Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007779.1 Hibiscus syriacus cultivar Beakdansim tig00110062_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: 298930
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1536 original size:21 final size:20
Alignment explanation
Indices: 1494--1537 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1484 CAAATTCAAA
* *
1494 TTAGGATTTATTTTATATTT
1 TTAGGAATTATTTTATAATT
*
1514 TTAGGAATTATTTTTTTAATT
1 TTAGGAATTA-TTTTATAATT
1535 TTA
1 TTA
1538 AATATACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (20 bp):
TTAGGAATTATTTTATAATT
Found at i:4140 original size:29 final size:28
Alignment explanation
Indices: 4088--4266 Score: 198
Period size: 29 Copynumber: 6.3 Consensus size: 28
4078 TTTTTCTTTG
* ** *
4088 ATTGTAATATATAAGCGTTTTGATGTTT
1 ATTGTAATTTATAAAAGTTTTGATATTT
*
4116 ATTGTAATTTTTAAAATGTTTTGATATTT
1 ATTGTAATTTATAAAA-GTTTTGATATTT
* *
4145 ATTATAATTTACAAAAGTTTTGATATTT
1 ATTGTAATTTATAAAAGTTTTGATATTT
* *
4173 ATTGTAATTTATAAAAAGTCTTGGTATTT
1 ATTGTAATTTAT-AAAAGTTTTGATATTT
*
4202 ATTGTAATTTATAGAAAGTTTTGGTATTT
1 ATTGTAATTTATA-AAAGTTTTGATATTT
* *
4231 ATTGTAATTCATAGAAAGTTTTG-TCTTT
1 ATTGTAATTTATA-AAAGTTTTGATATTT
*
4259 ATTATAAT
1 ATTGTAAT
4267 ATCTTTAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 46 0.35
29 86 0.65
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (28 bp):
ATTGTAATTTATAAAAGTTTTGATATTT
Found at i:4174 original size:57 final size:56
Alignment explanation
Indices: 4104--4266 Score: 202
Period size: 57 Copynumber: 2.8 Consensus size: 56
4094 ATATATAAGC
* *
4104 GTTTTGATGTTTATTGTAATTTTTAAAATGTTTTGATATTTATTATAATTTACA-AAA
1 GTTTTGATATTTATTGTAATTTATAAAA-GTTTTG-TATTTATTATAATTTACAGAAA
* * *
4161 GTTTTGATATTTATTGTAATTTATAAAAAGTCTTGGTATTTATTGTAATTTATAGAAA
1 GTTTTGATATTTATTGTAATTTAT-AAAAGT-TTTGTATTTATTATAATTTACAGAAA
* * *
4219 GTTTTGGTATTTATTGTAATTCATAGAAAGTTTTGTCTTTATTATAAT
1 GTTTTGATATTTATTGTAATTTATA-AAAGTTTTGTATTTATTATAAT
4267 ATCTTTAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 55 0.60
58 37 0.40
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (56 bp):
GTTTTGATATTTATTGTAATTTATAAAAGTTTTGTATTTATTATAATTTACAGAAA
Found at i:5572 original size:19 final size:20
Alignment explanation
Indices: 5547--5599 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 20
5537 ATGGAAACAA
*
5547 GTTCTTCTCATTATGAACTC
1 GTTCTTCTCATTATGAACGC
5567 -TTCTTCT--TT-TG-ACGC
1 GTTCTTCTCATTATGAACGC
5582 GTTCTTCTCATTATGAAC
1 GTTCTTCTCATTATGAAC
5600 CCCTTTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 2 0.07
18 2 0.07
19 9 0.33
20 2 0.07
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (20 bp):
GTTCTTCTCATTATGAACGC
Found at i:5650 original size:23 final size:23
Alignment explanation
Indices: 5622--5667 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5612 ATGTTAACTC
* * *
5622 ACCTCCTTTTGTGATGGATTTGA
1 ACCTCCTTCTATGATGGAATTGA
5645 ACCTCCTTCTATGATGGAATTGA
1 ACCTCCTTCTATGATGGAATTGA
5668 GAGAAATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
ACCTCCTTCTATGATGGAATTGA
Found at i:5762 original size:44 final size:43
Alignment explanation
Indices: 5647--5763 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
5637 GGATTTGAAC
* *
5647 CTCCTTCTATGATGGAATTGAGAGAAATGGTAATGTTGATCCAA
1 CTCCTTATATGATGGAATTGAGA-AAAGGGTAATGTTGATCCAA
* *
5691 CTCCTTATATGATGGAATCGAGCAAAAGGGTGATGTTGATCCAA
1 CTCCTTATATGATGGAATTGAG-AAAAGGGTAATGTTGATCCAA
* * *
5735 CTCCTTTTGTGATGGATTTGAGTAAAAGG
1 CTCCTTATATGATGGAATTGAG-AAAAGG
5764 TCGAACAAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 62 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
CTCCTTATATGATGGAATTGAGAAAAGGGTAATGTTGATCCAA
Found at i:5948 original size:115 final size:114
Alignment explanation
Indices: 5723--6070 Score: 376
Period size: 115 Copynumber: 3.0 Consensus size: 114
5713 CAAAAGGGTG
* * * * *
5723 ATGTTGATCCAACTCCTTTTGTGATGGATTTGAGTAAAAGGTCGAACAAGTTCTTGTCATTATGA
1 ATGTTGATCC-ACTCCTTATGTGATGGA--TGAGT-CAAGGTTGAACAAGTTCTTCTCATTAGGA
* * * * * * *
5788 ACTTCTTCTCCATCATCAGA-TAATTCTTCTCATTATGAACACTTCCATTGGAA
62 ACTTATTTTCC-TTATCGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGAA
* * * *
5841 ATGTTGATCCACTACTTCTGTGATGGATGAGTCGAGGTTGAACAAGTTCTTTTCATTAGGAACTT
1 ATGTTGATCCACTCCTTATGTGATGGATGAGTCAAGGTTGAACAAGTTCTTCTCATTAGGAACTT
*
5906 ATTATTCCTTATCGGACGAGTTCTTTTCATTATGAACCCTTCCATTGGAA
66 ATT-TTCCTTATCGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGAA
** * * * * * *
5956 ATCATGATCCACCCCCTTATATG-TGGACGAGCCAAGGTTGAAAAATTTCTTCTCATTAGGAACT
1 ATGTTGATCCA-CTCCTTATGTGATGGATGAGTCAAGGTTGAACAAGTTCTTCTCATTAGGAACT
*
6020 TATTCTCCCTTATCGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGAA
65 TATT-TTCCTTATCGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGAA
6071 TTGTCACTCC
Statistics
Matches: 197, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
114 36 0.18
115 129 0.65
116 7 0.04
117 15 0.08
118 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (114 bp):
ATGTTGATCCACTCCTTATGTGATGGATGAGTCAAGGTTGAACAAGTTCTTCTCATTAGGAACTT
ATTTTCCTTATCGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGAA
Found at i:6509 original size:36 final size:36
Alignment explanation
Indices: 6462--6566 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
6452 CAAAGTTTGT
* * * *
6462 TTTTAAGAAAAATAATCTTAAGTGGGACAAAATTTA
1 TTTTAAGAAAAATAATCTCAAGTGAGATAAAATATA
** * *
6498 TTTTAAGAAAAACGATCTCAAGTAAGATAAAATATG
1 TTTTAAGAAAAATAATCTCAAGTGAGATAAAATATA
*
6534 CTTTAAGAAAAATAATCTCAAGTGAGATAAAAT
1 TTTTAAGAAAAATAATCTCAAGTGAGATAAAAT
6567 CTTGAGTGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (36 bp):
TTTTAAGAAAAATAATCTCAAGTGAGATAAAATATA
Found at i:6989 original size:116 final size:115
Alignment explanation
Indices: 6643--6978 Score: 392
Period size: 116 Copynumber: 2.9 Consensus size: 115
6633 CAACTCTTTA
* * *
6643 TATGATGGACGAGCCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCGTCTCCCTCATCGAACG
1 TATGATGGACGAACCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCATCGGACG
* * * * * * *
6708 AGTTCTTCTCATTATGAGCACTTGCATTGGAAATG-ATGGTCCACCTCCTTC
66 AG-T-TTCTCATTATGAACCCTTCCATTGAAAATGTTTGATCCACTTCCTTC
* * * * * * *
6759 TATAATGGATGAATCAAGGTTGAACAAGTTTTTCTCATTAGAAACTTCTTCTCCCTCATCTGATG
1 TATGATGGACGAACCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCATCGGACG
* *
6824 AGTTCTTCTCATTATGAACCCTTCCACT-AGAAAT-TTTAATCCACTTCCTTC
66 AG-T-TTCTCATTATGAACCCTTCCATTGA-AAATGTTTGATCCACTTCCTTC
* *
6875 TATGTTGGACGAACCAAGGTTGAACAAGTTCTTCTTATTAGGAACTTCTTCTCCCTCATCGGACG
1 TATGATGGACGAACCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCATCGGACG
* *
6940 AG-TTCTCGTTATGAACCCTTTCATTGAAAATGTTTGATC
66 AGTTTCTCATTATGAACCCTTCCATTGAAAATGTTTGATC
6979 TAGCTTTCCT
Statistics
Matches: 184, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
113 24 0.13
114 7 0.04
116 153 0.83
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (115 bp):
TATGATGGACGAACCAAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCATCGGACG
AGTTTCTCATTATGAACCCTTCCATTGAAAATGTTTGATCCACTTCCTTC
Found at i:8243 original size:107 final size:107
Alignment explanation
Indices: 8031--8245 Score: 258
Period size: 107 Copynumber: 2.0 Consensus size: 107
8021 ATTTAATTTA
* * * *
8031 ATTTACCTTTATTCGGCTAGTTGAAAGAATTTATCCATAAAGCTAGAGCTTTTAACCAATTGCTT
1 ATTTACCTTTATTCGGCTAGCTGAAAGAATCTATCCAGAAAGCCAGAGCTTTTAACCAATTGCTT
* *
8096 CAGAGAAATAGCTCAGCTTTATTGTATATATACATATATATT
66 CAGAGAAATAGCTCAACTTCATTGTATATATACATATATATT
* * * *
8138 ATTTGCCTTTCTTTGGCTAGCTG-AAGAAATCTATCCAGAAAGCCAGAGCTTTTAACCAATTTCT
1 ATTTACCTTTATTCGGCTAGCTGAAAG-AATCTATCCAGAAAGCCAGAGCTTTTAACCAATTGCT
* *
8202 TTAGA-AGAATAGTTCAACTTCA-T-TATATATACATAATTATATT
65 TCAGAGA-AATAGCTCAACTTCATTGTATATATACAT-A-TATATT
8245 A
1 A
8246 GCTTTTTGGG
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
105 11 0.12
106 6 0.07
107 75 0.82
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (107 bp):
ATTTACCTTTATTCGGCTAGCTGAAAGAATCTATCCAGAAAGCCAGAGCTTTTAACCAATTGCTT
CAGAGAAATAGCTCAACTTCATTGTATATATACATATATATT
Found at i:20134 original size:43 final size:44
Alignment explanation
Indices: 20085--20172 Score: 160
Period size: 43 Copynumber: 2.0 Consensus size: 44
20075 TTGATACCCG
20085 TAACACTTTTGTCTCATGATTAGATCCTAGTTATTGTT-TTTTT
1 TAACACTTTTGTCTCATGATTAGATCCTAGTTATTGTTATTTTT
*
20128 TAACACTTTTGTCTGATGATTAGATCCTAGTTATTGTTATTTTT
1 TAACACTTTTGTCTCATGATTAGATCCTAGTTATTGTTATTTTT
20172 T
1 T
20173 TATTTTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 37 0.86
44 6 0.14
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (44 bp):
TAACACTTTTGTCTCATGATTAGATCCTAGTTATTGTTATTTTT
Found at i:21442 original size:30 final size:30
Alignment explanation
Indices: 21408--21478 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
21398 ACATCCGAGC
21408 CAAACAACCTTAGTGACTCCTCGAGCCCTT
1 CAAACAACCTTAGTGACTCCTCGAGCCCTT
21438 CAAACAACCTTAGTGACTCCTCGAGCCCTT
1 CAAACAACCTTAGTGACTCCTCGAGCCCTT
21468 CAAACAACCTT
1 CAAACAACCTT
21479 TACTAAACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.23
Consensus pattern (30 bp):
CAAACAACCTTAGTGACTCCTCGAGCCCTT
Found at i:30395 original size:33 final size:33
Alignment explanation
Indices: 30346--30416 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
30336 CGACAACGCT
* * *
30346 CATGGGGCCTTACCGGTTGAAATGATGCATGCA
1 CATGGGCCCTTACCGGTTGAAATAACGCATGCA
* * *
30379 CATGGGCCCTTGCCGGTTGCAATAACGCGTGCA
1 CATGGGCCCTTACCGGTTGAAATAACGCATGCA
30412 CATGG
1 CATGG
30417 AGATTGGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (33 bp):
CATGGGCCCTTACCGGTTGAAATAACGCATGCA
Found at i:30665 original size:39 final size:39
Alignment explanation
Indices: 30591--30668 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
30581 TTAATGGTAG
*
30591 TGCAAATGGGGCCACGCCATTTGAAACAATTGCCGACCA
1 TGCAAATGGGGCCACGCCATTGGAAACAATTGCCGACCA
* * * *
30630 TGCACATGGGGTCACGCCGTTGGAAGC-ATTGGCCGACCA
1 TGCAAATGGGGCCACGCCATTGGAAACAATT-GCCGACCA
30669 AATAATGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 3 0.09
39 30 0.91
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (39 bp):
TGCAAATGGGGCCACGCCATTGGAAACAATTGCCGACCA
Found at i:32973 original size:13 final size:14
Alignment explanation
Indices: 32936--32974 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
32926 CTTACGTGAA
*
32936 TTCAATACATTTTC
1 TTCAATACAGTTTC
32950 TTCATATACAGTTTC
1 TTCA-ATACAGTTTC
32965 TT-AATACAGT
1 TTCAATACAGT
32975 GACAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 11 0.48
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (14 bp):
TTCAATACAGTTTC
Found at i:41535 original size:26 final size:26
Alignment explanation
Indices: 41504--41563 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
41494 AAAAAATTAC
*
41504 AATAAAAAAGT-CCAATAAACAACTAT
1 AATAAAAAAGTACCAA-AAACAAATAT
* *
41530 AAT-AAAAAGTACTAAATACAAATAT
1 AATAAAAAAGTACCAAAAACAAATAT
41555 AATAAAAAA
1 AATAAAAAA
41564 ACAAAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (26 bp):
AATAAAAAAGTACCAAAAACAAATAT
Found at i:43803 original size:9 final size:9
Alignment explanation
Indices: 43789--43822 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
43779 TAAGTAAAAT
43789 ATTAAATAA
1 ATTAAATAA
43798 ATTAAAT-A
1 ATTAAATAA
*
43806 CTTAAATAA
1 ATTAAATAA
43815 ATTAAATA
1 ATTAAATA
43823 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:43821 original size:17 final size:17
Alignment explanation
Indices: 43785--43823 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
43775 TAATTAAGTA
43785 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
43801 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
43818 AAATAC
1 AAATAC
43824 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:58619 original size:3 final size:3
Alignment explanation
Indices: 58598--58689 Score: 89
