Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold132
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: 2458301
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 13 of 15
Found at i:2062791 original size:13 final size:12
Alignment explanation
Indices: 2062765--2062802 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
2062755 AACAGTTTTT
2062765 TTAATATTTATA
1 TTAATATTTATA
2062777 TTAATATTATATA
1 TTAATATT-TATA
*
2062790 TTAATCTTTATA
1 TTAATATTTATA
2062802 T
1 T
2062803 GACATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAATATTTATA
Found at i:2062834 original size:24 final size:24
Alignment explanation
Indices: 2062806--2062859 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
2062796 TTTATATGAC
2062806 ATAAATTACATA-ATATAAATAAAA
1 ATAAATTA-ATATATATAAATAAAA
* * *
2062830 ATAAAATATTATATATAATTAAAA
1 ATAAATTAATATATATAAATAAAA
2062854 ATAAAT
1 ATAAAT
2062860 CGAGTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATTAATATATATAAATAAAA
Found at i:2067526 original size:2 final size:2
Alignment explanation
Indices: 2067515--2067547 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2067505 AAAGATGCAA
*
2067515 AT AT -T AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2067548 GCGTGTGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2068697 original size:102 final size:103
Alignment explanation
Indices: 2068402--2068704 Score: 527
Period size: 103 Copynumber: 3.0 Consensus size: 103
2068392 GGCAGAGTCA
** *
2068402 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAACGTGACGAAAATTTAGTTTGTCAAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
**
2068467 AAAGATGAATCTCAATATATATAAACATGTCAACAAAT
66 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
*
2068505 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCGAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
2068570 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
66 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
*
2068608 CAACTTTATTCTATGAAGTTGGTCTTT-GCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
*
2068672 AAAGATGAATCTCAATATACATAAATTTGTCAA
66 AAAGATGAATCTCAATATATATAAATTTGTCAA
2068705 ATTGTGGGAC
Statistics
Matches: 191, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
102 68 0.36
103 123 0.64
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (103 bp):
CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
Found at i:2069359 original size:40 final size:40
Alignment explanation
Indices: 2069276--2069360 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
2069266 ATAATTATAT
* * * *
2069276 TAATATTATACGCATAAAATATTAAAAATATGATACAATA
1 TAATATGATACGCATAAAATATTAAAAACATAATACAACA
*
2069316 TAATATGATACGCATAAAATATTAAAAACATAATATAACA
1 TAATATGATACGCATAAAATATTAAAAACATAATACAACA
2069356 TAATA
1 TAATA
2069361 CGAATATATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (40 bp):
TAATATGATACGCATAAAATATTAAAAACATAATACAACA
Found at i:2073431 original size:16 final size:16
Alignment explanation
Indices: 2073407--2073441 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2073397 AAAAAAAAAG
*
2073407 TTATGTTTTGATATTT
1 TTATATTTTGATATTT
2073423 TTATATTTTGATATTT
1 TTATATTTTGATATTT
2073439 TTA
1 TTA
2073442 ATAAAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATATTTTGATATTT
Found at i:2075392 original size:11 final size:11
Alignment explanation
Indices: 2075378--2075414 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
2075368 ATTTTTTTTC
2075378 TTTTTTC-A-T
1 TTTTTTCAATT
2075387 TTTTTTCAATT
1 TTTTTTCAATT
2075398 TTTTTTCAATT
1 TTTTTTCAATT
2075409 TTTTTT
1 TTTTTT
2075415 ATTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.27
10 1 0.04
11 18 0.69
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCAATT
Found at i:2076128 original size:18 final size:18
Alignment explanation
Indices: 2076105--2076143 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2076095 AACATAGCAC
2076105 ACAATTCTAAA-AAACTAA
1 ACAATT-TAAACAAACTAA
*
2076123 ACAATTTAAACATACTAA
1 ACAATTTAAACAAACTAA
2076141 ACA
1 ACA
2076144 CATGCAAAAA
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:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (18 bp):
ACAATTTAAACAAACTAA
Found at i:2077136 original size:9 final size:9
Alignment explanation
Indices: 2077124--2077176 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
2077114 TGAAAAAAAT
2077124 AAAAATAAA
1 AAAAATAAA
2077133 AAAAATTGAAA
1 AAAAA-T-AAA
*
2077144 AAAAATTGAA
1 AAAAA-TAAA
*
2077154 AAAAATGAA
1 AAAAATAAA
*
2077163 AAAAAGAAA
1 AAAAATAAA
2077172 AAAAA
1 AAAAA
2077177 ATTATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
9 21 0.54
10 8 0.21
11 10 0.26
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:2077144 original size:11 final size:11
Alignment explanation
Indices: 2077130--2077167 Score: 62
Period size: 10 Copynumber: 3.6 Consensus size: 11
2077120 AAATAAAAAT
2077130 AAAAAAAATTG
1 AAAAAAAATTG
2077141 AAAAAAAATTG
1 AAAAAAAATTG
2077152 -AAAAAAA-TG
1 AAAAAAAATTG
2077161 AAAAAAA
1 AAAAAAA
2077168 GAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.08
10 13 0.50
11 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:2087211 original size:2 final size:2
Alignment explanation
Indices: 2087204--2087234 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2087194 TTCTGGCTTT
2087204 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 T
2087235 CAAACTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2088922 original size:3 final size:3
Alignment explanation
Indices: 2088914--2088947 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2088904 TTTGAGGAAT
2088914 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2088948 GAGTAGTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2090201 original size:22 final size:22
Alignment explanation
Indices: 2090166--2090229 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
2090156 TTTATTAGAA
* *
2090166 TAAAATGAGAATTTAATTAATTT
1 TAAAATTA-AATTTAATTAATTG
*
2090189 TAAAATTATATTTAATT-ATTG
1 TAAAATTAAATTTAATTAATTG
2090210 TAAAATTAAATTTTAATTAA
1 TAAAATTAAA-TTTAATTAA
2090230 AGTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.34
22 15 0.43
23 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TAAAATTAAATTTAATTAATTG
Found at i:2092157 original size:14 final size:14
Alignment explanation
Indices: 2092135--2092164 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2092125 TGATTTAAGA
*
2092135 TAATTTATTATTTT
1 TAATATATTATTTT
2092149 TAATATATTATTTT
1 TAATATATTATTTT
2092163 TA
1 TA
2092165 TTAAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATATATTATTTT
Found at i:2093894 original size:2 final size:2
Alignment explanation
Indices: 2093887--2093913 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2093877 AACATGCGTT
2093887 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 T
2093914 TGTAATGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2100507 original size:74 final size:74
Alignment explanation
Indices: 2100406--2100555 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 74
2100396 AGCCAATGAG
*
2100406 ATTTTAGATTGACATTTCAAAGCATGGGCCATGTTTATTTTGTCTCAGATACATGTGCCATTTTC
1 ATTTAAGATTGACATTTCAAAGCATGGGCCATGTTTATTTTGTCTCAGATACATGTGCCATTTTC
*
2100471 TTACCGAAC
66 TTACCCAAC
*
2100480 ATTTAAGATTGACATTTCAAAGTATGGGCCATGTTTATTTTGTCTCAGATACATGTGCCATTTTC
1 ATTTAAGATTGACATTTCAAAGCATGGGCCATGTTTATTTTGTCTCAGATACATGTGCCATTTTC
2100545 TTACCCAAC
66 TTACCCAAC
2100554 AT
1 AT
2100556 AAAAGAGTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (74 bp):
ATTTAAGATTGACATTTCAAAGCATGGGCCATGTTTATTTTGTCTCAGATACATGTGCCATTTTC
TTACCCAAC
Found at i:2101326 original size:21 final size:20
Alignment explanation
Indices: 2101298--2101338 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2101288 ATAATGTAAT
*
2101298 ATAATTTAATAGTAATTAAA
1 ATAATTTAAAAGTAATTAAA
*
2101318 ATAATTTTAAAATTAATTAAA
1 ATAA-TTTAAAAGTAATTAAA
2101339 TTTTCATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAATTTAAAAGTAATTAAA
Found at i:2101973 original size:36 final size:38
Alignment explanation
Indices: 2101933--2102011 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
2101923 AATATTTTGG
*
2101933 AAAAAAATACAT-TTAA-TATGCTATTTTTA-TGACTTT
1 AAAAAAATACATATTAATTATACTATTTTTATTGA-TTT
* *
2101969 -AAAAAATATATATTAATTATATTATTTTTATTGATTT
1 AAAAAAATACATATTAATTATACTATTTTTATTGATTT
2102006 AAAAAA
1 AAAAAA
2102012 TAAATTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 10 0.28
36 4 0.11
37 14 0.39
38 8 0.22
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (38 bp):
AAAAAAATACATATTAATTATACTATTTTTATTGATTT
Found at i:2102245 original size:22 final size:21
