Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 24 of 38
Found at i:3708758 original size:21 final size:20
Alignment explanation
Indices: 3708727--3708773 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
3708717 GTTAACAGCC
* *
3708727 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTAGAG
3708747 CTATGTTTCATGCATTTAGAG
1 C-ATGTTTCATGCATTTAGAG
3708768 CATGTT
1 CATGTT
3708774 CAGCACCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTAGAG
Found at i:3714393 original size:14 final size:14
Alignment explanation
Indices: 3714362--3714396 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3714352 TTTGCCATTG
**
3714362 TCAAGAAATTATTT
1 TCAAGAAATTATCA
3714376 TCAAGAAATTATCA
1 TCAAGAAATTATCA
3714390 TCAAGAA
1 TCAAGAA
3714397 CTTTTGTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (14 bp):
TCAAGAAATTATCA
Found at i:3714511 original size:28 final size:27
Alignment explanation
Indices: 3714471--3714536 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
3714461 TAAGCCCATT
*
3714471 AGTTAGTGGCACCTATTCGAAGTCCAGA
1 AGTTAGTGGCACCTATTCG-AGTCCACA
*
3714499 AGTTAGTGGCACCTTTTCGAGTCCACA
1 AGTTAGTGGCACCTATTCGAGTCCACA
3714526 A-TTAGTGGCAC
1 AGTTAGTGGCAC
3714537 ATGCTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.28
27 8 0.22
28 18 0.50
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (27 bp):
AGTTAGTGGCACCTATTCGAGTCCACA
Found at i:3714802 original size:32 final size:32
Alignment explanation
Indices: 3714757--3714936 Score: 222
Period size: 32 Copynumber: 5.6 Consensus size: 32
3714747 TTTCCTTTTA
*
3714757 AAAGCCCACACAAGCTGGTGGCAACCTTCTTC
1 AAAGCCCACACAAGTTGGTGGCAACCTTCTTC
* *
3714789 AAAGCCCATACAAGTTGGTGGCAACCTTTTTCC
1 AAAGCCCACACAAGTTGGTGGCAACCTTCTT-C
*
3714822 AAAGCCCACACAAGTTGGTGGCAACCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCTTCTTC
*
3714854 AAAGCCCACACAAGTT-GTGGCAACCCT-TTC
1 AAAGCCCACACAAGTTGGTGGCAACCTTCTTC
* * *
3714884 TAAAGCCCACACAAGGTAGTGGCAACCCTC-TC
1 -AAAGCCCACACAAGTTGGTGGCAACCTTCTTC
* *
3714916 AAAAGCCCACATAAGTCGGTG
1 -AAAGCCCACACAAGTTGGTG
3714937 ACATCTCCTT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
30 2 0.02
31 25 0.19
32 73 0.56
33 30 0.23
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTCTTC
Found at i:3714841 original size:65 final size:63
Alignment explanation
Indices: 3714757--3714931 Score: 235
Period size: 65 Copynumber: 2.7 Consensus size: 63
3714747 TTTCCTTTTA
* *
3714757 AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCATACAAGTTGGTGGCAACCTTTTTCC
1 AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCACACAAGTT-GTGGCAACC-CTTTCC
* * *
3714822 AAAGCCCACACAAGTTGGTGGCAACCTTCTTTAAAGCCCACACAAGTTGTGGCAACCCTTTCT
1 AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGTGGCAACCCTTTCC
* * * *
3714885 AAAGCCCACACAAGGTAGTGGCAACCCTC-TCAAAAGCCCACATAAGT
1 AAAGCCCACACAAGCTGGTGGCAACCTTCTTC-AAAGCCCACACAAGT
3714932 CGGTGACATC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
62 1 0.01
63 44 0.44
64 9 0.09
65 45 0.45
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (63 bp):
AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGTGGCAACCCTTTCC
Found at i:3714953 original size:63 final size:63
Alignment explanation
Indices: 3714757--3714955 Score: 188
Period size: 63 Copynumber: 3.1 Consensus size: 63
3714747 TTTCCTTTTA
* * * * * *
3714757 AAAGCCCACACAAGCTGGTGGCAACCTTCTTC-AAAGCCCATACAAGTTGGTGGCAACCTTTTTC
1 AAAGCCCACACAAGGTAGTGGCAACCCTC-TCAAAAGCCCACACAAG-TGGTGACAACC-CTTTC
*
3714821 C
63 T
* * * ** * *
3714822 AAAGCCCACACAAGTTGGTGGCAACCTTCTTTAAAGCCCACACAAGTTGTGGCAACCCTTTCT
1 AAAGCCCACACAAGGTAGTGGCAACCCTCTCAAAAGCCCACACAAGTGGTGACAACCCTTTCT
* *
3714885 AAAGCCCACACAAGGTAGTGGCAACCCTCTCAAAAGCCCACATAAGTCGGTGACATCTCC-TTCT
1 AAAGCCCACACAAGGTAGTGGCAACCCTCTCAAAAGCCCACACAAGT-GGTGACAAC-CCTTTCT
3714949 -AAGCCCA
1 AAAGCCCA
3714956 ATATCGTTGA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
63 52 0.45
64 21 0.18
65 43 0.37
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (63 bp):
AAAGCCCACACAAGGTAGTGGCAACCCTCTCAAAAGCCCACACAAGTGGTGACAACCCTTTCT
Found at i:3715114 original size:52 final size:52
Alignment explanation
Indices: 3715058--3715159 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
3715048 TTTTTTTTTC
** * *
3715058 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATTTGGGCAACTTTGTCATCT
1 TTAAGTCCAATATCGCTCACCTTGAATCAGCATATGGGCAACTTTATCATCT
* *
3715110 TTAAGTCCAATATCGCTCATCTTGAATCAGCATATGGGCATCTTTATCAT
1 TTAAGTCCAATATCGCTCACCTTGAATCAGCATATGGGCAACTTTATCAT
3715160 TCCTAAGCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (52 bp):
TTAAGTCCAATATCGCTCACCTTGAATCAGCATATGGGCAACTTTATCATCT
Found at i:3720349 original size:21 final size:21
Alignment explanation
Indices: 3720320--3720359 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3720310 ATTGCCTTAA
* *
3720320 TATTTTTAAAAATTTTAATTT
1 TATTATTAAAAATATTAATTT
3720341 TATTATTAAAAATATTAAT
1 TATTATTAAAAATATTAAT
3720360 AAAATACCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAAAAATATTAATTT
Found at i:3721894 original size:154 final size:152
Alignment explanation
Indices: 3721496--3721944 Score: 489
Period size: 152 Copynumber: 2.9 Consensus size: 152
3721486 ATTGTTATAT
* * * *
3721496 AAAAAA-TGTAAAACTTATAAAATAAATTGAATTTTAC-AAACTGATTTAATATGAATTTAATAA
1 AAAAAATTCTAAAACTAATAAAATAAATT-AATTTTTCAAAACTGATTTAATATGAA-TTAAAAA
*** * * * *
3721559 A-AATATTTTCTGCATTTTAAAAATTATAAACTAAGAAAAATCTAACTG-AAA-AACTTTATGGA
64 ATAATATTTAAAGAATTTTAAAAATTATAAACTTAGAAAAATC---CTGCAAAGAAATTTATGAA
* * * * *
3721621 GGAGAAAACTCTATATCTTGATATTAG
126 GTAGAAAACTTTGTATCTCGATAATAG
* * * * *
3721648 -AAACATTCTAAAACTAATACAATAAACTAAATTTTT-AAAACTGATTTAATTTGAGTTAAAAAA
1 AAAAAATTCTAAAACTAATAAAATAAA-TTAATTTTTCAAAACTGATTTAATATGAATTAAAAAA
* *
3721711 TAATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTGTCAAAGAAATTTACGAAGTA
65 TAATATTTAAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTG-CAAAGAAATTTATGAAGTA
3721776 GAAAACTTTGTATCTCGATAATAG
129 GAAAACTTTGTATCTCGATAATAG
* * * * *
3721800 AAAAAATTCTAAAACTCATAAAATAAATTAATTTTTTCAAAACTAATTTTATATAAATTAAACAA
1 AAAAAATTCTAAAACTAATAAAATAAATTAA-TTTTTCAAAACTGATTTAATATGAATTAAAAAA
* *
3721865 TAATATTTAAAGAATTTTAAAAATTATAAATTTAGAAAAATCCTACTAAAGAAATTTATGAAGTA
65 TAATATTTAAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTGC-AAAGAAATTTATGAAGTA
*
3721930 GAAAATTTTGTATCT
129 GAAAACTTTGTATCT
3721945 ATAAAATATG
Statistics
Matches: 249, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
149 3 0.01
151 14 0.06
152 108 0.43
153 30 0.12
154 94 0.38
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (152 bp):
AAAAAATTCTAAAACTAATAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAAAAAT
AATATTTAAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTGCAAAGAAATTTATGAAGTAGA
AAACTTTGTATCTCGATAATAG
Found at i:3724196 original size:31 final size:30
Alignment explanation
Indices: 3724146--3724250 Score: 115
Period size: 31 Copynumber: 3.5 Consensus size: 30
3724136 CTTCAAATAC
*
3724146 CTTCTTAAAGTCCATGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCATGACTCAGTGGCAAT-T
* *
3724177 CTTCTCAAAGCCCACGACTCAGTGGC-ATT
1 CTTCTCAAAGTCCATGACTCAGTGGCAATT
* *
3724206 -TGTCCCAAAGTCCATGACTCAGTGGCATTT
1 CT-TCTCAAAGTCCATGACTCAGTGGCAATT
*
3724236 TTTCTTCAAAGTCCA
1 CTTC-TCAAAGTCCA
3724251 CAACTCTATG
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 22 0.35
30 6 0.10
31 33 0.53
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (30 bp):
CTTCTCAAAGTCCATGACTCAGTGGCAATT
Found at i:3724224 original size:29 final size:28
Alignment explanation
Indices: 3724152--3724236 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 28
3724142 ATACCTTCTT
*
3724152 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCATGACTCAGTGGC-AT-T-TTCCC
* *
3724183 AAAGCCCACGACTCAGTGGCATTTGTCCC
1 AAAGTCCATGACTCAGTGGCATTT-TCCC
3724212 AAAGTCCATGACTCAGTGGCATTTT
1 AAAGTCCATGACTCAGTGGCATTTT
3724237 TTCTTCAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.04
29 26 0.54
30 2 0.04
31 18 0.38
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (28 bp):
AAAGTCCATGACTCAGTGGCATTTTCCC
Found at i:3724297 original size:60 final size:60
Alignment explanation
Indices: 3724213--3724604 Score: 245
Period size: 60 Copynumber: 6.4 Consensus size: 60
3724203 ATTTGTCCCA
** * * *
3724213 AAGTCCATGACTCAGTGGCAT-TTTTTCTTCAAAGTCCACAACTCTATGGCA-C-CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT-TTTAAAGTCCACAACTCCATGGCATCTCCTTTT
* * * * *
3724271 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTAGCA-CTCATTTA
1 AAGTCCACAACTCCGTGGCATCTTTTT--TTTAAAGTCCACAACTCCATGGCATCTCCTTTT
* * ** * * *
3724332 AAGCCCACAACTCTGTGGCA-C--CCTTTTAAAGCCCATAACTCCGTGGCA--TCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTTTTAAAGTCCACAACTCCATGGCATCTCCTTTT
* * * *
3724387 ATGTCCACAACTCTGTGGCACCTTGTCCTTTTT-AAGTCCACAACTCCGTGGCATTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCATCTT-T--TTTTTAAAGTCCACAACTCCATGGCA-TC----TCCT
3724451 TTT
58 TTT
* * *
3724454 AAATCCACAACTCCGTGGCA-C--CTTTTT-AAGTCCACACCTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTTTTAAAGTCCACAACTCCATGGCATC----TCCTTTT
* * *
3724514 AAGTCCACAACTCCTTGGTATCTTTTTCTTTTTAAAGTCCACAACTCCATGGCACCTTGTTCCTT
1 AAGTCCACAACTCCGTGGCATC--TTT-TTTTTAAAGTCCACAACTCCATGGCA---T-CTCCTT
3724579 TT
59 TT
3724581 AAGTCCACAACTCCGTGGCATCTT
1 AAGTCCACAACTCCGTGGCATCTT
3724605 GACCCTTTTA
Statistics
Matches: 267, Mismatches: 40, Indels: 47
0.75 0.11 0.13
Matches are distributed among these distances:
55 23 0.09
56 21 0.08
58 19 0.07
59 5 0.02
60 70 0.26
61 50 0.19
65 2 0.01
66 6 0.02
67 70 0.26
70 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (60 bp):
AAGTCCACAACTCCGTGGCATCTTTTTTTTAAAGTCCACAACTCCATGGCATCTCCTTTT
Found at i:3724307 original size:33 final size:32
Alignment explanation
Indices: 3724265--3724633 Score: 281
Period size: 33 Copynumber: 11.8 Consensus size: 32
3724255 TCTATGGCAC
3724265 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
*
3724298 CCTTTTAAGTCCACAACTCCGTAGCAC----T
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* * * *
3724326 CATTTAAAGCCCACAACTCTGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* *
3724353 CCTTTTAAAGCCCATAACTCCGTGGCA-----T
1 CCTTTT-AAGTCCACAACTCCGTGGCACTTTTT
* * * *
3724381 CCTTTTATGTCCACAACTCTGTGGCACCTTGT
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
3724413 CCTTTTTAAGTCCACAACTCCGTGGCATTCTTTTT
1 CC-TTTTAAGTCCACAACTCCGTGGCA--CTTTTT
*
3724448 CCTTTTAAATCCACAACTCCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* * *
3724475 CTTTTTAAGTCCACACCTCCATGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
* *
3724508 CCTTTTAAGTCCACAACTCCTTGGTATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
* * *
3724541 CTTTTTAAAGTCCACAACTCCATGGCACCTTGTT
1 CCTTTT-AAGTCCACAACTCCGTGGCA-CTTTTT
***
3724575 CCTTTTAAGTCCACAACTCCGTGGCATCTTGAC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
* * *
3724608 CCTTTTAAGCCCACAAGTCAGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
3724634 ACCTTCAAAA
Statistics
Matches: 279, Mismatches: 40, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
27 42 0.15
28 48 0.17
32 5 0.02
33 127 0.46
34 51 0.18
35 6 0.02
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
Found at i:3724377 original size:28 final size:28
Alignment explanation
Indices: 3724243--3724408 Score: 131
Period size: 28 Copynumber: 5.8 Consensus size: 28
3724233 TTTTTTCTTC
* **
3724243 AAAGTCCACAACTCTATGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
*
3724271 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-C-----CCTTTT
* * * *
3724304 -AAGTCCACAACTCCGTAGCACTCATTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
*
3724331 AAAGCCCACAACTCTGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
* *
3724359 AAAGCCCATAACTCCGTGGCATCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
* * *
3724387 -ATGTCCACAACTCTGTGGCACC
1 AAAGCCCACAACTCCGTGGCACC
3724409 TTGTCCTTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
27 39 0.35
28 48 0.42
32 1 0.01
33 25 0.22
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (28 bp):
AAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:3724500 original size:94 final size:94
Alignment explanation
Indices: 3724353--3724633 Score: 291
Period size: 94 Copynumber: 2.9 Consensus size: 94
3724343 TCTGTGGCAC
* * * **
3724353 CCTTTTAAAGCCCATAACTCCGTGGCATCC-TTTTATGTCCACAACTCTGTGGCA-CCTTGTCCT
1 CCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCATGGCATCCTTGTCC-
3724416 TTTTAAGTCCACAACTCCGTGGCATTCTTTTT
64 TTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
* * *
3724448 CCTTTTAAA-TCCACAACTCCGTGGCACCTTTTTAAGTCCACACCTCCATGGCATCTTTTTCCTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCATGGCATCCTTGTCCTT
* *
3724512 TTAAGTCCACAACTCCTTGGTATCTTTTT
66 TTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
3724541 CTTTTTAAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAT-CTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACC----T--TTTTAAGTCCACAACTCCATGGCATCCTT
* * * *
3724605 GACCCTTTTAAGCCCACAAGTCAGTGGCA
60 G-TCCTTTTAAGTCCACAACTCCGTGGCA
3724634 ACCTTCAAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
93 17 0.11
94 75 0.49
95 15 0.10
98 1 0.01
99 2 0.01
100 44 0.29
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (94 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCATGGCATCCTTGTCCTT
TTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:3724562 original size:67 final size:64
Alignment explanation
Indices: 3724265--3724604 Score: 284
Period size: 67 Copynumber: 5.5 Consensus size: 64
3724255 TCTATGGCAC
* * *
3724265 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTAGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCATC--TTTCTTTTTAAGTCCACAACTCCATGGCATCTTTT
3724325 T
64 T
* * * * * * * * *
3724326 CATTTAAAGCCCACAACTCTGTGGCA-C--CCTTTTAAAGCCCATAACTCCGTGGCA------T
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTTTTTAAGTCCACAACTCCATGGCATCTTTTT
* * * *
3724381 CCTTTTATGTCCACAACTCTGTGGCACCTTGTCCTTTTTAAGTCCACAACTCCGTGGCATTCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTT-T-CTTTTTAAGTCCACAACTCCATGGCA-TCTTT
3724446 TT
63 TT
* *
3724448 CCTTTTAAATCCACAACTCCGTGGCA-C---CTTTTTAAGTCCACACCTCCATGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTTTTTAAGTCCACAACTCCATGGCATCTTTTT
* * * *
3724508 CCTTTTAAGTCCACAACTCCTTGGTATCTTTTTCTTTTTAAAGTCCACAACTCCATGGCACCTTG
1 CCTTTTAAGTCCACAACTCCGTGGCATC--TTTCTTTTT-AAGTCCACAACTCCATGGCATCTTT
3724573 TT
63 TT
3724575 CCTTTTAAGTCCACAACTCCGTGGCATCTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTT
3724605 GACCCTTTTA
Statistics
Matches: 229, Mismatches: 31, Indels: 34
0.78 0.11 0.12
Matches are distributed among these distances:
55 23 0.10
56 22 0.10
60 54 0.24
61 47 0.21
65 2 0.01
66 7 0.03
67 74 0.32