Period size: 3 Copynumber: 30.0 Consensus size: 3
58588 TAATATTGTT
* * * *
58598 TAA TAA TAT TAA TAT TAA TAA TATA TAA TATA TAA TAA TAG TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA
*
58644 TAA TATA TAA TTA TATA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58690 GACTGGACGA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
2 3 0.04
3 60 0.80
4 12 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:58634 original size:14 final size:14
Alignment explanation
Indices: 58600--58688 Score: 82
Period size: 14 Copynumber: 6.4 Consensus size: 14
58590 ATATTGTTTA
58600 ATAATAT-TAATATT
1 ATAATATATAATA-T
58614 AATAATATATAATAT
1 -ATAATATATAATAT
*
58629 ATAATA-ATAGTAGT
1 ATAATATATAATA-T
58643 ATAATATATAAT-T
1 ATAATATATAATAT
58656 AT-ATATAATAATA-
1 ATAATAT-ATAATAT
58669 ATAATATAATAATA-
1 ATAATAT-ATAATAT
58683 ATAATA
1 ATAATA
58689 AGACTGGACG
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
12 4 0.06
13 15 0.23
14 30 0.45
15 12 0.18
16 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:58660 original size:31 final size:30
Alignment explanation
Indices: 58598--58688 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 30
58588 TAATATTGTT
*
58598 TAATAATATTAATATTAATAATATATAATATA
1 TAATAATAATAATA-TAATAATA-ATAATATA
* * *
58630 TAATAATAGTAGTATAATATATAATTATATA
1 TAATAATAATAATATAATA-ATAATAATATA
58661 TAATAATAATAATATAATAATAATAATA
1 TAATAATAATAATATAATAATAATAATA
58689 AGACTGGACG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.15
31 29 0.56
32 15 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
TAATAATAATAATATAATAATAATAATATA
Found at i:59001 original size:20 final size:20
Alignment explanation
Indices: 58948--59001 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58938 AAAACATCCT
* * *
58948 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATC
*
58968 ACCCGAAGGTTTTACAAATC
1 ACCCGGAGGTTTTACAAATC
*
58988 ACCCGGAGGATTTA
1 ACCCGGAGGTTTTA
59002 ATTTTTTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATC
Found at i:59068 original size:121 final size:119
Alignment explanation
Indices: 58821--59108 Score: 461
Period size: 121 Copynumber: 2.4 Consensus size: 119
58811 CAAAAATAGG
*
58821 AAACATCCTACCCTGAGGTTTTACAGATGACCCAAAGG-TTTACAAATCACCTGGAGGATTTAAT
1 AAACATCCTACCCTGAGGTTTTACAGATGACCCAAAGGTTTTACAAATCACCCGGAGGATTTAAT
* * * *
58885 TTTCTAGAACATTAACTGAGAAACTTTGAAAATCGCTGTCTCATTTTCATGCGA
66 TTTCTAGAACATAAAATGAGAAACTTTAAAAATCGATGTCTCATTTTCATGCGA
*
58939 AAACATCCTACCCTGAGGTTTTACAGATGACCCGAAGGTTTTACAAATCACCCGGAGGATTTAAT
1 AAACATCCTACCCTGAGGTTTTACAGATGACCCAAAGGTTTTACAAATCACCCGGAGGATTTAAT
* * *
59004 TTTTTAGATAACATAAAATGAGTAACTTTAAAAATCGATTTCTCATTTTCATGCGA
66 TTTCTAG--AACATAAAATGAGAAACTTTAAAAATCGATGTCTCATTTTCATGCGA
*
59060 AAATATCCTACCCTGAGGTTTTACAGATGACCCAAAGGTTTTACAAATC
1 AAACATCCTACCCTGAGGTTTTACAGATGACCCAAAGGTTTTACAAATC
59109 CATGGAAATA
Statistics
Matches: 156, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
118 37 0.24
119 31 0.20
121 88 0.56
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (119 bp):
AAACATCCTACCCTGAGGTTTTACAGATGACCCAAAGGTTTTACAAATCACCCGGAGGATTTAAT
TTTCTAGAACATAAAATGAGAAACTTTAAAAATCGATGTCTCATTTTCATGCGA
Found at i:67754 original size:3 final size:3
Alignment explanation
Indices: 67748--67834 Score: 65
Period size: 3 Copynumber: 29.0 Consensus size: 3
67738 TAATATTATT
* * *
67748 TAA TAA TAT TAA TAA TAA -AA T-A TAA TAA TATA TATA TAA TAG TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA
* *
67793 T-A TAA TATA TAA TTA TATA TAA TAA TAA T-A TAA TAA AAA TAA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
67835 GACTGGACGA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
2 7 0.10
3 49 0.71
4 13 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:67757 original size:10 final size:10
Alignment explanation
Indices: 67738--67828 Score: 85
Period size: 10 Copynumber: 8.6 Consensus size: 10
67728 TTAGGCTTTG
* *
67738 TAATATTATT
1 TAATAATATA
67748 TAATAATATTAA
1 TAATAATA-T-A
*
67760 TAATAAAATA
1 TAATAATATA
67770 TAATAATATA
1 TAATAATATA
67780 TATATAATAGTA
1 TA-ATAATA-TA
67792 GT-ATAATATA
1 -TAATAATATA
*
67802 TAATTATATA
1 TAATAATATA
67812 TAATAATAATA
1 TAATAAT-ATA
67823 TAATAA
1 TAATAA
67829 AAATAAGACT
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.01
10 34 0.50
11 23 0.34
12 9 0.13
13 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TAATAATATA
Found at i:67764 original size:22 final size:24
Alignment explanation
Indices: 67748--67828 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 24
67738 TAATATTATT
67748 TAATAATAT-TA-ATAATAAAATA
1 TAATAATATATATATAATAAAATA
* *
67770 TAATAATATATATATAATAGTAGTA
1 TAATAATATATATATAATA-AAATA
67795 TAATATATAATTATATATAATAATAATA
1 TAATA-AT-A-TATATATAATAA-AATA
67823 TAATAA
1 TAATAA
67829 AAATAAGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
22 9 0.19
23 2 0.04
24 6 0.12
25 8 0.17
26 2 0.04
27 2 0.04
28 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAATAATATATATATAATAAAATA
Found at i:68171 original size:119 final size:119
Alignment explanation
Indices: 67960--68232 Score: 483
Period size: 119 Copynumber: 2.3 Consensus size: 119
67950 ATCAAAAATA
* * *
67960 AAAAACATCATACCCTGAGGTTTTACAGATGACCTAGAAGTTTTACAAATCACCCGGAGGATTTA
1 AAAAACATCCTACCCTGAGGTTTTACAAATGACCCAGAAGTTTTACAAATCACCCGGAGGATTTA
68025 ATTTTCCAAAACATTAAATGAGAAAATTTGAAAATTGTTTTCTCATTTTCATGC
66 ATTTTCCAAAACATTAAATGAGAAAATTTGAAAATTGTTTTCTCATTTTCATGC
* *
68079 AAAAACATCCTACCTTGAGGTTTTACAAATGACCCAGAAGTTTTACAAATCACCTGGAGGATTTA
1 AAAAACATCCTACCCTGAGGTTTTACAAATGACCCAGAAGTTTTACAAATCACCCGGAGGATTTA
*
68144 ATTTTCTAAAACATTAAATGAGAAAATTTGAAAATTGTTTTCTCATTTTCATGC
66 ATTTTCCAAAACATTAAATGAGAAAATTTGAAAATTGTTTTCTCATTTTCATGC
*
68198 AAAAACATCCTACCCTGAGGTTTTACAAATCACCC
1 AAAAACATCCTACCCTGAGGTTTTACAAATGACCC
68233 GGAGGATTTA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 146 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (119 bp):
AAAAACATCCTACCCTGAGGTTTTACAAATGACCCAGAAGTTTTACAAATCACCCGGAGGATTTA
ATTTTCCAAAACATTAAATGAGAAAATTTGAAAATTGTTTTCTCATTTTCATGC
Found at i:68289 original size:99 final size:99
Alignment explanation
Indices: 68118--68341 Score: 322
Period size: 99 Copynumber: 2.3 Consensus size: 99
68108 TGACCCAGAA
* * ***
68118 GTTTTACAAATCACCTGGAGGATTTAATTTTCTAAAACATTAAATGAGAAAATTTGAAAATTGTT
1 GTTTTACAAATCACCCGGAGGATTTAATTTTCTAAAACATTAAATGAGAAAATTTAAAAATCCCT
*
68183 TTCTCATTTTCATGCAAAAACATCCTACCCTGAG
66 TTCTCATTTTCATGCAAAAACATCCTACCATGAG
* *
68217 GTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTAAAAATCCCT
1 GTTTTACAAATCACCCGGAGGATTTAATTTTCTAAAACATTAAATGAGAAAATTTAAAAATCCCT
**
68282 TTCTCATTTTCATGTGAAAACATCCTACCATGAG
66 TTCTCATTTTCATGCAAAAACATCCTACCATGAG
* * * *
68316 GTTTTACAGATGACTCGGAGGTTTTA
1 GTTTTACAAATCACCCGGAGGATTTA
68342 CAAATCTGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 111 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (99 bp):
GTTTTACAAATCACCCGGAGGATTTAATTTTCTAAAACATTAAATGAGAAAATTTAAAAATCCCT
TTCTCATTTTCATGCAAAAACATCCTACCATGAG
Found at i:76979 original size:3 final size:3
Alignment explanation
Indices: 76973--77052 Score: 65
Period size: 3 Copynumber: 26.0 Consensus size: 3
76963 TAATATTATT
* * *
76973 TAA TAA TAT TAA TAA TAA TATA TAT TAA T-A TCA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
* *
77019 TAG T-A TAA TATA TAA TTA TATA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA
77053 GACCGGACGA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.05
3 47 0.76
4 12 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:77000 original size:25 final size:26
Alignment explanation
Indices: 76963--77048 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 26
76953 TTGGGCTTTG
76963 TAATAT-TATTTAATAATAT-TAATAA
1 TAATATATA-TTAATAATATATAATAA
76988 TAATATATATTAATATCATATATAATAA
1 TAATATATATTAATA--ATATATAATAA
*
77016 TAATAGTATAATATATAAT-TATATATAA
1 TAATA-TATATTA-ATAATATATA-ATAA
77044 TAATA
1 TAATA
77049 ATAAGACCGG
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
25 12 0.23
26 2 0.04
27 8 0.15
28 22 0.42
29 6 0.11
30 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
TAATATATATTAATAATATATAATAA
Found at i:77014 original size:34 final size:36
Alignment explanation
Indices: 76974--77052 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 36
76964 AATATTATTT
* *
76974 AATAATATTAATA-ATAATATAT-ATTA-ATATCAT
1 AATAATAATAATAGATAATATATAATTATATATAAT
77007 ATATAATAATAATAGTATAATATATAATTATATATAAT
1 A-ATAATAATAATAG-ATAATATATAATTATATATAAT
77045 AATAATAA
1 AATAATAA
77053 GACCGGACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 1 0.03
34 11 0.28
36 9 0.23
37 11 0.28
38 7 0.18
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
AATAATAATAATAGATAATATATAATTATATATAAT
Found at i:77020 original size:31 final size:31
Alignment explanation
Indices: 76982--77052 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
76972 TTAATAATAT
76982 TAATAATAATAT-ATAT-TAATATCATATATAA
1 TAATAATAATATAATATATAAT-T-ATATATAA
*
77013 TAATAATAGTATAATATATAATTATATATAA
1 TAATAATAATATAATATATAATTATATATAA
77044 TAATAATAA
1 TAATAATAA
77053 GACCGGACGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 27 0.75
32 5 0.14
33 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
TAATAATAATATAATATATAATTATATATAA
Found at i:79502 original size:21 final size:22
Alignment explanation
Indices: 79476--79527 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
79466 AAGTTCCCCC
79476 GTATCGATACCT-TCTACATA-G
1 GTATCGATACCTCT-TACATAGG
*
79497 GTATCGATACCTCTTCCATAGG
1 GTATCGATACCTCTTACATAGG
79519 GTATCGATA
1 GTATCGATA
79528 TTGTTCATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (22 bp):
GTATCGATACCTCTTACATAGG
Found at i:81300 original size:118 final size:118
Alignment explanation
Indices: 81092--81352 Score: 355
Period size: 118 Copynumber: 2.2 Consensus size: 118
81082 AAAAAATATA
* ** * * *
81092 GACGATAACATAACTGGTTAATTA-TCGTTAACATTATTAACCACAATAACATATTAGGTAGCGC
1 GACGATAACATAATTGGTTAATTACTCGGAAACATTATCAACCAAAATAACAAATTAGGTAGCGC
* * * * *
81156 TTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGTAATTC
66 TTATATAACGTAATAGGTAGCACCTTTTT-AAGATGACGGGGCTTTGGAAATCC
* *
81210 GACGATAACATAATTTGTTAATTACT-GGAAACATTATCAAGCAAAATAACAAATTAGGTAGCGC
1 GACGATAACATAATTGGTTAATTACTCGGAAACATTATCAACCAAAATAACAAATTAGGTAGCGC
81274 TTATATAACGTAATAGGTAGCACCTTTTTAAGATGACGGGGCTTTGGAAATCC
66 TTATATAACGTAATAGGTAGCACCTTTTTAAGATGACGGGGCTTTGGAAATCC
* * *
81327 AACGATAACAAAATAGGTTAATTACT
1 GACGATAACATAATTGGTTAATTACT
81353 TATTTTGTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
117 42 0.34
118 82 0.66
119 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (118 bp):
GACGATAACATAATTGGTTAATTACTCGGAAACATTATCAACCAAAATAACAAATTAGGTAGCGC
TTATATAACGTAATAGGTAGCACCTTTTTAAGATGACGGGGCTTTGGAAATCC
Found at i:81690 original size:222 final size:218
Alignment explanation
Indices: 81211--81673 Score: 504
Period size: 218 Copynumber: 2.1 Consensus size: 218
81201 TGGTAATTCG
*** * * *
81211 ACGATAACATAATTTGTTAATTACTGGAAACATTATCAAGCAAAATAACAAATTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATCATTGGAAACATTATCAAGCAAAATAACAAATTAGGTAACGCTT
* * * *
81276 ATATAACGTAATAGGTAGCACCTTTTTAAGATGACGGGGCTTTGGAAATCCAACGATAACAAAAT
66 ATATAACGTAATAGGTAGCACATTTTAAAGATGACGGGGCCTTAGAAATCCAACGATAACAAAAT
* ** * * * *
81341 AGGTTAATTACTTATTTTGTTATTACAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAA
131 AGGTTAATTACTTAATTTGTTATTACAACATATTACCTAAGGCATAAAATGTTAACAAAATTTAA
*
81406 GCTGATAGACCTTTATAAATCCG
196 GCTGATAGACCTTTATAAATCCC
* * * * *
81429 ACGATAACATAATCGGTTAATTATTGGAAACATTATCAAGTATAATAACATATTAGGTAACGCTT
1 ACGATAACATAACCGGTTAATCATTGGAAACATTATCAAGCAAAATAACAAATTAGGTAACGCTT
* * * * * *
81494 ATGTAACGTAATAGGTTGCGCATTATTAAAGTTGATGGGGCCTTAGAAATCCGTA-GATAACAAA
