Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168023.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_277, whole genome shotgun sequence
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: 40001
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Found at i:1169 original size:11 final size:11
Alignment explanation
Indices: 1155--1181 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1145 ATGAATGAAA
1155 ATTTTGAATTT
1 ATTTTGAATTT
1166 ATTTTGAATTT
1 ATTTTGAATTT
1177 ATTTT
1 ATTTT
1182 ATACAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
ATTTTGAATTT
Found at i:3561 original size:160 final size:164
Alignment explanation
Indices: 3359--3916 Score: 418
Period size: 160 Copynumber: 3.4 Consensus size: 164
3349 TTTTTCATGA
* * *
3359 AATTTTAGAAAATT-TTA-ATC-TTAAGGAAAAGTTGAAATTTCAATTTCTTCTTTAAAATTTTG
1 AATTTTAG-AAATTATTATAGCTTTAAGGAAAATTTGATATTTCAATTT-TTCTTTAAAATTTT-
* * * ** * * * *
3421 AAATTGTTCTCATTTTAAGGAAATTTTGATGTTTCAACTTTTTCCTCATA-TCTTGAAATTGTTT
63 AAATTATTCTCATTCTAAAGAAAAGTTGATATTTCAACTTTTT-CTCAAATTCTTAAAATTATTT
* * *
3485 TTGT-TTAGGGAAAAAATGATATTTTAAC-TTT-CTC-
127 TAGTGTTAAGGAAAAAATGATATTTCAACTTTTCCTCT
* * * *
3519 CA-TTTA-AAATTAATT-TTGCTTTAAGGAAAATTTGATATTTCAATTTTTTTCTTAAATTTTTA
1 AATTTTAGAAATT-ATTATAGCTTTAAGGAAAATTTGATATTTCAATTTTTCT-TTAAAATTTT-
* *
3581 AAATTATTTTCCTTCTAAAGAAAAGTTGATATTTCAACTTTTTCTCAAATTCTTAAAATTATTTT
63 AAATTATTCTCATTCTAAAGAAAAGTTGATATTTCAACTTTTTCTCAAATTCTTAAAATTATTTT
*
3646 AGTGTTAAGGAAAAATTGATATTTCAACTTTTTCCTCT
128 AGTGTTAAGGAAAAAATGATATTTCAAC-TTTTCCTCT
* * * *
3684 AATTTTAGAAATTATTATAGTTTTAAGGAAAATTTTATATTTTAATTTTTTCTTCAAAATTTTAA
1 AATTTTAGAAATTATTATAGCTTTAAGGAAAATTTGATATTTCAA-TTTTTCTTTAAAATTTTAA
* * * * ** * * *
3749 ATTATT-T-TTGTCTTAAG-GAATTTTTTTTTTCAAATTTTTTCCTCAAATT-TTGAAATTATTT
65 ATTATTCTCAT-TCTAAAGAAAAGTTGATATTTC-AACTTTTT-CTCAAATTCTTAAAATTA-TT
* *** *
3810 TTA-TTTTAAGGAAATTTTGATATTTCAACTTTTTCCTCAA
126 TTAGTGTTAAGGAAAAAATGATATTTCAAC-TTTTCCTC-T
** * *
3850 AATTTT-GAAATTATT-T-TTTTTAAGGAAAAATT-ATTATTTCAACTTTTTCTTCAAAATTTTT
1 AATTTTAGAAATTATTATAGCTTTAAGGAAAATTTGA-TATTTCAA-TTTTTCTTTAAAA-TTTT
3911 AAATTA
63 AAATTA
3917 AAAAATTACT
Statistics
Matches: 328, Mismatches: 48, Indels: 40
0.79 0.12 0.10
Matches are distributed among these distances:
157 5 0.02
159 15 0.05
160 84 0.26
161 21 0.06
162 1 0.00
163 37 0.11
164 24 0.07
165 64 0.20
166 34 0.10
167 37 0.11
168 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (164 bp):
AATTTTAGAAATTATTATAGCTTTAAGGAAAATTTGATATTTCAATTTTTCTTTAAAATTTTAAA
TTATTCTCATTCTAAAGAAAAGTTGATATTTCAACTTTTTCTCAAATTCTTAAAATTATTTTAGT
GTTAAGGAAAAAATGATATTTCAACTTTTCCTCT
Found at i:3631 original size:55 final size:53
Alignment explanation
Indices: 3379--3913 Score: 349
Period size: 55 Copynumber: 9.8 Consensus size: 53
3369 AATTTTAATC
* * * * * * *
3379 TTAAGGAAAAGTTGAAATTTCAA-TTTCTTCTTTAAAATTTTGAAATTGTTCTCATT
1 TTAAGGAAAATTTGATATTTCAACTTT-TTC-TCAAATTTTTAAAATTATT-T-TTT
* * * * * *
3435 TTAAGGAAATTTTGATGTTTCAACTTTTTCCTCATA-TCTTGAAATTGTTTTTGT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTAAAATTATTTTT-T
* ** * * *
3489 TTAGGGAAAAAATGATATTTTAAC--TTTCTC-CA--TTTAAAATTAATTTTGCT
1 TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATT-ATTTT-TT
* *
3539 TTAAGGAAAATTTGATATTTCAATTTTTTTCTTAAATTTTTAAAATTATTTTCCTT
1 TTAAGGAAAATTTGATATTTCAA-CTTTTTCTCAAATTTTTAAAATTATTTT--TT
* * * * *
3595 CTAAAGAAAAGTTGATATTTCAACTTTTTCTCAAATTCTTAAAATTATTTTAGTG
1 TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATTATTTT--TT
* * *
3650 TTAAGGAAAAATTGATATTTCAACTTTTTCCTCTAA-TTTTAGAAATTATTATAGTT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTA-AAATTATT-T-TTT
* * * *
3706 TTAAGGAAAATTTTATATTTTAATTTTTTCTTCAAAATTTT-AAATTATTTTTGT
1 TTAAGGAAAATTTGATATTTCAACTTTTTC-TCAAATTTTTAAAATTATTTTT-T
** * * *
3760 CTTAAGG--AATTTTTTTTTTCAAATTTTTTCCTCAAA-TTTTGAAATTATTTTTATT
1 -TTAAGGAAAATTTGATATTTC-AACTTTTT-CTCAAATTTTTAAAATTA-TTTT-TT
* * *
3815 TTAAGGAAATTTTGATATTTCAACTTTTTCCTCAAAATTTTGAAATTATTTTTT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTAAAATTATTTTTT
*
3869 TTAAGGAAAAATT-ATTATTTCAACTTTTTCTTCAAAATTTTTAAA
1 TTAAGGAAAATTTGA-TATTTCAACTTTTTC-TC-AAATTTTTAAA
3914 TTAAAAAATT
Statistics
Matches: 386, Mismatches: 62, Indels: 63
0.76 0.12 0.12
Matches are distributed among these distances:
49 7 0.02
50 25 0.06
51 3 0.01
52 3 0.01
53 23 0.06
54 77 0.20
55 121 0.31
56 118 0.31
57 9 0.02
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (53 bp):
TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATTATTTTTT
Found at i:3659 original size:111 final size:108
Alignment explanation
Indices: 3349--3916 Score: 380
Period size: 111 Copynumber: 5.2 Consensus size: 108
3339 CTTAGTTTTA
* * * * *
3349 TTTTTCATGAAATTTTAGAAA--ATTTTAATCTTAAGGAAAAGTTGAAATTTCAA-TTTCTTCTT
1 TTTTTCCTTAAATTTTA-AAATTATTTTAATTTTAAGGAAAATTTGATATTTCAACTTT-TTC-T
* * * ** * *
3411 TAAAATTTTGAAATTGTTCTCAT-TTTAAGGAAATTTTGATGTTTCAAC
63 CAAAATTTTAAAATTATT-T--TGTTTAAGGAAAAATTGATATTTCAAT
* * * * * * ** *
3459 TTTTTCCTCATATCTTGAAATTGTTTT--TGTTTAGGGAAAAAATGATATTTTAAC--TTTCTC-
1 TTTTTCCTTAAATTTTAAAATTATTTTAAT-TTTAAGGAAAATTTGATATTTCAACTTTTTCTCA
* *
3519 -CA-TTTAAAATTAATTTTGCTTTAAGGAAAATTTGATATTTCAAT
65 AAATTTTAAAATT-ATTTTG-TTTAAGGAAAAATTGATATTTCAAT
* ** * * *
3563 TTTTTTCTTAAATTTTTAAAATTATTTTCCTTCTAAAGAAAAGTTGATATTTCAACTTTTTCTC-
1 TTTTTCCTTAAA-TTTTAAAATTATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTCTCA
*
3627 AAATTCTTAAAATTATTTTAGTGTTAAGGAAAAATTGATATTTCAAC
65 AAATT-TTAAAATTATTTT-GT-TTAAGGAAAAATTGATATTTCAAT
* * * * *
3674 TTTTTCCTCT-AATTTTAGAAATTATTATAGTTTTAAGGAAAATTTTATATTTTAATTTTTTCTT
1 TTTTTCCT-TAAATTTTA-AAATTATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTC-T
* ** *
3738 CAAAATTTT-AAATTATTTTTGTCTTAAGG--AATTTTTTTTTTCAAAT
63 CAAAATTTTAAAATTA-TTTTGT-TTAAGGAAAAATTGATATTTC-AAT
* * * *
3784 TTTTTCCTCAAATTTTGAAATTATTTTTATTTTAAGGAAATTTTGATATTTCAACTTTTTCCTCA
1 TTTTTCCTTAAATTTTAAAATTATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTT-CTCA
* * *
3849 AAATTTTGAAATTATTTTTTTTAAGGAAAAATT-ATTATTTCAAC
65 AAATTTTAAAATTATTTTGTTTAAGGAAAAATTGA-TATTTCAAT
*
3893 TTTTT-CTTCAAAATTTTTAAATTA
1 TTTTTCCTT--AAATTTTAAAATTA
3917 AAAAATTACT
Statistics
Matches: 361, Mismatches: 66, Indels: 62
0.74 0.13 0.13
Matches are distributed among these distances:
