Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_pilon, 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: 1633377
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:9051 original size:2 final size:2
Alignment explanation
Indices: 9046--9079 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9036 ACACACACAC
9046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9080 TTTAATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9448 original size:4 final size:4
Alignment explanation
Indices: 9439--9463 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9429 TTAAAGGTAG
9439 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
9464 TAAAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:10053 original size:29 final size:28
Alignment explanation
Indices: 9990--10055 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
9980 GTTTAATTAC
*
9990 TATTATTTTAATTTTTCCATTTAAAATGT
1 TATTATTTTAATTTTTCCA-TTAAAATAT
* *
10019 TGTTATTTTAATTTTTGC-TTAAAATTAT
1 TATTATTTTAATTTTTCCATTAAAA-TAT
10047 TAATTATTT
1 T-ATTATTT
10056 ACATTTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 3 0.10
29 22 0.71
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (28 bp):
TATTATTTTAATTTTTCCATTAAAATAT
Found at i:10314 original size:20 final size:19
Alignment explanation
Indices: 10278--10316 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
10268 AATTTTAGGT
10278 TTTAATTTAAAACTTTTTA
1 TTTAATTTAAAACTTTTTA
10297 TTTAGATTTAGAAA-TTTTTA
1 TTTA-ATTTA-AAACTTTTTA
10317 GTACTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTAATTTAAAACTTTTTA
Found at i:13937 original size:19 final size:19
Alignment explanation
Indices: 13913--13967 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
13903 AACAACACAG
*
13913 AGAAAAAAAGAAAAGATAT
1 AGAAAAAAAGAAAAGACAT
13932 AGAAAAAAGAAGAAAA-ACAT
1 AG-AAAAA-AAGAAAAGACAT
13952 A-AAAAAAGAGAAAAGA
1 AGAAAAAA-AGAAAAGA
13968 AAGAGAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.03
18 11 0.35
19 3 0.10
20 9 0.29
21 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAAAGAAAAGACAT
Found at i:13988 original size:18 final size:17
Alignment explanation
Indices: 13911--13993 Score: 52
Period size: 17 Copynumber: 5.1 Consensus size: 17
13901 CTAACAACAC
13911 AGAGAAAA-AAAGAA-A
1 AGAGAAAAGAAAGAAGA
* * *
13926 AGA-TATAGAAAAAAGA
1 AGAGAAAAGAAAGAAGA
* *
13942 AGA-AAAACATAA-AAAA
1 AGAGAAAAGA-AAGAAGA
13958 AGAGAAAAGAAAGAGAGA
1 AGAGAAAAGAAAGA-AGA
13976 AGAG-AAAGAAAAGAAGA
1 AGAGAAAAG-AAAGAAGA
13993 A
1 A
13994 AAAACAGAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
14 2 0.04
15 8 0.15
16 15 0.29
17 16 0.31
18 11 0.21
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (17 bp):
AGAGAAAAGAAAGAAGA
Found at i:14023 original size:30 final size:30
Alignment explanation
Indices: 13953--14025 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
13943 GAAAAACATA
*
13953 AAAAAAGAGAAAAGAAAGAGAGAAGAGAAAG
1 AAAAAAGA-AAAAGAAAGAGAGAAAAGAAAG
* * *
13984 AAAAGAAGAAAAA-ACAGAGAGAAAATAAGG
1 AAAA-AAGAAAAAGAAAGAGAGAAAAGAAAG
14014 TAAAAAAGAAAA
1 -AAAAAAGAAAA
14026 CGAAGAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 20 0.56
31 12 0.33
32 4 0.11
ACGTcount: A:0.73, C:0.01, G:0.23, T:0.03
Consensus pattern (30 bp):
AAAAAAGAAAAAGAAAGAGAGAAAAGAAAG
Found at i:29258 original size:32 final size:32
Alignment explanation
Indices: 29221--29319 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 32
29211 GGAGAAGAAT
29221 AAGTGTTAAATGTTTTACATGATAAATTGAAG
1 AAGTGTTAAATGTTTTACATGATAAATTGAAG
* *** *
29253 AAGTGTTAAA-G---TA-AGGGGGAA--GAAT
1 AAGTGTTAAATGTTTTACATGATAAATTGAAG
29278 AAGTGTTAAATGTTTTACATGATAAATTGAAG
1 AAGTGTTAAATGTTTTACATGATAAATTGAAG
29310 AAGTGTTAAA
1 AAGTGTTAAA
29320 GTAAGGGGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
25 13 0.26
26 1 0.02
27 4 0.08
28 2 0.04
29 2 0.04
30 4 0.08
31 1 0.02
32 23 0.46
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.32
Consensus pattern (32 bp):
AAGTGTTAAATGTTTTACATGATAAATTGAAG
Found at i:29279 original size:57 final size:57
Alignment explanation
Indices: 29209--29329 Score: 233
Period size: 57 Copynumber: 2.1 Consensus size: 57
29199 TAACAAAAAG
29209 GGGGAGAAGAATAAGTGTTAAATGTTTTACATGATAAATTGAAGAAGTGTTAAAGTAA
1 GGGG-GAAGAATAAGTGTTAAATGTTTTACATGATAAATTGAAGAAGTGTTAAAGTAA
29267 GGGGGAAGAATAAGTGTTAAATGTTTTACATGATAAATTGAAGAAGTGTTAAAGTAA
1 GGGGGAAGAATAAGTGTTAAATGTTTTACATGATAAATTGAAGAAGTGTTAAAGTAA
29324 GGGGGA
1 GGGGGA
29330 GTAATTTCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 59 0.94
58 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.28
Consensus pattern (57 bp):
GGGGGAAGAATAAGTGTTAAATGTTTTACATGATAAATTGAAGAAGTGTTAAAGTAA
Found at i:33752 original size:22 final size:22
Alignment explanation
Indices: 33724--33778 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
33714 CCTTACCATG
33724 GTATCGATACTTCTATACTATT
1 GTATCGATACTTCTATACTATT
33746 GTATCGATACTTCTATACTATT
1 GTATCGATACTTCTATACTATT
*
33768 GTACCGATACT
1 GTATCGATACT
33779 CTCTTCCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (22 bp):
GTATCGATACTTCTATACTATT
Found at i:37031 original size:2 final size:2
Alignment explanation
Indices: 37024--37062 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
37014 TTGCTATAAG
37024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37063 TCTACATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37268 original size:30 final size:30
Alignment explanation
Indices: 37212--37268 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
37202 TGAAATAGGT
*
37212 ATATGTTTTATGTGAAAAGATTCTATGCTA
1 ATATGTTTTATGTGAAAAGATGCTATGCTA
37242 ATAT-TTTCTATGTGAATAA-ATGCTATG
1 ATATGTTT-TATGTGAA-AAGATGCTATG
37269 TGAAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (30 bp):
ATATGTTTTATGTGAAAAGATGCTATGCTA
Found at i:37501 original size:23 final size:23
Alignment explanation
Indices: 37470--37514 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
37460 GTCGAGGGTT
*
37470 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCAGGACAAAC
*
37493 CTATTTGGTCCTTCAGGACAAA
1 CTATGTGGTCCTTCAGGACAAA
37515 TTGTATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCAGGACAAAC
Found at i:38483 original size:54 final size:54
Alignment explanation
Indices: 38401--38749 Score: 227
Period size: 54 Copynumber: 6.4 Consensus size: 54
38391 CATTTCTGTT
* * * *
38401 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTAATGTTTTCAAATGAATTTTCAA
1 AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATGTCTTCAAATGAATTTTCAA
* *
38455 AGAAACTAAGTCTAATTTTCAGAAGTTTCTTGATGAT-TT-ATAATTGAGTTTTCAA
1 AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATG-TCTTCA-AA-TGAATTTTCAA
* * * ** * *
38510 AGAAGTTAA-TCCTGATTTTTAGGGGTTTATTGATGTCTTCAAATGAATTTTGAA
1 AGAAGCTAAGT-CTAATTTTCAGAAGTTTCTTGATGTCTTCAAATGAATTTTCAA
* * * * * ** * *
38564 AGAAGGTAAGCCCAGTTTTTAGGGGTTTCTTGATGTCTTCAAATGGATTTTGAA
1 AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATGTCTTCAAATGAATTTTCAA
* * ** * * * * *
38618 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTTAAAAGGATTTTGAT
1 AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATGTCTTCAAATGAATTTTCAA
* * * * ** * * **
38672 AGAAGTTAAGCCTGATTTTTAGGGGTTTCTTGATGATAATTGTAAATGAATTTTTGA
1 AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATG-T-CTT-CAAATGAATTTTCAA
* *
38729 AGAAGCCAAGTTTAATTTTCA
1 AGAAGCTAAGTCTAATTTTCA
38750 AATATTTCTC
Statistics
Matches: 246, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.00
54 175 0.71
55 42 0.17
56 3 0.01
57 25 0.10
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AGAAGCTAAGTCTAATTTTCAGAAGTTTCTTGATGTCTTCAAATGAATTTTCAA
Found at i:38656 original size:108 final size:108
Alignment explanation
Indices: 38425--38708 Score: 304
Period size: 108 Copynumber: 2.6 Consensus size: 108
38415 ATTTTCAGAA
* * * * * * * **
38425 GTTTCTTAATGTTTTCAAATGAATTTTCAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGATG
1 GTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAG-CCAGTTTTTAGGGGTTTCTTGATG
* * * *
38490 ATTTATAATTGAGTTTTCAAAGAAGTTAATCCTGATTTTTAGGG
65 ATTTATAATGGAGTTTTCAAAGAAGCTAAGCCTAATTTTTAGGG
* *
38534 GTTTATTGATGTCTTCAAATGAATTTTGAAAGAAGGTAAGCCCAGTTTTTAGGGGTTTCTTGATG
1 GTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAG-CCAGTTTTTAGGGGTTTCTTGATG
*
38599 -TCTTCA-AATGGA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGG
65 AT-TT-ATAATGGAGTTTTCAAAGAAGCTAAGCCTAATTTTTAGGG
* * * * * *
38642 GTTTCTTGATGTCTTTAAAAGGATTTTGATAGAAGTTAAGCCTGATTTTTAGGGGTTTCTTGATG
1 GTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCAG-TTTTTAGGGGTTTCTTGATG
38707 AT
65 AT
38709 AATTGTAAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
107 3 0.02
108 82 0.56
109 61 0.41
110 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (108 bp):
GTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCAGTTTTTAGGGGTTTCTTGATGA
TTTATAATGGAGTTTTCAAAGAAGCTAAGCCTAATTTTTAGGG
Found at i:39597 original size:13 final size:13
Alignment explanation
Indices: 39579--39612 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
39569 CTTGTAAAGT
39579 CTATTTTGAGAAA
1 CTATTTTGAGAAA
*
39592 CTATTTTGAGAAC
1 CTATTTTGAGAAA
39605 CTATTTTG
1 CTATTTTG
39613 TCATTCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (13 bp):
CTATTTTGAGAAA
Found at i:40222 original size:17 final size:17
Alignment explanation
Indices: 40200--40241 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
40190 TCCGACGAGG
*
40200 GAGAAGAATTTTATAAT
1 GAGAAGAATTTCATAAT
40217 GAGAAGAATTTCATAAT
1 GAGAAGAATTTCATAAT
40234 GAGAAGAA
1 GAGAAGAA
40242 CTTGTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.26
Consensus pattern (17 bp):
GAGAAGAATTTCATAAT
Found at i:40425 original size:118 final size:117
Alignment explanation
Indices: 40217--40593 Score: 529
Period size: 118 Copynumber: 3.2 Consensus size: 117
40207 ATTTTATAAT
* * *
40217 GAGAAGAATTTCATAATGAGAAGAACTTGTTCAACCTTTGTTCGAATCCATCACAAAAGGAGGTG
1 GAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTTGTTCGAATCCATCAC-AAAGAAGGTG
* * *
40282 GATCAACATTTCTAATGGAAGGGTTCGTAATGGGAAGAACTCATCAGATGAGG
65 GATCAACATTTCTAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGAAGAGG
* *
40335 GAGAAGAAGTTCCTAATGAGAAAAACTTGTTCAACCTTTGGTCGAATCCATCACAGAAGAAGGTG
1 GAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTTGTTCGAATCCATCACA-AAGAAGGTG
* * * *
40400 GATCAACATTTCCAATGGAAGGGTTCGCAATGAGAAGAATTCATCCGACGAGG
65 GATCAACATTTCTAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGAAGAGG
* * *
40453 GAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTCGAATCCATCACAAAAAAGGTGG
1 GAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTTGTTCGAATCCATCACAAAGAAGGTGG
* * * * * *
40518 ATCAATATTTCTAATTGAAGGGTTCATAATGCGAAGAACTCATCCGAAAAAG
66 ATCAACATTTCTAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGAAGAGG
**
40570 GAGATTAAGTTCATAATGAGAAAA
1 GAGAAGAAGTTCATAATGAGAAAA
40594 TTTTTATCGA
Statistics
Matches: 229, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
117 73 0.32
118 156 0.68
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (117 bp):
GAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTTGTTCGAATCCATCACAAAGAAGGTGG
ATCAACATTTCTAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGAAGAGG