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (64 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTTTTTAAGTCCACAACTCCATGGCATCTTTTT
Found at i:3724614 original size:67 final size:67
Alignment explanation
Indices: 3724474--3724623 Score: 196
Period size: 67 Copynumber: 2.3 Consensus size: 67
3724464 CTCCGTGGCA
* * *
3724474 CCTTTTTAAGTCCACACCTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCTTGGTATCTT-
1 CCTTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTG
*
3724538 TT
66 AT
* * *
3724540 TCTTTTTAAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTT
1 CCTTTTT-AAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTT
3724605 GA-
65 GAT
* *
3724607 CCCTTTTAAGCCCACAA
1 CCTTTTTAAGTCCACAA
3724624 GTCAGTGGCA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
66 15 0.21
67 57 0.79
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (67 bp):
CCTTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTG
AT
Found at i:3724797 original size:39 final size:39
Alignment explanation
Indices: 3724749--3724991 Score: 189
Period size: 39 Copynumber: 5.8 Consensus size: 39
3724739 ACCTTGTCTT
* *
3724749 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
3724788 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAAT---C--A---GCACATTGGCA
* * * *
3724835 TAAGCCTAATATCACTGCCCTTTAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
3724874 TAAACCCAATATTGTTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
3724913 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ---------TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
3724961 CAAGCCTAGTATCGCTGGCCTTGAATCAGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCA
3724992 AATTAGCGCC
Statistics
Matches: 162, Mismatches: 25, Indels: 34
0.73 0.11 0.15
Matches are distributed among these distances:
39 91 0.56
42 2 0.01
44 2 0.01
47 34 0.21
48 33 0.20
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (39 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3724846 original size:47 final size:47
Alignment explanation
Indices: 3724777--3724962 Score: 181
Period size: 47 Copynumber: 4.1 Consensus size: 47
3724767 CCTTGAATCA
3724777 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
1 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
* * *
3724824 GCACATTGGCATAAGCCTAATATCACTGCCCTTTAAT---C--A---
1 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
* ***
3724863 GCACATTGGCATAAACCCAATATTGTTGGCCTTGAATCAGCATATTG
1 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
* * * * * * *
3724910 GCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1 GCACATTGGC-ATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
3724958 GCACA
1 GCACA
3724963 AGCCTAGTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 17
0.75 0.14 0.12
Matches are distributed among these distances:
39 30 0.27
42 2 0.02
44 2 0.02
47 42 0.38
48 34 0.31
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (47 bp):
GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTG
Found at i:3725132 original size:52 final size:52
Alignment explanation
Indices: 3724970--3725217 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 52
3724960 ACAAGCCTAG
* * *
3724970 TATCGCTGGCCTTGAATCAGCAAATTAGCGCCTTCGTCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAAGTCCAA
* * * * *
3725022 TGTCGCTGGCCATGAATCAGCACATT-G-GCATGT-TCATCTTTAAGTCCGA
1 TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAAGTCCAA
* *
3725071 TATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAAGTCCAA
* *
3725123 TGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAAGTCCAA
* *
3725172 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAA
3725218 AACCCAATGT
Statistics
Matches: 168, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 82 0.49
50 5 0.03
51 5 0.03
52 76 0.45
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (52 bp):
TATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATCTTTAAGTCCAA
Found at i:3725150 original size:101 final size:101
Alignment explanation
Indices: 3724970--3725260 Score: 429
Period size: 101 Copynumber: 2.9 Consensus size: 101
3724960 ACAAGCCTAG
* * *
3724970 TATCGCTGGCCTTGAATCAGCAAATTAGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCAT
1 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTT
* *
3725035 GAATCAGCACATTGGCATGTTCATCTTTAAGTCCGA
66 GAATCAGCACATTGGCATCTTCATCTTTAAGTCCAA
* *
3725071 TATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTT
*
3725136 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GAATCAGCACATTGGCATCTTCATCTTTAAGTCCAA
** * * ** *
3725172 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATGTTGTTCACTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT-AAGTCCAATGTCGCTGGCCT
3725237 TGAATCAGCACATTGGCATTCTTC
65 TGAATCAGCACATTGGCA-TCTTC
3725261 TCATCTTCAA
Statistics
Matches: 170, Mismatches: 18, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
101 135 0.79
102 31 0.18
103 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (101 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATCTTCATCTTTAAGTCCAA
Found at i:3725345 original size:52 final size:51
Alignment explanation
Indices: 3724972--3725358 Score: 313
Period size: 52 Copynumber: 7.5 Consensus size: 51
3724962 AAGCCTAGTA
* * *
3724972 TCGCTGGCCTTGAATCAGCAAATTAGCGCCTTC-GTCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATT-G-GCATTCTTTCATCTTTAAGTCCAATG
* * * *
3725024 TCGCTGGCCATGAATCAGCACATTGGCA-T-GTTCATCTTTAAGTCCGATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTTAAGTCCAATG
* * * *
3725073 TCACTGGCCTTGAATCAGCATATTGGCGCCTT-TGTCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATT-G-GCATTCTTTCATCTTTAAGTCCAATG
* *
3725125 TCGCTGGCCTTGAATCAGCACATTGGCA--CCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTTAAGTCCAATG
* * * **
3725174 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTC-GTCATCTTTAAAACCCAATG
1 TCGCTGGCCTTGAATCAGCACATT-G-GCATTCTTTCATCTTT-AAGTCCAATG
* * ** * * * *
3725227 TTGTTCACTTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGACTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCATTCTT-TCATCTTTAAGTCCAATG
*** * * * *
3725279 TCGCTAATCGTGAATCAGCACATTGACATTCTTTACATCTTTAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATTCTTT-CATCTTTAAGTCCAATG
* *
3725331 TCACTGGTCC-TGAATCAGCATATTGGCA
1 TCGCTGG-CCTTGAATCAGCACATTGGCA
3725359 CCTTTATCAC
Statistics
Matches: 266, Mismatches: 55, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
49 78 0.29
50 6 0.02
51 12 0.05
52 136 0.51
53 34 0.13
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (51 bp):
TCGCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTTAAGTCCAATG
Found at i:3726124 original size:20 final size:19
Alignment explanation
Indices: 3726050--3726116 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
3726040 CTACCAAGGA
*
3726050 AATGTATTGATACATTACTC
1 AATGTATCGATACATTA-TC
3726070 AATGTATCGATACATTGATC
1 AATGTATCGATACATT-ATC
**
3726090 TTTGTATCGATACATTATTC
1 AATGTATCGATACATTA-TC
3726110 AATGTAT
1 AATGTAT
3726117 TAATACATGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (19 bp):
AATGTATCGATACATTATC
Found at i:3730855 original size:20 final size:20
Alignment explanation
Indices: 3730829--3730881 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3730819 GTAGCCAAAC
* *
3730829 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
3730848 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
3730869 TTGTATCGATACA
1 TTGTATCGATACA
3730882 TTGGCCTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3737064 original size:13 final size:13
Alignment explanation
Indices: 3737046--3737084 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3737036 ACATTTTTCT
3737046 TTGTATCGATACA
1 TTGTATCGATACA
3737059 TTGTATCGATACA
1 TTGTATCGATACA
*
3737072 CTGTATCGATACA
1 TTGTATCGATACA
3737085 GGGGGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3737239 original size:20 final size:20
Alignment explanation
Indices: 3737196--3737241 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3737186 AAATCTTTTG
3737196 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3737217 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3737237 CAAAA
1 CAAAA
3737242 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:3739673 original size:13 final size:13
Alignment explanation
Indices: 3739655--3739680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3739645 ACACCAAAGT
3739655 ATGTATCGATACA
1 ATGTATCGATACA
3739668 ATGTATCGATACA
1 ATGTATCGATACA
3739681 CAAAAAAATT
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:3739678 original size:33 final size:34
Alignment explanation
Indices: 3739636--3739701 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
3739626 TAGCCAAACT
* **
3739636 TGTATCGATACACCAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
3739669 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
3739702 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:3743130 original size:15 final size:15
Alignment explanation
Indices: 3743110--3743139 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3743100 AACAAAAATG
3743110 ATCCTTGATCCAATT
1 ATCCTTGATCCAATT
3743125 ATCCTTGATCCAATT
1 ATCCTTGATCCAATT
3743140 CTGAACCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
ATCCTTGATCCAATT
Found at i:3744375 original size:31 final size:31
Alignment explanation
Indices: 3744287--3744375 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
3744277 CTTCAAATAC
*
3744287 CTTCTTAAAGTCCACGACTC-AGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCTAGTGGC-ATCT
* *
3744318 CTTCTCAAAGCCCACGACT-TAGTGGCATTT
1 CTTCTCAAAGTCCACGACTCTAGTGGCATCT
* *
3744348 TTTCTCCAAAGTCCACAACTCTA-TGGCA
1 CTTCT-CAAAGTCCACGACTCTAGTGGCA
3744376 CCCTTTTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.14
31 40 0.82
32 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCTAGTGGCATCT
Found at i:3744430 original size:28 final size:28
Alignment explanation
Indices: 3744355--3744597 Score: 282
Period size: 28 Copynumber: 8.8 Consensus size: 28
3744345 TTTTTTCTCC
* ** *
3744355 AAAGTCCACAACTCTATGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
* *
3744383 -AAGTCCATAACTCCGTGGCACTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
* *
3744410 AAAACCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
3744438 AAAGCCCACAACTCCGTGGCA-TCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-CTTTT
*
3744466 AAACCCCACAACTCCGTGGCA-TCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-CTTTT
* *
3744494 -AAGTCCACAACTCCATGGCACTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
*
3744521 AAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
*
3744549 AAAGCCCACAACTCCATGGCA-TCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-CTTTT
* *
3744577 -AAGTCCACAACTCTGTGGCAC
1 AAAGCCCACAACTCCGTGGCAC
3744598 CTTGTCCCTT
Statistics
Matches: 187, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
27 62 0.33
28 125 0.67
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:3744458 original size:83 final size:83
Alignment explanation
Indices: 3744355--3744690 Score: 347
Period size: 83 Copynumber: 3.9 Consensus size: 83
3744345 TTTTTTCTCC
* ** * * **
3744355 AAAGTCCACAACTCTATGGCACCCTTTT-AAGTCCATAACTCCGTGGCA-CTCTTTTAAAACCCA
1 AAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATC-CTTTT-AAGTCCA
3744418 CAACTCCGTGGCACCCTTTT
64 CAACTCCGTGGCACCCTTTT
* *
3744438 AAAGCCCACAACTCCGTGGCATCCTTTTAAACCCCACAACTCCGTGGCATCCTTTTAAGTCCACA
1 AAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACA
* *
3744503 ACTCCATGGCACTCTTTT
66 ACTCCGTGGCACCCTTTT
*
3744521 AAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCATGGCATCCTTTTAAGTCCACA
1 AAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACA
*
3744586 ACTCTGTGGCACCTTGTCCCTTTT
66 ACTCCGTGGCA------CCCTTTT
* * *
3744610 -AAGTCCACAACTCCGTGGCATTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAA
1 AAAGCCCACAACTCCGTGGCA--C-----CCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAA
* *
3744673 GTCCACACCTTCGTGGCA
59 GTCCACAACTCCGTGGCA
3744691 TCTTTTTCCT
Statistics
Matches: 214, Mismatches: 24, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
83 118 0.55
84 22 0.10
85 1 0.00
88 19 0.09
89 6 0.03
90 1 0.00
94 41 0.19
95 6 0.03
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (83 bp):
AAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACA
ACTCCGTGGCACCCTTTT
Found at i:3744492 original size:111 final size:110
Alignment explanation
Indices: 3744360--3744697 Score: 410
Period size: 111 Copynumber: 3.0 Consensus size: 110
3744350 TCTCCAAAGT
* * * *
3744360 CCACAACTCTATGGCACCCTTTTAAGTCCATAACTCCGTGGCACTCTTTTAAAACCCACAACTCC
1 CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCC
3744425 GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAAACC
66 GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTT-AACC
* *
3744471 CCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCACTCTTTTAAAGCCCACAACTCC
1 CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCC
* **
3744536 GTGGCACCCTTTTAAAGCCCACAACTCCATGGCATCCTTTTAAGT
66 GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAACC
3744581 CCACAACTCTGTGGCACCTTGTCCCTTTTAAGTCCACAACTCCGTGGCATTCTTTTTCCTTTT-A
1 CCACAACTCTGTGGCA-----T-CCTTTTAAGTCCACAACTCCGTGGCA--C----T-CTTTTAA
* * * * *
3744645 AGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACACCTTCGTGGCATCTTTTT
53 AGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTT
3744698 CCTTTTAAGT
Statistics
Matches: 197, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
110 17 0.09
111 99 0.50
115 1 0.01
116 25 0.13
118 1 0.01
121 22 0.11
122 27 0.14
123 5 0.03
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (110 bp):
CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCC
GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCCTTTTAACC
Found at i:3744613 original size:33 final size:33
Alignment explanation
Indices: 3744570--3744823 Score: 286
Period size: 33 Copynumber: 7.8 Consensus size: 33
3744560 CTCCATGGCA
* * *
3744570 TCCTTTTAAGTCCACAACTCTGTGGCACCTTGT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
*
3744603 CCCTTTTAAGTCCACAACTCCGTGGCATTCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTT
3744637 TCCTTTTAAGTCCACAACTCCGTGGCA-C----
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
* *
3744665 -CCTTTTAAGTCCACACCTTCGTGGCATCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
* *
3744697 TCCTTTTAAGTCCATAACTCCGTGGTATCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
* * *
3744730 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTGT
1 TCCTTTT-AAGTCCACAACTCCGTGGCATCTTTT
* * *
3744764 TCCTTTTAGGTCCATAACTCCGTGGCATCTTTC
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
* * * *
3744797 TCCTTTTACGCCCACAAGTCAGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
3744824 ACCTTCAAAA
Statistics
Matches: 186, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