Alignment explanation
Indices: 2102188--2102252 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
2102178 AAAGTGATAT
2102188 TAAAAA-AATATTT-AATTAA
1 TAAAAATAATATTTAAATTAA
* *
2102207 T-AAATTATTTATTTTAAATTAA
1 TAAAAATA-ATA-TTTAAATTAA
2102229 TAAAAATAATATATTAAATATAA
1 TAAAAATAATAT-TTAAAT-TAA
2102252 T
1 T
2102253 TTTTTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 2 0.06
21 4 0.11
22 15 0.43
23 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAATAATATTTAAATTAA
Found at i:2106866 original size:2 final size:2
Alignment explanation
Indices: 2106859--2106886 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2106849 GACAAACATT
2106859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2106887 AAATCTTCAA
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):
TA
Found at i:2115385 original size:2 final size:2
Alignment explanation
Indices: 2115365--2115405 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
2115355 CCTAAAATTT
*
2115365 TA TA TA -A TA TA CA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
2115406 TCCAGTATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2117218 original size:2 final size:2
Alignment explanation
Indices: 2117211--2117257 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2117201 ATTCTGGCTT
2117211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2117253 TA TA T
1 TA TA T
2117258 CAAACTCTCA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2118377 original size:12 final size:12
Alignment explanation
Indices: 2118361--2118394 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2118351 ATATTTTATT
2118361 TATTTTTAAAT-
1 TATTTTTAAATA
2118372 TAATTTTTAAATA
1 T-ATTTTTAAATA
2118385 TATTTTTAAA
1 TATTTTTAAA
2118395 AAATATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:2118480 original size:14 final size:16
Alignment explanation
Indices: 2118461--2118492 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2118451 GGGTGAAATA
2118461 ATTTT-AATTTT-TTT
1 ATTTTAAATTTTATTT
2118475 ATTTTAAATTTTATTT
1 ATTTTAAATTTTATTT
2118491 AT
1 AT
2118493 ACCTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 6 0.38
16 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTAAATTTTATTT
Found at i:2119057 original size:50 final size:50
Alignment explanation
Indices: 2118994--2119251 Score: 293
Period size: 50 Copynumber: 5.2 Consensus size: 50
2118984 AAGTGTTGTC
* * * *
2118994 ATTGTTGATTATTCTTCACTAATATTTGATAATCGAGAGAGGTGATTGTA
1 ATTGTTGACTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACTGTA
** * * * *
2119044 ATTGTTGACTATTCTTCACCAACCTTTAACAGTCGAGGGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACTGTA
* * **
2119094 ATTGTTAATTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACCCTA
1 ATTGTTGACTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACTGTA
* * *
2119144 ATTGTTGACGATTCTTCACCAACT-TTTGACAATTGAGAGAGGTGACTATA
1 ATTGTTGACTATTCTTCACCAA-TATTTGACAATCGAGAGAGGTGACTGTA
** * * * *
2119194 ATTGTTGACTATTCTTCACCAACCTTTGATAATAGAGAGAGGTGGCTATA
1 ATTGTTGACTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACTGTA
2119244 ATTGTTGA
1 ATTGTTGA
2119252 TTCTAAGCAA
Statistics
Matches: 177, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
50 176 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACTGTA
Found at i:2119186 original size:100 final size:100
Alignment explanation
Indices: 2118994--2119251 Score: 336
Period size: 100 Copynumber: 2.6 Consensus size: 100
2118984 AAGTGTTGTC
* * * *
2118994 ATTGTTGATTATTCTTCACTAATATTTGATAATCGAGAGAGGTGATTGTAATTGTTGACTATTCT
1 ATTGTTGATTATTCTTCACCAATATTTGATAATCGAGAGAGGTGACTATAATTGTTGACGATTCT
* * *
2119059 TCACCAACCTTTAACAGTCGAGGGAGGTGACCGTA
66 TCACCAACCTTTAACAATCGAGAGAGGTGACCATA
* * **
2119094 ATTGTTAATTATTCTTCACCAATATTTGACAATCGAGAGAGGTGACCCTAATTGTTGACGATTCT
1 ATTGTTGATTATTCTTCACCAATATTTGATAATCGAGAGAGGTGACTATAATTGTTGACGATTCT
* * * *
2119159 TCACCAACTTTTGACAATTGAGAGAGGTGACTATA
66 TCACCAACCTTTAACAATCGAGAGAGGTGACCATA
* ** * *
2119194 ATTGTTGACTATTCTTCACCAACCTTTGATAATAGAGAGAGGTGGCTATAATTGTTGA
1 ATTGTTGATTATTCTTCACCAATATTTGATAATCGAGAGAGGTGACTATAATTGTTGA
2119252 TTCTAAGCAA
Statistics
Matches: 135, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 135 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (100 bp):
ATTGTTGATTATTCTTCACCAATATTTGATAATCGAGAGAGGTGACTATAATTGTTGACGATTCT
TCACCAACCTTTAACAATCGAGAGAGGTGACCATA
Found at i:2124743 original size:2 final size:2
Alignment explanation
Indices: 2124736--2124760 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2124726 ATTCTGGCTT
2124736 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 T
2124761 CAAACTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2125883 original size:13 final size:12
Alignment explanation
Indices: 2125865--2125902 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2125855 TATTTTATTT
2125865 ATTTTTAAATTAA
1 ATTTTTAAA-TAA
*
2125878 ATTTTTAAATAT
1 ATTTTTAAATAA
2125890 ATTTTTAAA-AA
1 ATTTTTAAATAA
2125901 AT
1 AT
2125903 ATATGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 3 0.13
12 11 0.48
13 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTTTAAATAA
Found at i:2125893 original size:12 final size:13
Alignment explanation
Indices: 2125864--2125898 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2125854 ATATTTTATT
2125864 TATTTTTAAATTA
1 TATTTTTAAATTA
*
2125877 AATTTTTAAA-TA
1 TATTTTTAAATTA
2125889 TATTTTTAAA
1 TATTTTTAAA
2125899 AAATATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTTTAAATTA
Found at i:2126442 original size:3 final size:3
Alignment explanation
Indices: 2126434--2126463 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2126424 TTTGAGGTAT
2126434 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2126464 GTAGTAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2127715 original size:22 final size:21
Alignment explanation
Indices: 2127689--2127742 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
2127679 ATATAATGAG
*
2127689 AATTTAATTAGTTTTAAAATTA
1 AATTTAATTA-TTGTAAAATTA
*
2127711 TATTTAATTATTGTAAAATTA
1 AATTTAATTATTGTAAAATTA
2127732 AATTTTAATTA
1 AA-TTTAATTA
2127743 AAGTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AATTTAATTATTGTAAAATTA
Found at i:2127729 original size:21 final size:21
Alignment explanation
Indices: 2127690--2127762 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
2127680 TATAATGAGA
*
2127690 ATTTAATTAGTTTTAAAATTAT
1 ATTTAATTA-TTGTAAAATTAT
*
2127712 ATTTAATTATTGTAAAATTAA
1 ATTTAATTATTGTAAAATTAT
**
2127733 ATTTTAATTAAAGT-AAATTAT
1 A-TTTAATTATTGTAAAATTAT
2127754 ATTCTAATT
1 ATT-TAATT
2127763 GAATTACAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.05
21 23 0.52
22 19 0.43
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAATTATTGTAAAATTAT
Found at i:2129047 original size:2 final size:2
Alignment explanation
Indices: 2129040--2129078 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2129030 CTAACGTATC
2129040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2129079 CACATACATA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2130428 original size:14 final size:14
Alignment explanation
Indices: 2130406--2130435 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2130396 CGTTCTGCTG
2130406 TTGTTTTTTTTT-T
1 TTGTTTTTTTTTGT
2130419 TTGTTTTTTTTTGT
1 TTGTTTTTTTTTGT
2130433 TTG
1 TTG
2130436 GGTGTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTGTTTTTTTTTGT
Found at i:2130560 original size:2 final size:2
Alignment explanation
Indices: 2130553--2130587 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2130543 TGATTCTGGC
2130553 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 T
2130588 CAAACTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2132274 original size:3 final size:3
Alignment explanation
Indices: 2132266--2132299 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2132256 TTTGAGGAAT
2132266 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2132300 GAGTAGTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2133571 original size:21 final size:22
Alignment explanation
Indices: 2133522--2133584 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
2133512 TTTATTAGAA
* *
2133522 TAAAATGAGAATTTAATTAGTTT
1 TAAAATTA-AATTTAATTAGTTG
*
2133545 TAAAATTATATTTAATTA-TTG
1 TAAAATTAAATTTAATTAGTTG
2133566 TAAAATTAAATTTTAATTA
1 TAAAATTAAA-TTTAATTA
2133585 AAGTAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.31
22 17 0.49
23 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAAATTAAATTTAATTAGTTG
Found at i:2133590 original size:22 final size:21
Alignment explanation