Found at i:40700 original size:36 final size:36
Alignment explanation
Indices: 40645--40713 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
40635 AGCATTTCCA
* *
40645 AAAGAGTTCATAATAAGAAGAACTTGCCCCAAAGGAG
1 AAAGAGTTCAAAATAAGAAGAACTCG-CCCAAAGGAG
*
40682 AAAGA-TTCAAAATGAGAAGAACTCGCCCAAAG
1 AAAGAGTTCAAAATAAGAAGAACTCGCCCAAAG
40714 CAAGCGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 7 0.24
36 17 0.59
37 5 0.17
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.14
Consensus pattern (36 bp):
AAAGAGTTCAAAATAAGAAGAACTCGCCCAAAGGAG
Found at i:41621 original size:29 final size:28
Alignment explanation
Indices: 41576--41643 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
41566 ATCTAATATG
* * * *
41576 TTATTTATTTCGA-ATTAACTACTAACTT
1 TTATTTATTGC-ATATTAACCACAAACAT
41604 TTATTTTATTGCATATTAACCACAAACAT
1 TTA-TTTATTGCATATTAACCACAAACAT
41633 TTATTTATTGC
1 TTATTTATTGC
41644 TAATATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (28 bp):
TTATTTATTGCATATTAACCACAAACAT
Found at i:41912 original size:16 final size:17
Alignment explanation
Indices: 41891--41924 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
41881 CTCTTTTATT
*
41891 TATTTAATTTTAT-ACA
1 TATTTAAATTTATGACA
41907 TATTTAAATTTATGACA
1 TATTTAAATTTATGACA
41924 T
1 T
41925 TTACTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTAAATTTATGACA
Found at i:47724 original size:20 final size:20
Alignment explanation
Indices: 47674--47729 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
47664 AGATTTTCGT
47674 TTGTCTAAGGATGTTCATT-
1 TTGTCTAAGGATGTTCATTG
*
47693 TTG-----GGATATTCATTG
1 TTGTCTAAGGATGTTCATTG
47708 TTGTCTAAGGATGTTCATTG
1 TTGTCTAAGGATGTTCATTG
47728 TT
1 TT
47730 TGATTTTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
19 3 0.10
20 13 0.45
ACGTcount: A:0.20, C:0.09, G:0.23, T:0.48
Consensus pattern (20 bp):
TTGTCTAAGGATGTTCATTG
Found at i:49138 original size:18 final size:19
Alignment explanation
Indices: 49115--49155 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
49105 AGTTCTAATC
* *
49115 TTTTTTTTAATTTTATT-A
1 TTTTTTATAATCTTATTAA
49133 TTTTTTATAATCTTATTAA
1 TTTTTTATAATCTTATTAA
49152 TTTT
1 TTTT
49156 ATCTTAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTATAATCTTATTAA
Found at i:49840 original size:31 final size:31
Alignment explanation
Indices: 49774--49849 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
49764 GACCTTAATT
* *
49774 TTTTTAAAAA-TGTAAATTAAACCCTTTAAAG
1 TTTTTAAAAATTTTAAATTAAA-CCTTTAAAA
*
49805 TTTTTAAAAATTTTAATTTAAA-CTTCTAAAA
1 TTTTTAAAAATTTTAAATTAAACCTT-TAAAA
49836 TTTTT-AAAATTTTA
1 TTTTTAAAAATTTTA
49850 GGTTGGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 12 0.30
31 19 0.47
32 9 0.22
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTTAAAAATTTTAAATTAAACCTTTAAAA
Found at i:51063 original size:19 final size:20
Alignment explanation
Indices: 51041--51100 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
51031 TAAAAAAAGT
51041 ATATTACAATTTAAAATA-A
1 ATATTACAATTTAAAATATA
**
51060 ATATTTGAATATT-AAATATA
1 ATATTACAAT-TTAAAATATA
*
51080 ATATTACATTTTAAAAGTATA
1 ATATTACAATTTAAAA-TATA
51101 TTCCATTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.47
20 13 0.41
21 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATTACAATTTAAAATATA
Found at i:53662 original size:22 final size:19
Alignment explanation
Indices: 53617--53663 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
53607 AAATAATAAC
53617 TTTAATAATATTTATTATA
1 TTTAATAATATTTATTATA
*
53636 ATTAATAATATTGTTAATTATA
1 TTTAATAATA-T-TT-ATTATA
53658 TTTAAT
1 TTTAAT
53664 CATTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 2 0.09
22 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATAATATTTATTATA
Found at i:53675 original size:31 final size:31
Alignment explanation
Indices: 53618--53677 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
53608 AATAATAACT
*
53618 TTAATAATATTTATTATAATTAATAATATTG
1 TTAATAATATTTATCATAATTAATAATATTG
* *
53649 TTAATTATATTTAATCATTATT-ATAATAT
1 TTAATAATATTT-ATCATAATTAATAATAT
53678 ATATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TTAATAATATTTATCATAATTAATAATATTG
Found at i:62002 original size:5 final size:5
Alignment explanation
Indices: 61992--62017 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61982 CCTAATCTTC
61992 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
62018 CATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:71472 original size:20 final size:21
Alignment explanation
Indices: 71447--71485 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71437 AACAAGGAAA
*
71447 AGATAATTCCTAAA-ATAAAG
1 AGATAAATCCTAAAGATAAAG
71467 AGATAAATCCTAAAGATAA
1 AGATAAATCCTAAAGATAA
71486 TTCTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AGATAAATCCTAAAGATAAAG
Found at i:72346 original size:107 final size:109
Alignment explanation
Indices: 72204--72724 Score: 615
Period size: 107 Copynumber: 4.9 Consensus size: 109
72194 AAAATCTGTT
* * *
72204 AAATCAAACTTAATAGTCTAATTAATTTATATTTAAAACAAAAACAATAAATGAAACAATAAAAT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTAAAATAAAAACAATAAATGAAACAATAAAAT
** *
72269 TTAAACTAAACTTACCAAACCACTCAAATACGATTTAACCTATA
66 TTAAACTAAACTTACCAAACCACTCAAATACGATTTAATATGTA
* **
72313 AAAT-AAAATAAATAGTCCAA-TAATTTATATTTAAAAT-AAAA-AAT--A--AAA-TTTAAAAT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTAAAATAAAAACAATAAATGAAACAATAAAAT
** *
72369 TTAAACTAAACAACACACCAAAGCACTCAAATACGATTTAATATGTA
66 TTAAACT--A-AACTTACCAAACCACTCAAATACGATTTAATATGTA
* *
72416 AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAACAAAAAATGAAACAATAAAAT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTAAAATAAAAACAATAAATGAAACAATAAAAT
* *
72481 ATACACTAAACTTACC--ACCACTCAAATACGATTTAATATGTA
66 TTAAACTAAACTTACCAAACCACTCAAATACGATTTAATATGTA
*
72523 AAATTAAAATAAATAGTCTAA-TAA-TTATTATTTAAAATAAAAACAATAAAT-AAACAATAAAA
1 AAATCAAAATAAATAGTCTAATTAATTTA-TATTTAAAATAAAAACAATAAATGAAACAATAAAA
* * * * *
72585 ATTAAATTAAACTTACCAAACCACCCGAATGC-AGTTTAATATGTA
65 TTTAAACTAAACTTACCAAACCACTCAAATACGA-TTTAATATGTA
* * *
72630 AAATCAAAAATAATTAATCTAATTAATTTATATTTAAAATAAAAATTAA-AAATGAAACAATAAA
1 AAATC-AAAATAAATAGTCTAATTAATTTATATTTAAAATAAAAA-CAATAAATGAAACAATAAA
* * *
72694 ATTTACACTAAACTTACCAGATCACTCAAAT
64 ATTTAAACTAAACTTACCAAACCACTCAAAT
72725 TCGAATCCTT
Statistics
Matches: 348, Mismatches: 43, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
100 13 0.04
101 3 0.01
102 1 0.00
103 35 0.10
104 14 0.04
105 47 0.14
106 34 0.10
107 87 0.25
108 27 0.08
109 33 0.09
110 40 0.11
111 3 0.01
112 11 0.03
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (109 bp):
AAATCAAAATAAATAGTCTAATTAATTTATATTTAAAATAAAAACAATAAATGAAACAATAAAAT
TTAAACTAAACTTACCAAACCACTCAAATACGATTTAATATGTA
Found at i:72683 original size:215 final size:209
Alignment explanation
Indices: 72204--72712 Score: 650
Period size: 212 Copynumber: 2.4 Consensus size: 209
72194 AAAATCTGTT
* * * * *
72204 AAATCAAACTTAATAGTCTAATTAATTTATATTTAAAACAAAAACAATAAATGAAACAATAAAAT
1 AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAA-AAAAAATGAAACAATAAAAT
* *
72269 TTAAACTAAACTTACCAAACCACTCAAATACGATTTAACCTATAAAATAAAATAAATAGTCCAAT
65 TTACACTAAACTTACC--ACCACTCAAATACGATTTAACATATAAAATAAAATAAATAGTCCAAT
* ** * *
72334 AATTTATATTTAAAATAAAAAATAAAATTTAAAATTTAAACTAAACAACACACCAAAGCACTCAA
128 AATTTATATTTAAAATAAAAAATAAAATTAAAAATAAAAACTAAACAACACACCAAACCACCCAA
72399 ATACGATTTAATATGTA
193 ATACGATTTAATATGTA
72416 AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAACAAAAAATGAAACAATAAAAT
1 AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAA-AAAAAATGAAACAATAAAAT
* * * *
72481 ATACACTAAACTTACCACCACTCAAATACGATTTAATATGTAAAATTAAAATAAATAGTCTAATA
65 TTACACTAAACTTACCACCACTCAAATACGATTTAACATATAAAA-TAAAATAAATAGTCCAATA
* *
72546 A-TTATTATTTAAAATAAAAACA-ATAAA-TAAACAATAAAAATTAAATTAA-ACTTACCAAACC
129 ATTTA-TATTTAAAATAAAAA-ATA-AAATTAAA-AATAAAAACTAAA-CAACAC--ACCAAACC
* *
72607 ACCCGAATGC-AGTTTAATATGTA
187 ACCCAAATACGA-TTTAATATGTA
* *
72630 AAATCAAAAATAATTAATCTAATTAATTTATATTTAAAATAAAAATTAAAAATGAAACAATAAAA
1 AAATC-AAAATAAATAATCTAATTAATTTATATTTAAAATAAAAA-AAAAAATGAAACAATAAAA
72695 TTTACACTAAACTTACCA
64 TTTACACTAAACTTACCA
72713 GATCACTCAA
Statistics
Matches: 263, Mismatches: 24, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
210 29 0.11
211 38 0.14
212 90 0.34
213 3 0.01
214 30 0.11
215 73 0.28
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (209 bp):
AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAAAAAAAATGAAACAATAAAATT
TACACTAAACTTACCACCACTCAAATACGATTTAACATATAAAATAAAATAAATAGTCCAATAAT
TTATATTTAAAATAAAAAATAAAATTAAAAATAAAAACTAAACAACACACCAAACCACCCAAATA
CGATTTAATATGTA
Found at i:72899 original size:25 final size:25
Alignment explanation
Indices: 72871--72952 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
72861 CCGTGTGATG
*
72871 CATTATTGGCACACAATAATGGAAC
1 CATTATTAGCACACAATAATGGAAC
*
72896 CATTATTAGCGCACAATAATGGAAC
1 CATTATTAGCACACAATAATGGAAC
** * *
72921 CATTATTAGTTCCCAATAATGGCAC
1 CATTATTAGCACACAATAATGGAAC
72946 CATTATT
1 CATTATT
72953 TACATGTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (25 bp):
CATTATTAGCACACAATAATGGAAC
Found at i:74550 original size:199 final size:199
Alignment explanation
Indices: 74199--74605 Score: 588
Period size: 199 Copynumber: 2.1 Consensus size: 199
74189 CCAACATACC
** * * * *
74199 ATTTT-ATTAAATCAAGAATTCTAAGAAGAAACGGACGATATTCTATCATTTCCAATCGAAGAGA
1 ATTTTAATTAAATCAAGAATTCTAAGAAGAAAAAGACGACATTCCATAATTTCCAATCGAAGAAA
* * *
74263 AATAACCTCCCAATGTACATTAAGACAACTATTTCTCTCACCAAATGAAATAAAAGGAATATCAT
66 AATAACCTCCAAACGTACATTAAGACAACTATTTCTCTCACCAAATGAAACAAAAGGAATATCAT
*
74328 ATTTTCCTCTAAAGAATTCCATATTAAACACTT-ATTAAAAAGA-AGTT-AGAAGAGAAATTAAA
131 ATTTTCCTCTAAAGAATTCCATATTAAACACTTAATGAAAAA-ATA-TTAAG-AGAGAAATTAAA
74390 CCAATTT
193 CCAATTT
* *
74397 ATTTTAATTAAGTCAAGAATTCTAAGAAGAAAAAGACGACATTCCATAATTTTCAATCGAAGAAA
1 ATTTTAATTAAATCAAGAATTCTAAGAAGAAAAAGACGACATTCCATAATTTCCAATCGAAGAAA
* * * *
74462 AATAACCTCCAAACGTATATTAAGTCGACTATTTCTCTCACCAACTGAAACAAAAGGAATATCAT
66 AATAACCTCCAAACGTACATTAAGACAACTATTTCTCTCACCAAATGAAACAAAAGGAATATCAT
* * *
74527 ATTTTCCTCTAAAGAATTCCATATTAAACACTTAATGAAAAAATATTAAGCGAGTAATTAACCCA
131 ATTTTCCTCTAAAGAATTCCATATTAAACACTTAATGAAAAAATATTAAGAGAGAAATTAAACCA
74592 ATTT
196 ATTT
74596 ATTTTAATTA
1 ATTTTAATTA
74606 TTTATCCATT
Statistics
Matches: 186, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
198 5 0.03
199 171 0.92
200 10 0.05
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (199 bp):
ATTTTAATTAAATCAAGAATTCTAAGAAGAAAAAGACGACATTCCATAATTTCCAATCGAAGAAA
AATAACCTCCAAACGTACATTAAGACAACTATTTCTCTCACCAAATGAAACAAAAGGAATATCAT
ATTTTCCTCTAAAGAATTCCATATTAAACACTTAATGAAAAAATATTAAGAGAGAAATTAAACCA
ATTT
Found at i:76330 original size:32 final size:32
Alignment explanation
Indices: 76284--76365 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 32
76274 AAAGCATTGT
*
76284 CAAAGATGATTTTTTTTCCAGGTAAACTATAG
1 CAAAAATGATTTTTTTTCCAGGTAAACTATAG
76316 CAAAAATGA--TTTTTT-CAGGTAAACTATAG
1 CAAAAATGATTTTTTTTCCAGGTAAACTATAG
*
76345 CAAAAAATTATTATTTTTTCC
1 C-AAAAATGATT-TTTTTTCC
76366 TTCAAGAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 15 0.35