102 1 0.00
104 40 0.11
105 15 0.04
106 19 0.05
107 2 0.01
108 17 0.05
109 73 0.20
110 87 0.24
111 93 0.26
112 9 0.02
113 5 0.01
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (108 bp):
TTTTTCCTTAAATTTTAAAATTATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTCTCAA
AATTTTAAAATTATTTTGTTTAAGGAAAAATTGATATTTCAAT
Found at i:3807 original size:54 final size:56
Alignment explanation
Indices: 3525--3916 Score: 272
Period size: 56 Copynumber: 7.1 Consensus size: 56
3515 TCTCCATTTA
* * * * * * * *
3525 AAATTAATTTTGCTTTAAGGAAAATTTGA-TATTTCAATTTTTTTCTTAAATTTTTA
1 AAATTATTTTTGTTTTAAGG-AAATTTTATTTTTTCAATTTTTTCCTCAAAATTTTG
** * * * * * * *
3581 AAATTATTTTCCTTCTAAAGAAAAGTTGA-TATTTCAACTTTTT-CTC-AAATTCTTA
1 AAATTATTTTTGTT-TTAAGGAAATTTTATTTTTTCAATTTTTTCCTCAAAATT-TTG
* * * * * * *
3636 AAATTATTTTAGTGTTAAGGAAAAATTGA-TATTTCAACTTTTTCCTC-TAATTTTAG
1 AAATTATTTTTGTTTTAAGG-AAATTTTATTTTTTCAATTTTTTCCTCAAAATTTT-G
* * * *
3692 AAATTATTATAGTTTTAAGGAAAATTTTATATTTT-AATTTTTTCTTCAAAATTTT-
1 AAATTATTTTTGTTTTAAGG-AAATTTTATTTTTTCAATTTTTTCCTCAAAATTTTG
*
3747 AAATTATTTTTGTCTTAAGG-AATTTT-TTTTTTCAAATTTTTTCCTC-AAATTTTG
1 AAATTATTTTTGTTTTAAGGAAATTTTATTTTTTC-AATTTTTTCCTCAAAATTTTG
* * *
3801 AAATTATTTTTATTTTAAGGAAATTTTGA-TATTTCAACTTTTTCCTCAAAATTTTG
1 AAATTATTTTTGTTTTAAGGAAATTTT-ATTTTTTCAATTTTTTCCTCAAAATTTTG
** * * * *
3857 AAATTA-TTTT-TTTTAAGGAAAAATTATTATTTCAACTTTTTCTTCAAAATTTTT
1 AAATTATTTTTGTTTTAAGGAAATTTTATTTTTTCAATTTTTTCCTCAAAATTTTG
3911 AAATTA
1 AAATTA
3917 AAAAATTACT
Statistics
Matches: 281, Mismatches: 40, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
52 5 0.02
53 14 0.05
54 81 0.29
55 77 0.27
56 91 0.32
57 13 0.05
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.52
Consensus pattern (56 bp):
AAATTATTTTTGTTTTAAGGAAATTTTATTTTTTCAATTTTTTCCTCAAAATTTTG
Found at i:3870 original size:28 final size:28
Alignment explanation
Indices: 3783--3870 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
3773 TTTTTTCAAA
3783 TTTTTTCCTC-AAATTTTGAAATTATTT
1 TTTTTTCCTCAAAATTTTGAAATTATTT
* * * **
3810 TTATTT--TAAGGAAATTTTGATATT-TCAA
1 TTTTTTCCTCA--AAATTTTGAAATTAT-TT
*
3838 CTTTTTCCTCAAAATTTTGAAATTATTT
1 TTTTTTCCTCAAAATTTTGAAATTATTT
3866 TTTTT
1 TTTTT
3871 AAGGAAAAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 13
0.63 0.18 0.19
Matches are distributed among these distances:
25 1 0.02
27 6 0.14
28 32 0.76
29 1 0.02
30 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTTTCCTCAAAATTTTGAAATTATTT
Found at i:4924 original size:20 final size:20
Alignment explanation
Indices: 4899--4948 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4889 TTTTTTAAAT
* *
4899 AATCAAATAAATGAGGATAA
1 AATCAAATAAATAAAGATAA
*
4919 AATCAAAATAACTAAAGATAA
1 AATC-AAATAAATAAAGATAA
4940 AAT-AAATAA
1 AATCAAATAA
4949 GGATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 16 0.62
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.20
Consensus pattern (20 bp):
AATCAAATAAATAAAGATAA
Found at i:4934 original size:15 final size:15
Alignment explanation
Indices: 4923--4956 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4913 GGATAAAATC
4923 AAAATAACTAAAGAT
1 AAAATAACTAAAGAT
* *
4938 AAAATAAATAAGGAT
1 AAAATAACTAAAGAT
4953 AAAA
1 AAAA
4957 AAGAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAATAACTAAAGAT
Found at i:4987 original size:7 final size:6
Alignment explanation
Indices: 4967--5023 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
4957 AAGAATACAA
* *
4967 AAAAAT -AAAAT AAAAAGT AAAAAT AAAAAGG ATAAAGT AAAAACT AAAAAT
1 AAAAAT AAAAAT AAAAA-T AAAAAT AAAAA-T A-AAAAT AAAAA-T AAAAAT
5018 AAAAAT
1 AAAAAT
5024 CCTAGAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 5 0.12
6 20 0.48
7 14 0.33
8 3 0.07
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:5007 original size:27 final size:27
Alignment explanation
Indices: 4971--5022 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
4961 ATACAAAAAA
*
4971 ATAAAATAAAAAGTAAAAATAAAAAGG
1 ATAAAATAAAAACTAAAAATAAAAAGG
*
4998 ATAAAGTAAAAACTAAAAATAAAAA
1 ATAAAATAAAAACTAAAAATAAAAA
5023 TCCTAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (27 bp):
ATAAAATAAAAACTAAAAATAAAAAGG
Found at i:5484 original size:84 final size:85
Alignment explanation
Indices: 5330--5496 Score: 239
Period size: 84 Copynumber: 2.0 Consensus size: 85
5320 AGTTTGAAAT
* * *
5330 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTGAATGAGTAATGAGATTAACTTTTTTAA
1 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAGTAATGAGATTAACTCTATTAA
*
5395 TATTGAACACAACAATTGAG
66 TATTGAAAACAACAATTGAG
* * * *
5415 GGAAATGTCAACTAATTTTA-TTTTTTTGGTCCATTTAAATG-GATGATGGGATTGACTCTATTA
1 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAG-TAATGAGATTAACTCTATTA
5478 ATATTGAAAACAACAATTG
65 ATATTGAAAACAACAATTG
5497 TGGTAAGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 52 0.71
85 20 0.27
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (85 bp):
GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAGTAATGAGATTAACTCTATTAA
TATTGAAAACAACAATTGAG
Found at i:6114 original size:30 final size:30
Alignment explanation
Indices: 6029--6115 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
6019 TATTGCACCT
* * * * *
6029 AAATAAGCCTTCAACCTTTAGTTTGCATTC
1 AAATAAGCTTTTAACCTTTAATTTGTATAC
*
6059 AAATAAGTTTTTAACCTTTAATTTGTATAC
1 AAATAAGCTTTTAACCTTTAATTTGTATAC
*
6089 AAATAAGCTTTTAATCTTTAATTTGTA
1 AAATAAGCTTTTAACCTTTAATTTGTA
6116 CATAAATCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (30 bp):
AAATAAGCTTTTAACCTTTAATTTGTATAC
Found at i:6132 original size:30 final size:30
Alignment explanation
Indices: 6029--6133 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
6019 TATTGCACCT
* * * **
6029 AAATAAGCCTTCAACCTTTAGTTTGCATTC
1 AAATAAGCCTTTAACCTTTAATTTGTACAC
** *
6059 AAATAAGTTTTTAACCTTTAATTTGTATAC
1 AAATAAGCCTTTAACCTTTAATTTGTACAC
* * *
6089 AAATAAGCTTTTAATCTTTAATTTGTACAT
1 AAATAAGCCTTTAACCTTTAATTTGTACAC
6119 AAATCAA-CCTTTAAC
1 AAAT-AAGCCTTTAAC
6134 ATAATACATA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
30 60 0.97
31 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (30 bp):
AAATAAGCCTTTAACCTTTAATTTGTACAC
Found at i:8380 original size:23 final size:26
Alignment explanation
Indices: 8337--8389 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
