16
24 8 0.08
26 9 0.09
27 21 0.21
28 22 0.22
29 7 0.07
30 8 0.08
31 7 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
TATTTTTTTTATTTATTTATATATA
Found at i:2211818 original size:21 final size:20
Alignment explanation
Indices: 2211750--2211818 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 20
2211740 ACATACATTT
*
2211750 TTTTTATTT-TTATATATATA
1 TTTTTATTTATTTTAT-TATA
2211770 TTTTT-TATTATTTTATTTATA
1 TTTTTAT-TTATTTTA-TTATA
*
2211791 CTATTTATTTATTTTCATTATA
1 -TTTTTATTTATTTT-ATTATA
2211813 TTTTTA
1 TTTTTA
2211819 GTTTCTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 1 0.03
20 7 0.17
21 13 0.32
22 17 0.43
23 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTATTTTATTATA
Found at i:2211924 original size:20 final size:19
Alignment explanation
Indices: 2211897--2211952 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2211887 TTTTATCTTC
2211897 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
2211916 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
2211936 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
2211953 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:2215014 original size:15 final size:16
Alignment explanation
Indices: 2214984--2215047 Score: 70
Period size: 15 Copynumber: 4.4 Consensus size: 16
2214974 ATGGGCCTGC
2214984 AATAAT-TATT-TAAT
1 AATAATATATTATAAT
2214998 AATAATATATTAT-AT
1 AATAATATATTATAAT
2215013 AAT-A-ATATT-TAAT
1 AATAATATATTATAAT
*
2215026 AATAATA-ATTTTAAT
1 AATAATATATTATAAT
2215041 AATAATA
1 AATAATA
2215048 AATAAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 11 0.25
15 21 0.48
16 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAATATATTATAAT
Found at i:2215023 original size:28 final size:28
Alignment explanation
Indices: 2214984--2215047 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 28
2214974 ATGGGCCTGC
2214984 AATAATTATTTAATAATAATATATTAT-AT
1 AATAA-TATTTAATAATAATA-ATTATAAT
*
2215013 AATAATATTTAATAATAATAATTTTAAT
1 AATAATATTTAATAATAATAATTATAAT
2215041 AATAATA
1 AATAATA
2215048 AATAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 4 0.12
28 24 0.73
29 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AATAATATTTAATAATAATAATTATAAT
Found at i:2215048 original size:15 final size:15
Alignment explanation
Indices: 2214992--2215048 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
2214982 GCAATAATTA
2214992 TTTAATAATAAT-AT
1 TTTAATAATAATAAT
*
2215006 ATT-AT-ATAATAAT
1 TTTAATAATAATAAT
2215019 ATTTAATAATAATAAT
1 -TTTAATAATAATAAT
2215035 TTTAATAATAATAA
1 TTTAATAATAATAA
2215049 ATAAATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
12 5 0.14
13 4 0.11
14 4 0.11
15 16 0.43
16 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:2215994 original size:229 final size:225
Alignment explanation
Indices: 2215480--2216010 Score: 891
Period size: 229 Copynumber: 2.3 Consensus size: 225
2215470 GTTGAACAAA
* *
2215480 TTCTTCTTCCTTCTTCAGATTAGTTCTTCTCATTATGAACTTTTTCTAGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
* *
2215545 AGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATG
66 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATG
2215610 ACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAA
131 ACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAA
2215675 AAGGTTGAACAAATTCTTCTCATTATGAAC
196 AAGGTTGAACAAATTCTTCTCATTATGAAC
*
2215705 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
2215770 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCA
* *
2215835 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCATCAAATGATGAATTTAT
127 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
2215900 ACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
192 ACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
**** * * **
2215934 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCTGGCAATGCTGATCCATTG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
2215999 AATGATGGATTT
66 AATGATGGATTT
2216011 AAATCTTTGC
Statistics
Matches: 286, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
225 107 0.37
227 1 0.00
228 5 0.02
229 173 0.60
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (225 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATG
ACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAA
AAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:2216011 original size:113 final size:112
Alignment explanation
Indices: 2215480--2216012 Score: 705
Period size: 113 Copynumber: 4.7 Consensus size: 112
2215470 GTTGAACAAA
* * ** * * *
2215480 TTCTTCTTCCTTCTTCAGATTAGTTCTTCTCATTATGAACTTTTTCTAGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCA
* *
2215545 AGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA-
66 AATGATGGATTT-AACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
2215592 -T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCA
*
2215654 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGGATTT-AACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** * **
2215705 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCA
* *
2215770 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGGATTT-AACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
2215818 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCA
*
2215883 TCAAATGATGAATTTATACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGGATTTA-ACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **
2215934 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACCTGGCAATGCTGATCCATTG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCA
2215999 AATGATGGATTTAA
66 AATGATGGATTTAA
2216013 ATCTTTGCTA
Statistics
Matches: 366, Mismatches: 44, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
109 11 0.03
110 5 0.01
111 1 0.00
112 80 0.22
113 152 0.42
114 1 0.00
115 6 0.02
116 110 0.30
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (112 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCA
AATGATGGATTTAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:2216440 original size:22 final size:22
Alignment explanation
Indices: 2216413--2216467 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2216403 GATAAAGCTT
*
2216413 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
2216435 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2216457 TCATCTTTGAA
1 TCATCTTTGAA
2216468 GAGTGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2219030 original size:92 final size:92
Alignment explanation
Indices: 2218915--2219162 Score: 406
Period size: 92 Copynumber: 2.7 Consensus size: 92
2218905 TTCCAATGAT
* * * *
2218915 TGGTTCTGTGGTTCCTACCAAACCAGATCAAATAATTCAAAGAACACTTCCAGAAGATACTATTA
1 TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
*
2218980 GCACATTCCTCTTCCAAATTCAATAAC
66 GCACATTCATCTTCCAAATTCAATAAC
* *
2219007 TGGTTCTGTAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1 TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
* *
2219072 GCACATTCATCTTCCAAATTCAATGAT
66 GCACATTCATCTTCCAAATTCAATAAC
*
2219099 TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCGAGAAGATGCTATT
1 TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
2219163 GGGTCTCCTT
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 144 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (92 bp):
TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
GCACATTCATCTTCCAAATTCAATAAC
Found at i:2224778 original size:14 final size:15
Alignment explanation
Indices: 2224759--2224796 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
2224749 CAAAGATGCC
2224759 AAATGTAAATA-TGT
1 AAATGTAAATATTGT
2224773 AAATGTAAA-ATTGT
1 AAATGTAAATATTGT
2224787 AAATGTAAAT
1 AAATGTAAAT
2224797 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (15 bp):
AAATGTAAATATTGT
Found at i:2228526 original size:3 final size:3
Alignment explanation
Indices: 2228518--2228572 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
2228508 AATAATTATT
* **
