Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004904.1 Hibiscus syriacus cultivar Beakdansim tig00011033_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: 69577
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Found at i:288 original size:20 final size:21
Alignment explanation
Indices: 265--307 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
255 TAGATACATT
*
265 TAAATCCATTCAT-ATTTTTA
1 TAAATCCATACATAATTTTTA
*
285 TAAATCGATACATAATTTTTA
1 TAAATCCATACATAATTTTTA
306 TA
1 TA
308 GATCTTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATCCATACATAATTTTTA
Found at i:1417 original size:43 final size:41
Alignment explanation
Indices: 1249--1575 Score: 284
Period size: 44 Copynumber: 7.6 Consensus size: 41
1239 CAATCTTGAA
* **
1249 TGATTCCATCACATAAGAAGTTGGATCAACATCATTATTTTGCT
1 TGATT-CATCACATAAGGAGTTGGAT-AACATCA-CCTTTTGCT
* * * * *
1293 CGA-T-AACACATAAGGTGCTCGATCAACATCACCCTTTTGC-
1 TGATTCATCACATAAGGAGTTGGAT-AACATCA-CCTTTTGCT
* * *
1333 TCATTTACATCACATAAGAAGTTGGATCAACATCACCCTTTTGTT
1 TGA-TT-CATCACATAAGGAGTTGGAT-AACATCA-CCTTTTGCT
1378 TGATTCAATCACATAAGGA-TTGGATAAGCATCACACTTTTGCT
1 TGATTC-ATCACATAAGGAGTTGGATAA-CATCAC-CTTTTGCT
*
1421 TGATTCCATCACATAAGGAGTTGGATCAACATCACTTTTTGCT
1 TGATT-CATCACATAAGGAGTTGGAT-AACATCACCTTTTGCT
* *
1464 TGATTCATCATATAAGGAGTTGGACCAACATCATCCTTTTGCT
1 TGATTCATCACATAAGGAGTTGGA-TAACATCA-CCTTTTGCT
* *
1507 CGATTTCATCACATAAGGAGGTGGATTAACATCGACCTTTTGCT
1 TGA-TTCATCACATAAGGAGTTGGA-TAACATC-ACCTTTTGCT
* * *
1551 AGATTCATCACAAAAGGAGGTGGAT
1 TGATTCATCACATAAGGAGTTGGAT
1576 CAGCACAATC
Statistics
Matches: 237, Mismatches: 31, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
40 1 0.00
41 28 0.12
42 30 0.13
43 79 0.33
44 94 0.40
45 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (41 bp):
TGATTCATCACATAAGGAGTTGGATAACATCACCTTTTGCT
Found at i:1446 original size:87 final size:83
Alignment explanation
Indices: 1249--1568 Score: 315
Period size: 87 Copynumber: 3.7 Consensus size: 83
1239 CAATCTTGAA
** * *
1249 TGATTCCATCACATAAGAAGTTGGATCAACATCATTATTTTGCTCGA-T-AACACATAAGG-TGC
1 TGATTCCATCACATAAGAAGTTGGATCAACATCA-CCTTTTGCTTGATTCATCACATAAGGAT--
*
1311 TCGATCAACATCACCCTTTTGC-
63 TGGAT-AACATCA-CCTTTTGCT
* * *
1333 TCATTTACATCACATAAGAAGTTGGATCAACATCACCCTTTTGTTTGATTCAATCACATAAGGAT
1 TGA-TTCCATCACATAAGAAGTTGGATCAACATCA-CCTTTTGCTTGATTC-ATCACATAAGGAT
1398 TGGATAAGCATCACACTTTTGCT
63 TGGATAA-CATCAC-CTTTTGCT
* * *
1421 TGATTCCATCACATAAGGAGTTGGATCAACATCACTTTTTGCTTGATTCATCATATAAGGAGTTG
1 TGATTCCATCACATAAGAAGTTGGATCAACATCACCTTTTGCTTGATTCATCACATAAGGA-TTG
*
1486 GACCAACATCATCCTTTTGCT
65 GA-TAACATCA-CCTTTTGCT
* * * * * * *
1507 CGATTTCATCACATAAGGAGGTGGATTAACATCGACCTTTTGCTAGATTCATCACAAAAGGA
1 TGATTCCATCACATAAGAAGTTGGATCAACATC-ACCTTTTGCTTGATTCATCACATAAGGA
1569 GGTGGATCAG
Statistics
Matches: 200, Mismatches: 24, Indels: 21
0.82 0.10 0.09
Matches are distributed among these distances:
84 2 0.01
85 49 0.25
86 64 0.32
87 72 0.36
88 12 0.06
89 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (83 bp):
TGATTCCATCACATAAGAAGTTGGATCAACATCACCTTTTGCTTGATTCATCACATAAGGATTGG
ATAACATCACCTTTTGCT
Found at i:3283 original size:29 final size:31
Alignment explanation
Indices: 3236--3296 Score: 99
Period size: 29 Copynumber: 2.0 Consensus size: 31
3226 CATCACGTAC
3236 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
1 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
*
3267 ACAAAG-AA-AAAAAAGGAGATGAGTTGAAA
1 ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
3296 A
1 A
3297 AGGATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 21 0.72
30 2 0.07
31 6 0.21
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.11
Consensus pattern (31 bp):
ACAAAGAAATAAAAAAGGAAATGAGTTGAAA
Found at i:5106 original size:137 final size:138
Alignment explanation
Indices: 4597--5110 Score: 558
Period size: 137 Copynumber: 3.8 Consensus size: 138
4587 CCCCGACCCT
* ** *
4597 TTTAATTTAGGTGAATTTTT-TTTGGTCCTCACATTTATGCATGAGGTTTCATTTTGATTATTTT
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * * *
4661 CTTTAATTATTGGATAAAATTGGTTAGGATGAATAACT-AAGCCTCAATTTTAGTTTAATTTCAC
66 ATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTCAATTTTAGTTTAATTTCAC
* *
4725 TCTGGTCC
131 TTTAGTCC
**
4733 TTTAATTTAGGTGACA-TTTTATTTGGTCCT-AGCATTTATATATGAGGTTCCATTTCAATTATT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTCCTCA-CATTTATGCATGAGGTTCCATTTCAATTATT
* * * * * *
4796 TGATTCATTAATTGGATAAAATTGGTTAGGAATAATGATTAGATCCTCCATTTTAGTTTAATTTC
64 TGATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTCAATTTTAGTTTAATTTC
*
4861 ATTTTAGTCC
129 ACTTTAGTCC
* * * * * *
4871 TTTAATTTAGATGAATTTTGATTTGATACTCGCATTTATGCATGAGGTTCCATTTCAATGATTTG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * * * ** ** *
4936 ATCCAATAATTGGTTAAAATAGATCAGG-GTAAT-ATTAAAACCTTTACCTTAGGTTTAATTTTA
66 ATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTCAATTTTA-GTTTAATTTCA
4999 CTTTAGTCC
130 CTTTAGTCC
* * *
5008 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCCTGAGGTTTCATTTCAATTA-TCG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
*
5072 ATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTA
66 ATTCAATAATTGGA-TAAAATTGGTTAGGATTAATAATTA
5111 GAGCTTTGAT
Statistics
Matches: 309, Mismatches: 59, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
136 54 0.17
137 147 0.48
138 108 0.35
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (138 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
ATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTCAATTTTAGTTTAATTTCAC
TTTAGTCC
Found at i:5440 original size:19 final size:19
Alignment explanation
Indices: 5416--5452 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5406 ATTCAAACAC
5416 TTTAGATTTTATTATTTTA
1 TTTAGATTTTATTATTTTA
5435 TTTAGATTTTATTATTTT
1 TTTAGATTTTATTATTTT
5453 TATTACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTAGATTTTATTATTTTA
Found at i:7498 original size:65 final size:64
Alignment explanation
Indices: 7377--7586 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
7367 TTTTTCAAAG
* * * * **
7377 TGATGCACCGATGCACCAATCCATGCATCAATGCAC-CATGGAATAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTCA-AG-CTATTTTGAAACATCGAATGCA
7440 TT
63 TT
* * * *
7442 TTATGTATCGATGCA-CATACCATGCATCGATGCACTCAAGGT-TTTATGAAAACATCGAATACA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCAAGCTATTT-TG-AAACATCGAATGCA
7505 TT
63 TT
* *
7507 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCAAGCTATTTTGAAACATCAAATGCATT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCAAGCTATTTTGAAACATCGAATGCATT
* * *
7571 TCATGCGTCGGTGCAC
1 TGATGCATCGATGCAC
7587 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 45 0.38
65 66 0.55
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCAAGCTATTTTGAAACATCGAATGCATT
Found at i:9670 original size:18 final size:18
Alignment explanation
Indices: 9647--9697 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
9637 TTTAAAATGT
9647 AATTGATATCTATTTAAC
1 AATTGATATCTATTTAAC
9665 AATTGATATCTATTTAAC
1 AATTGATATCTATTTAAC
*
9683 AATTGATATCGATTT
1 AATTGATATCTATTT
9698 TTCAAGAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (18 bp):
AATTGATATCTATTTAAC
Found at i:13040 original size:44 final size:44
Alignment explanation
Indices: 12990--13086 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
12980 TTGTGCTTAA
* *
12990 TGCATCGATACACT-T-AACAGTGCATCGATGCAT-CCATTTGAATG
1 TGCATCGATAAACTATGAA-AGTGCACCGATGCATGCC--TTGAATG
*
13034 TGCATCGATAAACTATGAAGGTGCACCGATGCATGCCTTGAATG
1 TGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAATG
13078 TGCATCGAT
1 TGCATCGAT
13087 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 29 0.62
45 14 0.30
46 4 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
TGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAATG
Found at i:14524 original size:18 final size:18
Alignment explanation
Indices: 14503--14537 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14493 TCGGTCTAAA
* *
14503 CATCTCTCTCGAAAATCC
1 CATCCCTCTCCAAAATCC
14521 CATCCCTCTCCAAAATC
1 CATCCCTCTCCAAAATC
14538 AAATCAATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.43, G:0.03, T:0.26
Consensus pattern (18 bp):
CATCCCTCTCCAAAATCC
Found at i:15475 original size:14 final size:15
Alignment explanation
Indices: 15443--15475 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
15433 GGGGGAGTAA
15443 TTTTCAAAATTTAAT
1 TTTTCAAAATTTAAT
15458 TTTTCAAAATTT-AT
1 TTTTCAAAATTTAAT
15472 TTTT
1 TTTT
15476 AAAGAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTCAAAATTTAAT
Found at i:15938 original size:65 final size:63
Alignment explanation
Indices: 15824--15977 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 63
15814 GGAATAATTG
* * * * *
15824 AACATCGAATGCTTTTTATACATCGATGTAATACCATGCATCGATGCACTCAGGGT-TTTATAAA
1 AACATCGAATGCATTTCATGCATCAATGTAATACCATGCATCGATGCACTCAGGCTATTT-T-AA
* *
15888 AACATCGAATGCATTTGATGCATCAATGTACCAT-CCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCAATGTA--ATACCATGCATCGATGCACTCAGGCTATTTTAA
*
15952 AACATCGAATGCATTTCATGAATCAA
1 AACATCGAATGCATTTCATGCATCAA
15978 ATGCACTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 51 0.65
65 23 0.29
66 5 0.06
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCAATGTAATACCATGCATCGATGCACTCAGGCTATTTTAA
Found at i:17306 original size:137 final size:137
Alignment explanation
Indices: 16947--17465 Score: 519
Period size: 137 Copynumber: 3.8 Consensus size: 137
16937 CCCAGACCTT
* * ** ** **
16947 TTTAATTTAGGTGAATTTTTTATTTGATCCTTGTATTT-TGCAGGAGGTTTTATTTTGATTATTT
1 TTTAATTTAGGTGAA-TTTTTATTTGGT-CTCGTATTTATGCCTGAGGTTCCATTTCAATTATTT
* * * * * *
17011 GATTCAATAATTCGATAAAATTGGTTAGGATGAATAACTATAGCCTCCATTTTAGTTTAATTTCA
64 GATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGAACCTTCATTTTAGTTTAATTTCA
* * *
17076 CTATGGTTC
129 CTTTAGTCC
* * * ** *
17085 TTTTATTTAGGTGACTTTTTTATTTGGTCATAGTATTTATATCTGATGTTCCATTTCAATTATTT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTC-TCGTATTTATGCCTGAGGTTCCATTTCAATTATTT
* * *
17150 GATTCATTAATTGGATAAAATTGGTTAGGATTAATGATTAGATCCTTCATTTTAGTTTAATTTCA
64 GATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGAACCTTCATTTTAGTTTAATTTCA
17215 CTTTAGTCC
129 CTTTAGTCC
* * * *
17224 TTTAATTTA-GAGAATTTTGATTTGATACTCGTATTTATGCCTGAGGTTCCATTTCAATGATTTG
