Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 11 of 47
Found at i:1459044 original size:21 final size:21
Alignment explanation
Indices: 1459014--1459055 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1459004 TTCTCTTCTA
*
1459014 AAAAATAAAAAAATAAAAAAC
1 AAAAACAAAAAAATAAAAAAC
1459035 AAAAACAAAAAAATAAAAAAC
1 AAAAACAAAAAAATAAAAAAC
1459056 CTGGTTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAAACAAAAAAATAAAAAAC
Found at i:1460052 original size:30 final size:30
Alignment explanation
Indices: 1459991--1460052 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
1459981 GCTACCTTTC
* * * *
1459991 TTCAAAGTCTACGACTTAGTGACATCTCTT
1 TTCAAAGTCCACGACTCAGTGACACCCCTT
* *
1460021 TTCAAAGTCCACGACTCCGTGGCACCCCTT
1 TTCAAAGTCCACGACTCAGTGACACCCCTT
1460051 TT
1 TT
1460053 AGCATTTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (30 bp):
TTCAAAGTCCACGACTCAGTGACACCCCTT
Found at i:1460134 original size:61 final size:61
Alignment explanation
Indices: 1460057--1460583 Score: 596
Period size: 61 Copynumber: 8.6 Consensus size: 61
1460047 CCTTTTAGCA
* * *
1460057 TTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCAC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1460118 TTTTCAGTCTTTAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C
* * *
1460180 TTTT-AGTCCTCAAAGAGCAAGACACTTCTTTT-CTGTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTCAGTCCTCAAAGAGC-AG-GACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C
* * * * **
1460242 TTTT-AGTCTTTAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGGGTTGGTGGCAC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1460302 TTTTCAGTCTTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCAC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * * *
1460363 CTTTCATTCTTCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C
* * * * *
1460425 TTTT-AGTCCTCGAAGAGCAGGACACTTCTTTT-CTATTAAAGTCCACACGAGTTGGTGGCAC
1 TTTTCAGTCCTCAAAGAGCAGG--ACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
1460486 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACAAATTGGTGGCAC
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
1460547 TTTTCAGTCCTCAAAGAGCTGGATGCCTTTTCCTTTT
1 TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
1460584 CTCCTTTGTC
Statistics
Matches: 391, Mismatches: 65, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
60 20 0.05
61 264 0.68
62 92 0.24
63 15 0.04
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (61 bp):
TTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:1460379 original size:184 final size:183
Alignment explanation
Indices: 1460057--1460835 Score: 715
Period size: 184 Copynumber: 4.1 Consensus size: 183
1460047 CCTTTTAGCA
1460057 TTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTT
1 TTTT-AGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTT
* * * * *
1460122 CAGTCTTTAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
65 CAGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
1460187 CCTCAAAGAGCAAGACACTTCTTTTC-TGTTAAAGCCCACACAAGTTGGTGGCACC
130 CCTCAAAGAGCAAG--ACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1460242 TTTTAGTCTTTAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGGGTTGGTGGCACTTTTC
1 TTTTAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTTC
* * *
1460307 AGTCTTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTTCATTC
66 AGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * *
1460372 TTCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACC
131 CTCAAAGAGCAAGACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * * *
1460425 TTTTAGTCCTCGAAGAGCAGGACACTTCTTTT-CTATTAAAGTCCACACGAGTTGGTGGCACCTT
1 TTTTAGTCCTCAAAGAGTAGG--ACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTT
* * * * *
1460489 TCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACAAATTGGTGGCACTTTTCAG
64 TCAGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * ** * * **
1460554 TCCTCAAAGAGCTGGATGCCTTTTCCTTTTCTCCTTTGTCCTTAAAGAGCAGGACACATTTCATT
129 TCCTCAAAGAGC---AAGAC--GT-C-TTT-T-C-TTG---TTAAAGCCCA-CACA-AGTT--GG
**
1460619 TCCTTCATTTCC
177 T-GG-CA---CC
* * * * * * * *
1460631 CTTTTGTCCTCAAAGAGCAGGACAT-TTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTT
1 TTTTAGTCCTCAAAGAGTAGGACGTCTTT-TCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTT
** * * ** * *
1460695 CAGTCCGCAAAGAGTAGGATGCC-TTTCCTTTTTAAAGCCCACACAAACTGGTGGTACCTTTTAG
65 CAGTCTTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
*
1460759 TCCTCAAAGAGCAAGACGT-TTTCTCCTTG-CAAAGCCCACACAAGTTGGTGGCACC
129 TCCTCAAAGAGCAAGACGTCTTT-T-CTTGTTAAAGCCCACACAAGTTGGTGGCACC
* *
1460814 TTTTAGTCCCCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGTAGGA
1460836 TGTGCTTCCT
Statistics
Matches: 489, Mismatches: 77, Indels: 58
0.78 0.12 0.09
Matches are distributed among these distances:
182 9 0.02
183 64 0.13
184 222 0.45
185 12 0.02
186 2 0.00
187 3 0.01
188 1 0.00
189 1 0.00
190 4 0.01
191 6 0.01
192 7 0.01
193 1 0.00
194 2 0.00
196 3 0.01
197 14 0.03
198 4 0.01
199 3 0.01
200 1 0.00
201 1 0.00
202 3 0.01
203 5 0.01
204 8 0.02
205 93 0.19
206 20 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (183 bp):
TTTTAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTTC
AGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAAGACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1460487 original size:245 final size:245
Alignment explanation
Indices: 1460057--1460583 Score: 748
Period size: 245 Copynumber: 2.2 Consensus size: 245
1460047 CCTTTTAGCA
* * * * * *
1460057 TTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTT
1 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTT
* * *
1460122 CAGTCTTTAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
66 CAGTCTTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
* * *
1460187 CCTCAAAGAGCAAGACACTTCTTTTCTGTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTT
131 CCTCAAAGAGCAAGACACTTCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * * * ***
1460252 TAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGGGTTGGTGGCAC
196 CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAATTGGTGGCAC
* *
1460302 TTTTCAGTCTTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTT
1 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTT
* * * * *
1460367 CATTCTTCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACCTTTTAGT
66 CAGTCTTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
* * * *
1460432 CCTCGAAGAGCAGGACACTTCTTTTCTATTAAAGTCCACACGAGTTGGTGGCACCTTTCAGTCCT
131 CCTCAAAGAGCAAGACACTTCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
1460497 CAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACAAATTGGTGGCAC
196 CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAATTGGTGGCAC
* *
1460547 TTTTCAGTCCTCAAAGAGCTGGATGCCTTTTCCTTTT
1 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1460584 CTCCTTTGTC
Statistics
Matches: 246, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
245 246 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (245 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTT
CAGTCTTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
CCTCAAAGAGCAAGACACTTCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAATTGGTGGCAC
Found at i:1460728 original size:61 final size:61
Alignment explanation
Indices: 1460630--1460837 Score: 231
Period size: 61 Copynumber: 3.4 Consensus size: 61
1460620 CCTTCATTTC
* *** *
1460630 CCTTTT-GTCCTCAAAGAGCAGGACATTTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCCCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
1460690 CCTTTCAGTCCGCAAAGAGTAGGATGCCTTTC-CTTTTTAAAGCCCACACAAACTGGTGGTA
1 CCTTTTAGTCCCCAAAGAGCAGGATG-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * **
1460751 CCTTTTAGTCCTCAAAGAGCAAGACGTTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCCCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1460812 CCTTTTAGTCCCCAAAGAGCAGGATG
1 CCTTTTAGTCCCCAAAGAGCAGGATG
1460838 TGCTTCCTTT
Statistics
Matches: 119, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
60 9 0.08
61 106 0.89
62 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
CCTTTTAGTCCCCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1460870 original size:41 final size:41
Alignment explanation
Indices: 1460812--1460910 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
1460802 GTTGGTGGCA
* ** * *
1460812 CCTTTTAGTCCCCAAAGAGCAGGATGTGCTTCCTTTCTTTTT
1 CCTTTT-GTCCTCAAAGAGCAGGATGCACTTCATTTCCTTTT
*
1460854 CCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTT
1 CCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCCTTTT
1460895 CTCTTTTGTCCTCAAA
1 C-CTTTTGTCCTCAAA
1460911 AAGTAGGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 30 0.60
42 20 0.40
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.41
Consensus pattern (41 bp):
CCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCCTTTT
Found at i:1460894 original size:42 final size:42
Alignment explanation
Indices: 1460812--1460958 Score: 124
Period size: 41 Copynumber: 3.5 Consensus size: 42
1460802 GTTGGTGGCA
* ** **
1460812 CCTTTTAGTCCCCAAAGAGCAGGATGTGCTTCCTTT-CTTTTT
1 CCTTTT-GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTT
1460854 CCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCC-TTTT
1 CCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTT
* *
1460895 CTCTTTTGTCCTCAAAAAGTAGGA--CACATTTATTTTCCTTCTTTT
1 C-CTTTTGTCCTCAAAGAGCAGGATGCAC-TTTA-TTTCC-T-TTTT
* *
1460940 CC-TTTATCCTCGAAGAGCA
1 CCTTTTGTCCTCAAAGAGCA
1460959 AAACATACTT
Statistics
Matches: 87, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.03
41 33 0.38
42 32 0.37
43 13 0.15
44 1 0.01
45 5 0.06
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (42 bp):
CCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTT
Found at i:1460903 original size:266 final size:264
Alignment explanation
Indices: 1460373--1460920 Score: 612
Period size: 266 Copynumber: 2.1 Consensus size: 264
1460363 CTTTCATTCT
* * * * * * *
1460373 TCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACCTTTTAGTCCTCGA
1 TCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCGCAA
* * * **
1460438 AGAGCAGGACACTTCTTTTCTATTAAAGTCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGA
66 AGAGCAGGACAC-TCTTTCCTATTAAAGCCCACACAAACTGGTGGCACCTTTCAGTCCTCAAAGA
* ** * * *
1460503 GCAGGACGCCTTTTTCTTTTAAAGCCTACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCTG
130 GCAAGACG-CTTTTTCTTGCAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCCCAAAGAGCAG
*
1460568 GATGCCTTTTCCTTTTCTCCTTTGTCCTTAAAGAGCAGGACACATTTCATTTCCTTCATTTCCCT
194 GATGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT-ATTTCCCT
1460633 TTTGTCC
258 TTTGTCC
1460640 TCAAAGAGCAGGACAT-TTTCTCCTTTTAAAGTCC-ACACAAGTTGGTGGCACCTTTCAGTCCGC
1 TCAAAGAGCAGGACATCTTT-TCCTTTTAAAG-CCTACACAAGTTGGTGGCACCTTTCAGTCCGC
* ** * * *
1460703 AAAGAGTAGGATGC-CTTTCCTTTTTAAAGCCCACACAAACTGGTGGTACCTTTTAGTCCTCAAA
64 AAAGAGCAGGACACTCTTTCC-TATTAAAGCCCACACAAACTGGTGGCACCTTTCAGTCCTCAAA
*
1460767 GAGCAAGACG-TTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCCCAAAGA
128 GAGCAAGACGCTTTT-T-CTTGCAAAGCCCACACAAATTGGTGGCA-CTTTTCAGTCCCCAAAGA
* *
1460830 GCAGGATGTGCTTCCTTTCTTTT-TCCTTTTGTCCTCAAAGAGCAGGATGCAC-TTT-ATTTCC-
190 GCAGGATG-CCTT--TTCCTTTTCTCC-TTTGTCCTCAAAGAGCAGGA--CACATTTCATTTCCT
*
1460891 T-TTTCTCTTTTGTCC
249 TATTTCCCTTTTGTCC
* *
1460906 TCAAAAAGTAGGACA
1 TCAAAGAGCAGGACA
1460921 CATTTATTTT
Statistics
Matches: 238, Mismatches: 31, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
264 4 0.02
265 6 0.03
266 116 0.49
267 68 0.29
268 6 0.03
269 32 0.13
270 3 0.01
271 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (264 bp):
TCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCGCAA
AGAGCAGGACACTCTTTCCTATTAAAGCCCACACAAACTGGTGGCACCTTTCAGTCCTCAAAGAG
CAAGACGCTTTTTCTTGCAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGA
TGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTATTTCCCTTTT
GTCC
Found at i:1460927 original size:41 final size:41
Alignment explanation
Indices: 1460845--1460934 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
1460835 ATGTGCTTCC
* *
1460845 TTTCTTTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTTA-
1 TTTCCTTTTCCTTTTGTCCTCAAAAAGCAGGA-GCACTTTAT
*
1460886 TTTCCTTTTCTCTTTTGTCCTCAAAAAGTAGGA-CACATTTAT
1 TTTCCTTTTC-CTTTTGTCCTCAAAAAGCAGGAGCAC-TTTAT
1460928 TTTCCTT
1 TTTCCTT
1460935 CTTTTCCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
40 3 0.07
41 13 0.30
42 27 0.63
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (41 bp):
TTTCCTTTTCCTTTTGTCCTCAAAAAGCAGGAGCACTTTAT
Found at i:1461178 original size:3 final size:3
Alignment explanation
Indices: 1461172--1461197 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1461162 CAAAAAAATA
1461172 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1461198 ATCGAATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1464115 original size:79 final size:79
Alignment explanation
Indices: 1464019--1464363 Score: 417
Period size: 79 Copynumber: 4.4 Consensus size: 79
1464009 ATTAATGTTT
* * * * *
1464019 TTATTTTCGAGGGGATACTCTAACCCTGGTTTTATTTCCAAAGTACCGATTTTCCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAATACCAATTTTTCACAATCAGGG
**
1464084 ATACTCCAACCTTG
66 ATACTCCAACCCCG
* * * *
1464098 TTATTTTCAAGGGGATACTCCAA-CCTCGGTTTTATTTACAAAATACCAATTTTTCATAATCGGG
1 TTATTTTCGAGGGGATACTCCAACCCT-GGTTTTATTTCCAAAATACCAATTTTTCACAATCAGG
**
1464162 GATACTCCAACCCTA
65 GATACTCCAACCCCG
* * **
1464177 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAA-AAAATGATTTTTCACAATCAG
1 TTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAATACCA--ATTTTTCACAATCAG
*
1464241 GGATACTCTAACCCCG
64 GGATACTCCAACCCCG
* * * *
1464257 TTATTTCCGAGGGGATACTCCAA-CCTCAGTTTTATTTCCAAAACACCAATTTTTCACAATTAGG
1 TTATTTTCGAGGGGATACTCCAACCCT-GGTTTTATTTCCAAAATACCAATTTTTCACAATCAGG
* *
1464321 GATACTCTAACCTCG
65 GATACTCCAACCCCG
1464336 TTATTTTCGAGGGGATACTCCAACCCTG
1 TTATTTTCGAGGGGATACTCCAACCCTG
1464364 TTATTTTTGA
Statistics
Matches: 229, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
78 5 0.02
79 155 0.68
80 67 0.29
81 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAATACCAATTTTTCACAATCAGGG
ATACTCCAACCCCG
Found at i:1464274 original size:159 final size:158
Alignment explanation
Indices: 1464019--1464361 Score: 463
Period size: 159 Copynumber: 2.2 Consensus size: 158
1464009 ATTAATGTTT
* * * ** * *
1464019 TTATTTTCGAGGGGATACTCTAACCCTGGTTTTATTTCCAAAGTACCGATTTTCCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAAAACGATTTTCCACAATCAGGG
** * * *
1464084 ATACTCCAACCTTGTTATTTTCAAGGGGATACTCCAACCTCGGTTTTATTTACAAAATACCAATT
66 ATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTACAAAACACCAATT
* *
1464149 TTTCATAATCGGGGATACTCCAACC-CTA
131 TTTCACAATCAGGGATACTCCAACCTC-A
* *
1464177 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAAAAATGATTTTTCACAATCAGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCC-AAAAAAACGATTTTCCACAATCAGG
