Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 41
Found at i:2236292 original size:23 final size:23
Alignment explanation
Indices: 2236262--2236329 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
2236252 GACACTTGAT
2236262 TATGGTTTAGTATTTCGCAAGGC
1 TATGGTTTAGTATTTCGCAAGGC
2236285 TATGGTTTAGTATTTCGCAAGGC
1 TATGGTTTAGTATTTCGCAAGGC
*
2236308 TATGGTTTAATATTTCGCAAGG
1 TATGGTTTAGTATTTCGCAAGG
2236330 TTGGATTGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (23 bp):
TATGGTTTAGTATTTCGCAAGGC
Found at i:2237731 original size:32 final size:31
Alignment explanation
Indices: 2237667--2237754 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 31
2237657 TAGGAGAGTT
*
2237667 GCAGGGAACAAAGTGCGTCTTCCGGGAAGAC
1 GCAGGGAACACAGTGCGTCTTCCGGGAAGAC
* *
2237698 GCAGGGAACACAGTGTGTCTTCTGGGGAAGAC
1 GCAGGGAACACAGTGCGTCTTC-CGGGAAGAC
* *
2237730 GCCAGGGGAACACAATGCATCTTCC
1 G-CA-GGGAACACAGTGCGTCTTCC
2237755 TCGTTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 20 0.43
32 9 0.19
33 2 0.04
34 16 0.34
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (31 bp):
GCAGGGAACACAGTGCGTCTTCCGGGAAGAC
Found at i:2239191 original size:16 final size:18
Alignment explanation
Indices: 2239153--2239193 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
2239143 ATTATTTTTG
*
2239153 AAATAAAAGATTAAAATA
1 AAATAAAAGATTAAAAGA
2239171 AAATAAAAGA-T-AAAGA
1 AAATAAAAGATTAAAAGA
2239187 AAATAAA
1 AAATAAA
2239194 TAAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
AAATAAAAGATTAAAAGA
Found at i:2239225 original size:19 final size:19
Alignment explanation
Indices: 2239203--2239242 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2239193 ATAAATATTT
2239203 AAATAAAAGATAAGGATAA
1 AAATAAAAGATAAGGATAA
2239222 AAATAAAAGATAAGGATAA
1 AAATAAAAGATAAGGATAA
2239241 AA
1 AA
2239243 TAATTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (19 bp):
AAATAAAAGATAAGGATAA
Found at i:2241886 original size:11 final size:11
Alignment explanation
Indices: 2241870--2241903 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2241860 AAAGTACGCT
2241870 AAAAATAAAAC
1 AAAAATAAAAC
*
2241881 AAAAATAAAATA
1 AAAAATAAAA-C
2241893 AAAAATAAAAC
1 AAAAATAAAAC
2241904 GAAATGGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:2251205 original size:62 final size:63
Alignment explanation
Indices: 2251070--2251214 Score: 183
Period size: 63 Copynumber: 2.3 Consensus size: 63
2251060 CACTCACCAT
* ** *
2251070 ATCGAATGCATTTT-TACATTGATGCACTATCATGCAACGATGCACTCAGGTTTTATGAAAAAC
1 ATCGAATGCATTTTATGCATCCATGCACTACCATGCAACGATGCACTCAGGTTTTATG-AAAAC
*
2251133 ATCGAATGCATTTTATGCATCCATGCA-TACCATGCAGCGATGCACTCAGGCTTGTT-TG-AAAC
1 ATCGAATGCATTTTATGCATCCATGCACTACCATGCAACGATGCACTCAGG-TT-TTATGAAAAC
2251195 ATCGAATGCATTTTA-GCATC
1 ATCGAATGCATTTTATGCATC
2251215 AAAGAGTGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
61 5 0.07
62 19 0.26
63 35 0.47
64 13 0.18
65 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCCATGCACTACCATGCAACGATGCACTCAGGTTTTATGAAAAC
Found at i:2254218 original size:15 final size:15
Alignment explanation
Indices: 2254198--2254258 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
2254188 AAAATTATTT
2254198 TAAAATAAAATATAA
1 TAAAATAAAATATAA
2254213 TAAAATAAAATATAAA
1 TAAAATAAAATAT-AA
* *
2254229 GATAAATAATA-ATAA
1 TA-AAATAAAATATAA
* *
2254244 TTAAATAAAAGATAA
1 TAAAATAAAATATAA
2254259 GGATAAGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 7 0.18
15 19 0.50
16 5 0.13
17 7 0.18
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAAATAAAATATAA
Found at i:2254242 original size:18 final size:17
Alignment explanation
Indices: 2254200--2254286 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 17
2254190 AATTATTTTA
*
2254200 AAATAA-AATATAATA-
1 AAATAATAATATAAGAT
2254215 AAATAA-AATATAAAGAT
1 AAATAATAATAT-AAGAT
2254232 AAATAATAATAATTAA-AT
1 AAATAATAAT-A-TAAGAT
*
2254250 AAA-AGATAAGGATAAGAT
1 AAATA-ATAA-TATAAGAT
2254268 AAATAATAA-AT-AGAT
1 AAATAATAATATAAGAT
2254283 AAAT
1 AAAT
2254287 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
15 19 0.31
16 5 0.08
17 10 0.16
18 22 0.36
19 4 0.07
20 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (17 bp):
AAATAATAATATAAGAT
Found at i:2254254 original size:25 final size:25
Alignment explanation
Indices: 2254209--2254258 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
2254199 AAAATAAAAT
2254209 ATAATAAAATAAAATATAAAGATAA
1 ATAATAAAATAAAATATAAAGATAA
*
2254234 ATAATAATAATTAAATA-AAAGATAA
1 ATAATAA-AATAAAATATAAAGATAA
2254259 GGATAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAATAAAATAAAATATAAAGATAA
Found at i:2254285 original size:33 final size:31
Alignment explanation
Indices: 2254200--2254285 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 31
2254190 AATTATTTTA
*
2254200 AAATAA-AATATAATAAAATAAAATATAAAGAT
1 AAATAATAATA-AAT-AAATAAAAGATAAAGAT
* *
2254232 AAATAATAATAATTAAATAAAAGATAAGGAT
1 AAATAATAATAAATAAATAAAAGATAAAGAT
*
2254263 AAGATAAATAATAAATAGATAAA
1 AA-AT-AATAATAAATAAATAAA
2254286 TTTAAAGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 17 0.37
32 10 0.22
33 19 0.41
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (31 bp):
AAATAATAATAAATAAATAAAAGATAAAGAT
Found at i:2256074 original size:2 final size:2
Alignment explanation
Indices: 2256067--2256094 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2256057 ATTTATCATA
2256067 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
2256095 TTTAGACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2256592 original size:37 final size:37
Alignment explanation
Indices: 2256530--2256601 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
2256520 TTTAATAAAA
2256530 AAATATTATATTTTTATAACATTTTC-AGTTATAATAT
1 AAATATTATATTTTTATAACATTTTCGA-TTATAATAT
* *
2256567 AAATATTATTTTTTTCATAA-TTTTTCGATTATAAT
1 AAATATTATATTTTT-ATAACATTTTCGATTATAAT
2256602 CTTAAACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 26 0.84
38 5 0.16
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (37 bp):
AAATATTATATTTTTATAACATTTTCGATTATAATAT
Found at i:2257284 original size:31 final size:31
Alignment explanation
Indices: 2257248--2257307 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
2257238 AACTTAAAAG
*
2257248 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2257279 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
2257308 CATACAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2257938 original size:19 final size:21
Alignment explanation
Indices: 2257916--2257961 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
2257906 TAATTAAAAT
2257916 AAATAAATTTTA-AT-ATATA
1 AAATAAATTTTATATGATATA
2257935 AAAT-AA-TTTATATGATATA
1 AAATAAATTTTATATGATATA
*
2257954 AATTAAAT
1 AAATAAAT
2257962 ATCTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.18
18 4 0.18
19 12 0.55
20 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATAAATTTTATATGATATA
Found at i:2258039 original size:48 final size:50
Alignment explanation
Indices: 2257953--2258064 Score: 192
Period size: 48 Copynumber: 2.2 Consensus size: 50
2257943 TATATGATAT
2257953 AAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
1 AAATT-AATAT-TATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
2258005 AAATTAATATTATAATAT-ATA-TAAAAAATTAATATTTAATTTATTTAA
1 AAATTAATATTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
2258053 AAATTAATATTA
1 AAATTAATATTA
2258065 AAATTAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
48 39 0.65
49 3 0.05
50 8 0.13
51 5 0.08
52 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (50 bp):
AAATTAATATTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
Found at i:2258069 original size:24 final size:23
Alignment explanation
Indices: 2257975--2258063 Score: 133
Period size: 23 Copynumber: 3.8 Consensus size: 23
2257965 TATAATATAA
2257975 TATTAAAAAATTAATATTTAATT
1 TATTAAAAAATTAATATTTAATT
* *
2257998 TATTTAAAAATTAATATTATAATA
1 TATTAAAAAATTAATATT-TAATT
2258022 TATATAAAAAATTAATATTTAATT
1 TAT-TAAAAAATTAATATTTAATT
*
2258046 TATTTAAAAATTAATATT
1 TATTAAAAAATTAATATT
2258064 AAAATTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
23 31 0.53
24 14 0.24
25 14 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTAAAAAATTAATATTTAATT
Found at i:2258095 original size:16 final size:16
Alignment explanation
Indices: 2258050--2258099 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
2258040 TTAATTTATT
*
2258050 TAAAAATTAATATTAAAA
1 TAAAAATTAA-A-TATAA
* *
2258068 TTAAAATCAAATATAA
1 TAAAAATTAAATATAA
2258084 TAAAAATTAAATATAA
1 TAAAAATTAAATATAA
2258100 ACATTTGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 18 0.67
17 1 0.04
18 8 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATTAAATATAA
Found at i:2265216 original size:30 final size:30
Alignment explanation
Indices: 2265174--2265255 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 30
2265164 ATTATGAATT
* *
2265174 TTAGATTTAATATTAATTTGATCATAAA-C
1 TTAGATTAAATATCAATTTGATCATAAATC
*
2265203 TTTAG-TTGAAATATCATTTTGATCATAAATC
1 -TTAGATT-AAATATCAATTTGATCATAAATC
2265234 TTAGATTAAATATCAATTTGAT
1 TTAGATTAAATATCAATTTGAT
2265256 TTATGAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 2 0.04
30 40 0.89
31 3 0.07
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (30 bp):
TTAGATTAAATATCAATTTGATCATAAATC
Found at i:2271232 original size:42 final size:44
Alignment explanation
Indices: 2271185--2271279 Score: 160
Period size: 42 Copynumber: 2.2 Consensus size: 44
2271175 AAGTTGATAT
2271185 TTTTCTATAAAGGATATTTAAAATA-TTTT-TTTACTTCTTTAC
1 TTTTCTATAAAGGATATTTAAAATATTTTTGTTTACTTCTTTAC
*
2271227 TTTTCTGTAAAGGATATTTAAAATATTTTTGTTTACTTCTTTAC
1 TTTTCTATAAAGGATATTTAAAATATTTTTGTTTACTTCTTTAC
2271271 TTTT-TATAA
1 TTTTCTATAA
2271280 TTTAATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
42 24 0.49
43 8 0.16
44 17 0.35
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (44 bp):
TTTTCTATAAAGGATATTTAAAATATTTTTGTTTACTTCTTTAC
Found at i:2275446 original size:21 final size:20
Alignment explanation
Indices: 2275413--2275455 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2275403 ATTATATTCA
**
2275413 AAAATAAATATAACTATCAG
1 AAAATAAATATAAAAATCAG
*
2275433 AAAATTAATGATAAAAATCAG
1 AAAATAAAT-ATAAAAATCAG
2275454 AA
1 AA
2275456 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAATAAATATAAAAATCAG
Found at i:2277103 original size:31 final size:31
Alignment explanation
Indices: 2277041--2277103 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
2277031 GTTTCACCCG
* ***
