Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1289
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: 61336
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Found at i:2943 original size:6 final size:6
Alignment explanation
Indices: 2932--2965 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
2922 AAATATATAT
2932 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
2966 GATTCGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:3063 original size:19 final size:18
Alignment explanation
Indices: 3036--3085 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
3026 TATTTTTATA
3036 ATTAAATTTAAATAAAAAT
1 ATTAAATTT-AATAAAAAT
*
3055 ATTATATTTAATAAAAAAT
1 ATTAAATTTAAT-AAAAAT
*
3074 AATTAAAATTAA
1 -ATTAAATTTAA
3086 ATCAAACACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAATTTAATAAAAAT
Found at i:3076 original size:39 final size:37
Alignment explanation
Indices: 3033--3122 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 37
3023 TTATATTTTT
3033 ATAATTAAATTTAAAT-AAA-AATATTATATTTAATAAAAA
1 ATAATTAAATTTAAATCAAACAAT-TT-TATTT--TAAAAA
* *
3072 ATAATTAAAATTAAATCAAACACTTTTATTTTAAAAA
1 ATAATTAAATTTAAATCAAACAATTTTATTTTAAAAA
3109 AT-A-TAAATTTAAAT
1 ATAATTAAATTTAAAT
3123 TAGATGCAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
35 10 0.22
36 1 0.02
37 8 0.17
39 20 0.43
40 5 0.11
41 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (37 bp):
ATAATTAAATTTAAATCAAACAATTTTATTTTAAAAA
Found at i:6833 original size:31 final size:32
Alignment explanation
Indices: 6798--6858 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
6788 TTAAATTCGT
*
6798 TCAAATTCAAATCAAT-AAAAAAATGAAACCA
1 TCAAATTCAAATCAATGAAAAAAATAAAACCA
* *
6829 TCAAATTCGAATTAATGAAAAAAATAAAAC
1 TCAAATTCAAATCAATGAAAAAAATAAAAC
6859 GAATCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (32 bp):
TCAAATTCAAATCAATGAAAAAAATAAAACCA
Found at i:8032 original size:6 final size:6
Alignment explanation
Indices: 8021--8053 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8011 CTTTTTATAC
*
8021 TCTTTT TCTTTT TCTTTT T-TTTT TCATTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
8054 ACATGGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:8036 original size:12 final size:12
Alignment explanation
Indices: 8021--8053 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
8011 CTTTTTATAC
8021 TCTTTTTCTTTT
1 TCTTTTTCTTTT
8033 TCTTTTT-TTTT
1 TCTTTTTCTTTT
*
8044 TCATTTTCTT
1 TCTTTTTCTT
8054 ACATGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:14596 original size:6 final size:6
Alignment explanation
Indices: 14585--14650 Score: 66
Period size: 6 Copynumber: 11.0 Consensus size: 6
14575 AATAGTGAAT
*
14585 ATATAA ATATAA ATATAA ATAT-A ATATAA ATTATTAA ATAT-- ATTTAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA A-TA-TAA ATATAA ATATAA
*
14632 ATTTTAA ATATAA ATATAA
1 A-TATAA ATATAA ATATAA
14651 TAATAATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 30 0.58
7 10 0.19
8 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
ATATAA
Found at i:14716 original size:19 final size:20
Alignment explanation
Indices: 14680--14718 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14670 TATCAATTTA
14680 ATCATATTTAAATATATTAT
1 ATCATATTTAAATATATTAT
*
14700 ATCATATTT-ATTATATTAT
1 ATCATATTTAAATATATTAT
14719 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATCATATTTAAATATATTAT
Found at i:17457 original size:16 final size:15
Alignment explanation
Indices: 17424--17466 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
17414 ACGGAATTAG
17424 AATAAAAAATAAAAAAT
1 AATAAAAAAT--AAAAT
17441 AATAACAAAATAAAAT
1 AATAA-AAAATAAAAT
17457 AATAAAAAAT
1 AATAAAAAAT
17467 TCTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 5 0.20
18 5 0.20
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAAATAAAAT
Found at i:26219 original size:18 final size:18
Alignment explanation
Indices: 26198--26232 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26188 AAAGCAAAAA
26198 AAAAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAAGAAG
* *
26216 AAAAAAACAAAACAGAA
1 AAAAAAAAAAAAAAGAA
26233 AATCTCGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAGAAG
Found at i:26219 original size:20 final size:22
Alignment explanation
Indices: 26177--26227 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
26167 GTTCTTTTCC
26177 AAACACAAAAAAAAGCAAAAAAA
1 AAACA-AAAAAAAAGCAAAAAAA
*
26200 AAA-AAAAAAAAAG-AAGAAAA
1 AAACAAAAAAAAAGCAAAAAAA
26220 AAACAAAA
1 AAACAAAA
26228 CAGAAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 1 0.04
23 3 0.12
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (22 bp):
AAACAAAAAAAAAGCAAAAAAA
Found at i:26232 original size:15 final size:15
Alignment explanation
Indices: 26184--26234 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
26174 TCCAAACACA
*
26184 AAAAAAAGCAAAAAAA
1 AAAAAAA-CAAAAAAG
*
26200 AAAAAAAAAAAAGAAG
1 AAAAAAACAAAA-AAG
*
26216 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
26231 AAAA
1 AAAA
26235 TCTCGATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 10 0.33
16 20 0.67
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:27272 original size:31 final size:31
Alignment explanation
Indices: 27234--27344 Score: 176
Period size: 31 Copynumber: 3.7 Consensus size: 31
27224 ATACCTTTTT
27234 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
27265 AAAGTCCACGACTCAGTGGCAATCTCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
27294 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
27324 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
27345 TTTTTTCTTT
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 21 0.28
30 21 0.28
31 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:27343 original size:59 final size:60
Alignment explanation
Indices: 27231--27344 Score: 196
Period size: 59 Copynumber: 1.9 Consensus size: 60
27221 CAAATACCTT
27231 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
*
27291 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCA
1 TTTAAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCA
27345 TTTTTTCTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
58 2 0.04
59 27 0.52
60 23 0.44
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (60 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
Found at i:27459 original size:34 final size:34
Alignment explanation
Indices: 27287--28362 Score: 963
Period size: 34 Copynumber: 32.1 Consensus size: 34
27277 TCAGTGGCAA
* * * *
27287 TCTCTTTAAAGTCCACGACTCAGTGGCA-TTTTG
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
27320 TCTC---AAAGTCCACGACTCAGTGGCA--TTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
27349 T-TCTTTAAAGCCCACAACTCCGTGGCACCTTGT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
27382 TC-CTTTTAAGTCCACAACTCCGTGGCAC-----
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
27410 CCT-TTTAAAGCCCACAATTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
27443 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
27472 CCT-TTTAAAGCCCACAATTCTGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
27505 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
27534 -C-CGTTT-AAG-CCACAACTCCGTGGCACCTTTT
1 TCTC-TTTAAAGCCCACAACTCCGTGGCACTTTTT
*
27565 TCTTTTTAAAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
27599 TCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * *
27633 TCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTC
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * * *
27667 TCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
1 TCTCTT--TAAAG-CC-CACAACTCCGTGGC-ACTTTTT
* *
27706 TCT-TTTCAAAGCCCACAACTCCGTGGCACCTTCT
1 TCTCTTT-AAAGCCCACAACTCCGTGGCACTTTTT
**
27740 TCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
27774 T-TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCT-C-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
27810 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * *
27845 TCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
27881 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
27916 TCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
27952 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
27987 TCTCTTTTCAAAGCCCACGACTCCGTGGCA------
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
28017 -CTCTTTAAAGCCCACAACTCTGTGGCACACTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCAC-TTTTT
* *
28051 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* *
28086 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* * *
28122 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
28156 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
28192 TC-CTTTAAAGCCCACAACTACGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
28225 TC-CTTCT-AAGCCCACAACTCTGTGGCACTATTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACT-TTTT
28259 TC-CTTCT-AAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACTTTTT
28292 TCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * *
28326 TCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCA-CTTTTT
28361 TC
1 TC
28363 CTTCCCAAAG
Statistics
Matches: 882, Mismatches: 85, Indels: 150
0.79 0.08 0.13
Matches are distributed among these distances:
26 18 0.02
27 28 0.03
28 48 0.05
29 8 0.01
30 21 0.02
31 18 0.02
32 5 0.01
33 165 0.19
34 229 0.26
35 137 0.16
36 76 0.09
37 110 0.12
38 14 0.02
39 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
Found at i:27548 original size:26 final size:27
Alignment explanation
Indices: 27510--27560 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
27500 TTTTTTCATC
27510 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGTCCACAACTCCGTGGCACCCG
27537 TTTAAG-CCACAACTCCGTGGCACC
1 TTTAAGTCCACAACTCCGTGGCACC
27561 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.22
Consensus pattern (27 bp):
TTTAAGTCCACAACTCCGTGGCACCCG
Found at i:27711 original size:71 final size:69
Alignment explanation
Indices: 27543--28360 Score: 882
Period size: 71 Copynumber: 11.8 Consensus size: 69
27533 CCCGTTTAAG
27543 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-CTTTTT-TCTTTT
1 CCACAACTCCGTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTCTTTT
27605 AAAGC
65 AAAGC
* * *
27610 CCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTTC
1 CCACAACTCCGTGGCACTCTTTTT--CTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTCTT-
*
27674 CTAAAGCC
63 TTAAAG-C
* * * * *
27682 CACACAAGTCGGTGGCAAC-CTTCTTCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTCT-TCTT
1 C-CACAACTCCGTGGC-ACTCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTCTT
27744 TTAAAGC
63 TTAAAGC
** * *
27751 CCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-GT
1 CCACAACTCCGTGGCACTC-TTTTT-CTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTCTT
27815 TTAAAGC
63 TTAAAGC
* * *
27822 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTCT-GT
1 CCACAACTCCGTGGCACTCTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTCTT
27886 TTAAAGC
63 TTAAAGC
* *
27893 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-GT
1 CCACAACTCCGTGGCACTC-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTCTT
27957 TTAAAGC
63 TTAAAGC
*
27964 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-------CTC-T
1 CCACAACTCCGTGGCACTC-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTCTT
28021 TTAAAGC
63 TTAAAGC
* * * *
28028 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 CCACAACTCCGTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCTCTTT
28093 TCAAAGC
64 T-AAAGC
* *
28100 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCA-CTCTTTTCCCTTT
1 CCACAACTCCGTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCATCT-TTTTCTCTTT
28163 TCAAAGC
64 T-AAAGC
* * *
28170 CCACAACTCCGTGGCACTC-TTTTCCTTTAAAGCCCACAACTACGTGGCA-CTCTTTTC-CTTCT
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCATCT-TTTTCTCTTTT
28232 -AAGC
65 AAAGC
* * *
28236 CCACAACTCTGTGGCACTATTTTTCCTTCT-AAGCCCACAACTCCGTGGCA-CTTTTT-TCTTTT
1 CCACAACTCCGTGGCACTCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTCTTTT
28298 AAAGC
65 AAAGC
*
28303 CCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTT
1 CCACAACTCCGTGGCACTCTTTTT--CTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
28361 TCCTTCCCAA
Statistics
Matches: 669, Mismatches: 43, Indels: 76
0.85 0.05 0.10
Matches are distributed among these distances:
62 21 0.03
63 8 0.01
64 27 0.04
66 29 0.04
67 70 0.10
68 68 0.10
69 53 0.08
70 82 0.12
71 239 0.36
72 33 0.05
73 37 0.06
74 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (69 bp):
CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTCTTTTA
AAGC
Found at i:27935 original size:142 final size:136
Alignment explanation
Indices: 27322--28360 Score: 1116
Period size: 142 Copynumber: 7.7 Consensus size: 136
27312 GCATTTTGTC
* * * * *
27322 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* *
27384 -CTTTTAAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTT
66 TCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
27442 TTCATCTT
131 TTC-T-TT
* * *
27450 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* *
27507 ATC-TTTAAGTCCACAACTCCGTGGCACC-----CGTTT-AAG-CCACAACTCCGTGGCAC-CTT
66 -TCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
27563 TTTCTTT
130 TTTCTTT
* *
27570 TTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * * * * * *
27635 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAA
66 TCTTTTAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-A
*
27700 C-CTTCTTCTTT
125 CTCTTTTTCTTT
* **
27711 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
27775 TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACT
66 T-CTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACT
27840 CTTTTTCCCTTT
127 CTTTTT--CTTT
*
27852 TCAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
27917 CTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACT
65 CTCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACT
27982 CTTTTTCTCTTT
127 C-TTTT-TCTTT
* * *
27994 TCAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCTGTGGCACACTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
28053 T-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
66 TCTTTT-AAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCAC
28117 -CTTTTTCTTT
126 TCTTTTTCTTT
* * *
28127 TTAAAGCCCACAACTCTGTGGCACTCTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
* * * * *
28191 TTC-CTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCTGTGGCACT
63 TTCTCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACT
* *
28254 ATTTTTC-CT
127 CTTTTTCTTT
* *
28263 TCTAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * *
28328 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
66 TCTTTTAAGCCCACAACTCCGTGGCACCTTTTT
28361 TCCTTCCCAA
Statistics
Matches: 790, Mismatches: 65, Indels: 106
0.82 0.07 0.11
Matches are distributed among these distances:
120 3 0.00
121 1 0.00