* * *
1464242 GATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACACCAAT
65 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTACAAAACACCAAT
* * *
1464307 TTTTCACAATTAGGGATACTCTAACCTCG
130 TTTTCACAATCAGGGATACTCCAACCTCA
1464336 TTATTTTCGAGGGGATACTCCAACCC
1 TTATTTTCGAGGGGATACTCCAACCC
1464362 TGTTATTTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
158 36 0.22
159 124 0.77
160 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (158 bp):
TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAAAACGATTTTCCACAATCAGGG
ATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTACAAAACACCAATT
TTTCACAATCAGGGATACTCCAACCTCA
Found at i:1464360 original size:28 final size:28
Alignment explanation
Indices: 1464319--1464390 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
1464309 TTCACAATTA
*
1464319 GGGATACTCTAA-CCTCGTTATTTTCGAG
1 GGGATACTCCAACCCT-GTTATTTTCGAG
*
1464347 GGGATACTCCAACCCTGTTATTTTTGAG
1 GGGATACTCCAACCCTGTTATTTTCGAG
1464375 GGGATACTCCAACCCT
1 GGGATACTCCAACCCT
1464391 AGTTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 38 0.93
29 3 0.07
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
GGGATACTCCAACCCTGTTATTTTCGAG
Found at i:1464367 original size:107 final size:107
Alignment explanation
Indices: 1464240--1464469 Score: 304
Period size: 107 Copynumber: 2.1 Consensus size: 107
1464230 TTCACAATCA
*
1464240 GGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAA-CCTCAGTTTTATTTCCAAAACACC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCT-AGTTTTATTTCCAAAACACC
* * *
1464304 AATTTTTCACAATTAGGGATACTCTAACCTCGTTATTTTCGAG
65 AATTTTCCACAATTAGGGATACTCCAACCCCGTTATTTTCGAG
* ** * *
1464347 GGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCCTAGTTTTATTTCCAAAACATCG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCA
* *
1464412 ATTTTCCACCATTGGGGATACTCCAACCCCGTTA-TTTCTGAAG
66 ATTTTCCACAATTAGGGATACTCCAACCCCGTTATTTTC-G-AG
*
1464455 GGG-TACTCCGACCCC
1 GGGATACTCCAACCCC
1464470 ATTTTTTTCT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
106 4 0.04
107 95 0.89
108 8 0.07
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCA
ATTTTCCACAATTAGGGATACTCCAACCCCGTTATTTTCGAG
Found at i:1467109 original size:17 final size:18
Alignment explanation
Indices: 1467083--1467117 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1467073 ATGAAATTTT
1467083 CAAAAATAAAAAA-AATA
1 CAAAAATAAAAAATAATA
*
1467100 CAAAATTAAAAAATAATA
1 CAAAAATAAAAAATAATA
1467118 AATACATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
CAAAAATAAAAAATAATA
Found at i:1467300 original size:140 final size:140
Alignment explanation
Indices: 1467138--1467409 Score: 438
Period size: 140 Copynumber: 1.9 Consensus size: 140
1467128 ATTTTATCAC
* *
1467138 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTGTGGTTTTCCGTAAAGGTC
1 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTATGGTTTTCCGTAAAGGTA
* *
1467203 TAAAAATCTTCAAAACTTTTCATATCTTTTCGATTCTTCATTAAGGTACGAAATGA-ATTTTTTA
66 TAAAAATCTTCAAAACTTTTCATACCTTTTCGATTCTCCATTAAGGTACGAAATGAGA-TTTTTA
1467267 AAAATAAAAGT
130 AAAATAAAAGT
* *
1467278 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTATTGTTTTTCGTAAAGGTA
1 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTATGGTTTTCCGTAAAGGTA
* * **
1467343 TAGAAATCTTTAAAACTTTTTGTACCTTTTCGATTCTCCATTAAGGTACGAAATGAGATTTTTAA
66 TAAAAATCTTCAAAACTTTTCATACCTTTTCGATTCTCCATTAAGGTACGAAATGAGATTTTTAA
1467408 AA
131 AA
1467410 TTTACAACTT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
140 120 0.99
141 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (140 bp):
TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTATGGTTTTCCGTAAAGGTA
TAAAAATCTTCAAAACTTTTCATACCTTTTCGATTCTCCATTAAGGTACGAAATGAGATTTTTAA
AAATAAAAGT
Found at i:1467765 original size:155 final size:156
Alignment explanation
Indices: 1467603--1467978 Score: 429
Period size: 155 Copynumber: 2.4 Consensus size: 156
1467593 CTAGGTCTAC
* *
1467603 TTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAGGTCCTTTA
1 TTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTTTA
* * * * * * *
1467668 CAGGTACCGA-GTACTTCTATGTTAAAGGTA-CCATATAGTGGCATTTTCATAATTTTT-TAGAA
66 CAGGTA-CGAGGCACTTCTAAGTCAAAGGTATCC-CATAGGGGCATTTTCATAATTTTTCCAAAA
* * **
1467730 -TCAAGTCTTAGGTTGTCATCAGCTGTGT
129 CT-AAGTCCTAAGTTGTCATCAGCTCCGT
* * *
1467758 TTTTATGCTGAAGATGGGTATTAAGGATAGGTTCATCCCATCTATAATTCTTTTTAATTCCTTTA
1 TTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTTTA
** ** * *
1467823 GGGGTATTAGGCACTTTTAAGTCAAAGGTATCCCATAGGGGTATTTTCATAATTTTTCCAAAACT
66 CAGGTACGAGGCACTTCTAAGTCAAAGGTATCCCATAGGGGCATTTTCATAATTTTTCCAAAACT
* *
1467888 GAGTCCTAAGTTGTCATCGGCTCCGT
131 AAGTCCTAAGTTGTCATCAGCTCCGT
* * **
1467914 TTTTATGC-CAATGGTAGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTCCAAGTCCTTT
1 TTTTATGCTGAA-GGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTTT
1467978 A
65 A
1467979 GGATCTCCAA
Statistics
Matches: 185, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
154 1 0.01
155 103 0.56
156 80 0.43
157 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (156 bp):
TTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTTTA
CAGGTACGAGGCACTTCTAAGTCAAAGGTATCCCATAGGGGCATTTTCATAATTTTTCCAAAACT
AAGTCCTAAGTTGTCATCAGCTCCGT
Found at i:1469327 original size:17 final size:17
Alignment explanation
Indices: 1469292--1469329 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1469282 CCTTATTTAT
1469292 ATTTTAAAAAAAATTAAA
1 ATTTTAAAAAAAA-TAAA
1469310 ATTTTAAAAAATAA-AAA
1 ATTTTAAAAAA-AATAAA
1469327 ATT
1 ATT
1469330 AAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTTAAAAAAAATAAA
Found at i:1470593 original size:30 final size:30
Alignment explanation
Indices: 1470532--1470593 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
1470522 GCTACCTTTC
* * * *
1470532 TTCAAAGTCTACGACTTAGTGACATCTCTT
1 TTCAAAGTCCACGACTCAGTGACACCCCTT
* *
1470562 TTCAAAGTCCACGACTCCGTGGCACCCCTT
1 TTCAAAGTCCACGACTCAGTGACACCCCTT
1470592 TT
1 TT
1470594 AGCATTTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (30 bp):
TTCAAAGTCCACGACTCAGTGACACCCCTT
Found at i:1470675 original size:61 final size:62
Alignment explanation
Indices: 1470598--1470988 Score: 458
Period size: 61 Copynumber: 6.4 Consensus size: 62
1470588 CCTTTTAGCA
* * * * *
1470598 TTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTTGCA-C
1 TTTTCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
1470659 TTTTCAGTCCTTAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACC
1 TTTTCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
1470721 TTTT-AGTCCTCAAAGAGCAAGACACTTCTTTT-CTGTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTCAGTCCTTAAAGAGC-AG-GACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * **
1470783 TTTT-AGTCTTTAAAGAGCAGGACGTCTTTTCCTTTTGAAGCCCACACGGGTTGGTGGCA-C
1 TTTTCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1470843 TTTTCAGT-CTTCAAAGAACAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTCAGTCCTT-AAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
1470905 -TTTCA-TTCTTCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACC
1 TTTTCAGTCCTT-AAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
**
1470966 TTTT-AGTCCTCGAAGAGCAGGAC
1 TTTTCAGTCCTTAAAGAGCAGGAC
1470989 ACTTCTTTGA
Statistics
Matches: 283, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
60 16 0.06
61 202 0.71
62 58 0.20
63 7 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (62 bp):
TTTTCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1470926 original size:184 final size:183
Alignment explanation
Indices: 1470598--1470988 Score: 570
Period size: 184 Copynumber: 2.1 Consensus size: 183
1470588 CCTTTTAGCA
* *
1470598 TTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTTGCACTTTT
1 TTTT-AGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTT
* * * * *
1470663 CAGTCCTTAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTTAGT
65 CAGTCCTTAAAGAACAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTCAGT
*
1470728 CCTCAAAGAGCAAGACACTTCTTTTC-TGTTAAAGCCCACACAAGTTGGTGGCACC
130 CCTCAAAGAGCAAG--ACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1470783 TTTTAGTCTTTAAAGAGCAGGACGTCTTTTCCTTTTGAAGCCCACACGGGTTGGTGGCACTTTTC
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTTC
* *
1470848 AGT-CTTCAAAGAACAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCATT
66 AGTCCTT-AAAGAACAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTCAGT
* * * *
1470912 CTTCAAAGAGCAAGACGTCTTTTCTTTTTAAAGCCTAGACAAGTTGGTGGCACC
130 CCTCAAAGAGCAAGACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
*
1470966 TTTTAGTCCTCGAAGAGCAGGAC
1 TTTTAGTCCTCAAAGAGCAGGAC
1470989 ACTTCTTTGA
Statistics
Matches: 184, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
182 9 0.05
183 49 0.27
184 122 0.66
185 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (183 bp):
TTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTGAAGCCCACACGAGTTGGTGGCACTTTTC
AGTCCTTAAAGAACAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTTCAGTC
CTCAAAGAGCAAGACGTCTTTTCTTGTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1472769 original size:23 final size:23
Alignment explanation
Indices: 1472743--1472787 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1472733 TTATTACTTA
1472743 ATAAAATTTAATTTAAAATTAAT
1 ATAAAATTTAATTTAAAATTAAT
1472766 ATAAAATTTAATTTAAAATTAA
1 ATAAAATTTAATTTAAAATTAA
1472788 CTTTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAAATTTAATTTAAAATTAAT
Found at i:1472787 original size:11 final size:12
Alignment explanation
Indices: 1472744--1472785 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
1472734 TATTACTTAA
1472744 TAAAATTTAATT
1 TAAAATTTAATT
*
1472756 TAAAA-TTAATA
1 TAAAATTTAATT
1472767 TAAAATTTAATT
1 TAAAATTTAATT
1472779 TAAAATT
1 TAAAATT
1472786 AACTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATTTAATT
Found at i:1473543 original size:32 final size:31
Alignment explanation
Indices: 1473457--1473546 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 31
1473447 ATTGTTAAAG
* *
1473457 TATTTTT-GGATATAATTATATAAGTGTAAATT
1 TATTTTTAGG-TATTATTATA-AAGTTTAAATT
*
1473489 TATTTTTA--T-TTA-TAGAAA-TTTAAATT
1 TATTTTTAGGTATTATTATAAAGTTTAAATT
1473515 TATTTTTAGGTATTATTATACAAGTTTAAATT
1 TATTTTTAGGTATTATTATA-AAGTTTAAATT
1473547 ATTAGGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
26 15 0.32
27 2 0.04
28 4 0.09
29 5 0.11
30 4 0.09
31 2 0.04
32 15 0.32
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (31 bp):
TATTTTTAGGTATTATTATAAAGTTTAAATT
Found at i:1473565 original size:72 final size:74
Alignment explanation
Indices: 1473485--1473661 Score: 232
Period size: 74 Copynumber: 2.4 Consensus size: 74
1473475 TATAAGTGTA
* * * *
1473485 AATTTATTTTTATTTATAGAAATTTAAATTTA-TTTTTAGGTATTATTATACAAGTTTAAATTAT
1 AATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACAAGGTAAAATTAT
* *
1473549 T-AGGGTAT
66 TAAAGGTAG
* * * *
1473557 AATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTGGGTATGATTATACGAGGTAAAATTTT
1 AATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACAAGGTAAAATTAT
1473622 TAAAGGTAG
66 TAAAGGTAG
* *
1473631 AATTTACTTTTATTTGTAGAAGTTTAAATTT
1 AATTTATTTTTATTTGTAGAAATTTAAATTT
1473662 TTATTCGATT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 30 0.33
73 27 0.30
74 33 0.37
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (74 bp):
AATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACAAGGTAAAATTAT
TAAAGGTAG
Found at i:1473773 original size:93 final size:96
Alignment explanation
Indices: 1473672--1473859 Score: 260
Period size: 93 Copynumber: 2.0 Consensus size: 96
1473662 TTATTCGATT
* * * *
1473672 ATACGAGTTTAAATTTTTAATA-TATTATTTATCTTTATTTGTAG-ATTTTAAATTTG-T-TGTT
1 ATACGAGTTTAAAATTTTAA-AGTATTATTTATCATTATTTGTAGAAGTTTAAATTTGATCTCTT
*
1473733 GAG-TATAACTATATGAGTTTAAATTTTTAAGG
65 G-GCTATAACTATACGAGTTTAAATTTTTAAGG
1473765 ATACGAGTTTAAAATTTTAAAGTATTATTTATCATTATTTGTAGAAGTTTAAATTTGATCTCTTG
1 ATACGAGTTTAAAATTTTAAAGTATTATTTATCATTATTTGTAGAAGTTTAAATTTGATCTCTTG
* *
1473830 GCTATTATTATACGAGTTTAAATTTTTAAG
66 GCTATAACTATACGAGTTTAAATTTTTAAG
1473860 ATATTATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
92 1 0.01
93 40 0.48
94 11 0.13
95 2 0.02
96 29 0.35
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (96 bp):
ATACGAGTTTAAAATTTTAAAGTATTATTTATCATTATTTGTAGAAGTTTAAATTTGATCTCTTG
GCTATAACTATACGAGTTTAAATTTTTAAGG
Found at i:1474012 original size:73 final size:72
Alignment explanation
Indices: 1473765--1474905 Score: 974
Period size: 73 Copynumber: 16.0 Consensus size: 72
1473755 ATTTTTAAGG
* * ** * *
1473765 ATACGAGTTTAAAATTTTAA-AGTATTATTTATCATTATTTGTAGAAGTTTAAATTTGATCTCTT
1 ATACGAGTTTAAATTTTTAAGA-TATAATTTATTTTTATTTGTAGAAGTTTAAATTT-ATTTTTT
*
1473829 GGCTATTATT
64 GG-TATGATT
* *
1473839 ATACGAGTTTAAATTTTTAAGATATTATTTATTTTTATTTGTA-AATGTTTAAA-TT-TTTTTAG
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAA-GTTTAAATTTATTTTTTG
* *
1473901 GAATAATT
65 GTATGATT
* * * * * * *
1473909 ACACAAGTTTAAATTTTTAAGCTATAATTTATTTCTATTTGTAAAAGTTTAAATTTATTCTTGTA
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATT-TTTTG
*
1473974 GTATAATT
65 GTATGATT
* * * *
1473982 ATACGAGTTTAAATTTTGAAGATATGATTTATTTTTATTTGTAAAAGTTTCAATTTATTTTTTGG
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-G
* *
1474047 GAATGGTT
65 GTATGATT
* * * *
1474055 AT-CGAATTTAAATTTTTTAAGACATAATTTATTTTTATTTGTAGATA-TTTAAATTTGTTCTTT
1 ATACGAGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAGA-AGTTTAAATTTATTTTTT
* *
1474118 GGTTTAATT
64 GGTATGATT
** * * * * * *
1474127 ATGTGAGTTTAAA-TTTTAGGGTATAATTCAATTTTATTTGTAGTAGTTTCAATTTATTTTTTAG
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-G
*
1474191 ATATGATT
65 GTATGATT
1474199 ATATC-AG--------TTTAA-AT-T-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
1 ATA-CGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
* *
1474252 GTTTAATT
65 GTATGATT
** * * * * *
1474260 ATGTGAGTTTAAA-TTTTAGGGTATAATTTAATTTTATTTATAGTAGTTTAAATTTATTTTTTAG
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-G
*
1474324 ATATGATT
65 GTATGATT
*
1474332 ATATC-AGTTTAAATTTTTTAAGATATAATTTATTTTTATTTGTAGAAGCTT--A---A-TTTTT
1 ATA-CGAGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
1474390 --T-T-ATT
64 GGTATGATT
* * *
1474395 ATACGAATTTAAATTTTTGAA-AGTATAATTT-TTTTTATTTATAGAAGTTTAAATTTATATTTT
1 ATACGAGTTTAAATTTTT-AAGA-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
*
1474458 GGTTTGATT
64 GGTATGATT
** * * * * *
1474467 ATATAAGTTTAAATTTTTAGGATATGATTTAATTTTATTTGTAGAAGTTTAAATATATTTTTTTC
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTG
*
1474532 ATATGATT
65 GTATGATT
* * * * *
1474540 ATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAAAAGTTTAAATTTATTTTTTGG
1 ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG
*
1474605 TTTTGATT
66 -TATGATT
* * * * * * *
1474613 ATGCAAGATTAAAATTTTGAATG-TATGATTTATTTTTATTTATAGAAGTTTAAATTTATTTTGT
1 ATACGAG-TTTAAATTTTTAA-GATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
