Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold882
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: 46338
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Found at i:2562 original size:21 final size:22
Alignment explanation
Indices: 2538--2591 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2528 TAATTATTTC
2538 AAAATTATTTTTAGCT-AAAAT
1 AAAATTATTTTTAGCTAAAAAT
* *
2559 AAAA-TATATTTAGTTAAAAAT
1 AAAATTATTTTTAGCTAAAAAT
*
2580 AATATTTATTTT
1 AA-AATTATTTT
2592 ATTTTTCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 1 0.04
23 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
AAAATTATTTTTAGCTAAAAAT
Found at i:13131 original size:12 final size:11
Alignment explanation
Indices: 13103--13128 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13093 ACACACAAAC
13103 AAAAGTAAAAA
1 AAAAGTAAAAA
13114 AAAAGTAAAAA
1 AAAAGTAAAAA
13125 AAAA
1 AAAA
13129 AGTGCAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAGTAAAAA
Found at i:14720 original size:92 final size:92
Alignment explanation
Indices: 14420--15657 Score: 1268
Period size: 92 Copynumber: 13.3 Consensus size: 92
14410 TTCAAATACC
* * *
14420 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCT
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * *
14485 TAAAGTCCACGACTCCGTGGCACCTTT
66 TAAAGTCCACAATTCAGTGGCATCTCT
* * * * * * * * *
14512 TTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCATGACTCCGTGGCACCTTT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCA--TTT
* *
14576 T-TCTTCTCAAAGCCCACAATTCACTGGCAT-T-T
61 TGTC--CT-AAAGTCCACAATTCAGTGGCATCTCT
*
14608 TGTCTTAAAGTCCACCACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
1 T-TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
*
14673 CTAAAGTCCACAATTCAGTGGCATCTCA
65 CTAAAGTCCACAATTCAGTGGCATCTCT
* *
14701 TTCTTAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * *
14766 TGAAGTCCACAATTTAGTGGCATCTCC
66 TAAAGTCCACAATTCAGTGGCATCTCT
* *
14793 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * *
14858 TAAAGTCCACGACTCCGTGGCACCTTT
66 TAAAGTCCACAATTCAGTGGCATCTCT
* * * * * * *
14885 TTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCA-TGGCACCTT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACT-CAGTGGCA--TT
* **
14948 TT-TCTTCTCAAAGCCCATGATTCAGTGGCAT-T-T
60 TTGTC--CT-AAAGTCCACAATTCAGTGGCATCTCT
14981 TGTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
1 T-TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
*
15046 CTAAAGTCCACAATTCAGTGGCATCTCC
65 CTAAAGTCCACAATTCAGTGGCATCTCT
15074 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
*
15139 TAAAGTCCACAATTCAGTGGCATCTCC
66 TAAAGTCCACAATTCAGTGGCATCTCT
* * *
15166 TTCTTAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * *
15231 TAAAGTCCACGACTCCGTGGCACCTTT
66 TAAAGTCCACAATTCAGTGGCATCTCT
* * * * * * * *
15258 TTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCGTGGCATCTTT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCAT-TTT
* * *
15322 TTCTTCTCAAAGCCCACGATTCAGTGGCAT-T-T
62 GTC--CT-AAAGTCCACAATTCAGTGGCATCTCT
* *
15354 TGTCTTAAAGTCCACGACTCAGTGGTAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTA
1 T-TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
*
15419 CTAAAGTCCACAATTCAGTGGCATCTCC
65 CTAAAGTCCACAATTCAGTGGCATCTCT
* *
15447 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * *
15512 TAAAGTCCACGACTCCGTGGCACCTTT
66 TAAAGTCCACAATTCAGTGGCATCTCT
* * * * * * * *
15539 TTCTTCTCAAAGCCCATGACTTAGTGGC-AT-TTTGTCATAAAAGTCCACAATTCAGTGGCATCT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCT-TC-TCAAAGCCCACGACTCAGTGGCAT-T
* * *
15602 CTT-TCC-AAAGTCCACGACTCAGTGGCATTTTCT
60 -TTGTCCTAAAGTCCACAATTCAGTGGCA-TCTCT
*
15635 TT-TCAAAGTCCACGACTCAGTGG
1 TTCTTAAAGTCCACGACTCAGTGG
15658 TATCAAAGTC
Statistics
Matches: 962, Mismatches: 137, Indels: 94
0.81 0.11 0.08
Matches are distributed among these distances:
91 59 0.06
92 457 0.48
93 17 0.02
94 138 0.14
95 199 0.21
96 25 0.03
97 16 0.02
98 51 0.05
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (92 bp):
TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
TAAAGTCCACAATTCAGTGGCATCTCT
Found at i:14989 original size:281 final size:274
Alignment explanation
Indices: 14420--15657 Score: 1149
Period size: 281 Copynumber: 4.4 Consensus size: 274
14410 TTCAAATACC
* * * *
14420 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCT
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATCC
* * * * * * * * * * * *
14485 TAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTCCT
66 TAAAGTCCACAATTCAGTGGCA---TCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCT
* * * * * * *
14550 -AAAGTCCATGACTCCGTGGCACCTTTT-TCTTCTCAAAGCCCACAATTCACTGGCAT-T-TTGT
128 CAAAGCCCACGACTCAGTGGCA--TTTTGTC--CT-AAAGTCCACAACTCAGTGGCATCTCCT-T
* * * * * *
14611 CTTAAAGTCCACCACTCAGTGGCAATCTCTTCTCAAAGCCCACGA-CTCAGTGGCATTTTGTCCT
187 CTCAAAGCCCACGAATCAGTGGCAATCTCTCCTCAAAGCCCACAATC-CAGTGGCATTTTGTCCT
* * *
14675 AAAGTCCACAATTCAGTGGCATCTCA
251 AAAGCCCACGATTCAGTGGCAT-T-T
*
14701 TTCTTAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATCC
1 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATCC
* *
14766 TGAAGTCCACAATTTAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
66 TAAAGTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
* * * * * *
14831 AGCCCACAATTCAGTGGCATTTTGTCCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAA
131 AGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACAACTCAGTGGCA---TCTCCTTCTCAAA
* * * * *
14896 GCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCA-TGGCACCTTTT-TCTTCTCA
193 GCCCACGAATCAGTGGCAATCTCTCCTCAAAGCCCAC-AATCCAGTGGCA--TTTTGTC--CT-A
*
14958 AAGCCCATGATTCAGTGGCATTT
252 AAGCCCACGATTCAGTGGCATTT
*
14981 TGTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTC
1 T-TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATC
15046 CTAAAGTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
65 CTAAAGTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
* * *
15111 AAGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCTCCTTCTTAAAGT
130 AAGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACAACTCAGTGGCATCTCCTTCTCAAAGC
* * * * *
15176 CCACGACTTAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCCTAAAGTCCAC
195 CCACGAATCAGTGGCAATCTCTCCTCAAAGCCCACAATCCAGTGGCATTTTGTCCTAAAGCCCAC
* *
15241 GACTCCGTGGCACCTTT
260 GATTCAGTGGCA--TTT
* * * * * * * *
15258 TTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCGTGGCATCTTT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCAT-TTT
* * * * *
15322 TTCTTCTCAAAGCCCACGATTCAGTGGCAT-T-TTGTCTTAAAGTCCACGACTCAGTGGTAATCT
62 ATC--CT-AAAGTCCACAATTCAGTGGCATCTCCT-TCTTAAAGTCCACGACTCAGTGGCAATCT
* *
15385 CTTCTCAAAGCCCACGACTCAGTGGCATTTTGTACTAAAGTCCACAATTCAGTGGCATCTCCTTC
123 CTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACAACTCAGTGGCATCTCCTTC
* * * * *
15450 TTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCCTAA
188 TCAAAGCCCACGAATCAGTGGCAATCTCTCCTCAAAGCCCACAATCCAGTGGCATTTTGTCCTAA
* * *
15515 AGTCCACGACTCCGTGGCACCTTT
253 AGCCCACGATTCAGTGGCA--TTT
* * * * * * * *
15539 TTCTTCTCAAAGCCCATGACTTAGTGGC-AT-TTTGTCATAAAAGTCCACAATTCAGTGGCATCT
1 TTC-T-T-AAAGTCCACGACTCAGTGGCAATCTCT-TC-TCAAAGCCCACGACTCAGTGGCAT-T
