Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold259
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: 329074
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 2
Found at i:197823 original size:32 final size:33
Alignment explanation
Indices: 197782--197845 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
197772 TAGCCAAACT
**
197782 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
197814 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
197846 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:204262 original size:21 final size:21
Alignment explanation
Indices: 204224--204264 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
204214 CTAAGTAAAA
204224 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
204245 ATAC-TATTGATATTAATACA
1 ATACGTATTG-TATCAATACA
204265 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:204333 original size:20 final size:19
Alignment explanation
Indices: 204304--204374 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
204294 ACCCTGAAAA
*
204304 GTATCAATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
204324 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
204343 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
204364 GTATCGATACA
1 GTATCGATACA
204375 GGACATTGGC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:204427 original size:53 final size:53
Alignment explanation
Indices: 204344--204480 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
204334 AGATTGCATA
*
204344 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
204398 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
* *
204451 GTATCGATACACAAAATATGTATTGATACA
1 GTATCGATACACACAATATGTATCGATACA
204481 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:204525 original size:10 final size:10
Alignment explanation
Indices: 204510--204566 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
204500 ATTTTAACTG
204510 TTCATCACTA
1 TTCATCACTA
*
204520 TTCATCACTG
1 TTCATCACTA
* *
204530 TTCATGTATCGA
1 TTCAT-CA-CTA
* *
204542 TACATCACTG
1 TTCATCACTA
204552 TTCATCACTA
1 TTCATCACTA
204562 TTCAT
1 TTCAT
204567 GTATCGATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
10 28 0.80
11 2 0.06
12 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.40
Consensus pattern (10 bp):
TTCATCACTA
Found at i:204556 original size:32 final size:32
Alignment explanation
Indices: 204512--204648 Score: 184
Period size: 32 Copynumber: 4.1 Consensus size: 32
204502 TTTAACTGTT
* *
204512 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
204544 CATCACTGTTCATCACTATTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
*
204576 CATCACTGTTAACGTATCACTATTCATGTATCGTTAAA
1 CATCACTGTT--C--ATCACTATTCATGTATCG--ATA
*
204614 AATCACTGTTCATCACTATTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
204646 CAT
1 CAT
204649 TATATCGATA
Statistics
Matches: 93, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
32 44 0.47
34 19 0.20
36 19 0.20
38 11 0.12
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.37
Consensus pattern (32 bp):
CATCACTGTTCATCACTATTCATGTATCGATA
Found at i:204656 original size:13 final size:13
Alignment explanation
Indices: 204638--204674 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
204628 ACTATTCATG
204638 TATCGATACATTA
1 TATCGATACATTA
* *
204651 TATCGATACAGTG
1 TATCGATACATTA
204664 TATCGATACAT
1 TATCGATACAT
204675 CATAAATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:206633 original size:20 final size:21
Alignment explanation
Indices: 206603--206641 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
206593 GATCAAAACC
206603 CTAGAAAGTATCGATACATAT
1 CTAGAAAGTATCGATACATAT
206624 CTAG-AAGTATCGATACAT
1 CTAGAAAGTATCGATACAT
206642 TATGCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
CTAGAAAGTATCGATACATAT
Found at i:206683 original size:19 final size:19
Alignment explanation
Indices: 206659--206714 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
206649 TCTATCGATA
*
206659 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGCT
*
206678 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
206697 CAACTGTATCGATACATG
1 C-ATTGTATCGATACATG
206715 AAACTTGCAG
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:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:210827 original size:14 final size:15
Alignment explanation
Indices: 210800--210830 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
210790 AAATCTATTC
210800 AAATTTTAAAATTTA
1 AAATTTTAAAATTTA
210815 AAATTTT-AAATTTA
1 AAATTTTAAAATTTA
210829 AA
1 AA
210831 TTTAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTTTAAAATTTA
Found at i:210861 original size:25 final size:24
Alignment explanation
Indices: 210827--210878 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
210817 ATTTTAAATT
* *
210827 TAAATTTAGATTTTGAAAATCTAGA
1 TAAAATTAGAATTT-AAAATCTAGA
* *
210852 TAAAATTAGAATTTAAATTTTAGA
1 TAAAATTAGAATTTAAAATCTAGA
210876 TAA
1 TAA
210879 CATTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (24 bp):
TAAAATTAGAATTTAAAATCTAGA
Found at i:212214 original size:21 final size:21
Alignment explanation
Indices: 212188--212243 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
212178 TTTTTGTTCA
212188 AATGTATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
*
212209 AATGTATCGATACATTTTTAG
1 AATGTATCGATACATTTCTAG
212230 AATGTATCGATACA
1 AATGTATCGATACA
212244 AGATCCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTCTAG
Found at i:212389 original size:22 final size:20
Alignment explanation
Indices: 212341--212417 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
212331 GCTAAGGAAA
* *
212341 TGTATCGATA-AATTATTAAA
1 TGTATCGATACATTTA-TAAT
212361 TGTATCGATACATGCTTATAAT
1 TGTATCGATACAT--TTATAAT
* * *
212383 TGTATCGATGCATTTCTCAT
1 TGTATCGATACATTTATAAT
212403 TGTATCGATACATTT
1 TGTATCGATACATTT
212418 TGGGTTTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 29 0.60
21 1 0.02
22 15 0.31
23 3 0.06
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTATAAT
Found at i:221951 original size:22 final size:20
Alignment explanation
Indices: 221926--221984 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
221916 AGTCAAAAGT
221926 AAAAACACAATGAAAAAAAAA
1 AAAAACAC-ATGAAAAAAAAA
* *
221947 CAAAAACACACGAAAACAAAA
1 -AAAAACACATGAAAAAAAAA
221968 AAAAACACAT-AAAAAAA
1 AAAAACACATGAAAAAAA
221985 GTACAAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 10 0.30
22 8 0.24
ACGTcount: A:0.78, C:0.15, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAACACATGAAAAAAAAA
Found at i:221982 original size:20 final size:20
Alignment explanation
Indices: 221926--221984 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
221916 AGTCAAAAGT
221926 AAAAACACAATGAAAAAAAAAC
1 AAAAACAC-AT-AAAAAAAAAC
* *
221948 AAAAACACACGAAAACAAAA-
1 AAAAACACA-TAAAAAAAAAC
221968 AAAAACACATAAAAAAA
1 AAAAACACATAAAAAAA
221985 GTACAAATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 9 0.28
22 8 0.25
ACGTcount: A:0.78, C:0.15, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAACACATAAAAAAAAAC
Found at i:222316 original size:12 final size:11
Alignment explanation
Indices: 222295--222324 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
222285 TAATCTTAGT
222295 AAAAAAAAACA
1 AAAAAAAAACA
222306 AAAACAAAAACA
1 AAAA-AAAAACA
222318 AAAAAAA
1 AAAAAAA
222325 GAGAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:223477 original size:34 final size:32
Alignment explanation
Indices: 223376--224379 Score: 932
Period size: 34 Copynumber: 30.8 Consensus size: 32
223366 TTTTCTTCAA
* * *
223376 AAGTCCACGACTCAGTGGCACTCTCTTTCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CT-TTTCCTTTT
223410 AAAGTCCACAACTCCGTGGCA-C----CCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
223438 AAGCCCACAACTCCGTGGCACCTTTTCCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCC-TTTT
*
223471 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
223506 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
223533 AAGTCCACAACTTCGTGGCACCTTTT--TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
223563 AAGTCCACGACTCCGTGGCACCTTTTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCACC---TTTTCCTTTT
* *
223598 AAGTCCATAACTCCGTGGCA-CTTTT-TTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
223628 AAGTCCACGACTCCGTGGCACCTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACC--TTTTCCTTTT
223662 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
** ** *
223689 AAGTCCACAACTCTATGGCATTTTTTCATCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCT-TTT
**
223722 AAGTCCACAACTTTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
223755 AAGTCCACGACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
223788 AAGTCCACAACTTCGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTT-CCTTTT
*
223823 AAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCTTTT
*
223857 AAGTCCACAACTCTGTGGCACCCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTCCTTTT
* *
223891 AAGTTCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
223923 AAGTCCACAACTCCGTGGTACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTT-CCTTTT
**
223958 AAGTCCATGACTCCGTGGCACCCTTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC--TTTT-CCTTTT
223994 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * *
224021 AAGTCCACAACTCTGTAGC-CTTTTTTTCATCTTC
1 AAGTCCACAACTCCGTGGCAC--CTTTTCCT-TTT
* *
224055 AAGTTCACAACTCCGTGACACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
224088 AAGTCCACAACTCTGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTT-CCTTTT
* *
224123 AAGTCCACAACTCTGCGGCACCCTTATTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTCCTTTT
*
224157 AAGTTCACAACTCCGTGGCACCTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
224188 AAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCTTTT
*
224222 AAGTCCACAACTCTGTGGCACCCTTATTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTCCTTTT
* * *
224256 AAGTCCACAACTCTGTGACA-CTTTT-TTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
224286 AAGTCCACAACTCCGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTT-CCTTTT
* * **
224321 AAGCCCACACCTCTATGGCATCCCTTTTTCC-TTT
1 AAGTCCACAACTCCGTGGCA--CC-TTTTCCTTTT
*
224355 AAGTCCACAACTCTGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
224380 AAGTCCAATA
Statistics
Matches: 830, Mismatches: 77, Indels: 128
0.80 0.07 0.12
Matches are distributed among these distances:
27 91 0.11
28 7 0.01
30 67 0.08
31 33 0.04
32 40 0.05
33 133 0.16
34 257 0.31
35 158 0.19
36 44 0.05
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:223707 original size:27 final size:27
Alignment explanation
Indices: 223656--223708 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
223646 CACCTTTTTT
*
223656 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
*
223683 CCTTTTAAGTCCACAACTCTATGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
223709 TTTTTTCATC
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:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:224047 original size:27 final size:27
Alignment explanation
Indices: 223987--224039 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
223977 ACCCTTTTTT
*
223987 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTAGCA
*
224014 CCCTTTTAAGTCCACAACTCTGTAGC
1 CCCTTTTAAGTCCACAACTCCGTAGC
224040 CTTTTTTTCA
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:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTAGCA
Found at i:224251 original size:99 final size:99
Alignment explanation
Indices: 223376--224379 Score: 1019
Period size: 99 Copynumber: 10.3 Consensus size: 99
223366 TTTTCTTCAA
* * *
223376 AAGTCCACGACTCAGTGGCACTCTCTTTCTTTTTAAAGTCCACAACTCCGTGGCA-C-----CCT
1 AAGTCCACAACTCCGTGGCAC-CT-TTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCCT
* *
223435 TTTAAGCCCACAACTCCGTGGCA-CC-TTTTCCTTTTT
63 TTTAAGTCCACAACTCTGTGGCACCCTTTTTCC-TTTT
*
223471 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCT
1 -AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT
223530 TTTAAGTCCACAACT-TCGTGGCA-CC-TTTT--TTTT
63 TTTAAGTCCACAACTCT-GTGGCACCCTTTTTCCTTTT
* * *
223563 AAGTCCACGACTCCGTGGCACCTTTTTTTCCCTTTAAGTCCATAACTCCGTGGCA-CTTTTT--T
1 AAGTCCACAACTCCGTGGCACC---TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT
* * *
223625 TTTAAGTCCACGACTCCGTGGCACCTTTTTTCCTTTT
63 TTTAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
** * *
223662 AAGTCCACAACTCCGTGGCA-C----CCTTTTAAGTCCACAACTCTATGGCA-TTTTTTCATCTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT-TT
* *
223721 TAAGTCCACAACTTTGTGGCA-CCTTGTTCCTTTT
65 TAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
* * *
223755 AAGTCCACGACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTTCCCT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT-CCT
223820 TTTAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
63 TTTAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
* * *
223857 AAGTCCACAACTCTGTGGCACCCTTGTTCCTTTTAAGTTCACAACTCCGTGGCACC-TTTTCTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTT
* *
223921 TTAAGTCCACAACTCCGTGGTACCCTTTTTCCCTTTT
64 TTAAGTCCACAACTCTGTGGCACCCTTTTT-CCTTTT
**
223958 AAGTCCATGACTCCGTGGCACCCTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-C-----CC
1 AAGTCCACAACTCCGTGGCA-CC--TTTT-CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCC
* ** * *
224017 TTTTAAGTCCACAACTCTGTAGC-CTTTTTTTCATCTTC
62 TTTTAAGTCCACAACTCTGTGGCACCCTTTTTCCT-TTT
* * *
224055 AAGTTCACAACTCCGTGACACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTTCCCT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT-CCT
* *
224120 TTTAAGTCCACAACTCTGCGGCACCCTTATTCCTTTT
63 TTTAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
* *
224157 AAGTTCACAACTCCGTGGCACCTTTT-CTTTTAAGTCCACAACTCTGTGGCACCCTTTTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTT
*
224221 TAAGTCCACAACTCTGTGGCACCCTTATTCCTTTT
65 TAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
* * *
224256 AAGTCCACAACTCTGTGACA-CTTTT-TTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT-CCTT
* * *
224319 TTAAGCCCACACCTCTATGGCATCCCTTTTTCC-TTT
64 TTAAGTCCACAACTCTGTGGCA-CCCTTTTTCCTTTT
*
224355 AAGTCCACAACTCTGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
224380 AAGTCCAATA
Statistics
Matches: 787, Mismatches: 75, Indels: 88
0.83 0.08 0.09
Matches are distributed among these distances:
90 1 0.00
91 46 0.06
92 34 0.04
93 30 0.04
94 48 0.06
95 73 0.09
96 34 0.04
97 29 0.04
98 58 0.07
99 147 0.19
100 77 0.10
101 59 0.07
102 86 0.11
103 65 0.08
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (99 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
AAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
Found at i:224666 original size:49 final size:45
Alignment explanation
Indices: 224376--225479 Score: 642
Period size: 39 Copynumber: 24.9 Consensus size: 45
224366 TCTGTGGCAC
* * * *
224376 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-T-A
**
224424 CTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCAC-A
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
*
224468 ----AA-TCCAATGTCGCTGGCCTTGAATCAGCACATTGG--C-A
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * *
224505 C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-TA
* *
224549 TCTTTAAGACTAATGTCGTTGGCCTTGAATCAGCACATTGGCAC-A
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * * *
224594 ----AA-CCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--TA
* *
224637 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGG--C-A
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * *
224680 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* *
224720 CTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG--C-A
1 CTT----TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * * * *
224766 ---TAAGCCCCATATCGCTGGCCTTGAATTAGCATATTGGCAC--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
*
224806 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGG--C-A
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * * *
224848 C---AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--TA
* *
224893 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGG--C-A
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * *
224936 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
*
224976 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-T-A
* * *
225024 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* *
225068 CTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG--C-A
1 CTT----TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * * * * *
225114 ---TAAGCCCCATATCGTTGGCCTTGAATTAGCATATTGGCAC--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * *
225154 CTTTAAGACTAATGTCGTTGGCCTTGCATCAGCACATTGGCACCTTCA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-T-A
* * * *
225202 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC--
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* * * * * *
225246 CTTAGCACAAATCCAAAGTCACTAGCCTTGGATCAGCACATTGGCACT-
1 CTT--TA-AGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
* *
225294 -TTTAAGACCAATGTCGCTGGCCTTGAATCACCATATTGGCACCTTCA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-T-A
* * * * *
225341 TCTTTATGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 -CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--T-A
** *
225391 CATTCCTAAG-CCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTT
1 C-TT--TAAGACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTA
* * * *
225441 CTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
225480 TCATTCTTCG
Statistics
Matches: 827, Mismatches: 137, Indels: 185
0.72 0.12 0.16
Matches are distributed among these distances:
37 2 0.00
38 2 0.00
39 243 0.29
40 5 0.01
41 5 0.01
42 3 0.00
43 135 0.16
44 6 0.01
45 8 0.01
46 4 0.00
47 125 0.15
48 75 0.09
49 173 0.21
50 6 0.01
51 3 0.00
52 30 0.04
53 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTA
Found at i:224865 original size:82 final size:82
Alignment explanation
Indices: 224731--225338 Score: 604
Period size: 82 Copynumber: 7.0 Consensus size: 82
224721 TTGGCACAAA
* * *
224731 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCCATATCGCTGGCCTTGAATTAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGC
224796 ATATTGGCACCTTTAAG
66 ATATTGGCACCTTTAAG
* *
224813 ACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATTGCTGGCCTTGAATCAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGC
*
224878 ATATTGGCACCTTTATCTTTAAA
66 ATATTGGCA-C-----CTTTAAG
* *
224901 ACCAATGTCGCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGC
224966 ATATTGGCACCTTTAAG
66 ATATTGGCACCTTTAAG
* *
224983 ACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATATCGCTGGCC
* *
225048 TTGAATCAGCATATTGGCACCTTGGCACAAA
56 TTGAATCAGCATATTGGCACCTT----TAAG
* * * *
225079 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCCATATCGTTGGCCTTGAATTAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGC
225144 ATATTGGCACCTTTAAG
66 ATATTGGCACCTTTAAG
* * * * *
225161 ACTAATGTCGTTGGCCTTGCATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATATCGCTGGCC
* *
225226 TTGAATCAGCATATTGGCACCTTAGCACAA
56 TTGAATCAGCATATTGGCACCTT--TA-AG
* * * * * *
225256 ATCCAAAGTCACTAGCCTTGGATCAGCACATTGGCACTTTTAAGACCAATGTCGCTGGCCTTGAA
1 A-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC----AAGCCCAATATCGCTGGCCTTGAA
*
225321 TCACCATATTGGCACCTT
61 TCAGCATATTGGCACCTT
225339 CATCTTTATG
Statistics
Matches: 447, Mismatches: 44, Indels: 62
0.81 0.08 0.11
Matches are distributed among these distances:
82 138 0.31
83 1 0.00
86 38 0.09
87 1 0.00
88 80 0.18
89 1 0.00
90 45 0.10
92 80 0.18
94 1 0.00
95 2 0.00
96 60 0.13
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (82 bp):
ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGC
ATATTGGCACCTTTAAG
Found at i:224874 original size:256 final size:257
Alignment explanation
Indices: 224455--225338 Score: 1090
Period size: 256 Copynumber: 3.4 Consensus size: 257
224445 CCTTGAATCA
* * *
224455 GCACATTGGCACAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CAAGCCCAATATCG
1 GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTAAGCCCAATATCG
*
224519 CTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACTAATGTCGTTGGCCTTGAATCAGCA
66 CTGGCCTTGAATCAGCATATTGGCA-C----CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCA
*
224584 CATTGGCACAAACCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCA
126 CATTGGCACAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCA
224649 ATGTCGCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
191 ATGTCGCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
224714 TG
256 TG
*
224716 GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TAAGCCCCATATCG
1 GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTAAGCCCAATATCG
*
224780 CTGGCCTTGAATTAGCATATTGGCACCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTG
66 CTGGCCTTGAATCAGCATATTGGCACCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTG
224845 GCACAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTC
131 GCACAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTC
224910 GCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTG
196 GCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTG
* * * *
224972 GCACCTT----TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA---TTAAGC
* * *
225033 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGCACAAAACCAATGTCGCTGGCCTTG
57 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT----TAAGACTAATGTCGCTGGCCTTG
* * * * *
225098 AATCAGCACATTGGCATAAGCCCCATATCGTTGGCCTTGAATTAGCATATTGGCA-C-----CTT
118 AATCAGCACATTGGCACAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * * *
225157 TAAGACTAATGTCGTTGGCCTTGCATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTT
183 TAAAACCAATGTCGCTGGCCTTGAATCAACACATTGG------CA----TAAGCCCAATATCGCT
225222 GGCCTTGAATCAGCATATTG
238 GGCCTTGAATCAGCATATTG
* * * * * * * *
225242 GCACCTTAGCACAAATCCAAAGTCACTAGCCTTGGATCAGCACATTGGCACTTTTAAGACCAATG
1 GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TTAAGCCCAATA
*
225307 TCGCTGGCCTTGAATCACCATATTGGCACCTT
63 TCGCTGGCCTTGAATCAGCATATTGGCACCTT
225339 CATCTTTATG
Statistics
Matches: 554, Mismatches: 41, Indels: 49
0.86 0.06 0.08
Matches are distributed among these distances:
252 34 0.06
256 171 0.31
258 2 0.00
260 36 0.06
261 84 0.15
262 40 0.07
265 1 0.00
266 72 0.13
268 44 0.08
270 41 0.07
274 29 0.05
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (257 bp):
GCACCTTGGCACAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTAAGCCCAATATCG
CTGGCCTTGAATCAGCATATTGGCACCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTG
GCACAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTC
GCTGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTG
Found at i:225135 original size:178 final size:178
Alignment explanation
Indices: 224853--225338 Score: 720
Period size: 178 Copynumber: 2.7 Consensus size: 178
224843 TGGCACAAGC
* * **
224853 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAGC-ACAAAACCAATGTCGCTGGCCT
*
224918 TGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAG
64 TGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAG
*
224983 ACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
129 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
225033 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGCACAAAACCAATGTCGCTGGCCTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAAAACCAATGTCGCTGGCCTTG
* * *
225098 AATCAGCACATTGGCATAAGCCCCATATCGTTGGCCTTGAATTAGCATATTGGCACCTTTAAGAC
66 AATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGAC
* * *
225163 TAATGTCGTTGGCCTTGCATCAGCACATTGGCACCTTCATCTTTAAGT
131 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * *
225211 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAGCACAAATCCAAAGTCACTAGCCTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAAAACCAATGTCGCTGGCCTTG
* * * *
225276 GATCAGCACATTGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCACCATATTGGCACCTT
66 AATCAGCACATTGGCA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
225339 CATCTTTATG
Statistics
Matches: 276, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 201 0.73
179 3 0.01
180 35 0.13
182 37 0.13
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (178 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAAAACCAATGTCGCTGGCCTTG
AATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGAC
CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:225332 original size:139 final size:137
Alignment explanation
Indices: 224370--225479 Score: 702
Period size: 139 Copynumber: 8.3 Consensus size: 137
224360 CACAACTCTG
* * * * *
224370 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACC
1 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* ** * * *
224434 AATGTCATTGGCCTTGAATCAGCACATTGGCA-C--A--A-ATCCAATGTCGCTGGCCTTGAATC
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAACCAAAGTCGCTGGCCTTGAATC
224493 AGCACAT
131 AGCACAT
* * * *
224500 TGGCAC----AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACT
1 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * * *
224560 AATGTCGTTGGCCTTGAATCAGCACATTGGCA-C--A--A-ACCCAATA-TTGCTGGCCTTGAAT
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAACCAA-AGTCGCTGGCCTTGAAT
*
224618 CAGCATAT
130 CAGCACAT
* * *
224626 TGGCACCTTTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGG------CA----T
1 TGGCA-C----T-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * *
224681 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGCACAAAACCAATGTCGCTGGC
60 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCAC--AACCAAAGTCGCTGGC
224746 CTTGAATCAGCACAT
123 CTTGAATCAGCACAT
* * * * * *
224761 TGGCA----TAAGCCCCATATCGCTGGCCTTGAATTAGCATATTGGCA----C--CTTTAAGACT
1 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * *
224816 AATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-AAG--C--CCAATA-TTGCTGGCCTTGAAT
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAACCAA-AGTCGCTGGCCTTGAAT
*
224874 CAGCATAT
130 CAGCACAT
* * *
224882 TGGCACCTTTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGG------CA----T
1 TGGCA-C----T-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * * *
224937 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA--A-GACCAATGTTGCTGGCC
60 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAGCACAACCAAAGTCGCTGGCC
224999 TTGAATCAGCACAT
124 TTGAATCAGCACAT
* *
225013 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGCA-C-
1 TGGCA----C-T-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--CATCT
** * * * * *
225076 --AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TAAGC-C--CCATA-TCGTTGGC
58 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAACCAAAGTCGCTGGC
* *
225133 CTTGAATTAGCATAT
123 CTTGAATCAGCACAT
* * * * *
225148 TGGCACCTTTAAGACTAATGTCGTTGGCCTTGCATCAGCACATTGGCACCTTCATCTTTAAGTCC
1 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * *
225213 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAGCACAAATCCAAAGTCACTAGCCTTGGA
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCAC-AA-CCAAAGTCGCTGGCCTTGAA
225278 TCAGCACAT
129 TCAGCACAT
* *
225287 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCACCATATTGGCACCTTCATCTTTATGTCC
1 TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * *
225352 AATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCTAATGTCGCTGGCC
66 AATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTAGCA---C-AA-CC-AAAGTCGCTGGCC
**
225417 TTGTCTCAGCACAT
124 TTGAATCAGCACAT
* * * *
225431 TGGCATTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TGGCA--CTT-TT-AAGACCAATGTCGCTGGCCTTGAATCAGCATATTG
225480 TCATTCTTCG
Statistics
Matches: 788, Mismatches: 111, Indels: 144
0.76 0.11 0.14
Matches are distributed among these distances:
121 30 0.04
125 31 0.04
126 116 0.15
127 74 0.09
128 4 0.01
129 75 0.10
130 7 0.01
131 133 0.17
132 1 0.00
133 4 0.01
134 2 0.00
135 55 0.07
136 36 0.05
138 4 0.01
139 143 0.18
140 6 0.01
143 5 0.01
144 27 0.03
146 3 0.00
147 2 0.00
148 30 0.04
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (137 bp):
TGGCACTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGCACAACCAAAGTCGCTGGCCTTGAATC
AGCACAT
Found at i:226347 original size:13 final size:13
Alignment explanation
Indices: 226325--226365 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
226315 CATTATTCAA
226325 TGTATCGATACAT
1 TGTATCGATACAT
*
226338 TGTATTGATACAT
1 TGTATCGATACAT
226351 TGTATCGATACAT
1 TGTATCGATACAT
226364 TG
1 TG
226366 ATCTTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:228594 original size:27 final size:27
Alignment explanation
Indices: 228564--228628 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
228554 TTCATCAAGG
*
228564 ACACTCCAACCCCATTCCTCCTAGGAA
1 ACACTCCAACCCCATTCCTCCGAGGAA
** *
228591 ACACTTTAACCCCATTCCTCCGAGGAG
1 ACACTCCAACCCCATTCCTCCGAGGAA
*
228618 ATACTCCAACC
1 ACACTCCAACC
228629 TCGTTTTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.42, G:0.09, T:0.20
Consensus pattern (27 bp):
ACACTCCAACCCCATTCCTCCGAGGAA
Found at i:229667 original size:157 final size:155
Alignment explanation
Indices: 229382--229679 Score: 402
Period size: 157 Copynumber: 1.9 Consensus size: 155
229372 TTTCGTAGCG
* * * *
229382 ACCATTGAAGATCAATTAGATGGGCGATTCATTTCCCGATCTTCCCCCTTTATCAACATACTTCT
1 ACCATCGAAGATCAATTAGATAGGCGATTCATCTCCCGATCTTCCCCCTTAATCAACATACTTCT
* * *
229447 CATCATGCCATAGACATCCCTAATCGCGAGGGATATTAAGTTGAGCGCGCCTCATTTGCCCTATC
66 CATCATGCCATAGAAATCCCTAATCGCGAGGGATATTAAGTCGAGAGCGCCTCATTTGCCCTATC
*
229512 GCCGGGGTCGAGTGTACGTTGCGAC
131 GCCGAGGTCGAGTGTACGTTGCGAC
* **
229537 ACCATCGAAGATCGATTAGATAGGCGATTCATCTGTCGATCTTCCCCCCTTCAATCAACATA-TT
1 ACCATCGAAGATCAATTAGATAGGCGATTCATCTCCCGATCTT-CCCCCTT-AATCAACATACTT
* * * *
229601 CCTTATCATGCCATAGAAATCTCC-AATCGCGAGGGATATTAAGTCGGGAGTGCCTCATTTGTCC
64 -CTCATCATGCCATAGAAATC-CCTAATCGCGAGGGATATTAAGTCGAGAGCGCCTCATTTGCCC
*
229665 TATCGTCGAGGTCGA
127 TATCGCCGAGGTCGA
229680 ACGCATATTA
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
155 37 0.30
156 9 0.07
157 75 0.61
158 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (155 bp):
ACCATCGAAGATCAATTAGATAGGCGATTCATCTCCCGATCTTCCCCCTTAATCAACATACTTCT
CATCATGCCATAGAAATCCCTAATCGCGAGGGATATTAAGTCGAGAGCGCCTCATTTGCCCTATC
GCCGAGGTCGAGTGTACGTTGCGAC
Found at i:231123 original size:20 final size:21
Alignment explanation
Indices: 231070--231123 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
231060 AAAATACAAC
* *
231070 TTAAATTGAATCATTATTTAT
1 TTAAATTAAATTATTATTTAT
*
231091 TT-AATAAAATTATT-TTTAT
1 TTAAATTAAATTATTATTTAT
*
231110 TTAAATTTAATTAT
1 TTAAATTAAATTAT