Indices: 2133545--2133591 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
2133535 TAATTAGTTT
* **
2133545 TAAAATTATATTTAATTATTG
1 TAAAATTAAATTTAATTAAAG
2133566 TAAAATTAAATTTTAATTAAAG
1 TAAAATTAAA-TTTAATTAAAG
2133588 TAAA
1 TAAA
2133592 TTATACTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
TAAAATTAAATTTAATTAAAG
Found at i:2134725 original size:12 final size:13
Alignment explanation
Indices: 2134698--2134756 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 13
2134688 TTTTTCTTAA
*
2134698 AATATTTATATTT
1 AATATATATATTT
2134711 AATATATAT-TTT
1 AATATATATATTT
**
2134723 AATATA-ATATAA
1 AATATATATATTT
2134735 AATATA-ATATTTT
1 AATATATATA-TTT
2134748 AA-ATATATA
1 AATATATATA
2134757 AAAAATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.05
12 22 0.58
13 14 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATATATATTT
Found at i:2134761 original size:25 final size:24
Alignment explanation
Indices: 2134711--2134762 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
2134701 ATTTATATTT
*
2134711 AATATATATTTTAATATAATATAA
1 AATATATATTTTAATATAATAAAA
2134735 AATATAATATTTTAA-ATATATAAAA
1 AATAT-ATATTTTAATATA-ATAAAA
2134760 AAT
1 AAT
2134763 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATATATTTTAATATAATAAAA
Found at i:2134792 original size:15 final size:15
Alignment explanation
Indices: 2134772--2134810 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2134762 TTTTAAAAAA
2134772 ATTTAATATATTCGT
1 ATTTAATATATTCGT
* *
2134787 ATTTAATGTATTTGT
1 ATTTAATATATTCGT
2134802 ATTTAATAT
1 ATTTAATAT
2134811 TTACCTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (15 bp):
ATTTAATATATTCGT
Found at i:2136625 original size:27 final size:27
Alignment explanation
Indices: 2136571--2136642 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
2136561 TAGCCGCTAA
* *
2136571 TTTTGACAAACAACAA-GAACTACCAT
1 TTTTGACAAACAAAAAGGAACCACCAT
2136597 TTTTGACAAACAAAAAGGAACCACCAT
1 TTTTGACAAACAAAAAGGAACCACCAT
*
2136624 TTTTTACAAACAAAAAGGA
1 TTTTGACAAACAAAAAGGA
2136643 TGGCTTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 15 0.36
27 27 0.64
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (27 bp):
TTTTGACAAACAAAAAGGAACCACCAT
Found at i:2136885 original size:24 final size:24
Alignment explanation
Indices: 2136858--2136913 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
2136848 CGAATCTTTT
2136858 GAATTTCTACTCTACCTTCATTCA
1 GAATTTCTACTCTACCTTCATTCA
*
2136882 GAATTTCTACTCTACCTTTATTCA
1 GAATTTCTACTCTACCTTCATTCA
2136906 GAATTTCT
1 GAATTTCT
2136914 CGTACAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (24 bp):
GAATTTCTACTCTACCTTCATTCA
Found at i:2141139 original size:27 final size:26
Alignment explanation
Indices: 2141109--2141197 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
2141099 TCCCTTTTGT
* * *
2141109 AATAAAAATTAGCTATCAATTTTAACA
1 AATAAAAA-TAACTATCATTTTTTACA
*
2141136 AATAATAAA-AACCATCATTTTTTACA
1 AATAA-AAATAACTATCATTTTTTACA
*
2141162 AATAAAAAGGAACTATCATTTTTTACA
1 AATAAAAA-TAACTATCATTTTTTACA
2141189 AATAAAAAT
1 AATAAAAAT
2141198 GATAGTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 3 0.06
26 18 0.34
27 29 0.55
28 3 0.06
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (26 bp):
AATAAAAATAACTATCATTTTTTACA
Found at i:2142264 original size:29 final size:29
Alignment explanation
Indices: 2142227--2142285 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2142217 AGATAATTAA
* *
2142227 TAATTATATATAAAAAATAAAAAATTATT
1 TAATCATATATAAAAAATAAAAAATCATT
* * *
2142256 TAATCATATTTTAAGAATAAAAAATCATT
1 TAATCATATATAAAAAATAAAAAATCATT
2142285 T
1 T
2142286 TTAAGAATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (29 bp):
TAATCATATATAAAAAATAAAAAATCATT
Found at i:2144051 original size:34 final size:33
Alignment explanation
Indices: 2144004--2144223 Score: 226
Period size: 34 Copynumber: 6.5 Consensus size: 33
2143994 GGTAAAAACT
*
2144004 ACCATTTAATCAACAATGGCAA-CTTACCAAATC
1 ACCATTTAATCAACAATGGTAAGC-TACCAAATC
* * *
2144037 TCTCATTTAGTCAACAATGGTAAGCCACCAAATC
1 AC-CATTTAATCAACAATGGTAAGCTACCAAATC
* * *
2144071 ACTCATTTAATCAATAATAGTAAGCTACCAAATT
1 AC-CATTTAATCAACAATGGTAAGCTACCAAATC
* *
2144105 TCCTATTTAATCAATAATGGTAAGCTACCAAATC
1 ACC-ATTTAATCAACAATGGTAAGCTACCAAATC
* * * * * *
2144139 TCCCATTTAGTCAACAATAGCAAACCACCAAATC
1 -ACCATTTAATCAACAATGGTAAGCTACCAAATC
* *
2144173 ACCCATTTAATCAACAATGGTAAACTACTAAATC
1 A-CCATTTAATCAACAATGGTAAGCTACCAAATC
2144207 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
2144224 TCTCCCACTT
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
33 18 0.12
34 135 0.87
35 3 0.02
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (33 bp):
ACCATTTAATCAACAATGGTAAGCTACCAAATC
Found at i:2144124 original size:68 final size:66
Alignment explanation
Indices: 2144004--2144223 Score: 253
Period size: 68 Copynumber: 3.3 Consensus size: 66
2143994 GGTAAAAACT
* * *
2144004 ACCATTTAATCAACAATGGCAACTTACCAAATCT-CTCATTTAGTCAACAATGGTAAGCCACCAA
1 ACCATTTAATCAACAATAGCAAC-TACCAAATCTCCT-ATTTAATCAACAATGGTAAGCTACCAA
2144068 ATC
64 ATC
* * * *
2144071 ACTCATTTAATCAATAATAGTAAGCTACCAAATTTCCTATTTAATCAATAATGGTAAGCTACCAA
1 AC-CATTTAATCAACAATAGCAA-CTACCAAATCTCCTATTTAATCAACAATGGTAAGCTACCAA
2144136 ATC
64 ATC
* * * * * * *
2144139 TCCCATTTAGTCAACAATAGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 -ACCATTTAATCAACAATAGC-AACTACCAAATCTCCTATTTAATCAACAATGGTAAGCTACCAA
2144204 ATC
64 ATC
2144207 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
2144224 TCTCCCACTT
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
67 17 0.13
68 105 0.82
69 6 0.05
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (66 bp):
ACCATTTAATCAACAATAGCAACTACCAAATCTCCTATTTAATCAACAATGGTAAGCTACCAAAT
C
Found at i:2144183 original size:102 final size:101
Alignment explanation
Indices: 2144004--2144223 Score: 298
Period size: 102 Copynumber: 2.2 Consensus size: 101
2143994 GGTAAAAACT
* * * *
2144004 ACCATTTAATCAACAATGGCAACTTACCAAATCTCTCATTTAGTCAACAATGGTAAGCCACCAAA
1 ACCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATAGCAAACCACCAAA
* * * *
2144069 TCACTCATTTAATCAATAATAGTAAGCTACCAAATT
66 TCACCCATTTAATCAACAATAGTAAACTACCAAATC
* * *
2144105 TCCTATTTAATCAATAATGGTAAGC-TACCAAATCTCCCATTTAGTCAACAATAGCAAACCACCA
1 ACC-ATTTAATCAACAATGGCAA-CTTACCAAATCTCCCATTTAGTCAACAATAGCAAACCACCA
* *
2144169 AATCACCCATTTAATCAACAATGGTAAACTACTAAATC
64 AATCACCCATTTAATCAACAATAGTAAACTACCAAATC
2144207 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
2144224 TCTCCCACTT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
101 15 0.15
102 86 0.84
103 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (101 bp):
ACCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATAGCAAACCACCAAA
TCACCCATTTAATCAACAATAGTAAACTACCAAATC
Found at i:2146308 original size:19 final size:19
Alignment explanation
Indices: 2146281--2146343 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
2146271 TCACGTGTAC
* *
2146281 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
2146300 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
** *
2146319 AGTACCTATATACGTGGAT
1 AGTACCCGTATACGTGAAT
2146338 AGTACC
1 AGTACC
2146344 TCGACAACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:2146693 original size:34 final size:34
Alignment explanation
Indices: 2146648--2146864 Score: 210
Period size: 34 Copynumber: 6.4 Consensus size: 34
2146638 TAAAAACCAC
*
2146648 CATTTAATCAACAATGGCAACCTACCAAATCTCT
1 CATTTAATCAACAATGGTAACCTACCAAATCTCT
* * *
2146682 CATTTAGTCAACAATGGTAAGCC-ACCAAATCACC
1 CATTTAATCAACAATGGTAA-CCTACCAAATCTCT
* * *
2146716 CATTTAATCAACAATGATAAGCTACCAAAT-TTT
1 CATTTAATCAACAATGGTAACCTACCAAATCTCT
* * *
2146749 CCATTTAATCAATAATGGTAAGCTACCAAATCTCC
1 -CATTTAATCAACAATGGTAACCTACCAAATCTCT
* ** *
2146784 CATTTAGTCAACAATGACAAACC-ACCAAAT-TAT
1 CATTTAATCAACAATG-GTAACCTACCAAATCTCT
* * *
2146817 CCATTTAATCAACAATGGTAAACTACTAAATCACT
1 -CATTTAATCAACAATGGTAACCTACCAAATCTCT
2146852 -ATTTAATCAACAA
1 CATTTAATCAACAA
2146865 AAGTTAGCAC
Statistics
Matches: 147, Mismatches: 28, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
33 18 0.12
34 122 0.83
35 7 0.05
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (34 bp):
CATTTAATCAACAATGGTAACCTACCAAATCTCT
Found at i:2146766 original size:68 final size:68
Alignment explanation
Indices: 2146647--2146864 Score: 278
Period size: 68 Copynumber: 3.2 Consensus size: 68
2146637 GTAAAAACCA
* * * * *
2146647 CCATTTAATCAACAATGGCAACCTACCAAA-TCTCTCATTTAGTCAACAATGGTAAGCCACCAAA
1 CCATTTAATCAACAATGACAAACTACCAAATTATC-CATTTAATCAACAATGGTAAGCTACCAAA
2146711 TCAC
65 TCAC
* * * *
2146715 CCATTTAATCAACAATGATAAGCTACCAAATTTTCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTATCCATTTAATCAACAATGGTAAGCTACCAAAT