8327 AAAACTTATT
*
8337 TATTTAATTTTTGAATATATT-GT-A
1 TATTTAATTTTTAAATATATTAGTAA
8361 TATTT-ATTTTATAAAT-TATTAGTAA
1 TATTTAATTTT-TAAATATATTAGTAA
8386 TATT
1 TATT
8390 ATTACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TATTTAATTTTTAAATATATTAGTAA
Found at i:11092 original size:10 final size:9
Alignment explanation
Indices: 11068--11107 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
11058 TTCTTTCTCA
*
11068 TTTTTTGAT
1 TTTTTTGTT
11077 TTTTTTGTT
1 TTTTTTGTT
11086 TTGTTTTGTT
1 TT-TTTTGTT
11096 TTTATTTGTT
1 TTT-TTTGTT
11106 TT
1 TT
11108 CCTTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 11 0.39
10 17 0.61
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.82
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:11092 original size:20 final size:20
Alignment explanation
Indices: 11070--11107 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11060 CTTTCTCATT
11070 TTTTGATTTT-TTTGTTTTG
1 TTTTGATTTTATTTGTTTTG
*
11089 TTTTGTTTTTATTTGTTTT
1 TTTTGATTTTATTTGTTTT
11108 CCTTTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTGATTTTATTTGTTTTG
Found at i:12061 original size:25 final size:25
Alignment explanation
Indices: 12032--12080 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12022 ATAATTATTC
12032 AATGATAAAATTTTAAAAAATTTCA
1 AATGATAAAATTTTAAAAAATTTCA
* *
12057 AATGATAAATTTTTATAAAATTTC
1 AATGATAAAATTTTAAAAAATTTC
12081 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (25 bp):
AATGATAAAATTTTAAAAAATTTCA
Found at i:12095 original size:25 final size:24
Alignment explanation
Indices: 12039--12095 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
12029 TTCAATGATA
*
12039 AAATTTTAAAAAATTTCAAATGAT
1 AAATTTTAAAAAATTTCAAATGAG
* **
12063 AAATTTTTATAAAATTTCTAGGTGAG
1 AAA-TTTTAAAAAATTTC-AAATGAG
12089 AAATTTT
1 AAATTTT
12096 TTCTAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.11
25 17 0.63
26 7 0.26
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
AAATTTTAAAAAATTTCAAATGAG
Found at i:12850 original size:64 final size:63
Alignment explanation
Indices: 12760--13073 Score: 239
Period size: 59 Copynumber: 5.0 Consensus size: 63
12750 AATTGATACT
* *
12760 TTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTT-TCAAGGAAAATTGATACTTTCA
1 TTCAACTTTTCCCCAAAAACACTTTTTTGAAAATTT--ATTTCT-AAGGAAAATTGATACTTTCA
12823 A
63 A
* *
12824 TTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATAC--T---
1 TTCAACTTTTCCCCAAAAACAC-TTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAA
* * *
12883 TTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGGAAAATTGATAC--T
1 TTCAACTTTTCCCCAAAAACACTTTTTTGAAAATTTA--TTTC---TAAGGAAAATTGATACTTT
12946 ---
61 CAA
* * *
12946 TTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATAC--T---
1 TTCAACTTTTCCCCAAAAACA-CTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAA
* * * *
13005 TTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGGAAAATTGATACTT
1 TTCAACTTTTCCCCAAAAACA-CTTTTTTGAAAATTTA--TTTC---TAAGGAAAATTGATACTT
13070 TCAA
60 TCAA
13074 CTTTTCCCTA
Statistics
Matches: 221, Mismatches: 10, Indels: 33
0.84 0.04 0.12
Matches are distributed among these distances:
58 14 0.06
59 72 0.33
60 4 0.02
61 4 0.02
62 5 0.02
63 38 0.17
64 69 0.31
65 1 0.00
66 14 0.06
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (63 bp):
TTCAACTTTTCCCCAAAAACACTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAA
Found at i:12992 original size:122 final size:122
Alignment explanation
Indices: 12746--13095 Score: 523
Period size: 123 Copynumber: 2.9 Consensus size: 122
12736 TTTTTTGTAG
12746 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGA-TTTTC----AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTTTCTTTTAA
* ***
12805 GGAAAATTGATACTTTCAATTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
64 GGAAAATTGATAC--T---TTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
12869 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGG
*
12934 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
66 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
*
12991 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTTTCTTTTAAG
*
13056 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
65 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
13096 GAATTTTTTA
Statistics
Matches: 213, Mismatches: 7, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
122 75 0.35
123 108 0.51
124 14 0.07
125 1 0.00
127 15 0.07
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (122 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGG
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:13060 original size:186 final size:182
Alignment explanation
Indices: 12746--13095 Score: 503
Period size: 186 Copynumber: 1.9 Consensus size: 182
12736 TTTTTTGTAG
12746 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTC-ATTTTCAAGGAAAA
*
12811 TTGATACTTTCAATTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAAT
65 TTGATAC-TT--ATTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAAT
12876 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAA
127 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAA
12932 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTT-A-TTTCTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTCATTTTC-AAGGAA
* * *
12995 AATTGATAC-T-TTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
63 AATTGATACTTATTCAACTTTTCCTC-AAAAACACTTTTTTTGAAAATTTA--TTTC---TAAGG
*
13057 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
122 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
13096 GAATTTTTTA
Statistics
Matches: 150, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
180 1 0.01
181 32 0.21
183 4 0.03
184 1 0.01
185 4 0.03
186 94 0.63
188 14 0.09
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (182 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCATTTTCAAGGAAAAT
TGATACTTATTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGAT
ACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAA
Found at i:13211 original size:1 final size:1
Alignment explanation
Indices: 13177--13251 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
13167 TCTAATAAAT
* * * * * * * * * **
13177 AAAAAATAAAATAAACAAATAAACAAAGAAAAAAAAAAGAAAGAAAAAAAAAAGAAAGGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13242 AAAAAAAAAA