122 43 0.05
123 31 0.04
124 29 0.04
125 1 0.00
126 18 0.02
127 27 0.03
128 31 0.04
133 70 0.09
134 29 0.04
135 65 0.08
136 67 0.08
137 11 0.01
138 6 0.01
139 18 0.02
140 40 0.05
141 128 0.16
142 143 0.18
143 28 0.04
144 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (136 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
TCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTCTTT
Found at i:28026 original size:27 final size:27
Alignment explanation
Indices: 27996--28049 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
27986 TTCTCTTTTC
* *
27996 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
*
28023 AAAGCCCACAACTCTGTGGCACACTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
28050 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACACTTT
Found at i:28550 original size:49 final size:49
Alignment explanation
Indices: 28432--29351 Score: 726
Period size: 49 Copynumber: 18.7 Consensus size: 49
28422 GCAACCCCTC
* *
28432 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
28484 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
28533 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
28585 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
28634 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
28683 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
28726 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* * * *
28778 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTT
* * * * * * *
28833 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT
* * * * * * **
28886 CTCA-TCATCATTTTTAAG-T--CC--AATATC-GCTGGCCTTGAATCAGCATATTGGCATCTT
1 -TAAGTC--CA-ATAT-AGCTGGCCTTGA-ATCAGC--ACATTG-----GCACCTT--CATCTT
* *
28943 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 ------TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
28992 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
29041 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
29084 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
29133 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
29176 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
29225 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
29268 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
29320 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
29352 GTTGACATCC
Statistics
Matches: 708, Mismatches: 86, Indels: 148
0.75 0.09 0.16
Matches are distributed among these distances:
43 192 0.27
45 4 0.01
47 3 0.00
49 247 0.35
50 6 0.01
51 3 0.00
52 156 0.22
53 9 0.01
54 7 0.01
55 40 0.06
56 5 0.01
57 9 0.01
58 2 0.00
59 5 0.01
60 3 0.00
61 2 0.00
62 8 0.01
63 4 0.01
64 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:28754 original size:92 final size:94
Alignment explanation
Indices: 28631--28809 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 94
28621 GCACCTTCAT
* *
28631 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
28694 TAGCTGGCCTTGAATCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
28723 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCCAAT
28788 GTAGCTGGCCTTGAATCAGCAC
65 GTAGCTGGCCTTGAATCAGCAC
28810 GTTGACATCC
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 38 0.47
94 5 0.06
95 37 0.46
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:28852 original size:55 final size:52
Alignment explanation
Indices: 28723--28860 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
28713 ACATTGGCAC
* *
28723 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
28775 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
28830 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
28861 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:29009 original size:43 final size:44
Alignment explanation
Indices: 28898--29308 Score: 488
Period size: 43 Copynumber: 9.0 Consensus size: 44
28888 CATCATCATT
*
28898 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
28947 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
28990 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
29039 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
29082 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
29131 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
29174 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
29223 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
29266 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
29309 TTTTCCATCT
Statistics
Matches: 316, Mismatches: 27, Indels: 43
0.82 0.07 0.11
Matches are distributed among these distances:
43 156 0.49
45 4 0.01
47 3 0.01
49 153 0.48
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:29055 original size:92 final size:92
Alignment explanation
Indices: 28898--29351 Score: 836
Period size: 92 Copynumber: 4.9 Consensus size: 92
28888 CATCATCATT
28898 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
28963 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
28990 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
29055 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
29082 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
29147 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
29174 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
29239 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
29266 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
29331 TAGCTGGCCTTGAATCAGCAC
63 TAGCTGGCCTTGAATCAGCAC
29352 GTTGACATCC
Statistics
Matches: 355, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 313 0.88
94 5 0.01
95 37 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:30313 original size:33 final size:33
Alignment explanation
Indices: 30276--30342 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
30266 TTCAACGATT
30276 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
30309 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
30342 T
1 T
30343 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:30314 original size:13 final size:13
Alignment explanation
Indices: 30296--30320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30286 CATAAAATGT
30296 TGTATCGATACAA
1 TGTATCGATACAA
30309 TGTATCGATACA
1 TGTATCGATACA
30321 TATTTTTTTG
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:30404 original size:13 final size:13
Alignment explanation
Indices: 30386--30410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30376 ATTACTCACA
30386 TGTATCGATACAT
1 TGTATCGATACAT
30399 TGTATCGATACA
1 TGTATCGATACA
30411 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30547 original size:52 final size:52
Alignment explanation
Indices: 30419--30539 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
30409 CACTGATCTT
*
30419 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
30471 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
30523 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
30540 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:37740 original size:12 final size:11
Alignment explanation
Indices: 37723--37764 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
37713 TTCCAAACAC
37723 AAAAAAAGCAAA
1 AAAAAAAG-AAA
*
37735 AAAAAAAAAAA
1 AAAAAAAGAAA
37746 AAAAAAAGAAA
1 AAAAAAAGAAA
37757 AAACAAAA
1 AAA-AAAA
37765 CAGAAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:37769 original size:14 final size:14
Alignment explanation
Indices: 37732--37771 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37722 CAAAAAAAGC