27 24 0.13
28 1 0.01
32 1 0.01
33 102 0.55
34 58 0.31
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.37
Consensus pattern (33 bp):
TCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
Found at i:3744689 original size:94 final size:94
Alignment explanation
Indices: 3744377--3744759 Score: 334
Period size: 83 Copynumber: 4.3 Consensus size: 94
3744367 TCTATGGCAC
* * ** *
3744377 CCTTTT-AAGTCCATAACTCCGTGGCACTCTTTTAAAACCCACAACTCCGTGGCA------CCCT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCTTGTCCCT
*
3744435 TTTAAAGCCCACAACTCCGTGGCA------T
65 TTT-AAGTCCACAACTCCGTGGCATCTTTTT
** * **
3744460 CCTTTTAAACCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCA-C---T--CTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTCCCTT
*
3744519 TTAAAGCCCACAACTCCGTGGCA-C-----
66 TT-AAGTCCACAACTCCGTGGCATCTTTTT
* * *
3744543 CCTTTTAAAGCCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCTGTGGCACCTTGTCCCTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTCCCTT
3744608 TTAAGTCCACAACTCCGTGGCATTCTTTTT
66 TTAAGTCCACAACTCCGTGGCA-TCTTTTT
* * * *
3744638 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACACCT-TCGTGGCATCTTTTTCCT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCT-GTGGCACCTTGTCCCT
* *
3744701 TTTAAGTCCATAACTCCGTGGTATCTTTTT
65 TTTAAGTCCACAACTCCGTGGCATCTTTTT
*
3744731 CTTTTTAAAGTCCACAACTCCGTGGCACC
1 CCTTTTAAAGTCCACAACTCCGTGGCACC
3744760 TTGTTCCTTT
Statistics
Matches: 258, Mismatches: 23, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
83 99 0.38
84 23 0.09
87 1 0.00
88 19 0.07
89 5 0.02
90 1 0.00
93 13 0.05
94 91 0.35
95 6 0.02
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (94 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTCCCTT
TTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:3744697 original size:27 final size:27
Alignment explanation
Indices: 3744638--3744690 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
3744628 CATTCTTTTT
3744638 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
3744665 CCTTTTAAGTCCACACCTTCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
3744691 TCTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:3744744 original size:67 final size:66
Alignment explanation
Indices: 3744570--3744823 Score: 286
Period size: 67 Copynumber: 3.9 Consensus size: 66
3744560 CTCCATGGCA
* * * *
3744570 TCCTTTTAAGTCCACAACTCTGTGGCACCTTGTCCCTTTTAAGTCCACAACTCCGTGGCATTCTT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
3744635 TT
65 TT
* *
3744637 TCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACACCTTCGTGGCATCTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTT
3744696 T
66 T
* * * *
3744697 TCCTTTTAAGTCCATAACTCCGTGGTATCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCATCTT
*
3744762 GT
65 TT
* * * * * * *
3744764 TCCTTTTAGGTCCATAACTCCGTGGCATCTTTCTCCTTTTACGCCCACAAGTCAGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
3744824 ACCTTCAAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
60 31 0.19
61 25 0.15
66 22 0.14
67 84 0.52
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.37
Consensus pattern (66 bp):
TCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTT
T
Found at i:3744962 original size:52 final size:52
Alignment explanation
Indices: 3744881--3745049 Score: 193
Period size: 52 Copynumber: 3.3 Consensus size: 52
3744871 AAGTTGGTGG
* * *
3744881 CATCTTCTTCTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACCTT
1 CATCATCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
3744934 CGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---T
1 CATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* ** *
3744983 CTTCATCTTTAAGTCTGATATCGCT-GCCATTGAATCAGCATATTGGCGCCTT
1 CATCATCTTTAAGTCCAATATCGCTGGCC-TTGAATCAGCATATTGGCACCTT
*
3745035 CATCATCGTTAAGTC
1 CATCATCTTTAAGTC
3745050 TGAAAGCTTA
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
48 3 0.03
49 39 0.40
52 49 0.50
53 7 0.07
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (52 bp):
CATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:3745008 original size:49 final size:49
Alignment explanation
Indices: 3744878--3745038 Score: 175
Period size: 49 Copynumber: 3.3 Consensus size: 49
3744868 CACAAGTTGG
* * *
3744878 TGGCATCTTC-T-TCTAAGTCCAATATCGTTGGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * *
3744925 TGGCACCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCA---TCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
**
3744977 TGGCATCTTCATCTTTAAGTCTGATATCGCT-GCCATTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCC-TTGAATCAGCATAT
**
3745026 TGGCGCCTTCATC
1 TGGCATCTTCATC
3745039 ATCGTTAAGT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 46 0.48
50 4 0.04
51 1 0.01
52 36 0.38
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:3745510 original size:32 final size:30
Alignment explanation
Indices: 3745474--3745532 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3745464 GAAATCAAAT
3745474 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
3745506 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3745533 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:3745832 original size:13 final size:13
Alignment explanation
Indices: 3745814--3745839 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3745804 AATTTTTTTG
3745814 TGTATCGATACAT
1 TGTATCGATACAT
3745827 TGTATCGATACAT
1 TGTATCGATACAT
3745840 ACTTGGTGTA
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:3748420 original size:13 final size:13
Alignment explanation
Indices: 3748404--3748439 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3748394 AATCCCCCTA
3748404 TATCGATACAGTG
1 TATCGATACAGTG
*
3748417 TATCGATACATTG
1 TATCGATACAGTG
3748430 TATCGATACA
1 TATCGATACA
3748440 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:3750542 original size:15 final size:15
Alignment explanation
Indices: 3750522--3750552 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3750512 ATTTCGTTTG
*
3750522 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3750537 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3750552 G
1 G
3750553 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3753481 original size:21 final size:21
Alignment explanation
Indices: 3753457--3753501 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
3753447 TTTGGCATAA
3753457 AAACGACT-CAGGTGATAACTT
1 AAACGACTCCA-GTGATAACTT
*
3753478 AAACGGCTCCAGTGATAACTT
1 AAACGACTCCAGTGATAACTT
3753499 AAA
1 AAA
3753502 ATCCGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (21 bp):
AAACGACTCCAGTGATAACTT
Found at i:3755792 original size:3 final size:3
Alignment explanation
Indices: 3755784--3755868 Score: 88
Period size: 3 Copynumber: 29.3 Consensus size: 3
3755774 ACCATTCCTT
* *
3755784 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTG TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
3755830 TTA TTT TTA -TA TT- TTG TTA TT- TTA TTA TTT TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3755869 ATTTAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
2 8 0.12
3 59 0.86
4 2 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:3756628 original size:43 final size:43
Alignment explanation
Indices: 3756426--3757131 Score: 176
Period size: 43 Copynumber: 16.6 Consensus size: 43
3756416 AAATTCGACG
* * * * *
3756426 GGTAAACAAAGAGAGAAATGGTAGACTGGGAACAAAGTCGATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
** * * * *
3756469 GGT---CAAA-AG-GGTAAAAAGTTTACCAGGGACAAAGTCGATG
1 GGTAAACAAAGAGAGG--AATGGTTGACCGGGGACAAAGCCGATA
* * * *
3756509 GGTAAACAAAGATAGGAATGGTTGACCGGGGAAAAAGCCAACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* *** * * * * **
3756552 GATCGCCAAGGGGTAAGAA--GTTTACCAAGGACAAAGCCGATA
1 GGTAAACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGATA
*
3756594 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * ** * *
3756637 GGTCACCAAA-AG-GGTAA-GAAATTTACCAAGGACAAAGCTGATG
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* *
3756680 GGTAAACAAAGAGAGGAATGGTTGACTGGGGACAAA-CCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCC-GATA
** * * * * **
3756723 CATCACCAAA-AG-GGTAA-GAAGTTTACCGAGGACAAAGTTGATA
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* * * * *
3756766 GGTAAACAAAAAGAGAAATGGTTGATCGGGGACAAAGCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * ** * *
3756809 CGTCACCAAAG-G-GGTAA-GAAGTTTACTAGTGACAAAGTCGATA
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* * *
3756852 GGTAAACAAAGGGAGGAATAGTTGATCGGGGACAAAGCC-A-A
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * * *
3756893 -CTGACACCAAAG-G-GGTAA-GAAGTTTACC-AGGACAAAGTCAACA
1 GGT-A-AACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* ** * *
3756936 TGTAAACAAAGAGAGGAATGGTTGACTAGGGACAAAGTCAATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * ** *
3756979 GGCT-ACCAAGGGGTAAGAA--GTTTACCAAGGACAAAGCTGATA
1 GG-TAAACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGATA
* * * *
3757021 GATAAACAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * **
3757064 GGTCACCAAA-AG-GGTAA-GAAGTTTACTGGGGACAAAGCTGACG
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
3757107 GGTAAACAAAGAGAGGAATGGTTGA
1 GGTAAACAAAGAGAGGAATGGTTGA
3757132 TTGAGGACAA
Statistics
Matches: 464, Mismatches: 146, Indels: 106
0.65 0.20 0.15
Matches are distributed among these distances:
38 1 0.00
39 2 0.00
40 29 0.06
41 34 0.07
42 88 0.19
43 269 0.58
44 29 0.06
45 12 0.03
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.15
Consensus pattern (43 bp):
GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
Found at i:3756689 original size:86 final size:86
Alignment explanation
Indices: 3756426--3757666 Score: 1089
Period size: 86 Copynumber: 14.6 Consensus size: 86
3756416 AAATTCGACG
* * * * * *
3756426 GGTAAACAAAGAGAGAAATGGTAGACTGGGAACAAAG-TCGATAGGT---CAAAAGGGTAAAAAG
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCT-GACAGGTCACCAAAAGGGTAAGAAG
* *
3756487 TTTACCAGGGACAAAG-TCGATG
65 TTTACCAAGGACAAAGCT-GATA
* * ** * * *
3756509 GGTAAACAAAGATAGGAATGGTTGACCGGGGAAAAAGCCAACAGATCGCC-AAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
3756573 TTACCAAGGACAAAGCCGATA
66 TTACCAAGGACAAAGCTGATA
* *
3756594 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAAT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
3756659 TTACCAAGGACAAAGCTGATG
66 TTACCAAGGACAAAGCTGATA
* * **
3756680 GGTAAACAAAGAGAGGAATGGTTGACTGGGGACAAACCTGACACATCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
3756745 TTACCGAGGACAAAGTTGATA
66 TTACCAAGGACAAAGCTGATA
* * * * *
3756766 GGTAAACAAAAAGAGAAATGGTTGATCGGGGACAAAGCTGACACGTCACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
3756831 TTA-CTAGTGACAAAG-TCGATA
66 TTACCAAG-GACAAAGCT-GATA
* * * ** * * *
3756852 GGTAAACAAAGGGAGGAATAGTTGATCGGGGACAAAGCCAAC-TGACACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
3756916 TTACC-AGGACAAAG-TCAACA
66 TTACCAAGGACAAAGCT-GATA
* ** * * *
3756936 TGTAAACAAAGAGAGGAATGGTTGACTAGGGACAAAG-TCAATAGG-CTACC-AAGGGGTAAGAA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCT-GACAGGTC-ACCAAAAGGGTAAGAA
3756998 GTTTACCAAGGACAAAGCTGATA
64 GTTTACCAAGGACAAAGCTGATA
* *
3757021 GATAAACAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*** **
3757086 TTACTGGGGACAAAGCTGACG
66 TTACCAAGGACAAAGCTGATA
** * * *
3757107 GGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTAACACGTCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* * * *
3757172 TTATCGAGGATAAAG-TCAATA
66 TTACCAAGGACAAAGCT-GATA
* ** * * *
3757193 GGTTAACAAAGAGAGGAATGGTTGATTGGGGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* ** *
3757258 TTA-CTAGCGACAAAGCCAATG
66 TTACCAAG-GACAAAGCTGATA
* * * ** ** * *
3757279 GGTAAACAAAGGGAGGAATAGTTAACTAGGGACAAAGCCAACTA-GACACCAAAGGGGTAAGAAG
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGAC-AGGTCACCAAAAGGGTAAGAAG
* * *
3757343 TTTA-CTAGGACAAAG-TCAACA
65 TTTACCAAGGACAAAGCT-GATA
* * * * *
3757364 TGTAAACAAAGAGAGGAATGGTTGGCTGGGGACAAAGCTGATAGGTCACC-AAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
3757428 TTACCAAGGACAAAGCCGA-C
66 TTACCAAGGACAAAGCTGATA
** * * * * *
3757448 GGATAAACAAAGAGAAAAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAGA-GATAACAAG
1 GG-TAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAG
* * *
3757512 TTTACCGAGGACTAAG-TCGACA
65 TTTACCAAGGACAAAGCT-GATA
* * * * ** * * *
3757534 GGTAAACAAGGGGATGAA-GGTTGATCAAGGACTAAGCTGACAGGTCACC--TAGGAATAAGAAG
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGG-GTAAGAAG
* *
3757596 TTTACCAAGGACTAAGCCGATA
65 TTTACCAAGGACAAAGCTGATA
* * * * *
3757618 GGTAAA-TAAGAGGATGAA-GGTTGACCGAGGACTAAGCCGACAGGTCACC
1 GGTAAACAAAGA-GAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACC
3757667 TAAGGATAAA
Statistics
Matches: 968, Mismatches: 157, Indels: 65
0.81 0.13 0.05
Matches are distributed among these distances:
82 1 0.00
83 38 0.04
84 175 0.18
85 297 0.31
86 456 0.47
87 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.16
Consensus pattern (86 bp):
GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
TTACCAAGGACAAAGCTGATA
Found at i:3757271 original size:43 final size:42
Alignment explanation
Indices: 3756795--3757447 Score: 143
Period size: 43 Copynumber: 15.3 Consensus size: 42
3756785 GGTTGATCGG
* *
3756795 GGACAAAGCTGACACGTCACCAAAGGGGTAAGAAGTTTACTA
1 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTA
* * * * * * * * **
3756837 GTGACAAAGTCGATAGGTAAACAAAGGGAGGAA-TAGTTGATCGG
1 G-GACAAAGCCGACATGTCACCAAAGGG-GTAAGAAGTTTA-CTA
* * *
3756881 GGACAAAGCCAAC-TGACACCAAAGGGGTAAGAAGTTTACCA
1 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTA
* * * * *
3756922 GGACAAAGTCAACATGTAAACAAAGAGAGG-AATG--GTTGACTA
1 GGACAAAGCCGACATGTCACCAAAG-G-GGTAA-GAAGTTTACTA
* * *
3756964 GGGACAAAGTC-A-ATAGGCTACC-AAGGGGTAAGAAGTTTACCAA
1 -GGACAAAGCCGACAT-GTC-ACCAAAGGGGTAAGAAGTTTA-CTA
* * * * * *
3757007 GGACAAAGCTGATA-GATAAACAAAGAGAGG-AATG--GTTGACCA
1 GGACAAAGCCGACATG-TCACCAAAG-G-GGTAA-GAAGTTTACTA
* * * *
3757049 GGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGTTTACTGG
1 -GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACT-A
* ** * * * *
3757093 GGACAAAGCTGACGGGTAAACAAAGAGAGG-AATG--GTTGATTGA
1 GGACAAAGCCGACATGTCACCAAAG-G-GGTAA-GAAGTTTACT-A
** * * *
3757136 GGACAAAGCTAACACGTCACCAAAAGGGTAAGAAGTTTATCGA
1 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTA-CTA
* * * * * * * * * *
3757179 GGATAAAGTCAATAGGTTAACAAAGAGAGG-AATG--GTTGATTGG
1 GGACAAAGCCGACATGTCACCAAAG-G-GGTAA-GAAGTTTACT-A
3757222 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTA
1 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTA
* * * * *
3757264 GCGACAAAGCC-A-ATGGGTAAACAAAGGGAGGAA-TAGTTAACTA
1 G-GACAAAGCCGACAT--GTCACCAAAGGG-GTAAGAAGTTTACTA
* *
3757307 GGGACAAAGCCAAC-TAGACACCAAAGGGGTAAGAAGTTTACTA
1 -GGACAAAGCCGACAT-GTCACCAAAGGGGTAAGAAGTTTACTA