30 13 0.30
32 8 0.19
33 6 0.14
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (32 bp):
CAAAAATGATTTTTTTTCCAGGTAAACTATAG
Found at i:83962 original size:32 final size:32
Alignment explanation
Indices: 83916--83980 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
83906 TCGGGGTTCC
*
83916 TCCCTCGAGTAAGCTAACAAATTTTTTAAACA
1 TCCCCCGAGTAAGCTAACAAATTTTTTAAACA
*
83948 TCCCCCGAGTAAGCTGACAAATTTTTTAAACA
1 TCCCCCGAGTAAGCTAACAAATTTTTTAAACA
83980 T
1 T
83981 ATCTTCTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (32 bp):
TCCCCCGAGTAAGCTAACAAATTTTTTAAACA
Found at i:84485 original size:10 final size:10
Alignment explanation
Indices: 84470--84494 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
84460 GTATGGCGAA
84470 GGTATGGGTT
1 GGTATGGGTT
84480 GGTATGGGTT
1 GGTATGGGTT
84490 GGTAT
1 GGTAT
84495 TGGCGTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (10 bp):
GGTATGGGTT
Found at i:97410 original size:198 final size:196
Alignment explanation
Indices: 97055--97416 Score: 487
Period size: 198 Copynumber: 1.8 Consensus size: 196
97045 ACCAACATAC
* * * *
97055 TATTTTATTAACTCAAGAATTCTAAGAAGAAAAAGTTGATATTTCGTCATTTCCAGTATAAGAGA
1 TATTTTATTAACTCAAGAATTCTAAGAAGAAAAAGTTGATATTTCATAATTTCCAATAGAAGAGA
* * *
97120 AACAACCTCCCAATGTATATTAAGTGGCATATTTCTCTCACCAACAGAAATAAAAGAAATATTGT
66 AACAACCTCCCAATGTATATTAAG-GACATATTTCTCTCACCAACAGAAACAAAAGAAATATCGT
* *
97185 ATTTTTCTCTAAAGAATTCCATATTAAACACTTATTAAAGGAGGTTAGAAGAGAAATTAAACCAA
130 ATTTTCCTCTAAAGAATTACATATTAAACACTTATTAAAGGAGGTTAGAAGAGAAATTAAACCAA
97250 TT
195 TT
* * * *
97252 TATTTTGATTAATTCAATAATTCTAAGAAGAAACA-TATGATATTTCATAATTTCCAATCGAAGA
1 TATTTT-ATTAACTCAAGAATTCTAAGAAGAAAAAGT-TGATATTTCATAATTTCCAATAGAAGA
* * *
97316 GAAATAACCTCCCAATGTATATTAA-GACAACTATTTCTCTCATCAACTGAAACAAAA-ATAATA
64 GAAACAACCTCCCAATGTATATTAAGGAC-A-TATTTCTCTCACCAACAGAAACAAAAGA-AATA
* *
97379 TCGTATTTTCCTTTAAAGAATTACATATTAAACCCTTA
126 TCGTATTTTCCTCTAAAGAATTACATATTAAACACTTA
97417 ATGAAAAAAA
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
196 2 0.01
197 9 0.06
198 131 0.92
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (196 bp):
TATTTTATTAACTCAAGAATTCTAAGAAGAAAAAGTTGATATTTCATAATTTCCAATAGAAGAGA
AACAACCTCCCAATGTATATTAAGGACATATTTCTCTCACCAACAGAAACAAAAGAAATATCGTA
TTTTCCTCTAAAGAATTACATATTAAACACTTATTAAAGGAGGTTAGAAGAGAAATTAAACCAAT
T
Found at i:98688 original size:45 final size:45
Alignment explanation
Indices: 98605--98691 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
98595 CCCAAATGGA
* * * **
98605 ATAATGGTGCATTATTGGCATGAAATGATGTCGTAAATGAAATTC
1 ATAATGGTGCATTATCGGCATGAAAGGATGCCACAAATGAAATTC
98650 ATAATGGTGCATTATCGGCATGAAAGGATGCCACAAATGAAA
1 ATAATGGTGCATTATCGGCATGAAAGGATGCCACAAATGAAA
98692 ATACATAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (45 bp):
ATAATGGTGCATTATCGGCATGAAAGGATGCCACAAATGAAATTC
Found at i:104446 original size:95 final size:95
Alignment explanation
Indices: 104330--104530 Score: 289
Period size: 95 Copynumber: 2.1 Consensus size: 95
104320 CTGATGTGGA
* * *
104330 TATCAATACCAAGAGAAAGGTATCGATACAAGGGATTCCAGAATGTCA-AAATGGTATCGATACT
1 TATCAATACCAAGAGAAAGGTATCGATACAAGGAATTACAGAATGT-AGAAATGGTATCGAAACT
* * *
104394 GAAAGGG-AGTATCGCTATCATAGTATAGAAG
65 AAAAGGGCA-TATCGATACCATAGTATAGAAG
* * *
104425 TATCGATACTAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTAGAAATGGTATCGAAACTA
1 TATCAATACCAAGAGAAAGGTATCGATACAAGGAATTACAGAATGTAGAAATGGTATCGAAACTA
104490 AAAGGGCATATCGATACCATAGTATAGAAG
66 AAAGGGCATATCGATACCATAGTATAGAAG
104520 TATCAATACCA
1 TATCAATACCA
104531 TGGTAGGTGT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 1 0.01
95 91 0.98
96 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (95 bp):
TATCAATACCAAGAGAAAGGTATCGATACAAGGAATTACAGAATGTAGAAATGGTATCGAAACTA
AAAGGGCATATCGATACCATAGTATAGAAG
Found at i:105031 original size:45 final size:45
Alignment explanation
Indices: 104952--105547 Score: 940
Period size: 45 Copynumber: 13.2 Consensus size: 45
104942 AAAATGAATA
*
104952 CATAAATGAAATGCATAATGGTGCATTGTCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
** * * * *
104997 CATTTATGGAATGCATAATGATGCATTATTGGCATGAAATGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
**
105042 CATAAATGAAATGCATAATGGTGCATTATCAACATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* *
105087 CATAAATGAAATGCATAATGGAGCATTCTCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* * *
105132 CATAAATGAAATGCGTAATGGTGCATTATTGGAATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
105177 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
*
105222 CATAAATGAAATGCATAATGGTGCATTATCGGCATAAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* * *
105267 CATAAATGAAACGCATAATGGTGCATTATCGTCATGAATGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* *
105312 CATAAATGAAATGCATAATGGTACATTATCAGCATGAAAGGATGC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
*
105357 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATTC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* *
105402 CATAAATGGAATGCATAATGGTGCATTATCGGCATGAAAGGATTC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* *
105447 AATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATTC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
* * *
105492 CATAAATGAAATACATAATGGTGCATTATCGGCATGAAACGATTC
1 CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
105537 CATAAATGAAA
1 CATAAATGAAA
105548 AATACTTAAT
Statistics
Matches: 505, Mismatches: 46, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 505 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (45 bp):
CATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGC
Found at i:105038 original size:21 final size:20
Alignment explanation
Indices: 104968--105041 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 20
104958 TGAAATGCAT
* *
104968 AATGGTGCATTGTCGGCATGA
1 AATGATGCATT-TTGGCATGA
* *
104989 AAGGATGCCATTTATGGAATGCA
1 AATGATG-CATTT-TGGCATG-A
105012 TAATGATGCATTATTGGCATGA
1 -AATGATGCATT-TTGGCATGA
105034 AATGATGC
1 AATGATGC
105042 CATAAATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 14 0.33
22 10 0.24
23 11 0.26
24 7 0.17
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (20 bp):
AATGATGCATTTTGGCATGA
Found at i:106660 original size:36 final size:36
Alignment explanation
Indices: 106612--106937 Score: 175
Period size: 37 Copynumber: 9.2 Consensus size: 36
106602 GTTTTCTAAA
* * * *
106612 ATATATACTATATGGTTTCGAAAACATTTCGAAAAT
1 ATATATATTATATAGTTTTGAAAACATTTTGAAAAT
** *
106648 ATATATATTATATAGTTTTG-AAATTTTTTGAAAAC
1 ATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* * *
106683 ATATATAATGTATAGTTTTTGAAAATCCTTTTGAAAAT
1 ATATATATTATATAG-TTTTGAAAA-CATTTTGAAAAT
* * *
106721 ATATATAATATATAGTTTTGAAATCGTTATTGAAAACT
1 ATATATATTATATAGTTTTGAAAACATT-TTGAAAA-T
* *
106759 -TATATAATATATAGTTTTTAAAACATTTTTTGAAAAT
1 ATATATATTATATAGTTTTGAAAACA--TTTTGAAAAT
* *
106796 -TATATGATGTA-A-AGTTTTAAAAACAATTTT-AAAAA
1 ATATAT-AT-TATATAGTTTTGAAAAC-ATTTTGAAAAT
* *
106831 ACT-TATA-CA-ATA-TTTTTAAATTA-ATTTTGAAAACT
1 A-TATATATTATATAGTTTTGAAA--ACATTTTGAAAA-T
* *
106866 ATATA-A-TATATAGTTTTGAAAGC-TTTTTAAAA-
1 ATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* * * *
106898 A-ATATAATATAT-GGTTTAAAAATATTTTTG-AAAT
1 ATATATATTATATAGTTTTGAAAACA-TTTTGAAAAT
106932 ATATAT
1 ATATAT
106938 TATATAATTT
Statistics
Matches: 230, Mismatches: 33, Indels: 55
0.72 0.10 0.17
Matches are distributed among these distances:
31 3 0.01
32 9 0.04
33 22 0.10
34 21 0.09
35 40 0.17
36 39 0.17
37 58 0.25
38 34 0.15
39 4 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (36 bp):
ATATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:106754 original size:37 final size:35
Alignment explanation
Indices: 106612--106943 Score: 193
Period size: 36 Copynumber: 9.3 Consensus size: 35
106602 GTTTTCTAAA
* * * * *
106612 ATATATACTATATGGTTTCGAAAACATTTCGAAAAT
1 ATATATAATATATAGTTTTGAAATC-TTTTGAAAAT
* * *
106648 ATATATATTATATAGTTTTGAAATTTTTTGAAAAC
1 ATATATAATATATAGTTTTGAAATCTTTTGAAAAT
*
106683 ATATATAATGTATAGTTTTTGAAAATCCTTTTGAAAAT
1 ATATATAATATATAG-TTTTG-AAAT-CTTTTGAAAAT
106721 ATATATAATATATAGTTTTGAAATCGTTATTGAAAACT
1 ATATATAATATATAGTTTTGAAATC-TT-TTGAAAA-T
* *
106759 -TATATAATATATAGTTTTTAAAACATTTTTTGAAAAT
1 ATATATAATATATAG-TTTT-GAA-ATCTTTTGAAAAT
* * * * * *
106796 -TATATGATGTAAAGTTTTAAAAACAATTTT-AAAAA
1 ATATATAATATATAGTTTTGAAATC--TTTTGAAAAT
*
106831 ACT-TATACA-ATAT--TTTT-AAATTAATTTTGAAAA-
1 A-TATATA-ATATATAGTTTTGAAA-T-CTTTTGAAAAT
* * *
106864 CTATATAATATATAGTTTTGAAAGCTTTTTAAAA-
1 ATATATAATATATAGTTTTGAAATCTTTTGAAAAT
* ** *
106898 A-ATATAATATATGGTTTAAAAATATTTTTG-AAAT
1 ATATATAATATATAGTTTTGAAAT-CTTTTGAAAAT
*
106932 ATATATTATATA
1 ATATATAATATA
106944 ATTTATACTA
Statistics
Matches: 234, Mismatches: 37, Indels: 51
0.73 0.11 0.16
Matches are distributed among these distances:
32 2 0.01
33 36 0.15
34 22 0.09
35 42 0.18
36 47 0.20
37 44 0.19
38 35 0.15
39 4 0.02
40 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (35 bp):
ATATATAATATATAGTTTTGAAATCTTTTGAAAAT
Found at i:106772 original size:75 final size:73
Alignment explanation
Indices: 106612--106800 Score: 224
Period size: 75 Copynumber: 2.6 Consensus size: 73
106602 GTTTTCTAAA
* * ** * * *
106612 ATATATACTATATGGTTTCGAAAACA--TTTCGAAAATATATATATTATATAGTTTTGAAATTTT
1 ATATATAATATATAGTTTTTAAAACATCTTTTGAAAATATATATAATATATAGTTTTGAAATTTA
106675 TTGAAAAC
66 TTGAAAAC
* *
106683 ATATATAATGTATAGTTTTTGAAA-ATCCTTTTGAAAATATATATAATATATAGTTTTGAAATCG
1 ATATATAATATATAGTTTTTAAAACAT-CTTTTGAAAATATATATAATATATAGTTTTGAAAT--
106747 TTATTGAAAAC
63 TTATTGAAAAC
* *
106758 TTATATAATATATAGTTTTTAAAACATTTTTTGAAAAT-TATAT
1 ATATATAATATATAGTTTTTAAAACATCTTTTGAAAATATATAT
106801 GATGTAAAGT
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
70 1 0.01
71 18 0.18
73 32 0.32
74 5 0.05
75 41 0.41
76 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (73 bp):
ATATATAATATATAGTTTTTAAAACATCTTTTGAAAATATATATAATATATAGTTTTGAAATTTA
TTGAAAAC
Found at i:106832 original size:75 final size:75
Alignment explanation
Indices: 106642--106843 Score: 180
Period size: 75 Copynumber: 2.7 Consensus size: 75
106632 AAAACATTTC
* * * * * * * * *
106642 GAAAATATATATATTATATAGTTTT-GAAA-TTTTTTGAAAACATATATAATGTATAGTTTTTGA
1 GAAAATATATATAATATAAAGTTTTAAAAACATTATTAAAAACTTATATAATATATAGTTTTTAA
106705 AAATCCTTTT
66 AAATCCTTTT
* * * * *
106715 GAAAATATATATAATATATAGTTTTGAAATCGTTATTGAAAACTTATATAATATATAGTTTTTAA
1 GAAAATATATATAATATAAAGTTTTAAAAACATTATTAAAAACTTATATAATATATAGTTTTTAA
*
106780 AACAT-TTTTT
66 AA-ATCCTTTT
* * *
106790 GAAAAT-TATATGATGTAAAGTTTTAAAAACAATT-TTAAAAAACTTATACAATAT
1 GAAAATATATATAATATAAAGTTTTAAAAAC-ATTATT-AAAAACTTATATAATAT
106844 TTTTAAATTA
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
73 24 0.22
74 23 0.21
75 58 0.54
76 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (75 bp):
GAAAATATATATAATATAAAGTTTTAAAAACATTATTAAAAACTTATATAATATATAGTTTTTAA
AAATCCTTTT
Found at i:106926 original size:33 final size:33
Alignment explanation
Indices: 106866--106948 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
106856 TTTGAAAACT
** *
106866 ATATAATATATAGTTTTGAAAGCTTTTTAAAAA
1 ATATAATATATAGTTTAAAAAGATTTTTAAAAA
* * * *