* * * *
15602 CTT-TCC-AAAGTCCACGACTCAGTGGCATTTTCTT-TTCAAAGTCCACGACTCAGTGG
60 -TTATCCTAAAGTCCACAATTCAGTGGCATCTCCTTCTT-AAAGTCCACGACTCAGTGG
15658 TATCAAAGTC
Statistics
Matches: 824, Mismatches: 98, Indels: 72
0.83 0.10 0.07
Matches are distributed among these distances:
275 33 0.04
276 6 0.01
277 13 0.02
278 126 0.15
279 112 0.14
280 12 0.01
281 458 0.56
282 62 0.08
283 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (274 bp):
TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTATCC
TAAAGTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAA
AGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACAACTCAGTGGCATCTCCTTCTCAAAGCC
CACGAATCAGTGGCAATCTCTCCTCAAAGCCCACAATCCAGTGGCATTTTGTCCTAAAGCCCACG
ATTCAGTGGCATTT
Found at i:15103 original size:373 final size:373
Alignment explanation
Indices: 14418--15657 Score: 2062
Period size: 373 Copynumber: 3.3 Consensus size: 373
14408 TCTTCAAATA
14418 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
1 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
*
14483 CTTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
66 CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
* * *
14548 CTAAAGTCCATGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAATTCACTGGCATTTTGTCT
131 CTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTGTCT
*
14613 TAAAGTCCACCACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
196 TAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
* *
14678 GTCCACAATTCAGTGGCATCTCATTCTTAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGCC
261 GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
* * *
14743 CACGACTCAGTGGCATTTTATCCTGAAGTCCACAATTTAGTGGCATCT
326 CACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCT
14791 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
1 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
14856 CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
66 CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
* *
14921 CTAAAGTCCACGACTCCATGGCACCTTTTTCTTCTCAAAGCCCATGATTCAGTGGCATTTTGTCT
131 CTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTGTCT
14986 TAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
196 TAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
15051 GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
261 GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
15116 CACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCT
326 CACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCT
*
15164 CCTTCTTAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
1 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
15229 CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
66 CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
*
15294 CTAAAGTCCACGACTCCGTGGCATCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTGTCT
131 CTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTGTCT
* *
15359 TAAAGTCCACGACTCAGTGGTAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTACTAAA
196 TAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
15424 GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
261 GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
* * * * * *
15489 CACAATTCAGTGGCATTTTGTCCTAAAGTCCACGACTCCGTGGCACCTTTT
326 CACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCA---TCT
* * * * * * * *
15540 TCTTCTCAAAGCCCATGACTTAGTGGC-AT-TTTGTCATAAAAGTCCACAATTCAGTGGCATCTC
1 CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCT-TC-TCAAAGCCCACAATTCAGTGGCAT-T-
* * * *
15603 TT-TCC-AAAGTCCACGACTCAGTGGCA---TTTTCTTTTCAAAGTCCACGACTCAGTGG
62 TTGTCCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGG
15658 TATCAAAGTC
Statistics
Matches: 825, Mismatches: 35, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
373 746 0.90
374 2 0.00
375 4 0.00
376 67 0.08
377 4 0.00
378 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (373 bp):
CCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGT
CCTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGAATCAGTGGCATTTTGTC
CTAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTGTCT
TAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAA
GTCCACAATTCAGTGGCATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCC
CACGACTCAGTGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCT
Found at i:15566 original size:64 final size:61
Alignment explanation
Indices: 15018--15657 Score: 245
Period size: 61 Copynumber: 10.3 Consensus size: 61
15008 ATCTCTTCTC
* * * * * * * *
15018 AAAGCCCACGACTCAGTGGCATTTTGTCCT-AAAGTCCACAATTCAGTGGCATCTCCT-TCTT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCAT-T-TTGTCAT
* * *
15079 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCAT
* * * * * *
15140 AAAGTCCACAATTCAGTGGC-ATCTCCTTCTTAAAGTCCACGACTT-AGTGGCAATCTCT-TC-T
1 AAAGTCCACGACTCAGTGGCAATCT-CTTCTCAAAGCCCAC-AATTCAGTGGC-AT-TTTGTCAT
* * * * * * * * * * * *
15201 CAAAGCCCACAATTCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCGTGGCACCTTTT-TCTTC
1 -AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCA--TTTTGTC--A
15264 T
61 T
* * * * * * * * * * * *
15265 CAAAGCCCACGAATCAGTGGCATTTTGTCCT-AAAGTCCACGACTCCGTGGCATCTTTTTCTTCT
1 -AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCAT-TTTGTC--AT
* * * * * * * * *
15329 CAAAGCCCACGATTCAGTGGC-AT-TTTGTCTTAAAGTCCACGACTCAGTGGTAATCTCT-TC-T
1 -AAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGCCCACAATTCAGTGG-CAT-TTTGTCAT
* * * * * * * *
15390 CAAAGCCCACGACTCAGTGGCATTTTGTACT-AAAGTCCACAATTCAGTGGCATCTCCT-TCTT
1 -AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCAT-T-TTGTCAT
*
15452 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCCT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCAT
* * * * *
15513 AAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCATGACTT-AGTGGCATTTTGTCAT
1 AAAGTCCACGACTCAGTGGCA---ATCTCTTCTCAAAGCCCA-CAATTCAGTGGCATTTTGTCAT
* * * * * * **
15577 AAAAGTCCACAATTCAGTGGC-ATCTCTT-TCCAAAGTCCACGACTCAGTGGCATTTTCTTTT
1 -AAAGTCCACGACTCAGTGGCAATCTCTTCT-CAAAGCCCACAATTCAGTGGCATTTTGTCAT
15638 CAAAGTCCACGACTCAGTGG
1 -AAAGTCCACGACTCAGTGG
15658 TATCAAAGTC
Statistics
Matches: 473, Mismatches: 74, Indels: 64
0.77 0.12 0.10
Matches are distributed among these distances:
60 14 0.03
61 219 0.46
62 75 0.16
63 12 0.03
64 128 0.27
65 25 0.05
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCAT
Found at i:15680 original size:23 final size:23
Alignment explanation
Indices: 15637--15680 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15627 CATTTTCTTT
* *
15637 TCAAAGTCCACGACTCAGTGGTA
1 TCAAAGTCCACAACCCAGTGGTA
*
15660 TCAAAGTCCACAACCCCGTGG
1 TCAAAGTCCACAACCCAGTGG
15681 CACCTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (23 bp):
TCAAAGTCCACAACCCAGTGGTA
Found at i:15694 original size:156 final size:152
Alignment explanation
Indices: 15384--15716 Score: 408
Period size: 156 Copynumber: 2.2 Consensus size: 152
15374 AGTGGTAATC
15384 TCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTACTAAAGTCCACAATTCAGTGGCATCTCCTT
1 TCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTACTAAAGTCCACAATTCAGTGGCATCTCCTT
* * *