2228518 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
2228564 TAA TAA TAA
1 TAA TAA TAA
2228573 ATAAATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:2228540 original size:15 final size:14
Alignment explanation
Indices: 2228518--2228576 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 14
2228508 AATAATTATT
2228518 TAATAATAATATAA
1 TAATAATAATATAA
2228532 TATATAATAATATTTAA
1 TA-ATAATAATA--TAA
*
2228549 TAATAATAATTTTAA
1 TAATAATAA-TATAA
2228564 TAATAATAA-ATAA
1 TAATAATAATATAA
2228577 ATAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 21 0.54
16 7 0.18
17 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:2232339 original size:35 final size:35
Alignment explanation
Indices: 2232292--2232360 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
2232282 CCGTCAACTC
2232292 CCCCACCCCCTTCTTCTACTTCTGTCTTTTACCCT
1 CCCCACCCCCTTCTTCTACTTCTGTCTTTTACCCT
* *
2232327 CCCCACCTCCTTCTTCTTCTTCTGTCTTTTACCC
1 CCCCACCCCCTTCTTCTACTTCTGTCTTTTACCC
2232361 ACAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.07, C:0.48, G:0.03, T:0.42
Consensus pattern (35 bp):
CCCCACCCCCTTCTTCTACTTCTGTCTTTTACCCT
Found at i:2235732 original size:13 final size:13
Alignment explanation
Indices: 2235714--2235739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2235704 CACCCAATGT
2235714 TCAATGGAAGATA
1 TCAATGGAAGATA
2235727 TCAATGGAAGATA
1 TCAATGGAAGATA
2235740 ATGTCTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
TCAATGGAAGATA
Found at i:2236623 original size:3 final size:3
Alignment explanation
Indices: 2236615--2236677 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
2236605 ATATTATAAA
2236615 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2236663 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
2236678 ACAACATTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2245311 original size:18 final size:18
Alignment explanation
Indices: 2245290--2245327 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2245280 ATCATCACCA
2245290 TCATCATCATCGTCGTCG
1 TCATCATCATCGTCGTCG
**
2245308 TCATTGTCATCGTCGTCG
1 TCATCATCATCGTCGTCG
2245326 TC
1 TC
2245328 TTGAGTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (18 bp):
TCATCATCATCGTCGTCG
Found at i:2247526 original size:21 final size:21
Alignment explanation
Indices: 2247498--2247551 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2247488 GAAAGTGATT
2247498 GAGGATGGGGGTATTTATAGG
1 GAGGATGGGGGTATTTATAGG
*
2247519 GATGATGGGGGTATTTATAGG
1 GAGGATGGGGGTATTTATAGG
*
2247540 GAGGATTGGGGT
1 GAGGATGGGGGT
2247552 GTTAAGCGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (21 bp):
GAGGATGGGGGTATTTATAGG
Found at i:2248423 original size:19 final size:18
Alignment explanation
Indices: 2248394--2248437 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
2248384 TTCAAATTAA
2248394 AAAATGTAAAAAAATAT-T
1 AAAATGTAAAAAAAT-TGT
2248412 AAAATGTAAAAAAAATTGT
1 AAAATGT-AAAAAAATTGT
2248431 AAAATGT
1 AAAATGT
2248438 CGTAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (18 bp):
AAAATGTAAAAAAATTGT
Found at i:2249429 original size:13 final size:13
Alignment explanation
Indices: 2249411--2249441 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2249401 CTTATTATTT
2249411 GATTTAACCATTC
1 GATTTAACCATTC
2249424 GATTTAACCATTC
1 GATTTAACCATTC
2249437 -ATTTA
1 GATTTA
2249442 TATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (13 bp):
GATTTAACCATTC
Found at i:2249495 original size:2 final size:2
Alignment explanation
Indices: 2249490--2249521 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2249480 TAAAAAAAAT
2249490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2249522 AAGAATGGAG
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):
TA
Found at i:2249919 original size:60 final size:60
Alignment explanation
Indices: 2249853--2249975 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
2249843 TCTCTCATTT
*
2249853 TCTAAGGTTCGCTTATCCTCTTTCCTTTTCTAAGGTTTAATTTTTGTAAACAATAAGACC
1 TCTAAGGTTCACTTATCCTCTTTCCTTTTCTAAGGTTTAATTTTTGTAAACAATAAGACC
2249913 TCTAAGGTTCACTTATCCTCTTTCCTTTTCTAAGGTTTAATTTTTGTAAACAATAAGACC
1 TCTAAGGTTCACTTATCCTCTTTCCTTTTCTAAGGTTTAATTTTTGTAAACAATAAGACC
2249973 TCT
1 TCT
2249976 TCAGATGTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (60 bp):
TCTAAGGTTCACTTATCCTCTTTCCTTTTCTAAGGTTTAATTTTTGTAAACAATAAGACC
Found at i:2250569 original size:26 final size:26
Alignment explanation
Indices: 2250540--2250593 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
2250530 GGTGATGAGC
2250540 ACCCCCAGATCGCCCTTATGATAACA
1 ACCCCCAGATCGCCCTTATGATAACA
2250566 ACCCCCAGATCGCCCTTATGATAACA
1 ACCCCCAGATCGCCCTTATGATAACA
2250592 AC
1 AC
2250594 AAGGTTATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (26 bp):
ACCCCCAGATCGCCCTTATGATAACA
Found at i:2252019 original size:20 final size:20
Alignment explanation
Indices: 2251972--2252021 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2251962 TAATACTTTT
*
2251972 CATATTTCAAAAGCTTTAAA
1 CATATTTTAAAAGCTTTAAA
2251992 CATATTTTAAACA-CTTTAAA
1 CATATTTTAAA-AGCTTTAAA
2252012 CATATTTTAA
1 CATATTTTAA
2252022 TCAACTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (20 bp):
CATATTTTAAAAGCTTTAAA
Found at i:2253794 original size:14 final size:14
Alignment explanation
Indices: 2253775--2253812 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
2253765 TCACTTGTTA
2253775 AATTTCTAATTATC
1 AATTTCTAATTATC
2253789 AATTTCTAATTATC
1 AATTTCTAATTATC
2253803 AATTTCTAAT
1 AATTTCTAAT
2253813 AATAATAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTCTAATTATC
Found at i:2253827 original size:12 final size:12
Alignment explanation
Indices: 2253810--2253841 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2253800 ATCAATTTCT
2253810 AATAATAATAAC
1 AATAATAATAAC
2253822 AATAATAATAAC
1 AATAATAATAAC
2253834 AATAATAA
1 AATAATAA
2253842 ACATTATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:2258509 original size:37 final size:36
Alignment explanation
Indices: 2258450--2258569 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
2258440 ATCCCATTAT
* *
2258450 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2258486 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
2258522 CA-TTTTCAAATAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2258557 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
2258570 TTGGTTGCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 28 0.37
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2258525 original size:21 final size:21
Alignment explanation
Indices: 2258501--2258561 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2258491 TTCAAAGAAA
2258501 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2258522 CATTT-TCAAA---T--AAA-
1 CATTTACCAAACTTTGAAAAC
2258536 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2258557 CATTT
1 CATTT
2258562 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
17 1 0.03
18 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2262354 original size:14 final size:14
Alignment explanation
Indices: 2262335--2262369 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2262325 CAACATTGCG
2262335 GGATAACGTCAGTC
1 GGATAACGTCAGTC
2262349 GGATAACGTCAGTC
1 GGATAACGTCAGTC
2262363 GGATAAC
1 GGATAAC
2262370 TCCGAGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (14 bp):
GGATAACGTCAGTC
Found at i:2267121 original size:17 final size:17
Alignment explanation
Indices: 2267101--2267133 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2267091 CAACTCGAAC
2267101 TCAAAAAAAACTCAAAT
1 TCAAAAAAAACTCAAAT
*
2267118 TCAAAAAAAATTCAAA
1 TCAAAAAAAACTCAAA
2267134 AACTCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (17 bp):
TCAAAAAAAACTCAAAT
Found at i:2267509 original size:33 final size:34
Alignment explanation
Indices: 2267472--2267535 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
2267462 ATTTACAACT
2267472 TCGATGACATTGTTAATTGGTTTTCA-TTAAACA