*
2146780 CTC
66 CAC
* * * *
2146783 CCATTTAGTCAACAATGACAAACCACCAAATTATCCATTTAATCAACAATGGTAAACTACTAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTATCCATTTAATCAACAATGGTAAGCTACCAAAT
2146848 CA-
66 CAC
*
2146850 CTATTTAATCAACAA
1 CCATTTAATCAACAA
2146865 AAGTTAGCAC
Statistics
Matches: 130, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
67 13 0.10
68 114 0.88
69 3 0.02
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (68 bp):
CCATTTAATCAACAATGACAAACTACCAAATTATCCATTTAATCAACAATGGTAAGCTACCAAAT
CAC
Found at i:2146823 original size:102 final size:102
Alignment explanation
Indices: 2146647--2146864 Score: 294
Period size: 102 Copynumber: 2.1 Consensus size: 102
2146637 GTAAAAACCA
* ** *
2146647 CCATTTAATCAACAATGGCAACCTACCAAATCTCTCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAAAT
*
2146712 CACCCATTTAATCAACAATGATAAGCTACCAAATTTT
66 CACCCATTTAATCAACAATGATAAACTACCAAATTTT
* * *
2146749 CCATTTAATCAATAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAAAT
* * * * **
2146814 TATCCATTTAATCAACAATGGTAAACTACTAAA-TCA
66 CACCCATTTAATCAACAATGATAAACTACCAAATTTT
*
2146850 CTATTTAATCAACAA
1 CCATTTAATCAACAA
2146865 AAGTTAGCAC
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
101 14 0.14
102 86 0.86
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (102 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAAAT
CACCCATTTAATCAACAATGATAAACTACCAAATTTT
Found at i:2148157 original size:16 final size:16
Alignment explanation
Indices: 2148136--2148173 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2148126 TCCTATGATT
*
2148136 TTTAAATTATTTTATA
1 TTTAAATTATTTTAAA
2148152 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
2148168 TTTAAA
1 TTTAAA
2148174 AATATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:2148589 original size:14 final size:13
Alignment explanation
Indices: 2148559--2148601 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
2148549 AAAAATAAAA
2148559 AAAATTATAAATATT
1 AAAATT-TAAAT-TT
2148574 AAAATTTAAAATTT
1 AAAATTT-AAATTT
2148588 AAAATTTAAATTT
1 AAAATTTAAATTT
2148601 A
1 A
2148602 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.26
14 10 0.37
15 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:2148600 original size:6 final size:7
Alignment explanation
Indices: 2148567--2148601 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
2148557 AAAAAATTAT
2148567 AAATATTA
1 AAAT-TTA
2148575 AAATTTA
1 AAATTTA
2148582 AAATTTA
1 AAATTTA
2148589 AAATTT-
1 AAATTTA
2148595 AAATTTA
1 AAATTTA
2148602 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 16 0.62
8 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:2148801 original size:17 final size:16
Alignment explanation
Indices: 2148781--2148819 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
2148771 GTACTATTCA
2148781 TATTTATTTAATTTTAT
1 TATTTATTTAATTTT-T
*
2148798 TATTATATTTCATTTTT
1 TATT-TATTTAATTTTT
2148815 TATTT
1 TATTT
2148820 GCATAGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 9 0.45
18 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTATTTAATTTTT
Found at i:2151480 original size:13 final size:14
Alignment explanation
Indices: 2151453--2151480 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2151443 AAAAAATCAT
2151453 AACCTGAAATAAAA
1 AACCTGAAATAAAA
2151467 AACCTGAAATAAAA
1 AACCTGAAATAAAA
2151481 GATAAATTAT
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:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AACCTGAAATAAAA
Found at i:2151500 original size:21 final size:21
Alignment explanation
Indices: 2151476--2151515 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2151466 AAACCTGAAA
2151476 TAAAAGATAAATTATAAATAT
1 TAAAAGATAAATTATAAATAT
** *
2151497 TAAAATTTAAATTTTAAAT
1 TAAAAGATAAATTATAAAT
2151516 TTATTAAATA
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:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAAGATAAATTATAAATAT
Found at i:2151667 original size:2 final size:2
Alignment explanation
Indices: 2151660--2151695 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2151650 TGAATGACTC
2151660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2151696 AATAAGTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2154729 original size:20 final size:21
Alignment explanation
Indices: 2154679--2154732 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2154669 TATTTCATTC
* * *
2154679 TTAAACTTTTGAAAATAATTT
1 TTAATCTTTTAAAAATAATTA
2154700 TTAATCTTTTAAAAATAATTA
1 TTAATCTTTTAAAAATAATTA
2154721 TTAAT-TTTTAAA
1 TTAATCTTTTAAA
2154733 TTTTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATCTTTTAAAAATAATTA
Found at i:2160149 original size:11 final size:11
Alignment explanation
Indices: 2160133--2160178 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
2160123 GTGTACCATC
2160133 TCTTTTTTTTT
1 TCTTTTTTTTT
2160144 TCTTTTTTTTT
1 TCTTTTTTTTT
*
2160155 TAGTTTTTCTTTT
1 T-CTTTTT-TTTT
2160168 TCTTTCTTTTT
1 TCTTT-TTTTT
2160179 GTTTGAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 12 0.40
12 11 0.37
13 7 0.23
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:2162781 original size:27 final size:27
Alignment explanation
Indices: 2162720--2162790 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
2162710 AAACAAGCCT
* *
2162720 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
2162748 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
2162775 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
2162791 AATAGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:2164711 original size:21 final size:22
Alignment explanation
Indices: 2164673--2164718 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2164663 ATCTGTTGAA
* **
2164673 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
2164694 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
2164716 ACT
1 ACT
2164719 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:2167331 original size:28 final size:29
Alignment explanation
Indices: 2167292--2167372 Score: 116
Period size: 28 Copynumber: 2.9 Consensus size: 29
2167282 AAACAAGCTT
* *
2167292 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAAGGATAACCA
2167320 CCATTTTTGACAAACACAAA--ATAACCA
1 CCATTTTTGACAAACACAAAGGATAACCA
2167347 CCATTTTTGACAAACA-AAAGGATAAC
1 CCATTTTTGACAAACACAAAGGATAAC
2167373 TTTTGTTGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.08
27 21 0.44
28 23 0.48
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.21
Consensus pattern (29 bp):
CCATTTTTGACAAACACAAAGGATAACCA
Found at i:2167353 original size:27 final size:27
Alignment explanation
Indices: 2167292--2167366 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
2167282 AAACAAGCTT
* *
2167292 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
2167320 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
2167347 CCATTTTTGACAAACA-AAAG
1 CCATTTTTGACAAACACAAAG
2167367 GATAACTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 4 0.09
27 21 0.49
28 18 0.42
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:2168244 original size:2 final size:2
Alignment explanation
Indices: 2168239--2168285 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
2168229 TATATAATTC
* * *
2168239 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AA AT AT AT AG AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
2168282 AT AT
1 AT AT
2168286 GGTACAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2170253 original size:50 final size:50
Alignment explanation
Indices: 2170193--2170380 Score: 295
Period size: 50 Copynumber: 3.8 Consensus size: 50
2170183 TATACTTAGA
*** *
2170193 GTCAACAATTATGGCCACCTTTTTCTATTGTCAAAAGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
2170243 GTCAAAAATTATGGCCATCTCCCTCTATTGTTAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
2170293 GTCAACAATTATGGTCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
2170343 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGT
2170381 ACTTTCCACC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 125 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:2174825 original size:50 final size:50
Alignment explanation
Indices: 2174765--2174950 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
2174755 TATACTTAGA
* * *
2174765 GTCAATAATTATTGCCACATTTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
2174815 GTCAACAATTATGGTCATCTCCCTCTATTGTCAAAGGTTAGTGAAGAATC
1 GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*
2174865 GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
1 GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