15449 CTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCCTA
66 CTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGG----TTATCCTA
* *
15514 AAGTCCACGACTCCGTGGCACCTTTT
127 AAGTCCACAACCCCGTGGCACCTTTT
* * *
15540 TCTTCTCAAAGCCCATGACTTAGTGGCATTTTGT-CATAAAAGTCCACAATTCAGTGGCATCTCT
1 TCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTAC-T-AAAGTCCACAATTCAGTGGCATCTCC
* * * * *
15604 TTC-CAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGG-TAT-C-AAA
64 TTCTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGTTATCCTAAA
15665 GTCCACAACCCCGTGGCACCTTATT
129 GTCCACAACCCCGTGGCACCTT-TT
* * * *
15690 CCTT-TCAAAGTCCACAACTCTGTGGCA
1 TCTTCTCAAAGCCCACGACTCAGTGGCA
15717 CCTTCTTTTC
Statistics
Matches: 155, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
149 41 0.26
150 6 0.04
151 2 0.01
155 1 0.01
156 77 0.50
157 28 0.18
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (152 bp):
TCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTACTAAAGTCCACAATTCAGTGGCATCTCCTT
CTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGTTATCCTAAAGT
CCACAACCCCGTGGCACCTTTT
Found at i:15737 original size:149 final size:153
Alignment explanation
Indices: 15385--15753 Score: 360
Period size: 156 Copynumber: 2.4 Consensus size: 153
15375 GTGGTAATCT
* * ** * *
15385 CTTCTCAAAGCCCACGACTCAGTGGCATTTTGT-ACT-AAAGTCCACAATTCAGTGGCATCTCCT
1 CTTCTCAAAGCCCACAACTTAGTGGCACCTTCTCA-TAAAAGTCCACAATTCAGTGGCATCTCTT
* * *
15448 TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAATTCAGTGGCATTTTGTCCT
65 TCTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGG----TTATCCT
* * *
15513 AAAGTCCACGACTCCGTGGCACCTTTTT
126 AAAGTCCACAACCCCGTGGCACCTTTTC
** ** *
15541 CTTCTCAAAGCCCATGACTTAGTGGCATTTTGTCATAAAAGTCCACAATTCAGTGGCATCTCTTT
1 CTTCTCAAAGCCCACAACTTAGTGGCACCTTCTCATAAAAGTCCACAATTCAGTGGCATCTCTTT
* * * * *
15606 C-CAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGG-TAT-C-AAAGT
66 CTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGTTATCCTAAAGT
15667 CCACAACCCCGTGGCACCTTATTC
131 CCACAACCCCGTGGCACCTT-TTC
* ** * * *
15691 CTT-TCAAAGTCCACAACTCT-GTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCA-CTCTT
1 CTTCTCAAAGCCCACAACT-TAGTGGCACCTTCTCATAAAAGTCCACAATTCAGTGGCATCTCTT
15753 T
65 T
15754 TTCCCTTTTA
Statistics
Matches: 184, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
148 6 0.03
149 64 0.35
150 7 0.04
151 2 0.01
156 76 0.41
157 29 0.16
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (153 bp):
CTTCTCAAAGCCCACAACTTAGTGGCACCTTCTCATAAAAGTCCACAATTCAGTGGCATCTCTTT
CTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGTTATCCTAAAGT
CCACAACCCCGTGGCACCTTTTC
Found at i:15774 original size:36 final size:33
Alignment explanation
Indices: 15662--16191 Score: 413
Period size: 36 Copynumber: 15.8 Consensus size: 33
15652 CAGTGGTATC
* * *
15662 AAAGTCCACAACCCCGTGGCACCTTATTCCTTTC
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
15696 AAAGTCCACAACTCTGTGGCACC---TT-CTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
15726 CAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTT
1 -AAAG-CCACAACTCCGTGGCAC-CTTTTT-CCTTTT
15763 AAAGCCTACAACTCCGTGGCACACTTTGTTCCTTTT
1 AAAGCC-ACAACTCCGTGGCAC-CTTT-TTCCTTTT
* *
15799 -AAGTCCACGACTCCGTGGCACC---TTCCTTTC
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
** *
15829 AAAGTCTGCGACTCCGTGGCACC---TT-CTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
15859 CAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 -AAAG-CCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
15896 AAAGTCCATAACTCCGTGGCACCTTATTCCTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
15930 -AAGTCCACGACTCCGTGGCACC---TT-CTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
15959 CAAAGCCTACAACTCCGTGGCACTTTTTTTCCCTTTT
1 -AAAGCC-ACAACTCCGTGGCAC-CTTTTT-CCTTTT
15996 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAG-CCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
16032 AAAGTCCACAACTCCGTGCCACCTTGTTCCTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
*
16066 -AAGTCCACGACTCCGTGGCACC---TT-CTTTT
1 AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
16095 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAG-CCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
16132 CAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 -AAAG-CCACAACTCCGTGGCACCTTTTTCCTTTT
* *
16167 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAG-CCACAACTCCGTGGCACCTTT
16192 CACCCTTTCA
Statistics
Matches: 422, Mismatches: 38, Indels: 73
0.79 0.07 0.14
Matches are distributed among these distances:
29 10 0.02
30 21 0.05
31 97 0.23
32 3 0.01
33 61 0.14
34 34 0.08
35 43 0.10
36 106 0.25
37 47 0.11
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
AAAGCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:15959 original size:100 final size:99
Alignment explanation
Indices: 15660--16157 Score: 411
Period size: 100 Copynumber: 5.0 Consensus size: 99
15650 CTCAGTGGTA
* * * *
15660 TCAAAGTCC-ACAACCCCGTGGCAC-CTTATT-CCTTTCAAAGTCCACAACTCTGTGGCACC--T
1 TCAAAG-CCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTT
* * *
15720 T-CTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTT
65 TCCTTTT--AAGTCCACGACTCCGTGGCAC-C---TT--CTTT
* *
15762 T-AAAGCCTACAACTCCGTGGCACACTTTGTT-CCTTTT-AAGTCCACGACTCCGTGGCACC--T
1 TCAAAGCCTACAACTCCGTGGCACTCTTT-TTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTT
* **
15822 TCCTTTCAAAGTCTGCGACTCCGTGGCACCTTCTTT
65 TCCTTT-TAAGTCCACGACTCCGTGGCACCTTCTTT
* * *
15858 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGTCCATAACTCCGTGGCACCTTAT
1 TCAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTT-T
15923 TCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
65 TCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
* *
15958 TCAAAGCCTACAACTCCGTGGCACTTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TCAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCAC-C-TT
* * *
16023 TTCCCTTTTAAAGTCCACAACTCCGTGCCACCTTGTTCCT
64 TT-CCTTTT-AAGTCCACGACTCCGTGGCACCTTCTT--T
** * *
16063 TTTAAGTCC-ACGACTCCGTGGCAC-C---TT--CTTTTCAAAGCCCACAACTCCGTGGCACTCT
1 TCAAAG-CCTACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCAC-C-
* *
16121 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
62 TTTT-CCTTTT--AAGTCCACGACTCCGTGGCACCTT
16158 GTTCCTTTTA
Statistics
Matches: 343, Mismatches: 33, Indels: 41
0.82 0.08 0.10
Matches are distributed among these distances:
96 7 0.02
97 30 0.09
98 22 0.06
99 5 0.01
100 119 0.35
101 54 0.16
102 50 0.15
103 35 0.10
105 19 0.06
106 2 0.01
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (99 bp):
TCAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
Found at i:16055 original size:136 final size:136
Alignment explanation
Indices: 15721--16183 Score: 685
Period size: 136 Copynumber: 3.4 Consensus size: 136
15711 GTGGCACCTT
*
15721 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTTAAAG-CCTACAACTCCGTGGCAC
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCC-ACAACTCCGT-GC-C
* * * * *
15785 ACTTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCTGCGACTCCGTGGCA
63 ACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCTACAACTCCGTGGCA
*
15850 C---CTT--
128 CTTTTTTCC