1 TCGATGACATTGTTAATTGGTTTTCACTTAAACA
2267505 TCGATGACATTGTTAATTGGTTTTCACTTAA
1 TCGATGACATTGTTAATTGGTTTTCACTTAA
2267536 TCTTTGTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
TCGATGACATTGTTAATTGGTTTTCACTTAAACA
Found at i:2268054 original size:33 final size:33
Alignment explanation
Indices: 2268009--2268075 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
2267999 GTTTTACTGA
*
2268009 TTCCCATGTCTATGCCTGTCATGTAACCAGGTT
1 TTCCCATATCTATGCCTGTCATGTAACCAGGTT
*
2268042 TTCCCATATCTATGCCTGTCCTGTAACCAGGTT
1 TTCCCATATCTATGCCTGTCATGTAACCAGGTT
2268075 T
1 T
2268076 GCCAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.37
Consensus pattern (33 bp):
TTCCCATATCTATGCCTGTCATGTAACCAGGTT
Found at i:2268903 original size:21 final size:21
Alignment explanation
Indices: 2268864--2268908 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2268854 ATTCCTGGGA
*
2268864 GTTTATGTTTTAGGGTTTAGG
1 GTTTATGTTTTAGAGTTTAGG
* *
2268885 GTTTATGTTTTATATTTTAGG
1 GTTTATGTTTTAGAGTTTAGG
2268906 GTT
1 GTT
2268909 CATTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.58
Consensus pattern (21 bp):
GTTTATGTTTTAGAGTTTAGG
Found at i:2269421 original size:11 final size:11
Alignment explanation
Indices: 2269405--2269467 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
2269395 GTATTATAGA
2269405 ATTTTTAATAT
1 ATTTTTAATAT
2269416 ATTTTTAA-A-
1 ATTTTTAATAT
2269425 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
2269436 ATCAATAGTAT
1 ATTTTTAATAT
2269447 ATTTTTAATAT
1 ATTTTTAATAT
2269458 ATTTTTAATA
1 ATTTTTAATA
2269468 ATGTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 5 0.12
10 7 0.17
11 28 0.70
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:2273259 original size:2 final size:2
Alignment explanation
Indices: 2273252--2273304 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2273242 ATATTTCATC
2273252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2273294 TA TA TA TA TA T
1 TA TA TA TA TA T
2273305 CATAGGACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2273422 original size:30 final size:30
Alignment explanation
Indices: 2273365--2273448 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
2273355 TTAAAAGACT
* *
2273365 AAAATTAAATTATTAAAAATGTAAAGTAAA
1 AAAATTAAATAAATAAAAATGTAAAGTAAA
*
2273395 AATAATTAAA-AAATAAATAAT-TAAAGTAAT
1 AA-AATTAAATAAATAAA-AATGTAAAGTAAA
*
2273425 GAAATTAAATAAATAAAAA-GTAAA
1 AAAATTAAATAAATAAAAATGTAAA
2273449 TGGCATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 13 0.28
30 23 0.50
31 10 0.22
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAATTAAATAAATAAAAATGTAAAGTAAA
Found at i:2274151 original size:28 final size:28
Alignment explanation
Indices: 2274104--2274178 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
2274094 GAACTGCAAT
*
2274104 GTGGAGGGGGCTGCTGGGTTACTTGAAAC
1 GTGGA-GGGGATGCTGGGTTACTTGAAAC
* **
2274133 GTGGAGGGGATGCTTGGTTGTTTGAAAC
1 GTGGAGGGGATGCTGGGTTACTTGAAAC
*
2274161 GTGGAGGGGTTGCTGGGT
1 GTGGAGGGGATGCTGGGT
2274179 ATGAAAGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 35 0.88
29 5 0.12
ACGTcount: A:0.15, C:0.09, G:0.48, T:0.28
Consensus pattern (28 bp):
GTGGAGGGGATGCTGGGTTACTTGAAAC
Found at i:2274534 original size:36 final size:36
Alignment explanation
Indices: 2274487--2275093 Score: 863
Period size: 36 Copynumber: 16.9 Consensus size: 36
2274477 GAAATTCGTT
** *
2274487 TTTGCTTCACTACTCTTCCGTGTTGGCTAAGATTGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
** * *
2274523 TTTGCTTCACTACTCTTTTGTGAAGGCTAAGATGAC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
2274559 TTTGCTTCACTACTCTTCCATGGAGGTTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
2274595 TTTGCTTCACTACTCTTTCGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* * *
2274631 TTTGCTTCACTACTCTTCTGTGAAGGCTAAGATGGT
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* * *
2274667 TTTTCTTCACTACTCTTCTGTGAAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
** *
2274703 TTTGCTTCACTACTCTTTTGTGAAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
2274739 TTTGCTTCACTACTCTTCCGTTGAGGCTAATATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
2274775 TTTGCTTAACTACTCTTCCGTGGAGGCTAAGATTGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* * *
2274811 TTTGCTTCACTACTCTTTCATGGAGGCTAAGATTGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* * * *
2274847 TTTGATTCATTACTCTTCTGTGGAGGCTAAGATGTC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
2274883 TTTGCTTCACTACTCTTCCGGGGAGGCTAAGATTGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
2274919 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
2274955 TTTGCTTCACTACTCTTCTGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
2274991 TTTGCTTCACTACTTTTCCGTGGAGGCTAAGATGAC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
2275027 ATTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* * *
2275063 TTTGCATCACTACTCTTTCGCGGAGGCTAAG
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAG
2275094 TTTGAAATAA
Statistics
Matches: 510, Mismatches: 61, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 510 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
Found at i:2275342 original size:62 final size:62
Alignment explanation
Indices: 2275228--2275518 Score: 316
Period size: 62 Copynumber: 4.7 Consensus size: 62
2275218 ATCAAATTAA
* * * * * ** *
2275228 AAAGATTGATTTCTCTTTAAGAGAAAATCAAGGATTAGTTTCTA-TGGGGAGTCAGAAATAAC
1 AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATT-GACTCTACTGAGGAGTCAGAAATAAC
* * * * *
2275290 AAATGTTGACTTTTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGAGTCAAAAATAAT
1 AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAGAAATAAC
* * * ** *
2275352 AAAGGTTGACTTCTCTTTAAGAGGAAGTCAAATATTGACTCTACT-AGGGAGTCACAAATAAC
1 AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGA-GGAGTCAGAAATAAC
* * *
2275414 AAATGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGGGGAGTCAGAAATATC
1 AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAGAAATAAC
* * * *
2275476 AAAGGTTTACTTCTCTTCATGAAGAAATCAAGGATTGATTCTA
1 AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTA
2275519 GGACACAAGA
Statistics
Matches: 191, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
61 6 0.03
62 185 0.97
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (62 bp):
AAAGGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAGAAATAAC
Found at i:2275513 original size:124 final size:123
Alignment explanation
Indices: 2275228--2275518 Score: 370
Period size: 124 Copynumber: 2.3 Consensus size: 123
2275218 ATCAAATTAA
* * * * * *
2275228 AAAGATTGATTTCTCTTTAAG-AGAAAATCAAGGATTAGTTTCTATGGGGAGTCAGAAATAACAA
1 AAAGGTTGACTTCTCTTCAAGAAG-AAATCAAGGATT-GATTCTATAGGGAGTCACAAATAACAA
* *
2275292 ATGTTGACTTTTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGAGTCAAAAATAAT
64 ATGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAAAAATAAT
* * * ** *
2275352 AAAGGTTGACTTCTCTTTAAGAGGAAGTCAAATATTGACTCTACTAGGGAGTCACAAATAACAAA
1 AAAGGTTGACTTCTCTTCAAGAAGAAATCAAGGATTGATTCTA-TAGGGAGTCACAAATAACAAA
* *
2275417 TGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGGGGAGTCAGAAAT-AT
65 TGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAAAAATAAT
* *
2275475 CAAAGGTTTACTTCTCTTCATGAAGAAATCAAGGATTGATTCTA
1 -AAAGGTTGACTTCTCTTCAAGAAGAAATCAAGGATTGATTCTA
2275519 GGACACAAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
123 7 0.05
124 134 0.94
125 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (123 bp):
AAAGGTTGACTTCTCTTCAAGAAGAAATCAAGGATTGATTCTATAGGGAGTCACAAATAACAAAT
GTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGAGGAGTCAAAAATAAT
Found at i:2279602 original size:14 final size:16
Alignment explanation
Indices: 2279572--2279604 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
2279562 TGAAATTGTA
2279572 AAAAATACAGAAATGC
1 AAAAATACAGAAATGC
2279588 AAAAATA-AG-AATGC
1 AAAAATACAGAAATGC
2279602 AAA