1 AAAAAAAAAA
13252 CCTGGAGCGG
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.04
Consensus pattern (1 bp):
A
Found at i:13221 original size:15 final size:15
Alignment explanation
Indices: 13201--13245 Score: 81
Period size: 15 Copynumber: 2.9 Consensus size: 15
13191 ACAAATAAAC
13201 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
13216 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
13231 AAAGGAAAAAAAAAA
1 AAA-GAAAAAAAAAA
13246 AAAAAACCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:13707 original size:31 final size:31
Alignment explanation
Indices: 13665--13725 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
13655 GGTTGGTCGA
* **
13665 CGAAAACTTCAAGGTTGGCCAAAATTTTCGC
1 CGAAAAATTCAAACTTGGCCAAAATTTTCGC
*
13696 CGAAAAATTCAAACTTGGCCAGAATTTTCG
1 CGAAAAATTCAAACTTGGCCAAAATTTTCG
13726 TCGGAATCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
CGAAAAATTCAAACTTGGCCAAAATTTTCGC
Found at i:13792 original size:25 final size:24
Alignment explanation
Indices: 13740--13790 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
13730 AATCTGGAAA
*
13740 TTTCCCAGAAATTTCCAGAAAAAT
1 TTTCCCAAAAATTTCCAGAAAAAT
*
13764 TTTCGCCAAAAATTTCTA-AAAAAT
1 TTTC-CCAAAAATTTCCAGAAAAAT
13788 TTT
1 TTT
13791 TCTCACTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAGAAAAAT
Found at i:14183 original size:17 final size:18
Alignment explanation
Indices: 14161--14194 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14151 TAGATAAGTA
*
14161 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
14178 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
14195 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:14243 original size:16 final size:16
Alignment explanation
Indices: 14224--14328 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
14214 TATTAGTAAT
14224 AATACATAAATAATAA
1 AATACATAAATAATAA
*
14240 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
14258 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
14275 AATATATACAT-ATATT
1 AATACATAAATAATA-A
14291 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
14304 AATA-ATAAATAATAC
1 AATACATAAATAATAA
14319 AATACATAAA
1 AATACATAAA
14329 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:14523 original size:1 final size:1
Alignment explanation
Indices: 14519--14591 Score: 83
Period size: 1 Copynumber: 73.0 Consensus size: 1
14509 CATTTTTTGG
* * * * * * *
14519 TTTTTTTTTTTTGTTTTTTTGTTTTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14584 TTTTTTTT
1 TTTTTTTT
14592 ACCAAAGCTC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:14524 original size:8 final size:7
Alignment explanation
Indices: 14511--14589 Score: 83
Period size: 7 Copynumber: 10.9 Consensus size: 7
14501 CAACTCAACA
14511 TTTTTTGG
1 TTTTTT-G
14519 TTTTTT-
1 TTTTTTG
14525 TTTTTTG
1 TTTTTTG
14532 TTTTTT-
1 TTTTTTG
14538 TGTTTTTG
1 T-TTTTTG
14546 TTTTTTTG
1 -TTTTTTG
14554 TTTTTTG
1 TTTTTTG
14561 TTTTTTTG
1 -TTTTTTG
14569 TTTTTTTTG
1 --TTTTTTG
14578 TTTTTT-
1 TTTTTTG
14584 TTTTTT
1 TTTTTT
14590 TTACCAAAGC
Statistics
Matches: 65, Mismatches: 0, Indels: 14
0.82 0.00 0.18
Matches are distributed among these distances:
6 13 0.20
7 24 0.37
8 19 0.29
9 9 0.14
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (7 bp):
TTTTTTG
Found at i:14537 original size:15 final size:15
Alignment explanation
Indices: 14519--14591 Score: 103
Period size: 15 Copynumber: 4.8 Consensus size: 15
14509 CATTTTTTGG
14519 TTTTTTTTTTTTG-T
1 TTTTTTTTTTTTGTT
*
14533 TTTTTTGTTTTTGTT
1 TTTTTTTTTTTTGTT
*
14548 TTTTTGTTTTTTGTTT
1 TTTTTTTTTTTTG-TT
14564 TTTTGTTTTTTTTGTT
1 TTTT-TTTTTTTTGTT
14580 TTTTTTTTTTTT
1 TTTTTTTTTTTT
14592 ACCAAAGCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
14 12 0.23
15 20 0.38
16 12 0.23
17 8 0.15
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTTTGTT
Found at i:14590 original size:14 final size:14
Alignment explanation
Indices: 14511--14590 Score: 106
Period size: 14 Copynumber: 5.4 Consensus size: 14
14501 CAACTCAACA
*
14511 TTTTTTGGTTTTTT
1 TTTTTTGTTTTTTT
14525 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
*
14539 GTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
14553 GTTTTTTGTTTTTTTGTT
1 -TTTTTTG--TTTTT-TT
14571 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
14585 TTTTTT
1 TTTTTT
14591 TACCAAAGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
14 34 0.58
15 11 0.19
17 12 0.20
18 2 0.03
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Found at i:14667 original size:42 final size:41
Alignment explanation
Indices: 14598--15779 Score: 1651
Period size: 42 Copynumber: 29.0 Consensus size: 41
14588 TTTTACCAAA
* *
14598 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
14640 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
14681 GCTCCTCTAAACAGAGG-CAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
14721 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
14763 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
14805 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
14847 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
14889 GCTCCTCTAAACAGAGG-CAACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
* *
14928 GCTCCTTTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
* *
14968 GCTCCTCTAAATAGAGG-CAACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
15007 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
15048 GCTCCTCTAAACAGAGG-CAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
*
15088 GCTCCTCTAAACAGAGATACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAG-GACCACGACTTTGGAAAAGTAAATT
* *
15130 ACTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
15170 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
15212 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
15254 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
15296 GCTCCTCTAAACAGAGG-CAACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
*
15335 GCTCCTCTAAACAGAGG-CAACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
15374 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
15415 GCTCCTCTAAACAGAGGA-AACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
15455 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
* *
