Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003741.1 Hibiscus syriacus cultivar Beakdansim tig00008007_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: 163650
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:5796 original size:25 final size:25
Alignment explanation
Indices: 5749--5802 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
5739 CTCAAATTTT
* *
5749 ATTTTAATTTTAGTATTTCCTTTAA
1 ATTTTAATTTTAGTAGTTACTTTAA
*
5774 ATTTT-ATTTTAGTCAGTTACTTTAG
1 ATTTTAATTTTAGT-AGTTACTTTAA
5799 ATTT
1 ATTT
5803 CATAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (25 bp):
ATTTTAATTTTAGTAGTTACTTTAA
Found at i:9010 original size:25 final size:25
Alignment explanation
Indices: 8966--9020 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
8956 TTAATTATTA
8966 ATTTAAATAAATATCATAAAATAATT
1 ATTTAAATAAATATCATAAAA-AATT
* **
8992 -TTTAAATAAATTTTTTAAAAAATT
1 ATTTAAATAAATATCATAAAAAATT
9016 ATTTA
1 ATTTA
9021 GGTGTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTAAATAAATATCATAAAAAATT
Found at i:12464 original size:139 final size:138
Alignment explanation
Indices: 12159--12523 Score: 577
Period size: 139 Copynumber: 2.6 Consensus size: 138
12149 TGTCAGTACC
* *
12159 CAAAGTGGTGAAAGAGCGTTCCCGGGGGCGCGCCTTTGATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCA
* * *
12224 TTGCACTATTATGTCTCTCATATCCCCTGGAGAACTATTCATATCAGTACCTATTATTTATGAGG
66 TTGCCCTATTATGTCACTCATATCCCCCGGAGAACTATTCATATCAGTACCTATTATTTATGAGG
12289 GGACTTGA
131 GGACTTGA
* * * *
12297 CAAAGTGGTAAAAACGCGTTCTCGGGGGCGCGCCTTCGATTATTTTGTCAAAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCA
* * *
12362 TTGCCCTATTATGTCACTCATGTCCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGAG
66 TTGCCCTATTATGTCACTCATAT-CCCCCGGAGAACTATTCATATCAGTACCTATTATTTATGAG
*
12427 GGGACTTGG
130 GGGACTTGA
* *
12436 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTCTCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCA
*
12501 TTGCCCTATTTTGTCACTCATAT
66 TTGCCCTATTATGTCACTCATAT
12524 GAAATTGGAT
Statistics
Matches: 205, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
138 79 0.39
139 126 0.61
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (138 bp):
CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATATCCCCCGGAGAACTATTCATATCAGTACCTATTATTTATGAGG
GGACTTGA
Found at i:12648 original size:63 final size:63
Alignment explanation
Indices: 12565--12691 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
12555 ATTATGTGAA
* *
12565 GTTTGAATAAATTGGGTAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATCAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
* *
12628 GTTTGAATATATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
12691 G
1 G
12692 AGACATTGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.37
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
Found at i:12777 original size:14 final size:14
Alignment explanation
Indices: 12758--12788 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12748 TGATAAGTTG
12758 GTTTTAATGTATAT
1 GTTTTAATGTATAT
12772 GTTTTAATGTATAT
1 GTTTTAATGTATAT
12786 GTT
1 GTT
12789 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:12935 original size:34 final size:34
Alignment explanation
Indices: 12896--12968 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
12886 TTAAGTTGAA
12896 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
* *
12930 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
*
12964 ATTAA
1 TTTAA
12969 AAAACATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACCATAATTTGTAT
Found at i:13513 original size:21 final size:20
Alignment explanation
Indices: 13489--13545 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
13479 AACCCTGCGA
* *
13489 GCTAAGCATGTAACCTGGTGG
1 GCTAAGAATGTAACCT-GAGG
*
13510 GCTAGGAATGTAACCCTGAGG
1 GCTAAGAATGTAA-CCTGAGG
13531 GCTAAGAATGTAACC
1 GCTAAGAATGTAACC
13546 ATGCGAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (20 bp):
GCTAAGAATGTAACCTGAGG
Found at i:14378 original size:14 final size:14
Alignment explanation
Indices: 14359--14388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14349 AAATATCACC
*
14359 ATATTTAATTAAAA
1 ATATTTAAATAAAA
14373 ATATTTAAATAAAA
1 ATATTTAAATAAAA
14387 AT
1 AT
14389 TTAGTTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATTTAAATAAAA
Found at i:15180 original size:28 final size:30
Alignment explanation
Indices: 15115--15182 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
15105 ATCAGTTTCC
15115 AAAATAATATGCATTATAAAAATTTATAATT
1 AAAATAATATGCATTAT-AAAATTTATAATT
* *
15146 AATATAA-ATTCATTAT-AAATTTA-AATT
1 AAAATAATATGCATTATAAAATTTATAATT
15173 AAAAATAATA
1 -AAAATAATA
15183 ATAAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.12
28 13 0.41
29 1 0.03
30 8 0.25
31 6 0.19
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATAATATGCATTATAAAATTTATAATT
Found at i:15400 original size:30 final size:32
Alignment explanation
Indices: 15329--15401 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 32
15319 TCAATAAATT
*
15329 TAAATAAATAATAATTATATAAATGTTATTTTAA
1 TAAA-AAATAATAATTATATAAA-GTTATATTAA
* *
15363 TAAAAAATAATATTTATAT-AA-TTATATTAC
1 TAAAAAATAATAATTATATAAAGTTATATTAA
*
15393 TATAAAATA
1 TAAAAAATA
15402 TAAAAACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 15 0.43
32 2 0.06
33 14 0.40
34 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAAGTTATATTAA
Found at i:18934 original size:4 final size:4
Alignment explanation
Indices: 18925--18949 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18915 TTTACCAAAA
18925 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
18950 TCAATGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:39620 original size:17 final size:18
Alignment explanation
Indices: 39587--39620 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39577 TTGCTACTAG
39587 TGAACCGGTTAGAACCGT
1 TGAACCGGTTAGAACCGT
*
39605 TGAACC-GTTCGAACCG
1 TGAACCGGTTAGAACCG
39621 GACCGATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (18 bp):
TGAACCGGTTAGAACCGT
Found at i:41461 original size:16 final size:15
Alignment explanation
Indices: 41440--41489 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
41430 AATTTAATCC
41440 TTTTATCTTTCTTATT
1 TTTTAT-TTTCTTATT
*
41456 TTTTATTTT-TTGTT
1 TTTTATTTTCTTATT
41470 TATTT-TATTTCTTATT
1 T-TTTAT-TTTCTTATT
41486 TTTT
1 TTTT
41490 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 11 0.38
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTATTTTCTTATT
Found at i:41491 original size:16 final size:15
Alignment explanation
Indices: 41440--41500 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 15
41430 AATTTAATCC
* *
41440 TTTTATCTTTCTTATT
1 TTTTATTTTTATT-TT
41456 TTTTATTTTT-TGTTT
1 TTTTATTTTTAT-TTT
41471 ATTTTATTTCTTATTTTT
1 -TTTTATTT-TTA-TTTT
41489 TTTTATTTTTAT
1 TTTTATTTTTAT
41501 GCGATATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 4 0.10
16 21 0.54
17 10 0.26
18 3 0.08
19 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:41500 original size:23 final size:23
Alignment explanation
Indices: 41451--41497 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
41441 TTTATCTTTC
*
41451 TTATTTTTTATTTTTTGTTTATT
1 TTATTTCTTATTTTTTGTTTATT
41474 TTATTTCTTATTTTTT-TTTATT
1 TTATTTCTTATTTTTTGTTTATT
41496 TT
1 TT
41498 TATGCGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (23 bp):
TTATTTCTTATTTTTTGTTTATT
Found at i:41574 original size:25 final size:23
Alignment explanation