1 TTTAATTTAGGTGAATTTTTATTTGGT-CTCGTATTTATGCCTGAGGTTCCATTTCAATTATTTG
* * * * * * * **
17288 ATACAATAATTGGTTAAAATTGATCAGG-GTAAT-ATTAAAACCTTTACCTTAGGTTTAATTTCA
65 ATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGAACCTTCATTTTA-GTTTAATTTCA
*
17351 CTTTAGTCG
129 CTTTAGTCC
* * *
17360 TTTAATTTAGGTGACTTTTTATTTGGTCCTCACT-TTTATGCCTGAGGTTCCATTTCAATTATTC
1 TTTAATTTAGGTGAATTTTTATTTGGT-CTC-GTATTTATGCCTGAGGTTCCATTTCAATTATTT
*
17424 GATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTAGA
64 GATTCAATAATTGGA-TAAAATTGGTTAGGATTAATAATTAGA
17466 GCTTTGATAA
Statistics
Matches: 310, Mismatches: 61, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
135 13 0.04
136 32 0.10
137 132 0.43
138 40 0.13
139 93 0.30
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.47
Consensus pattern (137 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCTCGTATTTATGCCTGAGGTTCCATTTCAATTATTTGA
TTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGAACCTTCATTTTAGTTTAATTTCACT
TTAGTCC
Found at i:17796 original size:19 final size:19
Alignment explanation
Indices: 17768--17805 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17758 AAATTCAAAC
17768 ATTTAGATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
*
17787 ATTTATATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
17806 TATTAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTAGATTTTATTATTTT
Found at i:19892 original size:139 final size:136
Alignment explanation
Indices: 19745--20254 Score: 547
Period size: 139 Copynumber: 3.7 Consensus size: 136
19735 CCCCGAACTT
* * **
19745 TTTAATTTAGGTGAATTTTTTATTTGGTCCTTGCAGTTATGCATGAGGTTTCATTTTGATTATTT
1 TTTAATTTAGGTGAA-TTTTTATTTGGTCCTTGCATTTATGCATGAGGTTCCATTTCAATTATTT
* * * * *
19810 GATTCAATTATTGGATAAAATTGGCTAGGATGAATAACTGTAGCCTCCATTTTAGTTTAATTTCA
65 GATTCAATAATTGGATAAAATTGGTTAGGAT-AAT-ATTATAACCTCCATTTTAGTTTAATTTCA
* *
19875 CTCTGGTCC
128 CTTTAGTCC
* * ** *
19884 TTTAATTTAGGTGACTTTTTTATTTGGTCCTAGCATTTATATATGAGGTTCCATTTCAGTTATTT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTCCTTGCATTTATGCATGAGGTTCCATTTCAATTATTT
* * *
19949 GATTCATTAATTGGATAAAATTGGTTAGGATTAACGATTATATCCTCCATTTTAGTTTAATTTCA
65 GATTCAATAATTGGATAAAATTGGTTAGGA-TAA-TATTATAACCTCCATTTTAGTTTAATTTCA
* *
20014 GTTTCGTCC
128 CTTTAGTCC
* * * * *
20023 TTTAATTTAGATGAATTTTTATTTGGTACTCT-CATTTATGCCTGAGGGTCCATTTCAATGATTT
1 TTTAATTTAGGTGAATTTTTATTTGGTCCT-TGCATTTATGCATGAGGTTCCATTTCAATTATTT
* * * * * * * ** **
20087 GATCCAATAATTGGTTAAAATTGATCAGGGTAATATTAAAATCTTTACCTTAGGTTTAATTTCAC
65 GATTCAATAATTGGATAAAATTGGTTAGGATAATATTATAACCTCCATTTTA-GTTTAATTTCAC
20152 TTTAGTCC
129 TTTAGTCC
** * *
20160 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCCTGAGGTTCCATTTCAATTATTCG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTTGCATTTATGCATGAGGTTCCATTTCAATTATTTG
*
20225 ATTCAATAATT-TACTAAAATTGGTTAGGAT
66 ATTCAATAATTGGA-TAAAATTGGTTAGGAT
20255 TATTAATTAG
Statistics
Matches: 307, Mismatches: 57, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
136 11 0.04
137 102 0.33
138 64 0.21
139 129 0.42
140 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (136 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCCTTGCATTTATGCATGAGGTTCCATTTCAATTATTTG
ATTCAATAATTGGATAAAATTGGTTAGGATAATATTATAACCTCCATTTTAGTTTAATTTCACTT
TAGTCC
Found at i:20596 original size:19 final size:20
Alignment explanation
Indices: 20569--20609 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
20559 ATTCAAACAC
20569 TTTAGATTTTATTATTT-TA
1 TTTAGATTTTATTATTTGTA
*
20588 TTTATATTTTATTATTTGTA
1 TTTAGATTTTATTATTTGTA
20608 TT
1 TT
20610 AGGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTAGATTTTATTATTTGTA
Found at i:24870 original size:19 final size:20
Alignment explanation
Indices: 24824--24883 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
24814 TTCCCCTGTG
24824 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
24847 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
24866 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
24884 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:28726 original size:22 final size:21
Alignment explanation
Indices: 28684--28723 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28674 GAGTTTGTTT
*
28684 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
28705 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
28724 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:31254 original size:13 final size:13
Alignment explanation
Indices: 31236--31260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31226 GTTTTAAATT
31236 AAATCAAAATTTG
1 AAATCAAAATTTG
31249 AAATCAAAATTT
1 AAATCAAAATTT
31261 TTCAATTTTA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATCAAAATTTG
Found at i:32668 original size:13 final size:13
Alignment explanation
Indices: 32652--32681 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32642 TTTATTTTAA
32652 TATTTTAAAAAAT
1 TATTTTAAAAAAT
32665 TATTTTAAAAAAT
1 TATTTTAAAAAAT
32678 TATT
1 TATT
32682 AATGACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTTAAAAAAT
Found at i:36418 original size:23 final size:23
Alignment explanation