37732 AAAAAAAA-AAAAA
1 AAAAAAAAGAAAAA
37745 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
* *
37759 ACAAAACAGAAAA
1 AAAAAAAAGAAAA
37772 TCTCGATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:38807 original size:31 final size:31
Alignment explanation
Indices: 38769--38879 Score: 176
Period size: 31 Copynumber: 3.7 Consensus size: 31
38759 ATACCTTTTT
38769 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
38800 AAAGTCCACGACTCAGTGGCAATCTCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
38829 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
38859 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
38880 TTTTTTCTTT
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 21 0.28
30 21 0.28
31 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:38878 original size:59 final size:60
Alignment explanation
Indices: 38766--38879 Score: 196
Period size: 59 Copynumber: 1.9 Consensus size: 60
38756 CAAATACCTT
38766 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
*
38826 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCA
1 TTTAAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCA
38880 TTTTTTCTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
58 2 0.04
59 27 0.52
60 23 0.44
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (60 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
Found at i:38994 original size:34 final size:34
Alignment explanation
Indices: 38822--39896 Score: 968
Period size: 34 Copynumber: 32.1 Consensus size: 34
38812 TCAGTGGCAA
* * * *
38822 TCTCTTTAAAGTCCACGACTCAGTGGCA-TTTTG
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
38855 TCTC---AAAGTCCACGACTCAGTGGCA--TTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
38884 T-TCTTTAAAGCCCACAACTCCGTGGCACCTTGT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
38917 TC-CTTTTAAGTCCACAACTCCGTGGCAC-----
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
38945 CCT-TTTAAAGCCCACAATTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
38978 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
39007 CCT-TTTAAAGCCCACAATTCTGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
39040 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
39069 -C-CGTTT-AAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTTAAAGCCCACAACTCCGTGGCACTTTTT
*
39101 TCTTTTTAAAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
39135 TCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * *
39169 TCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTC
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * * *
39203 TCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
1 TCTCTT--TAAAG-CC-CACAACTCCGTGGC-ACTTTTT
* * *
39242 TCT-TTCAAAGCCCACAACTCCGTGGCACCTTCT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
**
39275 TCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
39309 T-TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCT-C-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
39345 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
39379 TCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
39415 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
39450 TCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
39486 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
39521 TCTCTTTTCAAAGCCCACGACTCCGTGGCA------
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
39551 -CTCTTTAAAGCCCACAACTCTGTGGCACACTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCAC-TTTTT
* *
39585 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* *
39620 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* * *
39656 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
39690 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
39726 TC-CTTTAAAGCCCACAACTACGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
39759 TC-CTTCT-AAGCCCACAACTCTGTGGCACTATTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACT-TTTT
39793 TC-CTTCT-AAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACTTTTT
39826 TCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * *
39860 TCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCA-CTTTTT
39895 TC
1 TC
39897 CTTCCCAAAG
Statistics
Matches: 879, Mismatches: 90, Indels: 144
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.00
27 45 0.05
28 48 0.05
29 8 0.01
30 21 0.02
31 18 0.02
32 1 0.00
33 178 0.20
34 237 0.27
35 124 0.14
36 94 0.11
37 85 0.10
38 14 0.02
39 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
Found at i:39083 original size:27 final size:27
Alignment explanation
Indices: 39045--39096 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
39035 TTTTTTCATC
*
39045 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
39072 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
39097 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:39379 original size:71 final size:69
Alignment explanation
Indices: 38857--39894 Score: 1098
Period size: 71 Copynumber: 15.4 Consensus size: 69
38847 GCATTTTGTC
* * * * *
38857 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
38919 CTTT
66 CTTT
* *
38923 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
38980 ATCTT
66 CT-TT
* * *
38985 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
39042 ATCTT
66 CT-TT
* *
39047 T--AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
39102 CTTT
66 CTTT
* *
39106 TTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
39171 CCTTT
65 CCTTT
* * * * * *
39176 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-C
1 TCAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTC
*
39238 TTCTT-C-TT
60 TTTTTCCTTT
* **
39246 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT
39311 CCTTT
65 CCTTT
*
39316 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
39381 CCTTT
65 CCTTT
*
39386 TCAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
39451 CTCTTT
65 C-CTTT
39457 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
39522 CTCTTT
65 C-CTTT
* * *
39528 TCAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCTGTGGCACACTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
39586 CTTT
66 CTTT
* *
39590 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTT
39654 TTT-CTTT
62 TTTCCTTT
* * *
39661 TTAAAGCCCACAACTCTGTGGCACTCTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
39725 TTCC-TT
63 TTCCTTT
* * * * *
39731 T-AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCTGTGGCACTATTTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
39794 CC--T
65 CCTTT
* *
39797 TCTAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
39862 CCTTT
65 CCTTT
* *
39867 T--AAGTCCACAACTCCGTGGCATCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTT
39895 TCCTTCCCAA
Statistics
Matches: 862, Mismatches: 61, Indels: 96
0.85 0.06 0.09
Matches are distributed among these distances:
59 3 0.00
60 2 0.00
61 74 0.09
62 114 0.13
64 49 0.06
66 40 0.05
67 85 0.10
68 66 0.08
69 33 0.04
70 159 0.18
71 173 0.20
72 45 0.05
73 17 0.02
74 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (69 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CTTT
Found at i:39560 original size:27 final size:27
Alignment explanation
Indices: 39530--39583 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
39520 TTCTCTTTTC
* *
39530 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
*
39557 AAAGCCCACAACTCTGTGGCACACTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
