Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3090
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: 84052
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:3726 original size:30 final size:29
Alignment explanation
Indices: 3686--3807 Score: 95
Period size: 30 Copynumber: 4.1 Consensus size: 29
3676 ATTAAAAATA
*
3686 AAATTGCATTTTGAACCCTAAACTTTTCCT
1 AAATTTCATTTTGAACCCTAAAC-TTTCCT
* *
3716 AAATTTCATTTTGACACCTTAAAACTTTCTTT
1 AAATTTCATTTTGA-ACCCT-AAACTTTC-CT
* * * *
3748 AAATTTCAACTTAGACCCCTAAACTTTCAT
1 AAATTTC-ATTTTGAACCCTAAACTTTCCT
* * *
3778 TAATTTCATTTT-AATCCTAAA-TTTTCT
1 AAATTTCATTTTGAACCCTAAACTTTCCT
3805 AAA
1 AAA
3808 AATTACATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
27 6 0.08
28 7 0.10
29 3 0.04
30 20 0.28
31 16 0.22
32 15 0.21
33 5 0.07
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (29 bp):
AAATTTCATTTTGAACCCTAAACTTTCCT
Found at i:4067 original size:22 final size:22
Alignment explanation
Indices: 4010--4067 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
4000 CACCACCACG
*
4010 AAAAAAATAAAA-AAAACTTGC
1 AAAAAAAGAAAAGAAAACTTGC
*
4031 -AAAAAAGAGAGAGAAAAGCTT-C
1 AAAAAAAGA-AAAGAAAA-CTTGC
4053 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
4068 GAGAGAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 7 0.23
21 2 0.07
22 10 0.33
23 11 0.37
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAAAAGAAAACTTGC
Found at i:4100 original size:19 final size:20
Alignment explanation
Indices: 4065--4103 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4055 AAAAAGAAAA
4065 GAAGAGAGAAAGAAAAGAGG
1 GAAGAGAGAAAGAAAAGAGG
4085 GAAG-GAGAACAG-AAAGAGG
1 GAAGAGAGAA-AGAAAAGAGG
4104 AGTCGGCGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.56, C:0.03, G:0.41, T:0.00
Consensus pattern (20 bp):
GAAGAGAGAAAGAAAAGAGG
Found at i:4201 original size:21 final size:22
Alignment explanation
Indices: 4177--4226 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
4167 GCTAGACTTT
*
4177 GAAAAGAAGAAAG-AGGAAGAA
1 GAAAAGAAGAAAGAAGAAAGAA
*
4198 GAAAAG-AGGAAGAAGAAAGAA
1 GAAAAGAAGAAAGAAGAAAGAA
*
4219 AAAAAGAA
1 GAAAAGAA
4227 AAATCCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 18 0.75
22 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
GAAAAGAAGAAAGAAGAAAGAA
Found at i:4205 original size:14 final size:14
Alignment explanation
Indices: 4180--4215 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4170 AGACTTTGAA
4180 AAGAAG-AAAGAGG
1 AAGAAGAAAAGAGG
4193 AAGAAGAAAAGAGG
1 AAGAAGAAAAGAGG
4207 AAGAAGAAA
1 AAGAAGAAA
4216 GAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAGAGG
Found at i:4927 original size:18 final size:18
Alignment explanation
Indices: 4904--4944 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4894 GGCTTTTATT
4904 AAAAATTCTCCATGTTTC
1 AAAAATTCTCCATGTTTC
* *
4922 AAAAA-TCTTCGTGTTTC
1 AAAAATTCTCCATGTTTC
4939 AAAAAT
1 AAAAAT
4945 CTAGTGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (18 bp):
AAAAATTCTCCATGTTTC
Found at i:4936 original size:17 final size:16
Alignment explanation
Indices: 4916--4961 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
4906 AAATTCTCCA
*
4916 TGTTTCAAAAATCTTCG
1 TGTTTCAAAAATC-TAG
4933 TGTTTCAAAAATCTAG
1 TGTTTCAAAAATCTAG
4949 TGGTTTCAAAAAT
1 T-GTTTCAAAAAT
4962 TTTAATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
TGTTTCAAAAATCTAG
Found at i:5130 original size:17 final size:16
Alignment explanation
Indices: 5110--5270 Score: 76
Period size: 18 Copynumber: 9.3 Consensus size: 16
5100 ACCAAATTTG
5110 TTCGTGTTTCAAAAAT
1 TTCGTGTTTCAAAAAT
5126 CTTCGTGTTTTCAAAAATT
1 -TTCGTG-TTTCAAAAA-T
*
5145 TTCG-GTGTTCAAAGATT
1 TTCGTGT-TTCAAA-AAT
* *
5162 TTTGTGTTTTCAAAAAAC
1 TTCGTG-TTTC-AAAAAT
** * *
5180 ACCGGTGATTTTAAAAAAAA
1 TTC-GTG--TTT-CAAAAAT
*
5200 ATCGT-TTTCTAAAAAT
1 TTCGTGTTTC-AAAAAT
5216 TTCCCGTGTTTCAAAAATT
1 TT--CGTGTTTCAAAAA-T
*
5235 TTCGTGTTT-TAAAAT
1 TTCGTGTTTCAAAAAT
*
5250 TTCGTGTTTTAAAAAT
1 TTCGTGTTTCAAAAAT
5266 TTCGT
1 TTCGT
5271 ATTTAAATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 33
0.70 0.09 0.20
Matches are distributed among these distances:
15 10 0.09
16 24 0.21
17 24 0.21
18 27 0.24
19 17 0.15
20 11 0.10
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (16 bp):
TTCGTGTTTCAAAAAT
Found at i:5254 original size:15 final size:16
Alignment explanation
Indices: 5209--5270 Score: 81
Period size: 16 Copynumber: 3.8 Consensus size: 16
5199 AATCGTTTTC
5209 TAAAAATTTCCCGTGTTT
1 TAAAAATTT--CGTGTTT
*
5227 CAAAAATTTTCGTGTTT
1 TAAAAA-TTTCGTGTTT
5244 T-AAAATTTCGTGTTT
1 TAAAAATTTCGTGTTT
5259 TAAAAATTTCGT
1 TAAAAATTTCGT
5271 ATTTAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
15 11 0.28
16 14 0.35
17 7 0.17
18 5 0.12
19 3 0.08
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (16 bp):
TAAAAATTTCGTGTTT
Found at i:5275 original size:15 final size:15
Alignment explanation
Indices: 5209--5277 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 15
5199 AATCGTTTTC
5209 TAAAAATTTCCCGTGTT
1 TAAAAATTT--CGTGTT
5226 TCAAAAATTTTCGTGTT
1 T-AAAAA-TTTCGTGTT
*
5243 TTAAAATTTCGTGTTT
1 TAAAAATTTCGTG-TT
*
5259 TAAAAATTTCGTATT
1 TAAAAATTTCGTGTT
5274 TAAA
1 TAAA
5278 TTTTTTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 13 0.28
16 17 0.37
17 8 0.17
18 5 0.11
19 3 0.07
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (15 bp):
TAAAAATTTCGTGTT
Found at i:5984 original size:42 final size:41
Alignment explanation
Indices: 5926--6010 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 41
5916 TTGTTTTCGC
5926 AAAAAAAAATCATGCA-TTTG-CATCGTGTTGTATAATATTCT
1 AAAAAAAAATCATGCATTTTGCCATCGTGTTGTAT-ATA-TCT
5967 AAAAAAAAATCAATGCATTTTGCCATCGTGTTGTATATATCT
1 AAAAAAAAATC-ATGCATTTTGCCATCGTGTTGTATATATCT
6009 AA
1 AA
6011 CTTGTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
41 11 0.27
42 10 0.24
43 7 0.17
44 13 0.32
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (41 bp):
AAAAAAAAATCATGCATTTTGCCATCGTGTTGTATATATCT
Found at i:17474 original size:18 final size:17
Alignment explanation
Indices: 17443--17476 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17433 GATGGATGCA
17443 TGTTAGAGTAGTTAGTT
1 TGTTAGAGTAGTTAGTT
*
17460 TGTTATGAGTTGTTAGT
1 TGTTA-GAGTAGTTAGT
17477 CTGGTGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (17 bp):
TGTTAGAGTAGTTAGTT
Found at i:24718 original size:5 final size:5
Alignment explanation
Indices: 24708--24735 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24698 GAATATTGTG
24708 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