66 ATATAACGTAATAGGTAGCACATT-TTAAAGATGACGGGGCCTTAGAAATCC-AACGATAACAAA
* * *
81558 ATAGGTTAATTACTTAATTTGTTATCAGTATTATCA-ACTTACCTTAGGCAT-AAATGTTAACAA
129 ATAGGTTAATTACTTAATTTGTTAT---TA-CAACATA-TTACCTAAGGCATAAAATGTTAACAA
*
81621 AATTTAAGCTGATGGAGCC-TTA-AGAATCCC
189 AATTTAAGCTGATAGA-CCTTTATA-AATCCC
*
81651 ACGATAACATTACCGGTTAATCA
1 ACGATAACATAACCGGTTAATCA
81674 CTTGATTTGT
Statistics
Matches: 204, Mismatches: 32, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
218 78 0.38
219 55 0.27
220 1 0.00
221 1 0.00
222 56 0.27
223 13 0.06
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (218 bp):
ACGATAACATAACCGGTTAATCATTGGAAACATTATCAAGCAAAATAACAAATTAGGTAACGCTT
ATATAACGTAATAGGTAGCACATTTTAAAGATGACGGGGCCTTAGAAATCCAACGATAACAAAAT
AGGTTAATTACTTAATTTGTTATTACAACATATTACCTAAGGCATAAAATGTTAACAAAATTTAA
GCTGATAGACCTTTATAAATCCC
Found at i:84001 original size:22 final size:22
Alignment explanation
Indices: 83950--83995 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
83940 TTTTTAGAAT
*
83950 CATACTACACAAAAGGTATCGCTA
1 CATA-TAC-CAAAAGGTATCGATA
83974 CATATACCAAAA-GTATCGATA
1 CATATACCAAAAGGTATCGATA
83995 C
1 C
83996 TTTATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 3 0.14
24 4 0.19
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (22 bp):
CATATACCAAAAGGTATCGATA
Found at i:86172 original size:18 final size:18
Alignment explanation
Indices: 86149--86187 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
86139 GCCAAAATTT
86149 AAATTGAAATTGAAACTC
1 AAATTGAAATTGAAACTC
* *
86167 AAATTGAAATTTAAATTC
1 AAATTGAAATTGAAACTC
86185 AAA
1 AAA
86188 CTCCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTGAAATTGAAACTC
Found at i:86176 original size:24 final size:24
Alignment explanation
Indices: 86143--86206 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
86133 AGAGGAGCCA
* *
86143 AAATTTAAATTGAAATTGAAACTC
1 AAATTAAAATTGAAATTCAAACTC
* *
86167 AAATTGAAATTTAAATTCAAACTC
1 AAATTAAAATTGAAATTCAAACTC
* *
86191 CAATTAAAAATGAAAT
1 AAATTAAAATTGAAAT
86207 GAACATGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATTAAAATTGAAATTCAAACTC
Found at i:89131 original size:21 final size:22
Alignment explanation
Indices: 89096--89137 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
89086 AACACGCATA
89096 ATTTAAAAAATGTATCGATACT
1 ATTTAAAAAATGTATCGATACT
*
89118 ATTTAAAAAA-GTATTGATAC
1 ATTTAAAAAATGTATCGATAC
89138 ATTATGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
ATTTAAAAAATGTATCGATACT
Found at i:89244 original size:21 final size:21
Alignment explanation
Indices: 89220--89263 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
89210 ATAATAATCT
*
89220 ATTTTGATGTTTTAAGGATCG
1 ATTTAGATGTTTTAAGGATCG
*
89241 ATTTAGATGTTTTAAGTATCG
1 ATTTAGATGTTTTAAGGATCG
89262 AT
1 AT
89264 ACTTCTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (21 bp):
ATTTAGATGTTTTAAGGATCG
Found at i:89649 original size:200 final size:200
Alignment explanation
Indices: 89246--89759 Score: 814
Period size: 200 Copynumber: 2.6 Consensus size: 200
89236 GATCGATTTA
*
89246 GATGTTTTAAGTATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
1 GATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
*
89311 TTCATAATGGACAAAAAGTATCGATACAAATTAAAAAAAGTATCGATACATTTTGCTTACCTCTT
66 TTCATAATGGACAAAAAGTATCGATACAAATT-AAAAAAGTATCGATACATTTTGCTTACCTATT
* * *
89376 CTCTTGTTAAACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACATTATAATAATC
130 ATCTCGTTAAACCGGTATATTTTTATCAGTTACATTGAAAATTTACCTATTACATTATAATAATC
*
89441 GGTTTC
195 AGTTTC
* *
89447 GATGTTTTAAGGATTGATGCTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
1 GATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
* * * *
89512 TTCATACTGGACAAAAGGTATCGATACATATTAAAAAAGTATCGATACTTTTTGCTTACCTATTA
66 TTCATAATGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATACATTTTGCTTACCTATTA
*
89577 TCTCGTTAAACCGGTATATTTTTA-CTAGTTACATTGAAAATTTACCTATTACGTTATAATAATC
131 TCTCGTTAAACCGGTATATTTTTATC-AGTTACATTGAAAATTTACCTATTACATTATAATAATC
89641 AGTTTC
195 AGTTTC
* * * **
89647 GATGTTTTAAGGATCGATACTTCTTATACATGTATCGATACTTTTTGAGTGCATCTCGTTCAGGA
1 GATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
* * *
89712 TTCATATTGTACAAAAAGTATCGATACAAATTAAAAAAATATCGATAC
66 TTCATAATGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATAC
89760 GAATTAAAAA
Statistics
Matches: 287, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
199 1 0.00
200 195 0.68
201 91 0.32
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (200 bp):
GATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGA
TTCATAATGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATACATTTTGCTTACCTATTA
TCTCGTTAAACCGGTATATTTTTATCAGTTACATTGAAAATTTACCTATTACATTATAATAATCA
GTTTC
Found at i:89750 original size:22 final size:22
Alignment explanation
Indices: 89724--89781 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 22
89714 CATATTGTAC
89724 AAAAAGTATCGATACAAATTAA
1 AAAAAGTATCGATACAAATTAA
*
89746 AAAAA-TATCGATACGAATTAA
1 AAAAAGTATCGATACAAATTAA
89767 AAAAAGTATCGATAC
1 AAAAAGTATCGATAC
89782 TTTTTGCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.22
Consensus pattern (22 bp):
AAAAAGTATCGATACAAATTAA
Found at i:89938 original size:223 final size:221
Alignment explanation
Indices: 89530--89982 Score: 687
Period size: 223 Copynumber: 2.0 Consensus size: 221
89520 GGACAAAAGG
* *
89530 TATCGATACATATTAAAAAAGTATCGATACTTTTTGCTTACCTATTATCTCGTTAAACCGGTATA
1 TATCGATACATATTAAAAAAGTATCGATACTTTTTGCTTACATATTATCTAGTTAAACCGGTATA
89595 TTTTTACTAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCGATGTTTTAAGGA
66 TTTTTACTAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCGATGTTTTAAGGA
* * * *
89660 TCGATACTTCTTATACATGTATCGATACTTTTTGAGTGCATCTCGTTCAGGATTCATATTGTACA
131 TCGATACTTCTCATACATGTATCGATACTTTATGAGTGCATCTCGTTCAGGATTCATACTGGACA
89725 AAAAGTATCGATACAAATTAAAAAAA
196 AAAAGTATCGATACAAATTAAAAAAA
* *
89751 TATCGATACGA-ATTAAAAAAAGTATCGATACTTTTTGCTTACATATTCTCTATTTAAACCGGTA
1 TATCGATAC-ATATT-AAAAAAGTATCGATACTTTTTGCTTACATATTATCTAGTTAAACCGGTA
* * * *
89815 TATTTTTA-TCGGTTACATTGTATATTTACCTATTACGGTTATAATAATCGGTTTCGATGTTTTA
64 TATTTTTACT-AGTTACATTGAAAATTTACCTATTAC-GTTATAATAATCAGTTTCGATGTTTTA
* **
89879 AGGATCGATACTTCTCATATATGTATCGATACTTTAT-ACGTGCATCTCGTTTGGGATTCATACT
127 AGGATCGATACTTCTCATACATGTATCGATACTTTATGA-GTGCATCTCGTTCAGGATTCATACT
*
89943 GGACAAAAAGTATCGATACAAATTAAAAAAG
191 GGACAAAAAGTATCGATACAAATTAAAAAAA
*
89974 TATTGATAC
1 TATCGATAC
89983 TTTTTGCTTA
Statistics
Matches: 210, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
221 13 0.06
222 78 0.37
223 119 0.57
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (221 bp):
TATCGATACATATTAAAAAAGTATCGATACTTTTTGCTTACATATTATCTAGTTAAACCGGTATA
TTTTTACTAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCGATGTTTTAAGGA
TCGATACTTCTCATACATGTATCGATACTTTATGAGTGCATCTCGTTCAGGATTCATACTGGACA
AAAAGTATCGATACAAATTAAAAAAA
Found at i:90032 original size:422 final size:422
Alignment explanation
Indices: 89323--90170 Score: 1378
Period size: 422 Copynumber: 2.0 Consensus size: 422
89313 CATAATGGAC
* * *
89323 AAAAAGTATCGATACAAATTAAAAAAAGTATCGATACATTTTGCTTACCTCTTCTCTTGTTAAAC
1 AAAAAATATCGATACAAATTAAAAAAAGTATCGATACATTTTGCTTACATATTCTCTTGTTAAAC
89388 CGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACATTATAATAATCGGTTTCGATGTT
66 CGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACATTATAATAATCGGTTTCGATGTT
* * *
89453 TTAAGGATTGATGCTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTCATA
131 TTAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGGGATTCATA
* *
89518 CTGGACAAAAGGTATCGATACATATTAAAAAAGTATCGATACTTTTTGCTTACCTATTATCTCGT
196 CTGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTATCTCGT
*
89583 TAAACCGGTATATTTTTACTAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCG
261 TAAACCGGTATATTTTTACCAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCG
* *
89648 ATGTTTTAAGGATCGATACTTCTTATACATGTATCGATACTTTTTGAGTGCATCTCGTTCAG-GA
326 ATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGAGTGCATCTCGTT-AGAGA
* *
89712 TTCATATTGTACAAAAAGTATCGATACAAATTA
390 TTCATACTGGACAAAAAGTATCGATACAAATTA
* *
89745 AAAAAATATCGATACGAATTAAAAAAAGTATCGATACTTTTTGCTTACATATTCTCTAT-TTAAA
1 AAAAAATATCGATACAAATTAAAAAAAGTATCGATACATTTTGCTTACATATTCTCT-TGTTAAA
* * *
89809 CCGGTATATTTTTATCGGTTACATTGTATATTTACCTATTACGGTTATAATAATCGGTTTCGATG
65 CCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTAC-ATTATAATAATCGGTTTCGATG
*
89874 TTTTAAGGATCGATACTTCTCATATATGTATCGATACTTTATACGTGCATCTCGTTTGGGATTCA
129 TTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGGGATTCA
* * * *
89939 TACTGGACAAAAAGTATCGATACAAATTAAAAAAGTATTGATACTTTTTGCTTACCTCTTCTCTT
194 TACTGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTATCTC
* * *
90004 GTTAAACCGGTATA-TTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGGTTT
259 GTTAAACCGGTATATTTTTACCAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTT
* * *
90068 CGATGTTTTAAGGATTGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGAG
324 CGATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGAGTGCATCTCGTTAGAG
*
90133 ATTCATACTGGACAAAAAGTATGGATACAAATTA
389 ATTCATACTGGACAAAAAGTATCGATACAAATTA
90167 AAAA
1 AAAA
90171 GTACCGATAC
Statistics
Matches: 393, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
421 1 0.00
422 236 0.60
423 156 0.40
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (422 bp):
AAAAAATATCGATACAAATTAAAAAAAGTATCGATACATTTTGCTTACATATTCTCTTGTTAAAC
CGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACATTATAATAATCGGTTTCGATGTT
TTAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGGGATTCATA
CTGGACAAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTATCTCGT
TAAACCGGTATATTTTTACCAGTTACATTGAAAATTTACCTATTACGTTATAATAATCAGTTTCG
ATGTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGAGTGCATCTCGTTAGAGAT
TCATACTGGACAAAAAGTATCGATACAAATTA
Found at i:90094 original size:199 final size:200
Alignment explanation
Indices: 89745--90287 Score: 822
Period size: 199 Copynumber: 2.7 Consensus size: 200
89735 ATACAAATTA
* * *
89745 AAAAAATATCGATACGAATTAAAAAAAGTATCGATACTTTTTGCTTACATATTCTCTATTTAAAC
1 AAAAAGTATCGATACAAATT-AAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTATTTAAAC
*
89810 CGGTATATTTTTATCGGTTACATTGTATATTTACCTATTACGGTTATAATAATCGGTTTCGATGT
65 CGGTATATTTTTACCGGTTACATTGTATATTTACCTATTAC-GTTATAATAATCGGTTTCGATGT
* *
89875 TTTAAGGATCGATACTTCTCATATATGTATCGATACTTTATACGTGCATCTCGTTTGGGATTCAT
129 TTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGAGATTCAT
89940 ACTGGAC
194 ACTGGAC
* *
89947 AAAAAGTATCGATACAAATTAAAAAAGTATTGATACTTTTTGCTTACCTCTTCTCT-TGTTAAAC
1 AAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTAT-TTAAAC
*
90011 CGGTATA-TTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGGTTTCGATGTT
65 CGGTATATTTTTACCGGTTACATTGTATATTTACCTATTACGTTATAATAATCGGTTTCGATGTT
* *
90075 TTAAGGATTGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGAGATTCATA
130 TTAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGAGATTCATA
90140 CTGGAC
195 CTGGAC
* * * *
90146 AAAAAGTATGGATACAAATT-AAAAAGTACCGATACTTTTTGCTTACCTATTCTCTCTTTAAACT
1 AAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTATTTAAACC
* * * * * * ** *
90210 GATATATTTTTACCGGTAACATTGCATATTTACCAATTACATTATAATAATCGGGTAAGATTTTT
66 GGTATATTTTTACCGGTTACATTGTATATTTACCTATTACGTTATAATAATCGGTTTCGATGTTT
90275 TAAGGATCGATAC
131 TAAGGATCGATAC
90288 AATTTAAACA
Statistics
Matches: 311, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
198 43 0.14
199 172 0.55
200 32 0.10
201 46 0.15
202 18 0.06
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (200 bp):
AAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTATTTAAACC
GGTATATTTTTACCGGTTACATTGTATATTTACCTATTACGTTATAATAATCGGTTTCGATGTTT