*
1474677 GGTTTGATT
64 GGTATGATT
* * * * * *
1474686 ATATGAGTTTAAATTTTCAA-AGTATAATTTAATTATATTTATAAAAGTTTAAATTTATTTTTTG
1 ATACGAGTTTAAATTTTTAAGA-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
1474750 GGTAT-ACTT
64 GGTATGA-TT
*
1474759 ATATGAGTTTAAATTTTT-AGAGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
1 ATACGAGTTTAAATTTTTAAGA-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
1474823 AGTATGATT
65 -GTATGATT
* * * *
1474832 ATACAAGTTCAAAATTTTAA-ATGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTT
1 ATACGAGTTTAAATTTTTAAGA--TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
*
1474896 -GTTTGATT
64 GGTATGATT
1474904 AT
1 AT
1474906 GCGAATTGGG
Statistics
Matches: 870, Mismatches: 141, Indels: 114
0.77 0.13 0.10
Matches are distributed among these distances:
61 10 0.01
62 57 0.07
63 24 0.03
64 3 0.00
65 5 0.01
67 1 0.00
68 13 0.01
69 2 0.00
70 53 0.06
71 90 0.10
72 155 0.18
73 286 0.33
74 169 0.19
75 2 0.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (72 bp):
ATACGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG
TATGATT
Found at i:1474252 original size:133 final size:133
Alignment explanation
Indices: 1474081--1474351 Score: 472
Period size: 133 Copynumber: 2.0 Consensus size: 133
1474071 TTAAGACATA
*
1474081 ATTTATTTTTATTTGTAGATATTTAAATTTGTTCTTTGGTTTAATTATGTGAGTTTAAATTTTAG
1 ATTTATTTTTATTTGTAGATATTTAAATTTATTCTTTGGTTTAATTATGTGAGTTTAAATTTTAG
* *
1474146 GGTATAATTCAATTTTATTTGTAGTAGTTTCAATTTATTTTTTAGATATGATTATATCAGTTTAA
66 GGTATAATTCAATTTTATTTATAGTAGTTTAAATTTATTTTTTAGATATGATTATATCAGTTTAA
1474211 ATT
131 ATT
*
1474214 ATTTATTTTTATTTGTAGA-AGTTTAAATTTATTTTTTGGTTTAATTATGTGAGTTTAAATTTTA
1 ATTTATTTTTATTTGTAGATA-TTTAAATTTATTCTTTGGTTTAATTATGTGAGTTTAAATTTTA
*
1474278 GGGTATAATTTAATTTTATTTATAGTAGTTTAAATTTATTTTTTAGATATGATTATATCAGTTTA
65 GGGTATAATTCAATTTTATTTATAGTAGTTTAAATTTATTTTTTAGATATGATTATATCAGTTTA
1474343 AATT
130 AATT
*
1474347 TTTTA
1 ATTTA
1474352 AGATATAATT
Statistics
Matches: 131, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
132 1 0.01
133 130 0.99
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (133 bp):
ATTTATTTTTATTTGTAGATATTTAAATTTATTCTTTGGTTTAATTATGTGAGTTTAAATTTTAG
GGTATAATTCAATTTTATTTATAGTAGTTTAAATTTATTTTTTAGATATGATTATATCAGTTTAA
ATT
Found at i:1474269 original size:61 final size:62
Alignment explanation
Indices: 1474158--1474351 Score: 183
Period size: 71 Copynumber: 3.0 Consensus size: 62
1474148 TATAATTCAA
* * *
1474158 TTTTATTTGTAGTAGTTTCAATTTATTTTTTAGATATGATTATATCAGTTTAAATTATTTAT
1 TTTTATTTGTAGAAGTTTAAATTTATTTTTTAGATATAATTATATCAGTTTAAATTATTTAT
* * * *
1474220 TTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTTTAATTATGTGAGTTTAAATTTTAGGGTAT
1 TTTTATTTGTAGAAGTTTAAATTTATTTTTTAGATATAATTATATCAGTTT-AA----A---T-T
*
1474284 AATTTAA
57 -ATTTAT
* * * *
1474291 TTTTATTTATAGTAGTTTAAATTTATTTTTTAGATATGATTATATCAGTTTAAATTTTTTA
1 TTTTATTTGTAGAAGTTTAAATTTATTTTTTAGATATAATTATATCAGTTTAAATTATTTA
1474352 AGATATAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
61 14 0.13
62 35 0.33
63 1 0.01
64 1 0.01
66 1 0.01
67 1 0.01
69 1 0.01
70 1 0.01
71 36 0.34
72 14 0.13
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (62 bp):
TTTTATTTGTAGAAGTTTAAATTTATTTTTTAGATATAATTATATCAGTTTAAATTATTTAT
Found at i:1474341 original size:33 final size:33
Alignment explanation
Indices: 1474171--1474347 Score: 100
Period size: 33 Copynumber: 5.3 Consensus size: 33
1474161 TATTTGTAGT
*
1474171 AGTTTCAATTTATTTTTTAGATATGATTATATC
1 AGTTTAAATTTATTTTTTAGATATGATTATATC
* * **
1474204 AGTTTAAA-TTATTTATTT--TTAT--TTGTAGA
1 AGTTTAAATTTATTT-TTTAGATATGATTATATC
* * * * *
1474233 AGTTTAAATTTATTTTTT-GGTTTAATTATGTG
1 AGTTTAAATTTATTTTTTAGATATGATTATATC
* * *
1474265 AGTTTAAATTTTAGGGTATAATTTA-ATTTTATTTATAGT-
1 AGTTTAAA-TTTA---T-T-TTTTAGATATGA-TTATA-TC
1474304 AGTTTAAATTTATTTTTTAGATATGATTATATC
1 AGTTTAAATTTATTTTTTAGATATGATTATATC
1474337 AGTTTAAATTT
1 AGTTTAAATTT
1474348 TTTAAGATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
29 15 0.14
30 8 0.07
31 3 0.03
32 18 0.16
33 34 0.31
34 5 0.05
35 1 0.01
36 1 0.01
37 1 0.01
38 11 0.10
39 12 0.11
40 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (33 bp):
AGTTTAAATTTATTTTTTAGATATGATTATATC
Found at i:1476408 original size:20 final size:20
Alignment explanation
Indices: 1476382--1476436 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1476372 AAAAAGACAG
*
1476382 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
1476402 CATGTATCAATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1476422 AATGTATTGATACAT
1 AATGTATCGATACAT
1476437 CTAGGTACTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1477229 original size:32 final size:30
Alignment explanation
Indices: 1477191--1477971 Score: 583
Period size: 32 Copynumber: 25.6 Consensus size: 30
1477181 GGTTTAGAAG
*
1477191 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTT-GA-AA
* *
1477223 AGTTGCCACCGACTTGTGTGGGCTTTAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * **
1477253 GGATGCCACTGAC-T-TGTGGATTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
*** * **
1477281 AAATGCCTCTAAC-T-TGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * * *
1477309 AGATGCCACCAAC-T-TGTGGACTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477337 GGATGCCACTGAC-T-TGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477365 GGGTGCCACTGAC-T-TGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477393 GGGTGCCACTGAC-T-TGTGGGCTTTGAAATA
1 GGTTGCCACCGACTTGTGTGGGCTTTG-AA-A
1477423 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477453 TGGGTTGCCACCAACTTGTATGGGCTTTGAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477485 TGGGTTGCCACCAACTTGTGTGGGCTTTCAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477517 TGAGTTACCACCGACTTATGTGGGCTTTGAAA
1 -G-GTTGCCACCGACTTGTGTGGGCTTTGAAA
*** * *
1477549 TAATGCCA-CTAGC--ATGTGGGCTTTGAAA
1 GGTTGCCACCGA-CTTGTGTGGGCTTTGAAA
* **
1477577 TGGGATGCCATTGACTTGTGTGGGCTTTGAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477609 TGGGTTGCCACCAACTTGTGTGGGCTTTAAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1477641 TGGGGTTGACACCAACTTGTGTGGGCTTTCAAA
1 ---GGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
1477674 TGAGTTGCCACCGACTTGTGCGGGCTTTGAAA
1 -G-GTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1477706 TGATGCCACTGAC-T-TGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477734 TGGTTTGCCACCAACTTGTGTGGGCTTTCAAA
1 -GG-TTGCCACCGACTTGTGTGGGCTTTGAAA
1477766 TGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 -G-GTTGCCACCGACTTGTGTGGGCTTTGAAA
* * **
1477798 TGATGCCACTAAC-T-TGTGGGCTTTGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
1477826 TGGGTTGCCACCGACTTGTGTGGACTTTGAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1477858 TGGGTTGCCACCAACTTGTGCGGGATTTGAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477890 TGGGTTGCCACCAACTTGTGTGGGCTTTCAAA
1 --GGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477922 TGAATTGCCATCGACTTGTGTGGGCTTTGAAA
1 -G-GTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1477954 GGATGCCACTGACTTGTG
1 GGTTGCCACCGACTTGTG
1477972 GGCTTTAAAA
Statistics
Matches: 630, Mismatches: 94, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
28 175 0.28
29 8 0.01
30 86 0.14
31 11 0.02
32 320 0.51
33 30 0.05
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (30 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGAAA
Found at i:1477286 original size:28 final size:28
Alignment explanation
Indices: 1477207--1479099 Score: 579
Period size: 28 Copynumber: 65.8 Consensus size: 28
1477197 CACCAACTTG
* * *
1477207 TGTGGGCTTTAGAGAAAGTTGCCACCGACTT
1 TGTGGGCTTT-GA-AAGGATGCCACTGAC-T
*
1477238 GTGTGGGCTTTAAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
** ** * *
1477267 TGTGGATTTTGAAAAAATGCCTCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* **
1477295 TGTGGGCTTTGAAAAGATGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1477323 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1477351 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1477379 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1477407 TGTGGGCTTTGAAATAGGTTGCCACCGACTT
1 TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* **
1477438 GTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAA--GGATGCCACTGACT
* **
1477469 TGTATGGGCTTTGAAATGGGTTGCCACCAACTT
1 TG--TGGGCTTTGAAA--GGATGCCACTGAC-T
* * * *
1477502 GTGTGGGCTTTCAAATGAGTTACCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
** *
1477534 ATGTGGGCTTTGAAATAATGCCACT-AGCA
1 -TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
1477563 TGTGGGCTTTGAAATGGGATGCCATTGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* **
1477594 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * * **
1477626 GTGTGGGCTTTAAAATGGGGTTGACACCAACTT
1 -TGTGGGCTTTGAAA---GGATGCCACTGAC-T
* * *
1477659 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACT
*
1477690 TGTGCGGGCTTTGAAATGATGCCACTGACT
1 TGT--GGGCTTTGAAAGGATGCCACTGACT
* **
1477720 TGTGGGCTTTGAAATGGTTTGCCACCAACTT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGAC-T
* * *
1477751 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* *
1477783 GTGTGGGCTTTGAAATGATGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1477812 TGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* **
1477842 TGTGTGGACTTTGAAATGGGTTGCCACCAACT
1 TGTG-GG-CTTTGAAA--GGATGCCACTGACT
* * **
1477874 TGTGCGGGATTTGAAATGGGTTGCCACCAACTT
1 TGT--GGGCTTTGAAA--GGATGCCACTGAC-T
* *
1477907 GTGTGGGCTTTCAAATGAATTGCCA-TCGACTT
1 -TGTGGGCTTTGAAA-GGA-TGCCACT-GAC-T
1477939 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1477968 TGTGGGCTTTAAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1477996 TGTGGGCTTTAAAAGGGTGCTGCCACGGAGT
1 TGTGGGCTTTGAAA--G-GATGCCACTGACT
* * * * *
1478027 TGTGGAC-TTAAAAGGATGCAACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * ** *
1478054 TGCGGAC-TTAAAAGGATGCCACAAAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478081 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478108 GGTAGACTTT-AAAAGAGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* ** * *
1478136 TGTGGACTTAAAAAGG-TCCCACGGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478163 TGTGGACTTTAAAAGGGT-CGACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478190 TGTGGAC-TTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * ** *
1478217 TGTGGACTTTAAAAGCTTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * * *
1478245 AGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** * * *
1478273 TGTGGACTTAAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1478301 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478329 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478357 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478385 TGTAGAC-TTAAAAGGTTGCCAC-GATGT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* * * *
1478412 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478440 TATGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478468 TGTGGAC-TTAAAAAGATACCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1478495 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478523 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478551 TGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1478578 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478606 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * ** *
1478634 TGTGGACTTTAAAAGCTTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * *
1478662 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** * * *
1478690 TGTGGACTTAAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * *
1478718 TGTGGATTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1478746 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478774 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478802 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * **
1478830 TGTAGAC-TTAAAAGGTTGCCACGGTGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1478857 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478885 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478913 TGTGGAC-TTAAAAAGATACCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478940 TGTGGACATTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1478968 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1478996 TGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1479023 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1479051 TGTGGAC-TTAAAAGGTTGCCACAGAGC-
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* *
1479078 TGTGGAC-TTAAAAGGATGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
1479100 AGAGTTTTGG
Statistics
Matches: 1605, Mismatches: 197, Indels: 123
0.83 0.10 0.06
Matches are distributed among these distances:
26 10 0.01
27 297 0.19
28 833 0.52
29 13 0.01
30 103 0.06
31 31 0.02
32 278 0.17
33 34 0.02
34 6 0.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1477301 original size:56 final size:57
Alignment explanation
Indices: 1477239--1479181 Score: 741
Period size: 56 Copynumber: 33.9 Consensus size: 57
1477229 CACCGACTTG
* * ** * *
1477239 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGATTTTGAAAAAATGCCTCTAACT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
*
1477295 TGTGGGCTTTGAAAA-GATGCCACCAACTTGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1477351 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * **
1477407 TGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 TGTGGGCTTTGAAA-AGGATGCCACCGAC-T-TGTGGACTTTGAAA--GGATGCCACTGACT
* * * * * * * *
1477469 TGTATGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTT
1 TG--TGGGCTTTGAAA-AGGATGCCACCGAC-T-TGTGGACTTTGAAA-G-GATGCCACTGAC-T
* * * *
1477534 ATGTGGGCTTTGAAATA--ATGCCA-CTAGCATGTGGGCTTTGAAATGGGATGCCATTGACTT
1 -TGTGGGCTTTGAAA-AGGATGCCACCGA-CTTGTGGACTTTGAAA--GGATGCCACTGAC-T
* * * * * * * **
1477594 GTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGGTTGACACCAACTT
1 -TGTGGGCTTTGAAA-AGGATGCCACCGAC-T-TGTGGACTTTGAAA---GGATGCCACTGAC-T
* * * * *
1477659 GTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGCGGGCTTTGAAATGATGCCACTGACT
1 -TGTGGGCTTTGAAAAG-GATGCCACCGACTTGT--GGACTTTGAAAGGATGCCACTGACT
* * * * * * *
1477720 TGTGGGCTTTGAAATGGTTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGG-ATGCCACCGAC-T-TGTGGACTTTGAAA-G-GATGCCACTGAC-T
* ** * * *
1477783 GTGTGGGCTTTG-AAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 -TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAA--GGATGCCACTGACT
* * * * **
1477842 TGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGCGGGA-TTTGAAATGGGTTGCCACCAACT
1 TGTG-GG-CTTTGAAA-AGGATGCCACCGACTTGT---GGACTTTGAAA--GGATGCCACTGAC-
1477906 T
57 T
* * * * *
1477907 GTGTGGGCTTTCAAATGAATTGCCATCGACTTGTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGGA-TGCCACCGAC-T-TGTGGACTTTGAAAGGATGCCACTGACT
* ** * * * * *