1 AAA
2279605 TTGTGCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.67, C:0.09, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAATACAGAAATGC
Found at i:2281187 original size:2 final size:2
Alignment explanation
Indices: 2281180--2281211 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2281170 GATATAATCA
2281180 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
2281212 TAGGTTTTTT
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:2281362 original size:2 final size:2
Alignment explanation
Indices: 2281355--2281397 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2281345 TGAATATTTC
*
2281355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2281397 A
1 A
2281398 GGACTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2281573 original size:23 final size:24
Alignment explanation
Indices: 2281522--2281573 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
2281512 AATTAAATAA
*
2281522 ATAA-AAAGTAAATGGCATAAATT
1 ATAATAAAGTAAATGGCATAAAAT
*
2281545 AAAATAAAGTAAA-GG-ACTAAAAT
1 ATAATAAAGTAAATGGCA-TAAAAT
2281568 ATAATA
1 ATAATA
2281574 CCCAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.04
23 15 0.62
24 8 0.33
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.23
Consensus pattern (24 bp):
ATAATAAAGTAAATGGCATAAAAT
Found at i:2283496 original size:65 final size:64
Alignment explanation
Indices: 2283425--2283550 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
2283415 AATGCACATA
* *
2283425 CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCAAATGCATTTGATGCATCGATGCACCA
1 CCATGCACCGATGCACTCAGGATATTT-TG-AAACATCAAATGCACTTGATGCATCGATGCACCA
2283489 G
64 G
* * * *
2283490 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATCGATGCAC
1 CCATGCACCGATGCACTCAGGATATTTTGAAACATCAAATGCACTTGATGCATCGATGCAC
2283551 TCTTAGTGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
64 30 0.56
65 21 0.39
66 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (64 bp):
CCATGCACCGATGCACTCAGGATATTTTGAAACATCAAATGCACTTGATGCATCGATGCACCAG
Found at i:2286325 original size:24 final size:23
Alignment explanation
Indices: 2286293--2286341 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
2286283 ACTATTTATT
2286293 ATATATATT-TATGAATATATAAAA
1 ATATATATTATAT-AATA-ATAAAA
*
2286317 ATATTTATTCATATAATAATAAAA
1 ATATATATT-ATATAATAATAAAA
2286341 A
1 A
2286342 AAAAATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 15 0.68
25 4 0.18
26 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATATATTATATAATAATAAAA
Found at i:2287641 original size:3 final size:3
Alignment explanation
Indices: 2287633--2287738 Score: 158
Period size: 3 Copynumber: 35.3 Consensus size: 3
2287623 AATATATATT
* *
2287633 TAA TAA TAA TAA TAA TAA GAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2287681 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2287729 AAA TGA TAA T
1 TAA TAA TAA T
2287739 GATATGGGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2288266 original size:116 final size:115
Alignment explanation
Indices: 2287996--2288263 Score: 393
Period size: 116 Copynumber: 2.3 Consensus size: 115
2287986 TTTTGATGAG
*
2287996 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
2288060 GAAAAAAAAATAACCCATCAAGTAATAGATTTGATCAAAAAGGTTGAACAAA
65 G-AAAAAAAATAACCCATCAAGTAATAGATTAGATCAAAAAGGTTGAACAAA
*
2288112 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
** * * *
2288177 -GCAAAAATAATCCATCAAGTGAT-GAATTCAGA-C-CAAAGGTTGAACAAA
66 AAAAAAAATAACCCATCAAGTAATAG-ATT-AGATCAAAAAGGTTGAACAAA
2288225 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
1 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
2288264 TGAATTCAAA
Statistics
Matches: 141, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
113 53 0.38
114 23 0.16
115 2 0.01
116 62 0.44
117 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (115 bp):
TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
AAAAAAAATAACCCATCAAGTAATAGATTAGATCAAAAAGGTTGAACAAA
Found at i:2288300 original size:65 final size:65
Alignment explanation
Indices: 2288196--2288328 Score: 230
Period size: 65 Copynumber: 2.0 Consensus size: 65
2288186 ATCCATCAAG
* *
2288196 TGATGAATTCAGACCAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
* *
2288261 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
2288326 TGA
1 TGA
2288329 GTTCTTCTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (65 bp):
TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
Found at i:2288327 original size:24 final size:23
Alignment explanation
Indices: 2288292--2288336 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2288282 TGAACAAATT
2288292 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
2288316 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
2288337 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:2288396 original size:178 final size:178
Alignment explanation
Indices: 2288097--2288441 Score: 636
Period size: 178 Copynumber: 1.9 Consensus size: 178
2288087 GATTTGATCA
2288097 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
2288162 TATGAACTTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACCAAAGGTTGAACAAATT
66 TATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATT
2288227 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
*
2288275 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
2288340 TATGAACCTTCTCTGGCAAAAATAATCCATCATGTGATGAATTCGGACAAAAGGTTGAACAAATT
66 TATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATT
*
2288405 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
131 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA
2288442 GTTCTTCTCA
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
178 161 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (178 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATGAATTCAAAC
Found at i:2288459 original size:113 final size:112
Alignment explanation
Indices: 2288260--2288698 Score: 716
Period size: 113 Copynumber: 3.9 Consensus size: 112
2288250 CATTCTTCAG
* *
2288260 ATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAT
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
2288325 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAT
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGG-AAAAATGATCCATCAA
* *
2288373 GTGATGAATTCGGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
2288438 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATATTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGG-AAAAATGATCCATCAA
*
2288486 ATGATGAATTCAGACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
2288551 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA-ATGATCCATCAA
* **
2288599 ATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
2288664 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
66 ATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA
2288699 GCTAATCTTT
Statistics
Matches: 307, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
112 3 0.01
113 304 0.99
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (112 bp):
ATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAATGATCCATCAA
Found at i:2288523 original size:291 final size:293
Alignment explanation
Indices: 2287996--2288554 Score: 894
Period size: 291 Copynumber: 1.9 Consensus size: 293
2287986 TTTTGATGAG
* *
2287996 TTCTTCTCATTATGAACTTTCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
2288061 AAAAAAAAATAACCCATCAAGTAATAGATTTGATCAAAAAGGTTGAACAAATTCTTCTCATTATG
66 -AAAAAAAATAACCCATCAAGTAATAGATTGGATCAAAAAGGTTGAACAAATTCTTCTCATTATG
*
2288126 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCA
130 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCA
* *
2288191 TCAAGTGATGAATTCAGACCAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCT
195 TCAAATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCT
2288256 TCAGATGATGAATTCAAACAAAAGGTTGAACAAA
260 TCAGATGATGAATTCAAACAAAAGGTTGAACAAA