2174915 GTCAATAATTATGACCACCTCTCTCTATTATCAAAG
1 GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAG
2174951 ATACTTTTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 120 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (50 bp):
GTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:2177320 original size:28 final size:31
Alignment explanation
Indices: 2177281--2177339 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
2177271 AAAAAATTAT
2177281 ATTTAAGATATT-AT-A-TATTTTATATAAA
1 ATTTAAGATATTAATAATTATTTTATATAAA
*
2177309 ATTTAA-ATTATTAATAATTTTTTTATATAAA
1 ATTTAAGA-TATTAATAATTATTTTATATAAA
2177340 TTTTGACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 1 0.04
28 10 0.38
29 2 0.08
30 1 0.04
31 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTAAGATATTAATAATTATTTTATATAAA
Found at i:2181039 original size:34 final size:34
Alignment explanation
Indices: 2181000--2181067 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
2180990 TACAATAATT
* *
2181000 TTGTACCCTTCTCTCAGAAATTCTGAAGTGAAGG
1 TTGTACCCCTCTCTCAGAAATTCTGAAGGGAAGG
*
2181034 TTGTACCCCTCTCTCAGAATTTCTGAAGGGAAGG
1 TTGTACCCCTCTCTCAGAAATTCTGAAGGGAAGG
2181068 GACAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
TTGTACCCCTCTCTCAGAAATTCTGAAGGGAAGG
Found at i:2181524 original size:264 final size:262
Alignment explanation
Indices: 2181112--2182385 Score: 748
Period size: 269 Copynumber: 4.8 Consensus size: 262
2181102 TGACCTTATT
* * *
2181112 TTTTTGAAATTTAATTTAATTTATAAATTTATTAAAAAATTAATAATTAATATATTTATTTTTAA
1 TTTTT-AAATTTAATTTAATTTATAATTTTATT-AAAAA-T--T-ATTAAAATATTAATTTTTAA
** * * *
2181177 ACATAATTTTTTAAAAATTTAGTTAAATTTAATTTTTTAATGTTGTGCCATGAGAAATTG-TCCG
60 ACATAATTTTTTTTAAATTTAGTTAAATTTAATTTTTTAATTTTGTACCATGAGAAATTGTTCAG
* * * *
2181241 ACCGTGAAA-TACATAGTTGAGACTTTTATTTTTCAAAACAAAAAAAACTGGGGTATAATAATTT
125 -CTGT-AAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAA--GGGGTACAATAATTT
* * * * * *
2181305 TGTTCTCTCCCCCTCAGAATTTTTAATGAGAAGAGATAATTATTGAGGGTCATGAGTAATAATAT
186 TGTCCCCTCCCCCTCAGAATTTATAAGGAGAAGAGATAATTATTAAGGGTCACGAGTAATAATA-
* *
2181370 CC-GTGATTTTA-
250 CCTGTGACTCTAC
* *
2181381 TTTTTTAATTTAATTTAATTTATACATTTTATTAAAAATTATTAACATATTAATTTTTTAAA-AT
1 TTTTTAAATTTAATTTAATTTATA-ATTTTATTAAAAATTATTAAAATATTAA-TTTTTAAACAT
*
2181445 AATTTTTTTTAAATTTAGTTAAATTTAATTTTTTTATTTTGTACCATGAGAAATTGTTCAGCTGT
64 AATTTTTTTTAAATTTAGTTAAATTTAATTTTTTAATTTTGTACCATGAGAAATTGTTCAGCTGT
*
2181510 AAAGTACGTAGTTGAGACTTTGATTTTTC-AAA-AAAAAAAA---GTACAATAATTTTGTCCCCT
129 AAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAGGGGTACAATAATTTTGTCCCCT
* * * * * * *
2181570 CCCCTTCAGAATTTATGAGGGGAGGGGATAATTATTAAGGGTCACGGGTGATAATACCTGTGACT
194 CCCCCTCAGAATTTATAAGGAGAAGAGATAATTATTAAGGGTCACGAGTAATAATACCTGTGACT
2181635 CTAC
259 CTAC
** * ** *
2181639 TTTTTAAATTTAATTTAATTTATAAATTTT-TT-AATTTTATTAAAAAATTAATAATTAATATAT
1 TTTTTAAATTTAATTTAATTTAT-AATTTTATTAAAAATTATTAAAATATTAATTTTTAA-ACAT
* * * * * * * * **
2181702 ACTTTTTTTAATATAATTT-TTTTAATTTAATTTTTTAATTTTGTACAATGAAAAAATATCCAAT
64 AATTTTTTT--TA-AATTTAGTTAAATTTAATTTTTTAATTTTGTACCATGAGAAATTGTTCAGC
* * *
2181766 TATGAAGTACGTAGTTGAGACTCTAATTTTTCAAAACAAAAAGAAAAAAGGGGTACAATAATTTT
126 TGTAAAGTACGTAGTTGAGACTTTAATTTTTCAAAAC---AA-AAAAAAGGGGTACAATAATTTT
* * ** * ** **
2181831 GTCCCCT-CCCCTACAGAATTTCTAAGG-GCAGGAGACCATTATTAAGAGTCACGAGCGATCGTA
187 GTCCCCTCCCCCT-CAGAATTTATAAGGAG-AAGAGATAATTATTAAGGGTCACGAGTAATAATA
* * *
2181894 CTTATTA-TCTTA-
250 CCTGTGACTC-TAC
* ** * ** *
2181906 TCTTTTAAATTTTAATTTAATTTACAAATTTT-TTAAATTTTATTAAAAAATTAATAATGAATAC
1 T-TTTTAAA-TTTAATTTAATTTA-TAATTTTATTAAAAATTATTAAAATATTAATTTTTAA-A-
* * * * *
2181970 GTCATAA-TTTTTTT-AATTTAATTAAATTT-ATTTTTTTATCTTTGTATCGTGAGAAATT-ATC
61 --CATAATTTTTTTTAAATTTAGTTAAATTTAATTTTTTAAT-TTTGTACCATGAGAAATTGTTC
** * * * * * * * *
2182031 TAATTGTGAATTACGTAGTTAAAATTTTAATATTTCAAAATAAAAAGAAAAAAAAGGGTACAATA
123 -AGCTGTAAAGTACGTAGTTGAGACTTTAATTTTTC---A-AAACA-AAAAAAAGGGGTACAATA
* * * * * * * * *
2182096 ATTTT-ACCCTCTCCCCTTCAAAATTTTTGAA-GAAAAGAGACAATTA-TAAAGGTCACAAGTGA
182 ATTTTGTCCC-CTCCCCCTCAGAATTTAT-AAGGAGAAGAGATAATTATTAAGGGTCACGAGTAA
* * * *
2182158 TAAGA-CTCATGACTTTAAT
245 TAATACCT-GTGACTCT-AC
**
2182177 TTTTTAAATTTAATTTAATTTATAAATTTTTTAATTTTATTAAAAAATTAATGATTACTATATTA
1 TTTTTAAATTTAATTTAA-TT-T--A-----TAATTTTATT-AAAAA-T--T-ATTAAAATATTA
* * * * * * *
2182242 CTTTTTTAATATAA-TTATTTTAAATTTAATTAAATTTAATTTTTTTTTAATTTTATATCATGAG
52 ATTTTTAAACATAATTTTTTTTAAATTTAGTTAAATTTAA---TTTTTTAATTTTGTACCATGAG
* * * * *
2182306 AAATTG-TC--CTATTGAAGTACGTAGTTGAGACTTTGATTTTT---TA-AAAAAGAA--GGTAC
114 AAATTGTTCAGCT-GTAAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAGGGGTAC
2182362 AATAATTTTGTCCCCTCCCCCTCA
178 AATAATTTTGTCCCCTCCCCCTCA
2182386 AAACTTCTAG
Statistics
Matches: 802, Mismatches: 134, Indels: 137
0.75 0.12 0.13
Matches are distributed among these distances:
255 5 0.01
256 18 0.02
257 81 0.10
258 27 0.03
259 66 0.08
260 8 0.01
262 8 0.01
263 6 0.01
264 92 0.11
265 18 0.02
267 9 0.01
268 110 0.14
269 113 0.14
270 105 0.13
271 12 0.01
272 13 0.02
273 8 0.01
274 1 0.00
277 6 0.01
278 2 0.00
279 13 0.02
280 17 0.02
281 24 0.03
282 2 0.00
283 30 0.04
284 8 0.01
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (262 bp):
TTTTTAAATTTAATTTAATTTATAATTTTATTAAAAATTATTAAAATATTAATTTTTAAACATAA
TTTTTTTTAAATTTAGTTAAATTTAATTTTTTAATTTTGTACCATGAGAAATTGTTCAGCTGTAA
AGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAGGGGTACAATAATTTTGTCCCCTCC
CCCTCAGAATTTATAAGGAGAAGAGATAATTATTAAGGGTCACGAGTAATAATACCTGTGACTCT
AC
Found at i:2181682 original size:18 final size:18
Alignment explanation
Indices: 2181642--2181682 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2181632 ACTCTACTTT
2181642 TTAAATTTAATTTAATTTA
1 TTAAATTT-ATTTAATTTA
2181661 -TAAATTT-TTTAATTTTA
1 TTAAATTTATTTAA-TTTA
2181678 TTAAA
1 TTAAA
2181683 AAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTTATTTAATTTA
Found at i:2181686 original size:21 final size:21
Alignment explanation
Indices: 2181647--2181687 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2181637 ACTTTTTAAA
* *
2181647 TTTAATTTAATTTATAAATTT
1 TTTAATTTAATTAAAAAATTT
*
2181668 TTTAATTTTATTAAAAAATT
1 TTTAATTTAATTAAAAAATT
2181688 AATAATTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATTTAATTAAAAAATTT
Found at i:2181723 original size:13 final size:14
Alignment explanation
Indices: 2181693--2181737 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
2181683 AAATTAATAA
2181693 TTAATATATACTTTTT
1 TTAATATA-A-TTTTT
2181709 TTAATATAATTTTT
1 TTAATATAATTTTT
*
2181723 TTAATTTAATTTTT
1 TTAATATAATTTTT
2181737 T
1 T
2181738 AATTTTGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 19 0.68
15 1 0.04
16 8 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATATAATTTTT
Found at i:2181738 original size:13 final size:14
Alignment explanation
Indices: 2181704--2181742 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
2181694 TAATATATAC
*
2181704 TTTTTTTAATATAA
1 TTTTTTTAATTTAA
2181718 TTTTTTTAATTTAA
1 TTTTTTTAATTTAA
2181732 -TTTTTTAATTT
1 TTTTTTTAATTT
2181743 TGTACAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTTAATTTAA
Found at i:2181876 original size:268 final size:265
Alignment explanation
Indices: 2181112--2182272 Score: 933
Period size: 268 Copynumber: 4.4 Consensus size: 265
2181102 TGACCTTATT
* * * * * **
2181112 TTTTTGAAATTTAATTTAATTTATAAATTTATTAAAAAATTAATAATTAATATATTTATTTTTAA
1 TTTTT-AAATTTAATTTAATTTATAAATTT-TT--TAAATT--TTATTAAAAAATTAATAATTAA
* * * * * *
2181177 -ACATAA-TTTTTTAA-A-AATTTAGTTAAATTTAATTTTTTAATGTTGTGCCATGAGAAATTGT
60 TATATAATTTTTTTAATATAATTT-TTTAAATTTAATTTTTTTATTTTGT-ACATGAGAAATTAT
* ** * * * ** *
2181238 CCGACCGTGAAATACATAGTTGAGACTTTTATTTTTCAAAAC-AAAAAAAACTGGGGTATAATAA
123 CCAATTGTGAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAAAAGGGGTACAATAA
* * * * * * * *
2181302 TTTTGTTCTCTCCCCCTCAGAATTTTTAATGAGAAGAGATAATTATTGAGGGTCATGAGTAATAA
188 TTTTGTCCCCTCCCCTTCAGAATTTTTAA-GGGAAGAGACAATTATTAAGGGTCACGAGTGATAA
* * *
2181367 TATCC-GTGATTTTA
252 TA-CCTATGACTCTA
* * ** * * **
2181381 TTTTTTAATTTAATTTAATTTATACATTTTATTAAAAATTATTAACATATTAATTTTTTAA-A-A
1 TTTTTAAATTTAATTTAATTTATAAATTTT-TTAAATTTTATTAAAAAATTAA-TAATTAATATA
* * * *
2181444 TAATTTTTTT--TA-AATTTAGTTAAATTTAATTTTTTTATTTTGTACCATGAGAAATTGTTCAG
64 TAATTTTTTTAATATAATTT-TTTAAATTTAATTTTTTTATTTTGTA-CATGAGAAATTATCCAA
* * *
2181506 CTGTAAAGTACGTAGTTGAGACTTTGATTTTT-----CAAAAAAAAAAA---GTACAATAATTTT
127 TTGTGAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAAAAGGGGTACAATAATTTT
* * * * * *
2181563 GTCCCCTCCCCTTCAGAATTTATGAGGGGAGGGGATAATTATTAAGGGTCACGGGTGATAATACC