24736 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:25141 original size:29 final size:29
Alignment explanation
Indices: 25069--25144 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
25059 TGACACGAAT
* *
25069 TCTCAATGAACAAGCTCTTCATCGCAAAC
1 TCTCAACGAACAAGTTCTTCATCGCAAAC
*
25098 TCTCAACGAACAAGTTCTTCATTGCAAAC
1 TCTCAACGAACAAGTTCTTCATCGCAAAC
25127 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAGTTCT
25145 CACTTCTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (29 bp):
TCTCAACGAACAAGTTCTTCATCGCAAAC
Found at i:32149 original size:5 final size:5
Alignment explanation
Indices: 32139--32171 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
32129 CCAATTTGTA
32139 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
32172 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:32526 original size:42 final size:42
Alignment explanation
Indices: 32479--32562 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
32469 TTAATTCTAA
32479 CAATTATTTTGAATTCAATTAACTGATTAAAGAAAATACCAT
1 CAATTATTTTGAATTCAATTAACTGATTAAAGAAAATACCAT
32521 CAATTATTTTGAATTCAATTAACTGATTAAAGAAAATACCAT
1 CAATTATTTTGAATTCAATTAACTGATTAAAGAAAATACCAT
32563 ACTCTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (42 bp):
CAATTATTTTGAATTCAATTAACTGATTAAAGAAAATACCAT
Found at i:33154 original size:20 final size:19
Alignment explanation
Indices: 33125--33162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
33115 AAATGAGATT
*
33125 AAAATTTAAAAATTCAAAAA
1 AAAATATAAAAATT-AAAAA
33145 AAAATATAAAAATTAAAA
1 AAAATATAAAAATTAAAA
33163 TCCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATAAAAATTAAAAA
Found at i:33734 original size:12 final size:12
Alignment explanation
Indices: 33717--33749 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
33707 TTCCCTGTAA
33717 AATAGTAAAAAT
1 AATAGTAAAAAT
33729 AATAGTAAAAAT
1 AATAGTAAAAAT
33741 AATAGTAAA
1 AATAGTAAA
33750 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:34663 original size:10 final size:10
Alignment explanation
Indices: 34644--34693 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
34634 TGAAATTCTA
34644 AAAGATAAAT
1 AAAGATAAAT
34654 ACAA-ATAAAT
1 A-AAGATAAAT
*
34664 AAAGATAATT
1 AAAGATAAAT
34674 AAAGATAAAT
1 AAAGATAAAT
34684 GAAA-ATAAAT
1 -AAAGATAAAT
34694 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:37986 original size:70 final size:70
Alignment explanation
Indices: 37870--38076 Score: 315
Period size: 70 Copynumber: 3.0 Consensus size: 70
37860 TTTTACGAAT
* *
37870 ATAGTGATTGGTAGTAATTCCACATATGTTGTGGACTACTGTAGCTCTATGTGAGCATCGAGGTA
1 ATAGTGATTGGTAGTAATTCCACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
*
37935 TAAGT
66 TAAGC
* * *
37940 GTGGTGATTGGTAGTAATTCTACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
1 ATAGTGATTGGTAGTAATTCCACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
*
38005 TTAGC
66 TAAGC
* * * *
38010 ATAGTGATTGGTAGTAATTCCGCATATGTTGTGGACTACCGTAGCTTTGGGTGAGCATCGAAGTA
1 ATAGTGATTGGTAGTAATTCCACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
38075 TA
66 TA
38077 TGATTTTCCC
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 122 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (70 bp):
ATAGTGATTGGTAGTAATTCCACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
TAAGC
Found at i:39379 original size:26 final size:26
Alignment explanation
Indices: 39350--39405 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
39340 TGATACAAAT
*
39350 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
39376 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39402 TGAT
1 TGAT
39406 GGACATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43343 original size:23 final size:23
Alignment explanation
Indices: 43299--43347 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
43289 AATAGAATTT
*
43299 TAATGACAACATTATAAAAAACGA
1 TAATCACAACATTATAAAAAAC-A
43323 TAATCACAA-ATTA-AAAGAAACA
1 TAATCACAACATTATAAA-AAACA
43345 TAA
1 TAA
43348 AATATGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (23 bp):
TAATCACAACATTATAAAAAACA
Found at i:44315 original size:47 final size:46
Alignment explanation
Indices: 44261--44448 Score: 214
Period size: 47 Copynumber: 4.0 Consensus size: 46
44251 TGTATGTGAT
* * *
44261 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTG
*
44307 CTTCCGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG
1 -TTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTG
* * **
44354 TTTCTGTGTAAGACCATATTTGGGATATGGCATCAGTGTGATATGTG
1 -TTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTG
* * * * * *
44401 ATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGGTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCAG--TGTGATATGTG
44449 ACTATGTGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 27 0.22
47 85 0.69
48 11 0.09
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (46 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTG
Found at i:44383 original size:94 final size:94
Alignment explanation
Indices: 44248--44467 Score: 237
Period size: 94 Copynumber: 2.3 Consensus size: 94
44238 CCATGACAAC
* * * * *
44248 ATGTG-TATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTTCC
1 ATGTGATATGTG-TTTCTGTGTAAGACCATAGCTGGGATATGGCATCAGTGTGATATGAG-ATCC
*
44312 GTATAAGACCATATCTGGGATATGGCATCAG
64 GTATAAGACCATAGCTGGGATATGGCATCAG
** *
44343 -TGTGATATGTGTTTCTGTGTAAGACCATATTTGGGATATGGCATCAGTGTGATATGTGATCCGT
1 ATGTGATATGTGTTTCTGTGTAAGACCATAGCTGGGATATGGCATCAGTGTGATATGAGATCCGT
* * * * *
44407 GTAAGACCATGGCTGGGCTATGGCTTCGG
66 ATAAGACCATAGCTGGGATATGGCATCAG
** * *
44436 TATGTGATATGTGACTATGTGCAAGACCATAG
1 -ATGTGATATGTGTTTCTGTGTAAGACCATAG
44468 TTTTACTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
93 28 0.27
94 44 0.43
95 31 0.30
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (94 bp):
ATGTGATATGTGTTTCTGTGTAAGACCATAGCTGGGATATGGCATCAGTGTGATATGAGATCCGT
ATAAGACCATAGCTGGGATATGGCATCAG
Found at i:44478 original size:95 final size:94
Alignment explanation
Indices: 44269--44481 Score: 216
Period size: 95 Copynumber: 2.3 Consensus size: 94
44259 ATTTCCGTAT
** * * * *
44269 AAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGATA
1 AAGACCATATTTGGACTATGGCATCAGTGTGATATGAGCATCCGTATAAGACCATAGCTGGGATA
** * *
44334 TGGCATCAGTGTGATATGTGTTTCTGTGT
66 TGGCATCAGTGTGATATGTGACTATGTGC
* * * *
44363 AAGACCATATTTGGGA-TATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCT
1 AAGACCATATTT-GGACTATGGCATCAGTGTGATATGAGCATCCGTATAAGACCATAGCTGGGAT
* *
44426 ATGGCTTCGGTATGTGATATGTGACTATGTGC