106899 ATATAATATATGGTTTAAAAATATTTTTGAAAT
1 ATATAATATATAGTTTAAAAAGATTTTTAAAAA
* *
106932 ATATATTATATAATTTA
1 ATATAATATATAGTTTA
106949 TACTATATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (33 bp):
ATATAATATATAGTTTAAAAAGATTTTTAAAAA
Found at i:112359 original size:21 final size:21
Alignment explanation
Indices: 112334--112373 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112324 AAACCGTTCA
*
112334 GGGGGAATCGATACCCTCTTG
1 GGGGGAATCAATACCCTCTTG
*
112355 GGGGGAATCAATTCCCTCT
1 GGGGGAATCAATACCCTCT
112374 AAGTAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (21 bp):
GGGGGAATCAATACCCTCTTG
Found at i:114096 original size:40 final size:40
Alignment explanation
Indices: 114041--114124 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
114031 TCTAAGGCTC
*
114041 TATGATGAACTAGAGTTTATAAAACATTACCAAAAATTAA
1 TATGATGAACTAGAGTATATAAAACATTACCAAAAATTAA
*
114081 TATGATGAACTAGAGTATATAAAACATTACCAAAAATTAC
1 TATGATGAACTAGAGTATATAAAACATTACCAAAAATTAA
114121 TATG
1 TATG
114125 TTCATCATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (40 bp):
TATGATGAACTAGAGTATATAAAACATTACCAAAAATTAA
Found at i:118825 original size:22 final size:23
Alignment explanation
Indices: 118780--118828 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
118770 TTCCCCTGTG
* *
118780 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTACCCTTCAAA
*
118803 GGGGGAATTGATTACCCTT-AAA
1 GGGGGAATCGATTACCCTTCAAA
118825 GGGG
1 GGGG
118829 TGGTATCGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.22
Consensus pattern (23 bp):
GGGGGAATCGATTACCCTTCAAA
Found at i:121689 original size:16 final size:15
Alignment explanation
Indices: 121663--121692 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
121653 TTAGCACAAG
121663 CATTACAAATTTTAT
1 CATTACAAATTTTAT
121678 CATTATCAAATTTTA
1 CATTA-CAAATTTTA
121693 GTTTAGGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTACAAATTTTAT
Found at i:128093 original size:110 final size:110
Alignment explanation
Indices: 127891--128547 Score: 917
Period size: 110 Copynumber: 6.0 Consensus size: 110
127881 TGATGGTGGT
*
127891 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTTAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
127956 CAATTTCAACTTCACATCGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
* ** * * *
128001 AGCTCAACTTCACAACGAAGGGGCGGTTGACTATCAACAAACAAATTTTCAGTTTTATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
** * * * *
128066 CAATTTCAACTTCACATTGAAGAATATTGGACTTGATACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
128111 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
128176 CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
* * *
128221 AGCTCAACTTCACAGCGAATGGGCAACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
128286 CAATATCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
* * *
128331 AGCTCAACTTCACAGCGAGGGGGCGACTGACTGTCAACAAATAACTTTTCAATTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
** * *
128396 CAATTTCAACTTCACAGTGAATGATATTAGACTCGAGACAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
* * * ** * ** *
128441 AGCTCAACTTCACAGAGAAGGGGCAATTGGTTGTTAACAAATGACTTTCCAG-TT--TT-AGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
** * * * *
128502 CAATTTCAACTTCACGGCGAAGGATATTGGCCTCGAAACAGCACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
128547 A
1 A
128548 ATATTTGGAT
Statistics
Matches: 488, Mismatches: 59, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
106 43 0.09
107 2 0.00
109 2 0.00
110 441 0.90
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
Found at i:129143 original size:165 final size:164
Alignment explanation
Indices: 128652--129188 Score: 564
Period size: 165 Copynumber: 3.3 Consensus size: 164
128642 GGAATCGTGC
* * * * * * * * *
128652 CTACCAAAGACCTTCGAGTTCGACTACGCTCAG-TTCCAAGGCACATTATTTACAGCGTAGCTTA
1 CTACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCA
* * * * * * * * *
128716 AGTCGAGAAGAGCTAT-T-T-GCCAAAGACCTTCGGGTTCGATTACACTCAGCTCAAAGGCACCA
66 AGGCTAGAAGAGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCA-CA
* ** * * * *
128778 ACATTTGTAGAATAACTTAAGTCGAGAAGAGTTAT
130 TCATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
** ** * *
128813 CTGGTAACCAAAGACCTTCGAGTTCGACCATGCTCAACTTGGAGGGCACATCATTTACAACATAA
1 C---T-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAA
* *
128878 CTCAAGGCTAGAAGAGTTATCTGTTACCAAAGACCTTTGAGTTCAACTACGCTCAGCTCCAAGGC
62 CTCAAGGCTAGAAGAGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGC
128943 ACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
127 ACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
* *
128981 CTACTAAAGACAC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTC
1 CTACCAAAGAC-CTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTC
* **
129045 AAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCAC
65 AAGGCTAGAAGAGTTATCTGTCACC-AAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCAC
* * *
129110 GTCATTTTCAGCATAGCTTAAGTTGAGAAGGGCTAT
129 ATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
* * * *
129146 CTGCCAAAGACCTTCGAGTTCGATTTCATTCAGC-TCAAGGGCA
1 CTACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCA
129189 TGTCAAGTTT
Statistics
Matches: 316, Mismatches: 49, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
161 1 0.00
164 85 0.27
165 127 0.40
166 36 0.11
167 1 0.00
168 32 0.10
169 34 0.11
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
CTACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCA
AGGCTAGAAGAGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACAT
CATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
Found at i:129900 original size:37 final size:35
Alignment explanation
Indices: 129823--130099 Score: 155
Period size: 36 Copynumber: 7.7 Consensus size: 35
129813 GTTTTCTAAA
* **
129823 ATATATATACTATATGGTTTCAAAAACATTTTGAAA-
1 ATATATATA-TATATAGTTTTGAAAA-ATTTTGAAAC
129859 ATATATATATTATATAGTTTTGAAAAATTTTGAAAGC
1 ATATATATA-TATATAGTTTTGAAAAATTTTGAAA-C
* * *
129896 ATATATA-ATGTATAGTTTTTGAAAATCCTTTTG-AAT
1 ATATATATATATATAG-TTTTGAAAA--ATTTTGAAAC
**
129932 ATATATATAATATATAGTTTTGAAATCGTTATTGAAAAC
1 ATATATAT-ATATATAGTTTTGAAA-AATT-TTG-AAAC
* * *
129971 TTATATA-ATATATAGTTTTTAAAACATTTTTTGAAAA
1 ATATATATATATATAGTTTTGAAAA-A--TTTTGAAAC
* * *
130008 AT-TATATGGTGTATAGTTTTAAAACAATTTTCGAAA-
1 ATATATAT-ATATATAGTTTTGAAA-AATTTT-GAAAC
*
130044 ACT-TATATA-ATAT--TTTTAAATAAATTTTGAAA-
1 A-TATATATATATATAGTTTTGAA-AAATTTTGAAAC
130076 ACTATATA-ATATATAGTTTTGAAA
1 A-TATATATATATATAGTTTTGAAA
130100 GTTTTTTTAA
Statistics
Matches: 194, Mismatches: 23, Indels: 50
0.73 0.09 0.19
Matches are distributed among these distances:
32 8 0.04
33 21 0.11
34 2 0.01
35 24 0.12
36 50 0.26
37 49 0.25
38 29 0.15
39 11 0.06
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (35 bp):
ATATATATATATATAGTTTTGAAAAATTTTGAAAC
Found at i:130003 original size:75 final size:71
Alignment explanation
Indices: 129826--130156 Score: 231
Period size: 75 Copynumber: 4.7 Consensus size: 71
129816 TTCTAAAATA
* * ** * *
129826 TATATACTATATGGTTTCAAAAACA-TTTTGAAAATATATATATTATATAGTTTTGAAAAATTTT
1 TATATAATATATAGTTTTTAAAACATTTTTG-AAATATATATAATATATAGTTTTGAAACATTTT
* *
129890 GAAAGCA
65 GAAAACT
* * *
129897 TATATAATGTATAGTTTTTGAAAATC-CTTTTGAATATATATATAATATATAGTTTTGAAATCGT
1 TATATAATATATAGTTTTT-AAAA-CATTTTTGAA-ATATATATAATATATAGTTTTGAAA-CAT
129961 TATTGAAAACT
62 T-TTGAAAACT
* ** * *
129972 TATATAATATATAGTTTTTAAAACATTTTTTGAAAAATTATATGGTGTATAGTTTTAAAACAATT
1 TATATAATATATAGTTTTTAAAACA-TTTTTGAAATA-TATATAATATATAGTTTTGAAAC-ATT
130037 TTCGAAAAC-
63 TT-GAAAACT
* **
130046 T-TAT-ATA-ATA-TTTTTAAATA-AATTTTGAAA-ACTATATAATATATAGTTTTGAAAGTTTT
1 TATATAATATATAGTTTTTAAA-ACATTTTTGAAATA-TATATAATATATAGTTTTGAAA-CATT
*
130105 TTTAAAA--
63 TTGAAAACT
* * *
130112 -ATATAATATAT-G-GTTTAAAATTATTTTTGAAATATATATTATATA
1 TATATAATATATAGTTTTTAAAA-CATTTTTGAAATATATATAATATA
130157 ATTTATACTA
Statistics
Matches: 210, Mismatches: 30, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
66 4 0.02
67 13 0.06
68 44 0.21
69 9 0.04
70 9 0.04
71 18 0.09
72 9 0.04
73 34 0.16
74 12 0.06
75 58 0.28
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (71 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAATATATATAATATATAGTTTTGAAACATTTTG
AAAACT
Found at i:130014 original size:38 final size:37
Alignment explanation
Indices: 129820--130095 Score: 168
Period size: 38 Copynumber: 7.6 Consensus size: 37
129810 ATGGTTTTCT
* * **
129820 AAAATATATATACTATATGGTTTCAAAAACA-TTTTG-
1 AAAAT-TATATAATATATAGTTTTTAAAACATTTTTGA
* *
129856 AAAATATATATATTATATAGTTTTGAAAA-A-TTTTGA
1 AAAAT-TATATAATATATAGTTTTTAAAACATTTTTGA
* * *
129892 AAGCA-TATATAATGTATAGTTTTTGAAAATC-CTTTTG-
1 AA-AATTATATAATATATAGTTTTT-AAAA-CATTTTTGA
* * * * *
129929 AATATATATATAATATATAGTTTTGAAATCGTTATTGA
1 AAAAT-TATATAATATATAGTTTTTAAAACATTTTTGA
*
129967 AAACTTATATAATATATAGTTTTTAAAACATTTTTTGA
1 AAAATTATATAATATATAGTTTTTAAAACA-TTTTTGA
** * *
130005 AAAATTATATGGTGTATAG-TTTTAAAACAATTTTCG-
1 AAAATTATATAATATATAGTTTTTAAAAC-ATTTTTGA
* *
130041 AAAACT-TAT-ATA-ATA-TTTTTAAATA-AATTTTG-
1 AAAATTATATAATATATAGTTTTTAAA-ACATTTTTGA
*
130073 AAAACTATATAATATATAGTTTT
1 AAAATTATATAATATATAGTTTT
130096 GAAAGTTTTT
Statistics
Matches: 192, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
32 11 0.06
33 13 0.07
34 5 0.03
35 28 0.15
36 42 0.22
37 46 0.24
38 47 0.24
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (37 bp):
AAAATTATATAATATATAGTTTTTAAAACATTTTTGA
Found at i:130085 original size:31 final size:33
Alignment explanation
Indices: 130024--130087 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
130014 TGGTGTATAG
130024 TTTTAAAACAATTTTCGAAAACTTATATAATAT
1 TTTTAAAACAATTTTCGAAAACTTATATAATAT
130057 TTTTAAATA-AATTTT-GAAAAC-TATATAATAT
1 TTTTAAA-ACAATTTTCGAAAACTTATATAATAT
130088 ATAGTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 10 0.33
32 6 0.20
33 13 0.43
34 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (33 bp):
TTTTAAAACAATTTTCGAAAACTTATATAATAT
Found at i:130139 original size:33 final size:33
Alignment explanation
Indices: 130068--130156 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 33
130058 TTTAAATAAA
* *
130068 TTTTGAAAACTATATAATATATAGTTTTGAAAGTT
1 TTTTGAAAA--ATATAATATATAGGTTTAAAAGTT
* *
130103 TTTTTAAAAATATAATATAT-GGTTTAAAATTAT
1 TTTTGAAAAATATAATATATAGGTTTAAAAGT-T
* *
130136 TTTTGAAATATATATTATATA
1 TTTTGAAAAATATAATATATA
130157 ATTTATACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 8 0.18
33 29 0.64
35 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (33 bp):
TTTTGAAAAATATAATATATAGGTTTAAAAGTT
Found at i:131035 original size:8 final size:8
Alignment explanation
Indices: 131019--131078 Score: 70
Period size: 8 Copynumber: 7.5 Consensus size: 8
131009 TCTTCATTTC
131019 ATTTT-TT
1 ATTTTATT
131026 ATTTTATT
1 ATTTTATT
131034 ATTTTATT
1 ATTTTATT
*
131042 ATTTTTTT
1 ATTTTATT
131050 ATTTTTATT
1 A-TTTTATT
131059 ATTTT-TT
1 ATTTTATT
*
131066 CTTTTATTT
1 ATTTTA-TT
131075 ATTT
1 ATTT
131079 ATTTATGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 11 0.24
8 22 0.49
9 12 0.27
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (8 bp):
ATTTTATT
Found at i:131043 original size:16 final size:15