* * * * ** *
3757350 GGACAAAGTCAACATGTAAACAAAGAGAGG-AATG--GTTGGCTGG
1 GGACAAAGCCGACATGTCACCAAAG-G-GGTAA-GAAGTTTACT-A
* * * *
3757393 GGACAAAGCTGATAGGTCACC-AAGGGGTAAGAAGTTTACCAA
1 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTA-CTA
3757435 GGACAAAGCCGAC
1 GGACAAAGCCGAC
3757448 GGATAAACAA
Statistics
Matches: 434, Mismatches: 118, Indels: 118
0.65 0.18 0.18
Matches are distributed among these distances:
40 6 0.01
41 35 0.08
42 106 0.24
43 250 0.58
44 28 0.06
45 9 0.02
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.16
Consensus pattern (42 bp):
GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTA
Found at i:3757442 original size:42 final size:42
Alignment explanation
Indices: 3757393--3757620 Score: 140
Period size: 42 Copynumber: 5.4 Consensus size: 42
3757383 GGTTGGCTGG
3757393 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* * * * * * * * *
3757435 GGACAAAGCCGA-CGGATAAACAAAGAG-AAAAATGGTTGACCAG
1 GGACAAAGCTGATAGG-TCACCAAGGGGTAAGAA--GTTTACCAA
* * * *
3757478 GGACAAAGCTGATAGGTCACCAAGAGATAACAAGTTTACCGA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* * * * * * *
3757520 GGACTAAG-TCGACAGGTAAACAAGGGG-ATGAAGGTTGATCAA
1 GGACAAAGCT-GATAGGTCACCAAGGGGTAAGAA-GTTTACCAA
* * * **
3757562 GGACTAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* *
3757604 GGACTAAGCCGATAGGT
1 GGACAAAGCTGATAGGT
3757621 AAATAAGAGG
Statistics
Matches: 135, Mismatches: 42, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
41 10 0.07
42 91 0.67
43 28 0.21
44 6 0.04
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (42 bp):
GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
Found at i:3757515 original size:427 final size:427
Alignment explanation
Indices: 3756472--3757671 Score: 1551
Period size: 427 Copynumber: 2.8 Consensus size: 427
3756462 GTCGATAGGT
* * * *** * *
3756472 CAAAAGGGTAAAAAGTTTACCAGGGACAAAGTCGATGGGTAAACAAAGATAGGAATGGTTGACCG
1 CAAAGGGGTAAGAAGTTTACCA-GGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTG
* * * * *
3756537 GGGAAAAAGCCAACAGATCGCCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGATAGG-TAAAC
65 GGGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGA-AGGATAAAC
* * *
3756601 AAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAATTTACCAA
129 AAAGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCGA
* * * * *
3756666 GGACAAAGCTGATGGGTAAACAAAGAGAGGAATGGTTGACTGGGGACAAACCTGACACATCACCA
194 GGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACCA
**
3756731 AAAGGGTAAGAAGTTTACCGAGGACAAAGTTGATAGGTAAACAAAAAGAGAAATGGTTGATCGGG
259 AAAGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGGG
* * * *
3756796 GACAAAGCTGACACGTCACCAAAGGGGTAAGAAGTTTACTAGTGACAAAGTCGATAGGTAAACAA
324 GACAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCGACAAAGCCAATAGGTAAACAA
* *
3756861 AGGGAGGAATAGTTGATCGGGGACAAAGCCAACTGACAC
389 AGGGAGGAATAGTTAATCAGGGACAAAGCCAACTGACAC
*
3756900 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTAG
1 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
*
3756965 GGACAAAG-TCAATAGG-CTACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCTGATA-GATAAA
66 GGACAAAGCT-AATAGGTC-ACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGA-AGGATAAA
* *
3757027 CAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGTTTACTG
128 CAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCG
* *
3757092 GGGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTAACACGTCACC
193 AGGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACC
* * * * * *
3757157 AAAAGGGTAAGAAGTTTATCGAGGATAAAGTCAATAGGTTAACAAAGAGAGGAATGGTTGATTGG
258 AAAAGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGG
* *
3757222 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTAGCGACAAAGCCAATGGGTAAACA
323 GGACAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCGACAAAGCCAATAGGTAAACA
3757287 AAGGGAGGAATAGTTAA-CTAGGGACAAAGCCAACTAGACAC
388 AAGGGAGGAATAGTTAATC-AGGGACAAAGCCAACT-GACAC
* *
3757328 CAAAGGGGTAAGAAGTTTACTAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGGCTGG
1 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
* *
3757393 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGACGGATAAACAA
66 GGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAAGGATAAACAA
** * * *
3757458 AGAGAAAAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAGA-GATAACAAGTTTACCGAGG
131 AGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCGAGG
* * * * * ** * *
3757522 ACTAAG-TCGACAGGTAAACAAGGGGATGAA-GGTTGATCAAGGACTAAGCTGACAGGTCACC--
196 ACAAAGCT-GACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACCAA
* * * * * * * * * * *
3757583 TAGGAATAAGAAGTTTACCAAGGACTAAGCCGATAGGTAAATAAGAGGATG-AA-GGTTGACCGA
260 AAGG-GTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGA-GAAATGGTTGATCGG
* * *
3757646 GGACTAAGCCGACAGGTCACCTAAGG
323 GGACAAAGCCGACACGTCACCAAAGG
3757672 ATAAAGGTAT
Statistics
Matches: 675, Mismatches: 86, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
424 33 0.05
425 34 0.05
426 31 0.05
427 390 0.58
428 185 0.27
429 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.16
Consensus pattern (427 bp):
CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
GGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAAGGATAAACAA
AGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCGAGG
ACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACCAAA
AGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGGGGA
CAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCGACAAAGCCAATAGGTAAACAAAG
GGAGGAATAGTTAATCAGGGACAAAGCCAACTGACAC
Found at i:3757597 original size:84 final size:84
Alignment explanation
Indices: 3757393--3757668 Score: 304
Period size: 84 Copynumber: 3.3 Consensus size: 84
3757383 GGTTGGCTGG
* * ** *
3757393 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAC-GGATAAACA
1 GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGG-TAAACA
* * ** *
3757457 AAGAGAAAAATGGTTGACCAG
65 AGGGGATGAA-GGTTGACCAA
* * * * *
3757478 GGACAAAGCTGATAGGTCACC-AAGAGATAACAAGTTTACCGAGGACTAAGTCGACAGGTAAACA
1 GGACAAAGCTGACAGGTCACCTAGGA-ATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACA
*
3757542 AGGGGATGAAGGTTGATCAA
65 AGGGGATGAAGGTTGACCAA
* * *
3757562 GGACTAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGATAGGTAAATAA
1 GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACAA
* *
3757627 GAGGATGAAGGTTGACCGA
66 GGGGATGAAGGTTGACCAA
* *
3757646 GGACTAAGCCGACAGGTCACCTA
1 GGACAAAGCTGACAGGTCACCTA
3757669 AGGATAAAGG
Statistics
Matches: 163, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
84 101 0.62
85 60 0.37
86 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (84 bp):
GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACAA
GGGGATGAAGGTTGACCAA
Found at i:3757649 original size:42 final size:42
Alignment explanation
Indices: 3757519--3757662 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 42
3757509 AAGTTTACCG
* * * *
3757519 AGGACTAAGTCGACAGGTAAACAAGGGGATGAAGGTTGATCA
1 AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
* ** * ** * *
3757561 AGGACTAAGCTGACAGGTCACCTAGGAATAAGAA-GTTTACCA
1 AGGACTAAGCCGACAGGT-AAATAAGAGGATGAAGGTTGACCA
* *
3757603 AGGACTAAGCCGATAGGTAAATAAGAGGATGAAGGTTGACCG
1 AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
3757645 AGGACTAAGCCGACAGGT
1 AGGACTAAGCCGACAGGT
3757663 CACCTAAGGA
Statistics
Matches: 77, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
41 9 0.12
42 61 0.79
43 7 0.09
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.17
Consensus pattern (42 bp):
AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
Found at i:3757928 original size:44 final size:44
Alignment explanation
Indices: 3757760--3757931 Score: 122
Period size: 44 Copynumber: 3.9 Consensus size: 44
3757750 TTGACCAAAG
*
3757760 TGGTAACCGTACGTCAAATAGGAAAG-AGGTAGATTTGACCAAGG-
1 TGGTAACCATACGTCAAATA-GAAAGAAGGTAGATTTGACC-AGGA
* * * * * *
3757804 TGGTAACCATAAGTCAAATCAGAAAAAAAG-A-ATCTGGCCA-AA
1 TGGTAACCATACGTCAAAT-AGAAAGAAGGTAGATTTGACCAGGA
* * * ** * *
3757846 GTGGTAACCATGCATCAGACCGAAATAA-GAAGAGTTTGACCAGGA
1 -TGGTAACCATACGTCAAATAGAAAGAAGGTAGA-TTTGACCAGGA
*
3757891 TGATAACCATACGTCAAATAGAAAGAAGGTAGATTTGACCA
1 TGGTAACCATACGTCAAATAGAAAGAAGGTAGATTTGACCA
3757932 AGTTTATTCA
Statistics
Matches: 94, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
41 1 0.01
42 8 0.09
43 21 0.22
44 56 0.60
45 8 0.09
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (44 bp):
TGGTAACCATACGTCAAATAGAAAGAAGGTAGATTTGACCAGGA
Found at i:3758146 original size:60 final size:60
Alignment explanation
Indices: 3758081--3758742 Score: 248
Period size: 60 Copynumber: 11.0 Consensus size: 60
3758071 AGATTCAACA
** * * * * *
3758081 AAGTACAGCCAAGTAAGGAAGGCCTTGATCAAATACAATCAAGAGAGGTAAGATTTGACT
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * *
3758141 GAGTACAATCAAATGAGGAAGGTCTT-AACTGAATACAGTCAAGAGAGGGT-GGATTTGACC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGA-GGTAAGATTTGACC
* * * * *
3758201 AAATACATTCAAGTAAGGAAGGTCTTGACCGAGTACAGTCAAGAGAGGTAAGATTTGATC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * * * *
3758261 GAGTATAGTCAAATAGGGGAAGG-CTT-AATTGAATATAGTTAAGCA-AGGGT-AGATTCGACC
1 AAGTACAATCAAGTA-AGGAAGGTCTTGAA-CGAATACAGTCAAG-AGA-GGTAAGATTTGACC
* ** ** * *
3758321 ATGTACAGCCAAGTAAAAAAGGTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGATC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * * * *** *
3758381 GAGTATAGTCAAATAAGGGAAAGTCTTGATTGGCTGAATATAAT-AAGCA-AGGGCGGATTCGAC
1 AAGTACAATCAAGTAA-GGAAGGTCTTGA---AC-GAATACAGTCAAG-AGAGGTAAGATTTGAC
3758444 C
60 C
* * * * ** *
3758445 TAGTACAGAT-GATTAAGGAAGTTCTTGATTGAATACAGTAAAGAGAGGTAAGATTTGACC
1 AAGTACA-ATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * ** * * * *
3758505 GAGTATAGTCAAATGGGGGAAAG-CTT-AACTGAATATAG-CTAAGCA-AGGGT-AGATTCGACT
1 AAGTACAATCAAGT-AAGGAAGGTCTTGAAC-GAATACAGTC-AAG-AGA-GGTAAGATTTGACC
* * * * * **
3758565 GAGTACAATCGAGTAAAGAAGGTTTTG-ACTGAATACAGTCAAGAGAGGCAAGATTTGATT
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * **
3758625 GAGTACAGTCAAATAAGGGAAGGT-TT-AACTGAATATAATTAAGCA-A-GTGAAGATTCAACC
1 AAGTACAATCAAGTAA-GGAAGGTCTTGAAC-GAATACAGTCAAG-AGAGGT-AAGATTTGACC
* * * *
3758685 AAGTACAACCGAGTAAGGAAGGTCTTG-ACTGAATACAATCAAGAGAGGTAAAATTTGA
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGAGGTAAGATTTGA
3758743 TCGATTACAG
Statistics
Matches: 434, Mismatches: 128, Indels: 80
0.68 0.20 0.12
Matches are distributed among these distances:
59 40 0.09
60 309 0.71
61 43 0.10
63 10 0.02
64 23 0.05
65 9 0.02
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (60 bp):
AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
Found at i:3758215 original size:120 final size:120
Alignment explanation
Indices: 3758038--3758984 Score: 870
Period size: 120 Copynumber: 7.9 Consensus size: 120
3758028 GTCAAATAAA
* * * * * * ** *
3758038 GGAAGGCTTAA-TGGAATACAGTTAAACAAGGGTAGATTCAACAAAGTACAGCCAAGTAAGGAAG
1 GGAAAGCTTAACT-GAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAG
* * * * * * *
3758102 GCCTTGATCAAATACAATCAAGAGAGGTAAGATTTGACTGAGTACAATCAAAT-GA
65 GTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * * * *
3758157 GGAAGGTCTTAACTGAATACAGTCAAG-AGAGGGTGGATTTGACCAAATACATTCAAGTAAGGAA
1 GGAAAG-CTTAACTGAATATAGTTAAGCA-AGGGTGGATTCGACCAAGTACAATCGAGTAAGGAA
* *
3758221 GGTCTTGACCGAGTACAGTCAAGAGAGGTAAGATTTGA-TCGAGTATAGTCAAATAGG
64 GGTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * ** * **
3758278 GGAAGGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACCATGTACAGCCAAGTAAAAAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
**
3758343 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGA-TCGAGTATAGTCAAATAAG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * *
3758398 GGAAAGTCTTGATTGGCTGAATATA-ATAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAA
1 GGAAAG-CTT-A---ACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACA-ATCGAGTAA
* ** * *
3758461 GGAAGTTCTTGATTGAATACAGTAAAGAGAGGTAAGATTTGACCGAGTATAGTCAAATGGG
60 GGAAGGTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * ** *
3758522 GGAAAGCTTAACTGAATATAGCTAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * * * * **
3758587 TTTTGACTGAATACAGTCAAGAGAGGCAAGATTTGATTGAGTACAGTCAAATAAG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * ** * *
3758642 GGAAGGTTTAACTGAATATAATTAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * * * *
3758707 TCTTGACTGAATACAATCAAGAGAGGTAAAATTTGA-TCGATTACAGTCAAATGGG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * *
3758762 GG-AAGCCTTAATTCAATATAGTTAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAG
1 GGAAAG-CTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAG
* ** * * * *
3758826 GTCTTAACTAAATACAGTTAAGATAGATAAGATTTGACCGAGTATAGTCAAATGGG
65 GTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * * *
3758882 GGAAAGCTTAACTGAATACAATTAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * *
3758947 TCTTGACCAAATATAGCCAAGAGAGGTCAA-ATTTGACT
66 TCTTGACCGAATACAGTCAAGAGAGGT-AAGATTTGACT
3758985 AATTACAGCT
Statistics
Matches: 685, Mismatches: 123, Indels: 39
0.81 0.15 0.05
Matches are distributed among these distances:
119 22 0.03
120 548 0.80
121 17 0.02
122 2 0.00
123 3 0.00
124 85 0.12
125 8 0.01
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (120 bp):
GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
Found at i:3758264 original size:30 final size:30
Alignment explanation
Indices: 3758112--3758272 Score: 107
Period size: 30 Copynumber: 5.4 Consensus size: 30
3758102 GCCTTGATCA
* *
3758112 AATACAATCAAGAGAGGTAAGATTTGACTG
1 AATACAGTCAAGAGAGGTAAGATTTGACCG
* * * * *
3758142 AGTACAATCAA-ATGAGG-AAGGTCTTAACTG
1 AATACAGTCAAGA-GAGGTAAGAT-TTGACCG
* *
3758172 AATACAGTCAAGAGAGGGT-GGATTTGACCA
1 AATACAGTCAAGAGA-GGTAAGATTTGACCG
* *
3758202 AATACATTCAAGTA-AGG-AAGGTCTTGACCG
1 AATACAGTCAAG-AGAGGTAAGAT-TTGACCG
* *
3758232 AGTACAGTCAAGAGAGGTAAGATTTGATCG
1 AATACAGTCAAGAGAGGTAAGATTTGACCG
* *
3758262 AGTATAGTCAA
1 AATACAGTCAA
3758273 ATAGGGGAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
29 10 0.10
30 82 0.80
31 10 0.10
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (30 bp):
AATACAGTCAAGAGAGGTAAGATTTGACCG
Found at i:3758790 original size:240 final size:239
Alignment explanation
Indices: 3758038--3758982 Score: 986
Period size: 240 Copynumber: 3.9 Consensus size: 239
3758028 GTCAAATAAA
* * * * * * * *
3758038 GGAAGGCTTAATGGAATACAGTTAAACAAGGGTAGATTCAACAAAGTACAGCCAAGTAAGGAAGG
1 GGAA-GCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGAC-GAGTACAGTCGAGTAAAGAAGG
* * * * * * *
3758103 CCTTGA-TCAAATACAATCAAGAGAGGTAAGATTTGACTGAGTACAATCAAATGA-GGAAGGTCT
64 TCTTGACT-GAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCT
* * * * * *
3758166 TAACTGAATACAGTCAAG-AGAGGGTGGATTTGACCAAATACATTCAAGTAAGGAAGGTCTTGAC