65 ATGGCATCAG--TGTGATATGTGACTATGTGC
*
44458 AAGACCATAGTTT-TACTATGGCAT
1 AAGACCATA-TTTGGACTATGGCAT
44482 TGTGATAATG
Statistics
Matches: 97, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
93 28 0.29
94 31 0.32
95 35 0.36
96 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (94 bp):
AAGACCATATTTGGACTATGGCATCAGTGTGATATGAGCATCCGTATAAGACCATAGCTGGGATA
TGGCATCAGTGTGATATGTGACTATGTGC
Found at i:51281 original size:26 final size:26
Alignment explanation
Indices: 51243--51326 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
51233 CATGAAATTC
* *
51243 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
51269 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
51295 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
51321 TTATCA
1 TTATCA
51327 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:51946 original size:3 final size:3
Alignment explanation
Indices: 51938--52028 Score: 101
Period size: 3 Copynumber: 30.0 Consensus size: 3
51928 AACTTTAGGT
** * * *
51938 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GCA ATT GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
51986 ATA GTA ATA GTA ATA GTAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
52029 GTAGGAGGAG
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
3 69 0.97
4 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56741 original size:3 final size:3
Alignment explanation
Indices: 56733--56782 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
56723 AGAATTGAAG
56733 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56781 AT
1 AT
56783 TAGAGAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:59690 original size:27 final size:27
Alignment explanation
Indices: 59653--59767 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
59643 AGCATGGCTG
* *
59653 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
59679 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
59707 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
59734 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
59761 CCAGAAC
1 CCAGAAC
59768 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 5 0.06
27 59 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:61422 original size:26 final size:26
Alignment explanation
Indices: 61386--61495 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
61376 CATGAAATTC
*
61386 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
61412 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
61438 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
61464 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
61490 TTATCA
1 TTATCA
61496 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61897 original size:13 final size:13
Alignment explanation
Indices: 61879--61903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61869 AAGTTTTGGA
61879 TTAGTTTAAAATC
1 TTAGTTTAAAATC
61892 TTAGTTTAAAAT
1 TTAGTTTAAAAT
61904 TAATGTTTGG
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTAGTTTAAAATC
Found at i:62975 original size:3 final size:3
Alignment explanation
Indices: 62967--62992 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62957 TGACACGTAG
62967 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
62993 CTTTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:63589 original size:3 final size:3
Alignment explanation
Indices: 63557--63612 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
63547 ATGGTTCACG
* * * *
63557 TTA TTG TTA TTG TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63605 TTA TTA TT
1 TTA TTA TT
63613 TCTTTTCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:63646 original size:16 final size:16
Alignment explanation
Indices: 63625--63655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63615 TTTTCATGTT
*
63625 TTTCTTTTTGTTTTCA
1 TTTCTTTTTATTTTCA
63641 TTTCTTTTTATTTTC
1 TTTCTTTTTATTTTC
63656 TTTATTTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTCTTTTTATTTTCA
Found at i:63932 original size:55 final size:55
Alignment explanation
Indices: 63848--63960 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
63838 ACTCTTTCTT
63848 CAACCCCTGTTTTACTCCATTGAATTGTCGCTAGTAGAATATATGTTATTCCCTG
1 CAACCCCTGTTTTACTCCATTGAATTGTCGCTAGTAGAATATATGTTATTCCCTG
63903 CAACCCCTGTTTTACTCCATTGAATTGTCGCTAGTAGAATATATGTTATTCCCTG
1 CAACCCCTGTTTTACTCCATTGAATTGTCGCTAGTAGAATATATGTTATTCCCTG
63958 CAA
1 CAA
63961 TTAAACATGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (55 bp):
CAACCCCTGTTTTACTCCATTGAATTGTCGCTAGTAGAATATATGTTATTCCCTG
Found at i:66165 original size:24 final size:25
Alignment explanation
Indices: 66113--66166 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
66103 GAATATATAC
* *
66113 ATAAGAAATATATAACTAATGGCAT
1 ATAAAAAATATATAACTAATGACAT
66138 -TAAAAAATATAT-ACATAAT-ACAT
1 ATAAAAAATATATAAC-TAATGACAT
66161 ATAAAA
1 ATAAAA
66167 TACCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATAACTAATGACAT
Found at i:66691 original size:26 final size:25
Alignment explanation
Indices: 66652--66736 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 25
66642 GGTTTCTTGG
66652 TTTTTTTTTTTTTTGGGTTAGGTTT
1 TTTTTTTTTTTTTTGGGTTAGGTTT
66677 TTTCTTTTTTTTTTTGGGTTAGGTTT
1 TTT-TTTTTTTTTTTGGGTTAGGTTT
66703 TTTTCTTTTTTTTTTGGGTTAGGTTT
1 TTTT-TTTTTTTTTTGGGTTAGGTTT
66729 TTTTTTTT
1 TTTTTTTT
66737 GGGAGGGCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
25 8 0.14
26 50 0.86
ACGTcount: A:0.04, C:0.02, G:0.18, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTTTTTTGGGTTAGGTTT
Found at i:67470 original size:91 final size:91
Alignment explanation
Indices: 67364--67722 Score: 247
Period size: 91 Copynumber: 4.0 Consensus size: 91
67354 AATAGACAAT
* *
67364 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATAA
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAGGCTCAACTCACCTCTCGCAATACAA
67428 GTCGATTTTTTTGAAAGGCAAAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
* * * * * *
67455 AAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCATCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
* * ******
67520 TTGATTTTTTT--TA--TTTTTTTTG
66 TCGATTTTTTTGAAAGGCAAAAATTG
* * * * * **
67542 -ACAACAGAAATTGAAATTACCTCA--GCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
* *** * *
67604 TTGAATTTTTTTGAAAAATATAAATTT
66 TCG-ATTTTTTTGAAAGGCAAAAATTG
* * * * * * * **
67631 AAAAGCAGAAATTGAAATTAACTCA--ACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGACC-TAAGGCTCAACTCACCTCTCGCAATACAA
* *