Indices: 41540--41586 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
41530 TTTAATCCTT
*
41540 TTATTATTTTTATTTGTTTGTTTTA
1 TTATTA-TTTTATTTCTTT-TTTTA
41565 TTATTATTTTATTTCTTTTTTT
1 TTATTATTTTATTTCTTTTTTT
41587 CCTACTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (23 bp):
TTATTATTTTATTTCTTTTTTTA
Found at i:41632 original size:3 final size:3
Alignment explanation
Indices: 41610--41667 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
41600 TTATACGTAT
* * * *
41610 TTA TTT TTA TTA TAA ATA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41658 TTA TTA TTA T
1 TTA TTA TTA T
41668 CTACGTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:41731 original size:29 final size:28
Alignment explanation
Indices: 41699--41768 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
41689 CTTTATATCT
*
41699 TTTATTATTATTTTATTATAT-TTATCCTA
1 TTTATT-TCATTTTATT-TATCTTATCCTA
* *
41728 TTTATCTTCATTTTCTTTATCTTATCTTA
1 TTTAT-TTCATTTTATTTATCTTATCCTA
41757 TTTATTTCATTT
1 TTTATTTCATTT
41769 GTTTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.28
29 25 0.69
30 1 0.03
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATTTCATTTTATTTATCTTATCCTA
Found at i:41761 original size:9 final size:9
Alignment explanation
Indices: 41717--41798 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 9
41707 TATTTTATTA
*
41717 TATTTATCC
1 TATTTATCT
41726 TATTTATCT
1 TATTTATCT
41735 TCATTT-TCTT
1 T-ATTTATC-T
41745 TATCTTATCT
1 TAT-TTATCT
41755 TATTTAT-T
1 TATTTATCT
* *
41763 TCATTTGTTT
1 T-ATTTATCT
* *
41773 TTTTTATTGT
1 TATTTA-TCT
*
41783 TTTTTATCT
1 TATTTATCT
41792 TATTTAT
1 TATTTAT
41799 TTTCATTACT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.03
9 33 0.56
10 22 0.37
11 2 0.03
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (9 bp):
TATTTATCT
Found at i:44092 original size:20 final size:20
Alignment explanation
Indices: 44069--44111 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44059 AATCCACCAC
*
44069 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
44089 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
44109 ATG
1 ATG
44112 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:46742 original size:13 final size:13
Alignment explanation
Indices: 46726--46765 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
46716 AGGAAACTAG
46726 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
46739 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
46752 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
46766 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:54466 original size:20 final size:20
Alignment explanation
Indices: 54443--54483 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
54433 GAAATCCACC
*
54443 ACATGCAACTATATGCTCCT
1 ACATGCAACTAAATGCTCCT
* *
54463 ACATGCATCTAAATGGTCCT
1 ACATGCAACTAAATGCTCCT
54483 A
1 A
54484 AATAGGCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (20 bp):
ACATGCAACTAAATGCTCCT
Found at i:58174 original size:98 final size:95
Alignment explanation
Indices: 57913--58175 Score: 350
Period size: 95 Copynumber: 2.7 Consensus size: 95
57903 AGATTATAAT
* * *
57913 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGATTAAACGCCCCGGCTTT
1 ATTATA-ATATACAATAAAGATTTAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTT
*
57977 ATGGATAAGATTCAGCTAGCCTGATAACGGTG
64 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
58009 ATTATAATGTACAATAAAGCTTTAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATACAATAAAGATTTAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
*
58074 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * *
58104 ATTATAATAT-CTATACAATGATATTAAGTTTTCCCTCTAGAGCAATTGGTTAAATGCCTCGACT
1 ATTATAATATACAATA-AA-GAT-TT-AGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
58168 TTATGGAT
62 TTATGGAT
58176 TCAGCTAGCT
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
94 4 0.03
95 93 0.62
96 9 0.06
97 2 0.01
98 42 0.28
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGATTTAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:60841 original size:36 final size:35
Alignment explanation
Indices: 60768--60860 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 35
60758 ATAATGGATC
*
60768 GTCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AATTT-CTCAAAACAAAGTTTT
*
60805 GTCTCTCTTGAGACAATTTCTCTTAAAAGAAA-TTTT
1 GTCTCTCTTGAGACAATTTCTC--AAAACAAAGTTTT
* *
60841 GTTTCTCTTGAGACAGTTTC
1 GTCTCTCTTGAGACAATTTC
60861 CCTTGAAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
35 3 0.06
36 27 0.54
37 20 0.40
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (35 bp):
GTCTCTCTTGAGACAATTTCTCAAAACAAAGTTTT
Found at i:61018 original size:36 final size:36
Alignment explanation
Indices: 60971--61073 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
60961 TTTGTCTTTG
60971 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTA
* * *
61007 TCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTTG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTA
*
61043 TCTCTTTTGAGACAGTTTCTCTTGAAACAAA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAA
61074 ATCTTTGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (36 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTA
Found at i:61323 original size:36 final size:33
Alignment explanation
Indices: 61226--61346 Score: 172
Period size: 33 Copynumber: 3.6 Consensus size: 33
61216 CCTAGAGACA
61226 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
* * *
61259 ATTTCCCTTGAAACACAAAAAACTTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
61292 GTTTCTCTTGAAACACATAAAAAACCCTTTGAAAAT-
1 GTTTCTCTTGAAACAC--AAAAAA-CCTTTG-AAATC
61328 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
61347 GACCTTCGAG
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
33 44 0.56
34 3 0.04
35 6 0.08
36 21 0.27
37 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:62790 original size:22 final size:23
Alignment explanation
Indices: 62765--62808 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
62755 ATTTAATCCT
62765 TTTATCTTTATTAT-TTTCTTAG
1 TTTATCTTTATTATATTTCTTAG
* *
62787 TTTATGTTTATTTTATTTCTTA
1 TTTATCTTTATTATATTTCTTA
62809 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTATCTTTATTATATTTCTTAG
Found at i:62903 original size:25 final size:23
Alignment explanation
Indices: 62869--62915 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
62859 TTTAATCCTT
*
62869 TTATTATTTTTATTTGTTTATTTTA
1 TTATTA-TTTTATTTCTTT-TTTTA
62894 TTATTATTTTATTTCTTTTTTT
1 TTATTATTTTATTTCTTTTTTT
62916 CCTACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (23 bp):
TTATTATTTTATTTCTTTTTTTA
Found at i:62955 original size:16 final size:16
Alignment explanation
Indices: 62930--62960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62920 CAACTTTGTT
*
62930 TATATGTATTTATTTA
1 TATATATATTTATTTA
62946 TATATATATTTATTT
1 TATATATATTTATTT
62961 TTATTATAAC
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:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TATATATATTTATTTA
Found at i:62977 original size:3 final size:3
Alignment explanation
Indices: 62955--63021 Score: 73
Period size: 3 Copynumber: 22.7 Consensus size: 3
62945 ATATATATAT
* * * * * *
62955 TTA TTT TTA TTA TAA CTA TTA TTA TTA TCA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63003 TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
63022 TACGTATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:63095 original size:40 final size:39