128 TAACTGAATACAATTAAGCA-AGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGAC
* * *
3758230 CGAGTACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATAGG
192 CGAATACAGTCAAGAGAGGTAAAATTTGATCGAGTATAGTCAAATGGG
* * * *
3758278 GGAAGGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACCATGTACAGCCAAGTAAAAAAGG
1 GGAA-GCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACGA-GTACAGTCGAGTAAAGAAGG
* * *
3758343 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATAAGGGAAAGTCTT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * * * * *
3758408 GATTGGCTGAATATAA-TAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAAGGAAGTTCTT
129 -A---ACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACA-ATCGAGTAAGGAAGGTCTT
** * * *
3758471 GATTGAATACAGTAAAGAGAGGTAAGATTTGACCGAGTATAGTCAAATGGG
189 GACCGAATACAGTCAAGAGAGGTAAAATTTGATCGAGTATAGTCAAATGGG
* * *
3758522 GGAAAGCTTAACTGAATATAGCTAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGG
1 GG-AAGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGAC-GAGTACAGTCGAGTAAAGAAGG
* * ** *
3758587 TTTTGACTGAATACAGTCAAGAGAGGCAAGATTTGATTGAGTACAGTCAAATAAGGGAAGGT-TT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * ** * * *
3758651 AACTGAATATAATTAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGGTCTTGACTG
129 AACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCG
* * *
3758716 AATACAATCAAGAGAGGTAAAATTTGATCGATTACAGTCAAATGGG
194 AATACAGTCAAGAGAGGTAAAATTTGATCGAGTATAGTCAAATGGG
* * * *
3758762 GGAAGCCTTAATTCAATATAGTTAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAGG
1 GGAAG-CTTAATTGAATATAGTTAAGCAAGGGTAGATTCGA-CGAGTACAGTCGAGTAAAGAAGG
* * * * * * **
3758827 TCTTAACTAAATACAGTTAAGATAGATAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * * * *
3758891 AACTGAATACAATTAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGGTCTTGACCA
129 AACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCG
* * *
3758956 AATATAGCCAAGAGAGGTCAAATTTGA
194 AATACAGTCAAGAGAGGTAAAATTTGA
3758983 CTAATTACAG
Statistics
Matches: 589, Mismatches: 100, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
239 15 0.03
240 359 0.61
241 10 0.02
242 2 0.00
243 2 0.00
244 188 0.32
245 13 0.02
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (239 bp):
GGAAGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACGAGTACAGTCGAGTAAAGAAGGTC
TTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTTAA
CTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCGAA
TACAGTCAAGAGAGGTAAAATTTGATCGAGTATAGTCAAATGGG
Found at i:3758845 original size:60 final size:60
Alignment explanation
Indices: 3758424--3758959 Score: 178
Period size: 60 Copynumber: 8.9 Consensus size: 60
3758414 CTGAATATAA
* * * * * * *
3758424 TAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAAGGAAGTTCTTGATTGAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAG-TCGAGTAAGGAAGGTCTTAACTAAATACAGT
* * * * * * ** * * * *
3758484 AAAG--AGAGGTAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTTAACTGAATATAGC
1 TAAGCAAG-GGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
* * * * * * *
3758544 TAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGGTTTTGACTGAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* *** * ** * * * * *
3758604 CAAG-AGAGGCAAGATTTGATTGAGTACAGTCAAATAAGGGAAGGT-TTAACTGAATATAAT
1 TAAGCA-AGGGTGGATTCGACCGAGTACAGTCGAGTAA-GGAAGGTCTTAACTAAATACAGT
* ** * * ** * * *
3758664 TAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGGTCTTGACTGAATACAAT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* ** * * * * * ** * * * *
3758724 CAAG--AGAGGTAAAATTTGATCGATTACAGTCAAATGGGGGAA-GCCTTAATTCAATATAGT
1 TAAGCAAG-GGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
*
3758784 TAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* * * * * * ** * * *
3758844 TAAG-ATA-GATAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTTAACTGAATACAAT
1 TAAGCA-AGGGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
* * * *
3758904 TAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGGTCTTGACCAAATA
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATA
3758960 TAGCCAAGAG
Statistics
Matches: 334, Mismatches: 119, Indels: 46
0.67 0.24 0.09
Matches are distributed among these distances:
58 4 0.01
59 27 0.08
60 270 0.81
61 29 0.09
62 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (60 bp):
TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
Found at i:3759387 original size:89 final size:88
Alignment explanation
Indices: 3759150--3759665 Score: 409
Period size: 89 Copynumber: 5.8 Consensus size: 88
3759140 TGAGACATCT
* * * *
3759150 TTGCCCC--GAAAATCAGACTTTGTGATGCACCAATATCATTTAGTAGTTGGAT-AAGGGAGATA
1 TTGCCCCAAGAAAATC-GACTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAGGG-GATA
* * *
3759212 TGATTGGGAATGTGTG-G-T-CTATCT
64 TGATTGAGAAGGTGTGAGCTGC-A-CC
* * * * * * * *
3759236 TTTCCCCAAAGAAATTAGTCTTTGTGATGCATCAATATCATCTAGT-GGTCAAGTGAGGGGGATA
1 TTGCCCC-AAGAAAATCGACTTTGTGATGCATCAATACCATCTAGTAGTTGAA-TGAAGGGGATA
* ** * *
3759300 TGATTGGGAATTTATGGGCTGCACC
64 TGATTGAGAAGGTGTGAGCTGCACC
* * * * * *
3759325 TTGCCCCAAGGAAATTTGACTTCGTGATGCGTCAATACCATTTAGTAGTTGAATGAAAGGGATAT
1 TTGCCCCAA-GAAAATCGACTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAGGGGATAT
**
3759390 GATTGAGAAGGTGTGAGCTAAACC
65 GATTGAGAAGGTGTGAGCTGCACC
* * * * *
3759414 TTGGCACAAGAAAATCAATCTTTGTGATGAATCAATACCATCTACTAGTTGAATGAAGGGGATAT
1 TTGCCCCAAGAAAATCGA-CTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAGGGGATAT
*
3759479 GATTGAGAAGGTGTGAGCTGCATC
65 GATTGAGAAGGTGTGAGCTGCACC
* * * * * *
3759503 TTACCCCAAGAAAATCAATCTTTGTCATGCATCAATACCATCTAG-CGATTAAATGAAAGGGATA
1 TTGCCCCAAGAAAATCGA-CTTTGTGATGCATCAATACCATCTAGTAG-TTGAATGAAGGGGATA
* *
3759567 TGATTGAAAAGCTGTGAGCTGCACC
64 TGATTGAGAAGGTGTGAGCTGCACC
* * * * * * * * * *
3759592 TTGCCCTAAAAAAATCAAGCTTTATGATGCATCAGTTCCATCTAGTGGTTGAAAGACGAGGATAT
1 TTGCCCCAAGAAAATCGA-CTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAGGGGATAT
3759657 GATTGAGAA
65 GATTGAGAA
3759666 TGTGGGGTCT
Statistics
Matches: 345, Mismatches: 72, Indels: 23
0.78 0.16 0.05
Matches are distributed among these distances:
86 6 0.02
87 3 0.01
88 54 0.16
89 274 0.79
90 7 0.02
91 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (88 bp):
TTGCCCCAAGAAAATCGACTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAGGGGATATG
ATTGAGAAGGTGTGAGCTGCACC
Found at i:3761274 original size:19 final size:21
Alignment explanation
Indices: 3761252--3761290 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
3761242 CTTTTTTTTT
3761252 TCTTTTTTT-CA-TTTTTCTC
1 TCTTTTTTTGCACTTTTTCTC
3761271 TCTTTTTTTGCACTTTTTCT
1 TCTTTTTTTGCACTTTTTCT
3761291 TCATTTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (21 bp):
TCTTTTTTTGCACTTTTTCTC
Found at i:3761287 original size:30 final size:31
Alignment explanation
Indices: 3761239--3761296 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
3761229 TCTTTTCATT
***
3761239 TCTCTTTTTTTTTTCTTTTT-TTCATTTTTC
1 TCTCTTTTTTTGCACTTTTTCTTCATTTTTC
3761269 TCTCTTTTTTTGCACTTTTTCTTCATTT
1 TCTCTTTTTTTGCACTTTTTCTTCATTT
3761297 CACACTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (31 bp):
TCTCTTTTTTTGCACTTTTTCTTCATTTTTC
Found at i:3761682 original size:5 final size:5
Alignment explanation
Indices: 3761672--3761697 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3761662 ATGTATCTGA
3761672 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
3761698 GTTTTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:3762555 original size:14 final size:14
Alignment explanation
Indices: 3762536--3762564 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3762526 AACAAATATA
3762536 TGCTTGTTTCCCCT
1 TGCTTGTTTCCCCT
3762550 TGCTTGTTTCCCCT
1 TGCTTGTTTCCCCT
3762564 T
1 T
3762565 TGAGCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.52
Consensus pattern (14 bp):
TGCTTGTTTCCCCT
Found at i:3764286 original size:13 final size:13
Alignment explanation
Indices: 3764268--3764293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3764258 CAATTTTTGG
3764268 TGTATCGATACAT
1 TGTATCGATACAT
3764281 TGTATCGATACAT
1 TGTATCGATACAT
3764294 ACTTGGTGTA
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:3764305 original size:32 final size:33
Alignment explanation
Indices: 3764248--3764311 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3764238 TACAAGCCAA
**
3764248 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3764281 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3764312 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3764318 original size:19 final size:18
Alignment explanation
Indices: 3764248--3764318 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
3764238 TACAAGCCAA
3764248 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
3764268 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3764281 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3764300 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3764319 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3770613 original size:32 final size:32
Alignment explanation
Indices: 3770569--3770649 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 32
3770559 AGAAACCATC
* *
3770569 TCTAAAGCCCACACAAGTTCGTGGCA-ACCTTCT
1 TCTAAAGCCCACACAAGTTAGTGG-AGACCCT-T
3770602 TC-AAAGCCCACACAAGTTAGTGGAGACCCTT
1 TCTAAAGCCCACACAAGTTAGTGGAGACCCTT
3770633 TCTAAAGCCCACACAAG
1 TCTAAAGCCCACACAAG
3770650 ACATTGGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.09
32 38 0.86
33 2 0.05
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTTAGTGGAGACCCTT
Found at i:3770732 original size:52 final size:52
Alignment explanation
Indices: 3770652--3771293 Score: 396
Period size: 52 Copynumber: 12.2 Consensus size: 52
3770642 CACACAAGAC
* * * *
3770652 ATTGGCACCTTTTT--TTTTCTCAAGTCCAATACCACTAGCCTTGAATCAGCAT
1 ATTGGCACCTTTTTCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * *
3770704 ATTGGCACCTTTTTCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* *
3770756 ATTGGCACCTTCTTC-T-TTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTTTTTCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * * *
3770808 ATTGGCACCTTTATCATCTCTAAGTCCAATGTTGTTGGCCTTGAATCAGCAC
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * *
3770860 ATTGGCACCTTCTTC-T-TTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCAT
1 ATTGGCACCTTTTTCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * *
3770912 ATTGGCACCTTTATCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACAT
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* ** * * * ** *
3770964 ATTGACACCTTTAGCATCCTTCTCA-TCCTCAAATCTAATGTCGTTGAG-CTTGAGTTTGCAC
1 ATTGGCACCTTTTTCAT-CTT-TAAGT-C-C-AA--T-A--TCGCTG-GCCTTGAATCAGCAT
* * * *
3771025 ATTGGTA-C--TATCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* ** * * * *
3771074 ATTGGCATCTTTAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCAC
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* ** * * * *
3771126 ATTGGCA--TTCTTCTCATCTTCAAGTTTAATGTCCCTGGCCATGAATCAGCAC
1 ATTGGCACCTT-TT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * *
3771178 ATT-G-ACATTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCAGCAT
1 ATTGGCACCTT-TT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
**** * * * ** * *
3771230 ATTGGTGTATTTGTCATCATTAAGTCCAATGTCATTGGCCTTGAATTAGCAC
1 ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
3771282 ATTGGCACCTTT
1 ATTGGCACCTTT
3771294 AAGCCCAACA
Statistics
Matches: 455, Mismatches: 103, Indels: 64
0.73 0.17 0.10
Matches are distributed among these distances:
48 1 0.00
49 21 0.05
50 7 0.02
51 7 0.02
52 360 0.79
53 11 0.02
54 13 0.03
55 1 0.00
56 5 0.01
57 4 0.01
58 6 0.01
59 1 0.00
60 1 0.00
61 16 0.04
62 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
ATTGGCACCTTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
Found at i:3770836 original size:104 final size:104
Alignment explanation
Indices: 3770652--3771292 Score: 479
Period size: 104 Copynumber: 6.1 Consensus size: 104
3770642 CACACAAGAC
* * * * * *
3770652 ATTGGCACCTTTTTTTTTCTCAAGTCCAATACCACTAGCCTTGAATCAGCATATTGGCACCTTTT
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
*
3770717 TCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAGCAT
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
*
3770756 ATTGGCACCTTCTTCTTTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
3770821 TCATCTCTAAGTCCAATGTTGTTGGCCTTGAATCAGCAC
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* *
3770860 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTTA
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * ** * *
3770925 TCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACAT
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* * * * * * * ** *
3770964 ATTGACACCTTTAGCATCCTTCTCATCCTCAAATCTAATGTCGTTGAG-CTTGAGTTTGCACATT
1 ATTGGCACC--T----T-CTTCT--TTCTCAAGTCCAATATCGCTG-GCCTTGAATCAGCATATT
* * * * *
3771028 GGTA-C--TATCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
56 GGCACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* * * * * * * * *
3771074 ATTGGCATCTT-TAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCA-TTCT
1 ATTGGCACCTTCT-TCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-T
* * ** ** * *
3771137 TCTCATCTTCAAGTTTAATGTCCCTGGCCATGAATCAGCAC
64 TATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* *** * * * ****
3771178 ATT-G-ACATTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCAGCATATTGGTGTATT
1 ATTGGCACCTTCTTC-TTTC-TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *** * *
3771241 TGTCATCATTAAGTCCAATGTCATTGGCCTTGAATTAGCAC
64 TATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
3771282 ATTGGCACCTT
1 ATTGGCACCTT
3771293 TAAGCCCAAC
Statistics
Matches: 431, Mismatches: 85, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
100 1 0.00
101 30 0.07
102 5 0.01
103 5 0.01
104 299 0.69
105 2 0.00
106 5 0.01
108 1 0.00
110 43 0.10
111 5 0.01
112 1 0.00
113 33 0.08
114 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (104 bp):
ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
Found at i:3770937 original size:156 final size:161
Alignment explanation
Indices: 3770688--3771295 Score: 448
Period size: 156 Copynumber: 3.8 Consensus size: 161
3770678 CAATACCACT
* * * * * *
3770688 AGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAG
1 AGCCTTGAATCAGCACATTGGCACCTTCTTC-T-TTTAAGTCCAATATCGTTGGCCTTGAATCAG
3770753 CATATTGGCACCTTCT-TC-T-TTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
64 CATATTGGCACCTT-TATCATCTT-T-AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
3770815 CCTTT-AT-C-ATC-T-CT-AAGTCCAATGTTGTTG
126 CCTTTAATCCTATCATCCTCAAATCCAATGTCGTTG
*
3770845 -GCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAG
1 AGCCTTGAATCAGCACATTGGCACCTTCTTCTTT-T-AAGTCCAATATCGTTGGCCTTGAATCAG
* * * *
3770909 CATATTGGCACCTTTATCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACATATTGACACCT
64 CATATTGGCACCTTTATCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* *
3770974 TTAGCATCCTTCTCATCCTCAAATCTAATGTCGTTG
129 TTA--ATCC-TATCATCCTCAAATCCAATGTCGTTG
* ** * * *
3771010 AG-CTTGAGTTTGCACATTGGTA-CTATCATC-TTTAAGTCCGATATCGTTGGCCTTGAATCAGC
1 AGCCTTGAATCAGCACATTGGCACCT-TCTTCTTTTAAGTCCAATATCGTTGGCCTTGAATCAGC
* * * * * * *
3771072 ATATTGGCATCTTTAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCA--TT
65 ATATTGGCACCTTTATCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * ** **
3771135 CT--T-C--TCATCTTCAAGTTTAATGTCCCTG
130 -TAATCCTATCATCCTCAAATCCAATGTCGTTG
* * * ** * * * *
3771163 -GCCATGAATCAGCACATTGACATTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCAG
1 AGCCTTGAATCAGCACATTGGCA-CCTTC-TTCTTTTAAGTCCAATATCGTTGGCCTTGAATCAG
**** * * * * ** * *
3771227 CATATTGGTGTATTTGTCATCATTAAGTCCAATGTCATTGGCCTTGAATTAGCACATTGGCACCT
64 CATATTGGCACCTTTATCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
3771292 TTAA
129 TTAA
3771296 GCCCAACATC
Statistics
Matches: 363, Mismatches: 62, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
152 1 0.00
153 33 0.09
154 4 0.01
155 6 0.02
156 184 0.51
157 4 0.01
158 4 0.01
159 2 0.01
160 3 0.01
161 1 0.00
162 79 0.22
163 2 0.01
164 6 0.02
165 33 0.09
166 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (161 bp):
AGCCTTGAATCAGCACATTGGCACCTTCTTCTTTTAAGTCCAATATCGTTGGCCTTGAATCAGCA
TATTGGCACCTTTATCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
AATCCTATCATCCTCAAATCCAATGTCGTTG
Found at i:3772165 original size:19 final size:19
Alignment explanation
Indices: 3772128--3772176 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
3772118 TCATACTTCT
*
3772128 ATTTC-TTGTATTGCATTC
1 ATTTCATTGCATTGCATTC
*
3772146 ATTTCATTGCATTGCTTTC
1 ATTTCATTGCATTGCATTC
3772165 ATTTCA-TGCATT
1 ATTTCATTGCATT
3772177 CATGTGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTTCATTGCATTGCATTC
Found at i:3772453 original size:18 final size:18
Alignment explanation
Indices: 3772416--3772453 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3772406 GATGGAGGAC
*
3772416 AAAGCAACGTGCAAACCA
1 AAAGCAACGTGCAAAACA
3772434 AAAGCAACGTG-AACAACA
1 AAAGCAACGTGCAA-AACA
3772452 AA
1 AA
3772454 GACAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.55, C:0.24, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAGCAACGTGCAAAACA
Found at i:3772579 original size:94 final size:97
Alignment explanation
Indices: 3772467--3772652 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 97
3772457 AAATAGACAA
3772467 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGG-G-TGATCTT-AAAAAAAATGAA
1 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGGTGTTGATCTTAAAAAAAAATGAA
3772529 ATGGGAGACAAAACATGCAACAAGAAACATGC
66 ATGGGAGACAAAACATGCAACAAGAAACATGC
* * * * ** *
3772561 AAAGCAAGAAGAAATGTGTAGCATGTGGATAGCATGGGGAGGTTGTTTTTTTTAAAAAAAAAAAT
1 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGG-TGTTGATCTT--AAAAAAAAAT
* *
3772626 GCAATGGGAGACACAACATGCAACAAG
63 GAAATGGGAGACAAAACATGCAACAAG
3772653 CAACGTGAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
94 38 0.49
96 1 0.01
97 4 0.05
100 34 0.44
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (97 bp):
AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGGTGTTGATCTTAAAAAAAAATGAA
ATGGGAGACAAAACATGCAACAAGAAACATGC
Found at i:3773991 original size:154 final size:156
Alignment explanation
Indices: 3773759--3774143 Score: 431
Period size: 154 Copynumber: 2.5 Consensus size: 156
3773749 ACCTCGTTAT
* ** *
3773759 TTTTGAGGAGATACTCCAACCCAAGTTTTTTTTCAAAACACCGACTTTTCACAATTTGGGATATT
1 TTTTGAGGAGATACTCCAACCCAAGTTTCTTTTCAAAACACCGACTTTTCACAATCGGGGATACT
* ** *** * * *
3773824 CTAACCCTGTTATTTTTGAGGGGATACTCCAATCCTGGCCTTATTTCTAAAACATCGA-TTTTCT
66 CCAACCCCATTATTTCCAAAGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTCT
* *
3773888 ATAATTAGGGATACTCTAACCCCATTA
131 -CAATCAGGGATACTCTAACCCCATTA
*
3773915 -TTTGAAGG-GATACTCCAACCC-AGTTTCTTTTCAAAACACCGACTTTTCATAATCGGGGATAC
1 TTTTG-AGGAGATACTCCAACCCAAGTTTCTTTTCAAAACACCGACTTTTCACAATCGGGGATAC
* *
3773977 TCCGACCCCATTATTTCCAAAGGGATACACCAACCCTGGCTTTATTTCTAAAACATCGATTTTTC
65 TCCAACCCCATTATTTCCAAAGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTC
* * *
3774042 TCCATCGGGGATACTTTAACCCCATTA
130 TCAATCAGGGATACTCTAACCCCATTA
* * * **
3774069 TTTTTGAGGAGATACTCCAACCCTTACTTT-ATTTCTAAAACATTGA-TTTTCTACAATCGGGGA
1 -TTTTGAGGAGATACTCCAACCC-AAGTTTCTTTTC-AAAACACCGACTTTTC-ACAATCGGGGA
*
3774132 CACTCCAACCCC
62 TACTCCAACCCC
3774144 GTTCTTTTTT
Statistics
Matches: 192, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
154 105 0.55
155 26 0.14
156 20 0.10
157 9 0.05
158 32 0.17
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (156 bp):
TTTTGAGGAGATACTCCAACCCAAGTTTCTTTTCAAAACACCGACTTTTCACAATCGGGGATACT
CCAACCCCATTATTTCCAAAGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTCT
CAATCAGGGATACTCTAACCCCATTA
Found at i:3774152 original size:79 final size:80
Alignment explanation
Indices: 3773726--3774224 Score: 357
Period size: 79 Copynumber: 6.4 Consensus size: 80
3773716 AATATCAAAA
* * * * * *
3773726 TTTCTATAATCGTGGATACACCAACCTCGTTATTTTTGAGGAGATACTCCAACCC-AAGTTT-TT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
* *
3773789 TTTCAAAACACCGACT
66 TCT-AAAACATCGACT
** * * * * * * *
3773805 TTTC-ACAATTTGGGATATTCTAACCCTGTTATTTTTGAGGGGATACTCCAATCCTGGCCTTATT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
3773869 TCTAAAACATCGA-T
66 TCTAAAACATCGACT
* ** * * * *
3773883 TTTCTATAATTAGGGATACTCTAACCCCATTA--TTTGAAGG-GATACTCCAACCC--AGTTTCT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGGAGATACTCCAACCCTGACTTTAT
*
3773943 TT-TCAAAACACCGACT
65 TTCT-AAAACATCGACT
* * * *** * *
3773959 TTTC-ATAATCGGGGATACTCCGACCCCATTATTTCCAAAGG-GATACACCAACCCTGGCTTTAT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTT-TTGAGGAGATACTCCAACCCTGACTTTAT
*
3774022 TTCTAAAACATCGATT
65 TTCTAAAACATCGACT
* ** * *
3774038 TTTCT-CCATCGGGGATACTTTAACCCCATTATTTTTGAGGAGATACTCCAACCCTTACTTTATT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
*
3774102 TCTAAAACATTGA-T
66 TCTAAAACATCGACT
* * * * * *
3774116 TTTCTACAATCGGGGACACTCCAACCCCGTTCTTTTTTA-GAGGATACACCAACCCCGA-TTTGT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGA-GATACTCCAACCCTGACTTTAT
** *
3774179 TTCCCAAACATTGA-T
65 TTCTAAAACATCGACT
* * **
3774194 TTTCCACCATTAGGGATACTCCAACCCCGTT
1 TTTCTACAATCGGGGATACTCCAACCCCGTT
3774225 TTTATCTCCA
Statistics
Matches: 333, Mismatches: 71, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
74 1 0.00
75 37 0.11
76 5 0.02
77 32 0.10
78 101 0.30
79 152 0.46
80 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
TCTAAAACATCGACT
Found at i:3776837 original size:13 final size:13
Alignment explanation
Indices: 3776819--3776844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3776809 AATTTTTTTG
3776819 TGTATCGATACAT
1 TGTATCGATACAT
3776832 TGTATCGATACAT
1 TGTATCGATACAT
3776845 ACTTGGTGTA
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:3779560 original size:166 final size:163
Alignment explanation
Indices: 3779372--3780173 Score: 806
Period size: 166 Copynumber: 4.9 Consensus size: 163
3779362 ATTTCTCTTA
* * * * **
3779372 TTTTCAAAATATGGAGTTTTCTACCACGTAAATGTTTTCGAAGGGATTTTTCTTATTTTTTAATT
1 TTTTCGAAATATAGAGTTTTCTACCACGTAAATATTTTTGAAGGGATTTTTCTTGGTTTTTAATT
* * *
3779437 TTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATTAGTTTTCAAATTTTCATTTATTT
66 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAA-ATTCATTTATTT
* *
3779502 TCATGAGTTTTTCATTTTTTCCTTGAAACTCCCCTA
130 TCAT-A-TTTTTCATTTTTTCCTTGAAACTCCCATG
*
3779538 TTTTCGAAATATAGACTTTTCTACTC-CGTAAATATTTTTG--GGCGATTTTTCTTGGTTTTTAA
1 TTTTCGAAATATAGAGTTTTCTAC-CACGTAAATATTTTTGAAGG-GATTTTTCTTGGTTTTTAA
* *
3779600 TTTTTAAAATTCATCAACTATTATTATTTAATTCATATTAAATCATTTTTCAAAAATTCATTCAT
64 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTC-AAAATTCA-T--T
* **
3779665 TTTTCAAAAATTCATTCATTTTTCATTTTTTCCTTGAAACTTTCATG
125 TATT------TTCA-T-ATTTTTCATTTTTTCCTTGAAACTCCCATG
* * *
3779712 TTTTTGAAATGTAGAGTTTTCTAGTCCA--TAAATA-TTTTCAAGTGGATTTTTCTTGGTTTTTA
1 TTTTCGAAATATAGAGTTTTCTA--CCACGTAAATATTTTTGAAG-GGATTTTTCTTGGTTTTTA
* * * * * * * *
3779774 ATTTTTAAAATTGATAAAAAATTATTAGTTAATTGATATTAAATTAATTTTCAAAA---ATTCA-
63 ATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAATTCATTTAT
* *
3779835 -TTCAT-TTTTT-ATTTTTTTCTTGAAACTCTCATG
128 TTTCATATTTTTCATTTTTTCCTTGAAACTCCCATG
** * ** *
3779868 TTTTCGAAATATAGAGTTTTCTACTTCGTAAATGTTTTTGGGGGGATTTTTCTTAGTTTTTAATT
1 TTTTCGAAATATAGAGTTTTCTACCACGTAAATATTTTTGAAGGGATTTTTCTTGGTTTTTAATT
*
3779933 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTTAAAAATTCATTTATTT
66 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAG-TTTTCAAAATTCATTTATTT
* *
3779998 TCATTTGTTTTCCATTTTTTCCTTGAAACTCCCTTG
130 TCATAT-TTTT-CATTTTTTCCTTGAAACTCCCATG
* * **** * *
3780034 TTTTC-AAACTACAGAGTTGTCTATTTTGTAAATATTTTTGGAGAGATTTTTCTTGGTTTTTAAT
1 TTTTCGAAA-TATAGAGTTTTCTACCACGTAAATATTTTTGAAGGGATTTTTCTTGGTTTTTAAT
* * * *
3780098 TTTTAAAGTTTATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCCAAAATTCATTCATT
65 TTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTT-CAAAATTCATTTATT
*
3780163 TTTA-ATTTTTC
129 TTCATATTTTTC
3780174 TTTGCTTGTC
Statistics
Matches: 532, Mismatches: 70, Indels: 71
0.79 0.10 0.11
Matches are distributed among these distances:
154 1 0.00
156 105 0.20
157 18 0.03
159 1 0.00
160 8 0.02
162 5 0.01
163 2 0.00
164 10 0.02
165 76 0.14
166 167 0.31
167 1 0.00
168 5 0.01
170 1 0.00
171 1 0.00
173 4 0.01
174 59 0.11
175 66 0.12
176 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (163 bp):
TTTTCGAAATATAGAGTTTTCTACCACGTAAATATTTTTGAAGGGATTTTTCTTGGTTTTTAATT
TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAATTCATTTATTTT
CATATTTTTCATTTTTTCCTTGAAACTCCCATG
Found at i:3779664 original size:19 final size:19
Alignment explanation
Indices: 3779642--3779689 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
3779632 TCATATTAAA
3779642 TCATTTTTCAAAAATTCAT
1 TCATTTTTCAAAAATTCAT
3779661 TCATTTTTCAAAAATTCAT
1 TCATTTTTCAAAAATTCAT
3779680 TCATTTTTCA
1 TCATTTTTCA
3779690 TTTTTTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (19 bp):
TCATTTTTCAAAAATTCAT
Found at i:3779815 original size:175 final size:174
Alignment explanation
Indices: 3779509--3779843 Score: 474
Period size: 175 Copynumber: 1.9 Consensus size: 174
3779499 TTTTCATGAG
* *
3779509 TTTTTCATTTTTTCCTTGAAACTCCCCTATTTTCGAAATATAGACTTTTCTACTCCGTAAATATT
1 TTTTTCATTTTTTCCTTGAAACTCCCATATTTTCGAAATATAGACTTTTCTACTCCATAAATATT
* * ** *
3779574 TTTGGGCGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAACTATTATTATTTAATTCATATT
66 TTAGGGCGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAAATTATTAGTTAATTCATATT
*
3779639 AAATCATTTTTCAAAAATTCATTCATTTTTCAAAAATTCATTCA
131 AAATCAATTTTCAAAAATTCATTCATTTTTCAAAAATTCATTCA
** * * * * *
3779683 TTTTTCATTTTTTCCTTGAAACTTTCATGTTTTTGAAATGTAGAGTTTTCTAGTCCATAAATATT
1 TTTTTCATTTTTTCCTTGAAACTCCCATATTTTCGAAATATAGACTTTTCTACTCCATAAATATT
* * *
3779748 TTCAAGTG-GATTTTTCTTGGTTTTTAATTTTTAAAATTGATAAAAAATTATTAGTTAATTGATA
66 TT--AGGGCGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAAATTATTAGTTAATTCATA
*
3779812 TTAAATTAATTTTCAAAAATTCATTCATTTTT
129 TTAAATCAATTTTCAAAAATTCATTCATTTTT
3779844 TATTTTTTTC
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
174 58 0.41
175 80 0.57
176 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (174 bp):
TTTTTCATTTTTTCCTTGAAACTCCCATATTTTCGAAATATAGACTTTTCTACTCCATAAATATT
TTAGGGCGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAAATTATTAGTTAATTCATATT
AAATCAATTTTCAAAAATTCATTCATTTTTCAAAAATTCATTCA
Found at i:3780834 original size:11 final size:11
Alignment explanation
Indices: 3780808--3780836 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3780798 AATTTTTTTA
3780808 AAAAATT-AAT
1 AAAAATTAAAT
3780818 AAAAATTAAAT
1 AAAAATTAAAT
3780829 AAAAATTA
1 AAAAATTA
3780837 TTATCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:3781085 original size:140 final size:141
Alignment explanation
Indices: 3780713--3781072 Score: 345
Period size: 140 Copynumber: 2.5 Consensus size: 141
3780703 TTTAGGCTTT
* * * *
3780713 TAATATTCCTATAGGTATCCGTAAGGGTATAAAAGTCTCCAAAAAATTTTCATATCTTTTCAGGT
1 TAATATTCCTAT-GGTATTCGTAGGGGTATAAAA-TTTTC-AAAAATTTTCATATCTTTTC-GGT
* * *
3780778 CTCCATTAACGTACAAAATGAATTTTTTTAAAAAATTAATAAAAATTAAATAAAAATTATTATCT
62 CTCCATTAAAGTACGAAATGAA-TTTTTTAAAAAATT-ATAAAAATTAAATAAAAATTATCATCT
3780843 TAATTTTTAAAGATTTC
125 TAATTTTTAAAGATTTC
* * * * * *
3780860 TAATATTCTTATGGTTTTCCGTAGGAGTATAGAAATCTTT-AAAATTTTTTATATCTTTTTGGTT
1 TAATATTCCTATGGTATT-CGTAGGGGTATA-AAAT-TTTCAAAAATTTTCATATCTTTTCGG-T
* * ** * *
3780924 TTTCATTAAAGTGTGAAATGAA-TTTTTCAAAAA-T-TAAAAATTAACT-AAAATTATCATCTTA
62 CTCCATTAAAGTACGAAATGAATTTTTTAAAAAATTATAAAAATTAAATAAAAATTATCATCTTA
*
3780985 ATTTTTCGAA-ATTTC
127 ATTTTT-AAAGATTTC
* * *
3781000 TAATATTCCTATGGGTATTCGTAGGGGTATGAAAATTTTCAAAACTTTTCATGTCTTTTCGATCC
1 TAATATTCCTAT-GGTATTCGTAGGGGTAT-AAAATTTTCAAAAATTTTCATATCTTTTCGGT-C
3781065 TCCATTAA
63 TCCATTAA
3781073 GGCACGGAAT
Statistics
Matches: 174, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
139 4 0.02
140 74 0.43
141 19 0.11
143 1 0.01
144 10 0.06
145 2 0.01
146 38 0.22
147 22 0.13
148 4 0.02
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (141 bp):
TAATATTCCTATGGTATTCGTAGGGGTATAAAATTTTCAAAAATTTTCATATCTTTTCGGTCTCC
ATTAAAGTACGAAATGAATTTTTTAAAAAATTATAAAAATTAAATAAAAATTATCATCTTAATTT
TTAAAGATTTC
Found at i:3786878 original size:20 final size:21
Alignment explanation
Indices: 3786827--3786879 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
3786817 TTCTACAATT
*
3786827 TGTATCGATATAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
* * * *
3786848 TATATCAATACACA-AGTGAA
1 TGTATCGATACAAATAGTAAA
3786868 TGTATCGATACA
1 TGTATCGATACA
3786880 TGCCTGAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:3791725 original size:19 final size:19
Alignment explanation
Indices: 3791684--3791737 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
3791674 GCCAGTTTTG
*
3791684 TGTATCGATACAATTGAGTA
1 TGTATCGATACAA-TGAGCA
3791704 TGTATCGATACAATGAGCA
1 TGTATCGATACAATGAGCA
3791723 TGTATCGATACAATG
1 TGTATCGATACAATG
3791738 TATTGATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAATGAGCA
Found at i:3792521 original size:75 final size:75
Alignment explanation
Indices: 3792440--3792609 Score: 261
Period size: 75 Copynumber: 2.3 Consensus size: 75
3792430 TAAAAATGAT
* *
3792440 TTTCTCCTCCTTTTTGTTATCAAATAAAAATAATTTCTTCCCTTTTGTCAAATGCCAAAATTTAT
1 TTTCTCCTCCTTTTTGTTATCAAATAAAAATAATTTCTCCCCCTTTGTCAAATGCCAAAATTTAT
*
3792505 TTTTAAAAAA
66 TTTCAAAAAA
*
3792515 TTTCTCC-CCTTTTTTGTTAGCAAATAAAAATAATTTCTCCCCCTTTGTCAAATGCCAAAATTTA
1 TTTCTCCTCC-TTTTTGTTATCAAATAAAAATAATTTCTCCCCCTTTGTCAAATGCCAAAATTTA