1477968 TGTGGGCTTT-AAAATGATGCCACTAACTTGTGGGCTTTAAAAGGGTGCTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAA--G-GATGCCACTGACT
* * * * * * ** *
1478027 TGTGGAC-TT-AAAAGGATGCAACGGAGTTGCGGAC-TTAAAAGGATGCCACAAAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478081 TGTGGAC-TT-AAAAGGGTGCCACAGAGTGGTAGACTTT-AAAAGAGTGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGA-TGCCACTGACT
* * * * * * * * *
1478136 TGTGGAC-TTAAAAAGG-TCCCACGGACTTGTGGACTTTAAAAGGGT-CGACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * ** *
1478190 TGTGGAC-TT-AAAAAGATGCCACGGAGTTGTGGACTTTAAAAGCTTGCCA-TGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACT-GACT
* * * * ** * * *
1478245 AGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * *
1478301 TGTGGACTTT-AAAAGGATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478357 TATAGACTTT-AAAAGGATGCCACGGAGTTGTAGAC-TTAAAAGGTTGCCAC-GATGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGA-CT
* * * * * * * *
1478412 TGTGGACTTT-AAAAGGATGCCACAGAGTTATGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * *
1478468 TGTGGAC-TT-AAAAAGATACCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478523 TGTGGACTTT-AAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * *
1478578 TGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* ** ** * * * *
1478634 TGTGGACTTT-AAAAGCTTGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478690 TGTGGAC-TTAAAAAGGTTGCCACGGAGTTGTGGATTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * *
1478746 TGTGGACTTT-AAAAGGATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * * **
1478802 TATAGACTTT-AAAAGGATGCCACGGAGTTGTAGAC-TTAAAAGGTTGCCACGGTGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * *
1478857 TGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478913 TGTGGAC-TT-AAAAAGATACCACAGAGTTGTGGACATTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * * *
1478968 TGTGGACTTT-AAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
1479023 TGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGAC-TTAAAAGGTTGCCACAGAGC-
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGA-CT
* * * * * *
1479078 TGTGGAC-TT-AAAAGGATGCCACAGAGTTTTGGAC-TT-AAAGGGTTGCCA-TGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAA-GGATGCCACT-GACT
* * ** * *
1479132 TATGGAC-TT-AAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGATGCCAC
1 TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCAC
1479182 AAAGTTGTGG
Statistics
Matches: 1600, Mismatches: 214, Indels: 146
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.00
54 154 0.10
55 381 0.24
56 547 0.34
57 17 0.01
58 44 0.03
59 25 0.02
60 127 0.08
61 10 0.01
62 79 0.05
63 13 0.01
64 133 0.08
65 53 0.03
66 9 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGATGCCACTGACT
Found at i:1477568 original size:124 final size:125
Alignment explanation
Indices: 1477295--1477999 Score: 649
Period size: 124 Copynumber: 5.8 Consensus size: 125
1477285 GCCTCTAACT
* * * * * *
1477295 TGTGGGCTTTGAAAAG-ATGCCACCAACTTGTGGACTTTGAAA--GGATGCCACTGAC-T-TGTG
1 TGTGGGCTTTCAAATGAATGCCACTAGCTTGTGGGCTTTGAAATGGGATGCCACCGACTTGTGTG
** * * * **
1477355 GGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-
66 GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTG
* ** * * *
1477407 TGTGGGCTTTGAAATAGGTTGCCAC-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTCAAAT-GAATGCCACTAG-C-T-TGTGGGCTTTGAAATGGGATGCCACCGACTTG
* * *
1477471 TATGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTA
62 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTG
* * **
1477535 TGTGGGCTTTGAAAT-AATGCCACTAGCATGTGGGCTTTGAAATGGGATGCCATTGACTTGTGTG
1 TGTGGGCTTTCAAATGAATGCCACTAGCTTGTGGGCTTTGAAATGGGATGCCACCGACTTGTGTG
* *
1477599 GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGGTTGA-CACCAACTTG
66 GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAAT-GAGTT-ACCACCAACTTG
* * *
1477660 TGTGGGCTTTCAAATGAGTTGCCAC-CGACTTGTGCGGGCTTTGAAAT--GATGCCACTGAC-T-
1 TGTGGGCTTTCAAATGA-ATGCCACTAG-CTTGT--GGGCTTTGAAATGGGATGCCACCGACTTG
* * *
1477720 TGTGGGCTTTGAAATGGTTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTG
62 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTG
* * *
1477784 TGTGGGCTTTGAAATG-ATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTG
1 TGTGGGCTTTCAAATGAATGCCACTAGCTTGTGGGCTTTGAAATGGGATGCCACCGACTTGTGTG
* * * * * *
1477848 GACTTTGAAATGGGTTGCCACCAACTTGTGCGGGATTTGAAATGGGTTGCCACCAACTTG
66 GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTG
* *
1477908 TGTGGGCTTTCAAATGAATTGCCA-TCGACTTGTGTGGGCTTTGAAA--GGATGCCACTGAC-T-
1 TGTGGGCTTTCAAATGAA-TGCCACTAG-C-T-TGTGGGCTTTGAAATGGGATGCCACCGACTTG
* * *
1477968 TGTGGGCTTTAAAAT--GATGCCACTAACTTGTG
62 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1478000 GGCTTTAAAA
Statistics
Matches: 497, Mismatches: 60, Indels: 62
0.80 0.10 0.10
Matches are distributed among these distances:
112 14 0.03
113 1 0.00
114 7 0.01
115 1 0.00
116 13 0.03
118 10 0.02
119 1 0.00
120 25 0.05
121 3 0.01
122 44 0.09
123 2 0.00
124 199 0.40
125 75 0.15
126 37 0.07
127 24 0.05
128 29 0.06
129 12 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (125 bp):
TGTGGGCTTTCAAATGAATGCCACTAGCTTGTGGGCTTTGAAATGGGATGCCACCGACTTGTGTG
GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTG
Found at i:1477772 original size:92 final size:92
Alignment explanation
Indices: 1477193--1478005 Score: 706
Period size: 92 Copynumber: 8.9 Consensus size: 92
1477183 TTTAGAAGGG
* *
1477193 TTGCCACCAACTTGTGTGGGCTTTAGAGAA--AGTTGCCACCGACTTGTGTGGGCTTTAAAAGGA
1 TTGCCACCAACTTGTGTGGGCTTT-GA-AATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGA
** *
1477256 TGCCACTGACTTGTGGATTTTGAAA--AA
64 TGCCACTGACTTGTGGGCTTTGAAATGGA
* * * * * * *
1477283 ATGCCTCTAAC-T-TGTGGGCTTTGAAA--AGATGCCACCAAC-T-TGTGGACTTTGAAAGGATG
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
1477342 CCACTGACTTGTGGGCTTTGAAA-GG-
66 CCACTGACTTGTGGGCTTTGAAATGGA
* ** * * *
1477367 GTGCCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-TGTGGGCTTTGAAATAGGT
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GA
* *
1477426 TGCCACCGACTTGTGTGGGCTTTGAAATGGG
64 TGCCACTGAC-T-TGTGGGCTTTGAAATGGA
* * * *
1477457 TTGCCACCAACTTGTATGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGA--
* *
1477522 TACCACCGACTTATGTGGGCTTTGAAAT--A
64 TGCCACTGAC-T-TGTGGGCTTTGAAATGGA
* * * * * * ** *
1477551 ATGCCACTAGC--ATGTGGGCTTTGAAATGGGATGCCATTGACTTGTGTGGGCTTTGAAATGGGT
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GA
** * *
1477614 TGCCACCAACTTGTGTGGGCTTTAAAATGGGG
64 TGCCACTGAC-T-TGTGGGCTTTGAAAT-GGA
* * *
1477646 TTGACACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGCGGGCTTTGAAATGATG
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
*
1477711 CCACTGACTTGTGGGCTTTGAAATGGT
66 CCACTGACTTGTGGGCTTTGAAATGGA
*
1477738 TTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
* *
1477803 CCACTAACTTGTGGGCTTTGAAATGGG
66 CCACTGACTTGTGGGCTTTGAAATGGA
* * * * * * *
1477830 TTGCCACCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGCGGGATTTGAAATGGGT
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GA
** * *
1477895 TGCCACCAACTTGTGTGGGCTTTCAAATGAA
64 TGCCACTGAC-T-TGTGGGCTTTGAAATGGA
* * * * *
1477926 TTGCCATCGACTTGTGTGGGCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTTAAAATGATG
1 TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
*
1477987 CCACTAACTTGTGGGCTTT
66 CCACTGACTTGTGGGCTTT
1478006 AAAAGGGTGC
Statistics
Matches: 606, Mismatches: 90, Indels: 56
0.81 0.12 0.07
Matches are distributed among these distances:
84 84 0.14
85 1 0.00
86 23 0.04
87 3 0.00
88 34 0.06
89 4 0.01
90 26 0.04
91 1 0.00
92 234 0.39
93 16 0.03
94 39 0.06
95 19 0.03
96 81 0.13
97 41 0.07
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (92 bp):
TTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATG
CCACTGACTTGTGGGCTTTGAAATGGA
Found at i:1477930 original size:156 final size:152
Alignment explanation
Indices: 1477223--1477984 Score: 801
Period size: 156 Copynumber: 5.0 Consensus size: 152
1477213 CTTTAGAGAA
* * * ** ***
1477223 AGTTGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGATTTTGAAA--AAATG
1 AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTG
* * * * *
1477286 CCTCTAAC-T-TGTGGGCTTTGAAA--AGATGCCACCAAC-T-TGTGGACTTTGAAAGGATGCCA
66 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGATGCCA
* *
1477345 CTGACTTGTGGGCTTTGAAA-G
131 CTAACTTGTGGGCTTTCAAATG
* * * * * *
1477366 -GGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATAGGTTG
1 AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTG
* * * *
1477428 CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTATGGGCTTTGAAATGGGTTGC
66 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAT--GATGC
*
1477493 CACCAACTTGTGTGGGCTTTCAAATG
129 CACTAAC-T-TGTGGGCTTTCAAATG
* * * * * *
1477519 AGTTACCACCGACTTATGTGGGCTTTGAAATAATGCCACTAGCATGTGGGCTTTGAAATGGGATG
1 AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTG
*** * * *
1477584 CCATTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGGTTG
66 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAT---GATG
* *
1477649 ACACCAACTTGTGTGGGCTTTCAAATG
128 CCACTAAC-T-TGTGGGCTTTCAAATG
* * *
1477676 AGTTGCCACCGACTTGTGCGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAATGGTTTG
1 AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTG
* *
1477741 CCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCA
66 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGATGCCA
*
1477806 CTAACTTGTGGGCTTTGAAATG
131 CTAACTTGTGGGCTTTCAAATG
* * * * *
1477828 GGTTGCCACCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGCGGGATTTGAAATGG
1 AGTTGCCACCGACTTGTGTGGGCTTTGAAAT--GATGCCACTAACTTGT--GGGCTTTGAAATGG
* * * * *
1477893 GTTGCCACCAACTTGTGTGGGCTTTCAAATGAATTGCCATCGACTTGTGTGGGCTTTGAAAGGAT
62 GTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAT
* *
1477958 GCCACTGACTTGTGGGCTTTAAAATG
127 GCCACTAACTTGTGGGCTTTCAAATG
1477984 A
1 A
1477985 TGCCACTAAC
Statistics
Matches: 527, Mismatches: 71, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
140 38 0.07
141 1 0.00
142 17 0.03
143 1 0.00
144 14 0.03
146 11 0.02
147 1 0.00
148 12 0.02
150 9 0.02
151 1 0.00
152 56 0.11
153 2 0.00
154 31 0.06
155 1 0.00
156 193 0.37
157 139 0.26
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (152 bp):
AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGGTTG
CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGATGCCA
CTAACTTGTGGGCTTTCAAATG
Found at i:1478440 original size:83 final size:83
Alignment explanation
Indices: 1477940--1479237 Score: 1569
Period size: 83 Copynumber: 15.6 Consensus size: 83
1477930 CATCGACTTG
* * * * * * ** * *
1477940 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* *
1478005 TAAAAGGGTGCTGCCACGGAGT
65 TAAAA--G-GATGCCACAGAGT
* * **
1478027 TGTGGAC-TTAAAAGGATGCAACGGAGTTGCGGACTTAAAAGGATGCCACAAAGTTGTGGAC-TT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
*
1478090 AAAAGGGTGCCACAGAGT
66 AAAAGGATGCCACAGAGT
* * * * *
1478108 GGTAGACTTTAAAA-GAGTGCCACAGAGTTGTGGACTTAAAAAGG-TCCCACGGACTTGTGGACT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACT
* * *
1478171 TTAAAAGGGT-CGACGGAGT
64 TTAAAAGGATGCCACAGAGT
* ** * *
1478190 TGTGGAC-TTAAAAAGATGCCACGGAGTTGTGGACTTTAAAAGCTTGCCATGGAGTAGTGGACTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
1478254 TAAAAGGATGCCACAGAGT
65 TAAAAGGATGCCACAGAGT
* * * *
1478273 TGTGGACTTAAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTATAGACTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
*
1478338 TAAAAGGATGCCACGGAGT
65 TAAAAGGATGCCACAGAGT
* * * *
1478357 TATAGACTTTAAAAGGATGCCACGGAGTTGTAGACTTAAAAGGTTGCCAC-GATGTTGTGGACTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGA-GTTGTGGACTT
1478421 TAAAAGGATGCCACAGAGT
65 TAAAAGGATGCCACAGAGT
* * * * *
1478440 TATGGACTTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGATACCACAGAGTTGTGGACTTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
1478505 AAAAGGATGCCACAGAGT
66 AAAAGGATGCCACAGAGT
* * *
1478523 TGTGGACTTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGATACCACGGAGTTGTGGACTTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
1478588 AAAAGGATGCCACAGAGT
66 AAAAGGATGCCACAGAGT
* ** *
1478606 TGTGGACTTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGCTTGCCATGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
*
1478671 TAAAAGGATGCCACGGAGT
65 TAAAAGGATGCCACAGAGT
* * *
1478690 TGTGGACTTAAAAAGGTTGCCACGGAGTTGTGGATTTTAAAAGGATGCCACGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA-CTTAAAAGGATGCCACGGAGTTGTGGACTT
*
1478755 TAAAAGGATGCCACGGAGT
65 TAAAAGGATGCCACAGAGT
* * * * *
1478774 TATAGACTTTAAAAGGATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTAGAC-T
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* * *
1478838 TAAAAGGTTGCCACGGTGT
65 TAAAAGGATGCCACAGAGT
* *
1478857 TGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACGGAGTTGTGGAC-T
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* *
1478921 TAAAAAGATACCACAGAGT
65 TAAAAGGATGCCACAGAGT
* * *
1478940 TGTGGACATTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACGGAGTTGTGGAC-T
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* * *
1479004 TAAAAAGATACCACGGAGT
65 TAAAAGGATGCCACAGAGT
* * * *
1479023 TGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGTTGCCACAGAGCTGTGGAC-TT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
1479087 AAAAGGATGCCACAGAGT
66 AAAAGGATGCCACAGAGT
* * * * * *
1479105 TTTGGAC-TTAAAGGGTTGCCATGGAGTTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
*
1479169 AAAAGGATGCCACAAAGT
66 AAAAGGATGCCACAGAGT
* **
1479187 TGTGGAC-TTAAAAGGTTGCCACAAAGTTGTGGACTTAAAAGGGAATGCCAC
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAA-GG-ATGCCAC
1479238 TAAATCGTGG
Statistics
Matches: 1073, Mismatches: 121, Indels: 37
0.87 0.10 0.03
Matches are distributed among these distances:
81 91 0.08
82 181 0.17
83 467 0.44
84 284 0.26
85 23 0.02
86 21 0.02
87 6 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (83 bp):
TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
AAAAGGATGCCACAGAGT
Found at i:1479170 original size:28 final size:28
Alignment explanation
Indices: 1477940--1479237 Score: 1583
Period size: 28 Copynumber: 46.8 Consensus size: 28
1477930 CATCGACTTG
* * * *
1477940 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * ** *
1477968 TGTGGGCTTTAAAATGATGCCACTAACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1477996 TGTGGGCTTTAAAAGGGTGCTGCCACGGAGT
1 TGTGGACTTTAAAA--G-GATGCCACGGAGT
*
1478027 TGTGGAC-TTAAAAGGATGCAACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* **
1478054 TGCGGAC-TTAAAAGGATGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478081 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1478108 GGTAGACTTTAAAA-GAGTGCCACAGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGT
* * *
1478136 TGTGGACTTAAAAAGG-TCCCACGGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478163 TGTGGACTTTAAAAGGGT-CGACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478190 TGTGGAC-TTAAAAAGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