*
2288290 TTCTTCTCATTATGAAC-TTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACCTTCTCT
1 TTCTTCTCATTATGAACTTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
** * * *
2288354 G-GCAAAAATAATCCATCATGTGAT-GAATTCGGA-C-AAAAGGTTGAACAAATTCTTCTCATTA
65 GAAAAAAAATAACCCATCAAGTAATAG-ATT-GGATCAAAAAGGTTGAACAAATTCTTCTCATTA
* * *
2288415 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATATTGATC
128 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATC
* *
2288480 CATCAAATGATGAATTCAGACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
193 CATCAAATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATT
2288545 CTTCAGATGA
258 CTTCAGATGA
2288555 GTTCTTCTCA
Statistics
Matches: 245, Mismatches: 17, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
291 160 0.65
292 22 0.09
293 5 0.02
294 58 0.24
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.38
Consensus pattern (293 bp):
TTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
AAAAAAAATAACCCATCAAGTAATAGATTGGATCAAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCAT
CAAATGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTT
CAGATGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:2289763 original size:83 final size:81
Alignment explanation
Indices: 2289508--2289941 Score: 591
Period size: 83 Copynumber: 5.2 Consensus size: 81
2289498 CTTATTTTTA
* * * * *
2289508 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATAAC
1 CTATG-GCAAATTCATCTTCTAAATTCAATGATT-G--TTCT--GTCCA-ACCAGATCAGATAAC
2289573 TCAAAGAACACTTCCAGAAGATG
59 TCAAAGAACACTTCCAGAAGATG
*
2289596 CTATTGGCAAATTCATCTTCTAAACTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAG
1 CTA-TGGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAG
2289661 AACACTTCCAGAAGATG
65 AACACTTCCAGAAGATG
* ** * *
2289678 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTCTG-CTAAACCAGGTCAGATAACTCAA
1 CTATG-GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTC-CAACCAGATCAGATAACTCAA
2289742 AGAACACTTCCAGAAGATG
63 AGAACACTTCCAGAAGATG
** *
2289761 CTATTAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAAATAACTCAAA
1 CTA-TGGCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAA
*
2289826 GAACACTTCCATAAGATG
64 GAACACTTCCAGAAGATG
2289844 CTATTGGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAG
1 CTA-TGGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAG
2289909 AACACTTCCAGAAGATG
65 AACACTTCCAGAAGATG
2289926 CTATTGGCAAATTCAT
1 CTA-TGGCAAATTCAT
2289942 TTGTTCTATT
Statistics
Matches: 315, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
81 2 0.01
82 126 0.40
83 150 0.48
84 2 0.01
85 3 0.01
87 1 0.00
88 29 0.09
89 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (81 bp):
CTATGGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATG
Found at i:2289792 original size:165 final size:165
Alignment explanation
Indices: 2289514--2289941 Score: 628
Period size: 165 Copynumber: 2.6 Consensus size: 165
2289504 TTTACTATGA
* * * *
2289514 GCAAATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATAACTCAAAG
1 GCAAATTCATCTTCCAAATTCAATGATT-G--TTCT--G-TCAAACCAGATCAGATAACTCAAAG
2289579 AACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT-GTTCTGTCCAACC
60 AACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACC
*
2289643 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TG
125 AGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG
* * *
2289683 AGCACATTCATCTTCCCAATTCAATGATTGGTTCTG-CTAAACCAGGTCAGATAACTCAAAGAAC
1 -GCAAATTCATCTTCCAAATTCAATGATT-GTTCTGTC-AAACCAGATCAGATAACTCAAAGAAC
** *
2289747 ACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGA
63 ACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGA
*
2289812 TCAAATAACTCAAAGAACACTTCCATAAGATGCTATTG
128 TCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG
* *
2289850 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACT
2289915 TCCAGAAGATGCTATTGGCAAATTCAT
66 TCCAGAAGATGCTATTGGCAAATTCAT
2289942 TTGTTCTATT
Statistics
Matches: 235, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
164 1 0.00
165 125 0.53
166 76 0.32
167 2 0.01
168 3 0.01
170 28 0.12
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (165 bp):
GCAAATTCATCTTCCAAATTCAATGATTGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATTGGTTCTGTCCAACCAGATCA
AATAACTCAAAGAACACTTCCAGAAGATGCTATTG
Found at i:2298380 original size:14 final size:15
Alignment explanation
Indices: 2298361--2298393 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2298351 ATTATTTTTC
2298361 AAATTTTA-ATTAAT
1 AAATTTTATATTAAT
*
2298375 AAATTTTATCTTAAT
1 AAATTTTATATTAAT
2298390 AAAT
1 AAAT
2298394 AAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTTATATTAAT
Found at i:2301776 original size:18 final size:17
Alignment explanation
Indices: 2301728--2301778 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
2301718 AAATACTTGC
*
2301728 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
2301746 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
2301764 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
2301779 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:2302501 original size:20 final size:21
Alignment explanation
Indices: 2302468--2302508 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2302458 ACTATTATAT
2302468 ATATTTATGAATAT-ATAAAA
1 ATATTTATGAATATAATAAAA
**
2302488 ATATTTATTCATATAATAAAA
1 ATATTTATGAATATAATAAAA
2302509 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTTATGAATATAATAAAA
Found at i:2303816 original size:3 final size:3
Alignment explanation
Indices: 2303808--2303907 Score: 164
Period size: 3 Copynumber: 33.3 Consensus size: 3
2303798 AATATATATT
* *
2303808 TAA TAA TAA TAA TAA TGA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2303856 TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2303904 TAA T
1 TAA T
2303908 TATGATGATG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2303918 original size:6 final size:6
Alignment explanation
Indices: 2303808--2303926 Score: 64
Period size: 6 Copynumber: 20.3 Consensus size: 6
2303798 AATATATATT
* * * * * *
2303808 TAATAA TAATAA TAATGA T--T-A TAATAA TAATAA TAATAA TAATAA
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA
* * * * * * * *
2303853 TAATAA TAATAA TAATAA TAATAA TAATGA TGATAA TAATAA TAATAA
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA
* * *
2303901 TAATAA TTATGA TGATGA TAATGA TA
1 TAATGA TAATGA TAATGA TAATGA TA
2303927 TGGGTAAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 1 0.01
6 97 0.96
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (6 bp):
TAATGA
Found at i:2309333 original size:20 final size:20
Alignment explanation
Indices: 2309308--2309350 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2309298 TCTAAGAGCC
*
2309308 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
2309328 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
2309348 CAT
1 CAT
2309351 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:2322214 original size:17 final size:19
Alignment explanation
Indices: 2322186--2322234 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2322176 TATTTTGAAA
2322186 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
2322204 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
2322223 CACCGATGCACT
1 CATCGATGCACT
2322235 AAGGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:2322230 original size:64 final size:63
Alignment explanation
Indices: 2322092--2322240 Score: 169
Period size: 64 Copynumber: 2.3 Consensus size: 63
2322082 GCACATACCA
* *
2322092 TGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGCC
1 TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAG-C
* * *
2322156 ATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGATGCACTCTT
1 -TGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATGCATCGATGCAC-C--
2322219 AG-
61 AGC
*
2322221 TGCACCGATGCACTAAGGAT
1 TGCACCGATGCACTCAGGAT