TAAGGATCGATACTTCTCATACATGTATCGATACTTTATACGTGCATCTCGTTTGAGATTCATAC
TGGAC
Found at i:97854 original size:20 final size:20
Alignment explanation
Indices: 97825--97862 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
97815 CGCTTTACTT
*
97825 GTTTTTTCATATTGAACCCG
1 GTTTTATCATATTGAACCCG
97845 GTTTTATCATATTGAACC
1 GTTTTATCATATTGAACC
97863 TATTATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
GTTTTATCATATTGAACCCG
Found at i:97940 original size:182 final size:183
Alignment explanation
Indices: 97240--98065 Score: 1203
Period size: 183 Copynumber: 4.5 Consensus size: 183
97230 TTATTAAAGT
* * * * ** * *
97240 ATCGATACCTTCAACATATCCGGCAGCGCTTTACCGGTTTTGTCATAATCAAATCTGTTTTTTCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
* *
97305 TATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGTG
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
97370 CTATTATTG-TGTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATAGA
131 CTATTATTGCT-TTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGA
* * * *** * * * *
97423 ATTGATACCTTCAACATATCCGATAGCACTTTATTGGTTTTGTCATAATGAAACTGGTTTTTTCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
* * **
97488 TATTTTTACCTGTTATATTGTTACGTATCTATACATGTTTATAAAGTATAGATACTTTATAGATG
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
**
97553 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATTTATACTTATTTGAATGGA
131 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGA
* * * *
97606 ATCGATACCTTCAACATATCTGGTAGCACTTTACCAGTTTTGTCATATTGAACCTGGTTTTGTTA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
*
97671 TATTTTTACATGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
* *
97736 CTATTATTGATTTTCTTTTAAATTCCAAAAGTATTGATACTTATTTGAATGGA
131 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGA
** * *
97789 ATCGATACCTTCAACATATCCGGTAGCGCTTTACTTGTTTTTTCATATTGAACCCGGTTTTATCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
** * *
97854 TA-TTGAACCTATTATATTGTTACTTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
97918 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATAATTATTTGAATGGA
131 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGA
97971 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTG---TATTGAACCCGGTTTTGTCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
* *
98033 TATTTTTACCTGATATATTGTTATGTATCGATA
66 TATTTTTACCTGTTATATTGTTACGTATCGATA
98066 TATATTTGAA
Statistics
Matches: 581, Mismatches: 60, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
179 21 0.04
180 24 0.04
182 146 0.25
183 389 0.67
184 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (183 bp):
ATCGATACCTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTGAACCCGGTTTTGTCA
TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
CTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGA
Found at i:98552 original size:27 final size:26
Alignment explanation
Indices: 98508--98570 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
98498 AAGATAAAAT
*
98508 TATATTTTAAAAATTTTAAACTTTTA
1 TATAATTTAAAAATTTTAAACTTTTA
* * *
98534 TATAATTTAAATATATTTATATTTTTA
1 TATAATTTAAAAAT-TTTAAACTTTTA
*
98561 AATAATTTAA
1 TATAATTTAA
98571 TTTATATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TATAATTTAAAAATTTTAAACTTTTA
Found at i:98554 original size:19 final size:17
Alignment explanation
Indices: 98530--98569 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
98520 ATTTTAAACT
98530 TTTATATAATTTAAATATA
1 TTTATAT-ATTTAAATA-A
*
98549 TTTATATTTTTAAATAA
1 TTTATATATTTAAATAA
98566 TTTA
1 TTTA
98570 ATTTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATATATTTAAATAA
Found at i:98560 original size:18 final size:16
Alignment explanation
Indices: 98539--98573 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
98529 TTTTATATAA
98539 TTTAAATATATTTATATT
1 TTTAAATA-ATTTA-ATT
98557 TTTAAATAATTTAATT
1 TTTAAATAATTTAATT
98573 T
1 T
98574 ATATTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATAATTTAATT
Found at i:99626 original size:35 final size:35
Alignment explanation
Indices: 99579--99649 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 35
99569 TATATATGAG
*
99579 ATCATT-AAAAAAAATAATTTAATATTCAAATTATA
1 ATCATTAAAAAAAAAT-ATTTAAGATTCAAATTATA
99614 ATCA-TAAGAAAAAAATATTTAAGATTCAAATTATA
1 ATCATTAA-AAAAAAATATTTAAGATTCAAATTATA
99649 A
1 A
99650 ATTTATCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
34 1 0.03
35 24 0.73
36 8 0.24
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.34
Consensus pattern (35 bp):
ATCATTAAAAAAAAATATTTAAGATTCAAATTATA
Found at i:105292 original size:23 final size:23
Alignment explanation
Indices: 105266--105310 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
105256 AATGTTTTAG
*
105266 TAAGGGGGAGTAATTTTACAAAT
1 TAAGGGGAAGTAATTTTACAAAT
105289 TAAGGGGAAGTAATTTTACAAA
1 TAAGGGGAAGTAATTTTACAAA
105311 ATTGATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.29
Consensus pattern (23 bp):
TAAGGGGAAGTAATTTTACAAAT
Found at i:109354 original size:16 final size:16
Alignment explanation
Indices: 109335--109365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109325 TTTTGATTTG
*
109335 TTTTAATTTTTTTAAT
1 TTTTAATTCTTTTAAT
109351 TTTTAATTCTTTTAA
1 TTTTAATTCTTTTAA
109366 AAGCATACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTCTTTTAAT
Found at i:112632 original size:18 final size:16
Alignment explanation
Indices: 112608--112652 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
112598 AATAAGTTAG
112608 TAAAATAGAAATCAAAA
1 TAAAATA-AAATCAAAA
*
112625 TCAAAATAATAATGAAAA
1 T-AAAATAA-AATCAAAA
112643 TAAAATAAAA
1 TAAAATAAAA
112653 ATTCCTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 9 0.36
18 14 0.56
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATCAAAA
Found at i:114971 original size:20 final size:20
Alignment explanation
Indices: 114946--114987 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
114936 ACCTGGATCG
*
114946 AATAAAATTAAATAAATAAT
1 AATAAAAATAAATAAATAAT
*
114966 AATAAAAATAAATATATAAT
1 AATAAAAATAAATAAATAAT
114986 AA
1 AA
114988 ATATGATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAATAAATAAATAAT
Found at i:114976 original size:16 final size:17
Alignment explanation
Indices: 114955--115264 Score: 85
Period size: 19 Copynumber: 17.3 Consensus size: 17
114945 GAATAAAATT
114955 AAATAAATA-ATAATAA
1 AAATAAATATATAATAA
114971 AAATAAATATATAATAA
1 AAATAAATATATAATAA
* **
114988 ATATGATGTATATATATAA
1 AAAT-AAATATATA-ATAA
* *
115007 TAAT-AATATATACT--
1 AAATAAATATATAATAA
* *
115021 AAATATATATATACTATA
1 AAATAAATATATAATA-A
*
115039 ATATATAATATATAACTAA
1 AAATA-AATATATAA-TAA
115058 TATATATAAATATATACTATAA
1 -A-A-ATAAATATATA--ATAA
*
115080 AAATATAATATATATATAT
1 AAATA-AATATATA-ATAA
* *
115099 TAATATAATATATTATATA
1 AAATA-AATATATAATA-A
** * *
115118 TTATATATAATATAATAT
1 AAATAAAT-ATATAATAA
* *
115136 ATAT-ACTATATAAT-A
1 AAATAAATATATAATAA
* * *
115151 TACTATACTATAATATATAA
1 AAATA-AATAT-ATA-ATAA
* *
115171 AATATAAATATACTATTAT
1 AA-ATAAATATA-TAATAA
*
115190 ATAT-AATATATAATAA
1 AAATAAATATATAATAA
* * * *
115206 ATATATATATATACTATT
1 AAATAAATATATAATA-A
*
115224 ATATATAATATATAATAA
1 AAATA-AATATATAATAA
* * *
115242 ATATATATACTATAATAT
1 AAATAAATA-TATAATAA
115260 AAATA
1 AAATA
115265 TACTATAATA
Statistics
Matches: 220, Mismatches: 46, Indels: 54
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.01
15 10 0.05
16 25 0.11
17 40 0.18
18 45 0.20
19 59 0.27
20 20 0.09
21 11 0.05
22 6 0.03
23 1 0.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
AAATAAATATATAATAA
Found at i:115001 original size:2 final size:2
Alignment explanation
Indices: 114977--115369 Score: 241
Period size: 2 Copynumber: 207.5 Consensus size: 2
114967 ATAAAAATAA
* *
114977 AT AT AT A- AT AA AT AT GAT GT AT AT AT AT A- AT A- AT A- AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
*
115016 AT ACT AA AT AT AT AT AT ACT AT A- AT AT AT A- AT AT AT A- ACT
1 AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T
* * *
115056 A- AT AT AT AT AA AT AT AT ACT AT AA AA AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
115097 AT -T A- AT AT A- AT AT AT -T AT AT AT -T AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
115132 AT AT AT AT ACT AT AT A- AT AT ACT AT ACT AT A- AT AT AT A- AA
1 AT AT AT AT A-T AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT
* *
115172 AT AT AA AT AT ACT AT -T AT AT AT A- AT AT AT A- AT AA AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
115212 AT AT AT ACT AT -T AT AT AT A- AT AT AT A- AT AA AT AT AT AT ACT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
115253 AT A- AT AT AA AT AT ACT AT A- AT AT AT AT A- AT AT AT -T AT A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
115291 AT AC GT ACT AT A- AT AT AT AT A- AT AT AT A- AT AC AT A- AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
115330 A- AT ACT AT A- AC AT AT A- AT A- AT AT AT AT CAT AT ACT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT
115369 A
1 A
115370 AATACCGTAA
Statistics
Matches: 311, Mismatches: 26, Indels: 108
0.70 0.06 0.24
Matches are distributed among these distances:
1 38 0.12
2 242 0.78
3 31 0.10
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:115370 original size:79 final size:77
Alignment explanation
Indices: 114999--115370 Score: 290
Period size: 82 Copynumber: 4.7 Consensus size: 77
114989 TATGATGTAT
*
114999 ATATATAATA-ATAATAT-ATACTA-AATATATATATACTATA-ATATATAATATATAACTAATA
1 ATATATAATACATAATATAATACTATAA-ATATA-ATAATATATATATATAATATATAA-TAATA
*
115060 -TATATAAATATATA
63 CTATATATATATATA
* * * * * *
115074 CTATA-AAAATATAATATATATA-TATTAATATAAT-ATAT-TATATATTATATATAAT-ATAAT
1 ATATATAATACATAATATA-ATACTATAAATATAATAATATATATATATAATATATAATAATACT
115134 ATATATACTATATA
65 ATATATA-TATATA
* * * *
115148 ATATACT-ATACTATAATATATAAAATATAAATATACTATTATATATAATATATAATAAAT-ATA
1 ATATA-TAATAC-ATAATATA-ATACTATAAATATA--ATAATATAT-ATATATAATATATAATA
115211 TATA-TATACTATTATATATA
60 -ATACTATA-TA-TATATATA
* *
115231 ATATATAATAAAT-ATAT-ATACTAT-AATATAAATATACTATAATATATATAATATATTATAAT
1 ATATATAATACATAATATAATACTATAAATAT-AATA-A-TAT-ATATATATAATATATAATAAT
115293 ACGTACTATAATATATATA
62 AC-TA-TAT-ATATATATA
*
115312 ATATATAATACATAATATAATACTATAACATATAATAATATATATCATATACTATATAA
1 ATATATAATACATAATATAATACTATAA-ATATAATAATATATAT-ATATAATATATAA
115371 ATACCGTAAT
Statistics
Matches: 241, Mismatches: 21, Indels: 63
0.74 0.06 0.19
Matches are distributed among these distances:
72 3 0.01
73 8 0.03
74 30 0.12
75 15 0.06
76 18 0.07
77 15 0.06
78 6 0.02
79 26 0.11
80 9 0.04
81 34 0.14
82 39 0.16
83 27 0.11
84 7 0.03
85 4 0.02
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (77 bp):
ATATATAATACATAATATAATACTATAAATATAATAATATATATATATAATATATAATAATACTA
TATATATATATA
Found at i:115438 original size:26 final size:26
Alignment explanation
Indices: 115403--115452 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
115393 ATATACCATA
* *
115403 CTATATTATATAAAATAATATATAGT
1 CTATAATATAGAAAATAATATATAGT
**
115429 CTATAATATAGAGTATAATATATA
1 CTATAATATAGAAAATAATATATA
115453 AAAGGAGTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
CTATAATATAGAAAATAATATATAGT
Found at i:115453 original size:7 final size:7
Alignment explanation
Indices: 114976--115438 Score: 265
Period size: 7 Copynumber: 65.9 Consensus size: 7
114966 AATAAAAATA
114976 AATATAT
1 AATATAT
*
114983 AATAAAT
1 AATATAT
*
114990 -ATGATGT
1 AAT-ATAT
114997 ATATATAT
1 A-ATATAT
115005 AATA-AT
1 AATATAT
115011 AATATAT
1 AATATAT
* *
115018 ACTAAAT
1 AATATAT
115025 -ATATAT
1 AATATAT
115031 -ATACTAT
1 AATA-TAT
115038 AATATAT
1 AATATAT
115045 AATATAT
1 AATATAT
115052 AACTA-AT
1 AA-TATAT
115059 -ATATAT
1 AATATAT
115065 AAATATAT
1 -AATATAT
*
115073 ACTATA-
1 AATATAT
*
115079 AAAATAT
1 AATATAT
115086 AATATAT
1 AATATAT
115093 -ATATAT