Alignment explanation
Indices: 63043--63156 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
63033 TTTCTTTTAC
*
63043 TTTATATC-TTTTATTATTT-TTTTATTATAT-TTATCCTA
1 TTTATTTCATTTTATT-TTTATTTTATT-TATCTTATCCTA
* *
63081 TTTATCTTCATTTTATTTTTATTTTCTTTATCTTATCTTA
1 TTTAT-TTCATTTTATTTTTATTTTATTTATCTTATCCTA
*
63121 TTTATTTCATTTGT-TTTTTATTGTTTTTTATCTTAT
1 TTTATTTCATTT-TATTTTTATT-TTATTTATCTTAT
63157 TTATTTTCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
38 5 0.08
39 23 0.35
40 38 0.58
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (39 bp):
TTTATTTCATTTTATTTTTATTTTATTTATCTTATCCTA
Found at i:63111 original size:35 final size:34
Alignment explanation
Indices: 63061--63176 Score: 90
Period size: 35 Copynumber: 3.1 Consensus size: 34
63051 TTTTATTATT
*
63061 TTTTTATTATATTTATCCTATTTATCTTCATTTTA
1 TTTTTATTTTATTTATCCTATTTAT-TTCATTTTA
*
63096 TTTTTATTTTCTTTATCTTATCTTATTTATTTCATTTGT-
1 TTTTTA---T-TTTAT-TTATCCTATTTATTTCATTT-TA
* * *
63135 TTTTTATTGTTTTTTATCTTATTTATTTTCATTACTA
1 TTTTTATT-TTATTTATCCTATTTA-TTTCATT-TTA
63172 TTTTT
1 TTTTT
63177 TCCATTCTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 18
0.75 0.04 0.20
Matches are distributed among these distances:
35 19 0.28
36 12 0.18
37 5 0.07
38 1 0.01
39 17 0.25
40 13 0.19
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (34 bp):
TTTTTATTTTATTTATCCTATTTATTTCATTTTA
Found at i:64009 original size:3 final size:3
Alignment explanation
Indices: 64001--64067 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
63991 CGTTTTACTT
** * *
64001 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64048 -TA TATA TTA -TA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
64068 AATAAAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.12
3 43 0.83
4 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:65013 original size:28 final size:30
Alignment explanation
Indices: 64962--65026 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
64952 GAGGGAAGTT
64962 AGAGAGAAGGGAGAGGGTTCTCTCTCTTAG
1 AGAGAGAAGGGAGAGGGTTCTCTCTCTTAG
64992 AGAGAGAAGGGAGAGGGTTCTCTCTCTTAG
1 AGAGAGAAGGGAGAGGGTTCTCTCTCTTAG
65022 AGAGA
1 AGAGA
65027 AAACCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.22
Consensus pattern (30 bp):
AGAGAGAAGGGAGAGGGTTCTCTCTCTTAG
Found at i:65514 original size:15 final size:15
Alignment explanation
Indices: 65462--65529 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
65452 TTTAACCCTG
65462 ATTT-TTTTAATATT
1 ATTTATTTTAATATT
*
65476 -TTGTAATTTAATATT
1 ATT-TATTTTAATATT
** *
65491 ATTGCTTTTAATTTT
1 ATTTATTTTAATATT
*
65506 ATTTATTTTAGTCATT
1 ATTTATTTTAAT-ATT
65522 ATTTATTT
1 ATTTATTT
65530 ATATTTTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 26 0.63
16 12 0.29
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (15 bp):
ATTTATTTTAATATT
Found at i:65600 original size:2 final size:2
Alignment explanation
Indices: 65587--65636 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
65577 TATCTTAGTC
* *
65587 AT AT AA AT AT AT AT AT AT AC 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 AT AT AT AT
65629 AT AT AT AT
1 AT AT AT AT
65637 TTGTTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:66467 original size:23 final size:22
Alignment explanation
Indices: 66416--66467 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
66406 TTATATATAC
*
66416 TTATTATTATATATTATTTTTA
1 TTATTATTATATATTATTTTCA
*
66438 TTAATTATTTTACT-TTATTTTCA
1 TT-ATTATTATA-TATTATTTTCA
66461 GTTATTA
1 -TTATTA
66468 AATTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 20 0.80
24 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATTATTATATATTATTTTCA
Found at i:67734 original size:13 final size:13
Alignment explanation
Indices: 67716--67748 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
67706 TATGGCCCAT
67716 AAGCTGATAGACC
1 AAGCTGATAGACC
67729 AAGCTGATAGACC
1 AAGCTGATAGACC
67742 AAGCTGA
1 AAGCTGA
67749 CTTTACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (13 bp):
AAGCTGATAGACC
Found at i:70884 original size:11 final size:11
Alignment explanation
Indices: 70868--70911 Score: 65
Period size: 10 Copynumber: 4.1 Consensus size: 11
70858 ATTATACTTG
70868 AAGAAGAAAAA
1 AAGAAGAAAAA
70879 AAGAAGAAAAAA
1 AAGAAG-AAAAA
70891 AAGAAG-AAAA
1 AAGAAGAAAAA
70901 AA-AAGAAAAA
1 AAGAAGAAAAA
70911 A
1 A
70912 GAAAAAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 3 0.10
10 11 0.35
11 6 0.19
12 11 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:70891 original size:12 final size:12
Alignment explanation
Indices: 70868--70918 Score: 77
Period size: 12 Copynumber: 4.2 Consensus size: 12
70858 ATTATACTTG
70868 AAGAAG-AAAAA
1 AAGAAGAAAAAA
70879 AAGAAGAAAAAA
1 AAGAAGAAAAAA
70891 AAGAAGAAAAAA
1 AAGAAGAAAAAA
*
70903 AAGAAAAAAGAAA
1 AAGAAGAAA-AAA
70916 AAG
1 AAG
70919 GAAAAAGGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
11 6 0.16
12 25 0.68
13 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:70894 original size:9 final size:9
Alignment explanation
Indices: 70875--70917 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
70865 TTGAAGAAGA
70875 AAAAAAGAAG
1 AAAAAA-AAG
70885 AAAAAAAAG
1 AAAAAAAAG
70894 AAGAAAAAA-
1 AA-AAAAAAG
70903 AAGAAAAAAG
1 AA-AAAAAAG
70913 AAAAA
1 AAAAA
70918 GGAAAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:70911 original size:7 final size:7
Alignment explanation
Indices: 70875--70931 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
70865 TTGAAGAAGA
70875 AAAAAAG
1 AAAAAAG
70882 AAGAAAA-
1 AA-AAAAG
70889 AAAAGAAG
1 AAAA-AAG
70897 AAAAAAAAG
1 --AAAAAAG
70906 AAAAAAG
1 AAAAAAG
*
70913 AAAAAGG
1 AAAAAAG
*
70920 AAAAAGG
1 AAAAAAG
70927 AAAAA
1 AAAAA
70932 TTGAACCAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 2 0.05
7 31 0.70
8 4 0.09
9 3 0.07
10 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:70923 original size:19 final size:19
Alignment explanation
Indices: 70868--70914 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
70858 ATTATACTTG
70868 AAGAAGAAAAAAAGAAGAAAAAA
1 AAGAAG-AAAAAA-AAG--AAAA
70891 AAGAAGAAAAAAAAGAAAA
1 AAGAAGAAAAAAAAGAAAA
70910 AAGAA
1 AAGAA
70915 AAAGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
21 3 0.12
22 6 0.25
23 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAGAAGAAAAAAAAGAAAA
Found at i:70923 original size:21 final size:23
Alignment explanation
Indices: 70868--70924 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
70858 ATTATACTTG
70868 AAGAAG-AAAAAAAGAAGAAAAAA
1 AAGAAGAAAAAAAAGAA-AAAAAA
*
70891 AAGAAGAAAAAAAAGAAAAAAGA
1 AAGAAGAAAAAAAAGAAAAAAAA
*
70914 AA-AAGGAAAAA
1 AAGAAGAAAAAA
70925 GGAAAAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 8 0.26
23 13 0.42
24 10 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAGAAGAAAAAAAAGAAAAAAAA
Found at i:73134 original size:100 final size:101
Alignment explanation
Indices: 72961--73166 Score: 351
Period size: 100 Copynumber: 2.0 Consensus size: 101
72951 CTTTGCTTGT
* * *
72961 AATTGGGGTCATTGCATAATGGTTTCCTATCTTCTACCAGAAGAAGTGCGTCAGCAGCCTTAGCC
1 AATTGAGGTCATTGCATAATGGTTTCCTATCTTCTACCAGAAGAAGTGCGACAACAGCCTTAGCC
*
73026 ATTTGAGCATCACATATAAAATCTGTCA-ACTCTGC
66 ATTTGAGCAGCACATATAAAATCTGTCAGACTCTGC
*
73061 AATTGAGGTCATTGCATAATGGTTTCCTATCTTCTACCGGAAGAAGTGCGACAACAGCCTTAGCC
1 AATTGAGGTCATTGCATAATGGTTTCCTATCTTCTACCAGAAGAAGTGCGACAACAGCCTTAGCC
73126 ATTTGAGCAGCACATATAAAATCTGTCAGACTCTGC
66 ATTTGAGCAGCACATATAAAATCTGTCAGACTCTGC
*
73162 CATTG
1 AATTG