39584 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACACTTT
Found at i:40084 original size:49 final size:49
Alignment explanation
Indices: 39966--40885 Score: 726
Period size: 49 Copynumber: 18.7 Consensus size: 49
39956 GCAACCCCTC
* *
39966 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
40018 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
40067 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
40119 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
40168 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
40217 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
40260 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* * * *
40312 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTT
* * * * * * *
40367 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT
* * * * * * **
40420 CTCA-TCATCATTTTTAAG-T--CC--AATATC-GCTGGCCTTGAATCAGCATATTGGCATCTT
1 -TAAGTC--CA-ATAT-AGCTGGCCTTGA-ATCAGC--ACATTG-----GCACCTT--CATCTT
* *
40477 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 ------TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
40526 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
40575 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
40618 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
40667 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
40710 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
40759 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
40802 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
40854 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
40886 GTTGACATCC
Statistics
Matches: 708, Mismatches: 86, Indels: 148
0.75 0.09 0.16
Matches are distributed among these distances:
43 192 0.27
45 4 0.01
47 3 0.00
49 247 0.35
50 6 0.01
51 3 0.00
52 156 0.22
53 9 0.01
54 7 0.01
55 40 0.06
56 5 0.01
57 9 0.01
58 2 0.00
59 5 0.01
60 3 0.00
61 2 0.00
62 8 0.01
63 4 0.01
64 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:40288 original size:92 final size:94
Alignment explanation
Indices: 40165--40343 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 94
40155 GCACCTTCAT
* *
40165 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
40228 TAGCTGGCCTTGAATCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
40257 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCCAAT
40322 GTAGCTGGCCTTGAATCAGCAC
65 GTAGCTGGCCTTGAATCAGCAC
40344 GTTGACATCC
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 38 0.47
94 5 0.06
95 37 0.46
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:40386 original size:55 final size:52
Alignment explanation
Indices: 40257--40394 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
40247 ACATTGGCAC
* *
40257 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
40309 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
40364 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
40395 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:40543 original size:43 final size:44
Alignment explanation
Indices: 40432--40842 Score: 488
Period size: 43 Copynumber: 9.0 Consensus size: 44
40422 CATCATCATT
*
40432 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
40481 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
40524 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
40573 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
40616 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
40665 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
40708 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
40757 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
40800 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
40843 TTTTCCATCT
Statistics
Matches: 316, Mismatches: 27, Indels: 43
0.82 0.07 0.11
Matches are distributed among these distances:
43 156 0.49
45 4 0.01
47 3 0.01
49 153 0.48
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:40589 original size:92 final size:92
Alignment explanation
Indices: 40432--40885 Score: 836
Period size: 92 Copynumber: 4.9 Consensus size: 92
40422 CATCATCATT
40432 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
40497 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
40524 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
40589 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
40616 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
40681 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
40708 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
40773 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
40800 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
40865 TAGCTGGCCTTGAATCAGCAC
63 TAGCTGGCCTTGAATCAGCAC
40886 GTTGACATCC
Statistics
Matches: 355, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 313 0.88
94 5 0.01
95 37 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:41849 original size:33 final size:33
Alignment explanation
Indices: 41812--41878 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
41802 TTCAACGATT
41812 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
41845 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
41878 T
1 T
41879 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:41850 original size:13 final size:13
Alignment explanation
Indices: 41832--41856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41822 CATAAAATGT
41832 TGTATCGATACAA
1 TGTATCGATACAA
41845 TGTATCGATACA
1 TGTATCGATACA
41857 TATTTTTTTG
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:41940 original size:13 final size:13
Alignment explanation
Indices: 41922--41946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41912 ATTACTCACA
41922 TGTATCGATACAT
1 TGTATCGATACAT
41935 TGTATCGATACA
1 TGTATCGATACA
41947 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42083 original size:52 final size:52
Alignment explanation
Indices: 41955--42075 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
41945 CACTGATCTT
*
41955 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
42007 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
42059 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
42076 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:49262 original size:1 final size:1
Alignment explanation
Indices: 49256--49299 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
49246 TTCCAAACAC
** * *
49256 AAAAAAAAGCAAAAAAAAAAAAAAAAAAAAAGAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49300 CAGAAAATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.05, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:49274 original size:13 final size:12
Alignment explanation
Indices: 49256--49299 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
49246 TTCCAAACAC
*
49256 AAAAAAAAGCAA
1 AAAAAAAAGAAA
49268 AAAAAAAA-AAA
1 AAAAAAAAGAAA
49279 AAAAAAAAGAAA
1 AAAAAAAAGAAA
49291 AAAACAAAA
1 AAAA-AAAA
49300 CAGAAAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.34
12 15 0.52
13 4 0.14
ACGTcount: A:0.91, C:0.05, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:49286 original size:23 final size:22
Alignment explanation
Indices: 49256--49299 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49246 TTCCAAACAC
49256 AAAAAAAAGCAAAAAAAAAAAAA
1 AAAAAAAAG-AAAAAAAAAAAAA
*
49279 AAAAAAAAGAAAAAAACAAAA
1 AAAAAAAAGAAAAAAAAAAAA
49300 CAGAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.91, C:0.05, G:0.05, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAAAAA
Found at i:49304 original size:15 final size:15
Alignment explanation
Indices: 49257--49306 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
49247 TCCAAACACA
*
49257 AAAAAAAGCAAAAAAA
1 AAAAAAA-CAAAAAAG
*
49273 AAAAAAAAAAAAAAG
1 AAAAAAACAAAAAAG
*
49288 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
49303 AAAA
1 AAAA
49307 TCTCGATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:50343 original size:31 final size:31
Alignment explanation
Indices: 50305--50415 Score: 167
Period size: 31 Copynumber: 3.7 Consensus size: 31
50295 ATACCTTTTT
50305 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
50336 AAAGTCCACGACTCAGTGGCAATCTCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
50365 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
*
50395 AAAGTCCACAACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
50416 TTTTTTCTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 21 0.28
30 20 0.27
31 28 0.38
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:50415 original size:59 final size:60
Alignment explanation
Indices: 50302--50415 Score: 187
Period size: 59 Copynumber: 1.9 Consensus size: 60
50292 CAAATACCTT
*
50302 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAATCTC
*
50362 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACAACTCAGTGGCA
1 TTTAAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACAACTCAGTGGCA
50416 TTTTTTCTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
58 2 0.04
59 26 0.51
60 23 0.45
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (60 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAATCTC
Found at i:50530 original size:34 final size:34
Alignment explanation
Indices: 50358--51435 Score: 974
Period size: 34 Copynumber: 32.1 Consensus size: 34
50348 TCAGTGGCAA
* * * *
50358 TCTCTTTAAAGTCCACGACTCAGTGGCA-TTTTG
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
50391 TCTC---AAAGTCCACAACTCAGTGGCA--TTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
50420 T-TCTTTAAAGCCCACAACTCCGTGGCACCTTGT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
50453 TC-CTTTTAAGTCCACAACTCCGTGGCAC-----
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* *
50481 CCT-TTTAAAGCCCACAATTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
50514 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
* * *
50543 CCT-TTTAAAGCCCACAATTCTGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
50576 TCATCTTT-AAGTCCACAACTCCGTGGCAC-----
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
50605 -C-CGTTT-AAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTTAAAGCCCACAACTCCGTGGCACTTTTT
*
50637 TCTTTTTAAAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
50671 TCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * *
50705 TCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTC
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * * * *
50739 TCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
1 TCTCTT--TAAAG-CC-CACAACTCCGTGGC-ACTTTTT
* *
50778 TCT-TTTCAAAGCCCACAACTCCGTGGCACCTTCT
1 TCTCTTT-AAAGCCCACAACTCCGTGGCACTTTTT
**
50812 TCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
50846 T-TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCT-C-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
50882 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * *
50917 TCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
50953 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
50988 TCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
*
51024 TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
*
51059 TCTCTTTTCAAAGCCCACGACTCCGTGGCA------
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
51089 -CTCTTTAAAGCCCACAACTCTGTGGCACACTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCAC-TTTTT
* *
51123 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* *
51158 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
51194 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* *
51229 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTTTT
* *
51265 TC-CTTTAAAGCCCACAACTACGTGGCACTCTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
*
51298 TC-CTTCT-AAGCCCACAACTCTGTGGCACTATTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACT-TTTT
51332 TC-CTTCT-AAGCCCACAACTCCGTGGCACTTTTT
1 TCTCTT-TAAAGCCCACAACTCCGTGGCACTTTTT
*
51365 TCT-TTTAAATCCCACAACTCCGTGGCACTCTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACT-TTTT
* * *
51399 TCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCA-CTTTTT
51434 TC
1 TC
51436 CTTCCCAAAG
Statistics
Matches: 881, Mismatches: 88, Indels: 150
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.00
27 45 0.05
28 48 0.05
29 8 0.01
30 20 0.02
31 19 0.02
32 1 0.00
33 165 0.19
34 228 0.26
35 139 0.16
36 56 0.06
37 132 0.15
38 14 0.02
39 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TCTCTTTAAAGCCCACAACTCCGTGGCACTTTTT
Found at i:50619 original size:27 final size:27
Alignment explanation
Indices: 50581--50632 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
50571 TTTTTTCATC
*
50581 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
50608 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
50633 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:50926 original size:71 final size:69
Alignment explanation
Indices: 50393--51433 Score: 1111
Period size: 71 Copynumber: 15.4 Consensus size: 69
50383 GCATTTTGTC
* * * *
50393 TCAAAGTCCACAACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
50455 CTTT
66 CTTT
* *
50459 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
50516 ATCTT
66 CT-TT
* * *
50521 T--AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
50578 ATCTT
66 CT-TT
* *
50583 T--AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
50638 CTTT
66 CTTT
* *
50642 TTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
50707 CCTTT
65 CCTTT
* * * * * *
50712 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-C
1 TCAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTC
*
50774 TTCTT-CTTT
60 TTTTTCCTTT
* **
50783 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT
50848 CCTTT
65 CCTTT
50853 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
50918 CCCTTT
65 -CCTTT
*
50924 TCAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
50989 CTCTTT
65 C-CTTT
50995 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
51060 CTCTTT
65 C-CTTT
* * *
51066 TCAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCTGTGGCACACTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
51124 CTTT
66 CTTT
* *
51128 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTT
51192 TTT-CTTT
62 TTTCCTTT
* *
51199 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-T
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTT
51263 TTTCC-TT
62 TTTCCTTT
* * * * *
51270 T-AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCTGTGGCACTATTTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
51333 CC--T
65 CCTTT
* * *
51336 TCTAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
51401 CCTTT
65 CCTTT
* *
51406 T--AAGTCCACAACTCCGTGGCATCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTT
51434 TCCTTCCCAA
Statistics
Matches: 868, Mismatches: 59, Indels: 94
0.85 0.06 0.09
Matches are distributed among these distances:
59 3 0.00
60 2 0.00
61 74 0.09
62 114 0.13
64 50 0.06
66 38 0.04
67 74 0.09
68 71 0.08
69 7 0.01
70 84 0.10
71 284 0.33