Indices: 36386--36429 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
36376 AGTTTTCTTC
36386 TCTTGAAAATATT-TTTTCTCAT
1 TCTTGAAAATATTATTTTCTCAT
36408 TCTTAGAAAATATTATTTTCTC
1 TCTT-GAAAATATTATTTTCTC
36430 TCTGAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.52
Consensus pattern (23 bp):
TCTTGAAAATATTATTTTCTCAT
Found at i:37297 original size:3 final size:3
Alignment explanation
Indices: 37289--37318 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37279 GAGATCTGGA
37289 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
37319 GGGGAATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37635 original size:17 final size:17
Alignment explanation
Indices: 37613--37646 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37603 GTCAACTTTC
37613 TTTTTTC-TAAGTATTTT
1 TTTTTTCATAAG-ATTTT
37630 TTTTTTCATAAGATTTT
1 TTTTTTCATAAGATTTT
37647 ATCTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTTTTCATAAGATTTT
Found at i:37822 original size:4 final size:4
Alignment explanation
Indices: 37815--37921 Score: 214
Period size: 4 Copynumber: 26.8 Consensus size: 4
37805 CTATCTATAT
37815 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
37863 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
37911 ATCC ATCC ATC
1 ATCC ATCC ATC
37922 ATATAAAAAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
ATCC
Found at i:38854 original size:14 final size:13
Alignment explanation
Indices: 38835--38900 Score: 54
Period size: 14 Copynumber: 5.3 Consensus size: 13
38825 CGTTCGTGAA
38835 CGTTCGGTTATGTT
1 CGTTC-GTTATGTT
38849 CGTTCGATTATGTT
1 CGTTCG-TTATGTT
38863 CG-T--TTATGTT
1 CGTTCGTTATGTT
*
38873 C-AT--TTATGTT
1 CGTTCGTTATGTT
38883 CGTTCGGTTATGTT
1 CGTTC-GTTATGTT
38897 CGTT
1 CGTT
38901 TATATTCATT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
10 17 0.38
11 1 0.02
13 2 0.04
14 25 0.56
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.53
Consensus pattern (13 bp):
CGTTCGTTATGTT
Found at i:38864 original size:34 final size:34
Alignment explanation
Indices: 38812--38899 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
38802 CATAAGTCTC
* *
38812 GTTCGTTC-ATTTACGTTCGTGAACGTTCGGTTAT
1 GTTCGTTCGA-TTATGTTCGTGAACGTTCAGTTAT
** * *
38846 GTTCGTTCGATTATGTTCGTTTATGTTCATTTAT
1 GTTCGTTCGATTATGTTCGTGAACGTTCAGTTAT
*
38880 GTTCGTTCGGTTATGTTCGT
1 GTTCGTTCGATTATGTTCGT
38900 TTATATTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
34 45 0.98
35 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (34 bp):
GTTCGTTCGATTATGTTCGTGAACGTTCAGTTAT
Found at i:38900 original size:34 final size:34
Alignment explanation
Indices: 38842--38910 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
38832 GAACGTTCGG
*
38842 TTATGTTCGTTCGATTATGTTCGTTTATGTTCAT
1 TTATGTTCGTTCGATTATGTTCGTTTATATTCAT
*
38876 TTATGTTCGTTCGGTTATGTTCGTTTATATTCAT
1 TTATGTTCGTTCGATTATGTTCGTTTATATTCAT
38910 T
1 T
38911 CATTTATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.57
Consensus pattern (34 bp):
TTATGTTCGTTCGATTATGTTCGTTTATATTCAT
Found at i:38903 original size:10 final size:10
Alignment explanation
Indices: 38850--38886 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
38840 GGTTATGTTC
*
38850 GTTCGATTAT
1 GTTCGTTTAT
38860 GTTCGTTTAT
1 GTTCGTTTAT
*
38870 GTTCATTTAT
1 GTTCGTTTAT
38880 GTTCGTT
1 GTTCGTT
38887 CGGTTATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.57
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:38917 original size:24 final size:24
Alignment explanation
Indices: 38865--38920 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
38855 ATTATGTTCG
* * *
38865 TTTATGTTCATTTATGTTCGTTCG
1 TTTATGTTCATTTATATTCATTCA
* *
38889 GTTATGTTCGTTTATATTCATTCA
1 TTTATGTTCATTTATATTCATTCA
38913 TTTATGTT
1 TTTATGTT
38921 TAACCCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (24 bp):
TTTATGTTCATTTATATTCATTCA
Found at i:39786 original size:12 final size:12
Alignment explanation
Indices: 39769--39810 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
39759 TGGGGCAATG
39769 TCGAGCTCAGAA
1 TCGAGCTCAGAA
39781 TCGAGCTTC--AA
1 TCGAGC-TCAGAA
*
39792 TCAAGCTCAGAA
1 TCGAGCTCAGAA
39804 TCGAGCT
1 TCGAGCT
39811 TCAATCAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 2 0.08
11 7 0.28
12 14 0.56
13 2 0.08
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (12 bp):
TCGAGCTCAGAA
Found at i:39798 original size:23 final size:23
Alignment explanation
Indices: 39772--39822 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
39762 GGCAATGTCG
39772 AGCTCAGAATCGAGCTTCAATCA
1 AGCTCAGAATCGAGCTTCAATCA
39795 AGCTCAGAATCGAGCTTCAATCA
1 AGCTCAGAATCGAGCTTCAATCA
39818 AGCTC
1 AGCTC
39823 GAGTCTCGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
AGCTCAGAATCGAGCTTCAATCA
Found at i:40054 original size:16 final size:16
Alignment explanation
Indices: 40031--40107 Score: 136
Period size: 16 Copynumber: 4.8 Consensus size: 16
40021 GGGCCTCCAA
40031 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
40047 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
40063 CGTTTATGTTCGTGTC
1 CGTTTATGTTCGTGTT
40079 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
40095 CGTTTATGTTCGT