Alignment explanation
Indices: 131019--131097 Score: 72
Period size: 17 Copynumber: 4.9 Consensus size: 15
131009 TCTTCATTTC
131019 ATTTT-TTATTTTATT
1 ATTTTATTATTTT-TT
131034 ATTTTATTATTTTTTT
1 ATTTTATTA-TTTTTT
131050 ATTTTTATTATTTTTT
1 A-TTTTATTATTTTTT
*
131066 CTTTTATTTATTTATTT
1 ATTTTA-TTATTT-TTT
131083 ATGTTCT-TTATTTTT
1 AT-TT-TATTATTTTT
131098 ATTACTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
15 10 0.18
16 20 0.36
17 22 0.40
18 2 0.04
19 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (15 bp):
ATTTTATTATTTTTT
Found at i:131048 original size:25 final size:23
Alignment explanation
Indices: 131019--131097 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
131009 TCTTCATTTC
*
131019 ATTTTTTATTTTATTATTTTATT
1 ATTTTTTATTTTTTTATTTTATT
131042 ATTTTTTTATTTTTATTATTTT-TT
1 A-TTTTTTATTTTT-TTATTTTATT
* *
131066 CTTTTATTTATTTATTTATGTTCT-TT
1 -ATTT-TTTATTTTTTTAT-TT-TATT
131092 ATTTTT
1 ATTTTT
131098 ATTACTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 22 0.48
25 20 0.43
26 3 0.07
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (23 bp):
ATTTTTTATTTTTTTATTTTATT
Found at i:131077 original size:33 final size:32
Alignment explanation
Indices: 131020--131097 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
131010 CTTCATTTCA
*
131020 TTTTTTATTTTATTATTTTATTATTTTTTTAT-
1 TTTTTTATTTT-TTATTTTATTATTTATTTATG
*
131052 TTTTATTATTTTTTCTTTTATTTATTTATTTATG
1 TTTT-TTATTTTTTATTTTA-TTATTTATTTATG
*
131086 TTCTTTATTTTT
1 TTTTTTATTTTT
131098 ATTACTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 11 0.28
33 26 0.65
34 3 0.08
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (32 bp):
TTTTTTATTTTTTATTTTATTATTTATTTATG
Found at i:133378 original size:18 final size:18
Alignment explanation
Indices: 133352--133388 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
133342 TGCTCTGTTC
*
133352 TAAAGCCCTGGTTAATTG
1 TAAAACCCTGGTTAATTG
133370 TAAAACCCTGGTTAATTG
1 TAAAACCCTGGTTAATTG
133388 T
1 T
133389 GCATTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (18 bp):
TAAAACCCTGGTTAATTG
Found at i:137219 original size:18 final size:18
Alignment explanation
Indices: 137181--137233 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
137171 TTACGTAAAC
**
137181 ATTAAAAATATAAGAATTT
1 ATTAAAAAT-TAATTATTT
*
137200 ATTTAAAATTAATTATTT
1 ATTAAAAATTAATTATTT
137218 ATTAAAAATTAATTAT
1 ATTAAAAATTAATTAT
137234 AATTTTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAAAATTAATTATTT
Found at i:137632 original size:18 final size:21
Alignment explanation
Indices: 137606--137648 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
137596 TTGATTATTA
*
137606 TTAATATC-AAAT-AAAA-AT
1 TTAAGATCAAAATCAAAATAT
137624 TTAAGATCAAAATCAAAATAT
1 TTAAGATCAAAATCAAAATAT
137645 TTAA
1 TTAA
137649 TCTTAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 4 0.19
20 4 0.19
21 6 0.29
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAGATCAAAATCAAAATAT
Found at i:139062 original size:28 final size:28
Alignment explanation
Indices: 138974--139072 Score: 69
Period size: 28 Copynumber: 3.5 Consensus size: 28
138964 AATTCTAAAC
* *
138974 AAATTA-AATT-AATTATTATTTTAATAAA
1 AAATTATAATTAAATTA-TAATTAAAT-AA
* ** *
139002 AAATTATAATTTAATTATAATTCCATTA
1 AAATTATAATTAAATTATAATTAAATAA
*
139030 AAATTATAATTAAATTTTAA-TAAATAA
1 AAATTATAATTAAATTATAATTAAATAA
* *
139057 ATAATTTTAAATAAAT
1 A-AATTATAATTAAAT
139073 CCTTATAGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 5 0.09
28 37 0.65
29 10 0.18
30 5 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATTATAATTAAATTATAATTAAATAA
Found at i:144630 original size:14 final size:13
Alignment explanation
Indices: 144603--144654 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
144593 TTTATTGGAC
144603 TTTTTTATTGTAATT
1 TTTTTTA-T-TAATT
144618 TTTTTTAGTTAATT
1 TTTTTTA-TTAATT
**
144632 AATTTTATTAATT
1 TTTTTTATTAATT
*
144645 TTGTTTATTA
1 TTTTTTATTA
144655 CAATTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 13 0.42
14 10 0.32
15 8 0.26
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TTTTTTATTAATT
Found at i:150296 original size:22 final size:22
Alignment explanation
Indices: 150270--150360 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
150260 TAATAAATTA
150270 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
150292 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
** *
150317 TACAATAATAAATCAATCTATAT
1 TTTAA-AATAAATCAATCCATAT
150340 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
150361 CTAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 35 0.61
23 4 0.07
25 4 0.07
26 14 0.25
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:150369 original size:22 final size:22
Alignment explanation
Indices: 150272--150444 Score: 103
Period size: 22 Copynumber: 7.2 Consensus size: 22
150262 ATAAATTATT
**
150272 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
150294 TAAAATAAATCAATCCATACAA
1 TAAAATAAATCAATCCATATAA
* **
150316 CTACAATAATAAATCAATCTATATTT
1 -T--AA-AATAAATCAATCCATATAA
150342 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
* *
150365 TAAATTATTTAAAATAAATCCATACAA
1 TAAA--A--T-AAATCAATCCATATAA
**
150392 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
* *
150418 TAAAATAATTTAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
150441 TAAA
1 TAAA
150445 TTATTTAAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
22 48 0.41
23 15 0.13
25 5 0.04
26 27 0.23
27 4 0.03
28 13 0.11
29 1 0.01
30 2 0.02
31 1 0.01
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:150406 original size:76 final size:76
Alignment explanation
Indices: 150300--150460 Score: 286
Period size: 76 Copynumber: 2.1 Consensus size: 76
150290 ATTTTAAAAT
* *
150300 AAATCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAA
1 AAATAAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
150365 TAAATTATTTA
66 TAAATTATTTA
* *
150376 AAATAAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAATTTAATCCATACTAA
1 AAATAAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
150441 TAAATTATTTA
66 TAAATTATTTA
150452 AAATAAATC
1 AAATAAATC
150461 AATCCATATT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (76 bp):
AAATAAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
TAAATTATTTA
Found at i:150455 original size:32 final size:32
Alignment explanation
Indices: 150416--150567 Score: 137
Period size: 32 Copynumber: 5.4 Consensus size: 32
150406 CAATCCATAT
* *
150416 TTTAAAATAATTTAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
150448 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
150470 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
150502 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
150524 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
150556 TTTAAAATAAAT
1 TTTAAAATAAAT
150568 TATTTTAAAA
Statistics
Matches: 97, Mismatches: 3, Indels: 40
0.69 0.02 0.29
Matches are distributed among these distances:
22 32 0.33
23 3 0.03
24 2 0.02
26 6 0.06
28 6 0.06
30 2 0.02
31 4 0.04
32 42 0.43
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:150457 original size:54 final size:54
Alignment explanation
Indices: 150399--150567 Score: 311
Period size: 54 Copynumber: 3.1 Consensus size: 54
150389 CAACTACAAT
* *
150399 AATAAATCAATCCATATTTTAAAATAATTTAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
150453 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
150507 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
150561 AATAAAT
1 AATAAAT
150568 TATTTTAAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:150473 original size:22 final size:22
Alignment explanation
Indices: 150448--150490 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
150438 TAATAAATTA
150448 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
150470 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
150491 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:150479 original size:76 final size:76
Alignment explanation
Indices: 150300--150490 Score: 276
Period size: 76 Copynumber: 2.5 Consensus size: 76
150290 ATTTTAAAAT
* * *
150300 AAATCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAA
1 AAATAAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
150365 TAAATTATTTA
66 TAAATTATTTA
* * *
150376 AAATAAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAATTTAATCCATACTAA
1 AAATAAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
150441 TAAATTATTTA
66 TAAATTATTTA
* * **
150452 AAATAAATCAATCCATATTTTAA-AATAAATCAATCCATA
1 AAATAAATCAATACA-ACTACAATAATAAATCAATCCATA
150491 CTAATAAATT
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
76 101 0.96
77 4 0.04
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (76 bp):
AAATAAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
TAAATTATTTA
Found at i:150499 original size:22 final size:22
Alignment explanation
Indices: 150450--150498 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
150440 ATAAATTATT
**
150450 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
150472 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
150495 TAAA
1 TAAA
150499 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:150528 original size:22 final size:22
Alignment explanation
Indices: 150502--150602 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
150492 TAATAAATTA
150502 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
150524 TTTAAAATAAATCAATCTATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
150547 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
150571 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
150593 TTTATAATAA
1 TTTAAAATAA
150603 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:150606 original size:47 final size:49
Alignment explanation
Indices: 150413--150679 Score: 174
Period size: 54 Copynumber: 5.3 Consensus size: 49
150403 AATCAATCCA
* * * *
150413 TATTTTAAAATAATTTAATCCATACTAATAAATTATTTAAAATAAA-TCAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAATAATTT---ATAAAGTAAAT
* *
150464 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAAT
1 ---TATTTTAAAATAAATCAATCCATACTAATAAATAATTT---ATAAAGTAAAT
* *
150518 CCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTA-AAA-TAAAT
1 ---TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAGTAAAT
**
150568 TATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTAAAGTAAAT
1 TATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TAAAGTAAAT
* * ** * *
150620 TATTTTATAATAAAT-TAT-TTTA-TAATAAATTATTT-TAAAATAAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAGTAAAT
*
150665 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
150680 TATTTTAAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
45 24 0.13
46 3 0.02
47 31 0.16
49 7 0.04
50 12 0.06
51 6 0.03
52 19 0.10
54 89 0.47
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (49 bp):
TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAGTAAAT
Found at i:150641 original size:45 final size:45
Alignment explanation
Indices: 150590--150727 Score: 217
Period size: 45 Copynumber: 3.1 Consensus size: 45
150580 AATCAATCCA
* *
150590 TATTTTATAATAATTTATTTTAAAGTAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