** *
1478217 TGTGGACTTTAAAAGCTTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478245 AGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478273 TGTGGACTTAAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1478301 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478329 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478357 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478385 TGTAGAC-TTAAAAGGTTGCCAC-GATGT
1 TGTGGACTTTAAAAGGATGCCACGGA-GT
*
1478412 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478440 TATGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1478468 TGTGGAC-TTAAAAAGATACCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478495 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478523 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478551 TGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478578 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478606 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
** *
1478634 TGTGGACTTTAAAAGCTTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1478662 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478690 TGTGGACTTAAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478718 TGTGGATTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1478746 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478774 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478802 TATAGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1478830 TGTAGAC-TTAAAAGGTTGCCACGGTGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478857 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478885 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1478913 TGTGGAC-TTAAAAAGATACCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478940 TGTGGACATTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1478968 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1478996 TGTGGAC-TTAAAAAGATACCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1479023 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1479051 TGTGGAC-TTAAAAGGTTGCCACAGAGC
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1479078 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * * *
1479105 TTTGGAC-TTAAAGGGTTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1479132 TATGGAC-TTAAAAGGATGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
**
1479159 TGTGGACTTTAAAAGGATGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* **
1479187 TGTGGAC-TTAAAAGGTTGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1479214 TGTGGAC-TTAAAAGGGAATGCCAC
1 TGTGGACTTTAAAA-GG-ATGCCAC
1479238 TAAATCGTGG
Statistics
Matches: 1121, Mismatches: 129, Indels: 39
0.87 0.10 0.03
Matches are distributed among these distances:
26 10 0.01
27 383 0.34
28 698 0.62
29 9 0.01
30 6 0.01
31 15 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGAGT
Found at i:1489018 original size:17 final size:18
Alignment explanation
Indices: 1488955--1489020 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
1488945 AAGATAATCG
1488955 TTTAAGGGGGAGAAT-TT
1 TTTAAGGGGGAGAATATT
* * *
1488972 TTTTA-GAGGAG-ATAATCG
1 TTTAAGGGGGAGAAT-AT-T
1488990 TTTAAGGGGGAGAATATT
1 TTTAAGGGGGAGAATATT
1489008 TTTAA-GGGGAGAA
1 TTTAAGGGGGAGAA
1489021 AAACGACGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 2 0.05
16 5 0.13
17 13 0.34
18 9 0.24
19 7 0.18
20 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.32
Consensus pattern (18 bp):
TTTAAGGGGGAGAATATT
Found at i:1489604 original size:32 final size:33
Alignment explanation
Indices: 1489544--1489608 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1489534 CACACCCAGA
*
1489544 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
* *
1489577 TGTATCGTTACATG-TTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
1489609 GGCCAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGCTGCATTGTATCGATACAT
Found at i:1489705 original size:33 final size:32
Alignment explanation
Indices: 1489663--1489725 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1489653 CACTATTTGT
1489663 ATCGATACATG-GTACAATGTATCGATACATTGC
1 ATCGATACATGAG-A-AATGTATCGATACATTGC
1489696 ATCGATACATGAAGAAATGTATCGATACAT
1 ATCGATACATG-AGAAATGTATCGATACAT
1489726 AGCTTGTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (32 bp):
ATCGATACATGAGAAATGTATCGATACATTGC
Found at i:1499768 original size:16 final size:16
Alignment explanation
Indices: 1499749--1499821 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
1499739 CTCGAATCTA
* *
1499749 AAATGACCCAAACCCG
1 AAATAACCCGAACCCG
* *
1499765 AAATCACCCGAACTCG
1 AAATAACCCGAACCCG
* *
1499781 AAATTACCCGAACCCA
1 AAATAACCCGAACCCG
*
1499797 AAATAACCCGAACTCG
1 AAATAACCCGAACCCG
1499813 AAAATAACC
1 -AAATAACC
1499822 TAAAAATTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
16 39 0.83
17 8 0.17
ACGTcount: A:0.45, C:0.34, G:0.10, T:0.11
Consensus pattern (16 bp):
AAATAACCCGAACCCG
Found at i:1499806 original size:32 final size:32
Alignment explanation
Indices: 1499749--1499815 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
1499739 CTCGAATCTA
* *
1499749 AAATGACCCAAACCCGAAATCACCCGAACTCG
1 AAATGACCCAAACCCAAAATAACCCGAACTCG
* *
1499781 AAATTACCCGAACCCAAAATAACCCGAACTCG
1 AAATGACCCAAACCCAAAATAACCCGAACTCG
1499813 AAA
1 AAA
1499816 ATAACCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.34, G:0.10, T:0.10
Consensus pattern (32 bp):
AAATGACCCAAACCCAAAATAACCCGAACTCG
Found at i:1501410 original size:9 final size:9
Alignment explanation
Indices: 1501398--1501430 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1501388 TATTATTTAT
1501398 TTTTTTAAA
1 TTTTTTAAA
1501407 TTTTTTAAA
1 TTTTTTAAA
*
1501416 ATTTTTAAA
1 TTTTTTAAA
1501425 TTTTTT
1 TTTTTT
1501431 TTAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:1501411 original size:10 final size:10
Alignment explanation
Indices: 1501396--1501438 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
1501386 TATATTATTT
1501396 ATTTTTTTAA
1 ATTTTTTTAA
1501406 A-TTTTTTAA
1 ATTTTTTTAA
*
1501415 A-ATTTTTAA
1 ATTTTTTTAA
1501424 ATTTTTTTTAA
1 A-TTTTTTTAA
1501435 ATTT
1 ATTT
1501439 ATTATGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 17 0.59
10 4 0.14
11 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:1505621 original size:18 final size:18
Alignment explanation
Indices: 1505598--1505634 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1505588 CTGTGTTAGT
1505598 GAAAATTGAAATAGACAA
1 GAAAATTGAAATAGACAA
1505616 GAAAATTGAAATAGACAA
1 GAAAATTGAAATAGACAA
1505634 G
1 G
1505635 GATTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.16
Consensus pattern (18 bp):
GAAAATTGAAATAGACAA
Found at i:1506885 original size:18 final size:19
Alignment explanation
Indices: 1506850--1506887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1506840 TATGTAAATC
*
1506850 TTTTTAAATATCAGATTAA
1 TTTTTAAATATCAAATTAA
*
1506869 TTTTTAAAT-TTAAATTAA
1 TTTTTAAATATCAAATTAA
1506887 T
1 T
1506888 AATTCGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTAAATATCAAATTAA
Found at i:1508330 original size:13 final size:13
Alignment explanation
Indices: 1508312--1508337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1508302 AATTTTTTTG
1508312 TGTATCGATACAT
1 TGTATCGATACAT
1508325 TGTATCGATACAT
1 TGTATCGATACAT
1508338 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1508421 original size:20 final size:20
Alignment explanation
Indices: 1508396--1508448 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1508386 ACATCTTTTT
1508396 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1508416 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1508436 CATGTATCGATAC
1 CATGTATCGATAC
1508449 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1510918 original size:13 final size:13
Alignment explanation
Indices: 1510900--1510938 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1510890 ATAATCACCC
*
1510900 TGTATCGATACAG
1 TGTATCGATACAA
1510913 TGTATCGATACAA
1 TGTATCGATACAA
1510926 TGTATCGATACAA
1 TGTATCGATACAA
1510939 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1510949 original size:20 final size:20
Alignment explanation
Indices: 1510924--1511002 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1510914 GTATCGATAC
1510924 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1510944 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1510969 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1510989 CATGTATCGATACA
1 AATGTATCGATACA
1511003 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1514881 original size:21 final size:21
Alignment explanation
Indices: 1514852--1514896 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1514842 AAATTTTCAT
*
1514852 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1514872 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1514894 TTT
1 TTT
1514897 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1517124 original size:13 final size:13
Alignment explanation
Indices: 1517106--1517131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1517096 AATTTTTTTG
1517106 TGTATCGATACAT
1 TGTATCGATACAT
1517119 TGTATCGATACAT
1 TGTATCGATACAT
1517132 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1517196 original size:21 final size:21
Alignment explanation
Indices: 1517170--1517245 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1517160 CTGCCAAGAA
1517170 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1517191 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
1517211 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
1517232 ATGTATCGATACAT
1 ATGTATCGATACAT
1517246 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1517215 original size:20 final size:20
Alignment explanation
Indices: 1517190--1517263 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1517180 ACATCTTTTT
1517190 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1517210 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
1517231 TATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1517251 CATGTATCGATAC
1 CATGTATCGATAC
1517264 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1517227 original size:41 final size:41
Alignment explanation
Indices: 1517170--1517263 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1517160 CTGCCAAGAA
1517170 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
1517211 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1517252 ATGTATCGATAC
1 ATGTATCGATAC
1517264 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1520660 original size:13 final size:12
Alignment explanation
Indices: 1520640--1520677 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
1520630 TGTAATACGT
*
1520640 AAATTAATTATA
1 AAATTAATAATA
1520652 AAATATAATAATA
1 AAAT-TAATAATA
1520665 AAATTAA-AATA
1 AAATTAATAATA
1520676 AA
1 AA
1520678 TATAAATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 6 0.25
12 7 0.29
13 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAATAATA
Found at i:1521075 original size:17 final size:17
Alignment explanation
Indices: 1521053--1521110 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 17
1521043 TCTGATCTGA
1521053 TTTGATTCTGCTTTTGG
1 TTTGATTCTGCTTTTGG
1521070 TTTGATTCTGCTCTGCTTTTGG
1 TTTGA---T--TCTGCTTTTGG
*
1521092 TTTGATTCTGCTTCTGG
1 TTTGATTCTGCTTTTGG
1521109 TT
1 TT
1521111 GATATTGCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 17 0.49
19 1 0.03
20 1 0.03
22 16 0.46
ACGTcount: A:0.05, C:0.16, G:0.22, T:0.57
Consensus pattern (17 bp):
TTTGATTCTGCTTTTGG
Found at i:1521075 original size:22 final size:22
Alignment explanation
Indices: 1521050--1521107 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
1521040 GCCTCTGATC
1521050 TGATT-TGATTCTGCTTTTGGTT
1 TGATTCTG-TTCTGCTTTTGGTT
*
1521072 TGATTCTGCTCTGCTTTTGGTT
1 TGATTCTGTTCTGCTTTTGGTT
1521094 TGATTCTGCTTCTG
1 TGATTCTG-TTCTG
1521108 GTTGATATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.07, C:0.16, G:0.22, T:0.55
Consensus pattern (22 bp):
TGATTCTGTTCTGCTTTTGGTT
Found at i:1521352 original size:45 final size:45
Alignment explanation
Indices: 1521303--1521398 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
1521293 GCTCTATTAT
*
1521303 TTTTTAAATGGGTTTTAATTGGATTTAGGTTTAAGTTTATATAGA
1 TTTTTAAATAGGTTTTAATTGGATTTAGGTTTAAGTTTATATAGA
* * *
1521348 TTTTTAATTAGGTTTTAATTGGGTTTGGGTTTAAGTTTATATAGA
1 TTTTTAAATAGGTTTTAATTGGATTTAGGTTTAAGTTTATATAGA
1521393 TTTTTA
1 TTTTTA
1521399 GTTTGTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (45 bp):
TTTTTAAATAGGTTTTAATTGGATTTAGGTTTAAGTTTATATAGA
Found at i:1521402 original size:23 final size:23
Alignment explanation
Indices: 1521326--1521402 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
1521316 TTTAATTGGA
1521326 TTTAGGTTTAAGTTTATATAGATT
1 TTTA-GTTTAAGTTTATATAGATT
* * * **
1521350 TTTA-ATTAGGTTT-TAATTGGGT
1 TTTAGTTTAAGTTTAT-ATAGATT
**
1521372 TTGGGTTTAAGTTTATATAGATT
1 TTTAGTTTAAGTTTATATAGATT
1521395 TTTAGTTT
1 TTTAGTTT
1521403 GTATTAAATG
Statistics
Matches: 36, Mismatches: 14, Indels: 7
0.63 0.25 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.36
23 17 0.47
24 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (23 bp):
TTTAGTTTAAGTTTATATAGATT
Found at i:1521426 original size:45 final size:45
Alignment explanation
Indices: 1521331--1521431 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
1521321 TTGGATTTAG
* * ***
1521331 GTTTAAGTTTATATAGATTTTTAATTAGGTTTTAATTGGGTTTGG
1 GTTTAAGTTTATATAGATTTTTAATTAGGTATTAAATGGGTTAAC
* *
1521376 GTTTAAGTTTATATAGATTTTTAGTT-TGTATTAAATGGGCTTAAC
1 GTTTAAGTTTATATAGATTTTTAATTAGGTATTAAATGGG-TTAAC
*
1521421 TTTTAAGTTTA
1 GTTTAAGTTTA
1521432 AATTTATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 10 0.21
45 37 0.79
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (45 bp):
GTTTAAGTTTATATAGATTTTTAATTAGGTATTAAATGGGTTAAC
Found at i:1522241 original size:13 final size:13
Alignment explanation
Indices: 1522223--1522252 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1522213 GCATATTTGT
*
1522223 AAAATTTTGTTAG
1 AAAATTTTATTAG
1522236 AAAATTTTATTAG
1 AAAATTTTATTAG
1522249 AAAA
1 AAAA
1522253 CAAATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (13 bp):
AAAATTTTATTAG
Found at i:1524109 original size:41 final size:41
Alignment explanation
Indices: 1524064--1524144 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
1524054 TTTAAATCTT
1524064 AGTCGATTAATTTTTTGGATTTGGTAAAACCAAACTTTTTG
1 AGTCGATTAATTTTTTGGATTTGGTAAAACCAAACTTTTTG
1524105 AGTCGATTAATTTTTTGGATTTGGTAAAACCAAACTTTTT
1 AGTCGATTAATTTTTTGGATTTGGTAAAACCAAACTTTTT
1524145 TTATTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (41 bp):
AGTCGATTAATTTTTTGGATTTGGTAAAACCAAACTTTTTG
Found at i:1526074 original size:150 final size:150
Alignment explanation
Indices: 1525888--1526342 Score: 502
Period size: 150 Copynumber: 3.0 Consensus size: 150
1525878 TTTAACTTAG