15497 GCTCCTCTAAATAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
*
15537 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
15579 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
* *
15621 GCTCTTCTAAACAGAGG-CAACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
*
15660 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATT
*
15700 GCTCCTCTAAACAGAGGTACCGCGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
*
15741 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAAT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAAT
15780 ACTCCTAGAC
Statistics
Matches: 1056, Mismatches: 40, Indels: 90
0.89 0.03 0.08
Matches are distributed among these distances:
39 203 0.19
40 246 0.23
41 150 0.14
42 457 0.43
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATT
Found at i:15331 original size:367 final size:365
Alignment explanation
Indices: 14598--15757 Score: 2004
Period size: 367 Copynumber: 3.2 Consensus size: 365
14588 TTTTACCAAA
* *
14598 GCTCCTCTAAACAGAGGC-ACCATGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCAACGA--AC--TTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
*
14662 CGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCT
62 CGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCT
*
14727 CTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTT
127 CTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTT
14791 TGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
190 T-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
14856 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
254 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
*
14921 GTAAATTGCTCCTTTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
319 GTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
14968 GCTCCTCTAAATAGAGGCAACGAACTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
15033 TTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAA
66 TTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAA
** *
15098 ACAGAGATACCACGACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCAACGAACTTTGAAAA
131 ACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAA
15163 GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAG
196 GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAG
*
15228 GTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTA
261 GTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGG-AAAGTA
*
15292 AATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATT
322 AATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
15335 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
*
15400 TTTGGAAAATAAATTGCTCCTCTAAACAGAGGAAACGAACTTGGAAAAGTAAATTGCTCCTCTAA
66 TTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAA
*
15465 ACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAA
131 ACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAA
*
15530 GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAG
196 GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAG
*
15595 GTACCACGACTTTGGAAAAGTAAATTGCTCTTCTAAACAGAGGCAACGAACTTGGAAAGTAAATT
261 GTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATT
15660 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
326 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
* * * *
15700 GCTCCTCTAAACAGAGGTACCGCGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG
1 GCTCCTCTAAACAGAGGCAACG-AAC-TTGGAAAGTAAATTGCTCCTCTAAACAGAGG
15758 CAACGAACTT
Statistics
Matches: 755, Mismatches: 25, Indels: 23
0.94 0.03 0.03
Matches are distributed among these distances:
364 35 0.05
365 158 0.21
366 11 0.01
367 495 0.66
368 34 0.05
369 2 0.00
370 17 0.02
371 3 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (365 bp):
GCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
TTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAA
ACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAA
GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAG
GTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAATT
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:15355 original size:407 final size:406
Alignment explanation
Indices: 14598--15779 Score: 1842
Period size: 407 Copynumber: 2.9 Consensus size: 406
14588 TTTTACCAAA
* * *
14598 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
14663 GACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCC
63 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCC
14726 TCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
128 TCTAAACAGAGGCA-CACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
14791 TGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
191 TGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
14856 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
255 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
* *
14921 GTAAATTGCTCCTTTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGG-
320 GTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGA
*
14985 CAACGAAC-TTGGAAAGTAAATT
385 CAACG-ACTTTGGAAAATAAATT
15007 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
* * *
15071 AC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGATACCACG-ACTTTGGAAAAGTAAATTACTC
64 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAG--GCAACGAACTTTGGAAAAGTAAATTGCTC
*
15134 CTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
127 CTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
15198 TGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
191 TGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTA
15263 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
255 AACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
*
15328 GTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATTGCTCCTCTAAACAGAGGT
320 GTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-
*
15392 ACCACGACTTTGGAAAATAAATT
384 ACAACGACTTTGGAAAATAAATT
*
15415 GCTCCTCTAAACAGAGGA-AACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
15478 GACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCC
63 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCC
15542 TCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
128 TCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
* *
15607 TGGAAAAGTAAATTGCTCTTCTAAACAGAGG-CAACGAAC-TTGG-AAAGTAAATTGCTCCTCTA