72 26 0.03
73 39 0.04
74 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (69 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CTTT
Found at i:51098 original size:27 final size:27
Alignment explanation
Indices: 51068--51121 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51058 TTCTCTTTTC
* *
51068 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
*
51095 AAAGCCCACAACTCTGTGGCACACTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
51122 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACACTTT
Found at i:51151 original size:241 final size:237
Alignment explanation
Indices: 50358--51433 Score: 1158
Period size: 241 Copynumber: 4.6 Consensus size: 237
50348 TCAGTGGCAA
* * * ** * * *
50358 TCTCTTTAAAGTCCACGACTCAGTGGCA-TTTTGTCTCAAAGTCCACAACTCAGTGGCA--TTTT
1 TCTCTTTAAAGCCCACAACTCCGTGGCACTTCCGT-TTAAAGCCCACAACTCCGTGGCACCTTTT
* * *
50420 T-TCTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT-CCTTTT-AAGTCCACAACTCCGTGGCAC
65 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC
* *
50481 C-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATC-TTT--AAGTCCACAACTCCG
130 CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGCCCACAACTCCG
* * *
50537 TGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACTTTTT
194 TGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
50576 TCATCTTT-AAGTCCACAACTCCGTGGCAC--CCGTTT-AAGCCCACAACTCCGTGGCACCTTTT
1 TC-TCTTTAAAGCCCACAACTCCGTGGCACTTCCGTTTAAAGCCCACAACTCCGTGGCACCTTTT
50637 TCTTTTTAAAGCCCACAACTCCGTGGCACT-TTTTT--CTTTTAAAGCCCACAACTCCGTGGCAC
65 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC
* * * *
50699 TCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTC-CCTTCCTAAAGCCCACACAA
130 -CTTTTT--CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTC-AAAG-CC-CACAA
* * *
50761 GTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCT
189 CTCCGTGGC-ACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTT-T
** *
50812 TCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA
1 TCTCTTTAAAGCCCACAACTCCGTGGCA--C----TTCCGTTT-AAAGCCCACAACTCCGTGGCA
* *
50876 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCC
59 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCC
50941 GTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCAC
123 GTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCAC
51006 AACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
187 AACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTC-TTT
* *
51059 TCTCTTTTCAAAGCCCACGACTCCGTGGCAC-T-C-TTTAAAGCCCACAACTCTGTGGCACACTT
1 TCTC-TTT-AAAGCCCACAACTCCGTGGCACTTCCGTTTAAAGCCCACAACTCCGTGGCAC-CTT
*
51121 TTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
63 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGG
* *
51186 CACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACT
127 CACCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACT
* *
51251 CCGTGGCA-CTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTT
191 CCGTGGCACCT-TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
51298 TC-CTTCT-AAGCCCACAACTCTGTGGCACTATTTTTCC-TTCT-AAGCCCACAACTCCGTGGCA
1 TCTCTT-TAAAGCCCACAACTCCGTGGCAC-----TTCCGTT-TAAAGCCCACAACTCCGTGGCA
* * *
51359 CTTTTTTC-TTTTAAATCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCG
59 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCG
*
51422 TGGCATCTTTTT
124 TGGCACCTTTTT
51434 TCCTTCCCAA
Statistics
Matches: 739, Mismatches: 52, Indels: 113
0.82 0.06 0.12
Matches are distributed among these distances:
215 18 0.02
216 1 0.00
217 12 0.02
218 70 0.09
219 6 0.01
223 1 0.00
224 3 0.00
225 23 0.03
226 5 0.01
227 3 0.00
228 1 0.00
229 12 0.02
230 3 0.00
234 3 0.00
235 25 0.03
236 42 0.06
237 3 0.00
238 2 0.00
239 30 0.04
240 49 0.07
241 180 0.24
242 9 0.01
243 29 0.04
244 1 0.00
245 55 0.07
246 38 0.05
247 23 0.03
248 35 0.05
249 35 0.05
250 22 0.03
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (237 bp):
TCTCTTTAAAGCCCACAACTCCGTGGCACTTCCGTTTAAAGCCCACAACTCCGTGGCACCTTTTT
CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACC
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
GCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
Found at i:51623 original size:49 final size:49
Alignment explanation
Indices: 51505--52424 Score: 726
Period size: 49 Copynumber: 18.7 Consensus size: 49
51495 GCAACCCCTC
* *
51505 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
51557 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
51606 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
51658 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
51707 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
51756 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
51799 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* * * *
51851 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTT
* * * * * * *
51906 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT
* * * * * * **
51959 CTCA-TCATCATTTTTAAG-T--CC--AATATC-GCTGGCCTTGAATCAGCATATTGGCATCTT
1 -TAAGTC--CA-ATAT-AGCTGGCCTTGA-ATCAGC--ACATTG-----GCACCTT--CATCTT
* *
52016 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 ------TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
52065 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
52114 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
52157 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
52206 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
52249 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
52298 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
52341 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
52393 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
52425 GTTGACATCC
Statistics
Matches: 708, Mismatches: 86, Indels: 148
0.75 0.09 0.16
Matches are distributed among these distances:
43 192 0.27
45 4 0.01
47 3 0.00
49 247 0.35
50 6 0.01
51 3 0.00
52 156 0.22
53 9 0.01
54 7 0.01
55 40 0.06
56 5 0.01
57 9 0.01
58 2 0.00
59 5 0.01
60 3 0.00
61 2 0.00
62 8 0.01
63 4 0.01
64 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:51827 original size:92 final size:94
Alignment explanation
Indices: 51704--51882 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 94
51694 GCACCTTCAT
* *
51704 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
51767 TAGCTGGCCTTGAATCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
51796 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCCAAT
51861 GTAGCTGGCCTTGAATCAGCAC
65 GTAGCTGGCCTTGAATCAGCAC
51883 GTTGACATCC
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 38 0.47
94 5 0.06
95 37 0.46
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:51925 original size:55 final size:52
Alignment explanation
Indices: 51796--51933 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
51786 ACATTGGCAC
* *
51796 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
51848 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
51903 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
51934 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:52082 original size:43 final size:44
Alignment explanation
Indices: 51971--52381 Score: 488
Period size: 43 Copynumber: 9.0 Consensus size: 44
51961 CATCATCATT
*
51971 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
52020 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
52063 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