2322241 CCAACGGTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 47 0.66
65 19 0.27
66 3 0.04
67 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGC
Found at i:2325202 original size:5 final size:5
Alignment explanation
Indices: 2325194--2325225 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2325184 TTTGGATCTA
*
2325194 AAATA AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AAATT AA
2325226 TAAATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AAATT
Found at i:2325217 original size:15 final size:15
Alignment explanation
Indices: 2325194--2325229 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2325184 TTTGGATCTA
2325194 AAATAAAATTAAATT
1 AAATAAAATTAAATT
*
2325209 AAATTAAATTAAATT
1 AAATAAAATTAAATT
2325224 -AATAAA
1 AAATAAA
2325230 TATATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAAATTAAATT
Found at i:2325352 original size:30 final size:30
Alignment explanation
Indices: 2325316--2325374 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2325306 ATTATAATAT
*
2325316 ATATTTTAAAAAATAATATA-TACTATATAC
1 ATATTTTAAAAAAT-ATATACTAATATATAC
*
2325346 ATATTTTCAAAAATATATACTAATATATA
1 ATATTTTAAAAAATATATACTAATATATA
2325375 TATAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (30 bp):
ATATTTTAAAAAATATATACTAATATATAC
Found at i:2325388 original size:27 final size:26
Alignment explanation
Indices: 2325308--2325403 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
2325298 ATATTTGTAT
* * *
2325308 TATAATATATAT-TTTAAAAAATAATA
1 TATACTATATATATATAATAAAT-ATA
* ** *
2325334 TATACTATATACATATTTTCAAAAATA
1 TATACTATATATATATAAT-AAATATA
2325361 TATACTAATATATATATAATAAATATA
1 TATACT-ATATATATATAATAAATATA
*
2325388 TATTCTATACTATATA
1 TATACTATA-TATATA
2325404 AAGTATTACT
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
26 13 0.24
27 28 0.52
28 13 0.24
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TATACTATATATATATAATAAATATA
Found at i:2325506 original size:2 final size:2
Alignment explanation
Indices: 2325495--2325526 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2325485 GATTTGTGAA
2325495 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2325527 GTTTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2325546 original size:51 final size:49
Alignment explanation
Indices: 2325448--2325564 Score: 148
Period size: 51 Copynumber: 2.4 Consensus size: 49
2325438 AATTTTTTTG
**
2325448 TATATATATATATATATATATATTATAGTTTGCAAATGATTTGTGAAATA
1 TATATATATATATATATATATATTATAGTTTGCAAAACATTTGTGAAA-A
**
2325498 TTATATATATATATATATATATATATATAGTTTTTAAAACATTT-TGAAAA
1 -TATATATATATATATATATATAT-TATAGTTTGCAAAACATTTGTGAAAA
*
2325548 CATATATATAT-TATATA
1 TATATATATATATATATA
2325565 GTTTTTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
48 6 0.10
49 10 0.17
50 1 0.02
51 28 0.47
52 15 0.25
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (49 bp):
TATATATATATATATATATATATTATAGTTTGCAAAACATTTGTGAAAA
Found at i:2325568 original size:38 final size:38
Alignment explanation
Indices: 2325510--2325749 Score: 239
Period size: 38 Copynumber: 6.4 Consensus size: 38
2325500 ATATATATAT
2325510 ATATATATATATATATAGTTTTTAAAACA-TTTTGAAAA
1 ATATATATAT-TATATAGTTTTTAAAACATTTTTGAAAA
*
2325548 CATATATATATTATATAGTTTTTAAAATATTTTTTGAAAA
1 -ATATATATATTATATAGTTTTTAAAACA-TTTTTGAAAA
*
2325588 A-ATATATAATATATATAGTTTTTAAATCA-TTTT-AAAA
1 ATATATAT-AT-TATATAGTTTTTAAAACATTTTTGAAAA
* *
2325625 ATATATATAATATATAGTTTTAAAAAACATTTTTGAAAA
1 ATATATATATTATATAGTTTT-TAAAACATTTTTGAAAA
* * *
2325664 CTATATA-A-TATATAATTTTGAAAACATTTTT--AAA
1 ATATATATATTATATAGTTTTTAAAACATTTTTGAAAA
* * * * **
2325698 AT-TATATAATATAT-GGTTTAAAAATATTTTTTTAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTTGAAAA
2325734 ATATATATATTATATA
1 ATATATATATTATATA
2325750 ATTTATATTA
Statistics
Matches: 172, Mismatches: 15, Indels: 29
0.80 0.07 0.13
Matches are distributed among these distances:
33 4 0.02
34 18 0.10
35 5 0.03
36 27 0.16
37 32 0.19
38 38 0.22
39 23 0.13
40 25 0.15
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (38 bp):
ATATATATATTATATAGTTTTTAAAACATTTTTGAAAA
Found at i:2325656 original size:37 final size:36
Alignment explanation
Indices: 2325510--2325749 Score: 209
Period size: 37 Copynumber: 6.4 Consensus size: 36
2325500 ATATATATAT
*
2325510 ATATATATATATATATAGTTTTTAAAACATTTTGAAAA
1 ATATATATA-ATATATAGTTTTAAAAACATTTT-AAAA
* **
2325548 CATATATATATTATATAGTTTTTAAAATATTTTTTGAAAA
1 -ATATATATAATATATAG-TTTTAAAA-ACATTTT-AAAA
* *
2325588 A-ATATATAATATATATAGTTTTTAAATCATTTTAAAA
1 ATATATAT-A-ATATATAGTTTTAAAAACATTTTAAAA
*
2325625 ATATATATAATATATAGTTTTAAAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTT-AAAAACA-TTTTAAAA
* * * *
2325663 A-CTATATAATATATAATTTTGAAAACATTTTTAAA
1 ATATATATAATATATAGTTTTAAAAACATTTTAAAA
* * *
2325698 AT-TATATAATATAT-GGTTTAAAAATATTTTTTTAAA
1 ATATATATAATATATAGTTTTAAAAACA--TTTTAAAA
*
2325734 ATATATATATTATATA
1 ATATATATAATATATA
2325750 ATTTATATTA
Statistics
Matches: 168, Mismatches: 21, Indels: 25
0.79 0.10 0.12
Matches are distributed among these distances:
34 8 0.05
35 20 0.12
36 28 0.17
37 39 0.23
38 31 0.18
39 25 0.15
40 17 0.10
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTAAAAACATTTTAAAA
Found at i:2328204 original size:20 final size:19
Alignment explanation
Indices: 2328179--2328217 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
2328169 TTAAAACAAC
2328179 AAATAATAA-AAACAGTAAAA
1 AAATAA-AATAAACA-TAAAA
2328199 AAATAAAATAAACATAAAA
1 AAATAAAATAAACATAAAA
2328218 TATAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATAAAATAAACATAAAA
Found at i:2331833 original size:2 final size:2
Alignment explanation
Indices: 2331826--2331872 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
2331816 GTTCAACAAG
* *
2331826 AT AT AT AT AT AT AT AT AT GT AT GT 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 AT AT AT AT AT
2331868 AT AT A
1 AT AT A
2331873 AAGGATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2336790 original size:2 final size:2
Alignment explanation
Indices: 2336778--2336943 Score: 151
Period size: 2 Copynumber: 87.5 Consensus size: 2
2336768 AAATGTAACC
*
2336778 AT AT A- AT AT AT AT -T AT AT AT -T AGT ACT AT AC A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT AT AT AT AT
* *
2336817 -T AT AT AT -T AT AT AA AT A- AT AT AT AT AT AC AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2336855 AT AT AT AT AT 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 AT AT AT AT AT
* * *
2336897 AT AT AT AT AT -T AA AA AT A- AT AT AT ACT ACT AG AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT AT AT AT
2336938 AT -T AT A
1 AT AT AT A
2336944 AAATATAAGT
Statistics
Matches: 139, Mismatches: 10, Indels: 30
0.78 0.06 0.17
Matches are distributed among these distances:
1 13 0.09
2 117 0.84
3 9 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2337358 original size:31 final size:31
Alignment explanation
Indices: 2337320--2337391 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2337310 GTGAGTGGTT
** *
2337320 AATTTGTTGTAAATCGATAACATTAGTAACC
1 AATTTGTTACAAATCGATAACATTAATAACC
* * *
2337351 AATTTGTTACAAATCGTTAACATTAATGATC
1 AATTTGTTACAAATCGATAACATTAATAACC
2337382 AATTTGTTAC
1 AATTTGTTAC
2337392 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (31 bp):
AATTTGTTACAAATCGATAACATTAATAACC
Found at i:2340387 original size:18 final size:19
Alignment explanation
Indices: 2340361--2340413 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
2340351 ATTTTATGAG
*
2340361 GTAAGAAATAAT-ATTATT
1 GTAAAAAATAATAATTATT
2340379 GTAAAAAAT-ATAATTATT
1 GTAAAAAATAATAATTATT
2340397 -TAAAATAATATATAATT
1 GTAAAA-AATA-ATAATT
2340414 TTGAGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 17 0.57
20 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
GTAAAAAATAATAATTATT
Found at i:2341867 original size:316 final size:315
Alignment explanation
Indices: 2341265--2342200 Score: 1630