2277041 ACCCGACCCGACCCGAATATATGACTTAAAA
1 ACCCGACCCGACCCGAATATATAAAAAAAAA
2277072 ACCCGACCCGACCCGAA-ATAATAAAAAAAAA
1 ACCCGACCCGACCCGAATAT-ATAAAAAAAAA
2277103 A
1 A
2277104 TTAATTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.48, C:0.30, G:0.11, T:0.11
Consensus pattern (31 bp):
ACCCGACCCGACCCGAATATATAAAAAAAAA
Found at i:2277911 original size:31 final size:30
Alignment explanation
Indices: 2277833--2277917 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 30
2277823 TTCGATAATA
* *
2277833 TAATAATTATTTTATAGTATTTAGATAAATTT
1 TAATAA-TATTTTATAATTTTTA-ATAAATTT
*
2277865 TATTAATAATTTTATAATCTTTTAATAAA-TT
1 TAATAAT-ATTTTATAAT-TTTTAATAAATTT
2277896 TAATAAGTATTTTATAATTTTT
1 TAATAA-TATTTTATAATTTTT
2277918 TAAACTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 4 0.09
31 18 0.39
32 20 0.43
33 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTAATAAATTT
Found at i:2277912 original size:11 final size:10
Alignment explanation
Indices: 2277835--2277919 Score: 57
Period size: 10 Copynumber: 8.1 Consensus size: 10
2277825 CGATAATATA
2277835 ATAATTATTTT
1 ATAA-TATTTT
* *
2277846 ATAGTATTTAG
1 ATAATATTT-T
2277857 ATAA-ATTTT
1 ATAATATTTT
2277866 ATTAATAATTTT
1 A-TAAT-ATTTT
*
2277878 ATAATCTTTT
1 ATAATATTTT
*
2277888 AATAA-ATTTA
1 -ATAATATTTT
2277898 ATAAGTATTTT
1 ATAA-TATTTT
*
2277909 ATAATTTTTT
1 ATAATATTTT
2277919 A
1 A
2277920 AACTTTATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
9 5 0.09
10 25 0.43
11 22 0.38
12 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (10 bp):
ATAATATTTT
Found at i:2277919 original size:31 final size:31
Alignment explanation
Indices: 2277833--2277920 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
2277823 TTCGATAATA
* *
2277833 TAATAATTATTTTAT-AGTATTTAGATAAATTT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATTT
* *
2277865 TATTAATAATTTTATAATCTTTTAATAAA-TT
1 TAATAAT-ATTTTATAATTTTTTAATAAATTT
2277896 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
2277921 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 24 0.51
32 18 0.38
33 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (31 bp):
TAATAATATTTTATAATTTTTTAATAAATTT
Found at i:2278563 original size:31 final size:30
Alignment explanation
Indices: 2278519--2278605 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
2278509 TCAATAAAGT
*
2278519 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAACTATAAAATA-TTATTAAATTTA
* *
2278550 TTAAAAGACTATAAAATTATTAATAAATTTA
1 TTAAAAAACTATAAAA-TATTATTAAATTTA
*
2278581 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAACTATAAAAT-ATTATTA
2278606 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (30 bp):
TTAAAAAACTATAAAATATTATTAAATTTA
Found at i:2280474 original size:14 final size:14
Alignment explanation
Indices: 2280451--2280493 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2280441 TATTTTAATA
2280451 TCAGCCTTTAAATT
1 TCAGCCTTTAAATT
* *
2280465 TCAGCATTTATATT
1 TCAGCCTTTAAATT
2280479 TCAGTCCTTTAAATT
1 TCAG-CCTTTAAATT
2280494 CTAGCTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (14 bp):
TCAGCCTTTAAATT
Found at i:2280503 original size:29 final size:27
Alignment explanation
Indices: 2280443--2280507 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
2280433 ATTTATGTTA
*
2280443 TTTTAATATCAGCCTTTAAATTTCAGC
1 TTTTAATTTCAGCCTTTAAATTTCAGC
*
2280470 ATTTATATTTCAGTCCTTTAAA-TTCTAGC
1 TTTTA-ATTTCAG-CCTTTAAATTTC-AGC
2280499 TTTTAATTT
1 TTTTAATTT
2280508 TCTGAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.12
28 13 0.41
29 15 0.47
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTTAATTTCAGCCTTTAAATTTCAGC
Found at i:2280915 original size:139 final size:138
Alignment explanation
Indices: 2280736--2281035 Score: 431
Period size: 139 Copynumber: 2.2 Consensus size: 138
2280726 CTCTAACTAC
* * ***
2280736 TTAATTATTTGAATCAATAGTTGGTTTAAATTGAATAGATTAATATTTAGTGTCTTCACTTTAGG
1 TTAATTATTTGAATCAATAATTGATTTAAATTGAATAGATTAATATTTAGAACCTTCACTTTAGG
* * * *
2280801 TTTAATTTCAAAATTACCCCTTTAATTTAAGGGAATTTTTAATTTGGT-ATTCGCTTTTGCTCGA
66 TTTAATTTCAAAATCACCCCTTTAATTTAAGGGAATTCTTAATTTGGTCA-TCACTTTTGCTCAA
*
2280865 GATTTCATT
130 GATTCCATT
* *
2280874 TTAATTATTCGAATCAATAATTGATTTAAAATTGAATAGATTAATATTTAGAACCTTCATTTTAG
1 TTAATTATTTGAATCAATAATTGATTT-AAATTGAATAGATTAATATTTAGAACCTTCACTTTAG
* * *
2280939 GTTTAATTTTAAAATCAGCCCTTTAATTTAGGGGAATTCTTAATTTGGTCATCACTTTTGCTCAA
65 GTTTAATTTCAAAATCACCCCTTTAATTTAAGGGAATTCTTAATTTGGTCATCACTTTTGCTCAA
*
2281004 GGTTCCATT
130 GATTCCATT
2281013 TTAATTATTTGAATCAATAATTG
1 TTAATTATTTGAATCAATAATTG
2281036 GTTAACAAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
138 24 0.17
139 118 0.83
140 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (138 bp):
TTAATTATTTGAATCAATAATTGATTTAAATTGAATAGATTAATATTTAGAACCTTCACTTTAGG
TTTAATTTCAAAATCACCCCTTTAATTTAAGGGAATTCTTAATTTGGTCATCACTTTTGCTCAAG
ATTCCATT
Found at i:2281565 original size:20 final size:20
Alignment explanation
Indices: 2281542--2281593 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2281532 AACGCGATCC
2281542 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2281562 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2281582 CCAAAATCGCAA
1 CCAGAATCGCAA
2281594 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2281610 original size:21 final size:20
Alignment explanation
Indices: 2281583--2281681 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
2281573 AATCAGTTTC
2281583 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
2281604 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2281625 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2281645 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2281666 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2281682 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2281710 original size:20 final size:20
Alignment explanation
Indices: 2281648--2281841 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2281638 CGATTTTCCA
* ** *
2281648 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2281668 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2281688 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2281708 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2281728 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2281748 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2281768 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2281788 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2281808 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2281829 AAATCGCAACGCG
1 AAATCGCAACGCG
2281842 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2281732 original size:60 final size:60
Alignment explanation
Indices: 2281648--2281841 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2281638 CGATTTTCCA
* ** * *
2281648 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
2281708 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
2281768 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
2281829 AAATCGCAACGCG
1 AAATCGCAACGCG
2281842 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:2282255 original size:33 final size:33
Alignment explanation
Indices: 2282216--2282286 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2282206 TTCACTTAGA
*
2282216 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2282249 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2282282 TTTCA
1 TTTCA
2282287 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2282426 original size:14 final size:14
Alignment explanation
Indices: 2282407--2282460 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
2282397 AGAATGACTG
2282407 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2282421 TCGCAACGCGAAATGGAA
1 TCGCAA--CGAGA--GAA
2282439 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2282453 TCGCAACG
1 TCGCAACG
2282461 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 17 0.50
16 8 0.24
18 9 0.26
ACGTcount: A:0.39, C:0.24, G:0.28, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:2282441 original size:18 final size:16
Alignment explanation
Indices: 2282417--2282465 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
2282407 TCGCAACGAG
2282417 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
*
2282433 ATGGAATCGCAA--CGAG
1 A--GAATCGCAACGCGAA
2282449 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
2282465 A
1 A
2282466 CCAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 9 0.33
16 9 0.33
18 9 0.33
ACGTcount: A:0.43, C:0.22, G:0.27, T:0.08
Consensus pattern (16 bp):
AGAATCGCAACGCGAA
Found at i:2282494 original size:19 final size:19
Alignment explanation
Indices: 2282472--2282569 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2282462 GAAACCAAAA
*
2282472 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2282491 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
*
2282505 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2282524 TCGCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
* *
2282540 T--CGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2282557 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2282570 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 18 0.29
16 7 0.11
17 8 0.13
19 30 0.48
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2282513 original size:14 final size:14
Alignment explanation
Indices: 2282494--2282583 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
2282484 TTTCATTTCG
2282494 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
2282508 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
* *
2282527 CGTTGCGATTCTAT
1 CGTTGCGATTATCT
2282541 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-T-ATCT
*
2282558 CGCGTTGCGATTCTCT
1 --CGTTGCGATTATCT
2282574 CGTTGCGATT
1 CGTTGCGATT
2282584 TTCATTTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 27 0.46
15 1 0.02
16 6 0.10
17 6 0.10
18 1 0.02
19 18 0.31
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:2282519 original size:33 final size:33
Alignment explanation
Indices: 2282477--2282591 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
2282467 CAAAATCGCA
*
2282477 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2282510 TTGCGATTTTCATTTCGCGTTGCGATTCTATCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2282543 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2282576 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2282592 AACCAAAACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2284591 original size:93 final size:93