1 CGTTTATGTTCGT
40108 TTATTTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.08, C:0.14, G:0.23, T:0.55
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:49985 original size:3 final size:3
Alignment explanation
Indices: 49977--50001 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49967 GACCTAAAAT
49977 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
50002 CAACGACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:50137 original size:22 final size:22
Alignment explanation
Indices: 50110--50152 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50100 TATATTTGTC
50110 TTCAAAC-CATATGTTATATATT
1 TTCAAACAC-TATGTTATATATT
*
50132 TTCAAACACTATTTTATATAT
1 TTCAAACACTATGTTATATAT
50153 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (22 bp):
TTCAAACACTATGTTATATATT
Found at i:50153 original size:2 final size:2
Alignment explanation
Indices: 50146--50174 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50136 AACACTATTT
50146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50175 TTCAAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50295 original size:20 final size:19
Alignment explanation
Indices: 50195--50328 Score: 135
Period size: 20 Copynumber: 7.4 Consensus size: 19
50185 TACTATACTC
50195 TATATATATTTCAAAACTA
1 TATATATATTTCAAAACTA
50214 T-T-TAT-TTTCAAAACTA
1 TATATATATTTCAAAACTA
*
50230 TACTATATA--T--ATA-TA
1 TA-TATATATTTCAAAACTA
* *
50245 TATTTATTTTTCAAAAC-A
1 TATATATATTTCAAAACTA
*
50263 TATTTAT-TTTCAAAACTA
1 TATATATATTTCAAAACTA
50281 TACTATATATTTCAAAACTA
1 TA-TATATATTTCAAAACTA
50301 TACTATATATTTCAAAACTA
1 TA-TATATATTTCAAAACTA
50321 TATATATA
1 TATATATA
50329 GTATACATAT
Statistics
Matches: 98, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
14 4 0.04
15 4 0.04
16 15 0.15
17 12 0.12
18 16 0.16
19 14 0.14
20 33 0.34
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATATATTTCAAAACTA
Found at i:53049 original size:23 final size:23
Alignment explanation
Indices: 52982--53052 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
52972 ATTAAGTACA
* *
52982 ATAATATATTAGGTAGCGCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
* *
53005 ATAATGTAATAGATAACGCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
*
53028 ATAATGTAATAGGTAGCACTTAT
1 ATAATGTAATAGGTAGCGCTTAT
53051 AT
1 AT
53053 TGATCTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (23 bp):
ATAATGTAATAGGTAGCGCTTAT
Found at i:53694 original size:200 final size:199
Alignment explanation
Indices: 53220--53731 Score: 676
Period size: 199 Copynumber: 2.6 Consensus size: 199
53210 AATTTAGGCT
* * * * * *
53220 TATTTTTTCATAAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTGTAAT
1 TATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAAT
* *
53285 TATCGATTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACC
66 TATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCACC
* * *
53350 CGTTTGGCATTCATTATGGACAAAATGTATTGAAACAAATTTAATAAGTGTCGATACTTTATGAT
131 CGTTTGGCATTCATTATGGACAAAATGTATCGAAACAAATTTAACAAGTGTCGATACATTATGAT
53415 GACC
196 GACC
* * *
53419 TATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAAT
1 TATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAAT
* * *
53484 TATCGGTTTCGAT-TTTATTGGGATCGATGCTTTTAATAATTGTATCGAAACTTTATGCGTGCAC
66 TATCGGTTTCGATATTT-TTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCAC
* *
53548 CTCGTTTGGGCATTCATTCTGGACAATAA-GTATCGACACAAA-TTACACAAGTGTCGATACATT
130 C-CGTTT-GGCATTCATTATGGACAA-AATGTATCGAAACAAATTTA-ACAAGTGTCGATACATT
*
53611 ATGTTGACC
191 ATGATGACC
* * * * *
53620 TGTTTTCTAAT-TAACCGATATATTTATATCGGTTATATTGTTAATTTACCTATTACATTATAAT
1 TATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAAT
* *
53684 TATTGGTTTCGATGTTTGTTGGG-TCGATACTTTTAGA-AAATGTATCGA
66 TATCGGTTTCGATATTT-TTGGGATCGATACTTTTA-ATAAATGTATCGA
53732 CACATATTTA
Statistics
Matches: 276, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
198 3 0.01
199 114 0.41
200 88 0.32
201 69 0.25
202 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (199 bp):
TATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAAT
TATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCACC
CGTTTGGCATTCATTATGGACAAAATGTATCGAAACAAATTTAACAAGTGTCGATACATTATGAT
GACC
Found at i:54080 original size:25 final size:25
Alignment explanation
Indices: 54046--54104 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
54036 ACTTTTACAA
54046 GGGCATTCAATGCGTTCACCATTTT
1 GGGCATTCAATGCGTTCACCATTTT
54071 GGGCATTCAATGCGTTCACCATTTT
1 GGGCATTCAATGCGTTCACCATTTT
54096 GGGCATTCA
1 GGGCATTCA
54105 TTCCGGACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GGGCATTCAATGCGTTCACCATTTT
Found at i:56014 original size:18 final size:18
Alignment explanation
Indices: 55993--56028 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55983 ATTATCATCA
*
55993 TCATCATCATCTTCATTG
1 TCATCATCATATTCATTG
*
56011 TCATCTTCATATTCATTG
1 TCATCATCATATTCATTG
56029 ACCTCTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (18 bp):
TCATCATCATATTCATTG
Found at i:57868 original size:200 final size:200
Alignment explanation
Indices: 57517--58677 Score: 1394