150635 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
* * *
150680 TATTTTAAAATAAATTATTTTAAAATAAATAACTTTAT--TAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
150723 TATTT
1 TATTT
150728 AAAATTATTT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 10 0.11
45 78 0.89
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (45 bp):
TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
Found at i:150716 original size:15 final size:15
Alignment explanation
Indices: 150547--150709 Score: 202
Period size: 15 Copynumber: 10.5 Consensus size: 15
150537 AATCTATACT
150547 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
150561 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
150576 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
150598 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
150613 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
150628 AATAAATTATTTTAT
1 AATAAATTATTTTAA
150643 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
150658 AATAAATTATTTTAT
1 AATAAATTATTTTAA
150673 AATAAATTATTTTAA
1 AATAAATTATTTTAA
150688 AATAAATTATTTTAA
1 AATAAATTATTTTAA
150703 AATAAAT
1 AATAAAT
150710 AACTTTATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.07
15 105 0.80
17 1 0.01
18 2 0.02
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:153605 original size:14 final size:13
Alignment explanation
Indices: 153578--153612 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
153568 TAAGATTTTC
153578 TTTGAAAAACATT
1 TTTGAAAAACATT
*
153591 TTTGAAAAACAAT
1 TTTGAAAAACATT
153604 TTTGTAAAA
1 TTTG-AAAA
153613 TTACTCCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (13 bp):
TTTGAAAAACATT
Found at i:155896 original size:23 final size:22
Alignment explanation
Indices: 155868--155943 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
155858 CATATCAGAG
155868 TGCACCGATGCACATTCAAGGAA
1 TGCACCGATGCACATTCAAGG-A
* * *
155891 TGCACCGGTGCACCTTCATGG-
1 TGCACCGATGCACATTCAAGGA
* *
155912 TGTATCGATGCACATTCAAGGGA
1 TGCACCGATGCACATTCAA-GGA
*
155935 TGCATCGAT
1 TGCACCGAT
155944 ACCCTCTCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
21 14 0.33
22 2 0.05
23 26 0.62
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (22 bp):
TGCACCGATGCACATTCAAGGA
Found at i:159668 original size:20 final size:21
Alignment explanation
Indices: 159629--159668 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
159619 GAAGCTTTAA
* *
159629 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
159650 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
159669 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:161822 original size:64 final size:65
Alignment explanation
Indices: 161734--161886 Score: 202
Period size: 65 Copynumber: 2.4 Consensus size: 65
161724 ATAAGACTTA
* * * * *
161734 GTGCATCGGTACACTAATTACATTCGATGTTTC-AAAGAGCCAGGAGTGCATCGATGCATGG-TC
1 GTGCATCGATACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCT-
161797 T
65 T
* * **
161798 GTGCATCGCTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGATACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
161863 GTGCATCGATACACAAAATGCATT
1 GTGCATCGATACACAAAATGCATT
161887 TGAAATGGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 29 0.37
65 48 0.62
66 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (65 bp):
GTGCATCGATACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:162387 original size:44 final size:45
Alignment explanation
Indices: 162302--162388 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 45
162292 GGCGTTTTGT
*
162302 CCAAAAAATGCCGCTAAATGTTCTGACATATAGTGATATTTGTTC
1 CCAAAAAATGCCGCTAAATGTTCTGACATATAGTGACATTTGTTC
* * * *
162347 CCAAAAAA-GTCGCTAAATGTTTTGTCATATAGTGGCATTTGT
1 CCAAAAAATGCCGCTAAATGTTCTGACATATAGTGACATTTGT
162389 GAATGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 29 0.78
45 8 0.22
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (45 bp):
CCAAAAAATGCCGCTAAATGTTCTGACATATAGTGACATTTGTTC
Found at i:164103 original size:2 final size:2
Alignment explanation
Indices: 164098--164126 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
164088 AAAAAATGAA
164098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
164127 AAATGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164519 original size:34 final size:34
Alignment explanation
Indices: 164481--164567 Score: 126
Period size: 33 Copynumber: 2.6 Consensus size: 34
164471 AGTCCAACTT
* *
164481 GGACTCAAAATGC-TTCGGTTTTAGTGTTTTAATA
1 GGACTCAAAATACGTT-GGTTTTAGTGTTTAAATA
164515 GGACTC-AAATACGTTGGTTTTAGTGTTTAAATA
1 GGACTCAAAATACGTTGGTTTTAGTGTTTAAATA
164548 GGACTC-AAATACGTTGGTTT
1 GGACTCAAAATACGTTGGTTT
164568 ATTTTCTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
33 42 0.84
34 8 0.16
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (34 bp):
GGACTCAAAATACGTTGGTTTTAGTGTTTAAATA
Found at i:164538 original size:33 final size:33
Alignment explanation
Indices: 164497--164567 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
164487 AAAATGCTTC
*
164497 GGTTTTAGTGTTTTAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTAAATAGGACTCAAATACGTT
164530 GGTTTTAGTGTTTAAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTAAATAGGACTCAAATACGTT
164563 GGTTT
1 GGTTT
164568 ATTTTCTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (33 bp):
GGTTTTAGTGTTTAAATAGGACTCAAATACGTT
Found at i:164639 original size:16 final size:16
Alignment explanation
Indices: 164614--164712 Score: 66
Period size: 16 Copynumber: 6.2 Consensus size: 16
164604 CGGGGCCTAC
164614 AAAA-ATAATAAAATA
1 AAAATATAATAAAATA
164629 AAAATATAATAATAATA
1 AAAATATAATAA-AATA
164646 ATAAATA-AAT-AAATA
1 A-AAATATAATAAAATA
164661 AATAA-ATAA-ATAAATA
1 AA-AATATAATA-AAATA
* *
164677 AATATAT-ATATATATA
1 AAAATATAATA-AAATA
* *
164693 TATAATATAATATAATA
1 -AAAATATAATAAAATA
164710 AAA
1 AAA
164713 TGTTATTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 21
0.70 0.07 0.22
Matches are distributed among these distances:
14 2 0.03
15 15 0.23
16 25 0.38
17 16 0.24
18 8 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATATAATAAAATA
Found at i:164654 original size:4 final size:4
Alignment explanation
Indices: 164645--164711 Score: 73
Period size: 4 Copynumber: 16.5 Consensus size: 4
164635 TAATAATAAT
* * *
164645 AATA AATA AATA AATA AATA AATA AATA AATA AATA TATA TATA TATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
164693 TAT- AATA TAATA TAATA AA
1 AATA AATA -AATA -AATA AA
164712 ATGTTATTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 2 0.03
4 48 0.81
5 9 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (4 bp):
AATA
Found at i:165145 original size:81 final size:81
Alignment explanation
Indices: 165031--165405 Score: 318
Period size: 84 Copynumber: 4.6 Consensus size: 81
165021 GCAACGCGGT
* * * * *
165031 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTGTTTGG-CAGATAGACCTTCTTGCC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATA-ACCTTCTAGCC
165094 TTGAGCTATGATGCAAA
65 TTGAGCTATGATGCAAA
* * * *
165111 TGATGGTGCCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGACATG-TAACCCTTCT
1 TGAT-GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GACA-GATAA-CCTTCT
* **
165174 ACCCTTGAATTATGCCAT--AAA
61 AGCCTTGAGCTATG--ATGCAAA
* * * *
165195 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG-CAGATAGCCCTTCTCGAC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATA-ACCTTCTAGCC
* *
165259 TTAAGCTATGCTGCAAA
65 TTGAGCTATGATGCAAA
* * * * *
165276 TGATATG-CCTTGTAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCATTCTA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGG--ACAGATAACC-TTCTA
* *
165340 GCCTTGAGTTAT-ACTGTAAA
62 GCCTTGAGCTATGA-TGCAAA
* *
165360 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGCCTTTGG
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
165406 TGGGCACGAT
Statistics
Matches: 232, Mismatches: 43, Indels: 36
0.75 0.14 0.12
Matches are distributed among these distances:
79 1 0.00
80 33 0.14
81 66 0.28
82 1 0.00
83 11 0.05
84 90 0.39
85 28 0.12
86 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (81 bp):
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATAACCTTCTAGCCT
TGAGCTATGATGCAAA
Found at i:165362 original size:165 final size:165
Alignment explanation
Indices: 165031--165405 Score: 488
Period size: 165 Copynumber: 2.3 Consensus size: 165
165021 GCAACGCGGT
* * * * * *
165031 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTGTTTGGCAGATAGACCTTCTTGCCT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTCGACT
* * * * *
165095 TGAGCTATGATGCAAATGATGGTGCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGA
66 TAAGCTATGATGCAAATGATGATGCCTTTGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGGTCA
* *
165160 CATGTAACCCTTCTACCCTTGAATTATGCCATAAA
131 CATGTAACCATTCTACCCTTGAATTATACCATAAA
* *
165195 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTCGACT
* *
165260 TAAGCTATGCTGCAAATGAT-ATGCC-TTGTAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT
66 TAAGCTATGATGCAAATGATGATGCCTTTG-AGCTGAGCGGAGTCGAACTCGAAGGTC-TTTGGT
* * **
165323 CACA-GATAACCATTCTAGCCTTGAGTTATACTGTAAA
129 CACATG-TAACCATTCTACCCTTGAATTATACCATAAA
* *
165360 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGCCTTTGG
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
165406 TGGGCACGAT
Statistics
Matches: 183, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
163 3 0.02
164 42 0.23
165 138 0.75
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTCGACT
TAAGCTATGATGCAAATGATGATGCCTTTGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGGTCA
CATGTAACCATTCTACCCTTGAATTATACCATAAA
Found at i:165730 original size:110 final size:110
Alignment explanation
Indices: 165521--165998 Score: 696
Period size: 110 Copynumber: 4.4 Consensus size: 110
165511 TGGTATTATT
* * ** *
165521 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAGTTGTTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * * *
165582 TGACAGCCAGCCGTCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * **
165627 TCGAGTCTAATATCATTCTTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
165692 TGACAATCAGTCGCCCCTTCACTGTGAAGTTG-GACTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAG-CTTGTGTTGTC
* * *
165737 TCGAGTCCAATATCCTTCACTATGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTATTTG
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTG-AAAAGTTGTTTG
*
165802 TTGACAGTCAGTTGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
65 TTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
165848 TTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
165913 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * *
165958 TAGAGTCCAGTATCCTTCGATGTGAAGTTGAAATTGACTCT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
165999 AAAGCTGCAA
Statistics
Matches: 335, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
106 36 0.11
109 1 0.00
110 196 0.59
111 101 0.30
112 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (110 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:165899 original size:221 final size:217
Alignment explanation
Indices: 165521--165998 Score: 683
Period size: 221 Copynumber: 2.2 Consensus size: 217