* *
1525888 AAGTGCCTGATATCCCTAAAAGACTTAAAAATGATTATAGATGGGATAAACCTACTTAAATACCC
1 AAGTGCCTGATACCCCTAAAAGACTTAAAAATGATTATAGATGGGATGAACCTACTTAAATACCC
* * * * *
1525953 ACATTCAACATAAAAACGAACCCGGTGACAACCTAAGACTCGATTTTAGGAAAATTACAAAAGTG
66 ACCTTCGACATAAAAATGAACCCGGTGACAACCTAAGACTCGATTTTAGAAAAATTACAAAAATG
* * *
1526018 CCCCTAAGGGATACCTTTGA
131 CTCCTAGGGGATACCTTTAA
* * * * * *
1526038 TAGTGCCTGATACCCCTAAAAGAATTAAAAAGGATTATAAATAGGATGAACCTATCCTAAATACC
1 AAGTGCCTGATACCCCTAAAAGACTTAAAAATGATTATAGATGGGATGAACCTA-CTTAAATACC
* * * * * * * *
1526103 CACCTTTGACATAAAAGTGGACCCAGTGACAACCTAAAACTCGGTTCTA-AAAAATTATAAAAAT
65 CACCTTCGACATAAAAATGAACCCGGTGACAACCTAAGACTCGATTTTAGAAAAATTACAAAAAT
**
1526167 GCTTTTAGGGGATACCTTCAACTTAA
130 GCTCCTAGGGGATACC-T----TTAA
* * * * * *
1526193 AAGTGTCTGATACCTCTAAAGGACTTAAAAATGATTATAGATGAGATGAAGCTA-TCATAATACC
1 AAGTGCCTGATACCCCTAAAAGACTTAAAAATGATTATAGATGGGATGAACCTACTTA-AATACC
* * *
1526257 CACCTTCGGCATAAAAATGAACCCGATGACAACCTAAGACTCGATTTT-GAAAAACTTGCAAAAA
65 CACCTTCGACATAAAAATGAACCCGGTGACAACCTAAGACTCGATTTTAGAAAAA-TTACAAAAA
1526321 TGCTCCTAGGGGATACCTTTAA
129 TGCTCCTAGGGGATACCTTTAA
1526343 CTTAGAGGTA
Statistics
Matches: 245, Mismatches: 51, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
150 75 0.31
151 49 0.20
153 1 0.00
154 51 0.21
155 69 0.28
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (150 bp):
AAGTGCCTGATACCCCTAAAAGACTTAAAAATGATTATAGATGGGATGAACCTACTTAAATACCC
ACCTTCGACATAAAAATGAACCCGGTGACAACCTAAGACTCGATTTTAGAAAAATTACAAAAATG
CTCCTAGGGGATACCTTTAA
Found at i:1526248 original size:155 final size:154
Alignment explanation
Indices: 1525831--1526346 Score: 528
Period size: 155 Copynumber: 3.4 Consensus size: 154
1525821 AATGATAAAT
* * ** * * *
1525831 TAAGACTGGGTTCTAAAAAAATTATGAAAATGCCCTTAGGGGATACTTTTAACTTAGAAGTGCCT
1 TAAGACTCGATTCTAAAAAAATTACAAAAATGCCCCTAGGGGATACCTTTAACTTAAAAGTGCCT
* * * * *
1525896 GATATCCCTAAAAGACTTAAAAATGATTATAGATGGGATAAACCTA-CTTAAATACCCACATTCA
66 GATA-CCCTAAAAGACTTAAAAATGATTATAGATGAGATGAACCTATCATAAATACCCACCTTCG
*
1525960 ACATAAAAACGAACCCGGTGACAACC
130 ACATAAAAATGAACCC-GTGACAACC
* ** * * *
1525986 TAAGACTCGATTTTAGGAAAATTACAAAAGTGCCCCTAAGGGATACCTTTGA--T---AGTGCCT
1 TAAGACTCGATTCTAAAAAAATTACAAAAATGCCCCTAGGGGATACCTTTAACTTAAAAGTGCCT
* * * * *
1526046 GATACCCCTAAAAGAATTAAAAAGGATTATAAAT-AGGATGAACCTATCCTAAATACCCACCTTT
66 GATA-CCCTAAAAGACTTAAAAATGATTATAGATGA-GATGAACCTATCATAAATACCCACCTTC
* *
1526110 GACATAAAAGTGGACCCAGTGACAACC
129 GACATAAAAATGAACCC-GTGACAACC
* * * *** * *
1526137 TAAAACTCGGTTCT-AAAAAATTATAAAAATGCTTTTAGGGGATACCTTCAACTTAAAAGTGTCT
1 TAAGACTCGATTCTAAAAAAATTACAAAAATGCCCCTAGGGGATACCTTTAACTTAAAAGTGCCT
* *
1526201 GATACCTCTAAAGGACTTAAAAATGATTATAGATGAGATGAAGCTATCAT-AATACCCACCTTCG
66 GATACC-CTAAAAGACTTAAAAATGATTATAGATGAGATGAACCTATCATAAATACCCACCTTCG
*
1526265 GCATAAAAATGAACCCGATGACAACC
130 ACATAAAAATGAACCCG-TGACAACC
* * * * *
1526291 TAAGACTCGATTTTGAAAAACTTGCAAAAATGCTCCTAGGGGATACCTTTAACTTA
1 TAAGACTCGATTCTAAAAAAATTACAAAAATGCCCCTAGGGGATACCTTTAACTTA
1526347 GAGGTATCCC
Statistics
Matches: 291, Mismatches: 59, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
150 73 0.25
151 47 0.16
152 1 0.00
153 2 0.01
154 47 0.16
155 120 0.41
156 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (154 bp):
TAAGACTCGATTCTAAAAAAATTACAAAAATGCCCCTAGGGGATACCTTTAACTTAAAAGTGCCT
GATACCCTAAAAGACTTAAAAATGATTATAGATGAGATGAACCTATCATAAATACCCACCTTCGA
CATAAAAATGAACCCGTGACAACC
Found at i:1527936 original size:13 final size:13
Alignment explanation
Indices: 1527918--1527943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1527908 TACACCAAGT
1527918 ATGTATCGATACA
1 ATGTATCGATACA
1527931 ATGTATCGATACA
1 ATGTATCGATACA
1527944 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1527941 original size:32 final size:33
Alignment explanation
Indices: 1527900--1527963 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1527890 TAGCCAAACT
* **
1527900 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1527932 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1527964 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1532029 original size:15 final size:15
Alignment explanation
Indices: 1532009--1532038 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1531999 AAAAATGTCT
*
1532009 AAAATGAGGAAGCTC
1 AAAATGAAGAAGCTC
1532024 AAAATGAAGAAGCTC
1 AAAATGAAGAAGCTC
1532039 CAAACGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAATGAAGAAGCTC
Found at i:1534306 original size:20 final size:20
Alignment explanation
Indices: 1534263--1534308 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1534253 AAATCTTTTA
1534263 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1534284 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1534304 CAAAA
1 CAAAA
1534309 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1536712 original size:13 final size:13
Alignment explanation
Indices: 1536694--1536719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1536684 TACACCAAGT
1536694 ATGTATCGATACA
1 ATGTATCGATACA
1536707 ATGTATCGATACA
1 ATGTATCGATACA
1536720 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1536717 original size:32 final size:33
Alignment explanation
Indices: 1536676--1536739 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1536666 TAGCCAAACT
* **
1536676 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1536708 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1536740 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1537524 original size:17 final size:18
Alignment explanation
Indices: 1537498--1537532 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1537488 AAAGTAAGAG
1537498 ATTTTCTTAGT-TTTTCT
1 ATTTTCTTAGTGTTTTCT
*
1537515 ATTTTTTTAGTGTTTTCT
1 ATTTTCTTAGTGTTTTCT
1537533 CTCTTGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
ATTTTCTTAGTGTTTTCT
Found at i:1538242 original size:164 final size:162
Alignment explanation
Indices: 1538062--1538524 Score: 426
Period size: 164 Copynumber: 2.8 Consensus size: 162
1538052 ATAAATTGAG
* * * * * *
1538062 TTTTACAAAACTGATTTAATATGAGTTTAATAACAATATTAGATGGATTTTAAAAATTTTAAATC
1 TTTTTCAAAACTGATTTAATATGAATTAAATAAAAATATTTGATGAATTTTAAAAATTTTAAA-C
* *
1538127 GAGAAAAATCCTCTCGAAAACATTTACGAAGTAAAAAACTCAGTTTTTCGAAAATAGAAGAATTT
65 AAGAAAAATCCTC-CAAAAACATTTACG-AGTAAAAAACTCAGTTTTTCGAAAATAGAAGAATTT
1538192 CAAAG-AAAAATGAAAA-ACTT-ATGAAGATAAATA-AA
128 CAAAGAAAAAAT-AAAACA-TTAATGAA-ATAAA-AGAA
** * * ** *
1538227 -TTTTCAAAACTGATTTACGATGAATCAAATGATGATATTTGATGAATTTTAAAAATTATAAACC
1 TTTTTCAAAACTGATTTAATATGAATTAAATAAAAATATTTGATGAATTTTAAAAATTTTAAA-C
* * * *
1538291 AAGAAAAATCCTCCCAAAAACATTTACGAGTAGAAAA-TTATGTATTTCAAAAATAAGAA-AATT
65 AAGAAAAATCCT-CCAAAAACATTTACGAGTAAAAAACTCA-GTTTTTCGAAAAT-AGAAGAATT
*
1538354 TCAAGGAAAAAATAAAACATTAATGAAATAAAAGGAA
127 TCAAAGAAAAAATAAAACATTAATGAAATAAAA-GAA
* * *
1538391 TTTTTCAAAAATGATTTAATGA-GAATTAAATAAAAATATTTTATTAATTTT-AAAATTTATAAA
1 TTTTTCAAAACTGATTTAAT-ATGAATTAAATAAAAATATTTGATGAATTTTAAAAATTT-TAAA
** * * *
1538454 CTAATCAAAATCCTCCCAAAACATTTACGGAG-AAAAAACCTCCGTATTTT-GGAAATAGGAAGA
64 C-AAGAAAAATCCTCCAAAAACATTTAC-GAGTAAAAAA-CTCAGT-TTTTCGAAAATA-GAAGA
1538517 ATTTCAAA
124 ATTTCAAA
1538525 AGGAAATCAA
Statistics
Matches: 240, Mismatches: 40, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
162 3 0.01
163 39 0.16
164 119 0.50
165 66 0.28
166 13 0.05
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (162 bp):
TTTTTCAAAACTGATTTAATATGAATTAAATAAAAATATTTGATGAATTTTAAAAATTTTAAACA
AGAAAAATCCTCCAAAAACATTTACGAGTAAAAAACTCAGTTTTTCGAAAATAGAAGAATTTCAA
AGAAAAAATAAAACATTAATGAAATAAAAGAA
Found at i:1538453 original size:165 final size:162
Alignment explanation
Indices: 1538090--1538524 Score: 411
Period size: 165 Copynumber: 2.6 Consensus size: 162
1538080 ATATGAGTTT
* * * * * *
1538090 AATAACAATATTAGATGGATTTTAAAAATTT-TAAATCGAGAAAAATCCTCTCGAAAACATTTAC
1 AATAAAAATATTTGATGAATTTT-AAAATTTATAAACCAAGAAAAATCCTC-CCAAAACATTTAC
* * *
1538154 GAAGTAAAAAACTCAGTTTTTCGAAAATAGAAGAATTTCAAAGAAAAATGAAAAACTTATGAAGA
64 G-AGTAGAAAACTCAGTATTTCAAAAATAGAAGAATTTCAAAGAAAAATGAAAAACTTATGAAGA
*
1538219 TAAATAAATTTTCAAAACTGATTTACGATGAATCA
128 TAAATAAATTTTCAAAAATGATTTACGATGAATCA
* ** *
1538254 AATGATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCCAAAAACATTTACG
1 AATAAAAATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCTCCC-AAAACATTTACG
* *
1538319 AGTAGAAAA-TTATGTATTTCAAAAATAAGAA-AATTTCAAGGAAAAA--ATAAAACATTAATGA
65 AGTAGAAAACTCA-GTATTTCAAAAAT-AGAAGAATTTCAAAGAAAAATGA-AAAAC-TT-ATGA
* *
1538380 A-ATAAA-AGGAATTTTTCAAAAATGATTTAATGA-GAATTA
125 AGATAAATA--AA-TTTTCAAAAATGATTT-ACGATGAATCA
* * * **
1538419 AATAAAAATATTTTATTAATTTTAAAATTTATAAACTAATCAAAATCCTCCCAAAACATTTACGG
1 AATAAAAATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCTCCCAAAACATTTAC-G
* * ***
1538484 AG-AAAAAACCTCCGTATTTTGGAAATAGGAAGAATTTCAAA
65 AGTAGAAAA-CTCAGTATTTCAAAAATA-GAAGAATTTCAAA
1538525 AGGAAATCAA
Statistics
Matches: 222, Mismatches: 33, Indels: 30
0.78 0.12 0.11
Matches are distributed among these distances:
161 1 0.00
162 8 0.04
163 47 0.21
164 75 0.34
165 79 0.36
166 12 0.05
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (162 bp):
AATAAAAATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCTCCCAAAACATTTACGA
GTAGAAAACTCAGTATTTCAAAAATAGAAGAATTTCAAAGAAAAATGAAAAACTTATGAAGATAA
ATAAATTTTCAAAAATGATTTACGATGAATCA
Found at i:1539353 original size:22 final size:21
Alignment explanation
Indices: 1539309--1539357 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
1539299 ATTTCTTGTA
1539309 TATATTTGGTGATTAATTATT
1 TATATTTGGTGATTAATTATT
*
1539330 TATATTT-GTGATCATATTTATT
1 TATATTTGGTGAT--TAATTATT
1539352 TATATT
1 TATATT
1539358 CTTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (21 bp):
TATATTTGGTGATTAATTATT
Found at i:1542772 original size:19 final size:20
Alignment explanation
Indices: 1542745--1542795 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1542735 TTAACTAGAC
*
1542745 GTATGGATACATT-AAAAAT
1 GTATCGATACATTGAAAAAT
*
1542764 GTATCGATACATTGAAGAAT
1 GTATCGATACATTGAAAAAT
1542784 GTATCGATACAT
1 GTATCGATACAT
1542796 CTGGGTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACATTGAAAAAT
Found at i:1547659 original size:20 final size:20
Alignment explanation
Indices: 1547634--1547673 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1547624 TTCCCATGAC
*
1547634 ATTGTATCGATACATTACTT
1 ATTGTATCGATACATAACTT
*
1547654 ATTGTATTGATACATAACTT
1 ATTGTATCGATACATAACTT
1547674 TAAAAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTGTATCGATACATAACTT
Found at i:1548093 original size:17 final size:18
Alignment explanation
Indices: 1548061--1548099 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1548051 CATGACAATT
1548061 TATTTTATATTTTTAAAA
1 TATTTTATATTTTTAAAA
* *
1548079 TATTTTTTATTTTAAAAA
1 TATTTTATATTTTTAAAA
1548097 TAT
1 TAT
1548100 ATCTTGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTATATTTTTAAAA
Found at i:1551769 original size:21 final size:21
Alignment explanation
Indices: 1551745--1551800 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1551735 TTTTTGTCCA
1551745 AATGTATCGATACATTGTTAG
1 AATGTATCGATACATTGTTAG
1551766 AATGTATCGATACATTGTTAG
1 AATGTATCGATACATTGTTAG
1551787 AATGTATCGATACA
1 AATGTATCGATACA
1551801 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAG
Found at i:1551989 original size:52 final size:52
Alignment explanation
Indices: 1551925--1552070 Score: 247
Period size: 52 Copynumber: 2.8 Consensus size: 52
1551915 ATCGATACAT
* *
1551925 TGTATCAATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCATA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1551977 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
1552029 TGTATCGATACATTGATTTTTGTATCGATACATGCAGTCAAA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAA
1552071 CTTTCATATT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1558233 original size:3 final size:3
Alignment explanation
Indices: 1558225--1558249 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1558215 CAACCTTTTA
1558225 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
1558250 CTTTGAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:1562367 original size:16 final size:17
Alignment explanation
Indices: 1562342--1562374 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1562332 TTTTTTTTTT
*
1562342 CAAAATAAAT-AAAAAA
1 CAAAAAAAATCAAAAAA
1562358 CAAAAAAAATCAAAAAA
1 CAAAAAAAATCAAAAAA
1562375 GGAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (17 bp):
CAAAAAAAATCAAAAAA
Found at i:1562996 original size:20 final size:20
Alignment explanation
Indices: 1562964--1563078 Score: 122
Period size: 20 Copynumber: 5.8 Consensus size: 20
1562954 TTTTACCCAG
*
1562964 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1562984 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
** *
1563004 ACATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1563024 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* * *
1563044 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
1563064 ATGTATCGATACATT
1 ATGTATCGATACATT
1563079 CTGTCTTTTT
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1563035 original size:60 final size:60
Alignment explanation
Indices: 1562964--1563080 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
1562954 TTTTACCCAG
* *
1562964 ATGTATTGATACATTTTTCAATATATCGATACATGTATGAACATATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCAATATATCGATACATGTATGAACATATCGATACATTCTTCA
* **
1563024 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
1 ATGTATCGATACATTCTTCAATATATCGATACATGTATGAACATATCGATACATTCT
1563081 GTCTTTTTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (60 bp):
ATGTATCGATACATTCTTCAATATATCGATACATGTATGAACATATCGATACATTCTTCA
Found at i:1575967 original size:17 final size:16
Alignment explanation
Indices: 1575940--1575995 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1575930 TATTCTTTTC
1575940 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
*
1575956 CAAAAAAGGAAAGAAAA
1 CAAAAAA-GAAACAAAA
1575973 -AGAGAAAA-AAACAAAA
1 CA-A-AAAAGAAACAAAA
1575989 CAGAAAA
1 CA-AAAA
1575996 TCTCGGTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 18 0.53
17 12 0.35
18 4 0.12
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:1577077 original size:33 final size:33
Alignment explanation
Indices: 1577007--1577217 Score: 231
Period size: 33 Copynumber: 6.5 Consensus size: 33
1576997 TTCAAATACC
1577007 TTCTT-AAAGTCCACGACTCAGTGGCATC-CTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1577038 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1577071 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
*
1577104 TTCTTCAAAGTCCACGACTTC-GTGGCACCT-TT
1 TTCTTCAAAGTCCACGAC-TCAGTGGCATCTCTT
* * *
1577136 TTCTTTTCAAAGCCCACCACTCCGTGGCA-C-CTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCATCTCTT
** * *
1577169 TTCTTTTTAAGTCCACAACTTC-GTGGCACCT-TT
1 TTC-TTCAAAGTCCACGAC-TCAGTGGCATCTCTT
*
1577202 TTCTTCTAAAGACCAC