Period size: 200 Copynumber: 5.8 Consensus size: 200
57507 ATTTAAAATG
* * * * ** * *
57517 GTATCGACACAAATTTA-ACAATTTTCGATACTTTATG-ATGATATATTTTCTCATAAAACCGGT
1 GTATCGACACAAA-TTACAAAAGTGTCGATACATTATGTA-GACCTATTCTCTCATAAAATCGGT
* * * * *
57580 ATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAATTATCGGTTTCGATGTTTTTG
64 ATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* *
57645 GGATCGACACTTTTTAA-AAATGTATCGACACTTTATGCGTGCAACCCTTTT-GACATTCCTTCT
129 GGATCGACAC-TTTTAATAAATGTATCGACACTTTATGCGTGC-ACCATTTTGGGCATTCCTTCT
57708 GGACAAAAA
192 GGACAAAAA
* * * *
57717 GTATCGACACAAATTCCACAAGTGTTGATACATGT-TGTAGACCTATTCTATCATAAAATCGGTA
1 GTATCGACACAAATTACAAAAGTGTCGATACAT-TATGTAGACCTATTCTCTCATAAAATCGGTA
* * * * *
57781 TAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * * *
57846 TATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTGGGCATTCGTTCTGGA
130 GATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCCTTCTGGA
*
57911 CAAAAG
195 CAAAAA
* * * *
57917 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGTTAT
1 GTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATCGGTAT
* * * * * * *
57982 ATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTTGATGTTTTTAGG
66 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* * * *
58047 ATCGACAATTTTTATAAATGTATCGACACTTAATG-GTGCATCCTTTTTGGGCATTCCTTCTGGA
131 ATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCA-CCATTTTGGGCATTCCTTCTGGA
*
58111 CCAAAA
195 CAAAAA
*
58117 GTATCGACACAAATTACACAAGTGTCGATACA-TATTGTAGACCTATTCTCTCATAAAATCGGTA
1 GTATCGACACAAATTACAAAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAATCGGTA
* * *
58181 TATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTAG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * * *
58246 GATCGATACTTGTTTATAAATGTATCGACACTTTTTGCGTGCACCCTTTTTGGGCATTCCTTATG
130 GATCGACACTT-TTAATAAATGTATCGACACTTTATGCGTGCA-CCATTTTGGGCATTCCTTCTG
58311 GA-AAAATA
193 GACAAAA-A
* * * * *
58319 GTATCAACACAAATTCCATAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAAAT-GGTT
1 GTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCAT-AAAATCGGTA
* * * *
58383 TAGTTATACCGGTTACATTGTAAATTTACCTATTACAATAT-ATCTATGGGTTTCGATGTTTCTG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAAT-TATGGGTTTCGATGTTTCTG
* * * **
58447 GGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTGGGCATTAATTCTGG
129 GGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCCTTCTGG
*
58512 ACAAAAC
194 ACAAAAA
* * *
58519 GTATCGACACATTATGA-AAAAGTGTCGATACATTATGT-GCACCTATTCTCACATAAAA-CTGG
1 GTATCGACACA-AATTACAAAAGTGTCGATACATTATGTAG-ACCTATTCTCTCATAAAATC-GG
* * * *
58581 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGTGTTTCGATGTTTTT
63 TATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
*
58646 GGGATCGACACTTTTTATAAATGTATCGACAC
128 GGGATCGACACTTTTAATAAATGTATCGACAC
58678 ATATGCTTAC
Statistics
Matches: 825, Mismatches: 116, Indels: 40
0.84 0.12 0.04
Matches are distributed among these distances:
199 25 0.03
200 584 0.71
201 65 0.08
202 144 0.17
203 7 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
GTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATCGGTAT
ATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
ATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCCTTCTGGAC
AAAAA
Found at i:58512 original size:402 final size:398
Alignment explanation
Indices: 57560--58677 Score: 1414
Period size: 402 Copynumber: 2.8 Consensus size: 398
57550 TATGATGATA
* * * * *
57560 TATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAAT
1 TATTCTCTCATAAAAACGGTTTATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAAT
*
57625 TATCGGTTTCGATGTTTTTGGGATCGACACTTTTTAA-AAATGTATCGACACTTTATGCGTGCAA
66 TATGGGTTTCGATGTTTTTGGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGCGTGC-A
* * * * * *
57689 CCCTTTT-GACATTCCTTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTTGATACATGTT
129 TCATTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TT
* * * *
57753 GTAGACCTATTCTATCATAAAATCGGTATA-GTTATACTGGTTACATTGTAAATTTACCTATTAC
193 GTAGACCTATTCTCTCATAAAATCGGTATATG-TATACCGGTTACATTGAAAAATTACCTATTAC
* **
57817 ATTATATTTATGGGTTTCGATGTTTCTGGTATCGACACTTTCAATAAATGTATCGACACTTTATG
257 ATTATAATTATGGGTTTCGATGTTTCTGG-ATCGACACTTTTTATAAATGTATCGACACTTTATG
* * * * * * *
57882 CGTTCATCATTTTGGGCATTCGTTCTGGACAAAAGGTATCGACACAAAATAAAAAAGTGTCGATA
321 CGTGCACCATTTTGGGCATTCCTTATGGACAAAAAGTATCAACACAAAATAAAAAAGTGTCAATA
57947 CATTATGTAGACC
386 CATTATGTAGACC
* * * * *
57960 TATTCTCTCAT-AAAACCGTTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAA
1 TATTCTCTCATAAAAACGGTT-TATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAA
* * * * * *
58024 TTATGAGTTTTGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG-GTGCAT
65 TTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAT
*
58088 CCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATT
130 -CATTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TT
58153 GTAGACCTATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACA
193 GTAGACCTATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACA
* *
58218 TTATAATTATGGGTTTCGATGTTTCTAGGATCGATACTTGTTTATAAATGTATCGACACTTTTTG