67693 GTTGA-TTTTTTGAAAGACAAAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
67719 AAAA
1 AAAA
67723 TACCTTAGCA
Statistics
Matches: 218, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
84 36 0.17
85 8 0.04
86 20 0.09
87 4 0.02
88 21 0.10
89 8 0.04
90 57 0.26
91 64 0.29
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
TCGATTTTTTTGAAAGGCAAAAATTG
Found at i:67681 original size:90 final size:88
Alignment explanation
Indices: 67401--67707 Score: 266
Period size: 90 Copynumber: 3.5 Consensus size: 88
67391 GCGTGAGCCA
* * *** * * **
67401 AGGCTCAACTCACCTCTCGCAATATAAGTCGATTTTTTTGAAAGGCAAAAATTGAAAAATAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATATAAATTTAAAAGCAGAAA
* * ** *
67466 TTGAAAATACCTCGGCGTGTGACCTG
65 TTGAAATTAACTCAACATGT--CCTG
* * ** *** *
67492 AGGCTCAACTCATCTCTCGCAATACGAGTTGATTTTTT---TTAT-TTTTTTTGACAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTT-AAAAGCAGAAA
* *
67552 TTGAAATTACCTCAGCATGTCCTG
65 TTGAAATTAACTCAACATGTCCTG
67576 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAAATATAAATTTAAAAGCAGAA
*
67641 ATTGAAATTAACTCAACGTG-CCTTG
64 ATTGAAATTAACTCAACATGTCC-TG
* *
67666 AGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
67708 GACAAAAATT
Statistics
Matches: 176, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
84 33 0.19
85 1 0.01
86 30 0.17
87 3 0.02
88 10 0.06
89 8 0.05
90 63 0.36
91 28 0.16
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTTAAAAGCAGAAAT
TGAAATTAACTCAACATGTCCTG
Found at i:67760 original size:74 final size:73
Alignment explanation
Indices: 67639--67853 Score: 259
Period size: 74 Copynumber: 2.9 Consensus size: 73
67629 TTAAAAGCAG
* * * * * * *
67639 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
67704 GAAAGACAA
66 GAAA-ACAA
* **
67713 AAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* *
67778 TTGACAACAG
64 TTGAAAACAA
* * *
67788 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
67853 T
65 T
67854 TTGAAAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
74 55 0.46
75 55 0.46
76 10 0.08
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAA
Found at i:67821 original size:75 final size:76
Alignment explanation
Indices: 67632--67873 Score: 296
Period size: 75 Copynumber: 3.2 Consensus size: 76
67622 TATAAATTTA
* * * *
67632 AAAG-CAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
67695 TGA--TTTTTTG
65 TGATTTTTTTTG
* * * * * **
67705 AAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
67770 GATTTTTTTTG
66 GATTTTTTTTG
*
67781 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
67845 GAATTTTTTTTG
66 G-ATTTTTTTTG
* * *
67857 AAAAATATAAATTGAAA
1 AAAGACAGAAATTGAAA
67874 AGCAGAAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
73 4 0.03
74 49 0.35
75 56 0.40
76 21 0.15
77 11 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (76 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTG
Found at i:67931 original size:166 final size:165
Alignment explanation
Indices: 67713--68019 Score: 445
Period size: 166 Copynumber: 1.9 Consensus size: 165
67703 TGAAAGACAA
* * * ** *
67713 AAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTT
* * * *
67778 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
65 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
67842 GTTGAATTTTTTTTGAAAAATATAAATTGAAAAGCAG
130 GTTG-ATTTTTTTTGAAAAATATAAATTGAAAAGCAG
* *
67879 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* * **
67944 TGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTTAGGCTCAACTCATTTCTCGCAATATGAG
66 TGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
68009 TTGATTTTTTT
131 TTGATTTTTTT
68020 GACAACAGAA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
165 18 0.15
166 106 0.85
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (165 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTTGAAAAATATAAATTGAAAAGCAG
Found at i:67934 original size:240 final size:240
Alignment explanation
Indices: 67532--68066 Score: 966
Period size: 240 Copynumber: 2.2 Consensus size: 240
67522 GATTTTTTTT
*
67532 ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
67597 ATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGC
66 ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAACGTGC
* * *
67662 CTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATAC
131 CTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAC
*
67726 CTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
196 CTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
67771 ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
67836 ATATGAGTTGAATTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG
66 ATATGAGTTGAA-TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAACGTG
67901 CCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATA
130 CCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATA
*
67966 CCTCAGCATGTCTTTAGGCTCAACTCATTTCTCGCAATATGAGTTG
195 CCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
68012 A-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
68067 TTTTGAACAG
Statistics
Matches: 285, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
239 76 0.27
240 137 0.48
241 72 0.25
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (240 bp):
ATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAACGTGC
CTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAC
CTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
Found at i:68059 original size:74 final size:75
Alignment explanation
Indices: 67872--68069 Score: 292
Period size: 75 Copynumber: 2.7 Consensus size: 75
67862 TATAAATTGA
* * **
67872 AAAG-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
67936 GATTTTTTTG
66 GATTTTTTTG
* * * * *
67946 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTTAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
68011 GATTTTTTTG
66 GATTTTTTTG
*
68021 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
68070 TGAACAGAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 46 0.42
75 63 0.58
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
GATTTTTTTG
Found at i:68089 original size:49 final size:49
Alignment explanation
Indices: 68023--68118 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
68013 TTTTTTTGAC
*
68023 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
68072 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
68119 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:68181 original size:72 final size:73
Alignment explanation
Indices: 68075--68306 Score: 290