1 TTCTTC-AAAGTCCAC
1577218 ACAAGTCGGT
Statistics
Matches: 159, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.03
32 48 0.30
33 85 0.53
34 21 0.13
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (33 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
Found at i:1577129 original size:66 final size:64
Alignment explanation
Indices: 1577007--1577217 Score: 266
Period size: 66 Copynumber: 3.2 Consensus size: 64
1576997 TTCAAATACC
*
1577007 TTCTT-AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGAC-TCAGTGGCATCTCT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTTC-GTGGCACCT-T
1577070 T
64 T
1577071 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTTCGTGGCACCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATC-CTTTTCTTCAAAGTCCACGACTTCGTGGCACCTTT
* * * ** *
1577136 TTCTTTTCAAAGCCCACCACTCCGTGGCA-CCTTTTCTTTTTAAGTCCACAACTTCGTGGCACCT
1 TTC--TTCAAAGTCCACGACTCAGTGGCATCCTTTTC-TTCAAAGTCCACGACTTCGTGGCACCT
1577200 TT
63 TT
*
1577202 TTCTTCTAAAGACCAC
1 TTCTTC-AAAGTCCAC
1577218 ACAAGTCGGT
Statistics
Matches: 132, Mismatches: 8, Indels: 13
0.86 0.05 0.08
Matches are distributed among these distances:
64 8 0.06
65 42 0.32
66 59 0.45
67 23 0.17
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (64 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTTCGTGGCACCTTT
Found at i:1577272 original size:65 final size:65
Alignment explanation
Indices: 1577202--1578091 Score: 1413
Period size: 65 Copynumber: 13.7 Consensus size: 65
1577192 TGGCACCTTT
* *
1577202 TTCTTCTAAAGACCACACAAGTCGGTAGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1577267 TTCTTCTAAAACCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1577332 TTCTTCTAAAGCCTACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1577397 ATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCT-TCCTAAAGCCCACACAAGTTGGTGGGAA
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCT-CTAAAGCCCACACAAGTCGGTGGCAA
1577460 CC
64 CC
1577462 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1577527 TTCTTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAACCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1577592 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
1577657 TTCTTCTAAAGCCCACACAAGTCAGTGGTAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1577722 ATTC-TCCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1577786 CC
64 CC
* * * *
1577788 -CCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAAC
1577852 C
65 C
* *
1577853 --CTTCCTAAAGCCCACACAAGTCAGTGGCAACCTTGCTCTAAAGCCCACACAAGTCGGTGGCAA
1 TTCTT-CTAAAGCCCACACAAGTCGGTGGCAACCCT-CTCTAAAGCCCACACAAGTCGGTGGCAA
1577916 CC
64 CC
* *
1577918 CTC-TCTAAAGCCCATACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
1577982 TTCTTCTAAAGCCCACACAAGTCGGTGGCAATCCTCTCTAAAGCCCACACAAGTTGGTGGAAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1578047 ATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCT-TCT-AAGCCCA
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
1578092 ATATAGCTGG
Statistics
Matches: 775, Mismatches: 37, Indels: 28
0.92 0.04 0.03
Matches are distributed among these distances:
63 7 0.01
64 42 0.05
65 685 0.88
66 40 0.05
67 1 0.00
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (65 bp):
TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:1578148 original size:49 final size:49
Alignment explanation
Indices: 1578084--1578453 Score: 433
Period size: 49 Copynumber: 7.8 Consensus size: 49
1578074 GCAACCCTTC
* * * *
1578084 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1578133 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1578176 TAAGTCCAATATCGCTGGCCCTGAATCAGCATAGTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1578225 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1578273 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1578316 TAAGTCCAATATAGCTGCCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1578365 TAAGTCCAATATAGCTGGCCTTGACTCAGAACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
1578414 TAAGTCCAGTGTTGCAGGCCTTGAATCTGCACAGTGGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1578454 ATTGCAAAAC
Statistics
Matches: 275, Mismatches: 34, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
43 74 0.27
45 2 0.01
47 1 0.00
48 44 0.16
49 154 0.56
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1578193 original size:43 final size:43
Alignment explanation
Indices: 1578131--1578407 Score: 293
Period size: 43 Copynumber: 6.0 Consensus size: 43
1578121 CACCTTCTTT
*
1578131 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
1578174 TTTAAGTCCAATATCGCTGGCCCTGAATCAGCATAGTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
*
1578223 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CACC
* *
1578271 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
1578314 TTTAAGTCCAATATAGCTGCCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
* *
1578363 TTTAAGTCCAATATAGCTGGCCTTGACTCAGAACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
1578406 TT
1 TT
1578408 CATCTTTAAG
Statistics
Matches: 198, Mismatches: 19, Indels: 34
0.79 0.08 0.14
Matches are distributed among these distances:
43 80 0.40
44 1 0.01
47 1 0.01
48 40 0.20
49 73 0.37
50 1 0.01
54 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:1578246 original size:92 final size:92
Alignment explanation
Indices: 1578079--1578453 Score: 420
Period size: 92 Copynumber: 4.0 Consensus size: 92
1578069 CGGTGGCAAC
* * * *
1578079 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTTTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1578144 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
1578172 CCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATAGTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1578237 AGCTGGCCTTGAATCAGCACATTGGCACCTCA
66 AGCTGGCCTTGAATCAGCACATTGG-----CA
* * *
1578269 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
* *
1578328 AGCTGCCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
1578355 CCTTTATCTTTAAGTCCAATATAGCTGGCCTTGACTCAGAACATTGGCACCTTCATCTTTAAGTC
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
* * * * *
1578420 CAGTGTTGCAGGCCTTGAATCTGCACAGTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1578453 C
1 C
1578454 ATTGCAAAAC
Statistics
Matches: 240, Mismatches: 25, Indels: 30
0.81 0.08 0.10
Matches are distributed among these distances:
86 2 0.01
87 1 0.00
91 37 0.15
92 120 0.50
93 5 0.02
96 1 0.00
97 40 0.17
98 34 0.14
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1578342 original size:140 final size:141
Alignment explanation
Indices: 1578084--1578453 Score: 564
Period size: 140 Copynumber: 2.6 Consensus size: 141
1578074 GCAACCCTTC
* * * *
1578084 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTTTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1578149 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATAGTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATAGTGGC
1578214 ACCTTCATCTT
131 ACCTTCATCTT
* *
1578225 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
1578289 GGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCT-GCCCTTGAATCAGCATATTGG
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCC-TGAATCAGCATAGTGG
*
1578353 CACCTTTATCTT
130 CACCTTCATCTT
* * * * *
1578365 TAAGTCCAATATAGCTGGCCTTGACTCAGAACATTGGCACCTTCATCTTTAAGTCCAGTGTTGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
1578430 GGCCTTGAATCTGCACAGTGGCAC
66 GGCCTTGAATCAGCACATTGGCAC
1578454 ATTGCAAAAC
Statistics
Matches: 207, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
139 4 0.02
140 125 0.60
141 78 0.38
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (141 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATAGTGGC
ACCTTCATCTT
Found at i:1578729 original size:13 final size:13
Alignment explanation
Indices: 1578711--1578735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1578701 TACCAAAAAA
1578711 TGTATCGATACAT
1 TGTATCGATACAT
1578724 TGTATCGATACA
1 TGTATCGATACA
1578736 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1587060 original size:32 final size:31
Alignment explanation
Indices: 1587019--1587196 Score: 173
Period size: 33 Copynumber: 5.5 Consensus size: 31
1587009 TTCAAATACC
1587019 TTCTT-AAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA-CCTT
1587050 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA-C-CTT
*
1587083 TTCTTCAAAGTCCACGACTCCGTGGCACCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCACC-TT
* * *
1587115 TTCTTTTCAAAGCCCACCACTCCGTGGCACCTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCACCTT
* *
1587148 TTCTTTTTAAA-TCCACAACTTC-GTGGCACCTTT
1 TTC--TTCAAAGTCCACGAC-TCAGTGGCACC-TT
*
1587181 TTCTTCTAAAGACCAC
1 TTCTTC-AAAGTCCAC
1587197 ACAAGTCGGT
Statistics
Matches: 130, Mismatches: 8, Indels: 16
0.84 0.05 0.10
Matches are distributed among these distances:
31 8 0.06
32 46 0.35
33 52 0.40
34 24 0.18
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCACCTT
Found at i:1587089 original size:33 final size:32
Alignment explanation
Indices: 1587019--1587152 Score: 175
Period size: 33 Copynumber: 4.2 Consensus size: 32
1587009 TTCAAATACC
1587019 TTCTT-AAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
1587050 TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATC-CTT
*
1587083 TTCTTCAAAGTCCACGACTCCGTGGCA-CCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCC-TT
* * *
1587115 TTCTTTTCAAAGCCCACCACTCCGTGGCA-CCTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCATCCTT
1587148 TTCTT
1 TTCTT
1587153 TTTAAATCCA
Statistics
Matches: 95, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.08
32 29 0.31
33 34 0.36
34 24 0.25
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (32 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
Found at i:1587178 original size:66 final size:67
Alignment explanation
Indices: 1587019--1587185 Score: 186
Period size: 65 Copynumber: 2.6 Consensus size: 67
1587009 TTCAAATACC
* * * *
1587019 TTCTT-AAAGTCCACGACTCAGTGGCATCC-TTTTC--TTCAAAGTCCACGACTCAGTGGCATCT
1 TTCTTCAAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTCAAAGCCCACCACTCAGTGGCATCT
1587080 CTT
65 CTT
* *
1587083 TTCTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCA-C-C
1 TTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCAGTGGCATCTC
1587146 TT
66 TT
* *
1587148 TTCTTTTTAAA-TCCACAACTTCGTGGCACCTTTTTCTT
1 TTC--TTCAAAGTCCACAACTCCGTGGCACCTTTTTCTT
1587186 CTAAAGACCA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
64 7 0.08
65 31 0.34
66 26 0.29
67 26 0.29
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (67 bp):
TTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCAGTGGCATCTC
TT
Found at i:1587197 original size:33 final size:33
Alignment explanation
Indices: 1587018--1587197 Score: 172
Period size: 32 Copynumber: 5.5 Consensus size: 33
1587008 CTTCAAATAC
* *
1587018 CTTCTTAAAGTCCACGACTCAGTGGCATCC-TTTT
1 CTTC-TAAAGTCCACAACTCCGTGGCA-CCTTTTT
* * *
1587052 CTTC-AAAGTCCACGACTCAGTGGCATCTCTTTT
1 CTTCTAAAGTCCACAACTCCGTGGCACCT-TTTT
*
1587085 CTTC-AAAGTCCACGACTCCGTGGCACCTTTTT
1 CTTCTAAAGTCCACAACTCCGTGGCACCTTTTT
* * *
1587117 CTTTTCAAAGCCCACCACTCCGTGGCACC-TTTT
1 CTTCT-AAAGTCCACAACTCCGTGGCACCTTTTT
* *
1587150 CTTTTTAAA-TCCACAACTTCGTGGCACCTTTTT
1 C-TTCTAAAGTCCACAACTCCGTGGCACCTTTTT
*
1587183 CTTCTAAAGACCACA
1 CTTCTAAAGTCCACA
1587198 CAAGTCGGTG
Statistics
Matches: 128, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
31 1 0.01
32 50 0.39
33 48 0.38
34 29 0.23
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (33 bp):
CTTCTAAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1587261 original size:33 final size:33
Alignment explanation
Indices: 1587181--1588006 Score: 1233
Period size: 33 Copynumber: 25.5 Consensus size: 33
1587171 TGGCACCTTT
*
1587181 TTCTTCTAAAGACCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1587214 CTC-TCTAAATCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587246 TTCTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587279 CTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
1587312 TTCGTCTAAAGCCCACAAAAGTCGATGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587345 ATTC-TCCAAAGCCCACACAAGTCGGTGGCAACC
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587378 --CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTT-CTAAAGCCCACACAAGTCGGTGGCAACC
1587410 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1587443 CTC-TCTAAAGCCCACACAAATCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587475 TTCTTCCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1587508 CTC-TCTAAAGCCCACACAAGTCGGTGGCAATC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587540 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587573 CTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587605 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1587638 CTC-TCTAAAGCCCACACAAGTTGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587670 ATTC-TCAAAAGCCCACACAAGTCGGTGGCAACC
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587703 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587736 CTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
1587768 TTCTTCTAAAGCCCACACAAGTCGGTAGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587801 --CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTT-CTAAAGCCCACACAAGTCGGTGGCAACC
*
1587833 CTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1587865 CTC-TCTAAAGCCCACATAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587897 TTCTTCTAAAGCCCACACAAGTCGGTGGCAATCC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAA-CC
* *
1587931 -TC-TCTAAAGCCCACACAAGTTGGTGGAAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587962 ATTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1587995 --CTTCT-AAGCCCA
1 TTCTTCTAAAGCCCA
1588007 ATATAGCTGG
Statistics
Matches: 728, Mismatches: 45, Indels: 43
0.89 0.06 0.05
Matches are distributed among these distances:
30 9 0.01
31 9 0.01
32 321 0.44
33 380 0.52
34 9 0.01
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:1587262 original size:65 final size:64
Alignment explanation
Indices: 1587185--1588006 Score: 1238
Period size: 65 Copynumber: 12.7 Consensus size: 64
1587175 ACCTTTTTCT
* *
1587185 TCTAAAGACCACACAAGTCGGTGGCAACCCTCTCTAAATCCCACACAAGTCGGTGGCAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
*
1587249 TTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTT
1587314 C
64 C
* * * *
1587315 GTCTAAAGCCCACAAAAGTCGATGGCAACCATTCTCCAAAGCCCACACAAGTCGGTGGCAACCCT
1 -TCTAAAGCCCACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCT
1587380 TC
63 TC
* *
1587382 -CTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* * * *
1587446 TCTAAAGCCCACACAAATCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* * *
1587511 TCTAAAGCCCACACAAGTCGGTGGCAATCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* *
1587576 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* * *