* * *
15854 CTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGTCCATAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGCCACC
*
15919 TTATTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCTACAACTCCGTGGCACTT
66 TTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCTACAACTCCGTGGCAC-T
15984 TTTTTCC
130 TTTTTCC
15991 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGCCACC
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGCCACC
*
16055 TTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTC
66 TTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCTACAACTCCGTGGCACT-
16120 TTTTTCC
130 TTTTTCC
* *
16127 CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTGTT-CCTTTT-AAGTCCACAACTTCGTG
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTG
16184 GCATCTTTCA
Statistics
Matches: 304, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
131 61 0.20
132 1 0.00
133 54 0.18
134 18 0.06
135 9 0.03
136 134 0.44
137 27 0.09
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (136 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGCCACC
TTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCTACAACTCCGTGGCACTT
TTTTCC
Found at i:16244 original size:33 final size:33
Alignment explanation
Indices: 16193--16329 Score: 201
Period size: 33 Copynumber: 4.2 Consensus size: 33
16183 GGCATCTTTC
16193 ACCCTT-TC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
16224 A-CCTTCTTCTAAAGCTCACACAAGTCGGTGGCA
1 ACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
*
16257 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
16289 ATCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
16322 ACCCTTCT
1 ACCCTTCT
16330 AAGCCCAATA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
30 4 0.04
31 1 0.01
32 28 0.30
33 58 0.62
34 2 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:16246 original size:70 final size:67
Alignment explanation
Indices: 16080--16246 Score: 153
Period size: 70 Copynumber: 2.4 Consensus size: 67
16070 CCACGACTCC
* * *
16080 GTGGCACCTTCTTTTCAAAGC-CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAG-CC-CAC
1 GTGGCACCTTCTTCT-AAAGCTCCACAACTTCGTGGCA-TC-TTTACCC-TTTCAAAGCCCACAC
* *
16142 AACTCC
62 AAGTCG
* *
16148 GTGGCACCTTGTTCCTTTTAAG-TCCACAACTTCGTGGCATCTTTCACCCTTTCAAAGCCCACAC
1 GTGGCACCTTCTT-C--TAAAGCTCCACAACTTCGTGGCATCTTT-ACCCTTTCAAAGCCCACAC
16212 AAGTCG
62 AAGTCG
16218 GTGGCAACCTTCTTCTAAAGCTCACACAA
1 GTGGC-ACCTTCTTCTAAAGCTC-CACAA
16247 GTCGGTGGCA
Statistics
Matches: 80, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
68 27 0.34
69 9 0.11
70 36 0.45
71 8 0.10
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.29
Consensus pattern (67 bp):
GTGGCACCTTCTTCTAAAGCTCCACAACTTCGTGGCATCTTTACCCTTTCAAAGCCCACACAAGT
CG
Found at i:16286 original size:65 final size:64
Alignment explanation
Indices: 16193--16336 Score: 213
Period size: 65 Copynumber: 2.2 Consensus size: 64
16183 GGCATCTTTC
* *
16193 ACCCTT-TCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCTAAAGCTCACACAAGTCGGTGGC
1 ACCCTTCT-AAAGCCCACACAAGTCGGTGGCAATCATTC-TCTAAAGCCCACACAAGTCGGTGGC
16256 A
64 A
*
16257 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCAATCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TCTAAAGCCCACACAAGTCGGTGGCAATCATTCTCTAAAGCCCACACAAGTCGGTGGCA
16322 ACCCTTCT-AAGCCCA
1 ACCCTTCTAAAGCCCA
16337 ATATAGCTGG
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
63 7 0.09
64 8 0.11
65 54 0.73
66 5 0.07
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.20
Consensus pattern (64 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCAATCATTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:16455 original size:43 final size:43
Alignment explanation
Indices: 16375--16735 Score: 402
Period size: 43 Copynumber: 8.0 Consensus size: 43
16365 GCACCTTCTT
* *
16375 CTTTAAGTCCAATGTAG--GGCGTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
16416 CTTTAAGTCCAATATCGCTGGTCTTGAATCAGCATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
16460 TTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAT
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
16508 CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----C
*
16556 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGTCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
16601 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
16648 TTCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
16693 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
16736 ATTTTCCATC
Statistics
Matches: 275, Mismatches: 24, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
41 15 0.05
43 140 0.51
44 1 0.00
45 2 0.01
47 1 0.00
49 77 0.28
50 39 0.14
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:16534 original size:92 final size:92
Alignment explanation
Indices: 16324--16792 Score: 672
Period size: 92 Copynumber: 5.1 Consensus size: 92
16314 CGGTGGCAAC
* *
16324 CCTTCTAAGCCCAATATAGCTGGCCTTGAATAAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
*
16389 TAG--GGCGTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
16415 CCTTTAAGTCCAATATCGCTGGTCTTGAATCAGCATATTGGCATCTTTTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
16480 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * *
16507 TCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTTAAGTCCAATA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CTTCTTTAAGTCCAATG
*
16572 TAGCTGGCCTTGAATCAGCACATTGTCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
16600 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
16665 AACTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
16692 CCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CTTCTTTAAGTCCAA
* *
16757 TGTAGCTGGCTTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
16787 TCCTTT
1 -CCTTT
16793 TTCTCATCTT
Statistics
Matches: 338, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
90 57 0.17
91 4 0.01
92 147 0.43
93 83 0.25
94 2 0.01
95 40 0.12
96 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:16637 original size:22 final size:22
Alignment explanation
Indices: 16569--16637 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
16559 TTTAAGTCCA
16569 ATATAGCTGGCCTTGAATCAGC
1 ATATAGCTGGCCTTGAATCAGC
* * ** *
16591 ACATTG-TCACCTTTAAGTC--C
1 ATATAGCTGGCCTTGAA-TCAGC
16611 AATATAGCTGGCCTTGAATCAGC
1 -ATATAGCTGGCCTTGAATCAGC
16634 ATAT
1 ATAT
16638 TGGCACCTTC
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 17 0.53
23 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (22 bp):
ATATAGCTGGCCTTGAATCAGC
Found at i:16654 original size:185 final size:185
Alignment explanation
Indices: 16324--16792 Score: 692
Period size: 185 Copynumber: 2.5 Consensus size: 185
16314 CGGTGGCAAC
* * * *
16324 CCTTCTAAGCCCAATATAGCTGGCCTTGAATAAGCATATTGGCACCTT-CTTCTTTAAGTCCAAT
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAAT
* * * *
16388 GTAG--GGCGTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGTCTTGAATCAGCAT
65 GTAGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
16451 ATTGGCATCTTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
130 ATTGGCACCTTCTTCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA
* * * * *
16507 TCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTTAAGTCCAATA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATG
*
16572 TAGCTGGCCTTGAATCAGCACATTGTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
16637 TTGGCACCTTCTTCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA
131 TTGGCACCTTCTTCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA
* * *
16692 CCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTTCCATCTTTAAGTCCAA
*
16757 TGTAGCTGGCTTTGAATCAGCACATTGACATCCTTT
64 TGTAGCTGGCCTTGAATCAGCACATTGACA-CCTTT
16793 TTCTCATCTT
Statistics
Matches: 254, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
182 37 0.15
183 21 0.08
185 144 0.57
187 47 0.19
188 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (185 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
TTGGCACCTTCTTCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA
Found at i:16772 original size:52 final size:54
Alignment explanation
Indices: 16693--17106 Score: 188
Period size: 52 Copynumber: 7.8 Consensus size: 54
16683 ACATTGGCAC
* *
16693 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * * * *
16745 CTTTAAGTTCAATGTAGCTGGCTTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACA-CCATTTTCTCAT
* * ** * * * *
16800 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATT-G-A-C---A-C-C-ATT-T--TC-TC
16865 AT
53 AT
* * * *
16867 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----T-TCAT
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * * *
16916 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAATG---GCA------C--
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * * * *
16959 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC--TTTGTCAT
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * * * ** *
17011 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTC--TTTGTCAT
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * ** *
17063 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC
1 CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACC
17107 TTCATCTTTA
Statistics
Matches: 297, Mismatches: 39, Indels: 52
0.77 0.10 0.13
Matches are distributed among these distances:
43 35 0.12
45 1 0.00
46 2 0.01
49 39 0.13
50 1 0.00
51 1 0.00
52 124 0.42
54 6 0.02
55 32 0.11
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
61 4 0.01
62 1 0.00
63 3 0.01
64 2 0.01
66 3 0.01
67 38 0.13
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
Found at i:16923 original size:266 final size:263
Alignment explanation
Indices: 16601--17104 Score: 785
Period size: 266 Copynumber: 1.9 Consensus size: 263
16591 ACATTGTCAC
*
16601 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
16666 ACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATT
66 ACTGGCCTTGAATCAGCACAATGGCACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATT
* * *
16731 GGCACATTT-TCCATCTTTAAGTTCAATGTAGCTGGCTTTGAATCAGCACATTGACATCCTTTTT
131 GGCACATTTGT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACAT-C--TTT
*
16795 CTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCA
192 CTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACACATTGGCATCTTTATCACTTTTCTCA
16860 TCTTCAT
257 TCTTCAT
*
16867 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
16932 GCTGGCCTTGAATCAGCACAATGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATT
66 ACTGGCCTTGAATCAGCACAATGGCACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATT
* * * * * *
16997 GGCACCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
131 GGCACATTTGTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCTTTCTCA
* * * *
17062 TCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
196 TCTTTAAGCCCAATATCGTTGGCCATGAATCAACACATTGGCA
17105 CCTTCATCTT
Statistics
Matches: 217, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 44 0.20
265 1 0.00
266 171 0.79
267 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (263 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
ACTGGCCTTGAATCAGCACAATGGCACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATT
GGCACATTTGTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCTTTCTCA
TCTTTAAGCCCAATATCGTTGGCCATGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
CAT
Found at i:16957 original size:116 final size:119
Alignment explanation
Indices: 16742--16963 Score: 261
Period size: 116 Copynumber: 1.9 Consensus size: 119
16732 GCACATTTTC
* * *
16742 CATCTTTAAGTTCAATGTAGCTGGCTTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC---TTCTCATCTTTAAG
* * * * *
16807 CCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
63 CCCAATATAGCTGGCCATGAATCAACACAATGGCACCTTTATCACTTTTCTCATCTT
* * * *
16864 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CC-T-TCATCTTTAAGTCC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCATCTTTAAGCCC
* * *
16926 AATGTAGCTGGCCTTGAATCAGCACAATGGCACCTTTA
66 AATATAGCTGGCCATGAATCAACACAATGGCACCTTTA
16964 AGTCCAATAT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
116 43 0.51
117 1 0.01
121 2 0.02
122 39 0.46
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (119 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCATCTTTAAGCCC
AATATAGCTGGCCATGAATCAACACAATGGCACCTTTATCACTTTTCTCATCTT
Found at i:16979 original size:43 final size:43
Alignment explanation
Indices: 16916--17005 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
16906 GCACCTTCAT
*
16916 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAATGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAATGGCAC
* * *
16959 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAATGGCAC
17002 CTTT
1 CTTT
17006 GTCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAATGGCAC
Found at i:18015 original size:32 final size:32
Alignment explanation
Indices: 17960--18053 Score: 170
Period size: 32 Copynumber: 2.9 Consensus size: 32
17950 TTCAACGATT
17960 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
17993 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
18025 TGTATCGATACATAAGTTTTGTATCGATA
1 TGTATCGATACATAAGTGTTGTATCGATA
18054 GATTATAAGC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:18017 original size:19 final size:18
Alignment explanation
Indices: 17958--18053 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 18
17948 ATTTCAACGA
17958 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
17977 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
17993 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
18009 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
18025 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
18041 TTTTGTATCGATA
1 -TTTGTATCGATA
18054 GATTATAAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 22 0.34
20 12 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:18114 original size:13 final size:13
Alignment explanation
Indices: 18096--18120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18086 ACATTTCAAA
18096 TGTATCGATACAT
1 TGTATCGATACAT
18109 TGTATCGATACA
1 TGTATCGATACA
18121 CTAATCTTTG
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:24434 original size:29 final size:32
Alignment explanation
Indices: 24402--24465 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 32