231124 AAAAATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 18 0.67
21 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAATTAAATTATTATTTAT
Found at i:231161 original size:19 final size:21
Alignment explanation
Indices: 231115--231163 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
231105 TTTATTTAAA
*
231115 TTTAATTATAAAAATATATAAT
1 TTTAA-TATAAAAATATATAAC
231137 TTTAATATAAAAATA-AT-AC
1 TTTAATATAAAAATATATAAC
231156 TTTAATAT
1 TTTAATAT
231164 TTTTTAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
20 2 0.08
21 10 0.38
22 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATATAAAAATATATAAC
Found at i:238946 original size:20 final size:20
Alignment explanation
Indices: 238921--238962 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
238911 GAGTTTGTAA
* *
238921 TATTTTCATATTTAAAATAT
1 TATTTTCAAATATAAAATAT
*
238941 TATTTTTAAATATAAAATAT
1 TATTTTCAAATATAAAATAT
238961 TA
1 TA
238963 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTTTCAAATATAAAATAT
Found at i:238986 original size:34 final size:35
Alignment explanation
Indices: 238930--238996 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
238920 ATATTTTCAT
**
238930 ATTTAAAATATTATTTTTAAATATAAAATATTAAA
1 ATTTAAAATATTATTTAAAAATATAAAATATTAAA
* *
238965 ATTTAAATTA-TATTTAAAAATATAATATATTA
1 ATTTAAAATATTATTTAAAAATATAAAATATTA
238997 TAATAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 19 0.68
35 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
ATTTAAAATATTATTTAAAAATATAAAATATTAAA
Found at i:239006 original size:18 final size:17
Alignment explanation
Indices: 238973--239008 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
238963 AAATTTAAAT
238973 TATATTTAAAAATATAA
1 TATATTTAAAAATATAA
*
238990 TATATTATAATAATATAA
1 TATATT-TAAAAATATAA
239008 T
1 T
239009 TTGAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATTTAAAAATATAA
Found at i:247932 original size:84 final size:84
Alignment explanation
Indices: 247724--248012 Score: 259
Period size: 84 Copynumber: 3.5 Consensus size: 84
247714 TGCAACTTCT
* * * * ** *
247724 CTTCAACAGCTTTCTTCTTAGTTGCTTCTGCAATCTTCCTTTGCTCCTCTAC-TCTATG-AATCT
1 CTTCAACAGCCTTCTTCATAATTTCTTCTGCAATCTTCCTTTGCTCAGCTGCTTC-A-GCAATCT
* **
247787 CCACAA-CAGCACACTTTCTGT-
64 -CAAAATCAGCACGTTTTCT-TA
* * ** *
247808 CTTCAACAG-C--CTTCATAATTTCTTCAGCAACCTTCCTTTGCTCAGCTGCTTTGGCCATCTCA
1 CTTCAACAGCCTTCTTCATAATTTCTTCTGCAATCTTCCTTTGCTCAGCTGCTTCAGCAATCTCA
**
247870 AAATCAGCTTGTTTTCTTA
66 AAATCAGCACGTTTTCTTA
* ** **
247889 CTTCAACAGCCTTCTTCATATTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTCAGCAATCTGT
1 CTTCAACAGCCTTCTTCATAATTTCTTCTGCAATCTTCCTTTGCTCAGCTGCTTCAGCAATCTCA
*
247954 AAATCAGCACGTTTTCTTT
66 AAATCAGCACGTTTTCTTA
** *
247973 CTTCAAGTGCCTTCTTCTTAATTTCTTCTGCAATCTTCCT
1 CTTCAACAGCCTTCTTCATAATTTCTTCTGCAATCTTCCT
248013 CTGTTCCTCT
Statistics
Matches: 164, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
80 6 0.04
81 53 0.32
82 2 0.01
84 103 0.63
ACGTcount: A:0.19, C:0.30, G:0.10, T:0.41
Consensus pattern (84 bp):
CTTCAACAGCCTTCTTCATAATTTCTTCTGCAATCTTCCTTTGCTCAGCTGCTTCAGCAATCTCA
AAATCAGCACGTTTTCTTA
Found at i:248042 original size:105 final size:105
Alignment explanation
Indices: 247915--248118 Score: 273
Period size: 105 Copynumber: 1.9 Consensus size: 105
247905 CATATTTTCT
* ** * * * *
247915 TCTGCAATCTTCCTTTGCTCCTCTGCTTCAGCAATCTGTAAATCAGCACGTTTTCTTTCTTCAAG
1 TCTGCAATCTTCCTCTGCTCCTCTGCTTCAGCAATCTCAAAATCAGCACATTTTCTCTCGTCAAC
*
247980 TGCCTTCTTCTTAATTTCTTCTGCAATCTTCCTCTGTTCC
66 TGCCTTCTTCTTAAATTCTTCTGCAATCTTCCTCTGTTCC
* * * * * *
248020 TCTGCTATCTTCCTCTGTTCCTCTGCTTTAGCCATCTCAAAATCGGCATATTTTCTCTCGTCAAC
1 TCTGCAATCTTCCTCTGCTCCTCTGCTTCAGCAATCTCAAAATCAGCACATTTTCTCTCGTCAAC
*
248085 TGCCTTTTTCTTAAATTCTTCTGCAATCTTCCTC
66 TGCCTTCTTCTTAAATTCTTCTGCAATCTTCCTC
248119 AACTCCCTAG
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 84 1.00
ACGTcount: A:0.16, C:0.31, G:0.10, T:0.44
Consensus pattern (105 bp):
TCTGCAATCTTCCTCTGCTCCTCTGCTTCAGCAATCTCAAAATCAGCACATTTTCTCTCGTCAAC
TGCCTTCTTCTTAAATTCTTCTGCAATCTTCCTCTGTTCC
Found at i:248046 original size:21 final size:21
Alignment explanation
Indices: 247999--248046 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
247989 CTTAATTTCT
*
247999 TCTGCAATCTTCCTCTGTTCC
1 TCTGCTATCTTCCTCTGTTCC
248020 TCTGCTATCTTCCTCTGTTCC
1 TCTGCTATCTTCCTCTGTTCC
248041 TCTGCT
1 TCTGCT
248047 TTAGCCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.38, G:0.10, T:0.46
Consensus pattern (21 bp):
TCTGCTATCTTCCTCTGTTCC
Found at i:249753 original size:15 final size:15
Alignment explanation
Indices: 249733--249791 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
249723 ACAAATATCC
*
249733 AAATTATTAAAACTT
1 AAATTATTAAAATTT
249748 AAATTAATCT-AAATTT
1 AAATT-AT-TAAAATTT
* *
249764 AAAATATTTAAATTT
1 AAATTATTAAAATTT
249779 AAATTATTCAAAA
1 AAATTATT-AAAA
249792 AATAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 1 0.03
15 20 0.56
16 14 0.39
17 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTATTAAAATTT
Found at i:249800 original size:22 final size:22
Alignment explanation
Indices: 249772--249821 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
249762 TTAAAATATT
*
249772 TAAATTT-AAATTATTCAAAAAA
1 TAAATTTAAAATGATT-AAAAAA
*
249794 TAAATTTAAAATGATTTAAAAA
1 TAAATTTAAAATGATTAAAAAA
249816 TAAATT
1 TAAATT
249822 ACATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATTTAAAATGATTAAAAAA
Found at i:251771 original size:285 final size:285
Alignment explanation
Indices: 251261--251838 Score: 1120
Period size: 285 Copynumber: 2.0 Consensus size: 285
251251 TAATTTTTTG
*
251261 TTTAATTTCTACATAAGGTGTGGCAATCTTAAGATGATTACCGTATATTTTTATGCACATATTGT
1 TTTAATTTCTACATAAGATGTGGCAATCTTAAGATGATTACCGTATATTTTTATGCACATATTGT
251326 GTTCTTTTTTTCATTATGTAGTTTTATATTCAGGTTCTATTTAGTATATATATGTTTGGTTGTTC
66 GTTCTTTTTTTCATTATGTAGTTTTATATTCAGGTTCTATTTAGTATATATATGTTTGGTTGTTC
*
251391 CATATTGGTTTTCTAGTATTGCATTGTCCATTTTTATCGACATTAGTGTAGACACCAAATTTTGT
131 CATACTGGTTTTCTAGTATTGCATTGTCCATTTTTATCGACATTAGTGTAGACACCAAATTTTGT
* *
251456 CCGACCTTTTTTTTAAGATACTCATTTTTTTAATTAATCATGCCATCTTTGATTGGTTTTGTAGG
196 CCAACCTTTTTTTTAAGATACTCATTTTTTTAATTAATCATGCCATCTTTGATTGGTTTTATAGG
251521 AACCGGATTAATTGAGCTTATTTCT
261 AACCGGATTAATTGAGCTTATTTCT
251546 TTTAATTTCTACATAAGATGTGGCAATCTTAAGATGATTACCGTATATTTTTATGCACATATTGT
1 TTTAATTTCTACATAAGATGTGGCAATCTTAAGATGATTACCGTATATTTTTATGCACATATTGT
251611 GTTCTTTTTTTCATTATGTAGTTTTATATTCAGGTTCTATTTAGTATATATATGTTTGGTTGTTC
66 GTTCTTTTTTTCATTATGTAGTTTTATATTCAGGTTCTATTTAGTATATATATGTTTGGTTGTTC
251676 CATACTGGTTTTCTAGTATTGCATTGTCCATTTTTATCGACATTAGTGTAGACACCAAATTTTGT
131 CATACTGGTTTTCTAGTATTGCATTGTCCATTTTTATCGACATTAGTGTAGACACCAAATTTTGT
251741 CCAACCTTTTTTTTAAGATACTCATTTTTTTAATTAATCATGCCATCTTTGATTGGTTTTATAGG
196 CCAACCTTTTTTTTAAGATACTCATTTTTTTAATTAATCATGCCATCTTTGATTGGTTTTATAGG
251806 AACCGGATTAATTGAGCTTATTTCT
261 AACCGGATTAATTGAGCTTATTTCT
251831 TTTAATTT
1 TTTAATTT
251839 GTTTTTTTTT
Statistics
Matches: 289, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 289 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.48
Consensus pattern (285 bp):
TTTAATTTCTACATAAGATGTGGCAATCTTAAGATGATTACCGTATATTTTTATGCACATATTGT
GTTCTTTTTTTCATTATGTAGTTTTATATTCAGGTTCTATTTAGTATATATATGTTTGGTTGTTC
CATACTGGTTTTCTAGTATTGCATTGTCCATTTTTATCGACATTAGTGTAGACACCAAATTTTGT
CCAACCTTTTTTTTAAGATACTCATTTTTTTAATTAATCATGCCATCTTTGATTGGTTTTATAGG
AACCGGATTAATTGAGCTTATTTCT
Found at i:252293 original size:20 final size:19
Alignment explanation
Indices: 252217--252291 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
252207 AAGTACCTAG
252217 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* *
252237 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTTA
*
252257 ACGTATCGATACATTCTTTA
1 ATGTATCGATACATT-TTTA
*
252277 ATGTATCGATGCATT
1 ATGTATCGATACATT
252292 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.93
21 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:261523 original size:20 final size:20
Alignment explanation
Indices: 261498--261566 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
261488 TTGCCAAGGA
261498 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
261518 AATGTATC---A-A-TA--C
1 AATGTATCGATACATTATTC
*
261531 ATTGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
261551 AATGTATCAATACATT
1 AATGTATCGATACATT
261567 GTATCGATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 8 0.21
15 2 0.05
16 2 0.05
17 2 0.05
18 2 0.05
20 23 0.59
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:261538 original size:13 final size:13
Alignment explanation
Indices: 261520--261606 Score: 96
Period size: 13 Copynumber: 7.2 Consensus size: 13
261510 CATTATTCAA
*
261520 TGTATCAATACAT
1 TGTATCGATACAT
261533 TGTATCGATACA-
1 TGTATCGATACAT
*
261545 T-TAT---T-CAA
1 TGTATCGATACAT
*
261553 TGTATCAATACAT
1 TGTATCGATACAT
261566 TGTATCGATACAT
1 TGTATCGATACAT
*
261579 TGCATCGATACAT
1 TGTATCGATACAT
261592 TGTATCGATACAT
1 TGTATCGATACAT
261605 TG
1 TG
261607 ATCTTTGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 3 0.05
11 3 0.05
12 2 0.03
13 51 0.81
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:261542 original size:33 final size:33
Alignment explanation
Indices: 261500--261579 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
261490 GCCAAGGAAA
261500 TGTATCGATACATTATTCAATGTATCAATACAT
1 TGTATCGATACATTATTCAATGTATCAATACAT
261533 TGTATCGATACATTATTCAATGTATCAATACAT
1 TGTATCGATACATTATTCAATGTATCAATACAT
261566 TGTATCGATACATT
1 TGTATCGATACATT
261580 GCATCGATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCAATACAT
Found at i:275734 original size:24 final size:22
Alignment explanation
Indices: 275707--275762 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
275697 GCATCCTTCG
*
275707 CAAAAAAAAAGAGAGAAAAAAAAA
1 CAAAAAAAAA-AAAG-AAAAAAAA
275731 CAAAAAAATAAAAAGAAAAAAAA
1 CAAAAAAA-AAAAAGAAAAAAAA
*
275754 CAACAAAAA
1 CAAAAAAAA
275763 GGGTCCGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.52
24 11 0.38
25 2 0.07
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (22 bp):
CAAAAAAAAAAAAGAAAAAAAA
Found at i:275737 original size:26 final size:26
Alignment explanation
Indices: 275708--275762 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