191 TGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTA
* * * *
15669 AACAGAGG--CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCGCGACTTTGG
255 AACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-AAC-TTGG
*
15731 AAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
317 AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
15780 ACTCCTAGAC
Statistics
Matches: 722, Mismatches: 28, Indels: 48
0.90 0.04 0.06
Matches are distributed among these distances:
404 36 0.05
405 7 0.01
406 113 0.16
407 314 0.43
408 75 0.10
409 177 0.25
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (406 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCT
AAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAA
AAGTAAATTGCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGA
GGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAGTAAAT
TGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGACAACGA
CTTTGGAAAATAAATT
Found at i:17048 original size:22 final size:21
Alignment explanation
Indices: 17023--17097 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 21
17013 CTTTTTCTCA
17023 TTTTCTCATTTTTTCCTTCTTT
1 TTTTCTCATTTTTT-CTTCTTT
17045 TTTTCTCATTTTTTC--CTTT
1 TTTTCTCATTTTTTCTTCTTT
*
17064 TTTTCT--TTTTTT-TTTTTT
1 TTTTCTCATTTTTTCTTCTTT
17082 TTTTCATCATTTTTTC
1 TTTTC-TCATTTTTTC
17098 ATCCATTGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 11 0.24
21 7 0.15
22 14 0.30
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCATTTTTTCTTCTTT
Found at i:17050 original size:30 final size:29
Alignment explanation
Indices: 17014--17097 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
17004 TTTGAATCTC
17014 TTTTTCTCATTTTCTCATTTTTTCCTTCTT
1 TTTTTCTCATTTTCTCATTTTTTCCTT-TT
* * *
17044 TTTTTCTCATTTTTTCCTTTTTTTCTTTT
1 TTTTTCTCATTTTCTCATTTTTTCCTTTT
* **
17073 TTTTTTTTTTTTTCATCATTTTTTC
1 TTTTTCTCATTTTC-TCATTTTTTC
17098 ATCCATTGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 12 0.27
30 32 0.73
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTTCTCATTTTCTCATTTTTTCCTTTT
Found at i:17074 original size:8 final size:8
Alignment explanation
Indices: 17039--17082 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
17029 CATTTTTTCC
17039 TTCTTTTT
1 TTCTTTTT
17047 TTCTCATTTT
1 TTCT--TTTT
17057 TTCCTTTTT
1 TT-CTTTTT
17066 TTCTTTTT
1 TTCTTTTT
17074 TT-TTTTT
1 TTCTTTTT
17081 TT
1 TT
17083 TTTCATCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 7 0.21
8 12 0.36
9 6 0.18
10 6 0.18
11 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTCTTTTT
Found at i:17437 original size:11 final size:10
Alignment explanation
Indices: 17416--17447 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
17406 ATGTGTGGCA
*
17416 TTTTTTCTTT
1 TTTTTTATTT
17426 TTTTTTATTT
1 TTTTTTATTT
17436 TTTTTTATTT
1 TTTTTTATTT
17446 TT
1 TT
17448 GAGACCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:21001 original size:60 final size:59
Alignment explanation
Indices: 20908--21241 Score: 428
Period size: 60 Copynumber: 5.5 Consensus size: 59
20898 TTTTTTGTAG
20908 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTT--ATTTTCTAA
*
20968 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGAAATTT-TGATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTAT--TTTCTAA
*
21028 GGAAAATTGATACTTTCAACTTTTCCCC-AAAAATACTTTTTTTGGAAATTTTATTTCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATA--TTTTTTGGAAA-TTTATTT-TCTAA
21090 GGAAAATTGATACTTTCAACTTTT--CC-AAAAATACTTTTTTTGGAAATTTATTTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATA--TTTTTTGGAAATTTATTTTCTAA
* *
21148 GGAAAATTGATACTTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAGATTTATTTTTCTTTTA
1 GGAAAATTGATAC-TTTCAACTTTTCCCCAAAAA-ATATTTTTTGGAA-ATTTA-TTTTC---TA
21213 A
59 A
21214 GGAAAATTGATACTTTCAACTTATTCCC
1 GGAAAATTGATACTTTCAACTT-TTCCC
21242 TAAATATTTT
Statistics
Matches: 249, Mismatches: 6, Indels: 32
0.87 0.02 0.11
Matches are distributed among these distances:
57 1 0.00
58 17 0.07
59 29 0.12
60 101 0.41
61 23 0.09
62 40 0.16
63 8 0.03
65 9 0.04
66 21 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTCTAA
Found at i:21118 original size:120 final size:118
Alignment explanation
Indices: 20908--21266 Score: 485
Period size: 120 Copynumber: 3.0 Consensus size: 118
20898 TTTTTTGTAG
** *
20908 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTGGAAATTTCGA-TT-TTCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTGGAAATTTATATTTCTTTAAGG
20970 AAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGAAATTTTGATTTCTAA
65 AAAATTGATACTTTCAACTTTT--CC-AAAAATATTTTTTTGAAATTTT-ATTTCTAA
21028 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTT-TATTTCTTTAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATATTTCTTTAAGG
21092 AAAATTGATACTTTCAACTTTTCCAAAAATACTTTTTTTGGAAA-TTTATTTTCTAA
65 AAAATTGATACTTTCAACTTTTCCAAAAATA-TTTTTTT-GAAATTTTA-TTTCTAA
* *
21148 GGAAAATTGATACTTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAGATTTATTTTTCTTTTA
1 GGAAAATTGATAC-TTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAA-ATTTATATTTC-TTTA
** *
21213 AGGAAAATTGATACTTTCAACTTATTCCCTAAATATTTTTTTGAATTTTTATTT
62 AGGAAAATTGATACTTTCAACTT-TTCCAAAAATATTTTTTTGAAATTTTATTT
21267 TTGTTAAGAA
Statistics
Matches: 218, Mismatches: 8, Indels: 23
0.88 0.03 0.09
Matches are distributed among these distances:
119 8 0.04
120 66 0.30
121 53 0.24
122 33 0.15
123 11 0.05
124 38 0.17
125 9 0.04
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATATTTCTTTAAGGA
AAATTGATACTTTCAACTTTTCCAAAAATATTTTTTTGAAATTTTATTTCTAA
Found at i:21387 original size:17 final size:16
Alignment explanation
Indices: 21365--21400 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
21355 ATAAACAAAG
21365 AAAAAAAGAGAAAGAAA
1 AAAAAAAGAGAAA-AAA
*
21382 AAAAAAAGGGAAAAAA
1 AAAAAAAGAGAAAAAA
21398 AAA
1 AAA
21401 CCTGGAGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAA
Found at i:21880 original size:31 final size:32
Alignment explanation
Indices: 21839--21901 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
21829 GTTGGTCGTC
** *
21839 GAAAACTTCAAGGTTGGCCAGAATTTTCGCCG
1 GAAAACTTCAAACTTCGCCAGAATTTTCGCCG
*
21871 GAAAA-TTCAAACTTCGCCGGAATTTTCGCCG
1 GAAAACTTCAAACTTCGCCAGAATTTTCGCCG
21902 AAATCTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (32 bp):