Period size: 72 Copynumber: 3.1 Consensus size: 73
68065 CATTTTGAAC
68075 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
68140 TG-AAAAT
66 TGAAAAAT
68147 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---
*
68212 TTTTTTGAAAAAC
63 --TTTTGAAAAAT
* * * * ** *
68225 AGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGCTG-A
1 AGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
68288 TTTTGAAAAAGT
63 TTTTGAAAAA-T
68300 AGAAATT
1 AGAAATT
68307 AAAAGGTTCA
Statistics
Matches: 141, Mismatches: 9, Indels: 17
0.84 0.05 0.10
Matches are distributed among these distances:
72 62 0.44
74 10 0.07
75 7 0.05
77 5 0.04
78 22 0.16
79 1 0.01
80 33 0.23
81 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (73 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAAT
Found at i:68217 original size:198 final size:198
Alignment explanation
Indices: 67876--68245 Score: 566
Period size: 198 Copynumber: 1.9 Consensus size: 198
67866 AATTGAAAAG
*
67876 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TA
* *
67941 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTTAGGCTCAACTCATTTCTCGCAATAT
65 TTTTGAAAGACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
68006 GAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
130 GAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
68070 TGAA
195 TGAA
* ** *
68074 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATAT
* * * *
68138 TTTGAAA-ATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTGAAAGACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
68202 AGTTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGC
131 AGTTG-A--TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGC
68246 ATGTGAACCG
Statistics
Matches: 155, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
195 56 0.36
196 9 0.06
198 66 0.43
199 24 0.15
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (198 bp):
CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATAT
TTTGAAAGACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTT
GAA
Found at i:68360 original size:54 final size:55
Alignment explanation
Indices: 68260--68365 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
68250 GAACCGAGGC
* *
68260 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
68314 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
68366 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:68372 original size:13 final size:13
Alignment explanation
Indices: 68345--68378 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
68335 GAGTTGATTC
*
68345 TTGAACAACATAAA
1 TTGAA-AACAGAAA
68359 TTGAAAACAGAAA
1 TTGAAAACAGAAA
68372 TTGAAAA
1 TTGAAAA
68379 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:68426 original size:140 final size:140
Alignment explanation
Indices: 68220--68842 Score: 1106
Period size: 140 Copynumber: 4.4 Consensus size: 140
68210 TTTTTTTTGA
68220 AAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68284 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
63 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
68349 ACAACATAAATTG
128 ACAACGTAAATTG
*
68362 AAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*
68427 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACA
66 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
68492 ACGTAAATTG
131 ACGTAAATTG
*
68502 AAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
68567 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
66 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
68632 ACGTAAATTG
131 ACGTAAATTG
** *
68642 AAAACAGAAATTGAAAATACCTCAGCACG-CCTGAGGCTCAACTCACCTCTCGTAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
* * *
68706 ATTTTGAAAAAGTAAAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAGCA
66 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
68771 ACGTAAATTG
131 ACGTAAATTG
*
68781 AAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68843 TTGAAATTAA
Statistics
Matches: 462, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
139 135 0.29
140 302 0.65
142 25 0.05
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
ACGTAAATTG
Found at i:68500 original size:54 final size:54
Alignment explanation
Indices: 68400--68505 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
68390 GACCTGAGGC
*
68400 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
68454 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
68506 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:68640 original size:54 final size:54
Alignment explanation
Indices: 68540--68645 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
68530 GACCTGAGGC
*
68540 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
68594 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
68646 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:68779 original size:54 final size:54
Alignment explanation
Indices: 68679--68784 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
68669 CGCCTGAGGC
*
68679 TCAACTCACCTCTCGTAATATGAGCTGATTTTGAAAAAGTAAAAATT-AAAAGGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGT-AAAATTGAAAAGGT
* * *
68733 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAGCAACGT-AAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGCTGATT-TTGA-AAAAGTAAAATTGAAAA
68785 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 33 0.73
55 8 0.18
56 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:68816 original size:279 final size:280
Alignment explanation
Indices: 68220--68842 Score: 1106
Period size: 279 Copynumber: 2.2 Consensus size: 280
68210 TTTTTTTTGA
68220 AAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC--GT-AACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68284 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
63 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
***
68349 ACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTC
128 ACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCACGACCTGAGGCTCAACTCACCTCTC
* *
68414 GCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGT
193 GCAATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
68479 TGATTCTTGAACAACGTAAATTG
258 TGATTCTTGAACAACGTAAATTG
* *
68502 AAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
68567 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
66 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
* *
68632 ACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCACG-CCTGAGGCTCAACTCACCTCTCGTA
131 ACATAAATTGAAAACAGAAATTGAAAATACCTCAGCACGACCTGAGGCTCAACTCACCTCTCGCA