275698 CATCCTTCGC
*
275708 AAAAAA-AAAGAGAGAAAAAAA-AACA
1 AAAAAATAAAAAGA-AAAAAAACAACA
275733 AAAAAATAAAAAGAAAAAAAACAACA
1 AAAAAATAAAAAGAAAAAAAACAACA
275759 AAAA
1 AAAA
275763 GGGTCCGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.85, C:0.05, G:0.07, T:0.02
Consensus pattern (26 bp):
AAAAAATAAAAAGAAAAAAAACAACA
Found at i:276826 original size:37 final size:37
Alignment explanation
Indices: 276785--276869 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
276775 TGCCACAATC
*
276785 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCACAACATTTCATTTTGCATG
*
276822 ATGCATTTATGACATTCACAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCACAACATTTCATTTTGCATG
276859 ATGCATTTGTG
1 ATGCATTTGTG
276870 CTTCATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (37 bp):
ATGCATTTGTGACATTCACAACATTTCATTTTGCATG
Found at i:277266 original size:29 final size:28
Alignment explanation
Indices: 277234--277575 Score: 379
Period size: 29 Copynumber: 11.9 Consensus size: 28
277224 CCTCATCTTC
* *
277234 CAAAGCCCACAAGTCAGTGTCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
* *
277262 CCAAAGCCCACAAGTCAGTGTCATCTTTT
1 -CAAAGCCCACAAGTCAGTGGCACCTTTT
* * *
277291 CAAAAGCCCATAAGTTAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
*
277320 CAAAAGCCCATAAGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CCTTTT
* *
277350 CAAAGCCCATAATTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
* *
277377 CAGAAGCCCACTAGTCGGTGGCACCCTTTT
1 CA-AAGCCCACAAGTCAGTGGCA-CCTTTT
* *
277407 CAAAGCCCACAAGTCAGTGGCACCCCTTC
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTT
277436 CAAAGCCCACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTT
**
277465 CAAAGCCCACAAGTCAGTGGCGTCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
277493 CAAAAGCCCACAAGTCAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
*
277522 CAAAGCCCATAAGTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
277549 CAAAGCCCACAAGGT-AGTGGCAACCTT
1 CAAAGCCCACAA-GTCAGTGGC-ACCTT
277576 CAAAAGCACA
Statistics
Matches: 279, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
27 28 0.10
28 45 0.16
29 195 0.70
30 11 0.04
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTT
Found at i:277806 original size:52 final size:49
Alignment explanation
Indices: 277695--278025 Score: 220
Period size: 52 Copynumber: 6.5 Consensus size: 49
277685 TTTAATGTTG
*
277695 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTA
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCA
* * * *
277744 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCC
1 CTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCA
** ** * *
277796 CTGGTTTTGAATCAGCACATTACCACCTTCACCTTTAAGTCCAAAATCA
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCA
* * * * * * *
277845 CTAGCCTTGAATCAGCATATTGGCATCTGTAACAT-TCCTAA-ACCTAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCACCT-T--CATCT-TTAAGTCC-AATATCA
* * * * *
277897 CTGGCCTTGAATCAGGACATTGGCATTCTTC-TCATATTCAAGTCTAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCA-CCTTCATC-T-TT-AAGTCCAATATCA
* * * * *
277949 CTGACCGTGAATCAGCACATTGACATTCTTTACATCTTTAAGCCCAATATCA
1 CTGGCCTTGAATCAGCACATTGGCA--CCTT-CATCTTTAAGTCCAATATCA
* *
278001 TTGGTCC-TGAATCAGCATATTGGCA
1 CTGG-CCTTGAATCAGCACATTGGCA
278026 TCTTTATCAC
Statistics
Matches: 216, Mismatches: 49, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
49 64 0.30
50 3 0.01
51 6 0.03
52 128 0.59
53 11 0.05
54 2 0.01
55 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCA
Found at i:277894 original size:101 final size:101
Alignment explanation
Indices: 277695--277917 Score: 261
Period size: 101 Copynumber: 2.2 Consensus size: 101
277685 TTTAATGTTG
** * * * *
277695 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTACTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTACCACCTTCACCTTTAAGTCCAAAATCACTAGCCTTGAATCAGC
* * ** * *
277760 ATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCC
66 ATATTGGCACCTGTAACATCTCTAAGACCAATGTCC
**
277796 CTGGTTTTGAATCAGCACATTACCACCTTCACCTTTAAGTCCAAAATCACTAGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTACCACCTTCACCTTTAAGTCCAAAATCACTAGCCTTGAATCAGC
* *
277861 ATATTGGCATCTGTAACAT-TCCTAA-ACCTAATGTCG
66 ATATTGGCACCTGTAACATCT-CTAAGACC-AATGTCC
*
277897 CTGGCCTTGAATCAGGACATT
1 CTGGCCTTGAATCAGCACATT
277918 GGCATTCTTC
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
100 3 0.03
101 98 0.97
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (101 bp):
CTGGCCTTGAATCAGCACATTACCACCTTCACCTTTAAGTCCAAAATCACTAGCCTTGAATCAGC
ATATTGGCACCTGTAACATCTCTAAGACCAATGTCC
Found at i:278671 original size:19 final size:21
Alignment explanation
Indices: 278625--278679 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 21
278615 TTTCAACAAT
278625 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
278646 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
278665 TTGTATCGATACAAA
1 TTGTATCGATACAAA
278680 GCTACCCTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:278745 original size:13 final size:13
Alignment explanation
Indices: 278727--278752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
278717 TTATTCAATT
278727 TATCGATACATTG
1 TATCGATACATTG
278740 TATCGATACATTG
1 TATCGATACATTG
278753 ATCTTTGCAT
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):
TATCGATACATTG
Found at i:283923 original size:34 final size:34
Alignment explanation
Indices: 283882--283949 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
283872 ATGACAAAGT
283882 ATGAATGTGTGTGGACTATCGAGATCTGAATCGA
1 ATGAATGTGTGTGGACTATCGAGATCTGAATCGA
283916 ATGAATGTGTGTGGACTATCGAGATCTGAATCGA
1 ATGAATGTGTGTGGACTATCGAGATCTGAATCGA
283950 GCTAGTCCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (34 bp):
ATGAATGTGTGTGGACTATCGAGATCTGAATCGA
Found at i:286818 original size:11 final size:11
Alignment explanation
Indices: 286798--286874 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 11
286788 TTATACCCAA
286798 AAAAAAAAAAT
1 AAAAAAAAAAT
286809 AAAAATAAAAA-
1 AAAAA-AAAAAT
*
286820 ACAAAAAAAAAG
1 A-AAAAAAAAAT
286832 AAAAAAACCAAA-
1 AAAAAAA--AAAT
286844 AATAACAAAAAAT
1 AA-AA-AAAAAAT
* *
286857 AACAAAAATAAC
1 AA-AAAAAAAAT
286869 AAAAAA
1 AAAAAA
286875 CCCAAGAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
11 21 0.38
12 22 0.40
13 9 0.16
14 3 0.05
ACGTcount: A:0.84, C:0.08, G:0.01, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:286820 original size:19 final size:19
Alignment explanation
Indices: 286796--286874 Score: 90
Period size: 19 Copynumber: 4.2 Consensus size: 19
286786 CTTTATACCC
286796 AAAAAAA-AAAAATAAAAA
1 AAAAAAACAAAAATAAAAA
*
286814 TAAAAAACAAAAA-AAAAGA
1 AAAAAAACAAAAATAAAA-A
* *
286833 AAAAAACCAAAAATAACAA
1 AAAAAAACAAAAATAAAAA
*
286852 AAAATAACAAAAATAACAAA
1 AAAAAAACAAAAATAA-AAA
286872 AAA
1 AAA
286875 CCCAAGAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 10 0.20
19 32 0.64
20 8 0.16
ACGTcount: A:0.85, C:0.08, G:0.01, T:0.06
Consensus pattern (19 bp):
AAAAAAACAAAAATAAAAA
Found at i:286827 original size:9 final size:9
Alignment explanation
Indices: 286795--286903 Score: 82
Period size: 9 Copynumber: 11.7 Consensus size: 9
286785 ACTTTATACC
286795 CAAAAAAAA
1 CAAAAAAAA
286804 -AAAATAAAA
1 CAAAA-AAAA
*
286813 -ATAAAAAA
1 CAAAAAAAA
286821 CAAAAAAAA
1 CAAAAAAAA
286830 -AGAAAAAAA
1 CA-AAAAAAA
*
286839 CCAAAAATAA
1 -CAAAAAAAA
286849 CAAAAAATAA
1 CAAAAAA-AA
*
286859 CAAAAATAA
1 CAAAAAAAA
286868 CAAAAAACCCAA
1 CAAAAAA---AA
*
286880 GAAAAAATAA
1 CAAAAAA-AA
286890 C-AAAAAAA
1 CAAAAAAAA
286898 CAAAAA
1 CAAAAA
286904 GGGGTCCAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
8 12 0.15
9 44 0.54
10 16 0.20
11 1 0.01
12 8 0.10
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.06
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:286855 original size:1 final size:1
Alignment explanation
Indices: 286796--286838 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
286786 CTTTATACCC
* * * *
286796 AAAAAAAAAAAATAAAAATAAAAAACAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
286839 CCAAAAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.02, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:288130 original size:28 final size:28
Alignment explanation
Indices: 288096--289042 Score: 1070
Period size: 28 Copynumber: 32.9 Consensus size: 28
288086 CATCCATCTC
*
288096 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
**
288124 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* **
288153 TTCAAAGCCCACAAGTCAGTGTCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
288182 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
288210 TTCAAAGCCCACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
288238 TTCAAAGCCCACAAGTCAGTGTCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * * *
288267 TTCAAAGCCCACGAGTCGGTAGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* *
288297 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288325 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
288354 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288382 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * * *
288411 TTCAAACCCCACACGAG-CCGATGGAAACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGG-CA-TCCT
288443 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288471 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
288500 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
288529 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
288557 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
288585 TTCAAAGCTCACAAGTCAGTGGAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * **
288614 TTCAAAGCCCACACGAGCCGGTGGCAATTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
*
288646 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288674 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
288702 TTCAAAGCCCACAAGTTAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
288730 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288758 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
288786 TTCAAAGCCCACAACTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
288814 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
* *