24392 ATTTTTAACC
*
24402 TTTTTAA-GGTTTTTTTGT-AAT-TTAAAAAA
1 TTTTTAAGGGTTTATTTGTAAATATTAAAAAA
24431 -TTTTAAGGGTTTATTTGTAAATATTAAAAAA
1 TTTTTAAGGGTTTATTTGTAAATATTAAAAAA
24462 TTTT
1 TTTT
24466 GTTCCAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.20
29 10 0.33
30 3 0.10
31 8 0.27
32 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
TTTTTAAGGGTTTATTTGTAAATATTAAAAAA
Found at i:27311 original size:22 final size:24
Alignment explanation
Indices: 27275--27329 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 24
27265 ATACAATTTA
*
27275 AAATATTTAATT-TTTT-ATAT-T
1 AAATATATAATTATTTTAATATAT
27296 AAA-ATATAATTATTTTAATATAT
1 AAATATATAATTATTTTAATATAT
27319 AAATATATAAT
1 AAATATATAAT
27330 AAAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 4 0.14
23 4 0.14
24 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATATATAATTATTTTAATATAT
Found at i:28430 original size:13 final size:13
Alignment explanation
Indices: 28412--28442 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
28402 ATTAATTGTG
*
28412 ATAAATATTAATT
1 ATAAATATTAATA
28425 ATAAATATTAATA
1 ATAAATATTAATA
28438 ATAAA
1 ATAAA
28443 AAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATATTAATA
Found at i:29198 original size:126 final size:126
Alignment explanation
Indices: 28889--29481 Score: 725
Period size: 126 Copynumber: 4.7 Consensus size: 126
28879 TTCCTGTATC
* * *
28889 GGTTGCTCGA-TTATTCCTTGATGTCTT-GACGGTGCTGGCTTAGGAGAAGGTGGTGATCTTGGG
1 GGTTGCTC-ATTTGTTCCTTGATGT-TTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGG
* * * * * * * *
28952 GAT-TTTCCAAAATCAGCAGCAATGGATTCAAACTGAAAATA-TGGAGTTTCAGACCTTTGTTG-
64 G-TCTTTCCGAAGTTAGTAACCATGGATTCAAACTGAAAA-ACTGGA---ACTG--CTTT-TTGA
*
29014 TGT-C-
121 TTTACA
* * * * *
29018 GGCTGCTCAATTGTTCCTTGATTTTTCGGCGGTGCTGGCTTTGGAGAAGGTGGTGATCTTGGGGT
1 GGTTGCTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGGGT
** *
29083 CTTTCCGAAGTTAGTAACCATGGATTTGAACTGAAAAACTGGAGCTG-TTCTTTGATTTACA
66 CTTTCCGAAGTTAGTAACCATGGATTCAAACTGAAAAACTGGAACTGCTT-TTTGATTTACA
* *
29144 GGTTGTTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGAGT
1 GGTTGCTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGGGT
* * *
29209 CTGTCCGAAGCTAGTAACCATGGATTCAAACTGAAAAACTGGAACCGCTTTTTGATTTACA
66 CTTTCCGAAGTTAGTAACCATGGATTCAAACTGAAAAACTGGAACTGCTTTTTGATTTACA
* * *
29270 GGTTGCTCATTTGTTCCTTGATGTTTCGATGGCGCTGGCTCTGGAGAAGGTGGTGATTTTGGGGT
1 GGTTGCTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGGGT
*
29335 CTTTCCGAAGCTAGTAACCATGGATTCAAACTGAAAAACTGGAACTGCTTTTTGATTTACA
66 CTTTCCGAAGTTAGTAACCATGGATTCAAACTGAAAAACTGGAACTGCTTTTTGATTTACA
** * *
29396 GGTTGCTCATGGGTTCCTTGATGTTTCGATGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGTGGT
1 GGTTGCTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGGGT
*
29461 CTTTCCGAAGTCAGTAACCAT
66 CTTTCCGAAGTTAGTAACCAT
29482 AGAAATTAAA
Statistics
Matches: 412, Mismatches: 43, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
123 5 0.01
124 3 0.01
125 1 0.00
126 310 0.75
127 2 0.00
128 5 0.01
129 86 0.21
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (126 bp):
GGTTGCTCATTTGTTCCTTGATGTTTCGACGGTGCTGGCTTTGGAGAAGGTGGTGATTTTGGGGT
CTTTCCGAAGTTAGTAACCATGGATTCAAACTGAAAAACTGGAACTGCTTTTTGATTTACA
Found at i:29903 original size:198 final size:198
Alignment explanation
Indices: 29478--30073 Score: 1104
Period size: 198 Copynumber: 3.0 Consensus size: 198
29468 AAGTCAGTAA
* *
29478 CCATAGAAATTAAACTATTGCATGAGCTTCCCCCTGCACAAGATGATGAAATCGGTGTTTCTGGG
1 CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
29543 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGG-GG
66 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGGCGG
* *
29607 CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTTGACGTGGTCGCGGTCATCAAACCTTGTCA
131 CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTCGACGTGGTCGCGGTCATCAAACCCTGTCA
29672 TTT
196 TTT
29675 CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
1 CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
29740 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGGCGG
66 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGGCGG
29805 CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTCGACGTGGTCGCGGTCATCAAACCCTGTCA
131 CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTCGACGTGGTCGCGGTCATCAAACCCTGTCA
29870 TTT
196 TTT
29873 CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
1 CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
* * *
29938 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGTTGAGTGGGTGGCGATGATTTTGGAGATGGCGG
66 TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGGCGG
* *
30003 CGACGGGGCGACCTTTCCTTTAATTGAAGATTCTTCGACGTGGTTGCGGTCATCAAACCCTGTCA
131 CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTCGACGTGGTCGCGGTCATCAAACCCTGTCA
30068 TTT
196 TTT
30071 CCA
1 CCA
30074 AGGTTTCTGT
Statistics
Matches: 389, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
197 125 0.32
198 264 0.68
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (198 bp):
CCATGGAAATTAAACTATTGCATGAGCTTCCCTCTGCACAAGATGATGAAATCGGTGTTTCTGGG
TTTGGAGATGGCGGAGAATTGGTGGTTACTTGATGAGTTGGTGGCGATGATTTTGGGGATGGCGG
CGACGGGGCGACCTTTCCTTTGATTGAAGATTCTTCGACGTGGTCGCGGTCATCAAACCCTGTCA
TTT
Found at i:30813 original size:17 final size:19
Alignment explanation
Indices: 30779--30815 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
30769 TTGCTAGATT
30779 TAATATTTGATAATAAAAA
1 TAATATTTGATAATAAAAA
30798 TAATATTT-AT-ATAAAAA
1 TAATATTTGATAATAAAAA
30815 T
1 T
30816 TTAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
TAATATTTGATAATAAAAA
Found at i:30820 original size:19 final size:21
Alignment explanation
Indices: 30776--30820 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
30766 ATTTTGCTAG
30776 ATTTAATATTTGATAATAAAA
1 ATTTAATATTTGATAATAAAA
30797 A--TAATATTT-AT-ATAAAA
1 ATTTAATATTTGATAATAAAA
30814 ATTTAAT
1 ATTTAAT
30821 TATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 12 0.55
21 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTAATATTTGATAATAAAA
Found at i:30837 original size:22 final size:22
Alignment explanation
Indices: 30806--30849 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30796 AATAATATTT
30806 ATATAAAAAT-TTAATTATAAAA
1 ATATAAAAATATTAA-TATAAAA
*
30828 ATATATAAATATTAATATAAAA
1 ATATAAAAATATTAATATAAAA
30850 TAATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATAAAAATATTAATATAAAA
Found at i:31420 original size:19 final size:19
Alignment explanation
Indices: 31396--31432 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31386 TCAATTAACA
31396 TAAATATAATATAAATTAT
1 TAAATATAATATAAATTAT
* *
31415 TAAATATTATATATATTA
1 TAAATATAATATAAATTA
31433 AATATATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATAATATAAATTAT
Found at i:33327 original size:22 final size:22
Alignment explanation
Indices: 33306--33346 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33296 TTTTTAATTA
33306 AATTTTAAT-TAAAAAAATATT
1 AATTTTAATATAAAAAAATATT
* *
33327 ATTTTTAATATTAAAAAATA
1 AATTTTAATATAAAAAAATA
33347 ATTTAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTTAATATAAAAAAATATT
Found at i:34701 original size:34 final size:34