*
68696 ATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGA
196 ATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
*
68761 TTCTTGAGCAACGTAAATTG
261 TTCTTGAACAACGTAAATTG
68781 AAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68843 TTGAAATTAA
Statistics
Matches: 327, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
279 168 0.51
280 134 0.41
282 25 0.08
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (280 bp):
AAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
ACATAAATTGAAAACAGAAATTGAAAATACCTCAGCACGACCTGAGGCTCAACTCACCTCTCGCA
ATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
TTCTTGAACAACGTAAATTG
Found at i:68868 original size:72 final size:71
Alignment explanation
Indices: 68775--68939 Score: 242
Period size: 72 Copynumber: 2.3 Consensus size: 71
68765 TGAGCAACGT
* * *
68775 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTGAAAACAAAAATTGAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTAGCAATAT
68840 GAGTTG
66 GAGTTG
* **
68846 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTGAAA-ACAAAAATTGAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTAGCAATA
68911 TGAGTTG
65 TGAGTTG
**
68918 ATTTTGAAAACAAAAATT-AAAA
1 AAATTGAAAACAAAAATTGAAAA
68940 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
70 4 0.05
71 17 0.20
72 63 0.75
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTGAAAACAAAAATTGAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:72430 original size:18 final size:17
Alignment explanation
Indices: 72409--72927 Score: 193
Period size: 17 Copynumber: 29.9 Consensus size: 17
72399 ATGAAAGTTT
72409 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
72427 -TTTTT-AAACACGGAAA
1 TTTTTTAAAACAC-GAAA
*
72443 --TTTCAGAAACACGAAA
1 TTTTTTA-AAACACGAAA
* * *
72459 ATTTTTAAAACATGACA
1 TTTTTTAAAACACGAAA
*
72476 TTTTTTGAAACACGAGAA
1 TTTTTTAAAACACGA-AA
* *
72494 -TTTTTAAAACAAGACA
1 TTTTTTAAAACACGAAA
* *
72510 TTTTTTGAAACAC-AATTT
1 TTTTTTAAAACACGAA--A
72528 TTTTCTTAAAA-A--AAA
1 TTTT-TTAAAACACGAAA
*
72543 ---TTTAAAATACGAGAA
1 TTTTTTAAAACACGA-AA
72558 -TTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
72574 ATTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
72591 ATTTTTGAAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
72609 TTTTTTAGAAA-ACGATTT
1 TTTTTTA-AAACACGA-AA
* *
72627 TTTTTTAAAATCACCGGAG
1 TTTTTTAAAA-CA-CGAAA
*
72646 TTTTTGAAAACACGAAA
1 TTTTTTAAAACACGAAA
* * *
72663 ATCTTTGAAACACCGAAA
1 TTTTTTAAAACA-CGAAA
*
72681 TTTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
*
72699 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACG-AAA
*
72716 TTTTTTGAAAATACGAAGA
1 TTTTTT-AAAACACGAA-A
*
72735 TTTTTT-TAACACGGAAA
1 TTTTTTAAAACAC-GAAA
* * *
72752 -TTTTTGAAACACGGTCAT
1 TTTTTTAAAACAC-G-AAA
72770 TTTTTTGAAAACACGAAAA
1 TTTTTT-AAAACACG-AAA
* * * *
72789 TTTTTGAAAGGCATG-AT
1 TTTTTTAAA-ACACGAAA
* *
72806 TTTTTTGAAAATATGGAAA
1 TTTTTT-AAAACA-CGAAA
*
72825 -TTTATAAAACACGAAAA
1 TTTTTTAAAACACG-AAA
*
72842 TTTTTTCTGAAAACAAGAAA
1 -TTTTT-T-AAAACACGAAA
* * *
72862 -ATTTTGAAACACTAGAA
1 TTTTTTAAAACACGA-AA
*
72879 -TTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
* *
72896 -TTTTTGAAACATGAGAA
1 TTTTTTAAAACACGA-AA
72913 -TTTTTAAAAGCACGA
1 TTTTTTAAAA-CACGA
72928 GGATTATTGA
Statistics
Matches: 377, Mismatches: 77, Indels: 94
0.69 0.14 0.17
Matches are distributed among these distances:
11 6 0.02
12 2 0.01
14 1 0.00
15 5 0.01
16 29 0.08
17 189 0.50
18 76 0.20
19 50 0.13
20 12 0.03
21 7 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:72430 original size:21 final size:21
Alignment explanation
Indices: 72387--72431 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
72377 AGCACGAAAA
*
72387 TTTTTTTAAAAAATGAAAGTT
1 TTTTTTTAAAAAACGAAAGTT
*
72408 TTTTTTTAAAACACGAGAA-TT
1 TTTTTTTAAAAAACGA-AAGTT
72429 TTT
1 TTT
72432 AAACACGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTTTTTAAAAAACGAAAGTT
Found at i:72594 original size:34 final size:34
Alignment explanation
Indices: 72410--72927 Score: 243
Period size: 34 Copynumber: 14.9 Consensus size: 34
72400 TGAAAGTTTT
* *
72410 TTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* * * *
72443 -TTTCAGAAACACGAAAATTTTTAAAACATGACAT
1 TTTTTA-AAACACGAAAATTTTTAAAACACGAAAA
* * * * *
72477 TTTTTGAAACACGAGAATTTTTAAAACAAGACAT
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* ** *
72511 TTTTTGAAACAC-AATTTTTTTCTTAAA-A--AAAA
1 TTTTTAAAACACGAA-AATTTT-TAAAACACGAAAA
* *
72543 --TTTAAAATACGAGAATTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* *
72575 TTTTTAAAACACGAAAATTTTTGAAACACGGAAAT
1 TTTTTAAAACACGAAAATTTTTAAAACAC-GAAAA
*** * *
72610 TTTTTAGAAA-ACGATTTTTTTTTAAAATCACCG-GAG
1 TTTTTA-AAACACGA-AAATTTTTAAAA-CA-CGAAAA
* *
72646 TTTTTGAAAACACGAAAATCTTTGAAACACCG-AAA
1 TTTTT-AAAACACGAAAATTTTTAAAACA-CGAAAA
* *
72681 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAA
1 TTTTT-AAAACACGAAAATTTTTAAAACACGAAAA
* * ** *
72716 TTTTTTGAAAATACGAAGATTTTTTTAACACGGAAA
1 -TTTTT-AAAACACGAAAATTTTTAAAACACGAAAA
* * **
72752 TTTTTGAAACACGGTCATTTTTTTGAAAACACGAAAA
1 TTTTTAAAACAC-G-AAAATTTTT-AAAACACGAAAA
* * ** * * *
72789 TTTTTGAAAGGCATG-ATTTTTTTGAAAATATGGAAA
1 TTTTT-AAA-ACACGAAAATTTTT-AAAACACGAAAA
* *
72825 TTTATAAAACACGAAAATTTTTTCTGAAAACAAGAAAA
1 TTTTTAAAACACGAAAA--TTTT-T-AAAACACGAAAA
* * * * *
72863 -TTTTGAAACACTAGAATTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* * *
72896 TTTTTGAAACATGAGAATTTTTAAAAGCACGA
1 TTTTTAAAACACGAAAATTTTTAAAA-CACGA
72928 GGATTATTGA
Statistics
Matches: 377, Mismatches: 77, Indels: 60
0.73 0.15 0.12
Matches are distributed among these distances:
29 4 0.01
30 13 0.03
31 1 0.00
32 10 0.03
33 26 0.07
34 106 0.28
35 76 0.20
36 86 0.23
37 38 0.10
38 15 0.04
39 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
Found at i:72808 original size:36 final size:36
Alignment explanation
Indices: 72558--72906 Score: 174
Period size: 36 Copynumber: 9.8 Consensus size: 36
72548 AATACGAGAA
* * **
72558 TTTTTAAAACACGAAAATTTTTAAAACACGA--AAA
1 TTTTTGAAACACGAAAATTTTTGAAACACGATGATT
* *
72592 TTTTTGAAACACGGAAATTTTTTAGAAA-ACGAT-TTT
1 TTTTTGAAACAC-GAAAATTTTT-GAAACACGATGATT
* * * **
72628 TTTTTAAAATCACCG-GAGTTTTTGAAAACACGA--AAA
1 TTTTTGAAA-CA-CGAAAATTTTTG-AAACACGATGATT
* *
72664 TCTTTGAAACACCG-AAATTTTTGAAAACACGAAGA--
1 TTTTTGAAACA-CGAAAATTTTTG-AAACACGATGATT
* *
72699 TTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATT
1 TTTTTGAAACACGAAAA-TTTTTG-AAACACGATGATT
* * *
72737 TTTTT--AACACGGAAATTTTTGAAACACGGTCATT
1 TTTTTGAAACACGAAAATTTTTGAAACACGATGATT