Period size: 316 Copynumber: 3.0 Consensus size: 315
2341255 TATTGTATTA
2341265 TTTGATTTTTAATTATTTTATTTAAATA---T-TTTTTTTGCAGTTATAAAATGGAAAGCGGTCT
1 TTTGATTTTTAATTATTTTATTTAAATATTTTATTTTTTTGCAGTTATAAAATGGAAAGCGGTCT
* *
2341326 GCTTT-GTTTGGATGAAAATTTATATAAGTTAACGGAAACAATAATGTTTACGGTGCATGGGTCG
66 G-TTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTCG
2341390 CGCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCTC
130 CGCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCTC
*
2341455 TCAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGCTTCAATACAGATAT
195 TCAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGCTTCAGTACAGATAT
2341520 CCAACATCATTGTTTCCGTTAACTTATATAGATTTCCATCCAAACGAAGCAGACCG
260 CCAACATCATTGTTTCCGTTAACTTATATAGATTTCCATCCAAACGAAGCAGACCG
**
2341576 TTTGATTTTTTAATTATTTTATTTAAATATTTTATTTTTTTGCAGTTATAAAATAAAAAGCGGTC
1 TTTGA-TTTTTAATTATTTTATTTAAATATTTTATTTTTTTGCAGTTATAAAATGGAAAGCGGTC
2341641 TGTTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTCG
65 TGTTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTCG
*
2341706 CGCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCCC
130 CGCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCTC
*
2341771 TCAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGTTTCAGTACAGATAT
195 TCAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGCTTCAGTACAGATAT
*
2341836 CCAACATCATTGTTTCCGTTAACTTATATAGATTTCAATCCAAACGAAGCAGACCG
260 CCAACATCATTGTTTCCGTTAACTTATATAGATTTCCATCCAAACGAAGCAGACCG
* *
2341892 TTTGACTTTTTAATTATTTTATTTAAATATTTTATTTTTTTTACAGTTATAAAATGGAAAGCGAT
1 TTTGA-TTTTTAATTATTTTATTTAAATATTTTA-TTTTTTTGCAGTTATAAAATGGAAAGCGGT
2341957 CTGTTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTC
64 CTGTTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTC
** *
2342022 GCGCCTTTTATAATTATATTCGTATTTCTCTACTTTTAAACTTTTCTCTCGGCTATAAATATGCT
129 GCGCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCT
* * *
2342087 CTCAACCCGTAAACATTCACAGCAATCCTCTCAACTACGAGAATGTCGTCGCTTCAGTACAAATA
194 CTCAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGCTTCAGTACAGATA
* * *
2342152 TCCAATATCATTGTTTCCGTTAACTTATACATATTTCCATCCAAACGAA
259 TCCAACATCATTGTTTCCGTTAACTTATATAGATTTCCATCCAAACGAA
2342201 ACAAACCGCT
Statistics
Matches: 593, Mismatches: 25, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
311 5 0.01
312 23 0.04
315 4 0.01
316 303 0.51
317 258 0.44
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (315 bp):
TTTGATTTTTAATTATTTTATTTAAATATTTTATTTTTTTGCAGTTATAAAATGGAAAGCGGTCT
GTTTCGTTTGGATGAAAATTTGTATAAGTTAACGGAAACAATGATGTTTACGGTGCATGGGTCGC
GCCTTGAATAATTATATTCGTATTTCTCGACTTTTAAACTTTTCTCTCGGCTATAAATATGCTCT
CAACCCGTAAATATTCACAGCAATCCTCTCAACTAGGAGAATGTCGTCGCTTCAGTACAGATATC
CAACATCATTGTTTCCGTTAACTTATATAGATTTCCATCCAAACGAAGCAGACCG
Found at i:2342266 original size:16 final size:16
Alignment explanation
Indices: 2342229--2342287 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
2342219 TATAACTGCA
2342229 AAAAAATAAAAT-ATT
1 AAAAAATAAAATAATT
*
2342244 --TAAATAAAATAATT
1 AAAAAATAAAATAATT
2342258 AAAAAATAAAATAATT
1 AAAAAATAAAATAATT
* *
2342274 AAATAATTAAATAA
1 AAAAAATAAAATAA
2342288 AATACTAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 9 0.24
14 3 0.08
16 25 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATAAAATAATT
Found at i:2342279 original size:8 final size:8
Alignment explanation
Indices: 2342250--2342287 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
2342240 TATTTAAATA
2342250 AAATAATT
1 AAATAATT
* *
2342258 AAAAAATA
1 AAATAATT
2342266 AAATAATT
1 AAATAATT
2342274 AAATAATT
1 AAATAATT
2342282 AAATAA
1 AAATAA
2342288 AATACTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAATAATT
Found at i:2342290 original size:13 final size:13
Alignment explanation
Indices: 2342232--2342291 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
2342222 AACTGCAAAA
*
2342232 AAATAAAATATTT
1 AAATAAAATAATT
2342245 AAATAAAATAATT
1 AAATAAAATAATT
*
2342258 -AA-AAAATAA-A
1 AAATAAAATAATT
*
2342268 ATAATTAAATAATT
1 A-AATAAAATAATT
2342282 AAATAAAATA
1 AAATAAAATA
2342292 CTAACAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 7 0.18
12 4 0.11
13 26 0.68
14 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:2342301 original size:37 final size:37
Alignment explanation
Indices: 2342228--2342301 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2342218 TTATAACTGC
* *
2342228 AAAAAAATAAAATATTTAAATAAAATAATTAAAAAAT
1 AAAAAAATAAAATAATTAAATAAAATAACTAAAAAAT
* *
2342265 AAAATAATTAAATAATTAAATAAAAT-ACTAACAAAAT
1 AAAAAAATAAAATAATTAAATAAAATAACTAA-AAAAT
2342302 GTTAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (37 bp):
AAAAAAATAAAATAATTAAATAAAATAACTAAAAAAT
Found at i:2343619 original size:25 final size:25
Alignment explanation
Indices: 2343566--2343613 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2343556 TTGTTTATTC
*
2343566 ATTTATTATCTTATTTTTCCATTTG
1 ATTTATTATCTTATTTTTCAATTTG
*
2343591 ATTTATTATTTTATTTTT-AATTT
1 ATTTATTATCTTATTTTTCAATTT
2343614 TTATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTATTATCTTATTTTTCAATTTG
Found at i:2343652 original size:23 final size:21
Alignment explanation
Indices: 2343591--2343661 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 21
2343581 TTTCCATTTG
*
2343591 ATTTATTATTTT-A-TTTTTA
1 ATTTTTTATTTTCATTTTTTA
2343610 ATTT-TTATTTTCATTTTTTA
1 ATTTTTTATTTTCATTTTTTA
* *
2343630 ATTTTTTTTCTTTGATTTATTTA
1 ATTTTTTAT-TTTCATTT-TTTA
2343653 ATTTTTTAT
1 ATTTTTTAT
2343662 CTAACATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 7 0.16
19 5 0.11
20 10 0.23
21 3 0.07
22 7 0.16
23 12 0.27
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (21 bp):
ATTTTTTATTTTCATTTTTTA
Found at i:2343670 original size:23 final size:22
Alignment explanation
Indices: 2343604--2343673 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
2343594 TATTATTTTA
**
2343604 TTTTTAA-TTTTTAT-TTTCAT
1 TTTTTAATTTTTTATCTAACAT
* ***
2343624 TTTTTAATTTTTTTTCTTTGAT
1 TTTTTAATTTTTTATCTAACAT
2343646 TTATTTAATTTTTTATCTAACAT
1 TT-TTTAATTTTTTATCTAACAT
2343669 TTTTT
1 TTTTT
2343674 TACTCTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.17
21 6 0.15
22 10 0.24
23 18 0.44
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTTTAATTTTTTATCTAACAT
Found at i:2347861 original size:32 final size:32
Alignment explanation
Indices: 2347825--2347940 Score: 112
Period size: 32 Copynumber: 3.6 Consensus size: 32
2347815 GGAACAATAA
*
2347825 GGGCA-TCTTTGAAGATTCAACATCAAATGCTG
1 GGGCATTCTTTG-AGATTCAACATCAAATGATG
* * * *
2347857 GGGCATTTTTTGAGATTTAACATCAAAGGATA
1 GGGCATTCTTTGAGATTCAACATCAAATGATG
* *
2347889 GGGCATTTTTTGAGATTCAACATCGAAT-ATTG
1 GGGCATTCTTTGAGATTCAACATCAAATGA-TG
*
2347921 GGGCA-TCTTTGGGAATTCAA
1 GGGCATTCTTTGAG-ATTCAA
2347941 TATCCTGAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
31 7 0.10
32 58 0.83
33 5 0.07
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (32 bp):
GGGCATTCTTTGAGATTCAACATCAAATGATG
Found at i:2348960 original size:19 final size:19
Alignment explanation
Indices: 2348936--2349006 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
2348926 ATGTAATTCA
2348936 TGCATCGATGCATAAGTAG
1 TGCATCGATGCATAAGTAG
2348955 TGCATCGATGCATAAGTAG
1 TGCATCGATGCATAAGTAG
2348974 TGCATCGATGCATAAGTAG
1 TGCATCGATGCATAAGTAG
2348993 TGCATCGATGCATA
1 TGCATCGATGCATA
2349007 CCATTAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCATAAGTAG
Found at i:2349002 original size:102 final size:102
Alignment explanation
Indices: 2348875--2349069 Score: 268
Period size: 102 Copynumber: 1.9 Consensus size: 102
2348865 TTGAAGGTGT
* ** *
2348875 ATCGATGCACAGGAAGTGCATCGATGCACT-CTTTTAA-AATAAATACATCGAATGTAATTCATG
1 ATCGATGCACAAGAAGTGCATCGATGCA-TACCATTAATAATAAA-ACATCGAATGCAATTCATG
*
2348938 CATCGATGCATAAGTAGTGCATCGATGCATAAGTAGTGC
64 CATCGATGCATAAGGAGTGCATCGATGCATAAGTAGTGC
* * * **
2348977 ATCGATGCATAAGTAGTGCATCGATGCATACCATTAATAATGAAACATCGAATGCAATTGGTGCA