GAAAACTTCAAACTTCGCCAGAATTTTCGCCG
Found at i:23160 original size:17 final size:17
Alignment explanation
Indices: 23140--23179 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23130 TATTATGAAC
*
23140 TAAAAATTATTATTTTA
1 TAAAAATTATTATTATA
**
23157 TAAATTTTATTATTATA
1 TAAAAATTATTATTATA
23174 TAAAAA
1 TAAAAA
23180 ATTAATTAAC
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAAATTATTATTATA
Found at i:24028 original size:18 final size:18
Alignment explanation
Indices: 24005--24040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23995 TATATGATAG
*
24005 ATTTTTAAAAATTTATTA
1 ATTTTTAAAAATATATTA
*
24023 ATTTTTATAAATATATTA
1 ATTTTTAAAAATATATTA
24041 TTATAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAAATATATTA
Found at i:24769 original size:13 final size:13
Alignment explanation
Indices: 24751--24775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24741 AGTAATTTTA
24751 AAAAATTAAAATT
1 AAAAATTAAAATT
24764 AAAAATTAAAAT
1 AAAAATTAAAAT
24776 CGATAAATTG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:25103 original size:21 final size:19
Alignment explanation
Indices: 25078--25116 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
25068 TAAAATTAAT
25078 AATTTGATTATAAATTTTTAG
1 AATTT-ATT-TAAATTTTTAG
*
25099 AATTTATTTATATTTTTA
1 AATTTATTTAAATTTTTA
25117 AAATCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTTATTTAAATTTTTAG
Found at i:26381 original size:17 final size:17
Alignment explanation
Indices: 26361--26404 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
26351 TATTATGAAT
*
26361 TAAAAATTATTATTTTA
1 TAAAAATTATTATTATA
**
26378 TAAATTTTATTATTATA
1 TAAAAATTATTATTATA
26395 TAAATAATTA
1 TAAA-AATTA
26405 ACAACTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAAAATTATTATTATA
Found at i:26583 original size:19 final size:20
Alignment explanation
Indices: 26561--26606 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
26551 ATTTGACATA
26561 AAATAATTTATGAATTTT-T
1 AAATAATTTATGAATTTTAT
* *
26580 AAATTATTTATTAATTTTAT
1 AAATAATTTATGAATTTTAT
26600 AAA-AATT
1 AAATAATT
26607 AAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATAATTTATGAATTTTAT
Found at i:32630 original size:357 final size:355
Alignment explanation
Indices: 32169--33768 Score: 1945
Period size: 357 Copynumber: 4.5 Consensus size: 355
32159 AGGTGGTTTT
* * *
32169 ATAATAAAAGATGCCTTTAATAATCCAAAAAAAATTTTTTTAGGGAAATTATTAAATGCATT-TT
1 ATAATAAAAGATGCCTTTAATAATCC-GAAAAAA-TTTTTTAGGGAAATTATTAAAGGCGTTGTT
* * * **
32233 TATTTGAAATCGCATTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGTGTCTATCTT
64 T-TCTGAAACCGCCTTCAGTAATTA-ATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTT
* * * * *
32298 CAATATACGCCTTTAATAATAGTGTTACAATTTGTGTGGTGGTATATA-AAAGGCATTTTACAGT
127 AAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATATATAGAAA-GCATTTTACAAT
* * **
32362 AGAAGACACCTTTAATAATTCCCAAAATATTTAGTGGGAAAATTTTGAAGGCGTCTGTTATTAAC
191 AAAAGACGCCTTTAATAATTCCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAAC
* * *
32427 AAATGCTTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGTGC-TTCTTCTAATAAATG
256 AAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCGCATT-TTCTAATAAACG
32491 CCTTCCATTACCATCGTGGTATATTGAAGGCATGTC
320 CCTTCCATTACCATCGTGGTATATTGAAGGCATGTC
** * * *
32527 ATAATAAAAGACACCTTTAATAATCCGAGAAAATTTTTGTAGGGAAATTATTGAAGGCATTGTTT
1 ATAATAAAAGATGCCTTTAATAATCCGAAAAAATTTTT-TAGGGAAATTATTAAAGGCGTTGTTT
* * * * * **
32592 TTTGTAACCGCCTTCAGTAATTAACTACAAATTGTGATAGGAATTATTAAAGGCATCTTTCTTGG
65 TCTGAAACCGCCTTCAGTAATTAA-TACAAACTGTGATAGAAATTATTAAAGGCATCTATCTTAA
* * * * * *
32657 ATATATGCCTTCAATAACAGTGTTAGAATTTGTGTGGCAATATATAGAAAGCATTTTACAGTAGA
129 ATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATATATAGAAAGCATTTTACAATAAA
* * *
32722 AGACGCCTTTAATAATTTCTAAAATATTTAGTGAAAAAATTTTGAAGGTGTCTGTTATTAACAAA
194 AGACGCCTTTAATAATTCCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAA
* * *
32787 TGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTTTCTAATAAACGCCTT
259 TGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCGCATTTTCTAATAAACGCCTT
** * *
32852 CCATTACCATCGTGGTATATTGAAGGTGTTTT
324 CCATTACCATCGTGGTATATTGAAGGCATGTC
* *
32884 ATAAT-AAAGATGCCTTTAATAATCCGAAAAATTTTTTTTAGGGAAATTATTAAAGGTGTTGTTT
1 ATAATAAAAGATGCCTTTAATAATCCGAAAAA-ATTTTTTAGGGAAATTATTAAAGGCGTTGTTT
** * * * *
32948 TCCAAAACTGCCTTCAGTAATTATATGCAAACTATGATA-AGAATTGTTAAAGGCATCTATCTTA
65 TCTGAAACCGCCTTCAGTAATTA-ATACAAACTGTGATAGA-AATTATTAAAGGCATCTATCTTA
* * *
33012 AATATACGCCTTCAATAATAGCGTTACAATTTGTGTGGTGATATATAGAAGGCATTTTACAATAA
128 AATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATATATAGAAAGCATTTTACAATAA
* * * * *
33077 AAGATGCCTTTAATAATTCTCAAACTATTTAGTGAGAAAATTTTGAAGGCGTTTGTTATTAACAA
193 AAGACGCCTTTAATAATTCCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAA
* *
33142 ATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACATTTTCTAATAAACGCCT
258 ATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCGCATTTTCTAATAAACGCCT
* * * * *
33207 TCCATTACCATCATAGTATATTGAAGACATTTT
323 TCCATTACCATCGTGGTATATTGAAGGCATGTC
* ** * * **
33240 ATAATAAAAAATGCCTTTAATAATTCAAAAAAAAGTTTTTAAGGAAATTATTAAAGATGTTGTTT
1 ATAATAAAAGATGCCTTTAATAA-TCCGAAAAAATTTTTTAGGGAAATTATTAAAGGCGTTGTTT
* * * *
33305 TCTAAAATCGCCTTCAGTAATTGTATACAAACTGTGATAGGAATTATTAAAGGCATCTATCTTAA
65 TCTGAAACCGCCTTCAGTAATT-AATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTTAA
* * * * * *
33370 ATATACACCTTCAATAATGGTATTACAATTTGTGTGACGGTATATAGAAAGTATTTTACAATAAA
129 ATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATATATAGAAAGCATTTTACAATAAA
* * * * * *
33435 ATATGCTTTTAATAATTTCCAAAATATTTAGTGGAAAAATTTTGAAGGCGTCTATTATTAACAAA
194 AGACGCCTTTAATAATTCCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAA
** * *
33500 CACCTTCAGTAAT-GATTACTAAGTTTAAAGGTATATTAAAAGCGCATTTTCTAATAAACACCTT
259 TGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCGCATTTTCTAATAAACGCCTT
* **
33564 TCATTACCATCGTGGTATATTGAAGGTGTGTC
324 CCATTACCATCGTGGTATATTGAAGGCATGTC
* * *
33596 ATAATAAAAGATGCCTTTAATAATCTGAGAAAAGTTTTTTAGAGAAATTATTGAAA-GCGTTGTT
1 ATAATAAAAGATGCCTTTAATAATCCGA-AAAAATTTTTTAGGGAAATTATT-AAAGGCGTTGTT
* * * * ** * *
33660 TTCTGCAACTGCCTTCAGTAATTAACTACAAACTGTGATAGAAATTACTAAATGTGTCTTTCTTG
64 TTCTGAAACCGCCTTCAGTAATTAA-TACAAACTGTGATAGAAATTATTAAAGGCATCTATCTTA