**
72771 TTTTTGAAAACACGAAAATTTTTGAAAGGC-ATGATT
1 TTTTTG-AAACACGAAAATTTTTGAAACACGATGATT
* * * * * **
72807 TTTTTGAAAATATGGAAATTTATAAAACACGAAAATT
1 TTTTTG-AAACACGAAAATTTTTGAAACACGATGATT
* *
72844 TTTTCTGAAAACAAGAAAA-TTTTGAAACACTA-GA--
1 TTTT-TG-AAACACGAAAATTTTTGAAACACGATGATT
* *
72878 ATTTTGAAAACACGAAGATTTTTGAAACA
1 TTTTTG-AAACACGAAAATTTTTGAAACA
72907 TGAGAATTTT
Statistics
Matches: 249, Mismatches: 47, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
33 12 0.05
34 40 0.16
35 54 0.22
36 81 0.33
37 45 0.18
38 17 0.07
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (36 bp):
TTTTTGAAACACGAAAATTTTTGAAACACGATGATT
Found at i:72880 original size:16 final size:16
Alignment explanation
Indices: 72861--72916 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
72851 AAAACAAGAA
72861 AATTTTGAAACACTAG
1 AATTTTGAAACACTAG
*
72877 AATTTTGAAAACACGAAG
1 AATTTTG-AAACAC-TAG
*
72895 ATTTTTGAAACA-TGAG
1 AATTTTGAAACACT-AG
72911 AATTTT
1 AATTTT
72917 TAAAAGCACG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 14 0.42
17 11 0.33
18 8 0.24
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
AATTTTGAAACACTAG
Found at i:73113 original size:17 final size:16
Alignment explanation
Indices: 73079--73129 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
73069 AAAATTATTT
73079 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
73095 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
73112 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
73130 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:73288 original size:11 final size:11
Alignment explanation
Indices: 73274--73311 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
73264 GTTTTTTTCT
73274 TTTTTTCCTTC
1 TTTTTTCCTTC
73285 TTTTTTCCTTC
1 TTTTTTCCTTC
*
73296 TCTTTTT-TTTC
1 T-TTTTTCCTTC
73307 TTTTT
1 TTTTT
73312 CTCTACTGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 4 0.16
11 16 0.64
12 5 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:73498 original size:15 final size:13
Alignment explanation
Indices: 73466--73504 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
73456 TTGGGGGGGC
73466 TTGTTTCTTTTTTT
1 TTGTTT-TTTTTTT
73480 TTGTTTTTGTTTTT
1 TTGTTTTT-TTTTT
73494 GTTGTTTTTTT
1 -TTGTTTTTTT
73505 CTTGGGCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (13 bp):
TTGTTTTTTTTTT
Found at i:73598 original size:10 final size:10
Alignment explanation
Indices: 73583--73611 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
73573 TTTTTTTTCT
73583 TTCTTCTTCC
1 TTCTTCTTCC
73593 TTCTTCTTCC
1 TTCTTCTTCC
73603 TTCTTCTTC
1 TTCTTCTTC
73612 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:73601 original size:13 final size:14
Alignment explanation
Indices: 73583--73614 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
73573 TTTTTTTTCT
73583 TTCTT-CTTCCTTC
1 TTCTTCCTTCCTTC
73596 TTCTTCCTT-CTTC
1 TTCTTCCTTCCTTC
73609 TTCTTC
1 TTCTTC
73615 AAAGTCTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCTTCCTTCCTTC
Found at i:74015 original size:29 final size:29
Alignment explanation
Indices: 73982--74098 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
73972 TGTAATTTTT
*
73982 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
74011 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
74041 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
74070 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
74099 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:74037 original size:30 final size:30
Alignment explanation
Indices: 73997--74098 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
73987 ATTTAGGATT
*
73997 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
74027 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
74057 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
74087 AAAATGCAATTT
1 AAAATGAAATTT
74099 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:74119 original size:14 final size:15
Alignment explanation
Indices: 74094--74128 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
74084 GTCAAAATGC
74094 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
74109 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
74123 AATTTT
1 AATTTT
74129 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:74550 original size:54 final size:55
Alignment explanation
Indices: 74370--74587 Score: 290
Period size: 54 Copynumber: 4.1 Consensus size: 55
74360 CACGTGAGCC
* *
74370 AAGGCTCAACTCA-CTTTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
* *
74424 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA
* * *
74476 AAGGCTCAACTCACATCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
74530 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
74585 AAG
1 AAG
74588 TAGAAATTGA
Statistics
Matches: 145, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
50 13 0.09
52 34 0.23
54 64 0.44
55 23 0.16
57 6 0.04
58 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:74555 original size:106 final size:105
Alignment explanation
Indices: 74370--74567 Score: 326
Period size: 106 Copynumber: 1.9 Consensus size: 105
74360 CACGTGAGCC
* *
74370 AAGGCTCAACTCACTTTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAACT
1 AAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAACT
74435 CACCTCTCGCAATATGAGTTGATTTTTTTGAGAAATAGAAA
65 CACCTCTCGCAATATGAGTTGATTTTTTTGAGAAATAGAAA
* *
74476 AAGGCTCAACTCACATCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
74540 TCACCTCTCGCAATATGAGTTGATTTTT
64 TCACCTCTCGCAATATGAGTTGATTTTT
74568 GAAAAACAGA
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
106 54 0.63
107 22 0.26
108 10 0.12
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (105 bp):
AAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTTGAGAAATAGAAA
Found at i:74585 original size:14 final size:14
Alignment explanation
Indices: 74566--74600 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
74556 GAGTTGATTT
74566 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
74580 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
74594 TTGAAAA
1 TTGAAAA
74601 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:74839 original size:84 final size:87
Alignment explanation
Indices: 74688--74934 Score: 281
Period size: 84 Copynumber: 2.8 Consensus size: 87
74678 AACAGAAATT
* * * * *
74688 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-AGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
74753 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