288846 TTCAAAGGCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
288874 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* * * *
288904 TTCAAAGTCTACAAGTCAATAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
288932 TTCAAAGCCCACAAGTTAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
288961 TTCAAAGCCCACAAGTTAGTGGCAGCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
288989 TTCAAAACCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
**
289017 TTTTAAGCCCACGCAAGTCAGTGGCA
1 TTCAAAGCCCA--CAAGTCAGTGGCA
289043 ACCCTTTTCA
Statistics
Matches: 796, Mismatches: 97, Indels: 50
0.84 0.10 0.05
Matches are distributed among these distances:
27 2 0.00
28 428 0.54
29 215 0.27
30 88 0.11
31 15 0.02
32 47 0.06
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:288165 original size:57 final size:57
Alignment explanation
Indices: 288096--289042 Score: 1115
Period size: 57 Copynumber: 16.4 Consensus size: 57
288086 CATCCATCTC
* *
288096 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* ** *
288153 TTCAAAGCCCACAAGTCAGTGTCACTTTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
288210 TTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGTCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * * *
288267 TTCAAAGCCCACGAGTCGGTAGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
288325 TTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
288382 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACACGAG-CCGATGGAAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAG-TGG-CACTCTT
288443 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
288500 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCA-TCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTT
* * *
288558 TT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * ** * *
288614 TTCAAAGCCCACACGAGCCGGTGGCAATTTTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
288674 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTAGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
288730 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
288786 TTCAAAGCCCACAACTCAGTGGCA-CCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
* * * *
288846 TTCAAAGGCCACGAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* * * * * *
288904 TTCAAAGTCTACAAGTCAATAGCATCCTTTCAAAGCCCACAAGTTAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
288961 TTCAAAGCCCACAAGTTAGTGGCAGCCTTTCAAAACCCACAAGTCAATGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
289018 TT-TAAGCCCACGCAAGTCAGTGGCA
1 TTCAAAGCCCA--CAAGTCAGTGGCA
289043 ACCCTTTTCA
Statistics
Matches: 774, Mismatches: 88, Indels: 55
0.84 0.10 0.06
Matches are distributed among these distances:
55 2 0.00
56 179 0.23
57 256 0.33
58 175 0.23
59 42 0.05
60 69 0.09
61 51 0.07
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:288763 original size:347 final size:345
Alignment explanation
Indices: 288096--289042 Score: 1259
Period size: 347 Copynumber: 2.7 Consensus size: 345
288086 CATCCATCTC
* *
288096 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* * *
288161 CCACAAGTCAGTGTCACTTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT
* *
288226 CAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGTCACTCTTTTCAAAG-CC-CACGAGTCGGTAG
131 CAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGCCGGTAG
*
288289 CAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCTT
196 CAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCT
* *
288354 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACC
261 TTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAACC
*
288419 CCACACGAGCC-GATGGAAACTCTT
326 CCACA--AGCCAG-TGG-AAC-CCT
288443 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
288508 CCACAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT
* * * *
288573 CAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGAACTCTTTTCAAAGCCCACACGAGCCGGTGG
131 CAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGCCGGTAG
* * * *
288638 CAATTTTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
196 CAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCT
* *
288702 TTCAAAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC
261 TTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAACC
* *
288766 CCACAAGTCAGTGGCACCCT
326 CCACAAGCCAGTGGAACCCT
* *
288786 TTCAAAGCCCACAACTCAGTGGCA-CCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCA
* * * * * * * *
288850 AAGGCCACGAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGTCT
62 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTT-AAAGCCC
* * * * *
288914 ACAAGTCAATAGCATCCTTTCAAAGCCCACAAGTTAGTGGCATTCTTTTCAAAGCCCACA--AGT
125 ACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGC
** * * * * * **
288977 TAGTGGCAGC-C-TTTCAAAACCCACAAGTCAATGGCACCCTTTTTAAGCCCACGCAAGTCAGTG
190 CGGTAGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTG
289040 GCA
253 GCA
289043 ACCCTTTTCA
Statistics
Matches: 532, Mismatches: 57, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
342 2 0.00
343 73 0.14
344 2 0.00
345 60 0.11
346 33 0.06
347 240 0.45
348 55 0.10
349 67 0.13
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (345 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT
CAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGCCGGTAG
CAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCT
TTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAACC
CCACAAGCCAGTGGAACCCT
Found at i:289922 original size:20 final size:20
Alignment explanation
Indices: 289900--290013 Score: 142
Period size: 20 Copynumber: 5.7 Consensus size: 20
289890 TACCCAGATA
* *
289900 TATCGATACATTCTTTAATA
1 TATCGATACATTCTTCAATG
* *
289920 TATCGATACATGT-ATGAATG
1 TATCGATACAT-TCTTCAATG
289940 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
* *
289960 TATCGATACATGT-ATAAATG
1 TATCGATACAT-TCTTCAATG
289980 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
290000 TATCGATACATTCT
1 TATCGATACATTCT
290014 ATCTTTTTAC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.02
20 77 0.95
21 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:289964 original size:40 final size:40
Alignment explanation
Indices: 289900--290010 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
289890 TACCCAGATA
* * *
289900 TATCGATACATTCTTTAATATATCGATACATGTATGAATG
1 TATCGATACATTCTTCAATGTATCGATACATGTATAAATG
289940 TATCGATACATTCTTCAATGTATCGATACATGTATAAATG
1 TATCGATACATTCTTCAATGTATCGATACATGTATAAATG
289980 TATCGATACATTCTTCAATGTATCGATACAT
1 TATCGATACATTCTTCAATGTATCGATACAT
290011 TCTATCTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (40 bp):
TATCGATACATTCTTCAATGTATCGATACATGTATAAATG
Found at i:293411 original size:31 final size:31
Alignment explanation
Indices: 293375--293436 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
293365 TACTATTTTG
293375 TTGGTTTTCAACTTTTAAATGAATTTTATTT
1 TTGGTTTTCAACTTTTAAATGAATTTTATTT
*
293406 TTGGTTTTCAACTTTTAAGTGAATTTTATTT
1 TTGGTTTTCAACTTTTAAATGAATTTTATTT
293437 ACTTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGGTTTTCAACTTTTAAATGAATTTTATTT
Found at i:295162 original size:32 final size:32
Alignment explanation
Indices: 295121--295205 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
295111 TTTCAACAAT
* *
295121 TTGTATCGATACAATGTATTGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
295153 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
295185 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
295206 CTATGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:295172 original size:13 final size:13
Alignment explanation
Indices: 295154--295178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
295144 GCATAAGTGT
295154 TGTATCGATACAA
1 TGTATCGATACAA
295167 TGTATCGATACA
1 TGTATCGATACA
295179 TAAGTTTTGT
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:295270 original size:13 final size:13
Alignment explanation
Indices: 295252--295277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
295242 TACTCAAATA
295252 TATCGATACATTG
1 TATCGATACATTG
295265 TATCGATACATTG
1 TATCGATACATTG
295278 ATCTTTTGTA
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):
TATCGATACATTG
Found at i:302037 original size:52 final size:52
Alignment explanation
Indices: 301889--302017 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
301879 TGAAATATGA
* * *
301889 AAATTTGTCTGCATGTATCGATACATTTCATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
301941 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
301993 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
302018 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:302044 original size:13 final size:13
Alignment explanation
Indices: 302026--302050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
302016 CAAAGATCAG
302026 TGTATCGATACAA
1 TGTATCGATACAA
302039 TGTATCGATACA
1 TGTATCGATACA
302051 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:302117 original size:19 final size:18
Alignment explanation
Indices: 302093--302191 Score: 65
Period size: 13 Copynumber: 5.8 Consensus size: 18
302083 TAGCTTACAT
302093 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
302112 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
302125 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
302144 TGTATCAATAC--A--T-
1 TGTATCGATACAAACTTA
302157 TGTATCGATACAACACTTTTA
1 TGTATCGATACAA-AC--TTA
*
302178 TGGATCGATACAAA
1 TGTATCGATACAAA
302192 TCATTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 27
0.68 0.03 0.29
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 21 0.33
20 2 0.03
21 12 0.19
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:302129 original size:32 final size:32
Alignment explanation
Indices: 302088--302189 Score: 159
Period size: 32 Copynumber: 3.1 Consensus size: 32
302078 GGCAGTAGCT
*
302088 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
302120 TACATTGTATCGATACAACACTTATGTATCAA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
302152 TACATTGTATCGATACAACACTTTTATGGATCGA
1 TACATTGTATCGATACAACAC--TTATGTATCGA
302186 TACA
1 TACA
302190 AATCATTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 51 0.80
34 13 0.20
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:303623 original size:52 final size:53