73167 TTGAATCCGG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 88 0.89
101 11 0.11
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (101 bp):
AATTGAGGTCATTGCATAATGGTTTCCTATCTTCTACCAGAAGAAGTGCGACAACAGCCTTAGCC
ATTTGAGCAGCACATATAAAATCTGTCAGACTCTGC
Found at i:76302 original size:45 final size:45
Alignment explanation
Indices: 76238--76354 Score: 198
Period size: 45 Copynumber: 2.6 Consensus size: 45
76228 CTATTTCCCA
*
76238 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
**
76283 CATCTGTAATTCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
*
76328 CATCTGTAAGCCCTTCAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
76355 ATAGGACCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
Found at i:76521 original size:3 final size:3
Alignment explanation
Indices: 76513--76609 Score: 92
Period size: 3 Copynumber: 33.0 Consensus size: 3
76503 CGTTTTACTT
** ** *
76513 TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
76561 TTA TTA TTA TTA TAA ATA TTA CTA -TA TTA -TA TATA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
76604 TTA TTA
1 TTA TTA
76610 AATAAAAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 6 0.08
3 66 0.88
4 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:76590 original size:17 final size:17
Alignment explanation
Indices: 76559--76613 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
76549 TTATTATTGT
76559 TATTATTATTATTATAAA
1 TATTA-TATTATTATAAA
*
76577 TATTACTA-TATTATATA
1 TATTA-TATTATTATAAA
76594 TATTATATTATTATTAAA
1 TATTATATTATTA-TAAA
76612 TA
1 TA
76614 AAAATATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 2 0.06
17 18 0.56
18 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATTATTATAAA
Found at i:77857 original size:15 final size:16
Alignment explanation
Indices: 77823--77865 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
77813 AACCCTGATT
77823 TTTTAATATT-TTGCA
1 TTTTAATATTATTGCA
*
77838 ATTTAATATTATTGC-
1 TTTTAATATTATTGCA
*
77853 TTTTAATTTTATT
1 TTTTAATATTATT
77866 TATTTTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTAATATTATTGCA
Found at i:77871 original size:15 final size:15
Alignment explanation
Indices: 77839--77886 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
77829 TATTTTGCAA
**
77839 TTTAATATTATTGCT
1 TTTAATATTATTTAT
*
77854 TTTAATTTTATTTAT
1 TTTAATATTATTTAT
*
77869 TTTAGTCATTATTTAT
1 TTTAAT-ATTATTTAT
77885 TT
1 TT
77887 ATATTTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (15 bp):
TTTAATATTATTTAT
Found at i:82130 original size:25 final size:25
Alignment explanation
Indices: 82075--82131 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
82065 TGAAGGTACT
82075 TAATTAATAGAATTGCAAGAAATAAA
1 TAATTAATAGAATT-CAAGAAATAAA
* *
82101 T-ATTAATAGAATT-AAGTCATTAAA
1 TAATTAATAGAATTCAAG-AAATAAA
82125 TAATTAA
1 TAATTAA
82132 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.11
24 6 0.22
25 17 0.63
26 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (25 bp):
TAATTAATAGAATTCAAGAAATAAA
Found at i:85158 original size:41 final size:41
Alignment explanation
Indices: 85113--85218 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
85103 TCTATTACGA
* *
85113 CGTTTGTTTAAAAACTCTACTAAAG-AACGATTATGTTGG-GG
1 CGTTTGTTTAAAAACGCCACTAAAGTAA-GATTATG-TGGCGG
* *
85154 CGTTTGTTTAGAAACGCCACTAAAGTAAGATTTTGTGGCGG
1 CGTTTGTTTAAAAACGCCACTAAAGTAAGATTATGTGGCGG
* *
85195 TGTTTATTTAAAAACGCCACTAAA
1 CGTTTGTTTAAAAACGCCACTAAA
85219 ATACTTATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.05
41 51 0.91
42 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (41 bp):
CGTTTGTTTAAAAACGCCACTAAAGTAAGATTATGTGGCGG
Found at i:86438 original size:16 final size:16
Alignment explanation
Indices: 86417--86447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86407 GGTAAATAAG
*
86417 TAAATAAATATAATTT
1 TAAATAAAAATAATTT
86433 TAAATAAAAATAATT
1 TAAATAAAAATAATT
86448 AAATAATAAA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATAAAAATAATTT
Found at i:88309 original size:26 final size:26
Alignment explanation
Indices: 88280--88330 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
88270 TTATTTTAAA
*
88280 ATTTAACACTCTTTTATTTTATTTTT
1 ATTTAACACTCTTTTATTTCATTTTT
** *
88306 ATTTTTCACTTTTTTATTTCATTTT
1 ATTTAACACTCTTTTATTTCATTTT
88331 GTTTAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.69
Consensus pattern (26 bp):
ATTTAACACTCTTTTATTTCATTTTT
Found at i:88388 original size:11 final size:11
Alignment explanation
Indices: 88372--88423 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
88362 CTCTTTTAAC
88372 ATTTTTTATTT
1 ATTTTTTATTT
88383 ATTTTTTATTT
1 ATTTTTTATTT
*
88394 -TTTTCATTGTTT
1 ATTTT--TTATTT
88406 ATTTTTTCA-TT
1 ATTTTTT-ATTT
88417 ATTTTTT
1 ATTTTTT
88424 CTGAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 4 0.11
11 22 0.63
12 5 0.14
13 4 0.11
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:88412 original size:15 final size:16
Alignment explanation
Indices: 88387--88416 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88377 TTATTTATTT
88387 TTTATTTTTTTCATTG
1 TTTATTTTTTTCATTG
88403 TTTA-TTTTTTCATT
1 TTTATTTTTTTCATT
88417 ATTTTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTTTTTCATTG
Found at i:88423 original size:27 final size:27
Alignment explanation
Indices: 88371--88423 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
88361 TCTCTTTTAA
* *
88371 CATTTTTTATTTATTTTTTATTTTTTT
1 CATTGTTTATTTATTTATTATTTTTTT
88398 CATTGTTTATTT-TTTCATTATTTTTT
1 CATTGTTTATTTATTT-ATTATTTTTT
88424 CTGAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (27 bp):
CATTGTTTATTTATTTATTATTTTTTT
Found at i:88881 original size:2 final size:2
Alignment explanation
Indices: 88842--88866 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88832 TGTGGGGTAC
88842 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88867 CATGTCGTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90181 original size:14 final size:14
Alignment explanation
Indices: 90164--90193 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90154 CAATTTTCTT
90164 TTATTATTATTATA
1 TTATTATTATTATA
90178 TTATTATTATTATA
1 TTATTATTATTATA
90192 TT
1 TT
90194 TTTTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:94361 original size:95 final size:95
Alignment explanation
Indices: 94197--94378 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 95
94187 ATATTATTTA
* *
94197 TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAT
1 TATACAATAAAACTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
*
94262 ATTCAGCTAGCCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
* *
94292 TATACAATAAAACTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCC-AGCTTTATGGATA
1 TATACAATAAAACTTGAGCTATCCCTCTAGA-GCAATTGGTTAAACGCCCCGA-CTTTATGGATA
*
94355 AGATTCAGCTAACCTGATGAAGGT
64 AGATTCAGCTAACCTGATAAAGGT
94379 ATTTACATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 2 0.03
95 77 0.97
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (95 bp):
TATACAATAAAACTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:95870 original size:65 final size:64
Alignment explanation
Indices: 95734--95892 Score: 185
Period size: 65 Copynumber: 2.5 Consensus size: 64
95724 CGGTGCACCA
* * *
95734 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGAAGTTTGAAAAATAGCCAGGTGCATCGATACATGG
** * * ** *
95798 CTTGTGCATCAATGCATCAAATGCATTCGAAGTTTTG-AAAATATTCAGAGTGCATCGATACATT
1 AGTGTGCATCGATGCATGAAATGCATTCGAAG-TTTGAAAAATAGCCAG-GTGCATCGATACATG