3792579 TTTTCAAAAAA
65 TTTTCAAAAAA
* * *
3792590 TTTTTCTTCCTTTTTATTAT
1 TTTCTCCTCCTTTTTGTTAT
3792610 AGTAAAGAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 2 0.02
75 81 0.95
76 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (75 bp):
TTTCTCCTCCTTTTTGTTATCAAATAAAAATAATTTCTCCCCCTTTGTCAAATGCCAAAATTTAT
TTTCAAAAAA
Found at i:3798678 original size:21 final size:20
Alignment explanation
Indices: 3798589--3798703 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
3798579 TTTTACCTAG
3798589 ATGTATCGATACAGTT-TTCA
1 ATGTATCGATACA-TTCTTCA
*** *
3798609 ATGTATCGATACATGGATGA
1 ATGTATCGATACATTCTTCA
*
3798629 ATGCATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
3798649 ATGTATCGATACATTCTATCT
1 ATGTATCGATACATTCT-TCA
* * *
3798670 TTTTATCGATACATTGTTCA
1 ATGTATCGATACATTCTTCA
* *
3798690 CTGTATCAATACAT
1 ATGTATCGATACAT
3798704 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.01
20 59 0.78
21 16 0.21
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:3802986 original size:16 final size:16
Alignment explanation
Indices: 3802965--3802995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3802955 CAACATTTCC
*
3802965 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
3802981 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
3802996 GAAAGCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:3807521 original size:19 final size:19
Alignment explanation
Indices: 3807476--3807531 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3807466 CTGCCAGTTT
*
3807476 CATGTATCGATACAATTAAG
1 CATGTATCGATACAA-TGAG
*
3807496 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
3807515 CATGTATCGATAAAATG
1 CATGTATCGATACAATG
3807532 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:3812208 original size:31 final size:32
Alignment explanation
Indices: 3812159--3812272 Score: 144
Period size: 32 Copynumber: 3.6 Consensus size: 32
3812149 AGCAAGAAAT
* *
3812159 GTGGCAACCTATTCTAAAGCCCACATAAG-CTG
1 GTGGCAACCTCTTCTAAAGCCCACACAAGTC-G
3812191 GTGGCAACC-CTTCTAAAGCCCACACAAGTCG
1 GTGGCAACCTCTTCTAAAGCCCACACAAGTCG
*
3812222 ATGGCAACC-CTTCTCAAAGCCCACACAAGTCG
1 GTGGCAACCTCTTCT-AAAGCCCACACAAGTCG
* *
3812254 GTGGTAACCTCTTATAAAG
1 GTGGCAACCTCTTCTAAAG
3812273 GCAACCTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
31 31 0.42
32 38 0.52
33 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
GTGGCAACCTCTTCTAAAGCCCACACAAGTCG
Found at i:3812391 original size:33 final size:33
Alignment explanation
Indices: 3812283--3812397 Score: 153
Period size: 32 Copynumber: 3.5 Consensus size: 33
3812273 GCAACCTTTT
* *
3812283 TCTAAAGCCCACACAAGTCGGTGGCAACCCCTC
1 TCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
*
3812316 T-TAAAGCCCACACAAGTTGGTGGTAACCCTT-
1 TCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
* * * *
3812347 TCTAAAACCCACACAAGTCGATAGTAGCCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
3812380 TCTAAAGCCCACACAAGT
1 TCTAAAGCCCACACAAGT
3812398 TAGTGGCAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
31 1 0.01
32 52 0.73
33 18 0.25
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
Found at i:3812550 original size:52 final size:52
Alignment explanation
Indices: 3812479--3813059 Score: 548
Period size: 52 Copynumber: 11.0 Consensus size: 52
3812469 TTTAAGCTCG
* * **
3812479 ATATCGTTGGCTTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
* * * * *
3812531 ATGTTGCTGGCCTTGAATCAGCATATTGGTACCTTTTTCTATC-ATAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC-ATCTTTAAGTCTA
* * *
3812583 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTCTCATCTTTAAGCCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
* * * * * *
3812635 ATGTCACTGGCCTTTAATCAGCACATTGGCACCTTTTTC-TTTCTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TTAAGTCTA
* *
3812687 ATATTGCTGGCCTTGAATCAGCATATTGG-AGCCTTTGTCATTTTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTGTCATCTTTAAGTCTA
* * * ** *
3812739 ATGTCGCTAGCCTTGAAT-AGGCACATTGGCACCTTT-TTTTCCTTTAAGTCAA
1 ATATCGCTGGCCTTGAATCA-GCATATTGGCACCTTTGTCAT-CTTTAAGTCTA
** * ** *
3812791 ATATCATTGGCCTTGAATCAACATATTGGTGCCTTTGTCATCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
* * ** *
3812843 ATGTCGCTGGCCTTGAATCAGCACATTGGCATATTTTTC-T-TTCATAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT--TAAGTCTA
* * *
3812895 ATATCTCTGGCCTTGAATCAGCATATTAGCACCTTTGTCATCTTTCATCTTTAAGCCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-------TCATCTTTAAGTCTA
* * * * *
3812954 ATATCGCTAGCCTTAAATCAACATATTGGCACCTTTGTCATCTCTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
* *
3813006 ATATCG-TCGGCTTTGAATCAGCATATTGGCACTTTTGTCATCTTTAAGTCTA
1 ATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
3813058 AT
1 AT
3813060 GGCATCTTTA
Statistics
Matches: 425, Mismatches: 82, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
50 2 0.00
51 11 0.03
52 358 0.84
53 10 0.02
59 41 0.10
60 1 0.00
61 2 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (52 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTA
Found at i:3812625 original size:104 final size:104
Alignment explanation
Indices: 3812479--3813060 Score: 620
Period size: 104 Copynumber: 5.5 Consensus size: 104
3812469 TTTAAGCTCG
* * *
3812479 ATATCGTTGGCTTTGAATCAGCATATTGGCACCTTTAC-CATCTTTAAGTCTAATGTTGCTGGCC
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-CTCATCTTTAAGTCTAATGTCGCTGGCC
* *
3812543 TTGAATCAGCATATTGGTACCTTTTTCTATCATAAGTCTA
65 TTGAATCAGCACATTGGCACCTTTTTCTATCATAAGTCTA
* * *
3812583 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTCTCATCTTTAAGCCTAATGTCACTGGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTAAGTCTAATGTCGCTGGCCT
* * *
3812648 TTAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCTA
66 TGAATCAGCACATTGGCACCTTTTTCTATCATAAGTCTA
* * * *
3812687 ATATTGCTGGCCTTGAATCAGCATATTGG-AGCCTTTGTCATTTTTAAGTCTAATGTCGCTAGCC
1 ATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTCTCATCTTTAAGTCTAATGTCGCTGGCC
* *
3812751 TTGAAT-AGGCACATTGGCACCTTTTT-T-TCCTTTAAGTCAA
65 TTGAATCA-GCACATTGGCACCTTTTTCTAT-C-ATAAGTCTA
** * ** * *
3812791 ATATCATTGGCCTTGAATCAACATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTAAGTCTAATGTCGCTGGCCT
** *
3812856 TGAATCAGCACATTGGCATATTTTTCTTTCATAAGTCTA
66 TGAATCAGCACATTGGCACCTTTTTCTATCATAAGTCTA
* * * *
3812895 ATATCTCTGGCCTTGAATCAGCATATTAGCACCTTTGTCATCTTTCATCTTTAAGCCTAATATCG
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-T--TC--TCATCTTTAAGTCTAATGTCG
* * * * * * *
3812960 CTAGCCTTAAATCAACATATTGGCACCTTTGTC-ATCTCTAAGTCCA
59 CTGGCCTTGAATCAGCACATTGGCACCTTTTTCTATC-ATAAGTCTA
* * *
3813006 ATATCG-TCGGCTTTGAATCAGCATATTGGCACTTTTGTCATCTTTAAGTCTAATG
1 ATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTAAGTCTAATG
3813061 GCATCTTTAA
Statistics
Matches: 401, Mismatches: 59, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
102 1 0.00
103 4 0.01
104 305 0.76
105 3 0.01
106 3 0.01
107 1 0.00
108 1 0.00
109 2 0.00
110 3 0.01
111 78 0.19
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (104 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTAAGTCTAATGTCGCTGGCCT
TGAATCAGCACATTGGCACCTTTTTCTATCATAAGTCTA
Found at i:3813275 original size:61 final size:61
Alignment explanation
Indices: 3813114--3813288 Score: 155
Period size: 61 Copynumber: 2.9 Consensus size: 61
3813104 AGCACATTGG
* * *
3813114 CATTATTCTCATCTTCAAGTA-T-AATGTGGCTGA-CTTGAATCAGCATATTGGCATCTTTAT
1 CATTCTTCTCATCTTCAA--ACTCAATGTCGCTGACCTTGAATCAGCATATTGGCACCTTTAT
** * * * *
3813174 CATTCTTCTCATCTTCAAACTTGATATCGTTGGCCGTGAATCAGCATATTGGCACCTTTAT
1 CATTCTTCTCATCTTCAAACTCAATGTCGCTGACCTTGAATCAGCATATTGGCACCTTTAT
* * *
3813235 CATTCTT-TGCATCCTT-AAGAC-CAATGTTGCTGACCTTGAATTAGCACATTGGCA
1 CATTCTTCT-CAT-CTTCAA-ACTCAATGTCGCTGACCTTGAATCAGCATATTGGCA
3813289 TTCTTCTCAT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 24 0.26
61 61 0.66
62 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (61 bp):
CATTCTTCTCATCTTCAAACTCAATGTCGCTGACCTTGAATCAGCATATTGGCACCTTTAT
Found at i:3813314 original size:61 final size:61
Alignment explanation
Indices: 3813212--3813385 Score: 199
Period size: 61 Copynumber: 2.9 Consensus size: 61
3813202 GTTGGCCGTG
* * * * * * *
3813212 AATCAGCATATTGGCAC-CTTTATCATTCTTT-GCATCCTTAAGACCAATGTTGCTGACCTTG
1 AATCAGCACATTGGCACTC-TTCTCA-TCTTTATCATCTTTAAGTCCAATGTTGCAGACCTTA
* * * * *
3813273 AATTAGCACATTGGCATTCTTCTCATCTTTATCATCTTTAAGTCTAGTGTTACAGACCTTA
1 AATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTGCAGACCTTA
*
3813334 AATCAGCACATTGGCACTCTTCTCATCTTTATCATTTTTAAGTCCAATGTTG
1 AATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTG
3813386 TAGGCTTTGA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
60 5 0.05
61 87 0.94
62 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (61 bp):
AATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTGCAGACCTTA
Found at i:3813404 original size:61 final size:61
Alignment explanation
Indices: 3813210--3813404 Score: 180
Period size: 61 Copynumber: 3.2 Consensus size: 61
3813200 TCGTTGGCCG
* * * * * * * *
3813210 TGAATCAGCATATTGGCAC-CTTTATCATTCTTT-GCATCCTTAAGACCAATGTTGCTGACCT
1 TGAATCTGCACATTGGCACTC-TTCTCA-TCTTTATCATCTTTAAGTCCAATGTTACAGACCT
* * *
3813271 TGAAT-TAGCACATTGGCATTCTTCTCATCTTTATCATCTTTAAGTCTAGTGTTACAGACCT
1 TGAATCT-GCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTACAGACCT
* * * ** * *
3813332 TAAATCAGCACATTGGCACTCTTCTCATCTTTATCATTTTTAAGTCCAATGTTGTAGGCTT
1 TGAATCTGCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTACAGACCT
3813393 TGAATCTGCACA
1 TGAATCTGCACA
3813405 CTAGCACTTC
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
60 5 0.05
61 101 0.94
62 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (61 bp):
TGAATCTGCACATTGGCACTCTTCTCATCTTTATCATCTTTAAGTCCAATGTTACAGACCT
Found at i:3814087 original size:20 final size:20
Alignment explanation
Indices: 3814052--3814108 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
3814042 ATAAAAACAA
* * *
3814052 TAAATGTATTGGTACATAAG
1 TAAATGTATCGATACATAAC
**
3814072 TAAATGTATCGATACATGCC
1 TAAATGTATCGATACATAAC
3814092 TGAAATGTATCGATACA
1 T-AAATGTATCGATACA
3814109 AAACCACCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
TAAATGTATCGATACATAAC
Found at i:3814162 original size:20 final size:20
Alignment explanation
Indices: 3814137--3814210 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
3814127 CCAAGAAAAA
3814137 GTATCGATACATTAATAAAT
1 GTATCGATACATTAATAAAT
* * *
3814157 GTATCGATACATGCTCACAATT
1 GTATCGATACAT--TAATAAAT
**
3814179 GTATCGATACATTTTTCAAA-
1 GTATCGATACATTAAT-AAAT
3814199 GTATCGATACAT
1 GTATCGATACAT
3814211 ACTGGCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 25 0.57
21 2 0.05
22 17 0.39
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
GTATCGATACATTAATAAAT
Found at i:3815095 original size:9 final size:8
Alignment explanation
Indices: 3815082--3815115 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
3815072 GGCAAAAAGG
3815082 ATAAAAAA
1 ATAAAAAA
3815090 ATTAAAAAA
1 A-TAAAAAA
*
3815099 ATAATAAA
1 ATAAAAAA
3815107 ATAAAAAA
1 ATAAAAAA
3815115 A
1 A
3815116 AAACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
ATAAAAAA
Found at i:3815116 original size:17 final size:17
Alignment explanation
Indices: 3815082--3815116 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3815072 GGCAAAAAGG
*
3815082 ATAAAAAAATTAAAAAA
1 ATAAAAAAATAAAAAAA
*
3815099 ATAATAAAATAAAAAAA
1 ATAAAAAAATAAAAAAA
3815116 A
1 A
3815117 AACATTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAAAAATAAAAAAA
Found at i:3817780 original size:51 final size:51
Alignment explanation
Indices: 3817704--3817868 Score: 165
Period size: 51 Copynumber: 3.2 Consensus size: 51
3817694 TTCATCTCGA
* * * *
3817704 GGATACTCCAA-TCCCAGTTTCATTTCCAAAACATCAA-TTTCTCTTAATCGG
1 GGATACTCCAACTCCGA-TTTTATTTCCAAAACACCAATTTTC-CATAATCGG
* *
3817755 GGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCGG
* * * * * *
3817806 GGATACTTCAACTCCGATCTTATTTCCAAAGCACCGACTTTT-CAAAATCAG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACC-AATTTTCCATAATCGG
*
3817857 AGATACTCCAAC
1 GGATACTCCAAC
3817869 CCCATTATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
51 83 0.87
52 12 0.13
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCGG
Found at i:3817959 original size:51 final size:51
Alignment explanation
Indices: 3817883--3818001 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 51
3817873 TTATTTCCGA
* * * * *
3817883 GGGGACACTCCAATCTCGGTTTTATTTCTAAAATATTAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
3817934 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
3817985 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
3818002 ATTATTTTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
Found at i:3817992 original size:130 final size:129
Alignment explanation
Indices: 3817753--3818395 Score: 702
Period size: 130 Copynumber: 4.9 Consensus size: 129
3817743 TCTCTTAATC
* * *** * *
3817753 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGGGGATACTTCAAC
1 GGGGATACTCCAAC-CCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
* * * * * * * * * * *
3817818 TCCGATCTTATTTCCAAAGCACCGACTTTTCAAAATCAGAGATACTCCAACCCCATTATTTCCGA
65 CCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
* *
3817883 GGGGACACTCCAATCTCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
*
3817948 CCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
65 CCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
* * *
3818013 GAGGACACTCCAACCCTGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCC-GGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
* * *
3818078 CCC-AGTTTTGTTTCTAAAACATCAATTTTTCATAATCGGGGATGCTCCAACCCCGTTATTTTCG
65 CCCGA-TTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCG
3818142 A
129 A
* ** *
3818143 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
** * * * * * * *
3818208 TTCGATTTTAGTTCCAAAACACCAATTTCTCACAATTGGGGATAC-CCAACCCCGTTATTTTC-A
65 CCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
* *
3818271 CGGGGATACTCTAACCCCGGTCTTATTTCTAAAGCATCATT--TTTTTCATAATCGGGGATACTC
1 -GGGGATACTCCAA-CCCGGTTTTATTTCTAAA--AT-ATTAATTTTTCATAATCGGGGATACTC
** * * * * * *
3818334 TGACCCCGATTTTATTTTTTAGAACATCGATTTTCCATAATCGGGGATACTCTAGCCCCATT
61 CAACCCCGATTTTA-TTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATT
3818396 GTTATCTCTA
Statistics
Matches: 434, Mismatches: 68, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.00
129 48 0.11
130 344 0.79
131 32 0.07
132 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (129 bp):
GGGGATACTCCAACCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAACC
CCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
Found at i:3818095 original size:51 final size:51
Alignment explanation
Indices: 3818019--3818131 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
3818009 TCGAGAGGAC