165511 TGGTATTATT
* * * ** *
165521 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTC-TGAAACTGGGAAGTTGTTTATTGA
1 TCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTTGAAACTGAAAAGTTATTTATTGA
* * **
165585 CAGCCAGCCGTCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCTTTGT
66 CAGCCAGCCGCCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGT
165650 GAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAATCAGTCGCCCCTTCACT
131 GAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAATCAGTCGCCCCTTCACT
165715 GTGAAGTTG-GACTTGTGTTGTC
196 GTGAAGTTGAG-CTTGTGTTGTC
* *
165737 TCGAGTCCAATATCCTTCACTATGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTATTTG
1 TCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCT---TGAAACTG-AAAAGTTATTTA
* ** * * *
165802 TTGACAGTCAGTTGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCG
62 TTGACAGCCAGCCGCCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCG
*
165867 CTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTT
127 CTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAATCAGTCGCCCCTT
*
165932 CGCTGTGAAGTTGAGCTTGTGTTGTC
192 CACTGTGAAGTTGAGCTTGTGTTGTC
* *
165958 TAGAGTCCAGTATCCTTCGA-TGTGAAGTTGAAATTGACTCT
1 TCGAGTCCAATATCCTTC-ACTGTGAAGTTGAAATTGACTCT
165999 AAAGCTGCAA
Statistics
Matches: 232, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
216 36 0.16
220 8 0.03
221 186 0.80
222 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (217 bp):
TCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTTGAAACTGAAAAGTTATTTATTGA
CAGCCAGCCGCCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGT
GAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAATCAGTCGCCCCTTCACT
GTGAAGTTGAGCTTGTGTTGTC
Found at i:169813 original size:16 final size:16
Alignment explanation
Indices: 169771--169814 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
169761 AAATTAGGAG
* *
169771 AAAATGAAAAAAATAT
1 AAAATGAAATAAATAA
*
169787 AAAGT-AAATAAATAA
1 AAAATGAAATAAATAA
169802 AAAATGAAATAAA
1 AAAATGAAATAAA
169815 AAGAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (16 bp):
AAAATGAAATAAATAA
Found at i:170127 original size:34 final size:34
Alignment explanation
Indices: 170088--170174 Score: 117
Period size: 33 Copynumber: 2.6 Consensus size: 34
170078 AGTCCTACTT
*
170088 GGACTCAAAATGC-TTCGGTTTTAGTGTTTCAATA
1 GGACTCAAAATACGTT-GGTTTTAGTGTTTCAATA
*
170122 TGACTC-AAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAAATACGTTGGTTTTAGTGTTTCAATA
*
170155 GGACTC-AAATATGTTGGTTT
1 GGACTCAAAATACGTTGGTTT
170175 ATTTTCTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
33 41 0.85
34 7 0.15
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (34 bp):
GGACTCAAAATACGTTGGTTTTAGTGTTTCAATA
Found at i:170145 original size:33 final size:33
Alignment explanation
Indices: 170104--170174 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
170094 AAAATGCTTC
*
170104 GGTTTTAGTGTTTCAATATGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
*
170137 GGTTTTAGTGTTTCAATAGGACTCAAATATGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
170170 GGTTT
1 GGTTT
170175 ATTTTCTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
Found at i:170240 original size:14 final size:14
Alignment explanation
Indices: 170221--170282 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
170211 CGGGGCCTAC
170221 AAAAATAATTAAAT
1 AAAAATAATTAAAT
170235 AAAAATATATTAATAAT
1 AAAAATA-ATT-A-AAT
*
170252 AATAAATAAATAAAT
1 AA-AAATAATTAAAT
*
170267 AAAATATAATAAAAT
1 AAAA-ATAATTAAAT
170282 A
1 A
170283 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.22
15 17 0.43
16 2 0.05
17 7 0.17
18 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATAATTAAAT
Found at i:170261 original size:28 final size:27
Alignment explanation
Indices: 170222--170282 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
170212 GGGGCCTACA
* *
170222 AAAATAATTAAATAAA-AATATATTAAT
1 AAAATAAATAAATAAATAAAATA-TAAT
170249 AATAATAAATAAATAAATAAAATATAAT
1 AA-AATAAATAAATAAATAAAATATAAT
170277 AAAATA
1 AAAATA
170283 TTTTTGTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.20
28 19 0.63
29 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAATAAATAAATAAATAAAATATAAT
Found at i:170266 original size:32 final size:30
Alignment explanation
Indices: 170223--170282 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
170213 GGGCCTACAA
* *
170223 AAATAATTAAATAAAAATATATTAATAATAAT
1 AAATAAATAAAT-AAAATATAATAA-AATAAT
170255 AAATAAATAAATAAAATATAATAAAATA
1 AAATAAATAAATAAAATATAATAAAATA
170283 TTTTTGTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 11 0.42
32 11 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATAAATAAATAAAATATAATAAAATAAT
Found at i:170267 original size:18 final size:18
Alignment explanation
Indices: 170232--170279 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
170222 AAAATAATTA
* *
170232 AATAA-AAATATATTAAT
1 AATAATAAATAAATAAAT
170249 AATAATAAATAAATAAAT
1 AATAATAAATAAATAAAT
170267 AA-AATATAATAAA
1 AATAATA-AATAAA
170280 ATATTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAAATAAATAAAT
Found at i:171449 original size:3 final size:3
Alignment explanation
Indices: 171443--171486 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
171433 TTCATTTAAA
171443 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
171487 AAAAAATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:184414 original size:7 final size:7
Alignment explanation
Indices: 184402--184460 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
184392 ATGCTTGAAG
184402 AAAAAGA
1 AAAAAGA
184409 AAAAAGA
1 AAAAAGA
184416 AAAAA-A
1 AAAAAGA
*
184422 AAGAAGA
1 AAAAAGA
*
184429 AAGAA-A
1 AAAAAGA
184435 AAAAAGA
1 AAAAAGA
*
184442 AAAGA-A
1 AAAAAGA
184448 AAAAAGA
1 AAAAAGA
184455 AAAAAG
1 AAAAAG
184461 GATGTCAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 15 0.33
7 30 0.67
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:184417 original size:13 final size:12
Alignment explanation
Indices: 184399--184459 Score: 86
Period size: 13 Copynumber: 4.8 Consensus size: 12
184389 ATTATGCTTG
184399 AAGAAAAAGAAAA
1 AAGAAAAA-AAAA
184412 AAGAAAAAAAAA
1 AAGAAAAAAAAA
184424 GAAGAAAGAAAAAA
1 -AAGAAA-AAAAAA
184438 AAGAAAAGAAAAA
1 AAGAAAA-AAAAA
184451 AAGAAAAAA
1 AAGAAAAAA
184460 GGATGTCAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.16
13 32 0.71
14 6 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:185769 original size:94 final size:94
Alignment explanation
Indices: 185458--186027 Score: 913
Period size: 94 Copynumber: 6.1 Consensus size: 94
185448 ACAAGTGCCG
185458 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-A
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
* * *
185522 AAACCCTATCATTGGATTTGAAAGATGAA
66 AAAACCAATCATTGAATTTGAAAGATGAA
* *
185551 TGTGCTCAAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCTA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
* *
185615 AAACCCCATCATTGAATTTGAAAGATGAA
66 AAAACCAATCATTGAATTTGAAAGATGAA
*
185644 GGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
185709 AAAACCAATCATTGAATTTGAAAGATGAA
66 AAAACCAATCATTGAATTTGAAAGATGAA
*
185738 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAACCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
185803 AAAACCAATCATTGAATTTGAAAGATGAA
66 AAAACCAATCATTGAATTTGAAAGATGAA
*
185832 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG-
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
*
185896 AAAACCAATCATTGGATTTG-AA-AT-AA
66 AAAACCAATCATTGAATTTGAAAGATGAA
* * *
185922 AGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-ACC
1 TGTG-CTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
* *
185986 -ACAGAACCAATCATTGGATTTGAAAGATGAA
64 GA-AAAACCAATCATTGAATTTGAAAGATGAA
186017 TGTGCTCATAG
1 TGTGCTCATAG
186028 TACAAATAAA
Statistics
Matches: 448, Mismatches: 20, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
90 4 0.01
91 7 0.02
92 75 0.17
93 168 0.38
94 190 0.42
95 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (94 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
AAAACCAATCATTGAATTTGAAAGATGAA
Found at i:185959 original size:280 final size:279
Alignment explanation
Indices: 185458--186027 Score: 925
Period size: 280 Copynumber: 2.0 Consensus size: 279
185448 ACAAGTGCCG
*
185458 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAACCCCAA
* * *
185523 AACCCTATCATTGGATTTGAAAGATGAATGTGCTCAAAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AAACCAATCATTGAATTTGAAAGATGAATGTGCTCAAAGCATCTTCTGGAAGTGTTCTTTGAGTT
* * * * *
185588 ATCTGATCTGGTTTGGTATGAACCCTAAAACCCCATCATTGAATTTGAAAGATGAAGGTGCTCAT
131 ATCTGATCTGGTTTGATATGAACCCGAAAACCCAATCATTGAATTTGAAAGATAAAGGTACTCAT
*
185653 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCCCGAAAAACCAA
196 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCAC--AAAACCAA
185717 TCATTGAATTTGAAAGATGAA
259 TCATTGAATTTGAAAGATGAA
185738 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAACCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAACCCC-A
*
185803 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
65 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCAAAGCATCTTCTGGAAGTGTTCTTTGAGT
*
185868 TATCTGATCTGGTTTGATATGAACCCCGAAAA-CCAATCATTGGATTTG-AA-ATAAAGAG-ACT
130 TATCTGATCTGGTTTGATATGAA-CCCGAAAACCCAATCATTGAATTTGAAAGATAAAG-GTACT
*
185929 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACC
193 C-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAAAACC
*
185994 AATCATTGGATTTGAAAGATGAA
257 AATCATTGAATTTGAAAGATGAA
186017 TGTGCTCATAG
1 TGTGCTCATAG
186028 TACAAATAAA
Statistics
Matches: 271, Mismatches: 14, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
279 46 0.17
280 115 0.42
281 103 0.38
282 7 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (279 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAACCCCAA
AAACCAATCATTGAATTTGAAAGATGAATGTGCTCAAAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTTGATATGAACCCGAAAACCCAATCATTGAATTTGAAAGATAAAGGTACTCAT
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAAAACCAATC
ATTGAATTTGAAAGATGAA
Found at i:186172 original size:115 final size:115
Alignment explanation
Indices: 185916--186134 Score: 352
Period size: 115 Copynumber: 1.9 Consensus size: 115
185906 ATTGGATTTG
* * *
185916 AAATAAAGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG
1 AAATAAAGAGACCCAATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTATG
* * *
185981 AAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAC
66 AAACCACAGAACCAATCATTGGAATTAAAAGATGAATCTGCTCATAGTAC
*
186031 AAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTA-G
1 AAATAAAGAGACCCAATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTATG
*
186095 GAACCACAGAACCAATCATTGGAATTAAAAGATGAA-CTGC
66 AAACCACAGAACCAATCATTGGAATTAAAAGATGAATCTGC
186135 ATGATCGTCT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 3 0.03
114 34 0.35
115 61 0.62
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (115 bp):
AAATAAAGAGACCCAATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTATG
AAACCACAGAACCAATCATTGGAATTAAAAGATGAATCTGCTCATAGTAC
Found at i:187145 original size:113 final size:113
Alignment explanation