1 ATCGATGCACAAGAAGTGCATCGATGCATACCATTAATAATAAAACATCGAATGCAATTCATGCA
2349042 TCGATGCATAAGGAGTGCATCGATGCAT
66 TCGATGCATAAGGAGTGCATCGATGCAT
2349070 CCCAGCAATA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 1 0.01
102 75 0.93
103 5 0.06
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (102 bp):
ATCGATGCACAAGAAGTGCATCGATGCATACCATTAATAATAAAACATCGAATGCAATTCATGCA
TCGATGCATAAGGAGTGCATCGATGCATAAGTAGTGC
Found at i:2349048 original size:64 final size:64
Alignment explanation
Indices: 2348973--2349136 Score: 204
Period size: 64 Copynumber: 2.6 Consensus size: 64
2348963 TGCATAAGTA
** *
2348973 GTGCATCGATGCATAAGTAGTGCATCGATGCATACCATTAATAATGA-AACATCGAATGCAATTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATACCAGCAATAAT-ATAACATCGAATACAATTG
* * * ** *
2349037 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATATTACATCGAATACCTTTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATACCAGCAATAATATAACATCGAATACAATTG
* * *
2349101 ATGCACCGATGCATCAGTAGTGCATCGATGCATACC
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATACC
2349137 TTCATTAAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 1 0.01
64 84 0.99
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATACCAGCAATAATATAACATCGAATACAATTG
Found at i:2349828 original size:31 final size:31
Alignment explanation
Indices: 2349790--2349914 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
2349780 AGGGTCGAGG
2349790 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2349821 GTTTACCTATGTTCTTCGGGACACATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2349852 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2349883 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
2349914 G
1 G
2349915 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2353131 original size:45 final size:45
Alignment explanation
Indices: 2353082--2353185 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
2353072 GCACAGGAAG
**
2353082 TGCATCGATGCACT-CTTTTAA-AATAAATACATCGAATGCAATTCA
1 TGCATCGATGCA-TACCATTAATAATAAA-ACATCGAATGCAATTCA
* **
2353127 TGCATCGATGCATACCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATACCATTAATAATAAAACATCGAATGCAATTCA
2353172 TGCATCGATGCATA
1 TGCATCGATGCATA
2353186 AGGAGTGCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 1 0.02
45 46 0.88
46 5 0.10
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (45 bp):
TGCATCGATGCATACCATTAATAATAAAACATCGAATGCAATTCA
Found at i:2353195 original size:64 final size:64
Alignment explanation
Indices: 2353127--2353270 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
2353117 ATGCAATTCA
** * * *
2353127 TGCATCGATGCATACCATTAATAATGA-AACATCGAATGCAATTGGTGCATCGATGCATAAGGAG
1 TGCATCGATGCATACCAGCAATAAT-ATAACATCGAATACAATTGATGCACCGATGCATAAGGAG
* * ** * * *
2353191 TGCATCGATGCATCCCAGCAATAATATTACATCGAATACCTTTTATGCACCGATGCATCAGTAG
1 TGCATCGATGCATACCAGCAATAATATAACATCGAATACAATTGATGCACCGATGCATAAGGAG
2353255 TGCATCGATGCATACC
1 TGCATCGATGCATACC
2353271 TTCATTAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
63 1 0.02
64 65 0.98
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATACCAGCAATAATATAACATCGAATACAATTGATGCACCGATGCATAAGGAG
Found at i:2353961 original size:31 final size:31
Alignment explanation
Indices: 2353923--2354047 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
2353913 AGGGTCGAGG
2353923 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2353954 GTTTACCTATGTTCTTCGGGACACATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2353985 GTTTACCAATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2354016 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
2354047 G
1 G
2354048 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2355898 original size:36 final size:36
Alignment explanation
Indices: 2355808--2355912 Score: 129
Period size: 37 Copynumber: 2.9 Consensus size: 36
2355798 GTTTTCCTTG
* * **
2355808 AAACAAAGTATTGTCTCTCTTGAGATAGTTTCTTTTA
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCATA
* * *
2355845 GAACTAAATTTTTTCTCTCTTGAGACATTTTCTCATA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCATA
2355882 AAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTC
2355913 CCTTGAAACA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
36 25 0.44
37 29 0.51
38 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATA
Found at i:2356009 original size:138 final size:139
Alignment explanation
Indices: 2355750--2356026 Score: 423
Period size: 138 Copynumber: 2.0 Consensus size: 139
2355740 AGTTTCCAAG
* *
2355750 TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAA
1 TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTAAATATGTTTTCCTTGAAACAAA
* * * * *
2355815 GTATTGTCTCTCTTGAGATAGTTTCTTTTAGAACTAAATTTTTTCTCTCTTGAGACATTTTCTCA
66 GTATCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTGGAGACAGTTTCTCA
2355880 TAAAACAAA
131 TAAAACAAA
* *
2355889 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATA-TTTAAATATGTTTTCCTTTAAACAA
1 TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-ACTTTAAATATGTTTTCCTTGAAACAA
*
2355953 A-TCTCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTGGAGACAGTTTCTC
65 AGTATCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTGGAGACAGTTTCTC
* *
2356017 TTGAAACAAA
130 ATAAAACAAA
2356027 ATCTCTGAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
138 65 0.52
139 59 0.47
140 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (139 bp):
TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTAAATATGTTTTCCTTGAAACAAA
GTATCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTGGAGACAGTTTCTCA
TAAAACAAA
Found at i:2356042 original size:102 final size:101
Alignment explanation
Indices: 2355858--2356185 Score: 442
Period size: 102 Copynumber: 3.2 Consensus size: 101
2355848 CTAAATTTTT
* ** *
2355858 TCTCTCTTGAGACATTTTCTCATAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * * *
2355922 AAAATATTTAAATATGTTTTCCTTTAAACAAATCTCG
66 AAAATCTTTGAATCTGTTTTCCTTTAAACAAAT-TTG
* *
2355959 TCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTGGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* *
2356024 AAAATCTCTGAATCTGTTTTCCTTGAAACAAATTGTG
66 AAAATCTTTGAATCTGTTTTCCTTTAAACAAATT-TG
* * * * *
2356061 TCTCCCTTGAGACTGTTTCTTTTGGAACTAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAT
1 TCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
*
2356126 AAAATCTTTGAATCTGTTTTCCATTAAACAAATTTTG
66 AAAATCTTTGAATCTGTTTTCCTTTAAACAAA-TTTG
* *
2356163 TCTCACTCGAGACAGTTTCTTTT
1 TCTCTCTTGAGACAGTTTCTTTT
2356186 GAGATAGTTT
Statistics
Matches: 199, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
101 25 0.13
102 172 0.86
103 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (101 bp):
TCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAAATCTTTGAATCTGTTTTCCTTTAAACAAATTTG
Found at i:2358065 original size:30 final size:31
Alignment explanation
Indices: 2357988--2358075 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 31
2357978 GTAATTTTTG
*
2357988 TTTA-TTCA-TTTATTATCTTATTTTTTTCCA
1 TTTATTTCATTTTATT-TATTATTTTTTTCCA
* *
2358018 TTTGATTT-ATTAT-TTTATTATTTTTTTTCA
1 TTT-ATTTCATTTTATTTATTATTTTTTTCCA
*
2358048 TTT-TTTCATTTTATTTATTTAATTTTTT
1 TTTATTTCATTTTATTTA-TTATTTTTTT
2358076 ATCTAACATT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 3 0.06
29 4 0.09
30 23 0.49
31 13 0.28
32 4 0.09
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (31 bp):
TTTATTTCATTTTATTTATTATTTTTTTCCA
Found at i:2365082 original size:19 final size:20
Alignment explanation
Indices: 2365046--2365093 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
2365036 TTTATAATTT
*
2365046 TTTAATTAGATTAATTTTAA
1 TTTAATTAGAGTAATTTTAA
* *
2365066 TTTAA-TAGAGTATTTTTTA
1 TTTAATTAGAGTAATTTTAA
2365085 TTTGAATTA
1 TTT-AATTA
2365094 AAATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.61
20 7 0.30
21 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTAATTAGAGTAATTTTAA
Done.