Alignment explanation
Indices: 34654--34873 Score: 275
Period size: 34 Copynumber: 6.5 Consensus size: 34
34644 GGTAAAAACC
* *
34654 ACCATTTAATCAACAATGGCAACCTACCAAATCT
1 ACCATTTAATCAACAATGGTAAACTACCAAATCT
* * * *
34688 ACCATTTAGTCAACAATGGTAAGCCACCAAATCA
1 ACCATTTAATCAACAATGGTAAACTACCAAATCT
* * *
34722 ACCATTTAATCAATAATAGTAAGCTACCAAAT-T
1 ACCATTTAATCAACAATGGTAAACTACCAAATCT
* *
34755 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT
1 AC-CATTTAATCAACAATGGTAAACTACCAAATCT
* * *
34790 CCCATTTAGTCAACAATGGCAAACTACCAAATC-
1 ACCATTTAATCAACAATGGTAAACTACCAAATCT
34823 ACCCATTTAATCAACAATGGTAAACTACCAAATC-
1 A-CCATTTAATCAACAATGGTAAACTACCAAATCT
34857 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
34874 TCTCCCACTT
Statistics
Matches: 163, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
33 17 0.10
34 144 0.88
35 2 0.01
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAAACTACCAAATCT
Found at i:34832 original size:102 final size:101
Alignment explanation
Indices: 34653--34873 Score: 325
Period size: 102 Copynumber: 2.2 Consensus size: 101
34643 TGGTAAAAAC
* *
34653 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
34718 ATCAACCATTTAATCAATAATAGTAAGCTACCAAAT
66 ATCAACCATTTAATCAACAATAGTAAACTACCAAAT
** * * * *
34754 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACTACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
* *
34819 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCAACCATTTAATCAACAATAGTAAACTACCAAAT
34856 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
34874 TCTCCCACTT
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
101 16 0.15
102 89 0.85
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCAACCATTTAATCAACAATAGTAAACTACCAAAT
Found at i:39652 original size:19 final size:20
Alignment explanation
Indices: 39619--39657 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39609 TAAAAGTAAA
39619 ATCAAATCAATTTA-TATTG
1 ATCAAATCAATTTATTATTG
39638 ATCAATATCAA-TTATTATTG
1 ATCAA-ATCAATTTATTATTG
39658 GGATATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCAAATCAATTTATTATTG
Found at i:39860 original size:30 final size:31
Alignment explanation
Indices: 39826--39885 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
39816 ACTAATAATA
39826 ATTTACTATAT-TTTAAAATATTTG-ATATTT
1 ATTTACTATATGTTTAAAAT-TTTGAATATTT
* *
39856 ATTTATTTTATGTTTAAAATTTTGAATATT
1 ATTTACTATATGTTTAAAATTTTGAATATT
39886 AAATATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (31 bp):
ATTTACTATATGTTTAAAATTTTGAATATTT
Found at i:41993 original size:68 final size:68
Alignment explanation
Indices: 41867--41995 Score: 160
Period size: 68 Copynumber: 1.9 Consensus size: 68
41857 TTTTTTATAA
*
41867 TTAATTAAATTTAAAAAATTTAATAAATAATAATATATTAATTATTATTTCTTAATAAAAAATAA
1 TTAATTAAATTTAAAAAATTTAATAAATAATAAAATATTAATTATTATTTCTTAATAAAAAATAA
41932 TAT
66 TAT
*
41935 TTAATTAACTTTAAAAAA-TTACAGT-AATAAATGAAAAT-TTAATTATT-TTT-TTAGATAAAA
1 TTAATTAAATTTAAAAAATTTA-A-TAAAT-AAT-AAAATATTAATTATTATTTCTTA-ATAAAA
41995 A
61 A
41996 TTAAATTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
67 6 0.11
68 31 0.57
69 13 0.24
70 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (68 bp):
TTAATTAAATTTAAAAAATTTAATAAATAATAAAATATTAATTATTATTTCTTAATAAAAAATAA
TAT
Found at i:42700 original size:120 final size:116
Alignment explanation
Indices: 42512--42870 Score: 405
Period size: 120 Copynumber: 3.0 Consensus size: 116
42502 AAATATTATT
* *
42512 ATAATAAAAAA-AC-TTTTTA-TTTAAA-TTTTT-TTTTAAAAAAACAAGAATTAATATTTTAAT
1 ATAATAAAAAACCCTTTTTTATTTTAAATTTTTTATTTTATAAAAA-AA-AATTAATATTTTAAT
*
42572 TTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTTTTTAAAAATT
64 TTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTTTTTAAAAATA
42625 ATAATAAAAAACCCTTTTTTATTTTAAAATTTTTTATTTCTATAAAACATAATAATTAA-ATTTT
1 ATAATAAAAAACCCTTTTTTATTTT-AAATTTTTTATTT-TATAAAA-A-AA-AATTAATATTTT
* *
42689 AATTTGTTAATGTAATTTTTTAAACCTAATTAAATATTATTTTAATTTTATTAAATAATA
61 AATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTT--TTTT-TTAAA-AATA
* * *
42749 ATAATAATAAACCCTTTTATTTTTATTTAATTTTTT-TATTTAT--AAAAAAATTAATATTTTAA
1 ATAATAAAAAACCCTTTT-TTATT-TTAAATTTTTTAT-TTTATAAAAAAAAATTAATATTTTAA
* * *
42811 TTTGTTAATATAAATTTTTTAAAAGTTAATTAAATATTA-TTTTTTATTAAAAATA
63 TTTGTTAATGTAAA-TTTTT-AAACTTAATTAAATATTATTTTTTTTTTAAAAATA
42866 ATAAT
1 ATAAT
42871 TAATACATTA
Statistics
Matches: 213, Mismatches: 15, Indels: 32
0.82 0.06 0.12
Matches are distributed among these distances:
113 11 0.05
114 1 0.00
115 6 0.03
116 3 0.01
117 12 0.06
118 10 0.05
119 12 0.06
120 73 0.34
121 18 0.08
122 22 0.10
123 5 0.02
124 24 0.11
125 14 0.07
126 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (116 bp):
ATAATAAAAAACCCTTTTTTATTTTAAATTTTTTATTTTATAAAAAAAAATTAATATTTTAATTT
GTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTTTTTAAAAATA
Found at i:42928 original size:120 final size:115
Alignment explanation
Indices: 42564--42912 Score: 361
Period size: 120 Copynumber: 2.9 Consensus size: 115
42554 AAGAATTAAT
* *
42564 ATTTTAATTTGTTAATGTAAA-TTTTTAAACTTAATTAAATATTATTTTTTTTTTAAAAATTATA
1 ATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTTATTAAAAATAATA
* * * *
42628 ATAAAAAACCCTTTT-TTATTTTAAAATTTTTTATTTCTATAAAACATAATAATTAA
66 AT-TAATACCCTTTTATT-TTTT-AAATTTTTTAATT-TATAAAA-A-AATAAAT-A
*
42684 ATTTTAATTTGTTAATGT-AATTTTTTAAACCTAATTAAATATTATTTTAATTTTATTAAATAAT
1 ATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTA-TTT--TTTTATTAAA-AAT
* * *
42748 AATAA-TAATAAACCCTTTTATTTTTATTTAATTTTTTTATTTATAAAAAAATTAAT-
62 AATAATTAAT--ACCCTTTTA-TTTT-TTAAATTTTTTAATTTATAAAAAAATAAATA
* *
42804 ATTTTAATTTGTTAATATAAATTTTTTAAAAGTTAATTAAATATTA-TTTTTTATTAAAAATAAT
1 ATTTTAATTTGTTAATGTAAATTTTTT-AAACTTAATTAAATATTATTTTTTTATTAAAAATAAT
* *
42868 AATTAATA-CATTATTATTTTTTAAATTTAATTAATTTATAAAAAA
65 AATTAATACCCTT-TTATTTTTTAAATTT-TTTAATTTATAAAAAA
42913 CTGAAATAGC
Statistics
Matches: 197, Mismatches: 17, Indels: 35
0.79 0.07 0.14
Matches are distributed among these distances:
114 7 0.04
115 21 0.11
116 4 0.02
117 8 0.04
118 14 0.07
119 2 0.01
120 59 0.30
121 11 0.06
122 23 0.12
123 10 0.05
124 22 0.11
125 12 0.06
126 4 0.02
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (115 bp):
ATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTTATTAAAAATAATA
ATTAATACCCTTTTATTTTTTAAATTTTTTAATTTATAAAAAAATAAATA
Found at i:43766 original size:181 final size:184
Alignment explanation
Indices: 43444--44569 Score: 1588
Period size: 181 Copynumber: 6.2 Consensus size: 184
43434 TGATTATACC
* * * *
43444 TGAGAATTGGATTCTTTTTTAT-GGAAAAAAGAAA-AGTTGATTGATTGTAAATGTCAGACTCCA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGA-CTGATTGATTGTAAATGTCAGACTGCA
* ** *
43507 AGGATTAGACTAATACGTGAATTATATCCAAGAATC-AATTCATTTTTATAG-AAAAAAGAAA-A
65 AGGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGA
* * *
43569 TTTGATTGATTGTAAATGTCAAATTGCAAGGATTAGACTAATGCATGAATTATATA
130 -CTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
* * * * * *
43625 TGAGAATCGGATTCTTTTTTATA-AAAAAAA-AAAG-TTAACTAATTGTAAATGTTAGACTGTAA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
43687 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