Indices: 186857--187485 Score: 780
Period size: 113 Copynumber: 5.7 Consensus size: 113
186847 TCCAGAAAAA
* * *
186857 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * ** *
186922 CAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTC
66 CAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
*
186970 GAGTTCATAAT---AAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* *
187032 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTACCAGTTC
66 CAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
*
187080 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * * * *
187145 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTA
66 CAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
* * *
187193 AAGTTCATAATGAGAAGAACTCGTCATCTGAAG-A---AGAAGAAGTTCATAATGAGAATAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTT
* * **
187254 GTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTC
63 GTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
* * *
187305 GAGTTCATAATAAGAAGAACTCATCTGAAGAAAGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * * * * ***
187370 CAACCTTTTGC--AAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
66 CAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
* * * * *
187416 AAGTTCATAATGAGAAAAACTCATCTGAAGAA-G-A-AGAAA-TTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
187477 CAACCTTTT
66 CAACCTTTT
187486 ACATAATTTT
Statistics
Matches: 454, Mismatches: 52, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
107 28 0.06
108 4 0.01
109 11 0.02
110 102 0.22
111 53 0.12
112 83 0.18
113 161 0.35
115 2 0.00
116 10 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
CAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATTACCAGTTC
Found at i:187329 original size:225 final size:221
Alignment explanation
Indices: 186857--187485 Score: 827
Period size: 223 Copynumber: 2.8 Consensus size: 221
186847 TCCAGAAAAA
* * * *
186857 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * ** * **
186922 CAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAAT---AAG
66 CAACCTTTTG-TTAAATTCATCATTTGATGGATCAGCATTACCAGGTAAAGTTCATAATGAGAAG
* * *
186984 AACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGTTTAAAT
130 AACTCATCTGAAG-A---AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAAT
** *
187049 TCATCATTTGATGGATTAACATTACCAGTTC
191 TCATCATTCAATGGATCAACATTACCAGTTC
187080 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * *
187145 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAG
66 CAACCTTTTG-TTAAATTCATCATTTGATGGATCAGCATTACCAGGTAAAGTTCATAATGAGAAG
* * *
187210 AACTCGTCATCTGAAGAAGAAGAAGTTCATAATGAGAATAACTTGTTCAACTTTTTGCTTGAATT
130 AA--C-TCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATT
187275 CATCATTCAATGGATCAACATTACCAGTTC
192 CATCATTCAATGGATCAACATTACCAGTTC
* *
187305 GAGTTCATAATAAGAAGAACTCATCTGAAGAAAGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
* * * * * *
187370 CAACCTTTTG-CAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAA
66 CAACCTTTTGTTAAATTCATCATTTGATGGATCAGCATTACCAG-GTAAAGTTCATAATGAGAAG
* * *
187433 AACTCATCTGAAGAAGAAGAAATTCACAATGAGAAGAGCTTGTTCAACCTTTT
130 AACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
187486 ACATAATTTT
Statistics
Matches: 360, Mismatches: 39, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
220 45 0.12
221 1 0.00
223 154 0.43
224 1 0.00
225 142 0.39
226 5 0.01
228 2 0.01
229 10 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (221 bp):
AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTT
CAACCTTTTGTTAAATTCATCATTTGATGGATCAGCATTACCAGGTAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATC
ATTCAATGGATCAACATTACCAGTTC
Found at i:187557 original size:120 final size:120
Alignment explanation
Indices: 187406--187691 Score: 364
Period size: 120 Copynumber: 2.4 Consensus size: 120
187396 TGGATCAGCT
* *
187406 TTTCCAGAGAAAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAATTCACAATGAGAAGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAG
* * * * * * * *
187471 CTTGTTCAACCTTTT-ACATAATTTTATCATAAAAGGAGATATATTAGCATCAACC
66 CTTATTCAACCTTTTGA-ATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
* * *
187526 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATAAGAAGTTCATAATGAGAAGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAG
* * * *
187591 CTTATTCAACCTTTTGAATGACTCTATCACATAAGGAAATAGGTCAACATCATCC
66 CTTATTCAACCTTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
*
187646 ---CCAGCGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAA
187692 GAATTTATTC
Statistics
Matches: 146, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
117 4 0.03
118 39 0.27
120 102 0.70
121 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (120 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAG
CTTATTCAACCTTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
Found at i:187837 original size:3 final size:3
Alignment explanation
Indices: 187831--187865 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
187821 TTCATTTAAA
187831 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
187866 AAAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 28 0.93
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:189556 original size:23 final size:24
Alignment explanation
Indices: 189530--189582 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
189520 CATTTTCTGA
*
189530 TATTTCTAACTA-A-ATAAATATTT
1 TATTTCTAAATATATATAAAT-TTT
*
189553 TATTTATAAATATATATAAATTTT
1 TATTTCTAAATATATATAAATTTT
189577 T-TTTCT
1 TATTTCT
189583 TCTCATACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 14 0.56
24 5 0.20
25 6 0.24
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTCTAAATATATATAAATTTT
Found at i:191281 original size:21 final size:21
Alignment explanation
Indices: 191255--191297 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
191245 CTCTATACGA
*
191255 TTAAACTGTTACCGGATGAAC
1 TTAAACTCTTACCGGATGAAC
191276 TTAAACTCTTACCGGATGAAC
1 TTAAACTCTTACCGGATGAAC
191297 T
1 T
191298 ATTTCGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (21 bp):
TTAAACTCTTACCGGATGAAC
Found at i:191722 original size:16 final size:17
Alignment explanation
Indices: 191696--191733 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
191686 AAAATAGGTG
191696 AAGGGGAAAAAAAGAAA
1 AAGGGGAAAAAAAGAAA
*
191713 AAGGGG-AAAAATGAAA
1 AAGGGGAAAAAAAGAAA
191729 AAGGG
1 AAGGG
191734 TTAAAGGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (17 bp):
AAGGGGAAAAAAAGAAA
Found at i:191862 original size:43 final size:42
Alignment explanation
Indices: 191767--191965 Score: 181
Period size: 41 Copynumber: 4.8 Consensus size: 42
191757 TGTAAACTTG
* * * *
191767 CGGCATTTGTAAACACAAATGTCACTAAAGTACGGGTCTTTAG
1 CGGCGTTTGTAAACA-AAATGCCACTAAAGTACGAGTCTTTAA
* *
191810 CAGAC-TTTGTAAACACAAAAGCCACTAAAGTACGAGTCTTTAA
1 C-GGCGTTTGTAAACA-AAATGCCACTAAAGTACGAGTCTTTAA
* * *
191853 CGGCGTTTGTATA-AAAATGCCACTAAAGTTCGAGTCTATAA
1 CGGCGTTTGTAAACAAAATGCCACTAAAGTACGAGTCTTTAA
* * ** * *
191894 CGTCTTTTGT-ATTAAAACGCCACTAAAGTACGAGTCTTTAG
1 CGGCGTTTGTAAACAAAATGCCACTAAAGTACGAGTCTTTAA
* * *
191935 CGGCGTTTGTATA-AAAACGCCACTAATGTAC
1 CGGCGTTTGTAAACAAAATGCCACTAAAGTAC
191966 TGATAAATTA
Statistics
Matches: 129, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 81 0.63
42 3 0.02
43 43 0.33
44 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (42 bp):
CGGCGTTTGTAAACAAAATGCCACTAAAGTACGAGTCTTTAA
Found at i:191887 original size:41 final size:41
Alignment explanation
Indices: 191789--191965 Score: 203
Period size: 41 Copynumber: 4.3 Consensus size: 41
191779 ACACAAATGT
* * * * *
191789 CACTAAAGTACGGGTCTTTAGCAGAC-TTTGTAAACACAAAAGC
1 CACTAAAGTACGAGTCTTTAAC-GGCGTTTGTATA-A-AAACGC
*
191832 CACTAAAGTACGAGTCTTTAACGGCGTTTGTATAAAAATGC
1 CACTAAAGTACGAGTCTTTAACGGCGTTTGTATAAAAACGC
* * * * *
191873 CACTAAAGTTCGAGTCTATAACGTCTTTTGTATTAAAACGC
1 CACTAAAGTACGAGTCTTTAACGGCGTTTGTATAAAAACGC
*
191914 CACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGC
1 CACTAAAGTACGAGTCTTTAACGGCGTTTGTATAAAAACGC
*
191955 CACTAATGTAC
1 CACTAAAGTAC
191966 TGATAAATTA
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 85 0.74
42 3 0.03
43 27 0.23
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
CACTAAAGTACGAGTCTTTAACGGCGTTTGTATAAAAACGC
Found at i:192117 original size:41 final size:40
Alignment explanation
Indices: 192067--192181 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 40
192057 ATTACGGTAT
*
192067 TTGTATAAAAACGTCACTAAAGTACGAGTCTTTAGAGACG
1 TTGTATAAAAACGTCACTAAAGTACGAGTCTTTAGAGACA
* * * * *
192107 TT-TATTTAAAAACATCACTAAAGTATGAGTCTATAGCGGCA
1 TTGTA--TAAAAACGTCACTAAAGTACGAGTCTTTAGAGACA
* *
192148 TTGTAT-AAAACGACACTAAAGTACGAGTATTTAG
1 TTGTATAAAAACGTCACTAAAGTACGAGTCTTTAG
192182 TAGCATTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
39 25 0.41
40 3 0.05
41 31 0.51
42 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (40 bp):
TTGTATAAAAACGTCACTAAAGTACGAGTCTTTAGAGACA
Found at i:192188 original size:39 final size:39
Alignment explanation
Indices: 192067--192188 Score: 115
Period size: 39 Copynumber: 3.1 Consensus size: 39
192057 ATTACGGTAT
* *
192067 TTGTATAAAAACGTCACTAAAGTACGAGTCTTTAGAGACG
1 TTGTATAAAAACGACACTAAAGTACGAGTCTTTAGAG-CA
* * *
192107 TT-TATTTAAAAAC-ATCACTAAAGTATGAGTCTATAGCGGCA
1 TTGTA--TAAAAACGA-CACTAAAGTACGAGTCTTTAG-AGCA
*
192148 TTGTAT-AAAACGACACTAAAGTACGAGTATTTAGTAGCA
1 TTGTATAAAAACGACACTAAAGTACGAGTCTTTAG-AGCA
192187 TT
1 TT
192189 TTTGCTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
39 30 0.45
40 4 0.06
41 29 0.44
42 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (39 bp):
TTGTATAAAAACGACACTAAAGTACGAGTCTTTAGAGCA
Found at i:192548 original size:16 final size:17
Alignment explanation
Indices: 192527--192561 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
192517 ATTTTTTATT
192527 ATTT-AATATAAAAATA
1 ATTTAAATATAAAAATA
192543 ATTTAAAATATAAAAATA
1 ATTT-AAATATAAAAATA
192561 A
1 A
192562 AACTAGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTAAATATAAAAATA
Found at i:193339 original size:17 final size:19
Alignment explanation
Indices: 193297--193336 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
193287 TTTACCCATA
**
193297 AAAATATATAAATTTTTTT
1 AAAATATATAAATAATTTT
193316 AAAATATAT-AATAATTTT
1 AAAATATATAAATAATTTT
193334 AAA
1 AAA
193337 TATTTAGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATATAAATAATTTT
Found at i:195774 original size:21 final size:21
Alignment explanation
Indices: 195750--195799 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
195740 ATTTATTAAG
*
195750 TCGAGTTAGATTTTACTTGAT
1 TCGACTTAGATTTTACTTGAT
195771 TCGACTTAGATTTTACTTGAT
1 TCGACTTAGATTTTACTTGAT
195792 TCGACTTA
1 TCGACTTA
195800 TTAAGGTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (21 bp):
TCGACTTAGATTTTACTTGAT
Found at i:196244 original size:16 final size:17
Alignment explanation
Indices: 196224--196262 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
196214 ATATTTTATC
* *
196224 AATTTAGTCTTAATTTT
1 AATTTAATCCTAATTTT
196241 -ATTTAATCCTAATTTT
1 AATTTAATCCTAATTTT
196257 AATTTA
1 AATTTA
196263 TTTAAGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTAATCCTAATTTT
Done.