1 AATATAT
*
115099 TA-ATAT
1 AATATAT
115105 AATATAT
1 AATATAT
*
115112 TATATAT
1 AATATAT
*
115119 TATATAT
1 AATATAT
115126 AATATA-
1 AATATAT
115132 ATATATAT
1 A-ATATAT
*
115140 ACTATAT
1 AATATAT
115147 AATATACT
1 AATATA-T
115155 -ATACTAT
1 AATA-TAT
115162 AATATAT
1 AATATAT
*
115169 AAAATAT
1 AATATAT
115176 AA-ATAT
1 AATATAT
*
115182 ACTAT-T
1 AATATAT
115188 -ATATAT
1 AATATAT
115194 AATATAT
1 AATATAT
*
115201 AATAAAT
1 AATATAT
115208 -ATATAT
1 AATATAT
115214 ATATACTAT
1 A-ATA-TAT
*
115223 TATATAT
1 AATATAT
115230 AATATAT
1 AATATAT
115237 AATAAATAT
1 AAT--ATAT
115246 ATATACTAT
1 A-ATA-TAT
115255 AATATA-
1 AATATAT
115261 AATATACT
1 AATATA-T
115269 -ATA-AT
1 AATATAT
115274 -ATATAT
1 AATATAT
115280 AATATAT
1 AATATAT
*
115287 TATA-AT
1 AATATAT
*
115293 ACGTACTAT
1 A-ATA-TAT
115302 AATATATAT
1 -A-ATATAT
115311 AATATAT
1 AATATAT
*
115318 AATACAT
1 AATATAT
115325 -A-ATAT
1 AATATAT
115330 AATACTAT
1 AATA-TAT
*
115338 AACATAT
1 AATATAT
115345 AATAATAT
1 AAT-ATAT
115353 ATATCATAT
1 A-AT-ATAT
*
115362 ACTATAT
1 AATATAT
115369 AA-ATACCGT
1 AATATA---T
*
115378 AATGTAT
1 AATATAT
**
115385 GCTATAT
1 AATATAT
*
115392 AATATAC
1 AATATAT
*
115399 CATACTAT
1 AATA-TAT
*
115407 ATTATAT
1 AATATAT
115414 AA-A-AT
1 AATATAT
115419 AATATAT
1 AATATAT
* *
115426 AGTCTAT
1 AATATAT
115433 AATATA
1 AATATA
115439 GAGTATAATA
Statistics
Matches: 356, Mismatches: 52, Indels: 96
0.71 0.10 0.19
Matches are distributed among these distances:
5 16 0.04
6 64 0.18
7 191 0.54
8 49 0.14
9 29 0.08
10 7 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:123630 original size:12 final size:12
Alignment explanation
Indices: 123613--123637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123603 AAGGGATTCG
123613 AAAAACAAAAAA
1 AAAAACAAAAAA
123625 AAAAACAAAAAA
1 AAAAACAAAAAA
123637 A
1 A
123638 GCTTTCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:129984 original size:14 final size:14
Alignment explanation
Indices: 129953--129997 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
129943 GATTGAGAAA
129953 ACATACAT-CA-AC
1 ACATACATACATAC
*
129965 ACATACATACATAT
1 ACATACATACATAC
129979 ACATACATACATGAC
1 ACATACATACAT-AC
129994 ACAT
1 ACAT
129998 GAAATTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.29
13 2 0.07
14 13 0.46
15 5 0.18
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (14 bp):
ACATACATACATAC
Found at i:130900 original size:43 final size:43
Alignment explanation
Indices: 130852--131087 Score: 185
Period size: 43 Copynumber: 5.4 Consensus size: 43
130842 CATACCTCCC
* * *
130852 CATCACGTAGGAGCCGTGTCGCCCCTAGATAATTAGTCGTCCT
1 CATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCT
130895 CATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCT
1 CATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCT
* * *** *
130938 CATCACGTAGGAACCGTGTTATCACTATTCCTAAAGGTGGCCAGCCGTCCT
1 CATCACGTAGGAACCGTG---TCAC---CCCT--AGATAATCAGTCGTCCT
* * * * *
130989 CATCACGTAAGAACCGTGTCATCCACC--G---ACCAGACCTTCT
1 CATCACGTAGGAACCGTGTCA-CC-CCTAGATAATCAGTCGTCCT
* * * *
131029 CATCACGTAGGAGCTGTGTCACCCCTAGATAACCAGTTGTCCT
1 CATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCT
131072 CATCACGTAGGAACCG
1 CATCACGTAGGAACCG
131088 AGTTATCACC
Statistics
Matches: 154, Mismatches: 24, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 27 0.18
43 81 0.53
46 4 0.03
47 2 0.01
48 3 0.02
49 4 0.03
51 29 0.19
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (43 bp):
CATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCT
Found at i:131183 original size:133 final size:133
Alignment explanation
Indices: 130891--131190 Score: 397
Period size: 134 Copynumber: 2.2 Consensus size: 133
130881 TAATTAGTCG
* * *
130891 TCCTCATCACGTAGGAACCGTGTCACCCCTAGATAATCAGTCGTCCTCATCACGTAGGAACCGTG
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAG
* * * * *
130956 TTATCACTATTCCTAAAGGTGGCCAGCCGTCCTCATCACGTAAGAACCGTGTCATCCACCGACCA
66 TTATCACCAATCCTAAA-GTGGCCAGACGTCCTCATCACATAAGAACCGTATCATCCACCGACCA
131021 GACC
130 GACC
* * *
131025 TTCTCATCACGTAGGAGCTGTGTCACCCCTAGATAACCAGTTGTCCTCATCACGTAGGAACCGAG
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAG
* * **
131090 TTATCACCAATCCTAATA-TGGCCAGAAC-TCTTCATCACATATGAGTCGTATCATCCACCGACC
66 TTATCACCAATCCTAA-AGTGGCCAG-ACGTCCTCATCACATAAGAACCGTATCATCCACCGACC
*
131153 AGATC
129 AGACC
* *
131158 TCCTCATCACGTAGGAGCCATGTCACCCTTAGA
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGA
131191 CGACCAAAAC
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
133 69 0.48
134 74 0.51
135 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (133 bp):
TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAG
TTATCACCAATCCTAAAGTGGCCAGACGTCCTCATCACATAAGAACCGTATCATCCACCGACCAG
ACC
Found at i:131208 original size:133 final size:133
Alignment explanation
Indices: 130891--131213 Score: 319
Period size: 133 Copynumber: 2.4 Consensus size: 133
130881 TAATTAGTCG
* * * * ** * *
130891 TCCTCATCACGTAGGAACCGTGTCACCCCTAGATAATC-AGTCGTCCTCATCACGTAGGAACCGT
1 TCCTCATCACGTAGGAGCCATGTCACCCCTAGACAACCAAAAC-TACTCATCACGTAGGAACCGA
* * * * *
130955 GTTATCACTATTCCTAAAGGTGGCCAGCCGTCCTCATCACGTAAGAACCGTGTCATCCACCGACC
65 GTTATCACCAATCCTAAA-GTGGCCAGACGTCCTCATCACATAAGAACCGTATCATCCACCGACC
131020 AGACC
129 AGACC
* ** * **** *
131025 TTCTCATCACGTAGGAGCTGTGTCACCCCTAGATAACCAGTTGTCCTCATCACGTAGGAACCGAG
1 TCCTCATCACGTAGGAGCCATGTCACCCCTAGACAACCAAAACTACTCATCACGTAGGAACCGAG
* * **
131090 TTATCACCAATCCTAATA-TGGCCAGAAC-TCTTCATCACATATGAGTCGTATCATCCACCGACC
66 TTATCACCAATCCTAA-AGTGGCCAG-ACGTCCTCATCACATAAGAACCGTATCATCCACCGACC
*
131153 AGATC
129 AGACC
* * *
131158 TCCTCATCACGTAGGAGCCATGTCACCCTTAGACGACCAAAACTATTCATCACGTA
1 TCCTCATCACGTAGGAGCCATGTCACCCCTAGACAACCAAAACTACTCATCACGTA
131214 TGAGCAGTGT
Statistics
Matches: 156, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
133 84 0.54
134 70 0.45
135 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (133 bp):
TCCTCATCACGTAGGAGCCATGTCACCCCTAGACAACCAAAACTACTCATCACGTAGGAACCGAG
TTATCACCAATCCTAAAGTGGCCAGACGTCCTCATCACATAAGAACCGTATCATCCACCGACCAG
ACC
Found at i:133214 original size:5 final size:5
Alignment explanation
Indices: 133200--133236 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
133190 TTTCACTTTA
*
133200 ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATCTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT-TTT A
133237 CAAAAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:145929 original size:20 final size:20
Alignment explanation
Indices: 145904--145951 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
145894 GTCAGAGTGT
*
145904 GGCGGCGGACGGCTGACGGC
1 GGCGGCGGACGGCGGACGGC
* *
145924 GGCGGCAGACGGCGGGCGGC
1 GGCGGCGGACGGCGGACGGC
*
145944 GGCAGCGG
1 GGCGGCGG
145952 CCAGCGGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.58, T:0.02
Consensus pattern (20 bp):
GGCGGCGGACGGCGGACGGC
Found at i:145941 original size:17 final size:16
Alignment explanation
Indices: 145921--145952 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
145911 GACGGCTGAC
145921 GGCGGCGGCAGACGGCG
1 GGCGGCGGCAG-CGGCG
145938 GGCGGCGGCAGCGGC
1 GGCGGCGGCAGCGGC
145953 CAGCGGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.31, G:0.59, T:0.00
Consensus pattern (16 bp):
GGCGGCGGCAGCGGCG
Found at i:148444 original size:2 final size:2
Alignment explanation
Indices: 148437--148461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
148427 AGCCAGGCAC
148437 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
148462 CCGAGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:158308 original size:4 final size:4
Alignment explanation
Indices: 158299--158325 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
158289 GTATTTTTCT
158299 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
158326 GTTATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:159414 original size:200 final size:198
Alignment explanation
Indices: 159072--159470 Score: 714
Period size: 200 Copynumber: 2.0 Consensus size: 198
159062 GAAAGGCGGA
*
159072 CTATTGTAAGGTTAAGAAACGCCGTGACCAGAAATTTATAAGATAATTAACAATTCGGTAAAGCG
1 CTATTGTAAGGTTAAGAAACGACGTGACCAGAAATTTATAAGA-AATTAACAATTCGGTAAAGCG
159137 CTGTCGGAAATATTGACAGACTCATATTGTAGGTAGAAAACATGAAGAACTATTAAAAAATTTGG
65 CTGTCGGAAATATTGACAGACTCATATTGTAGGTAGAAAACATGAAGAACTATTAAAAAATTTGG
159202 TAACTCGTAAACTTTGATTATCAGTAGGTATCGATACATATATATAAGTATCTATACTTACTTCA
130 TAACTCGTAAACTTTGATTATCAGTAGGTATCGATACATATATATAAGTATCTATACTTACTTCA
159267 CTGT
195 CTGT
159271 CTATTGTAAGGTTAAGAAACGACG-GACCAGAAATTTAATAAG-AATTAACAAATTC-GTAAAGC
1 CTATTGTAAGGTTAAGAAACGACGTGACCAGAAATTT-ATAAGAAATTAAC-AATTCGGTAAAGC
159333 GCTGTCGGAAATATTGACAGACTCATAATATTGTAGGTAGAAAACATGAAGAACTATTAAAAAAT
64 GCTGTCGGAAATATTGACAGACTC---ATATTGTAGGTAGAAAACATGAAGAACTATTAAAAAAT
159398 TTGGTAACTCGTAAACTTTGATTATCAGTAGGTATCGATACATATATATAAGTATCTATACTTAC
126 TTGGTAACTCGTAAACTTTGATTATCAGTAGGTATCGATACATATATATAAGTATCTATACTTAC
159463 TTCACTGT
191 TTCACTGT
159471 AAAAAATATT
Statistics
Matches: 194, Mismatches: 1, Indels: 9
0.95 0.00 0.04
Matches are distributed among these distances:
197 38 0.20
198 17 0.09
199 28 0.14
200 111 0.57
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (198 bp):
CTATTGTAAGGTTAAGAAACGACGTGACCAGAAATTTATAAGAAATTAACAATTCGGTAAAGCGC
TGTCGGAAATATTGACAGACTCATATTGTAGGTAGAAAACATGAAGAACTATTAAAAAATTTGGT
AACTCGTAAACTTTGATTATCAGTAGGTATCGATACATATATATAAGTATCTATACTTACTTCAC
TGT
Found at i:159948 original size:72 final size:73
Alignment explanation
Indices: 159866--160147 Score: 354
Period size: 72 Copynumber: 3.9 Consensus size: 73
159856 ATGCACTACC
* * * *
159866 TATTATGTTAAACTACCTATCGGTTTGTTTGAAGGTTACTAATAATGTAAATGGTAAAATAAATA
1 TATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAATA
159931 GG-GTACA
66 GGCGTACA
* * **
159938 TATTACGTTAAAATACCTATCGGTTTGTTTAAAGGTTACTAATAATGTAAATAGTAAAATAAAAT
1 TATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAAT-AAAT
* *
160003 AGGCATTACC
65 AGGC-GTACA
* *
160013 TATTACGTT-AACTATCTATCAGTTTGTTTAAATGTTACTAATAATGTAAACGGTAAAA-AAATA
1 TATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAATA
*
160076 GGCGCTACT
66 GGCG-TACA
* * * * *
160085 TATTACATTAAACTAGCTACCAGTTTGTTTAAATGTTAATAATAATGTAAACGGTAAAATAAA
1 TATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAA
160148 GTGGGTGCTA
Statistics
Matches: 186, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
72 75 0.40
73 53 0.28
74 46 0.25
75 12 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (73 bp):
TATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAATA
GGCGTACA
Found at i:160161 original size:147 final size:147
Alignment explanation
Indices: 159845--160147 Score: 412
Period size: 147 Copynumber: 2.1 Consensus size: 147
159835 GTTAATCGGT
* * * *
159845 TAAAATAAAATATGCACTACCTATTATGTTAAACTACCTATCGGTTTGTTTGAAGGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATA
* * * *
159910 ATGTAAATGGTAAAATAAATAGGGTACATATTACGTTAAAATACCTATCGGTTTGTTTAAAGGTT
66 ATGTAAACGGTAAAATAAATAGGGTACATATTACATTAAAATACCTACCAGTTTGTTTAAAGGTT
* *
159975 ACTAATAATGTAAATAG
131 AATAATAATGTAAACAG
* * *
159992 TAAAATAAAATAGGCATTACCTATTACGTT-AACTATCTATCAGTTTGTTTAAATGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATA
* * * *
160056 ATGTAAACGGTAAAA-AAATAGGCGCTACTTATTACATTAAACTAGCTACCAGTTTGTTTAAATG
66 ATGTAAACGGTAAAATAAATAGG-G-TACATATTACATTAAAATACCTACCAGTTTGTTTAAAGG
*
160120 TTAATAATAATGTAAACGG
129 TTAATAATAATGTAAACAG
160139 TAAAATAAA
1 TAAAATAAA
160148 GTGGGTGCTA
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
145 7 0.05
146 45 0.33
147 84 0.62
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (147 bp):
TAAAATAAAATAGGCACTACCTATTACGTTAAACTACCTATCAGTTTGTTTAAAGGTTACTAATA
ATGTAAACGGTAAAATAAATAGGGTACATATTACATTAAAATACCTACCAGTTTGTTTAAAGGTT
AATAATAATGTAAACAG