66 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
*
43752 TGATTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATA
131 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
* * * * * *
43806 TGAGAATCGAATTCTTTTTTATA-AAAAAAA-AAAG-TTAACTGATTGTAAATGTTAGACTGTAA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
*
43868 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAT
66 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
* *
43933 TGATTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATC
131 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
* *
43987 TGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGTAA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
* * * *
44052 GGATTAGACTAATACATGAATTATATCTAAGAATCGGATTTTTTTTTATAGAAAAAAAGAAAAAC
66 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
* *
44117 TGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAATGTATGAATTATATA
131 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
*
44171 TGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
* * *
44236 GGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTAT----ATAAA-AAA-AC
66 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
* * * *
44295 TGATTGATTGTAAATGTCAGACTGCAAAGATTAGATTAATGTATGAATTATATC
131 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
* * * *
44349 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTATAAATTTCAAACTACAA
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
* * * *
44414 AGATTAGACTAATGCATGAATTATATCTGAAAATCGAA-T-TTTTTTATAAAAAAAAAGAAAGAC
66 GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
* *
44477 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGTATGAATTATATC
131 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
* * * *
44531 TGAGAATCAGATTTTTTTTTTTAGGAAAAAAGAAAGACT
1 TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACT
44570 ACAAAGATTA
Statistics
Matches: 874, Mismatches: 57, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
176 8 0.01
177 1 0.00
178 149 0.17
179 57 0.07
180 25 0.03
181 291 0.33
182 97 0.11
183 4 0.00
184 242 0.28
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (184 bp):
TGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAA
GGATTAGACTAATACATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGAC
TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATA
Found at i:43797 original size:92 final size:92
Alignment explanation
Indices: 43436--44569 Score: 1570
Period size: 92 Copynumber: 12.5 Consensus size: 92
43426 AATAAATATG
* * * * *
43436 ATTATACCTGAGAATTGGATTCTTTTTTAT-GGAAAAAAGAAA-AGTTGATTGATTGTAAATGTC
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGA-CTGATTGATTGTAAATGTC
* * *
43499 AGACTCCAAGGATTAGACTAATACGTGA
65 AGACTGCAAGGATTAGACTAATGCATGA
** * *
43527 ATTATATCCAAGAATC-AATTCATTTTTATAG-AAAAAAGAAA-ATTTGATTGATTGTAAATGTC
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGA-CTGATTGATTGTAAATGTC
* *
43589 AAATTGCAAGGATTAGACTAATGCATGA
65 AGACTGCAAGGATTAGACTAATGCATGA
* * * * * * *
43617 ATTATATATGAGAATCGGATTCTTTTTTATA-AAAAAAA-AAAG-TTAACTAATTGTAAATGTTA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* *
43679 GACTGTAAGGATTAGACTAATACATGA
66 GACTGCAAGGATTAGACTAATGCATGA
43706 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
*
43771 GACTGTAAGGATTAGACTAATGCATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* * * * *
43798 ATTATATATGAGAATCGAATTCTTTTTTATA-AAAAAAA-AAAG-TTAACTGATTGTAAATGTTA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* *
43860 GACTGTAAGGATTAGACTAATACATGA
66 GACTGCAAGGATTAGACTAATGCATGA
*
43887 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGATTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
*
43952 GACTGTAAGGATTAGACTAATGCATGA
66 GACTGCAAGGATTAGACTAATGCATGA
43979 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* *
44044 GACTGTAAGGATTAGACTAATACATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* * * *
44071 ATTATATCTAAGAATCGGATTTTTTTTTATAGAAAAAAAGAAAAACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* *
44136 GACTGCAAAGATTAGACTAATGTATGA
66 GACTGCAAGGATTAGACTAATGCATGA
*
44163 ATTATATATGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
44228 GACTGCAAGGATTAGACTAATGCATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* *
44255 ATTATATCTGAGAATCAAATTCTTTTTTAT----ATAAA-AAA-ACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* * *
44314 GACTGCAAAGATTAGATTAATGTATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* * *
44341 ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTATAAATTTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
* * *
44406 AACTACAAAGATTAGACTAATGCATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* *
44433 ATTATATCTGAAAATCGAA-T-TTTTTTATAAAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
*
44496 GACTGCAAGGATTAGACTAATGTATGA
66 GACTGCAAGGATTAGACTAATGCATGA
* * *
44523 ATTATATCTGAGAATC-AGATTTTTTTTTTTAGGAAAAAAGAAAGACT
1 ATTATATCTGAGAATCGA-ATTCTTTTTTATAGAAAAAAAGAAAGACT
44570 ACAAAGATTA
Statistics
Matches: 935, Mismatches: 89, Indels: 37
0.88 0.08 0.03
Matches are distributed among these distances:
86 73 0.08
87 3 0.00
88 4 0.00
89 141 0.15
90 181 0.19
91 51 0.05
92 482 0.52
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (92 bp):
ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATGTCA
GACTGCAAGGATTAGACTAATGCATGA
Found at i:44653 original size:68 final size:69
Alignment explanation
Indices: 44495--44654 Score: 277
Period size: 70 Copynumber: 2.3 Consensus size: 69
44485 TGTAAATGTC
* *
44495 AGACTGCAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTTTTTAGGAAAA
1 AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGA-TTTTTTTTATAGGAAAA
44560 AAGAA
65 AAGAA
*
44565 AGACTACAAAGATTAGACTAATGTATGAATTATATCTGAGAATCAGA-TTTTTTTATAGGAAAAA
1 AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTTATAGGAAAAA
44629 AGAA
66 AGAA
44633 AGACTACAAGGATTAGACTAAT
1 AGACTACAAGGATTAGACTAAT
44655 ACATGTATTG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
68 41 0.48
70 45 0.52
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.31
Consensus pattern (69 bp):
AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTTATAGGAAAAA
AGAA
Found at i:44696 original size:68 final size:67
Alignment explanation
Indices: 44495--44697 Score: 232
Period size: 68 Copynumber: 3.0 Consensus size: 67
44485 TGTAAATGTC
* **
44495 AGACTGCAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTTTTTAGGAAAA
1 AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTGGTT---AAAA
44560 AAGAA
63 AAGAA
*
44565 AGACTACAAAGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTATAGG--AAAA
1 AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGA-TTTTTT-T-GGTTAAAA
44628 AAGAA
63 AAGAA
** * * *
44633 AGACTACAAGGATTAGACTAATACATGTATTGTA-CATGAGAATAAGATTTCTTTTGGTTAAAAA
1 AGACTACAAGGATTAGACTAATGTATGAATTATATC-TGAGAATCAGATTT-TTTTGGTTAAAAA
44697 A
64 A
44698 AAGAAAAGTT
Statistics
Matches: 116, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
66 2 0.02
67 5 0.04
68 57 0.49
70 45 0.39
71 6 0.05
72 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (67 bp):
AGACTACAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAGATTTTTTTGGTTAAAAAAG
AA
Done.