95862 G
64 G
* *
95863 AGTGTGCATCGGTGCATGGAATGCATTCGA
1 AGTGTGCATCGATGCATGAAATGCATTCGA
95893 TGTTCAATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
64 35 0.45
65 42 0.55
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGAAGTTTGAAAAATAGCCAGGTGCATCGATACATGG
Found at i:95935 original size:20 final size:20
Alignment explanation
Indices: 95910--95965 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
95900 TTAATTCATC
*
95910 GATGCATCGATGCATGGACT
1 GATGCATCGGTGCATGGACT
95930 GATGCATCGGTGCATGGACT
1 GATGCATCGGTGCATGGACT
95950 GATGCATCGGTGCATG
1 GATGCATCGGTGCATG
95966 CCTTTGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (20 bp):
GATGCATCGGTGCATGGACT
Found at i:96156 original size:20 final size:21
Alignment explanation
Indices: 96133--96172 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
96123 GAATCGAATA
96133 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
96153 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
96173 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:102386 original size:22 final size:21
Alignment explanation
Indices: 102344--102383 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
102334 GAGTTTGTTT
*
102344 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
102365 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
102384 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:104381 original size:64 final size:64
Alignment explanation
Indices: 104328--104490 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
104318 CGGTGCACCA
*
104328 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * * **
104392 CTTGTGCATCGATGCATCAAATGCATTCGAAGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
104457 AGTGTGCATTGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
104491 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 38 0.46
65 45 0.54
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:104730 original size:20 final size:21
Alignment explanation
Indices: 104707--104746 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
104697 GAATCGAATA
104707 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
104727 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
104747 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:105488 original size:36 final size:36
Alignment explanation
Indices: 105431--105547 Score: 180
Period size: 36 Copynumber: 3.2 Consensus size: 36
105421 TAATTTACTC
105431 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
105468 AAAACAAATTTTATCTCTCTTGAGACATTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
105504 AAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
105540 GAAACAAA
1 AAAACAAA
105548 AACTTTGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 65 0.89
37 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:105577 original size:87 final size:84
Alignment explanation
Indices: 105469--105632 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 84
105459 GTTTCTCTTA
* * * *
105469 AAACAAATTTTATCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTT
1 AAACAAATTTTATATCTCTTGAGACAGTTTATCTTAAAACAAA-TTT-TCTCTCTTGAGACAGTT
*
105534 TCCCTTGAAACAAAAACTTTG
64 TCCCTTAAAACAAAAACTTTG
* *
105555 AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTAAAACAAATTTTCTCTCTTGAGACATTTT
1 AAACAAA-TTTTATATCTCTTGAGACAGTTTATCTTAAAACAAATTTTCTCTCTTGAGACAGTTT
*
105620 CTCTTAAAACAAA
65 CCCTTAAAACAAA
105633 TTTTGTCTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 27 0.39
86 10 0.14
87 32 0.46
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (84 bp):
AAACAAATTTTATATCTCTTGAGACAGTTTATCTTAAAACAAATTTTCTCTCTTGAGACAGTTTC
CCTTAAAACAAAAACTTTG
Found at i:105635 original size:17 final size:17
Alignment explanation
Indices: 105587--105636 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
105577 AGACAGTTTA
105587 TCTTAAAACAAATTTTCTC
1 TCTTAAAACAAA-TTT-TC
* *
105606 TCTTGAGAC--ATTTTC
1 TCTTAAAACAAATTTTC
105621 TCTTAAAACAAATTTT
1 TCTTAAAACAAATTTT
105637 GTCTCTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 9 0.36
16 3 0.12
17 6 0.24
19 7 0.28
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (17 bp):
TCTTAAAACAAATTTTC
Found at i:105649 original size:36 final size:36
Alignment explanation
Indices: 105555--105769 Score: 200
Period size: 36 Copynumber: 6.2 Consensus size: 36
105545 AAAAACTTTG
* *
105555 AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTA
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTA
*
105592 AAACAAA-TTT-TCTCTCTTGAGACATTTTCTCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* *
105626 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* *
105662 AAACAAA------ATCT-TTGA-ATCTGTTT-TCCTTA
1 AAACAAATTTTGTCTCTCTTGAGA-CAGTTTCT-CTTA
* * *
105691 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* * * *
105727 AAACAAATTTTGTCTCTCTTGAGACGGTTACCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
105763 AAACAAA
1 AAACAAA
105770 ATCTTTGAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
28 1 0.01
29 19 0.13
30 3 0.02
34 28 0.19
35 8 0.06
36 76 0.53
37 9 0.06
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
Found at i:105658 original size:121 final size:123
Alignment explanation
Indices: 105432--105677 Score: 442
Period size: 121 Copynumber: 2.0 Consensus size: 123
105422 AATTTACTCA
* *
105432 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTATCTCTCTTGAGACATT
1 AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTAAAACAAATTTTATCTCTCTTGAGACATT
*
105497 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTG
66 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTG
105555 AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTAAAACAAA-TTT-TCTCTCTTGAGACATT
1 AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTAAAACAAATTTTATCTCTCTTGAGACATT
*
105618 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
66 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTG
105676 AA
1 AA
105678 TCTGTTTTCC
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 74 0.62
122 3 0.03
123 42 0.35
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (123 bp):
AAACAAAGTTTTGTATCTCTTGAGACAGTTTATCTTAAAACAAATTTTATCTCTCTTGAGACATT
TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAACTTTG
Found at i:105722 original size:101 final size:101
Alignment explanation
Indices: 105588--105832 Score: 404
Period size: 101 Copynumber: 2.4 Consensus size: 101
105578 GACAGTTTAT
*
105588 CTTAAAACAAATTT--TCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
1 CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
*
105651 AGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTC
66 AGTTACCCTTGAAACAAAATCTTTGAATCTGTTTTC
* *
105687 CTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGAC
1 CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
* *
105752 GGTTACCCTTGAAACAAAATCTTTGAATTTGTTTTC
66 AGTTACCCTTGAAACAAAATCTTTGAATCTGTTTTC
* *
105788 CTTTAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACA
105833 CCAATCTTTG
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
99 14 0.10
101 120 0.90
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (101 bp):
CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
AGTTACCCTTGAAACAAAATCTTTGAATCTGTTTTC
Found at i:105851 original size:66 final size:64
Alignment explanation
Indices: 105717--105902 Score: 207
Period size: 65 Copynumber: 2.8 Consensus size: 64
105707 CCTTGAGACA
* * * *