Alignment explanation
Indices: 2284278--2284655 Score: 742
Period size: 93 Copynumber: 4.1 Consensus size: 93
2284268 TAGATTGCTT
2284278 AGTAAATTT-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2284342 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284370 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2284434 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284462 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2284527 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284555 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2284620 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284648 AGTAAATT
1 AGTAAATT
2284656 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 101 0.36
93 183 0.64
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2284599 original size:185 final size:185
Alignment explanation
Indices: 2284278--2284655 Score: 740
Period size: 185 Copynumber: 2.0 Consensus size: 185
2284268 TAGATTGCTT
2284278 AGTAAATTTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
1 AGTAAATTTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
2284343 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
2284408 TGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284462 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTT-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2284527 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2284592 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2284648 AGTAAATT
1 AGTAAATT
2284656 ATCCATTCAA
Statistics
Matches: 192, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 9 0.05
185 145 0.76
186 38 0.20
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2284739 original size:19 final size:19
Alignment explanation
Indices: 2284699--2284827 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2284689 TAGTTTACTT
* *
2284699 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2284719 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2284738 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2284757 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2284771 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2284790 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2284804 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2284823 TCGCA
1 TCGCA
2284828 TTGCTTAGAT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2284778 original size:33 final size:32
Alignment explanation
Indices: 2284735--2284827 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2284725 CGCGAAACCA
**
2284735 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2284767 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2284800 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2284828 TTGCTTAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2284825 original size:52 final size:52
Alignment explanation
Indices: 2284699--2284827 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2284689 TAGTTTACTT
**
2284699 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2284751 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2284804 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2284828 TTGCTTAGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2287119 original size:20 final size:20
Alignment explanation
Indices: 2287091--2287458 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
2287081 AAATTTCAGT
* * * *
2287091 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2287111 GTTGCGA-TTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2287130 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2287150 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2287170 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2287190 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2287210 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2287230 GTTGCGATTTACGGATGCGC
1 GTTGCGATTTACGGATACGC
*
2287250 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2287270 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2287290 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2287310 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2287330 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2287350 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2287370 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2287390 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2287410 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2287430 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2287450 GTTGCGATT
1 GTTGCGATT
2287459 ATGGAAAATC
Statistics
Matches: 305, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
19 20 0.07
20 281 0.92
21 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2292682 original size:31 final size:31
Alignment explanation
Indices: 2292644--2292710 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
2292634 CAGTTATGTC
2292644 AGGGACCATATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
*
2292675 AGGGACCATATTGCAAATGGACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
2292706 -GGGAC
1 AGGGAC
2292711 TTTATGCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (31 bp):
AGGGACCATATTGCAAACGGACTAAATGTTG
Found at i:2294405 original size:43 final size:44
Alignment explanation
Indices: 2294295--2294414 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 44
2294285 AGATCAGGTC
* * * **
2294295 GGGAGATGACATGGTTCCTACGTGATAAGGACAGCAGGCCATCT
1 GGGAGATGACATGGCTCCTACATGATGAGGACAGCAGGTTATCT
* * *
2294339 AAGGGTGATAACATGGCTCCTACATGATGAGGACAGCTGGTTATCT
1 --GGGAGATGACATGGCTCCTACATGATGAGGACAGCAGGTTATCT
*
2294385 GGG-GTTGACATGGCTCCTACATGATGAGGA
1 GGGAGATGACATGGCTCCTACATGATGAGGA
2294415 GATCAGGTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 25 0.39
44 3 0.05
46 36 0.56
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (44 bp):
GGGAGATGACATGGCTCCTACATGATGAGGACAGCAGGTTATCT
Found at i:2294440 original size:129 final size:128
Alignment explanation
Indices: 2294001--2294611 Score: 761
Period size: 129 Copynumber: 4.8 Consensus size: 128
2293991 GATCGTCTAA
* * *
2294001 GGGTTGACACGGCT-CTACATGA-GAGGAGATCAGGTCAGGTGATGACATGGTTCCTACGTGATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
* * *
2294064 AGGATGGCATGTCATCTAAGGGTGATAAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
66 AGGA-CGCAGGCCATCTAAGGGTGAT-AACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
* * * * *
2294129 AGGTTGACACGGCTCCTATGTGATGAGGATATCAGGTTGGGTGATGACACGGTTCCTACGTAATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
* * * *
2294194 AGGACGACAGGCCATCTAAGGGTGATAACACAGTTCTTACGTGATGAGGA-TAGCT-GTTATCTA
66 AGGACG-CAGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGA-CTGGTTATCTG
* * * *
2294257 GGGTTGACACGGCTCCTACGTGATGAAGAGATCAGGTCGGGAGATGACATGGTTCCTACGTGATA
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
* * *
2294322 AGGACAGCAGGCCATCTAAGGGTGATAACATGGCTCCTACATGATGAGGAC-AGCTGGTTATCTG
66 AGGAC-GCAGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGA-CTGGTTATCTG
* * * *
2294386 GGGTTGACATGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTTCGTGGTG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
* * *
2294451 AGGATGGAATGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGG-TAT-TG
66 AGGA-CGCAGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
* * * *
2294513 GGGTTGACATGGCTCCTAACGTTATGAGGAGATCAGG-GGGGTGATGACACGGTTCCTATGTGAT
1 GGGTTGACACGGCTCCT-ACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGAT
*
2294577 GAGGACGACAGGCCATCATTAGGGATGATAACACG
65 GAGGACG-CAGGCCATC-TAAGGG-TGATAACACG
2294612 ATTTCAAGAG
Statistics
Matches: 416, Mismatches: 54, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
126 1 0.00
127 54 0.13
128 149 0.36
129 154 0.37
130 58 0.14
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (128 bp):
GGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
AGGACGCAGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
Found at i:2294494 original size:257 final size:255
Alignment explanation
Indices: 2294000--2294611 Score: 786
Period size: 257 Copynumber: 2.4 Consensus size: 255
2293990 AGATCGTCTA
* *
2294000 AGGGTTGACACGGCT-CTACATGA-GAGGAGATCAGGTCAGGTGATGACATGGTTCCTACGTGAT
1 AGGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGAT
* * * * *
2294063 GAGGATGGCATGTCATCTAAGGGTGATAAACACGGTTCCTACGTGATGAGGACGACTGGTTATCT
66 GAGGA-CGCAGGCCATCTAAGGGTGAT-AACACGGCTCCTACATGATGAGGACGACTGGTTATCT
** * *
2294128 GAGGTTGACACGGCTCCTATGTGATGAGGATATCAGGTTGGGTGATGACACGGTTCCTACGTAAT
129 GAGGTTGACACGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTAAT
* *
2294193 GAGGACGACAGGCCATCTAAGGGTGATAACACAGTTCTTACGTGATGAGGATAG-CTGTTATCT
194 GAGGACGACAGGCCATCTAAGGGTGATAACACAGTTCCTACGTGATGAGGA-AGACTGGTAT-T
* *
2294256 AGGGTTGACACGGCTCCTACGTGATGAAGAGATCAGGTCGGGAGATGACATGGTTCCTACGTGAT
1 AGGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGAT
* *
2294321 AAGGACAGCAGGCCATCTAAGGGTGATAACATGGCTCCTACATGATGAGGAC-AGCTGGTTATCT
66 GAGGAC-GCAGGCCATCTAAGGGTGATAACACGGCTCCTACATGATGAGGACGA-CTGGTTATCT
* * * **
2294385 GGGGTTGACATGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTTCGTGGT
129 GAGGTTGACACGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTAAT
* * * *
2294450 GAGGATGGA-ATGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTATT
194 GAGGA-CGACAGGCCATCTAAGGGTGATAACACAGTTCCTACGTGATGAGGAAGACTGGTATT
* * * * * *
2294512 GGGGTTGACATGGCTCCTAACGTTATGAGGAGATCAGG-GGGGTGATGACACGGTTCCTATGTGA
1 AGGGTTGACACGGCTCCT-ACGTGATGAGGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGA
*
2294576 TGAGGACGACAGGCCATCATTAGGGATGATAACACG
65 TGAGGACG-CAGGCCATC-TAAGGG-TGATAACACG
2294612 ATTTCAAGAG
Statistics
Matches: 309, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
255 1 0.00
256 71 0.23
257 167 0.54
258 70 0.23
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (255 bp):
AGGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGAT
GAGGACGCAGGCCATCTAAGGGTGATAACACGGCTCCTACATGATGAGGACGACTGGTTATCTGA
GGTTGACACGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTAATGA
GGACGACAGGCCATCTAAGGGTGATAACACAGTTCCTACGTGATGAGGAAGACTGGTATT
Found at i:2294763 original size:64 final size:66
Alignment explanation
Indices: 2294643--2295031 Score: 243
Period size: 64 Copynumber: 5.9 Consensus size: 66
2294633 CATATGACGC
* * * * * * *
2294643 TTCAAGAGAAGCTGTCTCAAAAGAGATAACATCTATTTCAAGGGAAACGA-TCTCAAAG-ATATG
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATTCTCAAAGAATATG
2294706 T