1587641 TCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAAGCCCACACAAGTCGGTGGCAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
1587706 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* *
1587771 TTCTAAAGCCCACACAAGTCGGTAGCAACCCT-TCCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTCT-CTAAAGCCCACACAAGTCGGTGGCAACCTT
1587835 C
64 C
*
1587836 TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACATAAGTCGGTGGCAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* * *
1587900 TTCTAAAGCCCACACAAGTCGGTGGCAATCCTCTCTAAAGCCCACACAAGTTGGTGGAAACCATT
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC-TT
1587965 C
64 C
1587966 TCTAAAGCCCACACAAGTCGGTGGCAACCCT-TCT-AAGCCCA
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
1588007 ATATAGCTGG
Statistics
Matches: 711, Mismatches: 35, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
63 7 0.01
64 70 0.10
65 510 0.72
66 117 0.16
67 7 0.01
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (64 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
Found at i:1588063 original size:49 final size:49
Alignment explanation
Indices: 1587999--1588368 Score: 469
Period size: 49 Copynumber: 7.8 Consensus size: 49
1587989 GCAACCCTTC
* * * *
1587999 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1588048 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1588091 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1588140 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1588188 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1588231 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1588280 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1588329 TAAGTCCAGTGTTGCAGGCCTTGAATCTGCACAGTGGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1588369 ATTGCAAAAC
Statistics
Matches: 280, Mismatches: 29, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
43 76 0.27
45 2 0.01
47 1 0.00
48 43 0.15
49 158 0.56
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1588108 original size:43 final size:43
Alignment explanation
Indices: 1588045--1588322 Score: 322
Period size: 43 Copynumber: 6.1 Consensus size: 43
1588035 GCACCTTCTT
1588045 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1588088 CTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
1588135 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
* *
1588185 CTTTAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1588228 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
*
1588272 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1588320 CTT
1 CTT
1588323 CATCTTTAAG
Statistics
Matches: 201, Mismatches: 17, Indels: 34
0.80 0.07 0.13
Matches are distributed among these distances:
43 82 0.41
44 1 0.00
47 1 0.00
48 39 0.19
49 75 0.37
50 1 0.00
54 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1588161 original size:92 final size:92
Alignment explanation
Indices: 1587994--1588368 Score: 438
Period size: 92 Copynumber: 4.0 Consensus size: 92
1587984 CGGTGGCAAC
* * *
1587994 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1588059 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
1588087 CCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1588152 AGCTGGCCTTGAATCAGCACATTGGCACCTCA
66 AGCTGGCCTTGAATCAGCACATTGG-----CA
* * * *
1588184 CCTTTAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
*
1588243 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
1588270 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTC
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
* * * * *
1588335 CAGTGTTGCAGGCCTTGAATCTGCACAGTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1588368 C
1 C
1588369 ATTGCAAAAC
Statistics
Matches: 245, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
86 2 0.01
87 1 0.00
91 38 0.16
92 123 0.50
93 5 0.02
96 1 0.00
97 40 0.16
98 35 0.14
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1588257 original size:140 final size:141
Alignment explanation
Indices: 1587999--1588368 Score: 589
Period size: 140 Copynumber: 2.6 Consensus size: 141
1587989 GCAACCCTTC
* * * *
1587999 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1588064 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATTGGC
1588129 ACCTTCATCTT
131 ACCTTCATCTT
*
1588140 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
1588204 GGCCTTGACTTAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATTGGC
*
1588269 ACCTTTATCTT
131 ACCTTCATCTT
* * * *
1588280 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAGTGTTGCA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
1588345 GGCCTTGAATCTGCACAGTGGCAC
66 GGCCTTGAATCAGCACATTGGCAC
1588369 ATTGCAAAAC
Statistics
Matches: 209, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
140 132 0.63
141 77 0.37
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (141 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATTGGC
ACCTTCATCTT
Found at i:1589073 original size:13 final size:13
Alignment explanation
Indices: 1589055--1589079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1589045 ATTACTCAAA
1589055 TGTATCGATACAT
1 TGTATCGATACAT
1589068 TGTATCGATACA
1 TGTATCGATACA
1589080 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1593708 original size:7 final size:7
Alignment explanation
Indices: 1593696--1593749 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
1593686 ACCAAACAAA
1593696 AAAAAAC
1 AAAAAAC
1593703 AAAAAA-
1 AAAAAAC
1593709 AAAAAAC
1 AAAAAAC
1593716 AAAAAAC
1 AAAAAAC
*
1593723 -AAAACC
1 AAAAAAC
1593729 AAAAAAC
1 AAAAAAC
1593736 AAACAAAC
1 AAA-AAAC
1593744 AAAAAA
1 AAAAAA
1593750 TAGAAGGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 11 0.26
7 24 0.57
8 7 0.17
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:1593711 original size:13 final size:13
Alignment explanation
Indices: 1593688--1593749 Score: 79
Period size: 13 Copynumber: 4.5 Consensus size: 13
1593678 TCCTTCGTAC
1593688 CAAACAAAAAAAAA
1 CAAA-AAAAAAAAA
1593702 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
* *
1593715 CAAAAAACAAAAC
1 CAAAAAAAAAAAA
1593728 CAAAAAACAAACAAA
1 CAAAAAA-AAA-AAA
1593743 CAAAAAA
1 CAAAAAA
1593750 TAGAAGGGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
13 27 0.64
14 6 0.14
15 9 0.21
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:1593721 original size:20 final size:20
Alignment explanation
Indices: 1593696--1593749 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1593686 ACCAAACAAA
1593696 AAAAAACAAAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAAAC
**
1593716 AAAAAACAAAACCAAAAAAC
1 AAAAAACAAAAAAAAAAAAC
1593736 AAACAAACAAAAAA
1 AAA-AAACAAAAAA
1593750 TAGAAGGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAAAAC
Found at i:1595063 original size:28 final size:28
Alignment explanation
Indices: 1595023--1595375 Score: 327
Period size: 28 Copynumber: 12.5 Consensus size: 28
1595013 TACGACCCTT
*
1595023 TTTCAAAGCCCACAAGTTAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* *
1595051 TTTCAAAGCCCACAAGTCAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
*
1595079 TTTCAAAGCCCACAAGTCAGTGACATC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* *
1595106 TCTTCAAAGCCCACAGGTCAGTGGCATCT
1 T-TTCAAAGCCCACAAGTCAGTGGCATCA
* *
1595135 TTTCAAAGCCCACAGGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* * * * * *
1595163 TTTCAAAGTCCACACGCCAGTAGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
** * *
1595191 TTTTTAAGCCCACAAGTCGGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* * *
1595218 TTTCCAAAGCCCACAA-ACAAGTGGCACCCT
1 TTT-CAAAGCCCACAAGTC-AGTGGCA-TCA
* * *
1595248 TTTTAAATCCCACAAGTTAGTGGCA-CTA
1 TTTCAAAGCCCACAAGTCAGTGGCATC-A
* *
1595276 TTTCAAAGCCCACAAGTTAGTGGTATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* *
1595304 TTTCAAAGCCCACAAGTTAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCA
* * * *
1595332 TTTTAAAACCCACAAGTCAATGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT--CA
1595362 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1595376 CAAGTTAGTG
Statistics
Matches: 273, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.03
28 229 0.84
29 19 0.07
30 17 0.06
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCA
Found at i:1595379 original size:32 final size:31
Alignment explanation
Indices: 1595342--1595427 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 31
1595332 TTTTAAAACC
1595342 CACAAGTCAATGGCATACCCTTTCAAAGCCCA
1 CACAAGTCAATGGCA-ACCCTTTCAAAGCCCA
* * * *
1595374 CACAAGTTAGTGGC-ACCTTTTTTTAAAGCCCA
1 CACAAGTCAATGGCAACC--CTTTCAAAGCCCA
* *
1595406 CGCAAGTCGATGGCAACCCTTT
1 CACAAGTCAATGGCAACCCTTT
1595428 AGAAATGACC
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
30 3 0.07
31 3 0.07
32 33 0.79
33 3 0.07
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (31 bp):
CACAAGTCAATGGCAACCCTTTCAAAGCCCA
Found at i:1596538 original size:20 final size:20
Alignment explanation
Indices: 1596496--1596639 Score: 76
Period size: 20 Copynumber: 6.7 Consensus size: 20
1596486 TTTTACCTTG
* *
1596496 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTTTAA
1596516 ATGTATCGATACAT-TCTTAA
1 ATGTATCGATACATGT-TTAA
*
1596536 ATGTATCGATATATTCTATCTTTTACCTA
1 ATGTATCG--ATA--C-AT-GTTTA---A
* *
1596565 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATGTTTAA
* *
1596586 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTTTAA
* *
1596606 ATGTATTGATACAT-TCTTCA
1 ATGTATCGATACATGT-TTAA
*
1596626 ATGTATTGATACAT
1 ATGTATCGATACAT
1596640 CTAGTTAAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.02
20 70 0.69
21 1 0.01
22 3 0.03
24 5 0.05
25 4 0.04
26 4 0.04
27 1 0.01
28 3 0.03
29 1 0.01
30 8 0.08
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTAA
Found at i:1596609 original size:70 final size:70
Alignment explanation
Indices: 1596486--1596622 Score: 186
Period size: 70 Copynumber: 2.0 Consensus size: 70
1596476 AAAGTCACAT
* * * *
1596486 TTTTACCTTGATGTATCGATACATGTATGAATGTATCGATACATTCTTAAATGTATCGATATATT
1 TTTTACCTAGATGTATCGATACATGTATCAATGTATCGATACATTCATAAATGTATCGATACATT
1596551 CTATC
66 CTATC
* * * *
1596556 TTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGT-ATGAATGTATTGATACAT
1 TTTTACCTAGATGTATCGATACATGTATCAATGTATCGATACAT-TCATAAATGTATCGATACAT
1596620 TCT
65 TCT
1596623 TCAATGTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 57 0.98
71 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (70 bp):
TTTTACCTAGATGTATCGATACATGTATCAATGTATCGATACATTCATAAATGTATCGATACATT
CTATC
Found at i:1600085 original size:15 final size:15
Alignment explanation
Indices: 1600055--1600088 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1600045 ACAAAATAGC
1600055 TAAAAAAATTTATTT
1 TAAAAAAATTTATTT
1600070 TAAAAGAAATTT-TTT
1 TAAAA-AAATTTATTT
1600085 TAAA
1 TAAA
1600089 GCTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAAAAAAATTTATTT
Found at i:1600631 original size:23 final size:23
Alignment explanation
Indices: 1600588--1600631 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1600578 TCATTAATAA
* *
1600588 TAAAAATACTTATAATGATAACT
1 TAAAAATACTAATAATAATAACT
1600611 TAAAAATA-TAATAAATAATAA
1 TAAAAATACTAAT-AATAATAA
1600632 TGACTATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TAAAAATACTAATAATAATAACT
Found at i:1600826 original size:19 final size:20
Alignment explanation
Indices: 1600775--1600827 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
1600765 TTTAAGTTAC
1600775 ATAAATATTTATAA-T-TCA
1 ATAAATATTTATAATTATCA
* *
1600793 A-AAAAATTTAAAATTATCA
1 ATAAATATTTATAATTATCA
1600812 ATAAATA-TTATAATTA
1 ATAAATATTTATAATTA
1600828 CATAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 12 0.43
20 4 0.14
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAATATTTATAATTATCA
Found at i:1600834 original size:17 final size:18
Alignment explanation
Indices: 1600728--1600834 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 18
1600718 TTATCATGTA
1600728 ATAA-TACATAAAACTATTT
1 ATAATTACAT-AAA-TATTT
* *
1600747 ACAATTACATATATTTATTT
1 ATAATTACATA-A-ATATTT
1600767 -TAAGTTACATAAATATTT
1 ATAA-TTACATAAATATTT
* *
1600785 ATAATT-CAAAAAAATTT
1 ATAATTACATAAATATTT
*
1600802 AAAATTATCAATAAATA-TT
1 ATAATTA-C-ATAAATATTT
1600821 ATAATTACATAAAT
1 ATAATTACATAAAT
1600835 TATATTATCT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
17 20 0.29
18 8 0.11
19 19 0.27
20 23 0.33
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (18 bp):
ATAATTACATAAATATTT
Found at i:1600853 original size:21 final size:20
Alignment explanation
Indices: 1600709--1600856 Score: 57
Period size: 19 Copynumber: 7.5 Consensus size: 20
1600699 TTTAATTTTT
*
1600709 TTACATATATTATCATGTAATAA
1 TTACATAAATTAT-AT-T-ATAA
* *
1600732 -TACATAAAACTAT-TTACAA
1 TTACAT-AAATTATATTATAA
* *
1600751 TTACATATATT-TATTTTAA
1 TTACATAAATTATATTATAA
1600770 GTTACATAAA-TAT-TTATAA
1 -TTACATAAATTATATTATAA
** *
1600789 TT-CA-AAAAAAT-TTAAAA
1 TTACATAAATTATATTATAA
1600806 TTATCA-ATAA--ATATTATAA
1 TTA-CATA-AATTATATTATAA
*
1600825 TTACATAAATTATATTATCTA
1 TTACATAAATTATATTAT-AA
*
1600846 TTATATAAATT
1 TTACATAAATT
1600857 GTTATGGTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.03
17 11 0.11
18 9 0.09
19 28 0.29
20 24 0.25
21 12 0.12
22 5 0.05
23 5 0.05
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (20 bp):
TTACATAAATTATATTATAA
Found at i:1601190 original size:219 final size:218
Alignment explanation
Indices: 1600946--1601375 Score: 539
Period size: 219 Copynumber: 2.0 Consensus size: 218
1600936 ATACTAAAAG
* *
1600946 ATAATAAAAATTGTAATATATAAATTTATTATATTTACACAAAACTTTTG-AAAGTGGCATAAA-
1 ATAATAAAAATTGTAATACATAAATTTATTATATTTACACAAAACTTTTGTAAA-TGACA-AAAG
* *
1601009 TATATTACCAAAAGATAATAAAAAATAATATTACATATAATATTAGAATA-ATATAAATTATATT
64 TATATTACCAAAAGATAATAAAAAATAATATTACATAAAATA-TA-AATATACATAAATTATATT
* * *
1601073 ATTTCTGGCATAAGTTATTATCGCATGT-ATAGAAA-CGAGTATTACATATTTTTATTAGAATTA
127 ATCTATGGCATAAGTTATTATCACATGTAATAGAAATC-A-TATTACATATTTTTATTAGAATTA
* * *
1601136 CCCATATATATTATTTATTTATATAAATT
190 CACATATACATTATATATTTATATAAATT
* *** *
1601165 ATAATAAAAGCTT-TAATACATAAATTTATTATATTTATGTAAAACTTTTGTAAATTACAAAAGT
1 ATAATAAAA-ATTGTAATACATAAATTTATTATATTTACACAAAACTTTTGTAAATGACAAAAGT
* *
1601229 ATATTACCAATAGGTAATAAAAAATAATATTACATAAAATATAAATATTTACATAAATTATATTA
65 ATATTACCAAAAGATAATAAAAAATAATATTACATAAAATATAAATA--TACATAAATTATATTA
* * * *
1601294 TCTATTGCATAAGTTATTATCATATTTAATAGAAATTCATATTACATATTTTTATTATAATTACA
128 TCTATGGCATAAGTTATTATCACATGTAATAGAAA-TCATATTACATATTTTTATTAGAATTACA
1601359 CATATACATTATATATT
192 CATATACATTATATATT
1601376 GCACGAATCA
Statistics
Matches: 181, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
217 4 0.02
218 5 0.03
219 84 0.46
220 40 0.22
221 46 0.25
222 1 0.01
223 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (218 bp):
ATAATAAAAATTGTAATACATAAATTTATTATATTTACACAAAACTTTTGTAAATGACAAAAGTA
TATTACCAAAAGATAATAAAAAATAATATTACATAAAATATAAATATACATAAATTATATTATCT
ATGGCATAAGTTATTATCACATGTAATAGAAATCATATTACATATTTTTATTAGAATTACACATA
TACATTATATATTTATATAAATT
Done.