* * * * * *
33725 GATAAATGCTTTCAATAATAGTGTTAGAATTTGTGTGGCAATAT
128 AATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATAT
33769 TTTCAAGGTG
Statistics
Matches: 1067, Mismatches: 160, Indels: 32
0.85 0.13 0.03
Matches are distributed among these distances:
355 4 0.00
356 510 0.48
357 514 0.48
358 39 0.04
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (355 bp):
ATAATAAAAGATGCCTTTAATAATCCGAAAAAATTTTTTAGGGAAATTATTAAAGGCGTTGTTTT
CTGAAACCGCCTTCAGTAATTAATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTTAAAT
ATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGATATATAGAAAGCATTTTACAATAAAAG
ACGCCTTTAATAATTCCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAATG
CCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCGCATTTTCTAATAAACGCCTTCC
ATTACCATCGTGGTATATTGAAGGCATGTC
Found at i:33608 original size:713 final size:712
Alignment explanation
Indices: 32153--33762 Score: 2093
Period size: 713 Copynumber: 2.3 Consensus size: 712
32143 TATAACAAAT
*
32153 TATTGAAGGTGGTTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAAATTTTTTTAGGGAAAT
1 TATTGAAGGT-GTTTTATAATAAAAGATGCCTTTAATAATCC--GAAAAATTTTTTTAGGGAAAT
* * ** * * *
32218 TATTAAATGCATTTTTATTTGAAATC-GCATTCAGTAATTATATACAAACTGTGATAGAAATTAT
63 TATTAAA-GCGTTGTT-TTCCAAAACTGCCTTCAGTAATTATATACAAACTATGATAGAAATTAT
** * * * *
32282 TAAAGGTGTCTATCTTCAATATACGCCTTTAATAATAGTGTTACAATTTGTGTGGTGGTATATAA
126 TAAAGGCATCTATCTTAAATATACGCCTTCAATAATAGCGTTACAATTTGTGTGGTGATATATAA
* * *
32347 AAGGCATTTTACAGTAGAAGACACCTTTAATAATTCCCAAAATATTTAGTGGGAAAATTTTGAAG
191 AAGGCATTTTACAATAAAAGACACCTTTAATAATTCCCAAAATATTTAGTGAGAAAATTTTGAAG
* **
32412 GCGTCTGTTATTAACAAATGCTTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGTGCT
256 GCGTCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCACT
* * * * *
32477 TCTTCTAATAAATGCCTTCCATTACCATCGTGGTATATTGAAGGCATGTCATAATAAAAGACACC
321 TCTTCTAATAAACGCCTTCCATTACCATCATAGTATATTGAAGACATGTCATAATAAAAAACACC
** * * * * * * **
32542 TTTAATAATCCGAGAAAATTTTTGTAGGGAAATTATTGAAGGCATTGTTTTTTGTAACCGCCTTC
386 TTTAATAATCAAAAAAAAGTTTTGTAAGGAAATTATTAAAGACATTGTTTTCTAAAACCGCCTTC
* * ** **
32607 AGTAATTAACTACAAATTGTGATAGGAATTATTAAAGGCATCTTTCTTGGATATATGCCTTCAAT
451 AGTAATTAACTACAAACTGTGATAGGAATTATTAAAGGCATCTATCTTAAATATACACCTTCAAT
* * * * *
32672 AACAGTGTTAGAATTTGTGTGGCAATATATAGAAAGCATTTTACAGTAGAAGACGCCTTTAATAA
516 AACAGTATTACAATTTGTGTGACAATATATAGAAAGCATTTTACAATAAAAGACGCCTTTAATAA
* * * **
32737 TTTCTAAAATATTTAGTGAAAAAATTTTGAAGGTGTCTGTTATTAACAAATGCCTTCAGTAATGG
581 TTTCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATGG
* * * * *
32802 ATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTTTCTAATAAACGCCTTCCATTACCATCGTGG
646 ATTACTAAGTTTAAAGGTATATTAAAAGCGCATTTTCTAATAAACACCTTCCATTACCATCGTGG
32867 TA
711 TA
32869 TATTGAAGGTGTTTTATAAT-AAAGATGCCTTTAATAATCCGAAAAATTTTTTTTAGGGAAATTA
1 TATTGAAGGTGTTTTATAATAAAAGATGCCTTTAATAATCCGAAAAA-TTTTTTTAGGGAAATTA
* * *
32933 TTAAAGGTGTTGTTTTCCAAAACTGCCTTCAGTAATTATATGCAAACTATGATA-AGAATTGTTA
65 TTAAA-GCGTTGTTTTCCAAAACTGCCTTCAGTAATTATATACAAACTATGATAGA-AATTATTA
*
32997 AAGGCATCTATCTTAAATATACGCCTTCAATAATAGCGTTACAATTTGTGTGGTGATATATAGAA
128 AAGGCATCTATCTTAAATATACGCCTTCAATAATAGCGTTACAATTTGTGTGGTGATATATAAAA
** * *
33062 GGCATTTTACAATAAAAGATGCCTTTAATAATTCTCAAACTATTTAGTGAGAAAATTTTGAAGGC
193 GGCATTTTACAATAAAAGACACCTTTAATAATTCCCAAAATATTTAGTGAGAAAATTTTGAAGGC
* *
33127 GTTTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACATT
258 GTCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCAC-TT
* * **
33192 -TTCTAATAAACGCCTTCCATTACCATCATAGTATATTGAAGACATTTTATAATAAAAAATGCCT
322 CTTCTAATAAACGCCTTCCATTACCATCATAGTATATTGAAGACATGTCATAATAAAAAACACCT
** *
33256 TTAATAATTCAAAAAAAAGTTTT-TAAGGAAATTATTAAAGATGTTGTTTTCTAAAATCGCCTTC
387 TTAATAA-TCAAAAAAAAGTTTTGTAAGGAAATTATTAAAGACATTGTTTTCTAAAACCGCCTTC
*
33320 AGTAATTGTA-TACAAACTGTGATAGGAATTATTAAAGGCATCTATCTTAAATATACACCTTCAA
451 AGTAATT-AACTACAAACTGTGATAGGAATTATTAAAGGCATCTATCTTAAATATACACCTTCAA
** ** * * * *
33384 TAATGGTATTACAATTTGTGTGACGGTATATAGAAAGTATTTTACAATAAAATATGCTTTTAATA
515 TAACAGTATTACAATTTGTGTGACAATATATAGAAAGCATTTTACAATAAAAGACGCCTTTAATA
*
33449 ATTTCCAAAATATTTAGTGGAAAAATTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAAT-
580 ATTTCCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATG
*
33513 GATTACTAAGTTTAAAGGTATATTAAAAGCGCATTTTCTAATAAACACCTTTCATTACCATCGTG
645 GATTACTAAGTTTAAAGGTATATTAAAAGCGCATTTTCTAATAAACACCTTCCATTACCATCGTG
33578 GTA
710 GTA
* * * * *
33581 TATTGAAGGTGTGTCATAATAAAAGATGCCTTTAATAATCTGAGAAAAGTTTTTTAGAGAAATTA
1 TATTGAAGGTGTTTTATAATAAAAGATGCCTTTAATAATCCGA-AAAATTTTTTTAGGGAAATTA
*** * *
33646 TTGAAAGCGTTGTTTTCTGCAACTGCCTTCAGTAATTA-ACTACAAACTGTGATAGAAATTACTA
65 TT-AAAGCGTTGTTTTCCAAAACTGCCTTCAGTAATTATA-TACAAACTATGATAGAAATTATTA
* ** * ** * * * * *
33710 AATGTGTCTTTCTTGGATAAATGCTTTCAATAATAGTGTTAGAATTTGTGTGG
128 AAGGCATCTATCTTAAATATACGCCTTCAATAATAGCGTTACAATTTGTGTGG
33763 CAATATTTTC
Statistics
Matches: 774, Mismatches: 109, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
712 93 0.12
713 619 0.80
714 42 0.05
715 10 0.01
716 10 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (712 bp):
TATTGAAGGTGTTTTATAATAAAAGATGCCTTTAATAATCCGAAAAATTTTTTTAGGGAAATTAT
TAAAGCGTTGTTTTCCAAAACTGCCTTCAGTAATTATATACAAACTATGATAGAAATTATTAAAG
GCATCTATCTTAAATATACGCCTTCAATAATAGCGTTACAATTTGTGTGGTGATATATAAAAGGC
ATTTTACAATAAAAGACACCTTTAATAATTCCCAAAATATTTAGTGAGAAAATTTTGAAGGCGTC
TGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAAGCACTTCTTC
TAATAAACGCCTTCCATTACCATCATAGTATATTGAAGACATGTCATAATAAAAAACACCTTTAA
TAATCAAAAAAAAGTTTTGTAAGGAAATTATTAAAGACATTGTTTTCTAAAACCGCCTTCAGTAA
TTAACTACAAACTGTGATAGGAATTATTAAAGGCATCTATCTTAAATATACACCTTCAATAACAG
TATTACAATTTGTGTGACAATATATAGAAAGCATTTTACAATAAAAGACGCCTTTAATAATTTCC
AAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATGGATTAC
TAAGTTTAAAGGTATATTAAAAGCGCATTTTCTAATAAACACCTTCCATTACCATCGTGGTA
Found at i:37188 original size:19 final size:19
Alignment explanation
Indices: 37164--37206 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
37154 TATGTTCTTT
37164 TCATTATGACTCAATTGAA
1 TCATTATGACTCAATTGAA
37183 TCATTATGACTCAATTGAA
1 TCATTATGACTCAATTGAA
37202 TCATT
1 TCATT
37207 TTGCACGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (19 bp):
TCATTATGACTCAATTGAA
Done.