66 T
* ** *
2294707 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA-TATTTTCAAAGTTTATA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATTCTCAAAGAATATG
2294771 T
66 T
* *
2294772 TTCAAGAG-AA-TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACT-GTCTCAAGGGAGAC
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATTCTCAA---AG--
*
2294834 AAAACTTGT
60 AATA--TGT
* ** * **
2294843 TTCAAGGGAAACTGAT-TC-A-A-AG---ATTTTGTGTTTCAAGGGAAAC-ATTTTCAAAGTTTA
1 TTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTATTCTCAAAGAATA
2294900 TGT
64 TGT
* * *
2294903 TTCAAGAGAAATTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA-TCTCAAGGGAGACA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATTCTCAA---AG---
*
2294967 AAATTTGT
60 -AATATGT
* * * * * *
2294975 TTCAAGGGAAACTATCTCAAGATAGACAAAATTCGTTCCAAGTGAAACTA-TCTCAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATTCTCAAA
2295032 AGAGACAAAA
Statistics
Matches: 251, Mismatches: 43, Indels: 57
0.72 0.12 0.16
Matches are distributed among these distances:
59 1 0.00
60 16 0.06
61 1 0.00
62 1 0.00
63 21 0.08
64 73 0.29
65 33 0.13
66 6 0.02
67 23 0.09
68 2 0.01
69 2 0.01
70 2 0.01
71 9 0.04
72 56 0.22
73 4 0.02
74 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (66 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATTCTCAAAGAATATG
T
Found at i:2294850 original size:36 final size:36
Alignment explanation
Indices: 2294784--2295230 Score: 350
Period size: 36 Copynumber: 12.9 Consensus size: 36
2294774 CAAGAGAATG
* *
2294784 TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTA
* *
2294821 TCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACTGA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACT-A
**
2294858 T-TC-A-A-AG---ATTTTGTGTTTCAAGGGAAAC-A
1 TCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTA
* * * *
2294887 TTTTC-A-A-AG-----TTTATGTTTCAAGAGAAATTA
1 -TCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTA
*
2294917 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
*
2294953 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
* * * *
2294989 TCTCAAGATAGACAAAATTCGTTCCAAGTGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
* * **
2295025 TCTCAAAAGAGACAAAAATCATTTCAAGGGAAACGT-
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-TA
* * *
2295061 TTTC-A-A-AG-----TTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTA
*
2295090 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
* * * *
2295126 TCTCGAGAGAAACAAAATTCGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
* *
2295162 TCTCGAGAGAGACAAAATTTGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
* ** *
2295198 TTTCAAGAGAGACAAAATTCATTTTAAGGGAAA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
2295231 TGTTTTCAAA
Statistics
Matches: 338, Mismatches: 48, Indels: 49
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.01
29 35 0.10
30 6 0.02
31 21 0.06
32 4 0.01
33 4 0.01
34 1 0.00
35 2 0.01
36 240 0.71
37 23 0.07
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTA
Found at i:2294892 original size:131 final size:132
Alignment explanation
Indices: 2294740--2294987 Score: 428
Period size: 132 Copynumber: 1.9 Consensus size: 132
2294730 AGACAAAATT
* *
2294740 TGTTTCAAGGGAAATATTTTCAAAGTTTATATTTCAAGAG-AA-TGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAATTATCTCAAGGGAGACAAAA-T
*
2294803 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACTGATTCAAAGATT
65 TTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACTGATTCAAAGATT
2294868 TTG
130 TTG
*
2294871 TGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAATTATCTCAAGGGAGACAAAATT
*
2294936 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACT
66 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACT
2294988 ATCTCAAGAT
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
131 38 0.35
132 54 0.49
133 18 0.16
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (132 bp):
TGTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAATTATCTCAAGGGAGACAAAATT
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACTGATTCAAAGATTT
TG
Found at i:2294913 original size:29 final size:30
Alignment explanation
Indices: 2294840--2294913 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
2294830 AGACAAAACT
*
2294840 TGTTTCAAGGGAAACTGATTCAAAGATTTTG
1 TGTTTCAAGGGAAACTGATTCAAAGA-TTTA
*
2294871 TGTTTCAAGGGAAACAT-TTTCAAAG-TTTA
1 TGTTTCAAGGGAAAC-TGATTCAAAGATTTA
*
2294900 TGTTTCAAGAGAAA
1 TGTTTCAAGGGAAA
2294914 TTATCTCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 16 0.41
31 22 0.56
32 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (30 bp):
TGTTTCAAGGGAAACTGATTCAAAGATTTA
Found at i:2294944 original size:21 final size:21
Alignment explanation
Indices: 2294919--2294983 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
2294909 AGAAATTATC
2294919 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* * *
2294940 TCAA-GG-G---AAA-CTATC
1 TCAAGGGAGACAAAATTTGTT
2294955 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
2294976 TCAAGGGA
1 TCAAGGGA
2294984 AACTATCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 1 0.03
19 1 0.03
20 5 0.16
21 14 0.44
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:2295079 original size:173 final size:171
Alignment explanation
Indices: 2294784--2295283 Score: 661
Period size: 173 Copynumber: 2.9 Consensus size: 171
2294774 CAAGAGAATG
* *
2294784 TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAG
1 TCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTGTTTCAAG
* ***** * *
2294849 GGAAACTGATTC--AA-AGA-TTTTGT-GTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAG
64 AGAAACT-ATTCAAAAGAGACAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAG
*
2294909 AGAAATTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
128 AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
* * *
2294953 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGATAGACAAAATTCGTTCCAAGT
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-GTTTCAAGA
2295018 GAAACTATCTCAAAAGAGACAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGA
65 GAAACTAT-TCAAAAGAGACAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGA
2295083 GAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
129 GAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
* * * * * *
2295126 TCTCGAGAGAAACAAAATTCGTTTCAAGAGAAACTATCTCGAGAGAGACAAAATTTGTTTCAAGA
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTGTTTCAAGA
* * * *
2295191 GAAACTATTTCAAGAGAGACAAAATTCATTTTAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGA
65 GAAACTA-TTCAAAAGAGACAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGA
*
2295256 GAAACTGTCTCAAGGGAGA-AAATATTTG
129 GAAACTATCTCAAGGGAGACAAA-ATTTG
2295284 AAATCATTGA
Statistics
Matches: 294, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
167 4 0.01
168 48 0.16
169 17 0.06
170 2 0.01
171 3 0.01
172 4 0.01
173 213 0.72
174 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (171 bp):
TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTGTTTCAAGAG
AAACTATTCAAAAGAGACAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGA
AACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
Found at i:2295105 original size:101 final size:101
Alignment explanation
Indices: 2294972--2295159 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 101
2294962 AGACAAAATT
* * * *
2294972 TGTTTCAAGGGAAACTATCTCAAGATAGACAAAATTCGTTCCAAGTGAAACTATCTCAAAAGAGA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAAAGAAA
*
2295037 CAAAAATCATTTCAAGGGAAACGTTTTCAAAGTTTA
66 CAAAAATCATTTCAAGAGAAACGTTTTCAAAGTTTA
* * * * *
2295073 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCGAGAGAAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAAAGAAA
* *
2295138 CAAAATTCGTTTCAAGAGAAAC
66 CAAAAATCATTTCAAGAGAAAC
2295160 TATCTCGAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAAAGAAA
CAAAAATCATTTCAAGAGAAACGTTTTCAAAGTTTA
Found at i:2295187 original size:137 final size:137
Alignment explanation
Indices: 2294936--2295203 Score: 412
Period size: 137 Copynumber: 2.0 Consensus size: 137
2294926 AGACAAAATT
* * *
2294936 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGATAGA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAAA
* *
2295001 CAAAATTCGTTCCAAGTGAAACTATCTCAAAAGAGACAAAAATCATTTCAAGGGAAACGT-TTTC
66 CAAAATTCGTTCCAAGAGAAACTATCTCAAAAGAGACAAAAATCATTTCAAGAGAAAC-TATTTC
2295065 AAAGTTTA
130 AAAGTTTA
*
2295073 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCGAGAGAAA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAAA
* * * * **
2295138 CAAAATTCGTTTCAAGAGAAACTATCTCGAGAGAGACAAAATTTGTTTCAAGAGAAACTATTTCA
66 CAAAATTCGTTCCAAGAGAAACTATCTCAAAAGAGACAAAAATCATTTCAAGAGAAACTATTTCA
2295203 A
131 A
2295204 GAGAGACAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
136 1 0.01
137 117 0.99
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (137 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAAA
CAAAATTCGTTCCAAGAGAAACTATCTCAAAAGAGACAAAAATCATTTCAAGAGAAACTATTTCA
AAGTTTA
Found at i:2295860 original size:51 final size:51
Alignment explanation
Indices: 2295805--2295902 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
2295795 TTCGCCGTGA
* *
2295805 AGTTGAGCTTTGA-ATGGATATCCTTCGTCGTGAAGTTGAAATCCAATGTAG
1 AGTTG-GCTTTGAGATGGATATCCTCCATCGTGAAGTTGAAATCCAATGTAG
* * * *
2295856 AGTTGGTTTTGAGTTGGATATCCTCCATTGTGGAGTTGAAATCCAAT
1 AGTTGGCTTTGAGATGGATATCCTCCATCGTGAAGTTGAAATCCAAT
2295903 TTCAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 6 0.15
51 34 0.85
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (51 bp):
AGTTGGCTTTGAGATGGATATCCTCCATCGTGAAGTTGAAATCCAATGTAG
Found at i:2296264 original size:15 final size:15
Alignment explanation
Indices: 2296244--2296277 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2296234 AATCACCAAA
* *
2296244 GATGCCCTAATATTT
1 GATGCCCCAACATTT
2296259 GATGCCCCAACATTT
1 GATGCCCCAACATTT
2296274 GATG
1 GATG
2296278 TTGAATCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (15 bp):
GATGCCCCAACATTT
Found at i:2297311 original size:11 final size:10
Alignment explanation
Indices: 2297297--2297331 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2297287 TTCTCGTCTC
2297297 TTTTTCTTTT
1 TTTTTCTTTT
2297307 CTTTTTC-TTT
1 -TTTTTCTTTT
2297317 TTTTTCTTTT
1 TTTTTCTTTT
2297327 TTTTT
1 TTTTT
2297332 TATCTTCGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 11 0.48
11 6 0.26
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:2301099 original size:146 final size:147