192 GTCCCCTCCCCTTCAGAATTT-TTAAGGGAAGAGACAATTATTAAGGGTCACGAGTGATAATACC
*
2181628 TGTGACTCTA
256 TATGACTCTA
2181638 CTTTTTAAATTTAATTTAATTTATAAATTTTTT-AATTTTATTAAAAAATTAATAATTAATATAT
1 -TTTTTAAATTTAATTTAATTTATAAATTTTTTAAATTTTATTAAAAAATTAATAATTAATATAT
* * * * *
2181702 ACTTTTTTTAATATAATTTTTTTAATTTAATTTTTTAATTTTGTACAATGAAAAAATATCCAATT
65 AATTTTTTTAATATAATTTTTTAAATTTAATTTTTTTATTTTGTAC-ATGAGAAATTATCCAATT
* *
2181767 ATGAAGTACGTAGTTGAGACTCTAATTTTTCAAAACAAAAAGAAAAAAGGGGTACAATAATTTTG
129 GTGAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAA-AAAAAAGGGGTACAATAATTTTG
* * * * * * ** *
2181832 TCCCCTCCCCTACAGAATTTCTAAGGGCAGGAGACCATTATTAAGAGTCACGAGCGATCGTACTT
193 TCCCCTCCCCTTCAGAATTTTTAAGGG-AAGAGACAATTATTAAGGGTCACGAGTGATAATACCT
*
2181897 ATTA-TCTTA
257 ATGACTC-TA
* *
2181906 TCTTTTAAATTTTAATTTAATTTACAAATTTTTTAAATTTTATTAAAAAATTAATAATGAATACG
1 T-TTTTAAA-TTTAATTTAATTTATAAATTTTTTAAATTTTATTAAAAAATTAATAATTAATA--
* *
2181971 TCATAATTTTTTTAATTTAA----TTAAATTT-ATTTTTTTATCTTTGTATCGTGAGAAATTATC
62 T-ATAATTTTTTTAATATAATTTTTTAAATTTAATTTTTTTAT-TTTGTA-CATGAGAAATTATC
* * * * * * * *
2182031 TAATTGTGAATTACGTAGTTAAAATTTTAATATTTCAAAATAAAAAGAAAAAAAAGGGTACAATA
124 CAATTGTGAAGTACGTAGTTGAGACTTTAATTTTTCAAAA-CAAAA-AAAAAAAGGGGTACAATA
* * ** * *
2182096 ATTTT-ACCCTCTCCCCTTCAAAATTTTTGAAGAAAAGAGACAATTA-TAAAGGTCACAAGTGAT
187 ATTTTGTCCC-CTCCCCTTCAGAATTTTT-AAGGGAAGAGACAATTATTAAGGGTCACGAGTGAT
* *
2182159 AAGA-CTCATGACTTTAA
250 AATACCT-ATGACTCT-A
* *
2182176 TTTTTTAAATTTAATTTAATTTATAAATTTTTT-AATTTTATTAAAAAATTAATGATTACTATAT
1 -TTTTTAAATTTAATTTAATTTATAAATTTTTTAAATTTTATTAAAAAATTAATAATTAATATAT
* *
2182240 TACTTTTTTAATATAATTATTTTAAATTTAATT
65 AATTTTTTTAATATAATT-TTTTAAATTTAATT
2182273 AAATTTAATT
Statistics
Matches: 727, Mismatches: 117, Indels: 94
0.78 0.12 0.10
Matches are distributed among these distances:
255 5 0.01
256 18 0.02
257 79 0.11
258 31 0.04
259 64 0.09
260 13 0.02
264 93 0.13
265 35 0.05
266 4 0.01
267 8 0.01
268 130 0.18
269 127 0.17
270 95 0.13
271 8 0.01
272 1 0.00
273 16 0.02
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (265 bp):
TTTTTAAATTTAATTTAATTTATAAATTTTTTAAATTTTATTAAAAAATTAATAATTAATATATA
ATTTTTTTAATATAATTTTTTAAATTTAATTTTTTTATTTTGTACATGAGAAATTATCCAATTGT
GAAGTACGTAGTTGAGACTTTAATTTTTCAAAACAAAAAAAAAAAGGGGTACAATAATTTTGTCC
CCTCCCCTTCAGAATTTTTAAGGGAAGAGACAATTATTAAGGGTCACGAGTGATAATACCTATGA
CTCTA
Found at i:2182081 original size:269 final size:264
Alignment explanation
Indices: 2181540--2182257 Score: 750
Period size: 269 Copynumber: 2.7 Consensus size: 264
2181530 TGATTTTTCA
** * * * *
2181540 AAAAAAAAAAGTACAATAATTTTGTCCCCTCCCCTTCAGAATTTATGAGGGGAGGGGATAATTAT
1 AAAAAAAAGGGTACAATAATTTTGTCCCCTCCCCTTCAGAATTTATAAGGGAAGGAGACAATTAT
* * * *
2181605 TAAGGGTCACGGGTGATAATACCTGTGACTCTA-CTTTTTAAATTTAATTTAATTTATAAATTTT
66 TAA-GGTCACGAGTGATAGTACTTATGACT-TATC-TTTTAAATTTAATTTAATTTATAAATTTT
* * *
2181669 TTAATTTTATTAAAAAATTAATAATTAATATATACTTTTTTTAATATAATTTTTTTAATTTAATT
128 TTAATTTTATTAAAAAATTAATAATGAATATATAATTTTTTTAATATAA---TTTAAATTTAATT
* * *
2181734 TTTTAATTTTGTACAATGAAAAAATATCCAATTATGAAGTACGTAGTTGAGACTCTAATTTTTCA
190 TTTTAATTTTGTACAATGAAAAAATATCCAATTATGAAGTACGTAGTTAAAACTCTAATATTTCA
2181799 AAACAAAAAG
255 AAACAAAAAG
* * * * *
2181809 -AAAAAAGGGGTACAATAATTTTGTCCCCTCCCCTACAGAATTTCTAAGGGCAGGAGACCATTAT
1 AAAAAAAAGGGTACAATAATTTTGTCCCCTCCCCTTCAGAATTTATAAGGGAAGGAGACAATTAT
* * * *
2181873 TAAGAGTCACGAGCGATCGTACTTATTATCTTATCTTTTAAATTTTAATTTAATTTACAAATTTT
66 TAAG-GTCACGAGTGATAGTACTTATGA-CTTATCTTTTAAA-TTTAATTTAATTTATAAATTTT
*
2181938 TTAAATTTTATTAAAAAATTAATAATGAATACGTCATAATTTTTTTAATTTAA-TTAAATTT-AT
128 TT-AATTTTATTAAAAAATTAATAATGAATA--T-ATAATTTTTTTAATATAATTTAAATTTAAT
* * * * * * * * *
2182001 TTTTTTATCTTTGTATC-GTGAGAAATTATCTAATTGTGAATTACGTAGTTAAAATTTTAATATT
189 TTTTTAAT-TTTGTA-CAATGAAAAAATATCCAATTATGAAGTACGTAGTTAAAACTCTAATATT
*
2182065 TCAAAATAAAAAG
252 TCAAAACAAAAAG
* * * * *
2182078 AAAAAAAAGGGTACAATAATTTT-ACCCTCTCCCCTTCAAAATTTTTGAA-GAAAAGAGACAATT
1 AAAAAAAAGGGTACAATAATTTTGTCCC-CTCCCCTTCAGAATTTAT-AAGGGAAGGAGACAATT
* * * *
2182141 ATAAAGGTCACAAGTGATAAG-ACTCATGACTTTAATTTTTTAAATTTAATTTAATTTATAAATT
64 ATTAAGGTCACGAGTGAT-AGTACTTATGAC-TT-ATCTTTTAAATTTAATTTAATTTATAAATT
* * * * *
2182205 TTTTAATTTTATTAAAAAATTAATGATTACTATATTACTTTTTTAATATAATT
126 TTTTAATTTTATTAAAAAATTAATAATGAATATATAATTTTTTTAATATAATT
2182258 ATTTTAAATT
Statistics
Matches: 374, Mismatches: 58, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
265 15 0.04
266 2 0.01
267 1 0.00
268 117 0.31
269 131 0.35
270 89 0.24
271 2 0.01
272 1 0.00
273 16 0.04
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (264 bp):
AAAAAAAAGGGTACAATAATTTTGTCCCCTCCCCTTCAGAATTTATAAGGGAAGGAGACAATTAT
TAAGGTCACGAGTGATAGTACTTATGACTTATCTTTTAAATTTAATTTAATTTATAAATTTTTTA
ATTTTATTAAAAAATTAATAATGAATATATAATTTTTTTAATATAATTTAAATTTAATTTTTTAA
TTTTGTACAATGAAAAAATATCCAATTATGAAGTACGTAGTTAAAACTCTAATATTTCAAAACAA
AAAG
Found at i:2182224 original size:21 final size:21
Alignment explanation
Indices: 2182185--2182225 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2182175 ATTTTTTAAA
* *
2182185 TTTAATTTAATTTATAAATTT
1 TTTAATTTAATTAAAAAATTT
*
2182206 TTTAATTTTATTAAAAAATT
1 TTTAATTTAATTAAAAAATT
2182226 AATGATTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATTTAATTAAAAAATTT
Found at i:2182905 original size:18 final size:19
Alignment explanation
Indices: 2182866--2182906 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2182856 TAACTTTATT
2182866 TTTTA-AAATTTAATTTAA
1 TTTTATAAATTTAATTTAA
*
2182884 -TTTATAAATTT-TTTTAA
1 TTTTATAAATTTAATTTAA
2182901 TTTTAT
1 TTTTAT
2182907 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAAATTTAATTTAA
Found at i:2182911 original size:38 final size:36
Alignment explanation
Indices: 2182863--2182983 Score: 109
Period size: 40 Copynumber: 3.1 Consensus size: 36
2182853 CTGTAACTTT
2182863 ATTTTTTAAAATTTAATTTAATTTATAAATTTTTTTA
1 ATTTTTTAAAATTTAATTTAATTTAT-AATTTTTTTA
* *
2182900 ATTTTATTAAAAATTAATAATTAATATATTAATTTTTTAATA
1 ATTTT-TTAAAATTTAAT--TTAATTTA-TAATTTTTT--TA
* * *
2182942 TATTTTTTAAAAATTTTAGTTAAATT-TAATTTTTTTA
1 -ATTTTTT-AAAATTTAATTTAATTTATAATTTTTTTA
2182979 ATTTT
1 ATTTT
2182984 ATACCATCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
36 5 0.07
37 7 0.10
38 11 0.16
39 9 0.13
40 15 0.22
41 6 0.09
42 4 0.06
43 12 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.60
Consensus pattern (36 bp):
ATTTTTTAAAATTTAATTTAATTTATAATTTTTTTA
Found at i:2183533 original size:27 final size:24
Alignment explanation
Indices: 2183485--2183538 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
2183475 TTAAATAAAT
* *
2183485 AATAATATAAATCATACCAATTCA
1 AATAATAAAAATCATACCAATTAA
2183509 AATAATAAAATATCATATCCAAATTAA
1 AATAATAAAA-ATCATA-CC-AATTAA
2183536 AAT
1 AAT
2183539 TAAATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 6 0.24
26 2 0.08
27 8 0.32
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (24 bp):
AATAATAAAAATCATACCAATTAA
Found at i:2183947 original size:44 final size:47
Alignment explanation
Indices: 2183876--2183966 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 47
2183866 ATTTTAATTA
* * * *
2183876 TACTATTATTAGTTGCATATTGCAAGGACAG-AGTGAATAGGGTTCT
1 TACTATTATAAGTTGAATATTGCAAGGACAGAAATGAATAAGGTTCT
*
2183922 TACTATTATAAGTT-AAT-TTGCAAGGATAGAAATGAATAAGGTTCT
1 TACTATTATAAGTTGAATATTGCAAGGACAGAAATGAATAAGGTTCT
2183967 GATAATTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 11 0.28
45 15 0.38
46 13 0.33
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (47 bp):
TACTATTATAAGTTGAATATTGCAAGGACAGAAATGAATAAGGTTCT
Found at i:2186857 original size:32 final size:32
Alignment explanation
Indices: 2186811--2186880 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
2186801 AACTACAATT
* * *
2186811 CAAATTTGAGTTAGACTTAATCATTGTTGAAC
1 CAAATTCGAATTAGACTTAATCATTGTTAAAC
* *
2186843 CAAATTCGAATTAGATTTGATCATTGTTAAAC
1 CAAATTCGAATTAGACTTAATCATTGTTAAAC
2186875 CAAATT
1 CAAATT
2186881 TAAATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (32 bp):
CAAATTCGAATTAGACTTAATCATTGTTAAAC
Found at i:2188162 original size:3 final size:3
Alignment explanation
Indices: 2188154--2188180 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2188144 AAACATTAAA
2188154 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2188181 CTAGAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2190208 original size:44 final size:46
Alignment explanation
Indices: 2190118--2190208 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 46
2190108 AATAATAATT
* *
2190118 ATAAAATAATAAATTTTATAGGTTAATTTATTATTAAAATATTTAAAA
1 ATAAAATAATAAATTTCATAGGATAATTTATTATT--AATATTTAAAA
*
2190166 ATAAACTAATAAATTTCATA-GATAATTTATTATT-ATATTTAAA