Found at i:160776 original size:21 final size:22
Alignment explanation
Indices: 160743--160783 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
160733 CTAGGACAGG
160743 GAGTATCAATACT-CCTTTAAT
1 GAGTATCAATACTACCTTTAAT
**
160764 GAGTATCGGTACTACCTTTA
1 GAGTATCAATACTACCTTTA
160784 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (22 bp):
GAGTATCAATACTACCTTTAAT
Found at i:164234 original size:23 final size:23
Alignment explanation
Indices: 164208--164308 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 23
164198 CACTGAAATG
*
164208 CACATAGAAATGTCTCGAATGAC
1 CACATAGAAATGTCTCGAAGGAC
* * * *
164231 CACATAGTATTTTCCCGAAGGAC
1 CACATAGAAATGTCTCGAAGGAC
* * *
164254 CGCGTAGAAATGTCTCAAAGGAC
1 CACATAGAAATGTCTCGAAGGAC
** *
164277 CATGTAGAATTGTC-CAGAAGGAC
1 CACATAGAAATGTCTC-GAAGGAC
*
164300 CATATAGAA
1 CACATAGAA
164309 TTATCCAGAA
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
22 1 0.02
23 59 0.98
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (23 bp):
CACATAGAAATGTCTCGAAGGAC
Found at i:164297 original size:46 final size:46
Alignment explanation
Indices: 164212--164300 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
164202 GAAATGCACA
* * * * *
164212 TAGAAATGTCTCGAATGACCACATAGTATTTTCCCGAAGGACCGCG
1 TAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGACCGCG
**
164258 TAGAAATGTCTCAAAGGACCATGTAGAATTGTCCAGAAGGACC
1 TAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGACC
164301 ATATAGAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (46 bp):
TAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGACCGCG
Found at i:164308 original size:46 final size:46
Alignment explanation
Indices: 164208--164308 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 46
164198 CACTGAAATG
* * * * *
164208 CACATAGAAATGTCTCGAATGACCACATAGTATTTTCCCGAAGGAC
1 CACATAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGAC
* * **
164254 CGCGTAGAAATGTCTCAAAGGACCATGTAGAATTGTCCAGAAGGAC
1 CACATAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGAC
*
164300 CATATAGAA
1 CACATAGAA
164309 TTATCCAGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (46 bp):
CACATAGAAATGTCTCAAAGGACCACATAGAATTGTCCAGAAGGAC
Found at i:164330 original size:23 final size:23
Alignment explanation
Indices: 164228--164331 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
164218 TGTCTCGAAT
* * * *
164228 GACCACATAGTATTTTCCCGAAG
1 GACCACGTAGAATTGTCCAGAAG
* *
164251 GACCGCGTAGAAATGTCTCA-AAG
1 GACCACGTAGAATTGTC-CAGAAG
*
164274 GACCATGTAGAATTGTCCAGAAG
1 GACCACGTAGAATTGTCCAGAAG
** *
164297 GACCATATAGAATTATCCAGAAG
1 GACCACGTAGAATTGTCCAGAAG
*
164320 GACCGCGTAGAA
1 GACCACGTAGAA
164332 CCCTCAACTC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
22 2 0.03
23 62 0.95
24 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (23 bp):
GACCACGTAGAATTGTCCAGAAG
Found at i:164727 original size:18 final size:18
Alignment explanation
Indices: 164704--164742 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
164694 AGTCAAAGCA
164704 AAACA-CTTATAACTCTTG
1 AAACACCTTATAACT-TTG
164722 AAACACTCTTATAACTTTG
1 AAACAC-CTTATAACTTTG
164741 AA
1 AA
164743 TCATCATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (18 bp):
AAACACCTTATAACTTTG
Found at i:166096 original size:20 final size:20
Alignment explanation
Indices: 166070--166118 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
166060 CAAACCATTC
166070 AGGGGAATCAGTACCCCTTA
1 AGGGGAATCAGTACCCCTTA
*
166090 GGGGGAATCAGTACCCCTTA
1 AGGGGAATCAGTACCCCTTA
166110 AGGGGAATC
1 AGGGGAATC
166119 GGTTCCCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (20 bp):
AGGGGAATCAGTACCCCTTA
Found at i:168513 original size:18 final size:17
Alignment explanation
Indices: 168483--168516 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
168473 GGCGGCAAAG
*
168483 AAGAGAAAGAGAGATTA
1 AAGAGAAAAAGAGATTA
168500 AAGAGGAAAAAGAGATT
1 AAGA-GAAAAAGAGATT
168517 CTGGCGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (17 bp):
AAGAGAAAAAGAGATTA
Found at i:168584 original size:23 final size:22
Alignment explanation
Indices: 168557--168601 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
168547 CAATTCCCCT
*
168557 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATC-ATTCCCATTCA
168580 AAGGGGGAATCATTCCCATTCA
1 AAGGGGGAATCATTCCCATTCA
168602 TGGGGGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (22 bp):
AAGGGGGAATCATTCCCATTCA
Found at i:168595 original size:22 final size:23
Alignment explanation
Indices: 168557--168617 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
168547 CAATTCCCCT
*
168557 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATCGATTCCCATTCA
168580 AAGGGGGAATC-ATTCCCATTC-
1 AAGGGGGAATCGATTCCCATTCA
* *
168601 ATGGGGGTATCGATTCC
1 AAGGGGGAATCGATTCC
168618 TCTGTCCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.26
22 14 0.41
23 11 0.32
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (23 bp):
AAGGGGGAATCGATTCCCATTCA
Found at i:176411 original size:103 final size:108
Alignment explanation
Indices: 176235--176430 Score: 303
Period size: 103 Copynumber: 1.9 Consensus size: 108
176225 TAACAAGACA
176235 TTTGAAAAATTGTTTTTGACAAAACTCTCACTTAATAAAATATTTCATGTAAAAGAGAAATATTT
1 TTTGAAAAATTGTTTTTGACAAAACTCTCACTTAATAAAATATTTCATG-AAAAGAGAAATATTT
*
176300 GGAAAATATTAAAGCTCC-CCTTTTTCATTGAGAAACTGAATTT
65 GGAAAATATTAAAGCTCCTCATTTTTCATTGAGAAACTGAATTT
* * * *
176343 TTTGAAAAATTGTTTTTGGCAAAATTC-CCCTTAATAAAATTTTTCATG-AAA-A-AAATATTTG
1 TTTGAAAAATTGTTTTTGACAAAACTCTCACTTAATAAAATATTTCATGAAAAGAGAAATATTTG
176404 GAAAATATTAAAGCTCCTCATTTTTCA
66 GAAAATATTAAAGCTCCTCATTTTTCA
176431 AACATATATT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
103 26 0.32
104 9 0.11
105 3 0.04
107 19 0.23
108 25 0.30
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (108 bp):
TTTGAAAAATTGTTTTTGACAAAACTCTCACTTAATAAAATATTTCATGAAAAGAGAAATATTTG
GAAAATATTAAAGCTCCTCATTTTTCATTGAGAAACTGAATTT
Found at i:177464 original size:19 final size:20
Alignment explanation
Indices: 177421--177467 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
177411 TCAAAATCCT
177421 TTTTCAAAATTCCATTTTGC
1 TTTTCAAAATTCCATTTTGC
177441 TTTTCAAAA-TCCAATTTTGC
1 TTTTCAAAATTCC-ATTTTGC
177461 -TTTCAAA
1 TTTTCAAA
177468 TGAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGC
Found at i:179294 original size:21 final size:22
Alignment explanation
Indices: 179268--179308 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
179258 CCAGTACAAG
179268 GAGTATCGATACT-CCTTTAAT
1 GAGTATCGATACTACCTTTAAT
179289 GAGTATCGATACTACCTTTA
1 GAGTATCGATACTACCTTTA
179309 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (22 bp):
GAGTATCGATACTACCTTTAAT
Found at i:179830 original size:22 final size:23
Alignment explanation
Indices: 179795--179842 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
179785 ATATAAAATA
*
179795 AAATAGGCGCTACCTATTACGAT
1 AAATAAGCGCTACCTATTACGAT
*
179818 AAATAAGC-CTACCTATTACGTT
1 AAATAAGCGCTACCTATTACGAT
179840 AAA
1 AAA
179843 CTAGCTACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (23 bp):
AAATAAGCGCTACCTATTACGAT
Found at i:180759 original size:105 final size:109
Alignment explanation
Indices: 180501--180784 Score: 310
Period size: 108 Copynumber: 2.7 Consensus size: 109
180491 TGTTAATATT
* * * * * * * * *
180501 TATTTATAACAAAATAAGAAATTAACCTATTTTGTTGTCTTCGGATTTCGAATG-TCCCATC-AG
1 TATTAATAACAAAATAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAA-GACCCCATCAAC
* * *
180564 TTTAAATTTTGGTAATATTTTAGATGCTACCTAATATGTTGATAA
65 TTTAAACTTTAGTAATATTTTAGACGCTACCTAATATGTTGATAA
* * *
180609 TATTAATAACAAAATAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAAGGCTCTATCAAC-
1 TATTAATAACAAAATAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAAGACCCCATCAACT
*
180673 TTAAACTTTAGTAATATTTTAGGCGCTACCT-A-ATG-TGATAA
66 TTAAACTTTAGTAATATTTTAGACGCTACCTAATATGTTGATAA
* * * ** * *
180714 TATTGATAATAAATTAAGTAATTAATTTATTTTGTTATCGTCAGATTTTTAAGACCCCATCAACT
1 TATTAATAACAAAATAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAAGACCCCATCAACT
180779 TTAAAC
66 TTAAAC
180785 AAGTGTTACC
Statistics
Matches: 148, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
105 60 0.41
106 9 0.06
107 2 0.01
108 76 0.51
109 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (109 bp):
TATTAATAACAAAATAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAAGACCCCATCAACT
TTAAACTTTAGTAATATTTTAGACGCTACCTAATATGTTGATAA
Found at i:184859 original size:36 final size:36
Alignment explanation
Indices: 184817--184896 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
184807 ATCGAATTAA
* *
184817 ACGGGGACGGAAAAAAATCGTTTATGCTAAACGGGG
1 ACGGGGACGGAAAAAAACCGTTTATGCTAAACGAGG
* **
184853 ATGGGGACGGGGAAAAACCGTTTATGCTAAACGAGG
1 ACGGGGACGGAAAAAAACCGTTTATGCTAAACGAGG
184889 ACGGGGAC
1 ACGGGGAC
184897 ATGGACGGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.36, T:0.15
Consensus pattern (36 bp):
ACGGGGACGGAAAAAAACCGTTTATGCTAAACGAGG
Found at i:190805 original size:19 final size:19
Alignment explanation
Indices: 190781--190825 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
190771 TAGTGTCTCA
*
190781 TCTTATTAAACCTATTGAT
1 TCTTATTAAACCGATTGAT
*
190800 TCTTATTAGACCGATTGAT
1 TCTTATTAAACCGATTGAT
190819 TCTTATT
1 TCTTATT
190826 TTAAAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.49
Consensus pattern (19 bp):
TCTTATTAAACCGATTGAT
Found at i:195670 original size:137 final size:135
Alignment explanation
Indices: 195334--196201 Score: 918
Period size: 136 Copynumber: 6.4 Consensus size: 135
195324 CACTATTAAC
* * * * * *
195334 GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTATCAGAAAATAGGTTATAATTGCCCTAC
1 GTGAAAGCGCTTCTTGTGGGACGC-TCTTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTAT
* * * *
195399 TATGTGTAATGTCCCCC-GACG-GGACACTATTCACGTCAACACCTATTATATTTGATAGGACAC
65 TATGTGTGATGTCCCCCGGA-GAGG-CACTATTCACGTCAACACCTATTAT-GTTGAGAGGACGC
*
195462 -ACAATGTG
127 AACCATGTG
* * * * * *
195470 GTGAACGCGCTTCTTGTGGGGCGCGCTTTTCCTTTTTGTCAGATAATATGTTATAATTTCCCTAA
1 GTGAAAGCGCTTCTTGTGGGACGCTC-TTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTAT
* * * *
195535 TATATGTGATGTCCCCCGGTAG-GGCACTATTCACGTCAAAACCTATTATATTTGATAGGACGCA
65 TATGTGTGATGTCCCCCGG-AGAGGCACTATTCACGTCAACACCTATTAT-GTTGAGAGGACGCA
*
195599 ACAATGTG
128 ACCATGTG
* * * *
195607 ATGAAAGCGCTTCTTGTGGGACGCTCCTTTCCTTTATATCAGAGAATATGATATAATTACCCTAT
1 GTGAAAGCGCTTCTTGTGGGACGCT-CTTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTAT
* * * * ** *
195672 TATATGTGATGTTCCCCAGTGAGATACTATTCACGTCAACACCTATTATGTTGAGGGGACGCAAC
65 TATGTGTGATGTCCCCCGGAGAGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAAC
*
195737 CATGTT
130 CATGTG
** * * *
195743 GTGAAAGCTTTTCTTATGGGATGCGC-CTTTCCTTTTTGTTAGAGAATATGTTATAATTACACTA
1 GTGAAAGCGCTTCTTGTGGGA--CGCTCTTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTA
* * * * * *
195807 TTATGTGTGGTGTTCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTGAGGGGACACAA
64 TTATGTGTGATGTCCCCCGGAGAGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAA
*
195872 CCATGTT
129 CCATGTG
* * * *
195879 GTGAAAGCGCTTCTTGTGGGACGAGTCTTTCCTTTTTTGACATAGAATATGTTATAATTTCCCTA
1 GTGAAAGCGCTTCTTGTGGGACG-CTCTTTCC-TTTTTGTCAGAGAATATGTTATAATTACCCTA
* * * *
195944 TTATGTGTGACGTCCCCCGGCGAGGCACTATTCATGTCAACACCTATTATGTTGAGAGGACGTAA
64 TTATGTGTGATGTCCCCCGGAGAGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAA
*
196009 CCATATG
129 CCATGTG
* *
196016 GTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTTTCTGTAAGAGAATATGTTAT-A--A---T-T
1 GTGAAAGCGCTTCTTGTGGGACGC-TCTTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTAT
* ** * * *
196074 TATGTGTTATGTCTACC-GACGAGGCACTATCCACATCAACACCTATTATGTTGAGAGGACGTAA
65 TATGTGTGATGTCCCCCGGA-GAGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAA
*
196138 CCATATG
129 CCATGTG
*
196145 GTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTTTCTGT-AGAGAATATGTTATAATT
1 GTGAAAGCGCTTCTTGTGGGACGC-TCTTTCCTTTTTGTCAGAGAATATGTTATAATT
196202 TATGTGTTAT
Statistics
Matches: 632, Mismatches: 84, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
128 15 0.02
129 102 0.16
130 1 0.00
134 2 0.00
135 2 0.00
136 280 0.44
137 225 0.36
138 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (135 bp):
GTGAAAGCGCTTCTTGTGGGACGCTCTTTCCTTTTTGTCAGAGAATATGTTATAATTACCCTATT
ATGTGTGATGTCCCCCGGAGAGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAACC
ATGTG
Found at i:195835 original size:273 final size:269
Alignment explanation
Indices: 195334--196201 Score: 943
Period size: 273 Copynumber: 3.2 Consensus size: 269
195324 CACTATTAAC
* * * * *
195334 GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTATCAGAAAATAGGTTATAATTGCCCTAC
1 GTGAAAGCGCTTCTTGTGGGACGCATCTTTCC-TTTTATCAGAGAATATGTTATAATTACCCTAT
* * * *
195399 TATGTGTAATGTCCCCCGACGG-GACACTATTCACGTCAACACCTATTATATTTGATAGGACAC-
65 TATGTGTGATGTCCCCC-A-GGAGACACTATTCACGTCAACACCTATTAT-GTTGAGAGGACGCA
* * * * * *
195462 ACAATGTGGTGAACGCGCTTCTTGTGGGGCGCGCTTTTCCTTTTTGTCAGATAATATGTTATAAT
127 ACCATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTTTTTGTAAGAGAATATGTTATAAT
* * * * * ** * * *
195527 TTCCCTAATATATGTGATGTCCCCCGGTAGGGCACTATTCACGTCAAAACCTATTATATTTGATA
192 TACACTATTATGTGTGATGTTCCCCGGCGGGGCACTATTCACGTCAACACCTATTAT-GTTGAGA
*
195592 GGACGCAACAATGT
256 GGACGCAACCATGT
*
195606 GATGAAAGCGCTTCTTGTGGGACGC-TCCTTTCCTTTATATCAGAGAATATGATATAATTACCCT
1 G-TGAAAGCGCTTCTTGTGGGACGCAT-CTTTCCTTT-TATCAGAGAATATGTTATAATTACCCT
* * * *
195670 ATTATATGTGATGTTCCCCAGTGAGATACTATTCACGTCAACACCTATTATGTTGAGGGGACGCA
63 ATTATGTGTGATGTCCCCCAG-GAGACACTATTCACGTCAACACCTATTATGTTGAGAGGACGCA
* ** * * *
195735 ACCATGTTGTGAAAGCTTTTCTTATGGGATGCGCCTTTCCTTTTTGTTAGAGAATATGTTATAAT
127 ACCATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTTTTTGTAAGAGAATATGTTATAAT
* *
195800 TACACTATTATGTGTGGTGTTCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTGAGGG
192 TACACTATTATGTGTGATGTTCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTGAGAG
*
195865 GACACAACCATGTT
257 GACGCAACCATG-T
* * *
195879 GTGAAAGCGCTTCTTGTGGGACG-AGTCTTTCCTTTTTTGACATAGAATATGTTATAATTTCCCT
1 GTGAAAGCGCTTCTTGTGGGACGCA-TCTTTCCTTTTAT--CAGAGAATATGTTATAATTACCCT
* * * * *
195943 ATTATGTGTGACGTCCCCCGGCGAGGCACTATTCATGTCAACACCTATTATGTTGAGAGGACGTA
63 ATTATGTGTGATGTCCCCCAG-GAGACACTATTCACGTCAACACCTATTATGTTGAGAGGACGCA
* * *
196008 ACCATATGGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTTTCTGTAAGAGAATATG-T-T-A-
127 ACCATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTTTTTGTAAGAGAATATGTTATAAT
* * * * * *
196069 TA-A-T-TTATGTGTTATG-TCTACCGACGAGGCACTATCCACATCAACACCTATTATGTTGAGA
192 TACACTATTATGTGTGATGTTC-CCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTGAGA
* *
196130 GGACGTAACCATAT
256 GGACGCAACCATGT
* *
196144 GGTGAAAGCGCTTCTTGTGGGACGCGTCTTTCCTTTCTGT-AGAGAATATGTTATAATT
1 -GTGAAAGCGCTTCTTGTGGGACGCATCTTTCCTTT-TATCAGAGAATATGTTATAATT
196202 TATGTGTTAT
Statistics
Matches: 505, Mismatches: 76, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
264 17 0.03
265 3 0.01
266 89 0.18
267 3 0.01
268 1 0.00
269 2 0.00
270 1 0.00
271 4 0.01
272 63 0.12
273 322 0.64
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (269 bp):
GTGAAAGCGCTTCTTGTGGGACGCATCTTTCCTTTTATCAGAGAATATGTTATAATTACCCTATT
ATGTGTGATGTCCCCCAGGAGACACTATTCACGTCAACACCTATTATGTTGAGAGGACGCAACCA
TGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTTTTTGTAAGAGAATATGTTATAATTACA
CTATTATGTGTGATGTTCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTGAGAGGACG
CAACCATGT
Found at i:197187 original size:21 final size:21
Alignment explanation
Indices: 197163--197228 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
197153 GGTGTCATAA
*
197163 AACCCTGCGGGTTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
* ** *
197184 AACCTTGCGAACT-GGTATGT
1 AACCCTGCGGGCTAGGAATGT
* *
197204 ACCCCTGTGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
197225 AACC
1 AACC
197229 ATGTGGAGAT
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:197256 original size:42 final size:42
Alignment explanation
Indices: 197210--197339 Score: 109
Period size: 42 Copynumber: 3.1 Consensus size: 42
197200 ATGTACCCCT
* * **
197210 GTGGGCTAGGAATGTAACCATGTGGAGATGGTATATGAACTG
1 GTGGGCTAGGAATATAACCATGCGGAGATGACATATGAACTG
* * * *
197252 GTGGGCTGGGTATATACCCCTGCGGAGATGACATATGAACTG
1 GTGGGCTAGGAATATAACCATGCGGAGATGACATATGAACTG
* * * * * * *
197294 GTGGGAT-GGTCATATACCCTTGCAGAGATGGCATTTGAACTG
1 GTGGGCTAGG-AATATAACCATGCGGAGATGACATATGAACTG
197336 GTGG
1 GTGG
197340 ACTGGGTATG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 2 0.03
42 71 0.97
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.26
Consensus pattern (42 bp):
GTGGGCTAGGAATATAACCATGCGGAGATGACATATGAACTG
Found at i:197354 original size:42 final size:42
Alignment explanation
Indices: 197234--197354 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
197224 TAACCATGTG
* * *
197234 GAGATGGTATATGAACTGGTGGGCTGGGTATATACCCCTGCG
1 GAGATGGCATATGAACTGGTGGACTGGGTATATACCCCTGCA
* *
197276 GAGATGACATATGAACTGGTGGGA-T-GGTCATATACCCTTGCA
1 GAGATGGCATATGAACTGGT-GGACTGGGT-ATATACCCCTGCA
* *
197318 GAGATGGCATTTGAACTGGTGGACTGGGTATGTACCC
1 GAGATGGCATATGAACTGGTGGACTGGGTATATACCC
197355 ATGTGGCCTC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.09
42 56 0.84
43 5 0.07
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (42 bp):
GAGATGGCATATGAACTGGTGGACTGGGTATATACCCCTGCA
Found at i:199113 original size:19 final size:21
Alignment explanation
Indices: 199091--199143 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
199081 AAAAAAAAAT
199091 ATTTATAAA-AAAATATAC-A
1 ATTTATAAATAAAATATACTA
*
199110 ATTTTTTAAATAAAATATACTA
1 A-TTTATAAATAAAATATACTA
199132 ATTTA-AAATAAA
1 ATTTATAAATAAA
199144 TTTATTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 14 0.48
21 12 0.41
22 2 0.07
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTATAAATAAAATATACTA
Found at i:199126 original size:21 final size:21
Alignment explanation
Indices: 199096--199135 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
199086 AAAATATTTA
199096 TAAAAAAATATAC-AATTTTT
1 TAAAAAAATATACTAATTTTT
199116 TAAATAAAATATACTAATTT
1 TAAA-AAAATATACTAATTT
199136 AAAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAAATATACTAATTTTT
Found at i:199503 original size:71 final size:69
Alignment explanation
Indices: 199369--199504 Score: 193
Period size: 69 Copynumber: 1.9 Consensus size: 69
199359 TAAAATGAAG
* * **
199369 CCCATTGAATCACCATGTTTTCGAGTTTTTTAATAAAAAAATGTTTAAAATATTTTTTAATTATT
1 CCCACTGAATCACCATATTTTCGAGTTTTGAAATAAAAAAATGTTTAAAATATTTTTTAATTATT
199434 GGGA
66 GGGA
*
199438 CCCACTGAATTACCATATTTTCGAGTGTTTGAAATAAAAAATATGTTTAAAA-ATATTTTTAATT
1 CCCACTGAATCACCATATTTTCGAGT-TTTGAAATAAAAAA-ATGTTTAAAATAT-TTTTTAATT
199502 ATT
63 ATT
199505 AAACTAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
69 23 0.39
70 14 0.24
71 22 0.37
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (69 bp):
CCCACTGAATCACCATATTTTCGAGTTTTGAAATAAAAAAATGTTTAAAATATTTTTTAATTATT
GGGA
Found at i:200108 original size:23 final size:23
Alignment explanation
Indices: 200082--200129 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
200072 ATAAAGTACA
*
200082 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
200105 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
200128 AT
1 AT
200130 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:201104 original size:23 final size:23
Alignment explanation
Indices: 201078--201142 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
201068 ATGCGAGATA
201078 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
201101 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
201124 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
201143 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:201533 original size:23 final size:23
Alignment explanation
Indices: 201507--201561 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
201497 ATAACCATTA
201507 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
** *
201530 CTATTACATTATATAAGGGCTAC
1 CTATTACATTATATAAACGATAC
201553 CTATTACAT
1 CTATTACAT
201562 CATAGTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:201946 original size:23 final size:23
Alignment explanation
Indices: 201920--201982 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
201910 CAATAACCAT
201920 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
201943 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
201966 TACCTATTACATCATAT
1 TACCTATTACATTATAT
201983 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:202042 original size:418 final size:425
Alignment explanation
Indices: 201080--202080 Score: 1859
Period size: 418 Copynumber: 2.4 Consensus size: 425
201070 GCGAGATAGA
201080 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
201145 TTACCTATT-TATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
201209 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
130 TGTAATTTATGTTTCAATTTTTTTAACAGTG-TTCATGTTTTCCACCTACAATATTGATTTAATA
201273 ATTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
194 ATTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
201338 ATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
259 ATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
201403 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
324 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
201468 ACTTTTATAAAAAGGATAGACACTTTACAATAACCAT
389 ACTTTTATAAAAAGGATAGACACTTTACAATAACCAT
201505 TA-CTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATA-GT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
201568 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTAAAA-TTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAACTTAT
201631 GTAA-TT-TGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTAC-A-ATTGATTTAATAAT
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTACAATATTGATTTAATAA-
*
201692 TTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAA
195 TTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAA
201757 TTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
260 TTTAATAATAATATATA-CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
201821 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTG-AAAAAGTATGGAC
324 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
201884 ACTTTTATAAAAAGGATAGACAC-TTACAATAACCAT
389 ACTTTTATAAAAAGGATAGACACTTTACAATAACCAT
201920 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
201985 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAACTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAACTTAT
202050 GTAATTTATGTTTCAATTTTTTTAACAGTGT
131 GTAATTTATGTTTCAATTTTTTTAACAGTGT
202081 ACTGCGATTT
Statistics
Matches: 565, Mismatches: 1, Indels: 24
0.96 0.00 0.04
Matches are distributed among these distances:
415 15 0.03
416 95 0.17
417 76 0.13
418 168 0.30
419 42 0.07
420 17 0.03
421 31 0.05
422 9 0.02
423 11 0.02
424 99 0.18
425 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (425 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAACTTAT
GTAATTTATGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTACAATATTGATTTAATAAT
TCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAAT
TTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
TTTTATAAAAAGGATAGACACTTTACAATAACCAT
Found at i:204736 original size:18 final size:20
Alignment explanation
Indices: 204713--204750 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
204703 CCGAGTGTAA
204713 AAATG-TCGACAC-TTTTTT
1 AAATGATCGACACATTTTTT
204731 AAATGTATCGACACATTTTT