52112 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
52155 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
52204 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
52247 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
52296 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
52339 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
52382 TTTTCCATCT
Statistics
Matches: 316, Mismatches: 27, Indels: 43
0.82 0.07 0.11
Matches are distributed among these distances:
43 156 0.49
45 4 0.01
47 3 0.01
49 153 0.48
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:52128 original size:92 final size:92
Alignment explanation
Indices: 51971--52424 Score: 836
Period size: 92 Copynumber: 4.9 Consensus size: 92
51961 CATCATCATT
51971 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
52036 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
52063 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
52128 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
52155 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
52220 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
52247 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
52312 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
52339 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
52404 TAGCTGGCCTTGAATCAGCAC
63 TAGCTGGCCTTGAATCAGCAC
52425 GTTGACATCC
Statistics
Matches: 355, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 313 0.88
94 5 0.01
95 37 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:53387 original size:33 final size:33
Alignment explanation
Indices: 53350--53416 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
53340 TTCAACGATT
53350 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
53383 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
53416 T
1 T
53417 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:53388 original size:13 final size:13
Alignment explanation
Indices: 53370--53394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53360 CATAAAATGT
53370 TGTATCGATACAA
1 TGTATCGATACAA
53383 TGTATCGATACA
1 TGTATCGATACA
53395 TATTTTTTTG
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:53478 original size:13 final size:13
Alignment explanation
Indices: 53460--53484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53450 ATTACTCACA
53460 TGTATCGATACAT
1 TGTATCGATACAT
53473 TGTATCGATACA
1 TGTATCGATACA
53485 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53621 original size:52 final size:52
Alignment explanation
Indices: 53493--53613 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
53483 CACTGATCTT
*
53493 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
53545 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
53597 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
53614 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:60347 original size:28 final size:28
Alignment explanation
Indices: 60303--60374 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
60293 AAAAAAAAAT
* * ** *
60303 CGGGATTGGAGTGTCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
60331 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
60359 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
60375 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:60421 original size:52 final size:52
Alignment explanation
Indices: 60363--60699 Score: 203
Period size: 52 Copynumber: 6.4 Consensus size: 52
60353 AAATAACGAG
*
60363 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** ** * *
60415 GTTGGAGTATCCCCGATTAAAGAAAAATTGG-CGTTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
* * * * *
60466 GATTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCG--ATAAAACCGGG
1 G-TTGGAGTATCCCCGATTGTG-AAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
60519 GTTGGAGTATCCCC--TCG-GAAATAACAGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTG-AA-AA-A---TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
60574 GTTGGAGTATCCCCAATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTA-TTTTTGGAAATAAAATCGGA
* * * * *
60628 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
60679 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
60700 GAGAATTGAG
Statistics
Matches: 220, Mismatches: 41, Indels: 48
0.71 0.13 0.16
Matches are distributed among these distances:
49 4 0.02
50 4 0.02
51 38 0.17
52 83 0.38
53 32 0.15
54 28 0.13
55 19 0.09
56 3 0.01
57 8 0.04
58 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:60488 original size:104 final size:103
Alignment explanation
Indices: 60364--60699 Score: 295
Period size: 104 Copynumber: 3.2 Consensus size: 103
60354 AATAACGAGG
*
60364 TTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
60429 GATTAAAGAAAAATTGGCGTTTTGAAAATAAAACCGGGA
66 GATTAAAGAAAAATTGGAGTTTTGAAAATAAAA-CGGGA
* * * * *
60468 TTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCG--ATAAAACCGGGGTTGGAGTATCC
1 TTGGAGTATCCCCGATTGTG-AAAAATTGGTATTTTTG-GAAATAAAATCGGAGTTGGAGTATCC
**** * ** ** ** * *
60531 CCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAT-TAACGGGG
64 CCGATTAAAGAA-A-AATTGGAGT-T--TTGAAAATAAAACGGGA
* *
60575 TTGGAGTATCCCCAATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAA-AAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
* * *
60640 CCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATC-GGA
64 CCGATTAAAGAAAAATTGGAGTTTTGAAAATAAAA-CGGGA
*
60679 GTTGGAATATCCCCGATTGTG
1 -TTGGAGTATCCCCGATTGTG
60700 GAGAATTGAG
Statistics
Matches: 173, Mismatches: 45, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
103 4 0.02
104 51 0.29
105 35 0.20
106 14 0.08
107 33 0.19
108 8 0.05
109 28 0.16
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (103 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGAAAAATTGGAGTTTTGAAAATAAAACGGGA
Found at i:60578 original size:27 final size:28
Alignment explanation
Indices: 60515--60587 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
60505 GCGATAAAAC
**
60515 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* * *
60543 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
60570 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
60588 AATTGTGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:60604 original size:212 final size:212
Alignment explanation
Indices: 60298--60699 Score: 621
Period size: 212 Copynumber: 1.9 Consensus size: 212
60288 AGAAGAAAAA
* * * *
60298 AAAATCGGGATTGGAGTGTCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
* * *
60363 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
66 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
* *
60427 CCGATTAAAGAAAAATTGGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGTGAAA
131 CCGATTAAAG-AAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTGTGAAA
60491 AAATTAGTGTTTTAGCGAT
194 AAATTAGTGTTTTAGCGAT
* * *
60510 AAAACCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
60574 GTTGGAGTATCCCCAATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCAATTGTGAA-AAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATC
* * *
60639 CCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
130 CCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
60700 GAGAATTGAG
Statistics
Matches: 172, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 28 0.16
212 103 0.60
213 41 0.24
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
CCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAA
ATTAGTGTTTTAGCGAT
Done.