1 ATAAAATAATAAATTTCATAGGATAATTTATTATTAATATTTAAA
2190209 CTTATAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 9 0.22
47 13 0.32
48 18 0.45
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (46 bp):
ATAAAATAATAAATTTCATAGGATAATTTATTATTAATATTTAAAA
Found at i:2190501 original size:43 final size:43
Alignment explanation
Indices: 2190443--2190528 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
2190433 TGATTTTATG
2190443 AATTAATAAAATTATTAT-TTTATTAAAATTTTAAATAAAATAA
1 AATTAATAAAATTATTATATTT-TTAAAATTTTAAATAAAATAA
* *
2190486 AATTAA-AAATATTATTATATTTTTATAATTTTTAATAAAATAA
1 AATTAATAAA-ATTATTATATTTTTAAAATTTTAAATAAAATAA
2190529 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.85
44 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (43 bp):
AATTAATAAAATTATTATATTTTTAAAATTTTAAATAAAATAA
Found at i:2190535 original size:43 final size:42
Alignment explanation
Indices: 2190443--2190542 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 42
2190433 TGATTTTATG
2190443 AATTAATAAAATTATTATTTTATTAAAATTTTAAATAAAATAA
1 AATTAA-AAAATTATTATTTTATTAAAATTTTAAATAAAATAA
* *
2190486 AATTAAAAATATTATTATATTT-TTATAATTTTTAATAAAATAA
1 AATTAAAAA-ATTATTAT-TTTATTAAAATTTTAAATAAAATAA
**
2190529 TTTTAAAATAATTA
1 AATTAAAA-AATTA
2190543 AAATTAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.06
43 43 0.86
44 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (42 bp):
AATTAAAAAATTATTATTTTATTAAAATTTTAAATAAAATAA
Found at i:2190644 original size:19 final size:19
Alignment explanation
Indices: 2190598--2190648 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
2190588 CACCTACTTT
2190598 TTTTAAAAAAATTTTATAA
1 TTTTAAAAAAATTTTATAA
**
2190617 ACTTAAAAAAATTTTAT-A
1 TTTTAAAAAAATTTTATAA
2190635 TTTTATAAAAAATT
1 TTTTA-AAAAAATT
2190649 ATTTTTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAAAAATTTTATAA
Found at i:2191225 original size:13 final size:13
Alignment explanation
Indices: 2191207--2191231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2191197 TTCTTCTTTT
2191207 AAATATTTATATA
1 AAATATTTATATA
2191220 AAATATTTATAT
1 AAATATTTATAT
2191232 TTAACATGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATATA
Found at i:2191440 original size:22 final size:25
Alignment explanation
Indices: 2191406--2191451 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
2191396 AATTTTAAAA
2191406 ATAAATATAAATAATA-TTAATTTT
1 ATAAATATAAATAATATTTAATTTT
2191430 ATAAA-AT-AATAATATTTAATTT
1 ATAAATATAAATAATATTTAATTT
2191452 ATCGATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAAATATAAATAATATTTAATTTT
Found at i:2192358 original size:17 final size:17
Alignment explanation
Indices: 2192346--2192379 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
2192336 TAATTATATA
2192346 AATTTTAATATTAAAAT
1 AATTTTAATATTAAAAT
2192363 AATTTTAATATTTAAAA
1 AATTTTAATA-TTAAAA
2192380 ATATATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAATATTAAAAT
Found at i:2192631 original size:40 final size:40
Alignment explanation
Indices: 2192568--2192643 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
2192558 ATAGTTGATT
*
2192568 TGGCATGGAATACTCGTAATTGAACACATGTGGTACGATA
1 TGGCATGGAATACACGTAATTGAACACATGTGGTACGATA
*
2192608 TGGCATGGAATACACGTACTTGAACACATGTGGTAC
1 TGGCATGGAATACACGTAATTGAACACATGTGGTAC
2192644 ATAAATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (40 bp):
TGGCATGGAATACACGTAATTGAACACATGTGGTACGATA
Found at i:2192848 original size:2 final size:2
Alignment explanation
Indices: 2192841--2192877 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2192831 TAAATTGAAA
*
2192841 AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2192878 ACATGATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2193121 original size:18 final size:18
Alignment explanation
Indices: 2193094--2193141 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
2193084 TATCCACTCA
*
2193094 TTTA-AATTATGTTTATG
1 TTTATAATTATATTTATG
2193111 TTTATAATTATATTTATG
1 TTTATAATTATATTTATG
2193129 TTT-TAATTATATT
1 TTTATAATTATATT
2193142 ATATTTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTATAATTATATTTATG
Found at i:2193157 original size:20 final size:22
Alignment explanation
Indices: 2193112--2193158 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2193102 ATGTTTATGT
*
2193112 TTATAATTATATTTATGTTTTAA
1 TTATAATTATATTTA-GTTGTAA
2193135 TTAT-ATTATATTTA-TTGTAA
1 TTATAATTATATTTAGTTGTAA
2193155 TTAT
1 TTAT
2193159 TAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
22 10 0.43
23 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATAATTATATTTAGTTGTAA
Found at i:2193187 original size:27 final size:26
Alignment explanation
Indices: 2193157--2193239 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 26
2193147 TATTGTAATT
*
2193157 ATTAATATAAAAATATTAATATAGATA
1 ATTAA-ATAAAAATATAAATATAGATA
*
2193184 ATTAAAATATAAAATATAAATATTGATA
1 ATT-AAATA-AAAATATAAATATAGATA
* *
2193212 ATTAAATAAAATTA-AAAT-TAGAAA
1 ATTAAATAAAAATATAAATATAGATA
2193236 ATTA
1 ATTA
2193240 TGAATATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
24 8 0.16
25 4 0.08
26 5 0.10
27 11 0.22
28 21 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTAAATAAAAATATAAATATAGATA
Found at i:2193205 original size:28 final size:29
Alignment explanation
Indices: 2193160--2193217 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
2193150 TGTAATTATT
*
2193160 AATATAAAAATATTAATATAGATAATTAA
1 AATATAAAAATATAAATATAGATAATTAA
*
2193189 AATAT-AAAATATAAATATTGATAATTAA
1 AATATAAAAATATAAATATAGATAATTAA
2193217 A
1 A
2193218 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
AATATAAAAATATAAATATAGATAATTAA
Found at i:2193238 original size:24 final size:25
Alignment explanation
Indices: 2193192--2193239 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
2193182 TAATTAAAAT
*
2193192 ATAAAATATAAATATTGATAATTAA
1 ATAAAATATAAATATTGAAAATTAA
2193217 ATAAAAT-TAAA-ATTAGAAAATTA
1 ATAAAATATAAATATT-GAAAATTA
2193240 TGAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.52
25 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
ATAAAATATAAATATTGAAAATTAA
Found at i:2193254 original size:38 final size:39
Alignment explanation
Indices: 2193168--2193256 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 39
2193158 TTAATATAAA
*
2193168 AATATTAATATAGATAATTAAAATATAAAATATAAATATT
1 AATATTAA-ATAGATAATTAAAATAGAAAATATAAATATT
* *
2193208 GATAATTAAATA-A-AATTAAAATTAGAAAATTATGAATA-T
1 AAT-ATTAAATAGATAATTAAAA-TAGAAAA-TATAAATATT
2193247 AATATTAAAT
1 AATATTAAAT
2193257 TATTATCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
38 15 0.36
39 10 0.24
40 12 0.29
41 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (39 bp):
AATATTAAATAGATAATTAAAATAGAAAATATAAATATT
Found at i:2196471 original size:24 final size:25
Alignment explanation
Indices: 2196438--2196486 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2196428 AATTTGATTT
2196438 AAATTATTA-TTTAATAATAAAATA
1 AAATTATTATTTTAATAATAAAATA
* *
2196462 AAATTTTTATTTTAATTATAAAATA
1 AAATTATTATTTTAATAATAAAATA
2196487 TATAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTATTATTTTAATAATAAAATA
Found at i:2196916 original size:50 final size:50
Alignment explanation
Indices: 2196857--2196955 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
2196847 ATCGTTGCCC
2196857 ACAATTTCAATTGATATTAACACTTAATTAAAAATTCAAAATAATTCCCA
1 ACAATTTCAATTGATATTAACACTTAATTAAAAATTCAAAATAATTCCCA
*
2196907 ACAATTTCAATTGATATTAACACTTAATTAAATATTCAAAATAATTCCC
1 ACAATTTCAATTGATATTAACACTTAATTAAAAATTCAAAATAATTCCC
2196956 TGAAAGAGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.35
Consensus pattern (50 bp):
ACAATTTCAATTGATATTAACACTTAATTAAAAATTCAAAATAATTCCCA
Found at i:2197070 original size:35 final size:34
Alignment explanation
Indices: 2197024--2197089 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
2197014 AATTGATTTA
**
2197024 ATTTAAATTAA-TATTTAATAATATAAATATTTTT
1 ATTTAAATTAATTATAAAAT-ATATAAATATTTTT
2197058 ATTTAAATTTAATTATAAAATATATAAATATT
1 ATTTAAA-TTAATTATAAAATATATAAATATT
2197090 AATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 7 0.25
35 15 0.54
36 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
ATTTAAATTAATTATAAAATATATAAATATTTTT
Found at i:2197095 original size:21 final size:21
Alignment explanation
Indices: 2197061--2197100 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2197051 TATTTTTATT
2197061 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
2197082 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
2197101 AATTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:2200004 original size:13 final size:12
Alignment explanation