105717 GTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACGGTTACCCTTGAAACA-AAATCTTTGAATT
1 GTTTCCTTT-AAACAAATTTTGTCTCTCTTGAGAC-GTTTCTCTTGAAACACAAATCTTTGAATA
105781 T
64 T
* *
105782 GTTTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAATA
1 G-TTTCCTTTAAACAAATTTTGTCTCTCTTGAGAC-GTTTCTCTTGAAACACAAATCTTTGAATA
105847 T
64 T
* *
105848 GTTTCTCTTGAAACAAAATTTTGCCTGC-CTTGAGATCGTTT-TCTTGAAACACAAA
1 GTTTC-CTTTAAAC-AAATTTTGTCT-CTCTTGAGA-CGTTTCTCTTGAAACACAAA
105903 AAATCCTTTG
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
65 42 0.40
66 40 0.38
67 20 0.19
68 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (64 bp):
GTTTCCTTTAAACAAATTTTGTCTCTCTTGAGACGTTTCTCTTGAAACACAAATCTTTGAATAT
Found at i:105932 original size:34 final size:33
Alignment explanation
Indices: 105877--106002 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
105867 TTTGCCTGCC
*
105877 TTGAGATCGTTT-TCTTGAAACACAAAAAATCCT
1 TTGAAATCGTTTCTCTTGAAACACAAAAAA-CCT
105910 TTGAAATCGTTTCTCTTGAAACACAAAAAACCT
1 TTGAAATCGTTTCTCTTGAAACACAAAAAACCT
* *
105943 TTGAAATCATTTCTCTTGAAA-AAAGAAAAACCT
1 TTGAAATCGTTTCTCTTGAAACACA-AAAAACCT
105976 TTGAAAAT-GTTTCTCTTGAAACACAAA
1 TTG-AAATCGTTTCTCTTGAAACACAAA
106003 GGCCTTTCAA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
32 2 0.02
33 59 0.70
34 23 0.27
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (33 bp):
TTGAAATCGTTTCTCTTGAAACACAAAAAACCT
Found at i:105938 original size:33 final size:33
Alignment explanation
Indices: 105818--106002 Score: 161
Period size: 33 Copynumber: 5.6 Consensus size: 33
105808 TCTTGAGACA
*
105818 GTTTCTCTTGAAACAC--CAAT-CTTTGAATAT-
1 GTTTCTCTTGAAACACAAAAATCCTTTGAA-ATC
** *
105848 GTTTCTCTTGAAACA-AAATTTTGCCTGCCTTGAGATC
1 GTTTCTCTTGAAACACAAA-AAT-CCT---TTGAAATC
105885 GTTT-TCTTGAAACACAAAAAATCCTTTGAAATC
1 GTTTCTCTTGAAACAC-AAAAATCCTTTGAAATC
*
105918 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAATCCTTTGAAATC
* * *
105951 ATTTCTCTTGAAA-AAAGAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACACA-AAAATCCTTTG-AAATC
105984 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
106003 GGCCTTTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
30 15 0.12
32 3 0.02
33 64 0.50
34 19 0.15
36 15 0.12
37 9 0.07
38 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAATCCTTTGAAATC
Found at i:107787 original size:5 final size:6
Alignment explanation
Indices: 107775--107800 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
107765 TATTATTTTA
107775 TTGTTT TTGTTT TTGTTT TTGTTT TT
1 TTGTTT TTGTTT TTGTTT TTGTTT TT
107801 ATGCATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTGTTT
Found at i:108609 original size:16 final size:16
Alignment explanation
Indices: 108588--108632 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
108578 GGTAAATAAG
*
108588 TAAATAAATATAATTT
1 TAAATAAAAATAATTT
*
108604 TAAATAAAAATAATTA
1 TAAATAAAAATAATTT
*
108620 AATAATAAAAATA
1 TA-AATAAAAATA
108633 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATAAAAATAATTT
Found at i:114528 original size:183 final size:183
Alignment explanation
Indices: 114218--114624 Score: 690
Period size: 183 Copynumber: 2.2 Consensus size: 183
114208 GATATTGCTA
** *
114218 AAAACAGAAGAAACACACCTGGAAAAAAAAGCAGCATTATACGGGCAACATATCATGCAAGTTCT
1 AAAACAGAAGAAACACAAATGG-GAAAAAAGCA-CATTATACGGGCAACATATCATGCAAGTTCT
114283 AAAAAACCAAGTTCAACATTCCGTCCAATGCATTTGAGGTACTTTAGGCGTATGGCTTCCAGAGC
64 AAAAAACCAAGTTCAACATTCCGTCCAATGCATTTGAGGTACTTTAGGCGTATGGCTTCCAGAGC
* *
114348 ATGATCATCTCCAACATTAAAATAATCCATTGGGTGTTATTCAATTATTATCCTC
129 ATGATCATCTCCAACATTAAAATAATCCATTGGGTGCTATTAAATTATTATCCTC
*
114403 AAAACAGAAGAAACACAAATGGGAAAAAAGCGACATTATATGGGCAACATATCATGCAAGTTCT-
1 AAAACAGAAGAAACACAAATGGGAAAAAAGC-ACATTATACGGGCAACATATCATGCAAGTTCTA
*
114467 AAAAGCCAAGTTCAACATTCCGTCCAATGCATTTGAGGTACTTTAGGCGTATGGCTTCCAGAGCA
65 AAAAACCAAGTTCAACATTCCGTCCAATGCATTTGAGGTACTTTAGGCGTATGGCTTCCAGAGCA
114532 TGATCATCTCCAACATTAAAATAATCCATTGGGTGCTATTAAATTATTATCCTC
130 TGATCATCTCCAACATTAAAATAATCCATTGGGTGCTATTAAATTATTATCCTC
114586 AAAACAGAAGAAACACAAATGGGGAAAAAAAGCTACATT
1 AAAACAGAAGAAACACAAAT-GGG-AAAAAAGC-ACATT
114625 CTGTGGGTAA
Statistics
Matches: 211, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
183 136 0.64
184 41 0.19
185 34 0.16
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (183 bp):
AAAACAGAAGAAACACAAATGGGAAAAAAGCACATTATACGGGCAACATATCATGCAAGTTCTAA
AAAACCAAGTTCAACATTCCGTCCAATGCATTTGAGGTACTTTAGGCGTATGGCTTCCAGAGCAT
GATCATCTCCAACATTAAAATAATCCATTGGGTGCTATTAAATTATTATCCTC
Found at i:123190 original size:16 final size:16
Alignment explanation
Indices: 123171--123213 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
123161 CAGTCGAATT
*
123171 AAAATTAACCCGAACA
1 AAAAATAACCCGAACA
* * *
123187 AAAAACAATCCGAATA
1 AAAAATAACCCGAACA
123203 AAAAATAACCC
1 AAAAATAACCC
123214 AAACTGAAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.23, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAATAACCCGAACA
Found at i:126359 original size:17 final size:17
Alignment explanation
Indices: 126337--126375 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
126327 TGAATCAAAT
126337 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
126354 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
126371 -AATTA
1 TAATTA
126376 ATTGTAATTA
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:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:131137 original size:23 final size:26
Alignment explanation
Indices: 131111--131158 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
131101 AAAATCTCAA
131111 TTAAAA-A-TATATA-AAAACAAATC
1 TTAAAATAGTATATAGAAAACAAATC
131134 TTAAAATAGTATATAGAAAACAAAT
1 TTAAAATAGTATATAGAAAACAAAT
131159 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 1 0.05
25 6 0.27
26 9 0.41
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (26 bp):
TTAAAATAGTATATAGAAAACAAATC
Found at i:136055 original size:18 final size:18
Alignment explanation
Indices: 136032--136067 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
136022 GAGCCGCATG
136032 ATAGCTTGGGTTCTATTA
1 ATAGCTTGGGTTCTATTA
136050 ATAGCTTGGGTTCTATTA
1 ATAGCTTGGGTTCTATTA
136068 CGTAGCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (18 bp):
ATAGCTTGGGTTCTATTA
Found at i:144695 original size:64 final size:63
Alignment explanation
Indices: 144626--144799 Score: 185
Period size: 64 Copynumber: 2.7 Consensus size: 63
144616 TGAAACACTT
* * * *
144626 AGTGCATCGGTGCACTAAGGGTGCATCGATGCATAAAATACATTTGATG-TTTCA-AACAAGCCT
1 AGTGCATCGATGCA-T-AGGGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACCT
144689 G
63 G
*
144690 AGTGCATCGATGCAT-GGTCTGTGCATCGATTCAT-AAATGCATTCGATGTTTTCATAAAAACCT
1 AGTGCATCGATGCATAGG---GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCT
144753 G
63 G
* **
144754 AGTCCATCGATGCATGATAGTGCATCGATGCATAAAATGCATTCGA
1 AGTGCATCGATGCAT-AGGGTGCATCGATGCATAAAATGCATTCGA
144800 AATGGTGTGT
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
61 2 0.02
63 26 0.28
64 63 0.68
65 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAGGGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTG
Found at i:144788 original size:63 final size:64
Alignment explanation
Indices: 144646--144799 Score: 206
Period size: 64 Copynumber: 2.4 Consensus size: 64
144636 TGCACTAAGG
* * * * * *
144646 GTGCATCGATGCATAAAATACATTTGATGTTTCAAACAAGCCTGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAACCTGAGTCCATCGATGCATGATCA
*
144710 GTGCATCGATTCAT-AAATGCATTCGATGTTTTCATAA-AAACCTGAGTCCATCGATGCATGAT-