Alignment explanation
Indices: 2300721--2301100 Score: 399
Period size: 146 Copynumber: 2.6 Consensus size: 147
2300711 GATCTGCTGT
* *
2300721 CATCCACCGT-TCGATCGTCCTGATTTTTCAATATGTTGTTCGTGTTGACAT-AGCGCAACTTTT
1 CATCCACCGTCT-GATCGTCTTGATTTTTCAGTATGTTGTTCGTGTTGACATCA-CGCAACTTTT
* * ** * *** **
2300784 CATTGTTCGGAATGTTGATCGG-GGATCATGATCGTTGGCAAGAGGCCTAAAATTGTCTGGATTT
64 GATCGTTCGGAATGTTGATCGGAGGATCATGATCGCAGGCAAGAGGCCAAAAACCATCCAGATTT
*
2300848 GTTTTCTCCGATCCTCCAC
129 GTTTTCTCCGATCCGCCAC
** ** * * * * ** *
2300867 TTTCCACTTTCCGATCGTCTTGATTTTTCAGCATGTTGTTCGAGTTGACATCTCAAAAGTTTTGA
1 CATCCACCGTCTGATCGTCTTGATTTTTCAGTATGTTGTTCGTGTTGACATCACGCAACTTTTGA
* * *
2300932 TCGTTCGGAATGTTGACCGGAGG-TCTTGATCGCAGGCCAGAGGCCAAAAACCATCCAGATTTGT
66 TCGTTCGGAATGTTGATCGGAGGATCATGATCGCAGGCAAGAGGCCAAAAACCATCCAGATTTGT
* *
2300996 TTTTTTCGATCCGCCAC
131 TTTCTCCGATCCGCCAC
*
2301013 CATCCACCGTCTGATCGTCTTGATTTTTCAGTATGTTGTTCGTGTTGACATCACGCAACCTTTGA
1 CATCCACCGTCTGATCGTCTTGATTTTTCAGTATGTTGTTCGTGTTGACATCACGCAACTTTTGA
* * * * *
2301078 CCATTTGAAATATTGATCGGAGG
66 TCGTTCGGAATGTTGATCGGAGG
2301101 CCCAGATCAC
Statistics
Matches: 184, Mismatches: 47, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
146 182 0.99
147 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (147 bp):
CATCCACCGTCTGATCGTCTTGATTTTTCAGTATGTTGTTCGTGTTGACATCACGCAACTTTTGA
TCGTTCGGAATGTTGATCGGAGGATCATGATCGCAGGCAAGAGGCCAAAAACCATCCAGATTTGT
TTTCTCCGATCCGCCAC
Found at i:2301436 original size:15 final size:15
Alignment explanation
Indices: 2301418--2301452 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2301408 TTAAATAAAT
2301418 ATAATAGTAATAATA
1 ATAATAGTAATAATA
*
2301433 ATAATAGTAATGATA
1 ATAATAGTAATAATA
2301448 ATAAT
1 ATAAT
2301453 TTAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATAATAGTAATAATA
Found at i:2303524 original size:28 final size:27
Alignment explanation
Indices: 2303472--2303526 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
2303462 TTATATGAGC
2303472 TATGTGATAAGGTATGGAATGATATGT
1 TATGTGATAAGGTATGGAATGATATGT
*
2303499 TATGTGATAAATGTATGGAAAT-ATATGT
1 TATGTGAT-AAGGTATGG-AATGATATGT
2303527 CTACGCGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 14 0.56
29 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.38
Consensus pattern (27 bp):
TATGTGATAAGGTATGGAATGATATGT
Found at i:2303846 original size:24 final size:23
Alignment explanation
Indices: 2303770--2303852 Score: 98
Period size: 23 Copynumber: 3.6 Consensus size: 23
2303760 ATCATATATA
*
2303770 GCACTACGGTGCATTTCTACGTG
1 GCACTTCGGTGCATTTCTACGTG
* *
2303793 GCACTTCGGTGCATTTCTAAGCG
1 GCACTTCGGTGCATTTCTACGTG
2303816 GTC-CTTCGG-GACAATTTCTACGTG
1 G-CACTTCGGTG-C-ATTTCTACGTG
2303840 GCACTTCGGTGCA
1 GCACTTCGGTGCA
2303853 AATTTATACG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.02
23 30 0.60
24 18 0.36
25 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGTG
Found at i:2305920 original size:30 final size:31
Alignment explanation
Indices: 2305864--2305930 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
2305854 TAGTTACGTC
*
2305864 AGGGACCATATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACGAACTAAATGTTG
*
2305895 AGGGACCATATTGTAAAC-AACTAAATGTTG
1 AGGGACCATATTGCAAACGAACTAAATGTTG
*
2305925 GGGGAC
1 AGGGAC
2305931 TGTATTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (31 bp):
AGGGACCATATTGCAAACGAACTAAATGTTG
Found at i:2306553 original size:31 final size:33
Alignment explanation
Indices: 2306475--2306562 Score: 112
Period size: 31 Copynumber: 2.8 Consensus size: 33
2306465 ACTTTATTAA
2306475 TATA-TAATTAAATTAAAAAATAAATTTGAAAGT
1 TATAGTAATTAAATT-AAAAATAAATTTGAAAGT
* * *
2306508 TATAGTTATTAAATTAAGAGT-AATTTGAAAGT
1 TATAGTAATTAAATTAAAAATAAATTTGAAAGT
2306540 TA-AGTAATTAAATTAAAAA-AAAT
1 TATAGTAATTAAATTAAAAATAAAT
2306563 AAACTTCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 17 0.36
32 13 0.28
33 8 0.17
34 9 0.19
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (33 bp):
TATAGTAATTAAATTAAAAATAAATTTGAAAGT
Found at i:2312196 original size:33 final size:33
Alignment explanation
Indices: 2312159--2312223 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2312149 GTTGATCAAG
* * * *
2312159 TCGAATTCGAGTTAATGGGTCTTGTTTGTTAAC
1 TCGAATTCAAGTTAACGAGTCTTGTTTATTAAC
2312192 TCGAATTCAAGTTAACGAGTCTTGTTTATTAA
1 TCGAATTCAAGTTAACGAGTCTTGTTTATTAA
2312224 ATTTGATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (33 bp):
TCGAATTCAAGTTAACGAGTCTTGTTTATTAAC
Found at i:2329422 original size:9 final size:10
Alignment explanation
Indices: 2329399--2329423 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2329389 AGCTGTGCTA
2329399 AAAAATGAAG
1 AAAAATGAAG
2329409 AAAAATGAAG
1 AAAAATGAAG
2329419 AAAAA
1 AAAAA
2329424 AAGAGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAAATGAAG
Found at i:2331552 original size:27 final size:27
Alignment explanation
Indices: 2331521--2331588 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
2331511 TCTATTTACA
2331521 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
2331548 AAATCATATCTCTATTGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2331575 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
2331589 ATTCCTACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 8 0.21
27 31 0.79
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:2335267 original size:27 final size:27
Alignment explanation
Indices: 2335236--2335303 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
2335226 TCTATTTACA
2335236 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2335263 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2335290 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
2335304 ATTCCTATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:2341526 original size:13 final size:13
Alignment explanation
Indices: 2341508--2341532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2341498 TGTTTCATCA
2341508 GTTGATAAGTATT
1 GTTGATAAGTATT
2341521 GTTGATAAGTAT
1 GTTGATAAGTAT
2341533 GTCTTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
GTTGATAAGTATT
Found at i:2345211 original size:264 final size:263
Alignment explanation
Indices: 2344727--2345479 Score: 985
Period size: 264 Copynumber: 2.9 Consensus size: 263
2344717 AACATCATTC
* ** *
2344727 GAGCCTCTTCTTCGATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTGATTCATTTGCGTTTACT
1 GAGCCTCTGCTTTAATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTGATTCATTTGCGTTAACT
* * * * * *
2344792 AAAACCTGCTCTGACAAGTTCCTTTCTTTTTCAATTTCTGCTTCTAATGAGCCAATCTTTGTGGA
66 GAAACTTGCTCTGACAAGGTCCTTTCCTTTTCAATTTCTGCTTCTAATGAGTCAATCTTTGCGGA
* * *
2344857 CATTGTCTCCGCATCTATTTCCAATGTACTTAGTTGAGACTCGAGATGTTGCTTAGCTTCA-TTT
131 CATTGTCTCTGCATCTGTTTCCAATGTACTGAGTTGAGACTCGAGATGTTGCTTAGCTTCATTTT
* * * * **
2344921 GTCATACAAAGCTCCTCTT-GCAACTCTGCCAGTTCCGTTTCTAACAAATCGATCTTTGCAGACA
196 G-GA-ACAAAGCT-CTATTCGCAACTCTGACAATTCCACTTCTAACAAATCGATCTTTGCAGACA
2344985 TAATCT
258 TAATCT
*
2344991 GAGCGTCTGCTTTAATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTG-TCTCATTTGCGTTAAC
1 GAGCCTCTGCTTTAATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTGAT-TCATTTGCGTTAAC
* *
2345055 TGAAACTTGCTGC-GACAAGGTCCTTTCCTTTTCAATTTCAGCTTCTAATGAGTCAATCTTTGCA
65 TGAAACTTGCT-CTGACAAGGTCCTTTCCTTTTCAATTTCTGCTTCTAATGAGTCAATCTTTGCG
*
2345119 GACATTGTCTCTGCATCTGTTTCCAATGTACTGAGTTGAGATTCGAGATGTTGCTTAGCTTCATC
129 GACATTGTCTCTGCATCTGTTTCCAATGTACTGAGTTGAGACTCGAGATGTTGCTTAGCTTCAT-
*
2345184 TTTGGAACAAAGCTCTATTCGCAACTCTGACAATTCCACTTCTAACAAATGGATCTTTGCAGACA
193 TTTGGAACAAAGCTCTATTCGCAACTCTGACAATTCCACTTCTAACAAATCGATCTTTGCAGACA
* *
2345249 TCATTT
258 TAATCT
* ** * * * * *
2345255 GTGCCTCTGCTTTGCTGTTGATGAGTTGAGATTCAAGAAGTTGCTTTGATTCATTGGTGTTAACT
1 GAGCCTCTGCTTTAATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTGATTCATTTGCGTTAACT
* * *
2345320 GAAACTTGATCTGACAAGGTCCTTTCCTTTTCAATTTCTGCTTCTAATGAGTCAATCCTAGCGGA
66 GAAACTTGCTCTGACAAGGTCCTTTCCTTTTCAATTTCTGCTTCTAATGAGTCAATCTTTGCGGA
* * * * *
2345385 CATTGTCTTTGCATCTGTTTCCAAGGTACCGAGTTGTGACTCGAGATGGTGCTTAGCTTCATGTG
131 CATTGTCTCTGCATCTGTTTCCAATGTACTGAGTTGAGACTCGAGATGTTGCTTAGCTTCAT-T-
* * * *
2345450 TT-GTACAAAGCTCTGTTCTCAACTCCGACA
194 TTGGAACAAAGCTCTATTCGCAACTCTGACA
2345480 GTTTCTTTTC
Statistics
Matches: 430, Mismatches: 51, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
263 6 0.01
264 415 0.97
265 5 0.01
266 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (263 bp):
GAGCCTCTGCTTTAATGCTAATGAGTTGAGACTCAAGAAGTTGCTTTGATTCATTTGCGTTAACT
GAAACTTGCTCTGACAAGGTCCTTTCCTTTTCAATTTCTGCTTCTAATGAGTCAATCTTTGCGGA
CATTGTCTCTGCATCTGTTTCCAATGTACTGAGTTGAGACTCGAGATGTTGCTTAGCTTCATTTT
GGAACAAAGCTCTATTCGCAACTCTGACAATTCCACTTCTAACAAATCGATCTTTGCAGACATAA
TCT
Found at i:2349260 original size:17 final size:16
Alignment explanation
Indices: 2349240--2349303 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
2349230 TTAGAATTTA
2349240 AAAATAAATAAAATTAT
1 AAAAT-AATAAAATTAT
*
2349257 AAAATATTAGAAATTAT
1 AAAATAATA-AAATTAT
* *
2349274 GAAATAAT-AAATAAT
1 AAAATAATAAAATTAT
2349289 AAAAT-ATAAATATTA
1 AAAATAATAAA-ATTA
2349304 ACATTGGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 2 0.05
15 12 0.32
16 6 0.16
17 18 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATAATAAAATTAT
Found at i:2349268 original size:33 final size:32
Alignment explanation
Indices: 2349228--2349295 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
2349218 GCAAAAATAC
* *
2349228 TATTAGAATTTA-AAAATAAATAAAATTATAAAA
1 TATTAGAAATTATAAAAT-AAT-AAATAATAAAA
*
2349261 TATTAGAAATTATGAAATAATAAATAATAAAA
1 TATTAGAAATTATAAAATAATAAATAATAAAA
2349293 TAT
1 TAT
2349296 AAATATTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 13 0.42
33 14 0.45
34 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (32 bp):
TATTAGAAATTATAAAATAATAAATAATAAAA
Found at i:2350555 original size:22 final size:22
Alignment explanation
Indices: 2350530--2350581 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2350520 GAGGACTATT
2350530 GGGTAAATATGTAAGGAGGTAA
1 GGGTAAATATGTAAGGAGGTAA
2350552 GGGTAAATATGTAAGGAGGTAA
1 GGGTAAATATGTAAGGAGGTAA
2350574 GGGTAAAT
1 GGGTAAAT
2350582 TGGTCTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (22 bp):
GGGTAAATATGTAAGGAGGTAA
Found at i:2351316 original size:64 final size:64
Alignment explanation
Indices: 2351210--2351343 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
2351200 AGTGTGTATC
* * *
2351210 GATGAACAGGAAGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAATTAGTGCATA
1 GATGCACAGGAAATGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAATTAGTGCATA
*
2351274 GATGCACAGGAAATGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAATTAGTGCATC
1 GATGCACAGGAAATGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAATTAGTGCATA
2351338 GATGCA
1 GATGCA
2351344 TAAGGAGTGC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (64 bp):
GATGCACAGGAAATGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAATTAGTGCATA
Found at i:2352388 original size:31 final size:32
Alignment explanation
Indices: 2352317--2352404 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
2352307 AGTCTAGGGT
2352317 TTACCTATGTTCTACGGAACATATGGACAAAA
1 TTACCTATGTTCTACGGAACATATGGACAAAA
* * **
2352349 TTACCTATG-TCTTTCGGGACATATGGACAGTA
1 TTACCTATGTTC-TACGGAACATATGGACAAAA
*
2352381 -TACCTATGTTCTAAGGAACATATG
1 TTACCTATGTTCTACGGAACATATG
2352405 AACATTTTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 20 0.43
32 27 0.57
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAAAA
Found at i:2352416 original size:31 final size:31
Alignment explanation
Indices: 2352316--2352417 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
2352306 GAGTCTAGGG
2352316 TTTACCTATGTTCTACGGAACATATGGACAAA
1 TTTACCTATGTTCTACGGAACATATGGAC-AA
* * * *
2352348 ATTACCTATG-TCTTTCGGGACATATGGACAG
1 TTTACCTATGTTC-TACGGAACATATGGACAA
* * * *
2352379 TATACCTATGTTCTAAGGAACATATGAACAT
1 TTTACCTATGTTCTACGGAACATATGGACAA
2352410 TTTACCTA
1 TTTACCTA
2352418 GGTTATTCAG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
31 31 0.55
32 25 0.45
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (31 bp):
TTTACCTATGTTCTACGGAACATATGGACAA
Found at i:2353954 original size:23 final size:23
Alignment explanation
Indices: 2353896--2353942 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2353886 CTCGTATAAA
2353896 TACACCGAAGTGCCACGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
*
2353919 TACACCGAAGTGCCGCGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
2353942 T
1 T
2353943 GCACTGTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (23 bp):
TACACCGAAGTGCCACGTAGAAT
Found at i:2364708 original size:35 final size:35
Alignment explanation
Indices: 2364633--2364709 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
2364623 AAAATACTTT
* *
2364633 AATTTAGGGTTTAGTATGTAATTAAAGTATTTTGG
1 AATTTTGGGTTTAGAATGTAATTAAAGTATTTTGG
* *
2364668 AATTTTGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTTGGGTTTAGAATGTAATTAAAGTATTTTGG
2364703 AATTTTG
1 AATTTTG
2364710 AACATGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.47
Consensus pattern (35 bp):
AATTTTGGGTTTAGAATGTAATTAAAGTATTTTGG
Found at i:2368167 original size:22 final size:22
Alignment explanation
Indices: 2368139--2368183 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2368129 ATCCAGCACA
2368139 CGCCAATCCTAGGCCTAGCCCC
1 CGCCAATCCTAGGCCTAGCCCC
2368161 CGCCAATCCTAGGCCTAGCCCC
1 CGCCAATCCTAGGCCTAGCCCC
2368183 C
1 C
2368184 CTTAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.51, G:0.18, T:0.13
Consensus pattern (22 bp):
CGCCAATCCTAGGCCTAGCCCC
Found at i:2370576 original size:21 final size:20
Alignment explanation
Indices: 2370543--2370581 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2370533 ATAATTATTT
2370543 AAAAAATTAAATAAAAAACC
1 AAAAAATTAAATAAAAAACC
*
2370563 AAAAATATTTAATAAAAAA
1 AAAAA-ATTAAATAAAAAA
2370582 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATTAAATAAAAAACC
Found at i:2380852 original size:38 final size:38
Alignment explanation
Indices: 2380798--2380870 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
2380788 AACGGAACTG
2380798 ATGACATGTCAACATAAGATAATATCATATTATTACTA
1 ATGACATGTCAACATAAGATAATATCATATTATTACTA
* * *
2380836 ATGACATGTCATCATAAGGTAATATCATGTTATTA
1 ATGACATGTCAACATAAGATAATATCATATTATTA
2380871 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (38 bp):
ATGACATGTCAACATAAGATAATATCATATTATTACTA
Found at i:2387809 original size:21 final size:21
Alignment explanation
Indices: 2387783--2387822 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2387773 ACACAGAAGG
* *
2387783 GTTTTTTTTTTTATTCTTATT
1 GTTTTTGTTTTTATCCTTATT
2387804 GTTTTTGTTTTTATCCTTA
1 GTTTTTGTTTTTATCCTTA
2387823 ATAAACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.75
Consensus pattern (21 bp):
GTTTTTGTTTTTATCCTTATT
Found at i:2397315 original size:19 final size:19
Alignment explanation
Indices: 2397291--2397329 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2397281 ATAAGCTATG
*
2397291 CTACATTGTCTATTACAAC
1 CTACATTGCCTATTACAAC
2397310 CTACATTGCCTATTACAAC
1 CTACATTGCCTATTACAAC
2397329 C
1 C
2397330 CTCACATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (19 bp):
CTACATTGCCTATTACAAC
Found at i:2405046 original size:8 final size:8
Alignment explanation
Indices: 2405033--2405073 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2405023 CTCATTTTCA
2405033 GAGAATTT
1 GAGAATTT
2405041 GAGAATTT
1 GAGAATTT
*
2405049 -AGAGTTT
1 GAGAATTT
*
2405056 GGGAATTT
1 GAGAATTT
2405064 GAGAATTT
1 GAGAATTT
2405072 GA
1 GA
2405074 AAGCTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:2405359 original size:128 final size:128
Alignment explanation
Indices: 2405143--2405897 Score: 1150
Period size: 128 Copynumber: 5.9 Consensus size: 128
2405133 ATAATCGGAG
* *
2405143 TACTATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTA
1 TACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
2405205 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
* * *
2405268 TACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTATCAGAGAATATGTTA
1 TACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
*
2405333 TCATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
* * * * *
2405396 CACTATTCACATAAAGGCGCTTTCACGGGGGCGCGCCTTCTATTATTTTGTCATAGAATATGTTA
1 TACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
* *
2405461 TCATTACCCTATTATGTCACTCATGTCCCTCGAGGACACTAGATATATCAGTACCTATTATTT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
* * * *
2405524 CACTATTCACATGAAGGCGCGTTCCTGGGGGCGCCCCTTCCATTATTTTATCATAGAATATGTTA
1 TACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
* *
2405589 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTA-TTCATATCAGTACCTATTA-TT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATTT
***
2405651 T-CTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGT
1 TACT-A-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGT
* *
2405715 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTA-TTCATATCAGTACCTATTA-T
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATT
2405778 T
128 T
***
2405779 T-CTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGT
1 TACT-A-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGT
2405843 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
2405898 AATCAGGTAA
Statistics
Matches: 590, Mismatches: 33, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
125 43 0.07
126 2 0.00
127 6 0.01
128 538 0.91
129 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (128 bp):
TACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
Found at i:2406336 original size:34 final size:34
Alignment explanation
Indices: 2406298--2406398 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
2406288 AAATTTAATG
*
2406298 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
2406332 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
2406366 TTAAATTTCGAATAATATAATTTATATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
2406399 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:2408219 original size:34 final size:31
Alignment explanation
Indices: 2408176--2408264 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
2408166 TTAATAATTC
*
2408176 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
2408210 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
2408241 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
2408265 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:2408221 original size:31 final size:33
Alignment explanation
Indices: 2408179--2408253 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
2408169 ATAATTCTAA
* * *
2408179 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
2408211 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
2408242 ATAAAAAATAAT
1 ATAAAAAATAAT
2408254 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:2415466 original size:2 final size:2
Alignment explanation
Indices: 2415459--2415487 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2415449 AAGAATATGA
2415459 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2415488 GGATAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2421132 original size:31 final size:31
Alignment explanation
Indices: 2421096--2421154 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2421086 AACTTAAAAG
*
2421096 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
*
2421127 AGTTTTATAATAATGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
2421155 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:2421202 original size:22 final size:22
Alignment explanation
Indices: 2421175--2421499 Score: 434
Period size: 22 Copynumber: 14.7 Consensus size: 22
2421165 ACAATAATAA
**
2421175 ATATTTTAAAATAAATCAATTT
1 ATATTTTAAAATAAATCAATCC
*
2421197 ATATTTTAAAATAAATCAATCT
1 ATATTTTAAAATAAATCAATCC
*** *
2421219 ATATTTTAAAATAAATTTTTTC
1 ATATTTTAAAATAAATCAATCC
*
2421241 ATATTTTAAAATAAATCAATAC
1 ATATTTTAAAATAAATCAATCC
2421263 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
* *** *
2421285 ATATTTTAAAATAATTTTTTTTC
1 ATATTTTAAAATAA-ATCAATCC
2421308 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
* *
2421330 ATATTTTAAAATAAAGCAATAC
1 ATATTTTAAAATAAATCAATCC
* *
2421352 ATAATTTAAAATAAATCAATCA
1 ATATTTTAAAATAAATCAATCC
**
2421374 ATATTTTAAAATAAATCAATTT
1 ATATTTTAAAATAAATCAATCC
*
2421396 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATCC
**
2421418 ATATTTTAAAATAAATCAATTT
1 ATATTTTAAAATAAATCAATCC
*
2421440 ATATTTAAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
2421462 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
2421484 ATATTTTAAAATAAAT
1 ATATTTTAAAATAAAT
2421500 TTTAAAATAG
Statistics
Matches: 266, Mismatches: 36, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
22 249 0.94
23 17 0.06
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:2421516 original size:11 final size:12
Alignment explanation
Indices: 2421486--2421525 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2421476 ATCAATCCAT