Indices: 2199978--2200015 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
2199968 AACAGTTTTT
2199978 TTAATATTTATA
1 TTAATATTTATA
2199990 TTAATATTATATA
1 TTAATATT-TATA
*
2200003 TTAATCTTTATA
1 TTAATATTTATA
2200015 T
1 T
2200016 GACATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAATATTTATA
Found at i:2200047 original size:24 final size:24
Alignment explanation
Indices: 2200019--2200072 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
2200009 TTTATATGAC
2200019 ATAAATTACATA-ATATAAATAAAA
1 ATAAATTA-ATATATATAAATAAAA
* * *
2200043 ATAAAATATTATATATAATTAAAA
1 ATAAATTAATATATATAAATAAAA
2200067 ATAAAT
1 ATAAAT
2200073 CGAGTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATTAATATATATAAATAAAA
Found at i:2205892 original size:103 final size:103
Alignment explanation
Indices: 2205596--2205899 Score: 536
Period size: 103 Copynumber: 3.0 Consensus size: 103
2205586 GGCAGAGTCA
** *
2205596 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAACGTGACGAAAATTTAGTTTGTCAAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
**
2205661 AAAGATGAATCTCAATATATATAAACATGTCAACAAAT
66 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
*
2205699 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCGAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
2205764 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
66 AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
*
2205802 CAACTTTATTCTATGAAGTTGGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
1 CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
*
2205867 AAAGATGAATCTCAATATACATAAATTTGTCAA
66 AAAGATGAATCTCAATATATATAAATTTGTCAA
2205900 ATTGTGGGAC
Statistics
Matches: 192, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 192 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (103 bp):
CAACTTTATTCTATGAAGTTAGTCTTTGGCCCAAAAATGACGAAACTTTAGTTTGTCAAAGTCTC
AAAGATGAATCTCAATATATATAAATTTGTCAACAAAT
Found at i:2206525 original size:40 final size:40
Alignment explanation
Indices: 2206474--2206558 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
2206464 ATAATTATAT
* ** *
2206474 TAATATTATACGCATAAAATATTAAAAGTATGATACAACA
1 TAATATGATACGCATAAAATATTAAAAACATAATACAACA
*
2206514 TAATATGATACGCATAAAATATTAAAAACATAATATAACA
1 TAATATGATACGCATAAAATATTAAAAACATAATACAACA
2206554 TAATA
1 TAATA
2206559 CGAATATATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.29
Consensus pattern (40 bp):
TAATATGATACGCATAAAATATTAAAAACATAATACAACA
Found at i:2216390 original size:22 final size:22
Alignment explanation
Indices: 2216364--2216405 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2216354 AATTTTTATT
2216364 TAAAT-TTAATTATAAAAATATA
1 TAAATATT-ATTATAAAAATATA
2216386 TAAATATTATTATAAAAATA
1 TAAATATTATTATAAAAATA
2216406 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATATTATTATAAAAATATA
Found at i:2217696 original size:2 final size:2
Alignment explanation
Indices: 2217689--2217713 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2217679 AATGAAAATC
2217689 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2217714 CTATTAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2217790 original size:18 final size:18
Alignment explanation
Indices: 2217767--2217834 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
2217757 GTATAATGAC
2217767 TTTAAATAATTAAAATTT
1 TTTAAATAATTAAAATTT
* * *
2217785 TTTAAATTTATTTAAATAT
1 TTTAAA-TAATTAAAATTT
*
2217804 TTTATAATCAATTATAATTT
1 TTTA-AAT-AATTAAAATTT
2217824 TATTAAA-AATT
1 T-TTAAATAATT
2217835 TATAAATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 10 0.26
19 14 0.36
20 12 0.31
21 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATAATTAAAATTT
Found at i:2233878 original size:14 final size:14
Alignment explanation
Indices: 2233859--2233889 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2233849 AATACTTCAT
2233859 ATATTTTAAAGATC
1 ATATTTTAAAGATC
*
2233873 ATATTTTAAATATC
1 ATATTTTAAAGATC
2233887 ATA
1 ATA
2233890 ATCATACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (14 bp):
ATATTTTAAAGATC
Found at i:2239981 original size:7 final size:7
Alignment explanation
Indices: 2239969--2240016 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
2239959 TCTTATTAGC
2239969 ATTTTAA
1 ATTTTAA
2239976 ATTTTAA
1 ATTTTAA
*
2239983 AATTTAA
1 ATTTTAA
*
2239990 ATTTTTA
1 ATTTTAA
*
2239997 ATTTAAAA
1 ATTT-TAA
2240005 ATCTTTAA
1 AT-TTTAA
2240013 ATTT
1 ATTT
2240017 CAGAAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 24 0.73
8 7 0.21
9 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTTTAA
Found at i:2240363 original size:31 final size:31
Alignment explanation
Indices: 2240323--2240410 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 31
2240313 TAATAATTTG
*
2240323 TTTATATATAAATTTTAAATTAAATTTTTTAT
1 TTTA-ATATAAATTTAAAATTAAATTTTTTAT
*
2240355 TTTAATATAAA-TTAAATATTAAA-TATTTAT
1 TTTAATATAAATTTAAA-ATTAAATTTTTTAT
** * *
2240385 TTGCATACAAATTAAAAATTAAATTT
1 TTTAATATAAATTTAAAATTAAATTT
2240411 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
30 24 0.52
31 18 0.39
32 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (31 bp):
TTTAATATAAATTTAAAATTAAATTTTTTAT
Found at i:2252507 original size:15 final size:15
Alignment explanation
Indices: 2252470--2252520 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2252460 TCGATTTTTA
**
2252470 TTAAATTTAAAAAAT
1 TTAAATTTAATTAAT
2252485 TT-AA-TTAATTAAT
1 TTAAATTTAATTAAT
2252498 TTAAATTTAATTTAA-
1 TTAAATTTAA-TTAAT
2252513 TTAAATTT
1 TTAAATTT
2252521 TAAATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 14 0.45
16 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATTTAATTAAT
Found at i:2252532 original size:15 final size:15
Alignment explanation
Indices: 2252469--2252590 Score: 70
Period size: 16 Copynumber: 7.9 Consensus size: 15
2252459 GTCGATTTTT
*
2252469 ATTAAATTTAAA-AA
1 ATTAAATTTAAATTA
*
2252483 ATTTAA-TT-AATTA
1 ATTAAATTTAAATTA
*
2252496 ATTTAAATTTAATTTA
1 A-TTAAATTTAAATTA
2252512 ATTAAATTTTAAATTA
1 ATTAAA-TTTAAATTA
* *
2252528 ATAAAAAATTTAAAATGA
1 AT--TAAATTT-AAATTA
* ** *
2252546 TTTAAACATAAAATA
1 ATTAAATTTAAATTA
* *
2252561 ATTTAATTTGAAATAA
1 ATTAAATTT-AAATTA
2252577 ATTAAATTTAAATT
1 ATTAAATTTAAATT
2252591 GACTCGAATA
Statistics
Matches: 78, Mismatches: 21, Indels: 17
0.67 0.18 0.15
Matches are distributed among these distances:
12 2 0.03
13 4 0.05
14 9 0.12
15 20 0.26
16 31 0.40
17 3 0.04
18 9 0.12
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTAAATTTAAATTA
Found at i:2253266 original size:19 final size:21
Alignment explanation
Indices: 2253242--2253289 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2253232 ACTGAATGAC
2253242 TTTTAATA-AT-AAATTTATA
1 TTTTAATATATGAAATTTATA
* *
2253261 TTTTAA-ATATGAATTTTTTA
1 TTTTAATATATGAAATTTATA
2253281 TTTTAATAT
1 TTTTAATAT
2253290 TATTCTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 8 0.33
20 13 0.54
21 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAATATATGAAATTTATA
Found at i:2253908 original size:2 final size:2
Alignment explanation
Indices: 2253901--2253926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2253891 CTTTTCACTC
2253901 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
2253927 TATTGTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2254528 original size:22 final size:21
Alignment explanation
Indices: 2254495--2254538 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
2254485 TATTTAACCA
2254495 TATTTTTTTTTCCTTTT-AAC
1 TATTTTTTTTTCCTTTTCAAC
2254515 TATTTTATTCTTTCCTTTTCAAC
1 TATTTT-TT-TTTCCTTTTCAAC
2254538 T
1 T
2254539 TTTGCACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 9 0.43
23 4 0.19
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTTTTTTCCTTTTCAAC
Found at i:2255044 original size:35 final size:37
Alignment explanation
Indices: 2254973--2255044 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
2254963 TTTAATTTTT
* *
2254973 AATAATTTAATATTTTATTTATTAAATTTTAAAATATA
1 AATAATTTAATATATTATTTA-TAAAATTTAAAATATA
*
2255011 AATAATTTAATATATT-TTTA-AAAATTTATAATAT
1 AATAATTTAATATATTATTTATAAAATTTAAAATAT
2255045 GATAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 12 0.39
37 4 0.13
38 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
AATAATTTAATATATTATTTATAAAATTTAAAATATA
Found at i:2255086 original size:21 final size:19
Alignment explanation
Indices: 2255062--2255107 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
2255052 TATTATTTTT
2255062 TATATGAAAAAAATTATATAA
1 TATAT-AAAAAAATTA-ATAA
* *
2255083 TATATATAAATATTAATAA
1 TATATAAAAAAATTAATAA
2255102 TATATA
1 TATATA
2255108 TTATTATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATATAAAAAAATTAATAA
Done.