** * *
3818019 ACTCCAACCCTGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGAT
1 ACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGAT
* *
3818070 ACTCCAACCCCAGTTTTGTTTCTAAAACATCAATTTTTCATAATCGGGGAT
1 ACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGAT
*
3818121 GCTCCAACCCC
1 ACTCCAACCCC
3818132 GTTATTTTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (51 bp):
ACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGAT
Found at i:3818206 original size:51 final size:51
Alignment explanation
Indices: 3818143--3818261 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
3818133 TTATTTTCGA
* * * * *
3818143 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTAGTTCCAAAACACCAATTTCTCACAATC
** * *
3818194 GGGGATACTCCAACTTCGATTTTAGTTCCAAAACACCAATTTCTCACAATT
1 GGGGATACTCCAACCCCGACTTTAGTTCCAAAACACCAATTTCTCACAATC
3818245 GGGGATAC-CCAACCCCG
1 GGGGATACTCCAACCCCG
3818262 TTATTTTCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 7 0.12
51 50 0.88
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACTTTAGTTCCAAAACACCAATTTCTCACAATC
Found at i:3818340 original size:52 final size:52
Alignment explanation
Indices: 3818271--3818392 Score: 142
Period size: 52 Copynumber: 2.3 Consensus size: 52
3818261 GTTATTTTCA
* *
3818271 CGGGGATACTCTAACCCCGGTCTTA-TTTCTA-AAGCATC-ATTTTTTTCATAAT
1 CGGGGATACTCTAACCCCGATCTTATTTTCTAGAA-CATCGA--TTTTCCATAAT
* * *
3818323 CGGGGATACTCTGACCCCGATTTTATTTTTTAGAACATCGATTTTCCATAAT
1 CGGGGATACTCTAACCCCGATCTTATTTTCTAGAACATCGATTTTCCATAAT
*
3818375 CGGGGATACTCTAGCCCC
1 CGGGGATACTCTAACCCC
3818393 ATTGTTATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 48 0.80
53 9 0.15
54 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
CGGGGATACTCTAACCCCGATCTTATTTTCTAGAACATCGATTTTCCATAAT
Found at i:3820495 original size:35 final size:35
Alignment explanation
Indices: 3820456--3820780 Score: 350
Period size: 35 Copynumber: 9.3 Consensus size: 35
3820446 TCTTACTAAA
* * * **
3820456 CAAACTCATTTCATCATCATTTAGATGCATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
*
3820491 CAAACTTTTTTCATCATCATTTGGCTATATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
* * * *
3820526 CAAACTCTTTCCATCATCGTTTGGCTTTATTTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
* *
3820561 CAAACT-TTTTCCATCATCATTTGGTTGTATCTGGT
1 CAAACTCTTTT-CATCATCATTTGGCTATATCTGGT
* * *
3820596 TAAACTCTTTTCATTATCGTTTGGCTATATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
* *
3820631 CAAACTTTTTTCATCAT-AGTTTGGCT-TATCTTGT
1 CAAACTCTTTTCATCATCA-TTTGGCTATATCTGGT
* * * * *
3820665 TAAAATCTTTTCATTATCATTTGGTTGTATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
* *
3820700 CAAACTCTTTTCATCATCGTTTAGCTATATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
* * * *
3820735 CAAACTCTTTTCATCATCGTTTGGTTGTATCTAGT
1 CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
*
3820770 CAAACCCTTTT
1 CAAACTCTTTT
3820781 AGTTTTTGTT
Statistics
Matches: 241, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
34 29 0.12
35 208 0.86
36 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (35 bp):
CAAACTCTTTTCATCATCATTTGGCTATATCTGGT
Found at i:3820727 original size:104 final size:104
Alignment explanation
Indices: 3820464--3820758 Score: 423
Period size: 104 Copynumber: 2.8 Consensus size: 104
3820454 AACAAACTCA
* * * * *
3820464 TTTCATCATCATTTAGATGCATCTGGTCAAACTTTTTTCATCATCATTTGGCTATATCTGGTCAA
1 TTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTGGCTATATCTGGTCAA
* *
3820529 ACTCTTTCCATCATCGTTTGGCTTTATTTGGTCAAACTT
66 ACTCTTTTCATCATCGTTTGGCTTTATTTGGTAAAACTT
* *
3820568 TTTCCATCATCATTTGGTTGTATCTGGTTAAACTCTTTTCATTATCGTTTGGCTATATCTGGTCA
1 TTT-CATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTGGCTATATCTGGTCA
* * *
3820633 AACTTTTTTCATCATAGTTTGGC-TTATCTTGTTAAAA-TCT
65 AACTCTTTTCATCATCGTTTGGCTTTAT-TTGGTAAAACT-T
* *
3820673 TTTCATTATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTAGCTATATCTGGTCAA
1 TTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTGGCTATATCTGGTCAA
3820738 ACTCTTTTCATCATCGTTTGG
66 ACTCTTTTCATCATCGTTTGG
3820759 TTGTATCTAG
Statistics
Matches: 170, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
104 85 0.50
105 85 0.50
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (104 bp):
TTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTGGCTATATCTGGTCAA
ACTCTTTTCATCATCGTTTGGCTTTATTTGGTAAAACTT
Found at i:3820780 original size:70 final size:70
Alignment explanation
Indices: 3820456--3820774 Score: 392
Period size: 70 Copynumber: 4.6 Consensus size: 70
3820446 TCTTACTAAA
* * * * *
3820456 CAAACTCATTTCATCATCATTTAGATGCATCTGGTCAAACTTTTTTCATCATCATTTGGCTATAT
1 CAAACTCTTTTCATCATCGTTTGGTTGTATCTGGTCAAACTTTTTTCATCATCATTTGGCTATAT
3820521 CTGGT
66 CTGGT
* * * * *
3820526 CAAACTCTTTCCATCATCGTTTGGCTT-TATTTGGTCAAACTTTTTCCATCATCATTTGGTTGTA
1 CAAACTCTTTTCATCATCGTTTGG-TTGTATCTGGTCAAACTTTTTTCATCATCATTTGGCTATA
3820590 TCTGGT
65 TCTGGT
* * * *
3820596 TAAACTCTTTTCATTATCGTTTGGCTATATCTGGTCAAACTTTTTTCATCAT-AGTTTGGCT-TA
1 CAAACTCTTTTCATCATCGTTTGGTTGTATCTGGTCAAACTTTTTTCATCATCA-TTTGGCTATA
*
3820659 TCTTGT
65 TCTGGT
* * * * * * *
3820665 TAAAATCTTTTCATTATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCGTTTAGCTATAT
1 CAAACTCTTTTCATCATCGTTTGGTTGTATCTGGTCAAACTTTTTTCATCATCATTTGGCTATAT
3820730 CTGGT
66 CTGGT
*
3820735 CAAACTCTTTTCATCATCGTTTGGTTGTATCTAGTCAAAC
1 CAAACTCTTTTCATCATCGTTTGGTTGTATCTGGTCAAAC
3820775 CCTTTTAGTT
Statistics
Matches: 213, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
69 62 0.29
70 150 0.70
71 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (70 bp):
CAAACTCTTTTCATCATCGTTTGGTTGTATCTGGTCAAACTTTTTTCATCATCATTTGGCTATAT
CTGGT
Found at i:3820792 original size:139 final size:140
Alignment explanation
Indices: 3820456--3820780 Score: 352
Period size: 139 Copynumber: 2.3 Consensus size: 140
3820446 TCTTACTAAA
* * * * ** * **
3820456 CAAACTCATTTCATCATCATTTAGATGCATCTGGTCAAACTTTTTTCATCATCA-TTTGGCTATA
1 CAAACTCTTTTCATCATCGTTTGGCTATATCTAGTCAAACCCTTTTCATCAT-AGTTTGGCTATA
* * * *
3820520 TCTGGTCAAACTCTTTCCATCATCGTTTGGCTTTATTTGGTCAAACTTTTTCCATCATCATTTGG
65 TCTGGTCAAAATCTTTCCATCATCATTTGGCTTTATCTGGTCAAACTTTTTCCATCATCATTTAG
* *
3820585 TTGTATCTGGT
130 CTATATCTGGT
* * * **
3820596 TAAACTCTTTTCATTATCGTTTGGCTATATCTGGTCAAACTTTTTTCATCATAGTTTGGCT-TAT
1 CAAACTCTTTTCATCATCGTTTGGCTATATCTAGTCAAACCCTTTTCATCATAGTTTGGCTATAT
* * * * *
3820660 CTTGTTAAAATCTTTTCATTATCATTTGG-TTGTATCTGGTCAAACTCTTTT-CATCATCGTTTA
66 CTGGTCAAAATCTTTCCATCATCATTTGGCTT-TATCTGGTCAAACT-TTTTCCATCATCATTTA
3820723 GCTATATCTGGT
129 GCTATATCTGGT
* *
3820735 CAAACTCTTTTCATCATCGTTTGGTTGTATCTAGTCAAACCCTTTT
1 CAAACTCTTTTCATCATCGTTTGGCTATATCTAGTCAAACCCTTTT
3820781 AGTTTTTGTT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
138 2 0.01
139 99 0.63
140 55 0.35
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (140 bp):
CAAACTCTTTTCATCATCGTTTGGCTATATCTAGTCAAACCCTTTTCATCATAGTTTGGCTATAT
CTGGTCAAAATCTTTCCATCATCATTTGGCTTTATCTGGTCAAACTTTTTCCATCATCATTTAGC
TATATCTGGT
Found at i:3822406 original size:166 final size:165
Alignment explanation
Indices: 3822194--3822917 Score: 665
Period size: 166 Copynumber: 4.4 Consensus size: 165
3822184 TTTTTATTGA
* * * *
3822194 TTTTAATTTTTAAAATTCATCAAATATTATTATTCAATTCATATTAAATTAGTTTTCAAAAATTG
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
* * *
3822259 ATTCATTTTCACGAGTTTTCATTTTTTTCCTTGAAACTCCCTCATTTCCGAAATATAGTGTTTTC
66 ATTCATTTTCACGAGTTTTCATTTTTTTCCTTGAAACTCCCTTATTTTCGAAATATAGAGTTTTC
* * *
3822324 TATTCCGTAAATGTTTTCGAAGGCATTTCTCTTGGT
131 TATTCCGTAAATGTTTTCG-GGGGATTTCTCTTAGT
* * *
3822360 TTTTAATTTTTAAAATTCATCAAATATTTTTATTTAATTTATATTAAATTACTTTT-AAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
* * *
3822424 TTTCATTTTCATTC-ATTTTTCATTTTTTTCCTTGAAACTCCCTTGTTTTCGAAATATAGAGTTT
66 ATTCATTTTCA--CGAGTTTTCATTTTTTTCCTTGAAACTCCCTTATTTTCGAAATATAGAGTTT
*
3822488 T-T-TTCTCTGTAAATGTTTT-GGGGAGATTTTTCTTAGT
129 TCTATTC-C-GTAAATGTTTTCGGGG-GATTTCTCTTAGT
* * *
3822525 TTTTAATTTTTAAAATTCATTAAATGTTATTATTTAATTTATATTAAACCAGTTTTCAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
* * * * * * ** * **
3822590 AATCTTTTTCATGAGTTTT--TTTGTTTCATTCTTAAAATTTTCTTATTTTTGAAATACGGAGTT
66 ATTCATTTTCACGAGTTTTCATTT-TTT--TCCTTGAAACTCCCTTATTTTCGAAATATAGAGTT
* * * * *
3822653 TTCTACTCTGTAAATCTTTTTTGGGGGATTTTTCTTAGT
128 TTCTATTCCGTAAAT-GTTTTCGGGGGATTTCTCTTAGT
* * *
3822692 TTCTAATTTTTAAAATTCAT-AAA-A-TATTA-TT-ATTTA-ATTAAATCAGTTTTTAAAAATTT
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
* * * * * * * *
3822751 ATTTATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTCCC-TATTATT-GAAAAATCA-AATT
66 ATTCATTTTCACGAGTTTTCATTTTTTTCCTTGAAA-CTCCCTTATT-TTCGAAATAT-AGAGTT
*
3822813 TTCTATTCCGTAAATATTTTCGGAGGGGATTTTGCTCTT--T
128 TTCTATTCCGTAAATGTTTTC-G-GGGGA-TTT-CTCTTAGT
* * * * * * * *
3822853 TTTAAATTTTTAAAATTCATCTAATATTGTCATTAAATTTACACTAAATCAGTTTTGAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
3822918 TAATTATTTC
Statistics
Matches: 459, Mismatches: 70, Indels: 57
0.78 0.12 0.10
Matches are distributed among these distances:
159 4 0.01
160 32 0.07
161 65 0.14
162 13 0.03
163 12 0.03
164 16 0.03
165 86 0.19
166 167 0.36
167 58 0.13
168 6 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (165 bp):
TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTC
ATTCATTTTCACGAGTTTTCATTTTTTTCCTTGAAACTCCCTTATTTTCGAAATATAGAGTTTTC
TATTCCGTAAATGTTTTCGGGGGATTTCTCTTAGT
Found at i:3823279 original size:12 final size:12
Alignment explanation
Indices: 3823262--3823296 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3823252 TTAGCAAGCA
3823262 AGAAAAAAAAAG
1 AGAAAAAAAAAG
3823274 AGAAAAAAAAAG
1 AGAAAAAAAAAG
3823286 A-AAATAAAAAA
1 AGAAA-AAAAAA
3823297 AAATTAAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 3 0.14
12 19 0.86
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:3830566 original size:20 final size:19
Alignment explanation
Indices: 3830543--3830616 Score: 87
Period size: 19 Copynumber: 3.7 Consensus size: 19
3830533 CAGACCCAGA
*
3830543 TGTATCGATACATGCTGCTT
1 TGTATCGATACATG-TGCAT
*
3830563 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTGCAT
3830582 TGTATCGATACATG-GACAAAT
1 TGTATCGATACATGTG-C--AT
3830603 TGTATCGATACATG
1 TGTATCGATACATG
3830617 AAATTGGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 14 0.29
21 16 0.33
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:3830606 original size:21 final size:19
Alignment explanation
Indices: 3830543--3830698 Score: 86
Period size: 20 Copynumber: 7.7 Consensus size: 19
3830533 CAGACCCAGA
*
3830543 TGTATCGATACATGCTG-CTT
1 TGTATCGATACATG--GACAT
**
3830563 TGTATCGATACATGTTCAT
1 TGTATCGATACATGGACAT
3830582 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGGAC--AT
*
3830603 TGTATCGATACAT-GAAAT
1 TGTATCGATACATGGACAT
* * *
3830621 TGGTAGTAGCTACCCTAT-CACTATT
1 T-GTA-TCGATA--C-ATGGAC-A-T
3830646 TGTATCGATACATGGTACAT
1 TGTATCGATACATGG-ACAT
*
3830666 TGTATCGATACATGAAGA-AA
1 TGTATCGATACATG--GACAT
3830686 TGTATCGATACAT
1 TGTATCGATACAT
3830699 AGCTTGTAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
18 3 0.03
19 20 0.18
20 51 0.47
21 18 0.17
22 4 0.04
23 7 0.06
24 4 0.04
25 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGGACAT
Found at i:3832451 original size:21 final size:20
Alignment explanation
Indices: 3832425--3832463 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3832415 ATACTAAAAA
3832425 ATTTTATAAA-GATTGTTTAGT
1 ATTTTA-AAATGATT-TTTAGT
3832446 ATTTTAAAATGATTTTTA
1 ATTTTAAAATGATTTTTA
3832464 AACATGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTTAAAATGATTTTTAGT
Found at i:3833936 original size:52 final size:51
Alignment explanation
Indices: 3833869--3833985 Score: 191
Period size: 52 Copynumber: 2.3 Consensus size: 51
3833859 AATTTATCTC
*
3833869 CATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA-TTGCCTG
*
3833921 CATGTGTCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTGCCTG
1 CATGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTGCCTG
3833972 CATGTATCGATACA
1 CATGTATCGATACA
3833986 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 20 0.33
52 36 0.59
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (51 bp):
CATGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTGCCTG
Found at i:3833998 original size:51 final size:52
Alignment explanation
Indices: 3833869--3834005 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 52
3833859 AATTTATCTC
**
3833869 CATGTATCGATAC-ATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACAAGATAA-AGTGTATCGATACATCTGGGCAAATTTGCCTG
* *** *
3833921 CATGTGTCGATACATTTTAAAATGTATCGATACATCTGGGCAAA-TTGCCTG
1 CATGTATCGATACAAGATAAAGTGTATCGATACATCTGGGCAAATTTGCCTG
*
3833972 CATGTATCGATACAAAGAT-CAGTGTATCGATACA
1 CATGTATCGATAC-AAGATAAAGTGTATCGATACA
3834006 ATGTATCGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
51 32 0.43
52 37 0.50
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (52 bp):
CATGTATCGATACAAGATAAAGTGTATCGATACATCTGGGCAAATTTGCCTG
Found at i:3834012 original size:13 final size:13
Alignment explanation
Indices: 3833994--3834018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3833984 CAAAGATCAG
3833994 TGTATCGATACAA
1 TGTATCGATACAA
3834007 TGTATCGATACA
1 TGTATCGATACA
3834019 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3834099 original size:13 final size:13
Alignment explanation
Indices: 3834081--3834105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3834071 CAAAAAAATA
3834081 TGTATCGATACAT
1 TGTATCGATACAT
3834094 TGTATCGATACA
1 TGTATCGATACA
3834106 AATCGTTGAA
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:3835472 original size:20 final size:21
Alignment explanation
Indices: 3835393--3835471 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
3835383 AATGTCCAAA
*
3835393 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
3835413 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
3835438 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
3835458 TTGTATCGATACAT
1 ATGTATCGATACAT
3835472 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:3835476 original size:13 final size:13
Alignment explanation
Indices: 3835458--3835496 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3835448 ACATTTTTCT
3835458 TTGTATCGATACA
1 TTGTATCGATACA
3835471 TTGTATCGATACA
1 TTGTATCGATACA
*
3835484 CTGTATCGATACA
1 TTGTATCGATACA
3835497 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3837208 original size:20 final size:20
Alignment explanation
Indices: 3837185--3837257 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3837175 ACAATTCAAA
3837185 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3837205 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3837226 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3837246 GTATCGATACAT
1 GTATCGATACAT
3837258 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Done.