2421486 ATTTTAAAATAA
1 ATTTTAAAATAA
*
2421498 ATTTTAAAATAG
1 ATTTTAAAATAA
2421510 A-TTT-AAAT-A
1 ATTTTAAAATAA
2421519 ATTTTAA
1 ATTTTAA
2421526 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:2427167 original size:2 final size:2
Alignment explanation
Indices: 2427160--2427198 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2427150 CAACCTAATT
2427160 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2427199 CTTTAAGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2435358 original size:3 final size:3
Alignment explanation
Indices: 2435343--2435427 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
2435333 TCCGTATCTT
* * * * *
2435343 TTA TTA CTA TTA TTA TTA TTA TTA TCA TCA TCA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2435391 CTA TTTA TCTA TT- TTA TT- TT- TTA TTT TTA TT- TTA TTA
1 TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2435428 CAGGCTCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
2 8 0.12
3 54 0.81
4 5 0.07
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2436942 original size:14 final size:14
Alignment explanation
Indices: 2436923--2436950 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2436913 TTTTAACTTT
2436923 TTAAATATTATATA
1 TTAAATATTATATA
2436937 TTAAATATTATATA
1 TTAAATATTATATA
2436951 CAGTGTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATATTATATA
Found at i:2437041 original size:21 final size:22
Alignment explanation
Indices: 2437007--2437054 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
2436997 TAAATAACAC
2437007 ATATATGTTTGTTTTATAACCT
1 ATATATGTTTGTTTTATAACCT
2437029 ATATATG-TTGTTTTATAACCT
1 ATATATGTTTGTTTTATAACCT
2437050 ATATA
1 ATATA
2437055 CGATAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (22 bp):
ATATATGTTTGTTTTATAACCT
Found at i:2440708 original size:24 final size:24
Alignment explanation
Indices: 2440663--2440711 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
2440653 ATGTTCACGA
* *
2440663 ACAAATTCGTTTATCGATTCATTT
1 ACAAATTCGTTTATAGACTCATTT
2440687 ACAAATTCGTTTATA-AGCTCATTT
1 ACAAATTCGTTTATAGA-CTCATTT
2440711 A
1 A
2440712 GTTGGGTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
ACAAATTCGTTTATAGACTCATTT
Found at i:2441081 original size:23 final size:23
Alignment explanation
Indices: 2441053--2441100 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2441043 ATTAAGTACA
* *
2441053 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGAGCTTAT
2441076 ATAATATAATAGGTAGAGCTTAT
1 ATAATATAATAGGTAGAGCTTAT
2441099 AT
1 AT
2441101 TGACTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGAGCTTAT
Found at i:2442029 original size:182 final size:182
Alignment explanation
Indices: 2441719--2442168 Score: 715
Period size: 182 Copynumber: 2.5 Consensus size: 182
2441709 ACTTTTTTAC
* *
2441719 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTCATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * * *
2441784 TACATTTTTATAAAGTATCAACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
*
2441849 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTA-GCTCTT
131 TGTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGGCT-TT
* *
2441901 TATCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
2441966 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
*
2442031 TGTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGGGTTT
131 TGTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGGCTTT
** ** * *
2442083 TACCTATTTTGTCATTTATAGACCGGTTTTGTCAT-TTTTTGACCTGTTTTATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTT-ACCTGTTATATTGTTATGGATCG
2442147 ATATATTTTTATAAAGTATCGA
65 ATATATTTTTATAAAGTATCGA
2442169 AACTATCAAC
Statistics
Matches: 247, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
181 5 0.02
182 240 0.97
183 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
TGTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGGCTTT
Found at i:2442131 original size:20 final size:20
Alignment explanation
Indices: 2442080--2442132 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
2442070 TCCGGTAGGG
*
2442080 TTTT-ACCTATTTTGTCATT
1 TTTTGACCTGTTTTGTCATT
* * *
2442099 TATAGACCGGTTTTGTCATT
1 TTTTGACCTGTTTTGTCATT
2442119 TTTTGACCTGTTTT
1 TTTTGACCTGTTTT
2442133 ATTGTTATGG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (20 bp):
TTTTGACCTGTTTTGTCATT
Found at i:2445631 original size:200 final size:199
Alignment explanation
Indices: 2444989--2446012 Score: 1702
Period size: 199 Copynumber: 5.2 Consensus size: 199
2444979 GGTTATAATT
* * * * * *
2444989 ATTATGTTTTTCGATGTTTTTGGGATCGAAAATTGTTATAAATGTATCGAAACTTTGTT-GTGCA
1 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTT-TTAGGGCA
* * * *
2445053 CTTGGTTCTGAAATACATTCTGGACAAAAAGTATCGACAATTGTTCCATTTGTGTCGATA-TTGT
65 CTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTT-T
* * * *
2445117 TTGTACACCTGTTTTCTCAAAAACCGGTACATTTAGACCGGTTGTA-TTG-TTAACTTACCTATT
129 TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACC-GTT-TACATGAATAATTTACCTATT
2445180 ACATTATA
192 ACATTATA
* * *
2445188 ATTATGATTTTTGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
*
2445253 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
*
2445318 ATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
2445383 TATA
196 TATA
* *
2445387 ATTATAGTTTTCTATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
*
2445452 TTGTTTTTGAAACACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
* *
2445517 GTACACATGTTTTTCTCAAAAACCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACA
131 GTACACCTG-TTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACA
2445582 TTATA
195 TTATA
*
2445587 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCGC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
2445652 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
*
2445717 GTACA-CTGTTTTCTCAAAAACCGGTATATTTA-ACCATTTACATGAATAA-TTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
2445779 TATA
196 TATA
2445783 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
2445848 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
2445913 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
2445978 TATA
196 TATA
* *
2445982 ATTATAGTTTTCGATGTTTTTAGGATCGACA
1 ATTATGGTTTTCGATGTTTTTGGGATCGACA
2446013 CTTTTTAGGG
Statistics
Matches: 781, Mismatches: 36, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
196 151 0.19
197 46 0.06
198 47 0.06
199 345 0.44
200 192 0.25
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (199 bp):
ATTATGGTTTTCGATGTTTTTGGGATCGACATTTGTTACAAATGTATCGACACTTTTTAGGGCAC
TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
TATA
Found at i:2446581 original size:11 final size:11
Alignment explanation
Indices: 2446565--2446596 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
2446555 CTCTAATTAT
2446565 AAATGAAATGA
1 AAATGAAATGA
2446576 AAATGAAATGA
1 AAATGAAATGA
2446587 AAATGAAATG
1 AAATGAAATG
2446597 CCATGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:2447728 original size:12 final size:12
Alignment explanation
Indices: 2447711--2447757 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
2447701 ACTTGTTTGG
*
2447711 ATCATCATCATC
1 ATCATCTTCATC
2447723 ATCATCTTCATC
1 ATCATCTTCATC
*
2447735 GTCATCTTCATC
1 ATCATCTTCATC
* *
2447747 GTTATCTTCAT
1 ATCATCTTCAT
2447758 TGACCGCTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.04, T:0.43
Consensus pattern (12 bp):
ATCATCTTCATC
Found at i:2447757 original size:18 final size:18
Alignment explanation
Indices: 2447712--2447746 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2447702 CTTGTTTGGA
*
2447712 TCATCATCATCATCATCT
1 TCATCGTCATCATCATCT
*
2447730 TCATCGTCATCTTCATC
1 TCATCGTCATCATCATC
2447747 GTTATCTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.34, G:0.03, T:0.40
Consensus pattern (18 bp):
TCATCGTCATCATCATCT
Found at i:2448933 original size:15 final size:15
Alignment explanation
Indices: 2448909--2448952 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2448899 AGGAGGTTGT
2448909 GGTTGAGAAGA-ACTG
1 GGTTGAGAAGAGA-TG
*
2448924 GGTTGGGAAGAGATG
1 GGTTGAGAAGAGATG
*
2448939 GGTTGAGAAAAGAT
1 GGTTGAGAAGAGAT
2448953 TTGAGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.43, T:0.20
Consensus pattern (15 bp):
GGTTGAGAAGAGATG
Found at i:2449257 original size:21 final size:21
Alignment explanation
Indices: 2449233--2449272 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2449223 AAAGAGTAAT
2449233 TTAAAAAGGTATCGATACAAG
1 TTAAAAAGGTATCGATACAAG
* * *
2449254 TTAATAATGTGTCGATACA
1 TTAAAAAGGTATCGATACA
2449273 TTATGGTAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
TTAAAAAGGTATCGATACAAG
Found at i:2449582 original size:199 final size:198
Alignment explanation
Indices: 2449296--2450395 Score: 1945
Period size: 199 Copynumber: 5.5 Consensus size: 198
2449286 TTTTCAATTT
* * *
2449296 AAACCGGTATATTTAGACCGATTATATTG-CTAATTTACCTATTACATTATAATTATGGTTTTCG
1 AAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTATTACATTATAATTATGGTTTTCG
2449360 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAAT
65 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAAT
*
2449425 ACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTATGTCGATACTTTTTGTACATCTGTTTT
130 ACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACA-CTGTTTT
2449490 CTCAA
194 CTCAA
*
2449495 AAACCGGTATATTTAGACCGTTTACATGAATAATTTACGTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
2449560 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
*
2449625 CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCAATACTTTTTGTACACTTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACAC-TGTTTTC
*
2449690 TCGA
195 TCAA
* *
2449694 AAATCGATATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
2449759 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
*
2449824 TATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACA-CTGTTTTC
2449889 T-AA
195 TCAA
*
2449892 AAACCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
2449957 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
2450022 CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACA-CTGTTTTC
2450087 TCAA
195 TCAA
* * * * *
2450091 AAACTGATATATTTAGACCGATTATATTG-CTAATTTACCTATTACATTATAATTATGGTTTTCG
1 AAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTATTACATTATAATTATGGTTTTCG
2450155 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAAT
65 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAAT
*
2450220 ACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACGTTTTGTACACATGTTTT
130 ACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACAC-TGTTTT
2450285 CTCAA
194 CTCAA
*
2450290 AAACCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
*
2450355 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTT
2450396 AAGTTTACCT
Statistics
Matches: 863, Mismatches: 31, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
198 199 0.23
199 661 0.77
200 3 0.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (198 bp):
AAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGA
TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATA
CATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACTGTTTTCT
CAA
Found at i:2450070 original size:397 final size:398
Alignment explanation
Indices: 2449303--2450395 Score: 2021
Period size: 397 Copynumber: 2.7 Consensus size: 398
2449293 TTTAAACCGG
2449303 TATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTT
1 TATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTT
2449368 GGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTG
66 GGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTG
* *
2449433 GACAAAAAGTATCGACACTTGTTCTATTTATGTCGATACTTTTTGTACATCTGTTTTCTCAAAAA
131 GACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAA
* *
2449498 CCGGTATATTTAGACCGTTTACATGAATAATTTACGTATTACATTATAATTATGGTTTTCGATGT
196 CCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGT
2449563 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
261 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
* *
2449628 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCAATACTTTTTGTACACTTGTTTTCTCG
326 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCAATACTTTTTGTACACCTGTTTTCTCA
2449693 AAAA-TCGA
391 AAAACT-GA
* * *
2449701 TATATTTAGACCGTTTACA-TGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTT
1 TATATTTAGACCGATTATATTG-CTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTT
*
2449765 TGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATATATTCT
65 TGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCT
2449830 GGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCT-AAAA
130 GGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAA
2449894 ACCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATG
195 ACCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATG
2449959 TTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACA
260 TTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACA
*
2450024 TTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC
325 TTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCAATACTTTTTGTACACCTGTTTTCTC
2450089 AAAAACTGA
390 AAAAACTGA
2450098 TATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTT
1 TATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTT
2450163 GGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTG
66 GGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTG
* *
2450228 GACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACGTTTTGTACACATGTTTTCTCAAAAA
131 GACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAA
2450293 CCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGT
196 CCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGT
*
2450358 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
261 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTT
2450396 AAGTTTACCT
Statistics
Matches: 673, Mismatches: 18, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
397 383 0.57
398 290 0.43
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (398 bp):
TATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTT
GGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTG
GACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAA
CCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGT
TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCAATACTTTTTGTACACCTGTTTTCTCA
AAAACTGA
Found at i:2450767 original size:19 final size:19
Alignment explanation
Indices: 2450743--2450787 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
2450733 ATTCACATAT
*
2450743 AAAATTATAAATCGTATAC
1 AAAATTAAAAATCGTATAC
*
2450762 AAAATTAAAAATCTTATAC
1 AAAATTAAAAATCGTATAC
2450781 -AAATTAA
1 AAAATTAA
2450788 CCATGCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTAAAAATCGTATAC
Found at i:2453981 original size:18 final size:18
Alignment explanation
Indices: 2453958--2453996 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2453948 TACTGTCAAC
2453958 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTT-TAATCCA
*
2453976 ATTTAAAGTTTTAATCCA
1 ATTTAAAATTTTAATCCA
2453994 ATT
1 ATT
2453997 ACCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAATCCA
Found at i:2454289 original size:19 final size:20
Alignment explanation
Indices: 2454242--2454290 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2454232 CATTTATACA
2454242 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
*
2454261 ATCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
2454279 ACCTATAAATAT
1 ACCTATAAATAT
2454291 TAACTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:2454985 original size:182 final size:181
Alignment explanation
Indices: 2454674--2455333 Score: 797
Period size: 182 Copynumber: 3.6 Consensus size: 181
2454664 TACGCGTACT
* *
2454674 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTATTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTACCGGTTTTGTCATTTTGAGACCG
* * * *
2454739 ATTTTATCATATTTTTACATGTTATATTGTTTTGGATCGATACATTTTCATAAAGTGTCGACACT
65 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGACGACACT
* *
2454804 TTTTAAGAAATATAACTTCTTCTCTTTTAAATTAAGAAAGTGTCGATACTTA
130 TTTTAAGAGATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * **
2454856 TATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACAT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCA-TTTTGAGACCG
* * *
2454921 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATTGATACATTTTCATAAAGTGACGACACT
65 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGACGACACT
* * * * *
2454986 TTTTAGGCGCTATAACTT-TTTTCTTTTAAATTCAGAAAGTGTTCGATACTAA
130 TTTTAAGAGATATAACTTCTTCTCTTTTAAATTCAGAAAGTG-TCGATACTTA
* ** * * *
2455038 TATTAAATTATCGACACTTTCAATATATCCCTATAACTTTTTCCGATTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAACATAT-CCGGTAACTTTTACCGGTTTTGTCA-TTTTGAGACC
* * * **
2455103 GGTTTTATTATATTTTTACCT-TTAATATTGTTGTGGATCGATATATTTTTTTAAAGT-ATCGAC
64 GGTTTTATCATATTTTTACCTGTT-ATATTGTTATGGATCGATACATTTTCATAAAGTGA-CGAC
* * * *
2455166 ACTTTAT-AGACGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCAATACTTA
127 ACTTTTTAAGA-GATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
2455221 TATTAAATTATTGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTCTGTCATTTTGGGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTACCGGTTTTGTCATTTTGAGACCG
* * * * * *
2455286 GTTTTGTCATATTTGTACCTGTAATATTGCTATGGAGCGATCCATTTT
65 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
2455334 TCATTTGTAT
Statistics
Matches: 407, Mismatches: 62, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
181 36 0.09
182 205 0.50
183 145 0.36
184 21 0.05
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (181 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACCGGTTTTGTCATTTTGAGACCGG
TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGACGACACTT
TTTAAGAGATATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:2455287 original size:20 final size:21
Alignment explanation
Indices: 2455262--2455300 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2455252 GTAGCGTTTT
2455262 ACCGGTTCTGTCAT-TTTGGG
1 ACCGGTTCTGTCATATTTGGG
*
2455282 ACCGGTTTTGTCATATTTG
1 ACCGGTTCTGTCATATTTG
2455301 TACCTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (21 bp):
ACCGGTTCTGTCATATTTGGG
Found at i:2455505 original size:11 final size:11
Alignment explanation
Indices: 2455489--2455513 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2455479 ATCCGGTAAC
2455489 GCCGTATATTA
1 GCCGTATATTA
2455500 GCCGTATATTA
1 GCCGTATATTA
2455511 GCC
1 GCC
2455514 CGCCTTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (11 bp):
GCCGTATATTA
Found at i:2461483 original size:2 final size:2
Alignment explanation
Indices: 2461476--2461522 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2461466 GCATACATAC
2461476 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
2461518 AT AT A
1 AT AT A
2461523 ATTTCATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2461559 original size:16 final size:16
Alignment explanation
Indices: 2461456--2461559 Score: 77
Period size: 16 Copynumber: 6.2 Consensus size: 16
2461446 TTATCATAAC
** *
2461456 ATACTTATATGCATAC
1 ATACTTATATATATAT
*
2461472 ATACATATATATATAT
1 ATACTTATATATATAT
2461488 ATA-TATATATATATAT
1 ATACT-TATATATATAT
2461504 ATA-TATATATATATAT
1 ATACT-TATATATATAT
* * *
2461520 ATAATTTCATATACCCATAA
1 AT-ACTT-ATATA--TATAT
2461540 ATACTTATATATATAT
1 ATACTTATATATATAT
2461556 ATAC
1 ATAC
2461560 ATGACTACAA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
16 51 0.71
17 2 0.03
18 11 0.15
19 3 0.04
20 5 0.07
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (16 bp):
ATACTTATATATATAT
Found at i:2464208 original size:40 final size:42
Alignment explanation
Indices: 2464137--2464220 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 42
2464127 CTCGGCCACA
2464137 CATTTGATTTTTTTTCCACTAATCAGAAAAAATGGGACAATT
1 CATTTGATTTTTTTTCCACTAATCAGAAAAAATGGGACAATT
2464179 CATTTGA-TTTTTTTCCACTAATCAG-AAAAATGGGACAATT
1 CATTTGATTTTTTTTCCACTAATCAGAAAAAATGGGACAATT
2464219 CA
1 CA
2464221 GGGTTAAGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 17 0.40
41 18 0.43
42 7 0.17
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (42 bp):
CATTTGATTTTTTTTCCACTAATCAGAAAAAATGGGACAATT
Found at i:2465425 original size:12 final size:12
Alignment explanation
Indices: 2465408--2465444 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2465398 TTTATCTCAA
2465408 TTTCAATAATTT
1 TTTCAATAATTT
2465420 TTTCAATAATTT
1 TTTCAATAATTT
*
2465432 TTTAACATAATTT
1 TTTCA-ATAATTT
2465445 CAAGCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTCAATAATTT
Found at i:2467410 original size:20 final size:20
Alignment explanation
Indices: 2467385--2467424 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2467375 TATGTTGAGT
2467385 CATTCTCCAAATGTATAACA
1 CATTCTCCAAATGTATAACA
2467405 CATTCTCCAAATGTATAACA
1 CATTCTCCAAATGTATAACA
2467425 TTTGGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (20 bp):
CATTCTCCAAATGTATAACA
Done.