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAACCTGAGTCCATCGATGCATGATC
144772 A
64 A
144773 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
144800 AATGGTGTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 25 0.32
64 52 0.66
65 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAACCTGAGTCCATCGATGCATGATCA
Found at i:144799 original size:18 final size:18
Alignment explanation
Indices: 144758--144795 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
144748 AACCTGAGTC
* *
144758 CATCGATGCATGATAGTG
1 CATCGATGCATGAAAATG
144776 CATCGATGCAT-AAAATG
1 CATCGATGCATGAAAATG
144793 CAT
1 CAT
144796 TCGAAATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (18 bp):
CATCGATGCATGAAAATG
Found at i:147239 original size:21 final size:22
Alignment explanation
Indices: 147181--147278 Score: 80
Period size: 21 Copynumber: 4.4 Consensus size: 22
147171 CGACGAATGC
147181 ATCGATGCACATTCAAGGA-GT
1 ATCGATGCACATTCAAGGATGT
* *
147202 ACATCGGTGCATC-TTC-ATGATGT
1 --ATCGATGCA-CATTCAAGGATGT
*
147225 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCACATTC-AA-GGATGT
147249 ATCGATGCACATTCATA-G-TGT
1 ATCGATGCACATTCA-AGGATGT
147270 ATCGATGCA
1 ATCGATGCA
147279 TTATGCACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.02
21 22 0.35
22 4 0.06
23 15 0.24
24 20 0.32
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGATGT
Found at i:147271 original size:45 final size:44
Alignment explanation
Indices: 147181--147278 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
147171 CGACGAATGC
*
147181 ATCGATGCACATTCAAGGAGTACATCGGTGCATCTTCATGATGT
1 ATCGATGCACATTCAAGGAGTACATCGATGCATCTTCATGATGT
*
147225 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CATTCAT-AGTGT
1 ATCGATGCACATTC-AAGGAG-TACATCGATGCATC-TTCATGA-TGT
147270 ATCGATGCA
1 ATCGATGCA
147279 TTATGCACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
44 17 0.35
45 31 0.65
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTACATCGATGCATCTTCATGATGT
Found at i:153083 original size:19 final size:19
Alignment explanation
Indices: 153059--153110 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
153049 ACAAGCCTGA
153059 GTGCATCGATGCATGGTTT
1 GTGCATCGATGCATGGTTT
153078 GTGCATCGATGCATGGTTT
1 GTGCATCGATGCATGGTTT
153097 GTGCATCGATGCAT
1 GTGCATCGATGCAT
153111 AAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (19 bp):
GTGCATCGATGCATGGTTT
Found at i:153165 original size:83 final size:83
Alignment explanation
Indices: 153018--153174 Score: 237
Period size: 83 Copynumber: 1.9 Consensus size: 83
153008 CTAAGGGTGT
* * **
153018 ATCGATGTATAAAATACATTCGATGTTTCAAACAAGCCTGAGTGCATCGATGCATGGTTTGTGCA
1 ATCGATGCATAAAATACATTCGATGTTTCAAACAAACCTGAGTGCATCGATGCATGGTAAGTGCA
153083 TCGATGCATGGTTTGTGC
66 TCGATGCATGGTTTGTGC
*
153101 ATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACCTGAGTGCATCGATGCATGG-AAGTG
1 ATCGATGCATAAAATACATTCGATG-TTTCA-AACAAACCTGAGTGCATCGATGCATGGTAAGTG
153164 CATCGATGCAT
64 CATCGATGCAT
153175 AAAATGCATT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 37 0.55
84 28 0.42
85 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (83 bp):
ATCGATGCATAAAATACATTCGATGTTTCAAACAAACCTGAGTGCATCGATGCATGGTAAGTGCA
TCGATGCATGGTTTGTGC
Found at i:153187 original size:18 final size:18
Alignment explanation
Indices: 153144--153183 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
153134 AAAACCTGAG
* *
153144 TGCATCGATGCATGGAAG
1 TGCATCGATGCATGAAAA
153162 TGCATCGATGCAT-AAAA
1 TGCATCGATGCATGAAAA
153179 TGCAT
1 TGCAT
153184 TCGAAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (18 bp):
TGCATCGATGCATGAAAA
Found at i:153691 original size:25 final size:26
Alignment explanation
Indices: 153656--153709 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
153646 TTCAACAATG
*
153656 TTTTTATTTTAATATTTAAATAA-AA
1 TTTTTAATTTAATATTTAAATAATAA
*
153681 TTTTTAATTTAATATTTTAATAATAA
1 TTTTTAATTTAATATTTAAATAATAA
153707 TTT
1 TTT
153710 GATAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTTTAATTTAATATTTAAATAATAA
Found at i:153699 original size:26 final size:25
Alignment explanation
Indices: 153656--153736 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 25
153646 TTCAACAATG
*
153656 TTTTTATTTTAATATTTAAATAA-AA
1 TTTTTAATTTAATATTT-AATAATAA
153681 TTTTTAATTTAATATTTTAATAATAA
1 TTTTTAATTTAATA-TTTAATAATAA
* *
153707 TTTGATAATATTTAATGATTTGATAATAA
1 TTT--TTA-ATTTAAT-ATTTAATAATAA
153736 T
1 T
153737 GATTACTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 18 0.38
26 8 0.17
28 2 0.04
29 18 0.38
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTAATTTAATATTTAATAATAA
Found at i:153715 original size:14 final size:14
Alignment explanation
Indices: 153698--153784 Score: 85
Period size: 14 Copynumber: 6.2 Consensus size: 14
153688 TTTAATATTT
*
153698 TAATAATAATTTGA
1 TAATAATGATTTGA
153712 TAATATTTAATGATTTGA
1 TAATA----ATGATTTGA
153730 TAATAATGA-TT-A
1 TAATAATGATTTGA
153742 CTAATAATGATTTGA
1 -TAATAATGATTTGA
153757 TAATAATGA-TT--
1 TAATAATGATTTGA
153768 TAATAATGATTTGA
1 TAATAATGATTTGA
153782 TAA
1 TAA
153785 CATTTTTTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
11 9 0.15
12 3 0.05
13 13 0.21
14 23 0.37
15 1 0.02
18 13 0.21
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (14 bp):
TAATAATGATTTGA
Found at i:153739 original size:27 final size:26
Alignment explanation
Indices: 153700--153784 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
153690 TAATATTTTA
*
153700 ATAATAATTTGATAATATTTAATGATTTG
1 ATAATAA--TGATAATA-ATAATGATTTG
*
153729 ATAATAATGATTACTAATAATGATTTG
1 ATAATAATGA-TAATAATAATGATTTG
*
153756 ATAATAATGAT-TTAATAATGATTTG
1 ATAATAATGATAATAATAATGATTTG
153781 ATAA
1 ATAA
153785 CATTTTTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
25 17 0.33
26 1 0.02
27 23 0.44
28 4 0.08
29 7 0.13
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.44
Consensus pattern (26 bp):
ATAATAATGATAATAATAATGATTTG
Found at i:153771 original size:11 final size:11
Alignment explanation
Indices: 153696--153784 Score: 58
Period size: 11 Copynumber: 7.7 Consensus size: 11
153686 AATTTAATAT
*
153696 TTTAATAATAA
1 TTTAATAATGA
*
153707 TTTGATAAT-A
1 TTTAATAATGA
*
153717 TTTAATGAT--
1 TTTAATAATGA
153726 TTGATAATAATGA
1 TT--TAATAATGA
153739 TTACTAATAATGA
1 TT--TAATAATGA
153752 TTTGATAATAATGA
1 -TT--TAATAATGA
153766 TTTAATAATGA
1 TTTAATAATGA
*
153777 TTTGATAA
1 TTTAATAA
153785 CATTTTTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.03
10 8 0.12
11 30 0.47
13 13 0.20
14 11 0.17
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (11 bp):
TTTAATAATGA
Found at i:154044 original size:21 final size:21
Alignment explanation
Indices: 154020--154063 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
154010 AATGATTTGA
154020 TACTAATAATTTAATAATGAT
1 TACTAATAATTTAATAATGAT
* *
154041 TACTAATGATTTAATAATTAT
1 TACTAATAATTTAATAATGAT
154062 TA
1 TA
154064 ATTTAAAAAG
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:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
TACTAATAATTTAATAATGAT
Found at i:155867 original size:2 final size:2
Alignment explanation
Indices: 155860--155926 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
155850 TAAGTAATAA
155860 AT AT AT AT A- 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 AT AT AT AT
155901 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
155927 TCGAATAATT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:155978 original size:14 final size:14