Alignment explanation
Indices: 303566--303952 Score: 178
Period size: 52 Copynumber: 7.4 Consensus size: 53
303556 CAATTGTTCA
*
303566 TAATCAGGGATACTCCAA-TCCCGATTTTATTTTC-AAAACACCAATTTTTCTT
1 TAATCAGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAATTTTTCTT
*
303618 TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCTT
* ** * * **
303670 CAATC-GAGGATACTCCAA--CC--TTGTTATTTCATCGGGGATACTCCAA---CCCTGT
1 TAATCAG-GGATACTCCAACTCCGATT-TTATTTC--C--AAAAACACCAATTTTTCT-T
* * ** * * *** * *
303722 TACCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTC-A
1 TA-AT-C-A-GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCTT
* * * * * **
303777 TAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAA-TTTTCCA
1 TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCTT
* * * * * * * *
303828 CAATCGGGGATACTCCAACCCCGGTTTTTTTTTTTC-AAAACACCAATTTTCCTG
1 TAATCAGGGATACTCCAACTCC-G-ATTTTATTTCCAAAAACACCAATTTTTCTT
* *
303882 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCTT
* *
303934 CAATCAAGGATACTCCAAC
1 TAATCAGGGATACTCCAAC
303953 CTCATTATTT
Statistics
Matches: 258, Mismatches: 48, Indels: 58
0.71 0.13 0.16
Matches are distributed among these distances:
48 2 0.01
49 7 0.03
50 7 0.03
51 54 0.21
52 74 0.29
53 58 0.22
54 30 0.12
55 2 0.01
56 12 0.05
57 3 0.01
58 5 0.02
59 3 0.01
60 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
TAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCTT
Found at i:303794 original size:51 final size:51
Alignment explanation
Indices: 303731--303953 Score: 196
Period size: 51 Copynumber: 4.3 Consensus size: 51
303721 TTACCTCCGA
* * * *
303731 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACTAATTTTC-CACAATC
* * *
303782 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACTAATTTTCCACAATC
* * ** * **
303833 GGGGATACTCCAACCCCGGTTTTTTTTTTTCAAAACACCAATTTTCCTGTAATC
1 GGGGATACTCCAACCCCGG--CTTTATTCCCAAAACACTAATTTTCC-ACAATC
* ** * * *
303887 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAACACTAATTTTCCACAATC
**
303939 AAGGATACTCCAACC
1 GGGGATACTCCAACC
303954 TCATTATTTC
Statistics
Matches: 142, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
51 58 0.41
52 24 0.17
53 39 0.27
54 21 0.15
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACTAATTTTCCACAATC
Found at i:304099 original size:79 final size:78
Alignment explanation
Indices: 303968--304200 Score: 218
Period size: 79 Copynumber: 2.9 Consensus size: 78
303958 TATTTCATCA
** * ** * *
303968 GGGATACTCCAACCCTGTTACCTCCGAGAAGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCCAGTTTTATTCCCAAAATATTG
**
304033 ATTTCTCATAATTG
65 ATTTCTCATAACCG
* * * * *
304047 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCAATTTTATTTCC-TAATCATC
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCCAGTTTTATTCCCAAAAT-ATT
*
304111 GATTTTTCATAACCG
64 GATTTCTCATAACCG
* ** *
304126 GGGATACTCCAACCCTATTATTTTTAAGGGGATACTCCAACCCCGTTATTA-TCTCCAAAATATT
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAGTT-TTATTC-CCAAAATATT
*
304190 AAATTTCTCAT
64 -GATTTCTCAT
304201 CGGGACATAT
Statistics
Matches: 122, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
78 9 0.07
79 102 0.84
80 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAGTTTTATTCCCAAAATATTGA
TTTCTCATAACCG
Found at i:305998 original size:19 final size:19
Alignment explanation
Indices: 305974--306068 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
305964 TAGCCAAACT
305974 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
305993 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
306006 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
306025 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
306038 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
306057 TGTATCGATACA
1 TGTATCGATACA
306069 ATGTATCGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 20 0.31
15 6 0.09
17 6 0.09
19 32 0.50
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:306010 original size:13 final size:13
Alignment explanation
Indices: 305992--306081 Score: 72
Period size: 13 Copynumber: 6.0 Consensus size: 13
305982 TACACAAAGT
305992 ATGTATCGATACA
1 ATGTATCGATACA
306005 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
306022 GTATGTATCGATACA
1 --ATGTATCGATACA
306037 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
306054 GTATGTATCGATACA
1 --ATGTATCGATACA
306069 ATGTATCGATACA
1 ATGTATCGATACA
306082 CAAAAAATTG
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 33 0.51
15 6 0.09
17 6 0.09
19 20 0.31
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:306015 original size:32 final size:32
Alignment explanation
Indices: 305974--306101 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
305964 TAGCCAAACT
305974 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
306006 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
306038 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
**
306070 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAGTA-TGTATCGATACA
306102 TTGGCTTGTA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 81 0.87
33 12 0.13
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:310158 original size:15 final size:15
Alignment explanation
Indices: 310138--310168 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
310128 TAAAAATGTC
*
310138 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
310153 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
310168 C
1 C
310169 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:312266 original size:13 final size:13
Alignment explanation
Indices: 312248--312273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
312238 ACATTTTTCT
312248 TTGTATCGATACA
1 TTGTATCGATACA
312261 TTGTATCGATACA
1 TTGTATCGATACA
312274 GGGGGATTAT
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):
TTGTATCGATACA
Found at i:314780 original size:13 final size:13
Alignment explanation
Indices: 314762--314787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
314752 TACACAAAGT
314762 ATGTATCGATACA
1 ATGTATCGATACA
314775 ATGTATCGATACA
1 ATGTATCGATACA
314788 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:314785 original size:32 final size:33
Alignment explanation
Indices: 314744--314807 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
314734 TAGCCAAACT
**
314744 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
314776 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
314808 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:318077 original size:52 final size:52
Alignment explanation
Indices: 317986--318116 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
317976 CCCGAAATAT
* * *
317986 GAAAAGTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTAG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAG
* * *
318038 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAG
318090 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
318117 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAG
Found at i:318129 original size:52 final size:51
Alignment explanation
Indices: 317986--318136 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 51
317976 CCCGAAATAT
* *
317986 GAAAAGTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTAG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAG
* * * *
318038 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAG
*
318090 GAAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
318137 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAG
Found at i:318143 original size:13 final size:13
Alignment explanation
Indices: 318125--318149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
318115 CAAAGATCAG
318125 TGTATCGATACAA
1 TGTATCGATACAA
318138 TGTATCGATACA
1 TGTATCGATACA
318150 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:318222 original size:25 final size:26
Alignment explanation
Indices: 318194--318246 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
318184 GCTTAAATTG
318194 TATCGATACAAAAC-TTATGTATCGA
1 TATCGATACAAAACTTTATGTATCGA
*
318219 TATCGATACAACACTTTATGTATCGA
1 TATCGATACAAAACTTTATGTATCGA
318245 TA
1 TA
318247 CAAATCGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (26 bp):
TATCGATACAAAACTTTATGTATCGA
Found at i:322514 original size:19 final size:19
Alignment explanation
Indices: 322490--322557 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
322480 AATTCAACAA
322490 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
322509 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
322524 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
322541 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
322558 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:322529 original size:13 final size:13
Alignment explanation
Indices: 322511--322535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
322501 ACATAAGTTT
322511 TGTATCGATACAA
1 TGTATCGATACAA
322524 TGTATCGATACA
1 TGTATCGATACA
322536 TAAGTATTGT
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:322533 original size:32 final size:32
Alignment explanation
Indices: 322492--322554 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
322482 TTCAACAATT
*
322492 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
322524 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
322555 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:322616 original size:13 final size:13
Alignment explanation
Indices: 322598--322622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
322588 ATTTTTCTGG
322598 GTATCGATACATT
1 GTATCGATACATT
322611 GTATCGATACAT
1 GTATCGATACAT
322623 GGATCTTTGT
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):
GTATCGATACATT
Found at i:324483 original size:28 final size:27
Alignment explanation
Indices: 324413--324488 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
324403 TTTCTTCACA
324413 ATCGGGGATACTCCAACCCCGTTGATC
1 ATCGGGGATACTCCAACCCCGTTGATC
324440 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTGATC
*
324465 TTCCGAGGGGATACTCCAACCCCG
1 AT-C--GGGGATACTCCAACCCCG
324489 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 23 0.51
28 18 0.40
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTGATC
Found at i:324546 original size:51 final size:51
Alignment explanation
Indices: 324471--324692 Score: 228
Period size: 52 Copynumber: 4.3 Consensus size: 51
324461 TTATTTCCGA
* * * *
324471 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * * * *
324522 GGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * *
324574 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
324626 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
*
324678 GAGGATACTCCAACC
1 GGGGATACTCCAACC
324693 TTGTTATTTC
Statistics
Matches: 139, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 36 0.26
52 89 0.64
53 14 0.10
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:324586 original size:52 final size:50
Alignment explanation
Indices: 324304--324692 Score: 205
Period size: 52 Copynumber: 7.4 Consensus size: 50
324294 CTCAATTCTC
* * * * * *
324304 CACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAGACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * *
324354 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTT-TT
* ** **
324409 CACAATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * ***
324467 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * * * *
324515 CATAATCGGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* * *
324566 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTT
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
** * * *
324618 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
* *
324671 CACAGTCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
324693 TTGTTATTTC
Statistics
Matches: 256, Mismatches: 55, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 3 0.01
51 62 0.24
52 88 0.34
53 26 0.10
54 25 0.10
55 22 0.09
56 1 0.00
57 3 0.01
58 7 0.03
59 4 0.02
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:324712 original size:28 final size:28
Alignment explanation
Indices: 324680--324751 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
324670 TCACAGTCGA
** * **
324680 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
324708 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
324736 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
324752 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:324882 original size:79 final size:78
Alignment explanation
Indices: 324705--324905 Score: 222
Period size: 78 Copynumber: 2.6 Consensus size: 78
324695 GTTATTTCAT
* * * * *
324705 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAATATT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCACGACTTTATTCCCAAATATC
* *
324770 GATTTCTCATAAT
66 GATTTCTCACAAC
* * * * ** *
324783 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCACGATTTTTTTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCACGACTTTATTCCCAAAT-AT
*
324848 CGATTTTTCACAAC
65 CGATTTCTCACAAC
* * * *
324862 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
324906 CCGTTATTAT
Statistics
Matches: 101, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
78 51 0.50
79 50 0.50
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCACGACTTTATTCCCAAATATC
GATTTCTCACAAC
Found at i:327214 original size:55 final size:55
Alignment explanation
Indices: 327129--327496 Score: 407
Period size: 55 Copynumber: 6.4 Consensus size: 55
327119 TTCACCCTTT
* *
327129 AGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
* * * *
327184 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA-AGAGTCGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA-AGTTGGTGGCACTTCCC
* * * *
327239 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTC---------AAAGCCCACACAAGTTGGTGGCACTTCCC
* * *
327304 AGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACATGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCACTTCCC
*
327359 AGTCCTCAAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
* *
327414 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAATTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTCCC
*
327475 AGTCCTTAAAGAGCAGGACGCC
1 AGTCCTCAAAGAGCAGGACGCC
327497 CTCTCCTTCC
Statistics
Matches: 273, Mismatches: 20, Indels: 34
0.83 0.06 0.10
Matches are distributed among these distances:
54 3 0.01
55 168 0.62
56 5 0.02
61 48 0.18
64 1 0.00
65 47 0.17
66 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:327368 original size:120 final size:110
Alignment explanation
Indices: 327129--327498 Score: 433
Period size: 120 Copynumber: 3.2 Consensus size: 110
327119 TTCACCCTTT
*
327129 AGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACCCCTTTAAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
* * *
327194 GAGCAGGACGCCT-TTCAAAGCCCACA-AGAGTCGGTGGCATTTTCT
66 GAGCAGGACGCCTCTT-AAAGCCCACACA-TGTTGGTGGCATTTTCC
* * *
327239 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGAC-CC----C--TTT---AAAAGCCCACACAAGTTGGTGGCACTTCCC
327304 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACATGTTGGTGGCATTTTCC
56 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACATGTTGGTGGCATTTTCC
*
327359 AGTCCTCAAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACCCCTTTAAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
*
327424 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAT-TTGGTGGCA-CTTCC
66 GAGCAGGACG-C--CT-C--TTAAAGCCCACAC-ATGTTGGTGGCATTTTCC
*
327474 TAGTCCTTAAAGAGCAGGACGCCCT
1 -AGTCCTCAAAGAGCAGGAC-CCCT
327499 CTCCTTCCAC
Statistics
Matches: 225, Mismatches: 14, Indels: 35
0.82 0.05 0.13
Matches are distributed among these distances:
110 66 0.29
111 3 0.01
113 5 0.02
114 1 0.00
115 6 0.03
116 40 0.18
117 8 0.04
119 1 0.00
120 92 0.41
121 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (110 bp):
AGTCCTCAAAGAGCAGGACCCCTTTAAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
GAGCAGGACGCCTCTTAAAGCCCACACATGTTGGTGGCATTTTCC
Found at i:327573 original size:94 final size:97
Alignment explanation
Indices: 327414--327590 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 97
327404 GGCACTTCCC
* *
327414 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAATTTGGTGGCACTTCCTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCC---TAAAGCCCACACAAGTTAGTGGCACTTCCTAGTC
*
327479 CTTAAAGAGCAGGACGCCCTCTCCTTCCACCCTTT
63 CTCAAAGAGCAGGACGCCCTCTCCTTCCACCCTTT
*
327514 AGTCCTCAAAGAGCAGGACGCCTT-T-C-AAAGCCCACACAAGTTAGTGGCACCTTTC-AGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTAGTGGCA-CTTCCTAGTCCT
327575 CAAAGAGCAGGACGCC
65 CAAAGAGCAGGACGCC
327591 TTTCAAAGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
94 42 0.58
95 4 0.06
98 1 0.01
99 1 0.01
100 24 0.33
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (97 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTC
AAAGAGCAGGACGCCCTCTCCTTCCACCCTTT
Found at i:327595 original size:26 final size:26
Alignment explanation
Indices: 327509--327595 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
327499 CTCCTTCCAC
327509 CCTTT-AGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * *
327534 CCTTTCAAAGCCCACACAAGTTAG-TGG-CA
1 CCTTTC--AGTCCTCA-AAG--AGCAGGACG
327563 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
327589 CCTTTCA
1 CCTTTCA
327596 AAGCCCACAC
Statistics
Matches: 46, Mismatches: 8, Indels: 15
0.67 0.12 0.22
Matches are distributed among these distances:
24 2 0.04
25 7 0.15
26 11 0.24
27 6 0.13
28 6 0.13
29 10 0.22
30 2 0.04
31 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:328006 original size:61 final size:55
Alignment explanation
Indices: 327514--328551 Score: 1257
Period size: 55 Copynumber: 18.3 Consensus size: 55
327504 TCCACCCTTT
* *
327514 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
327569 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * *
327624 AGTCCTCAAAAAGCAGGATGCCTTTCAAAGCCCACACTAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
327679 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGCGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
327734 AGTCCTTAAAAAGCATGACGCCTTTCAAAGCCCACACCAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
327789 AGTCCTCAAAGAGCATGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
327844 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
327905 ATGTCCTCAAAGAGCAGGACGCATTTCCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 A-GTCCTCAAAGAGCAGGACG-----CCTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * ** *
327967 -GATCTTCAAAGAGTAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AG-TCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
328028 AGTCCTTAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACACAAGTTAGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACG-----CCTTT-CAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * *
328089 AGTCCTCAAAGAGTAGGACGACTTTCAAAGCCTACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
328144 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
328199 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
328254 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
328309 AGTCCTCAAAGAGTAGGACGCCTTTC-AAGCCCATACCAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
328363 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
328418 AGTCCTCAAAGAACAGGATGCTTTCCCTGTGCAAAGCCCACACAAGTTGGTGGCACTTTT-C
1 AGTCCTCAAAGAGCAGGA--C---GCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * *
328479 AGTCTTCAAAGAGCAGGACGTCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
328534 AGTCCTCAAATAGCAGGA
1 AGTCCTCAAAGAGCAGGA
328552 TGCACTTTAT
Statistics
Matches: 878, Mismatches: 68, Indels: 74
0.86 0.07 0.07
Matches are distributed among these distances:
54 60 0.07
55 557 0.63
56 9 0.01
57 2 0.00
59 3 0.00
60 10 0.01
61 176 0.20
62 59 0.07
63 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:328224 original size:27 final size:27
Alignment explanation
Indices: 328194--328279 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
328184 TTGGTGGCAT
328194 TTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * ** *
328221 TTTCAAAGCCCACACAAGTTGGTGG-CACC
1 TTTC-CAGTCCTCA-AAG-AGCAGGACGCC
328250 TTT-CAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
328276 TTTC
1 TTTC
328280 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 9 0.22
27 10 0.25
28 6 0.15
29 9 0.22
30 3 0.08
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACGCC
Done.