1 AAATG-ATCGACACATTTTT
204751 CTTCCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AAATGATCGACACATTTTTT
Found at i:204848 original size:181 final size:182
Alignment explanation
Indices: 204395--205237 Score: 1522
Period size: 181 Copynumber: 4.6 Consensus size: 182
204385 TTTTTAATGG
* *
204395 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* *
204460 TAAAACC-GTATATTTATACCGGTTATATTACAAAATATCTATTACATTATAATTATGGGTTCCG
66 TAAGACCGGTATATTTATA-CGGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCG
204524 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204577 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204642 TAAGACCGGTATATTTATACGGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGA
66 TAAGACCGGTATATTTATACGGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGA
204707 -GTGTAAAAATGTCGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAA
131 TGTGT-AAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204758 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCT-TTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
204822 TAAGACCGGTATATTTATACCGGTTATATTACAAA-TATCTATTACATTATAATTATGGGTTCCG
66 TAAGACCGGTATATTTATA-CGGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCG
*
204886 ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
130 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
204939 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
205003 TAAGACCGGTATATTTATACGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 TAAGACCGGTATATTTATACGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCG
205068 ATGTGT-AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
205120 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
205185 TAAGACCGGTAT-TTTATACGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACGGTTATATTAC-AAATTATCTATTACATTATAAT
205238 ATGTTGAAAG
Statistics
Matches: 645, Mismatches: 7, Indels: 19
0.96 0.01 0.03
Matches are distributed among these distances:
180 119 0.18
181 295 0.46
182 220 0.34
183 11 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (182 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACGGTTATATTACAAATTATCTATTACATTATAATTATGGGTTCCGA
TGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:206488 original size:32 final size:32
Alignment explanation
Indices: 206446--206506 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
206436 TTAATATCAC
*
206446 CCCTTAACACCGAAACTTCTTTCACCACTTCA
1 CCCTCAACACCGAAACTTCTTTCACCACTTCA
***
206478 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCGAAACTTCTTTCACCACT
206507 CCATATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.25, C:0.44, G:0.02, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCGAAACTTCTTTCACCACTTCA
Found at i:206569 original size:21 final size:22
Alignment explanation
Indices: 206543--206583 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
206533 ATGCCTCTCG
206543 AGTTTCTCTACGA-CTTGATCA
1 AGTTTCTCTACGATCTTGATCA
*
206564 AGTTTCTCTTCGATCTTGAT
1 AGTTTCTCTACGATCTTGAT
206584 TGTCTTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (22 bp):
AGTTTCTCTACGATCTTGATCA
Found at i:208979 original size:20 final size:20
Alignment explanation
Indices: 208949--208999 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
208939 ACACTTTTAA
*
208949 TTTTACCGGTTTTATCAT-T
1 TTTTACTGGTTTTATCATAT
208968 TTGTTACTGGTTTTATCATAT
1 TT-TTACTGGTTTTATCATAT
208989 TTTTACCTGGT
1 TTTTA-CTGGT
209000 ATATCGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 18 0.64
21 8 0.29
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (20 bp):
TTTTACTGGTTTTATCATAT
Found at i:209472 original size:225 final size:225
Alignment explanation
Indices: 209061--209507 Score: 749
Period size: 225 Copynumber: 2.0 Consensus size: 225
209051 TTAAAACTGC
*
209061 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTTATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
209126 TTAATTTAATAATTTAATTTACACAAAATTTATTTGATTGTTTTGATATTTTATAAATATTATTT
66 TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAATATTATTT
* *
209191 AGAATTTAAATTTAACAATATTAACCAAATATATAATAAATATGTTTTCAACAGTGAAATAAGTA
131 AGAATTTAAATTTAACAATATTAACCAAAGATATAATAAATATATTTTCAACAGTGAAATAAGTA
*
209256 TGGACACTTTTATAAAAATGATATATACTT
196 TGGACACTTTTATAAAAAGGATATATACTT
*
209286 TTTTGAAAGTTATGTAA-TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTT-CACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
209349 ATTAATTTAATAATTTCATTTACACAAAAAATTA-TTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTAT-AAATATTA
* *
209413 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
128 TTTAGAATTTAAATTTAACAATATTAACCAAAGAT-ATAATAAATATATTTTCAACAGTGAAATA
209477 AGTATGGACACTTTTATAAAAAGGATATATA
192 AGTATGGACACTTTTATAAAAAGGATATATA
209508 ATTTACAATA
Statistics
Matches: 209, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
224 55 0.26
225 126 0.60
226 28 0.13
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (225 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAATATTATTT
AGAATTTAAATTTAACAATATTAACCAAAGATATAATAAATATATTTTCAACAGTGAAATAAGTA
TGGACACTTTTATAAAAAGGATATATACTT
Found at i:212564 original size:2 final size:2
Alignment explanation
Indices: 212557--212590 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
212547 ATTCTGTGAA
212557 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
212591 TATCTATAAC
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:213088 original size:20 final size:20
Alignment explanation
Indices: 213063--213107 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
213053 GTCATCCAAT
* * *
213063 TTTTTAAACCTCGGACCGGA
1 TTTTTAAACCCCAGACCAGA
213083 TTTTTAAACCCCAGACCAGA
1 TTTTTAAACCCCAGACCAGA
213103 TTTTT
1 TTTTT
213108 TTCCGGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCAGA
Found at i:213918 original size:20 final size:20
Alignment explanation
Indices: 213828--213925 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
213818 ATTATGTTGA
** *
213828 AATTTGACAAATTCGATTTT
1 AATTTGACAAAACCGATTTC
*
213848 AATTTGACAAAA-C-ATGTAAC
1 AATTTGACAAAACCGAT-T-TC
**
213868 GAATTTGACAAAACCGATTGG
1 -AATTTGACAAAACCGATTTC
* * *
213889 AAATTAACAAAACCGGTTTC
1 AATTTGACAAAACCGATTTC
213909 AATTTGACAAAACCGAT
1 AATTTGACAAAACCGAT
213926 AAAGAGTTAC
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 40 0.67
21 12 0.20
22 2 0.03
23 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
AATTTGACAAAACCGATTTC
Found at i:214296 original size:198 final size:197
Alignment explanation
Indices: 213895--214297 Score: 637
Period size: 197 Copynumber: 2.0 Consensus size: 197
213885 TTGGAAATTA
* *
213895 ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGTTACCGAAATTGTTGAAATTTGTATAGA
1 ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCGAAATGGTTGAAATTTGTATAGA
213960 TATGTTTATAAGTATATGTACCAAAGTATCAGTACTTTAGGAATTTAAAAGAATTGCAATAATAA
66 TATGTTTATAAGTATATGTACCAAAGTATCAGTACTTTAGGAATTTAAAAGAATTGCAATAATAA
* * *
214025 CGGCTATAAAGTATCAATACCTTACACACATGTATCGATACATGACAATATAACATGTTGAAATT
131 CGCCTATAAAGTATCAATACCTTACACACATGTATCAATACATGACAATATAACAGGTTGAAATT
214090 TG
196 TG
* * * * *
214092 ACAAAACCTGTTTCAATTTGACAAAACCGGTAAAGAGCTATCGGAATGGTTGAAATTTGTATCGA
1 ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCGAAATGGTTGAAATTTGTATAGA
* *
214157 TACT-TTTATAAGTATATGTACCAAAGTATCAGTACTTTAGGGAATTTAAAATAATTGTAATAAT
66 TA-TGTTTATAAGTATATGTACCAAAGTATCAGTACTTTA-GGAATTTAAAAGAATTGCAATAAT
* * * *
214221 AGCGCCTATAAAGTATCGATACCTTAGACACATGTATCAATACATGATAATATAACAGGTTGAAA
129 AACGCCTATAAAGTATCAATACCTTACACACATGTATCAATACATGACAATATAACAGGTTGAAA
214286 TTTG
194 TTTG
214290 ACAAAACC
1 ACAAAACC
214298 AGTAAAGCGA
Statistics
Matches: 188, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
197 95 0.51
198 93 0.49
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (197 bp):
ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCGAAATGGTTGAAATTTGTATAGA
TATGTTTATAAGTATATGTACCAAAGTATCAGTACTTTAGGAATTTAAAAGAATTGCAATAATAA
CGCCTATAAAGTATCAATACCTTACACACATGTATCAATACATGACAATATAACAGGTTGAAATT
TG
Found at i:217866 original size:19 final size:19
Alignment explanation
Indices: 217816--217866 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
217806 ATATAACAAA
217816 TAAATTAT-TATTGAATTT
1 TAAATTATATATTGAATTT
* *
217834 TAAGATTTTATATTTAATTT
1 TAA-ATTATATATTGAATTT
217854 TAAATTATATATT
1 TAAATTATATATT
217867 CGATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TAAATTATATATTGAATTT
Found at i:223795 original size:23 final size:22
Alignment explanation
Indices: 223740--223816 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 22
223730 TTTGTGCAAA
*
223740 GTGTATCGATACA--CTATGAAT
1 GTGTACCGATACATCCT-TGAAT
*
223761 GTGTACCAATACATTCCTTGAAT
1 GTGTACCGATACA-TCCTTGAAT
*
223784 GTGTATCGATACACTCC--GAA-
1 GTGTACCGATACA-TCCTTGAAT
223804 GTGTACCGATACA
1 GTGTACCGATACA
223817 CCAGTCGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 12 0.26
21 14 0.30
23 19 0.40
24 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (22 bp):
GTGTACCGATACATCCTTGAAT
Found at i:224263 original size:20 final size:19
Alignment explanation
Indices: 224221--224263 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
224211 AAAAAATTGA
* *
224221 TTTTGTTTTAAATTGTTGT
1 TTTTGATTTAAATTGTTGG
*
224240 TTTTGATTTAATTATGTTGG
1 TTTTGATTTAAAT-TGTTGG
224260 TTTT
1 TTTT
224264 ATGAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (19 bp):
TTTTGATTTAAATTGTTGG
Found at i:226151 original size:17 final size:19
Alignment explanation
Indices: 226115--226155 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
226105 AATAAAATAT
*
226115 TATTGAATTTTAAGATTTA
1 TATTCAATTTTAAGATTTA
226134 TATTCAATTTTAA-A-TTA
1 TATTCAATTTTAAGATTTA
226151 TATTC
1 TATTC
226156 GATTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 1 0.05
19 12 0.57
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (19 bp):
TATTCAATTTTAAGATTTA
Found at i:228721 original size:64 final size:65
Alignment explanation
Indices: 228642--228806 Score: 187
Period size: 64 Copynumber: 2.6 Consensus size: 65
228632 AAAGAAGCCT
* * * **
228642 GGAGTGCATCAATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTCAAA-ATATTC-
1 GGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATGCATTCAAAATTCAAATA-ATTCA
228705 A
65 A
* *
228706 GGAGTGCATCGATGCAT-GCCTTGTGCATCGGTACACAAAATGCATTCAAAATTCAATTAATTCA
1 GGAGTGCATCGATGCATGGTC-TGTGCATCGGTACACAAAATGCATTCAAAATTCAAATAATTCA
228770 A
65 A
*
228771 GG-GTGCATCGATGCATTGAT-TGGTGCATCGGTACAC
1 GGAGTGCATCGATGCA-TGGTCT-GTGCATCGGTACAC
228807 TACTTTGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
63 2 0.02
64 65 0.76
65 19 0.22
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (65 bp):
GGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATGCATTCAAAATTCAAATAATTCAA
Found at i:229476 original size:23 final size:23
Alignment explanation
Indices: 229447--229492 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
229437 CAAAGCATCC
229447 AACGCATAAATCCAAACATTCAA
1 AACGCATAAATCCAAACATTCAA
229470 AACGCATAAATCCAAACATTCAA
1 AACGCATAAATCCAAACATTCAA
229493 TTATTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (23 bp):
AACGCATAAATCCAAACATTCAA
Found at i:231466 original size:23 final size:23
Alignment explanation
Indices: 231436--231517 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
231426 TGCACAACAT
231436 AGTGCATCGATGCACATTCAAGG
1 AGTGCATCGATGCACATTCAAGG
* * *
231459 AGTGCATCGGTGCACCTTC-ATG
1 AGTGCATCGATGCACATTCAAGG
*
231481 -GTGTATCGATGCACATTCAAGG
1 AGTGCATCGATGCACATTCAAGG
*
231503 AATGCATCGATGCAC
1 AGTGCATCGATGCAC
231518 TAGCTAGTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 15 0.31
22 4 0.08
23 29 0.60
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (23 bp):
AGTGCATCGATGCACATTCAAGG
Done.