258 TTATAATTATGGGTTTCGATGTTTCT-GGATCGACACTT-TTTATAAATGTATCGACACTTTATG
* * ** *
58283 CGTGCACCCTTTTTGGGCATTCCTTATGGA-AAAATAGTATCAACACAAATTCCATAAGTGTCAA
321 CGTGCA-CCATTTTGGGCATTCCTTATGGACAAAA-AGTATCAACACAAAATAAAAAAGTGTCAA
58347 TACATTATGTAGACC
384 TACATTATGTAGACC
* * * *
58362 TATTCTCTCATAAAAATGGTTTAGTTATACCGGTTACATTGTAAATTTACCTATTACAATAT-AT
1 TATTCTCTCATAAAAACGGTTTATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAAT
* * *
58426 CTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCAT
66 -TATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAT
** * * *
58491 CATTTTGGGCATTAATTCTGGA-CAAAACGTATCGACACATTATGA-AAAAGTGTCGATACATTA
130 CATTTTGGGCATTCCTTCTGGACCAAAA-GTATCGACACA-AATTACACAAGTGTCGATACATT-
* * *
58554 TGT-GCACCTATTCTCACATAAAA-CTGGTATATTTATACCGGTTATATT-ACAAAATTACCTAT
192 TGTAG-ACCTATTCTCTCATAAAATC-GGTATATGTATACCGGTTACATTGA-AAAATTACCTAT
* *
58616 TACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
254 TACATTATAATTATGGGTTTCGATGTTTCT-GGATCGACACTTTTTATAAATGTATCGACAC
58678 ATATGCTTAC
Statistics
Matches: 624, Mismatches: 76, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
398 1 0.00
399 20 0.03
400 237 0.38
401 64 0.10
402 287 0.46
403 15 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (398 bp):
TATTCTCTCATAAAAACGGTTTATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAAT
TATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCATC
ATTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATTTGTA
GACCTATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTA
TAATTATGGGTTTCGATGTTTCTGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGC
ACCATTTTGGGCATTCCTTATGGACAAAAAGTATCAACACAAAATAAAAAAGTGTCAATACATTA
TGTAGACC
Found at i:58663 original size:602 final size:600
Alignment explanation
Indices: 57560--58677 Score: 1796
Period size: 602 Copynumber: 1.9 Consensus size: 600
57550 TATGATGATA
* * * *
57560 TATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAAT
1 TATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
* *
57625 TATCGGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAAC
66 TATCGGTTTCGATGTTTCTAGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAAC
* * **
57690 CCTTTTGACATTCCTTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTTGATACATGTTGT
131 CCTTTTGACATTCCTTATGGACAAAAAGTATCAACACAAATTCCACAAGTGTCAATACATGTTGT
* *
57755 AGACCTATTCTATCATAAAATCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATT
196 AGACCTATTCTATCATAAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACAAT
* *
57820 ATATTTATGGGTTTCGATGTTTCTGGTATCGACACTTTCAATAAATGTATCGACACTTTATGCGT
261 ATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGT
** *
57885 TCATCATTTTGGGCATTCGTTCTGGACAAAAGGTATCGACACAAAATAAAAAAGTGTCGATACAT
326 TCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTCGATACAT
* *
57950 TATGTAGACCTATTCTCTCATAAAACCGTTATATTTATACCAGTTATATTACAAAATTACCTATT
391 TATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATT
*
58015 ACATTATAATTATGAGTTTTGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAA
456 ACATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAA
58080 TGGTGCATCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGA
521 TGGTGCATCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGA
58145 TACATATTGTAGACC
586 TACATATTGTAGACC
* *
58160 TATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAAT
1 TATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
* * * *
58225 TATGGGTTTCGATGTTTCTAGGATCGATACTTGTTTATAAATGTATCGACACTTTTTGCGTGC-A
66 TATCGGTTTCGATGTTTCTAGGATCGACACTT-TTTAAAAATGTATCGACACTTTATGCGTGCAA
* *
58289 CCCTTTTTGGGCATTCCTTATGGA-AAAATAGTATCAACACAAATTCCATAAGTGTCAATACAT-
130 CCC-TTTT-GACATTCCTTATGGACAAAA-AGTATCAACACAAATTCCACAAGTGTCAATACATG
* *
58352 TATGTAGACCTATTCTCTCATAAAAAT-GGTTTAGTTATACCGGTTACATTGTAAATTTACCTAT
192 T-TGTAGACCTATTCTATCAT-AAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACCTAT
58416 TACAATATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTT
255 TACAATATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTT
** *
58481 ATGCGTTCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACATTATGAAAAAGTGTCG
320 ATGCGTTCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTCG
* *
58546 ATACATTATGT-GCACCTATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAATT
385 ATACATTATGTAG-ACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAATT
* * *
58610 ACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGA
449 ACCTATTACATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGA
58675 CAC
514 CAC
58678 ATATGCTTAC
Statistics
Matches: 473, Mismatches: 38, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
600 91 0.19
601 38 0.08
602 339 0.72
603 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (600 bp):
TATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
TATCGGTTTCGATGTTTCTAGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAAC
CCTTTTGACATTCCTTATGGACAAAAAGTATCAACACAAATTCCACAAGTGTCAATACATGTTGT
AGACCTATTCTATCATAAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACAAT
ATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGT
TCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTCGATACAT
TATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATT
ACATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAA
TGGTGCATCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGA
TACATATTGTAGACC
Found at i:60628 original size:18 final size:18
Alignment explanation
Indices: 60605--60640 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60595 TTCCTCCTCA
*
60605 TTTCCTCTATCTTTTCTT
1 TTTCCTCCATCTTTTCTT
*
60623 TTTCCTCCCTCTTTTCTT
1 TTTCCTCCATCTTTTCTT
60641 CTTCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCCTCCATCTTTTCTT
Found at i:60870 original size:33 final size:33
Alignment explanation
Indices: 60827--60893 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
60817 CCATCTTAAG
*
60827 TTCACTCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
60860 TTCACCCCTCAACACCTCAACTTCTTTTACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
60893 T
1 T
60894 CCATCTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:61073 original size:15 final size:15
Alignment explanation
Indices: 61053--61100 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
61043 ACTCTGTTTT
61053 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
61068 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
61083 CCCTCACCATCATCC
1 CCCTCACCGTCATCC
61098 CCC
1 CCC
61101 AATACAACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.62, G:0.04, T:0.19
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:63705 original size:183 final size:183
Alignment explanation
Indices: 63391--63879 Score: 714
Period size: 183 Copynumber: 2.7 Consensus size: 183
63381 TAAGCGTACT
**
63391 TATTAAAGTATCGACACTTTCAATATATTTGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
* ** *
63456 ATTTTGTCATA-TTTTTACCTGTTATATCGTTACGGATCGATACATTTTTATAAAGTATCGACAC
66 GTTTTGTCATATTTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACAC
63520 TTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * *
63573 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACTGGATTTGTCCTTTAGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
*
63638 GTTTTGTCATATTTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGTATCAACAC
66 GTTTTGTCATATTTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACAC
** * * *
63703 TTTATAGGTTCTAAAACTGCTTCTCTTTTAAATTCACAATGTTTCGATACTTA
131 TTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
63756 TATTAAAGTATAGACACTTCCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCA-TGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTT-AGAGACC
* * *
63820 GGTTTTGTCATATTTTTT-CCTGTTATATTGATGTGGATCGTTACATTTTTATAAAGTATC
65 GGTTTTGTCATATTTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATC
63880 GACATAAACC
Statistics
Matches: 272, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
182 104 0.38
183 167 0.61
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
GTTTTGTCATATTTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACAC
TTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:65778 original size:3 final size:3
Alignment explanation
Indices: 65770--66284 Score: 827
Period size: 3 Copynumber: 176.3 Consensus size: 3
65760 TTATTTGAGC
65770 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
65819 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
65866 TCT TCT TCT TCTT TCT TCT T-T TCT TCT TCT TC- TCT TCT TCTT TCT
1 TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT
65911 TC- TCT TC- TCT TCT TCT TCT TCT TCT T-T TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
65956 T-T TCT TC- TCT TCT TCTT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT
66000 TC- TCT TCT TCT TCTT TCT TCT TCT TC- TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
66044 TCT TCT TCT TC- TCT TCT TCT TCT TCT TCT TCT TC- TCT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
66089 TCT TCT TCT T-T T-T TCT TCT TCT TCT TCT TC- TCT TCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
66133 TCT TCT TC- TCT TCT TCT TCT TCTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT
66178 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
66226 TCT TCT TCT TCT TCT T-T TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
66273 TCT TCT T-T TCT T
1 TCT TCT TCT TCT T
66285 TATATGATAG
Statistics
Matches: 485, Mismatches: 2, Indels: 50
0.90 0.00 0.09
Matches are distributed among these distances:
2 40 0.08
3 427 0.88
4 18 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:69479 original size:43 final size:48
Alignment explanation
Indices: 69427--69531 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 48
69417 ATAACTAATG
*
69427 AATAAAATAATAATAAATT-AAA-CATGTCTTAA-C-T-C-TAATTCCT
1 AATAAAATAATAAT-AATTAAAATAATGTCTTAATCATACTTAATTCCT
*
69470 AATAAAATAATAATAATTAAAATAATGTTTTAATTCATACTTAATTCCT
1 AATAAAATAATAATAATTAAAATAATGTCTTAA-TCATACTTAATTCCT
69519 AATAAAATAATAA
1 AATAAAATAATAA
69532 ATATAATCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 4 0.08
43 17 0.32
44 8 0.15
46 1 0.02
47 1 0.02
48 1 0.02
49 21 0.40
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (48 bp):
AATAAAATAATAATAATTAAAATAATGTCTTAATCATACTTAATTCCT
Done.