74775 TAAAGCAGAAATTGAAAATA-CTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCAGTAGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
74837 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
74863 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCA-GT-AGCCTGAGGCTCAACTCACCTCTTGCAATATGA
74927 GTTGATTT
64 GTTGATTT
74935 TTGAAAAACA
Statistics
Matches: 136, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
83 3 0.02
84 33 0.24
86 15 0.11
87 19 0.14
88 21 0.15
89 9 0.07
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCAGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:74880 original size:15 final size:16
Alignment explanation
Indices: 74847--74880 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
74837 TTGATTTTTG
* *
74847 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
74863 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
74879 AA
1 AA
74881 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:74911 original size:91 final size:88
Alignment explanation
Indices: 74688--74941 Score: 315
Period size: 91 Copynumber: 2.9 Consensus size: 88
74678 AACAGAAATT
* * *
74688 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
74753 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
74775 TAAAGCAGAAATTGAAAATA-CTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
74837 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
74863 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
74927 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
74942 ACAAAAATTA
Statistics
Matches: 143, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
83 3 0.02
84 33 0.23
86 15 0.10
87 19 0.13
88 21 0.15
89 6 0.04
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:75085 original size:123 final size:123
Alignment explanation
Indices: 74864--75182 Score: 548
Period size: 123 Copynumber: 2.6 Consensus size: 123
74854 TAGATTGAAA
* * * ** * *
74864 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
74929 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
74989 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
75054 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
75112 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
75177 ATTTTT
66 ATTTTT
75183 TTAAAAAATT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 162 0.88
125 23 0.12
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (123 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:75478 original size:122 final size:121
Alignment explanation
Indices: 75337--75562 Score: 303
Period size: 122 Copynumber: 1.9 Consensus size: 121
75327 GCGTGCCCCG
* * * * **
75337 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
** *
75400 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 G-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
75459 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
75524 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
75563 TTTTAAAAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
120 6 0.07
121 40 0.44
122 44 0.49
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (121 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:75523 original size:191 final size:192
Alignment explanation
Indices: 75022--75820 Score: 1531
Period size: 190 Copynumber: 4.2 Consensus size: 192
75012 GGCGTGCCCC
75022 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
75087 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
75152 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
75215 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
75280 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCT-GGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
75344 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
75405 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
75470 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
75534 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTT-AAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
75595 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
75660 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
75725 ACTCACTTCTCGCAATATGAGTTGATTTTTTT--AAAA-TTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
75784 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
75821 CCTTGGAAAG
Statistics
Matches: 601, Mismatches: 1, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
188 2 0.00
189 61 0.10
190 321 0.53
191 106 0.18
192 78 0.13
193 33 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:75673 original size:122 final size:122
Alignment explanation
Indices: 75527--75753 Score: 292
Period size: 122 Copynumber: 1.9 Consensus size: 122
75517 GGCGTGCCCG
* ** ***** * * *
75527 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAATACCTCAACGTGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAACTAAAAATACCTCAACGTGC
** *
75592 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * **
75649 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAACTAAAAATACCTCAACGTGC
75714 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
75754 TTTAAAATTA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
122 87 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAACTAAAAATACCTCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:83980 original size:20 final size:20
Alignment explanation
Indices: 83901--83981 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
83891 TAATGAAAAC
*
83901 TTTTTTTTAAGACACGAGAA
1 TTTTTTTTAAAACACGAGAA
* * *
83921 ----TTTTGAAGCACGAAAA
1 TTTTTTTTAAAACACGAGAA
* *
83937 TTTTTTTTAAAAAATGA-AA
1 TTTTTTTTAAAACACGAGAA
83956 GTTTTTTTTAAAACACGAGAA
1 -TTTTTTTTAAAACACGAGAA
83977 TTTTT
1 TTTTT
83982 AAACACGGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
16 12 0.27
19 2 0.04
20 29 0.64
21 2 0.04
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTTTTTTAAAACACGAGAA
Found at i:84026 original size:15 final size:15
Alignment explanation
Indices: 83961--84052 Score: 85
Period size: 16 Copynumber: 5.6 Consensus size: 15
83951 TGAAAGTTTT
83961 TTTTAAAACACGAGAA
1 TTTTAAAACACGA-AA
*
83977 TTTTTAAACACGGAAA
1 TTTTAAAACAC-GAAA
*
83993 TTTCAAAACACGAAAA
1 TTTTAAAACACG-AAA
*
84009 TTTTAAAACACGACATT
1 TTTTAAAACACGA-A-A
84026 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGA-AA
84043 TTTTTAAAAC
1 -TTTTAAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
15 2 0.03
16 36 0.57
17 11 0.17
18 14 0.22
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (15 bp):
TTTTAAAACACGAAA
Done.