Alignment explanation
Indices: 155959--155989 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
155949 ATCAAAAATG
155959 TTATCAAATCATTA
1 TTATCAAATCATTA
*
155973 TTATCAAATTATTA
1 TTATCAAATCATTA
155987 TTA
1 TTA
155990 AATATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATCAAATCATTA
Found at i:155996 original size:24 final size:21
Alignment explanation
Indices: 155953--156020 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 21
155943 TATTAAATCA
* *
155953 AAAATGTTATCAAATCATTATT
1 AAAATTTTATTAAAT-ATTATT
155975 ATCAAATTATTATTAAATATTAAATT
1 A--AAATT-TTATTAAATATT--ATT
156001 AAAATTTTATTTAAATATTA
1 AAAATTTTA-TTAAATATTA
156021 AAATAAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 3 0.08
24 21 0.55
25 8 0.21
26 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (21 bp):
AAAATTTTATTAAATATTATT
Found at i:156021 original size:24 final size:24
Alignment explanation
Indices: 155978--156028 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
155968 CATTATTATC
*
155978 AAATTATTATTAAATATTAAATTA
1 AAATTATTATTAAATATTAAAATA
156002 AAATT-TTATTTAAATATTAAAATA
1 AAATTATTA-TTAAATATTAAAATA
156026 AAA
1 AAA
156029 ACGTTGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATTATTATTAAATATTAAAATA
Found at i:158222 original size:31 final size:31
Alignment explanation
Indices: 158187--158253 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
158177 TTAAAACTTT
* *
158187 CAATATAATCCCCCAACATTTAGTCCGTTTG
1 CAATATAATCCCCCAAAATTTAGTCCGTTTA
** * *
158218 CAATATGGTCTCTCAAAATTTAGTCCGTTTA
1 CAATATAATCCCCCAAAATTTAGTCCGTTTA
158249 CAATA
1 CAATA
158254 GGCTTGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (31 bp):
CAATATAATCCCCCAAAATTTAGTCCGTTTA
Found at i:158427 original size:10 final size:10
Alignment explanation
Indices: 158420--158488 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 10
158410 GAACGTTCAG
158420 TTATGTTCGT
1 TTATGTTCGT
158430 TTATGTTCGTT
1 TTATGTTCG-T
*
158441 CAGTTATATTCGT
1 ---TTATGTTCGT
158454 TTATGTTCGTT
1 TTATGTTCG-T
158465 CAATTATGTTCGT
1 ---TTATGTTCGT
158478 TTATGTTCGT
1 TTATGTTCGT
158488 T
1 T
158489 CATTTATGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
10 28 0.57
11 2 0.04
13 2 0.04
14 17 0.35
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.57
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:158440 original size:24 final size:24
Alignment explanation
Indices: 158413--158498 Score: 145
Period size: 24 Copynumber: 3.6 Consensus size: 24
158403 CGTTCGTGAA
158413 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
*
158437 CGTTCAGTTATATTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
*
158461 CGTTCAATTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
*
158485 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
158499 TAACCCAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.55
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATGTT
Found at i:159578 original size:16 final size:16
Alignment explanation
Indices: 159557--159587 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
159547 GTCTCCAACG
159557 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
159573 TTTATGTTCGTGTTC
1 TTTATGTTCGTGTTC
159588 GTGTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:160330 original size:13 final size:13
Alignment explanation
Indices: 160312--160336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
160302 GGTCAAAGGA
160312 GGTCAACGGTCAC
1 GGTCAACGGTCAC
160325 GGTCAACGGTCA
1 GGTCAACGGTCA
160337 ACGATCGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTCAACGGTCAC
Found at i:160351 original size:5 final size:5
Alignment explanation
Indices: 160341--160402 Score: 74
Period size: 5 Copynumber: 12.4 Consensus size: 5
160331 CGGTCAACGA
* *
160341 TCGGG TCGGG TCAACGG TCGGG TCAGG TCGGG TC-GG TCGGG TCGGG TC-GG
1 TCGGG TCGGG TC--GGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
160391 TCGGG TCGGG TC
1 TCGGG TCGGG TC
160403 AAACCGGTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 8 0.16
5 37 0.76
7 4 0.08
ACGTcount: A:0.05, C:0.23, G:0.52, T:0.21
Consensus pattern (5 bp):
TCGGG
Found at i:160354 original size:17 final size:17
Alignment explanation
Indices: 160332--160369 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
160322 CACGGTCAAC
*
160332 GGTCAACGATCGGGTCG
1 GGTCAACGATCGGGTCA
*
160349 GGTCAACGGTCGGGTCA
1 GGTCAACGATCGGGTCA
160366 GGTC
1 GGTC
160370 GGGTCGGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCA
Found at i:160359 original size:12 final size:10
Alignment explanation
Indices: 160344--160403 Score: 70
Period size: 9 Copynumber: 6.0 Consensus size: 10
160334 TCAACGATCG
160344 GGTCGGGTCAA
1 GGTCGGGTC-A
160355 CGGTCGGGTCA
1 -GGTCGGGTCA
160366 GGTCGGGTC-
1 GGTCGGGTCA
*
160375 GGTCGGGTCG
1 GGTCGGGTCA
*
160385 GGTC-GGTCG
1 GGTCGGGTCA
160394 GGTCGGGTCA
1 GGTCGGGTCA
160404 AACCGGTCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
9 18 0.40
10 17 0.38
11 1 0.02
12 9 0.20
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.20
Consensus pattern (10 bp):
GGTCGGGTCA
Found at i:160379 original size:19 final size:18
Alignment explanation
Indices: 160355--160403 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
160345 GTCGGGTCAA
160355 CGGTCGGGTCAGGTCGGGT
1 CGGTCGGGTCAGGTC-GGT
*
160374 CGGTCGGGTCGGGTCGGT
1 CGGTCGGGTCAGGTCGGT
160392 CGGGTCGGGTCA
1 C-GGTCGGGTCA
160404 AACCGGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.04, C:0.22, G:0.53, T:0.20
Consensus pattern (18 bp):
CGGTCGGGTCAGGTCGGT
Found at i:160383 original size:14 final size:14
Alignment explanation
Indices: 160356--160402 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
160346 TCGGGTCAAC
*
160356 GGTCGGGTCAGGTCG
1 GGTC-GGTCGGGTCG
160371 GGTCGGTCGGGTCG
1 GGTCGGTCGGGTCG
160385 GGTCGGTCGGGTCG
1 GGTCGGTCGGGTCG
160399 GGTC
1 GGTC
160403 AAACCGGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.02, C:0.21, G:0.55, T:0.21
Consensus pattern (14 bp):
GGTCGGTCGGGTCG
Found at i:160426 original size:11 final size:10
Alignment explanation
Indices: 160399--160440 Score: 61
Period size: 9 Copynumber: 4.3 Consensus size: 10
160389 GGTCGGGTCG
160399 GGTC-AAACC
1 GGTCAAAACC
160408 GGTCAAAACC
1 GGTCAAAACC
160418 GGTTCAAAACC
1 GG-TCAAAACC
160429 GGTC-AAACC
1 GGTCAAAACC
160438 GGT
1 GGT
160441 TTTCCAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 12 0.39
10 9 0.29
11 10 0.32
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.14
Consensus pattern (10 bp):
GGTCAAAACC
Found at i:160428 original size:21 final size:20
Alignment explanation
Indices: 160403--160441 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
160393 GGGTCGGGTC
160403 AAACCGGTCAAAACCGGTTCA
1 AAACCGGTC-AAACCGGTTCA
160424 AAACCGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
160442 TTCCAGCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:161214 original size:41 final size:42
Alignment explanation
Indices: 161169--161258 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
161159 TGTGTACGCC
* *
161169 TATTTAATGATTTCAATA-ATAAAAAGA-AAACTTTAGATTTT
1 TATTTAATAATTTAAATATATAAAAAGATAAACTTT-GATTTT
* **
161210 TATTTAATAATTTAAATATATAAAAATATAAACTTTTCTTTT
1 TATTTAATAATTTAAATATATAAAAAGATAAACTTTGATTTT
161252 TATTTAA
1 TATTTAA
161259 AAAACTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 16 0.38
42 19 0.45
43 7 0.17
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (42 bp):
TATTTAATAATTTAAATATATAAAAAGATAAACTTTGATTTT
Done.