Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008303.1 Hibiscus syriacus cultivar Beakdansim tig00110989_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: 1196166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:699733 original size:23 final size:23
Alignment explanation
Indices: 699699--699743 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
699689 TCGGGACAAA
*
699699 TATGTGGAACTTCGGTACAACCC
1 TATGTGGAACTTCAGTACAACCC
*
699722 TATGT-GACACTTCAGTGCAACC
1 TATGTGGA-ACTTCAGTACAACC
699744 TATATGGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
TATGTGGAACTTCAGTACAACCC
Found at i:700617 original size:5 final size:5
Alignment explanation
Indices: 700609--700658 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
700599 TATTATATTG
* * *
700609 TTTTA TTTTA TTTTA TTTTA TTTTA TCTCA TTCTAA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTT
700659 TGTCTTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:710459 original size:103 final size:101
Alignment explanation
Indices: 710241--710479 Score: 257
Period size: 103 Copynumber: 2.3 Consensus size: 101
710231 CAGTTTTCCC
** * * **
710241 CAAAATTTGAAATTATTTCACTTGAAACAAAATTGATCTCGCTTGAGATAGTTTTTCTAAAAATT
1 CAAAATTTGAAATTA-TTCACTTGAAACAAAATTGATAACACTTGAGATAGTTTGTCTAAAAACA
* *
710306 AATTTCGTCTCTCTTGAGAAAGTTTTTCCTCAAAACA
65 AATTTCATCTCTCTTGAGAAAGTTTTCCCTCAAAACA
* *
710343 CAAAAATTGGAAATTAATTCACTTGAAACAAAATTGATAACATTTGAGATAGTTTGTCTTAAAAA
1 C-AAAATTTGAAATT-ATTCACTTGAAACAAAATTGATAACACTTGAGATAGTTTGTC-TAAAAA
* * ** *
710408 CAAATTTCATCTCGT-TTGTGACAGTTTTCCCTTGAAACG
63 CAAATTTCATCTC-TCTTGAGAAAGTTTTCCCTCAAAACA
* *
710447 CAAATTTTGAAATGT-TTCACTTGAAACAGAATT
1 CAAAATTTGAAAT-TATTCACTTGAAACAAAATT
710480 TTATCTCACC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
102 18 0.16
103 58 0.51
104 37 0.32
105 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (101 bp):
CAAAATTTGAAATTATTCACTTGAAACAAAATTGATAACACTTGAGATAGTTTGTCTAAAAACAA
ATTTCATCTCTCTTGAGAAAGTTTTCCCTCAAAACA
Found at i:711049 original size:122 final size:121
Alignment explanation
Indices: 710821--711231 Score: 382
Period size: 122 Copynumber: 3.4 Consensus size: 121
710811 ATGTTGTCTC
* * * * * **
710821 CAAATTATCTCCAGATTGACCCGATTTCCTTAACAAGAAGGAACATCATCTTCTTCAGTAAACAA
1 CAAATTATCTCCAGATTGACCCGATTTTCTCAACAAGAAGGAACAACATCATCTCCAACAAACAA
** * * *** * *
710886 TTTACCTGAAAATGACTAGCA-CTCTTCAACACATATTAGCAGAGTCATCTTCAACA
66 TTTATATGAAAATGGCCAG-ATCTCTTCAACATGGATGAGCAGAGTCGTCTTCAACA
* ** * * * *
710942 CAGTATTATCTCTGGATTGACCTGATTTTCTCAACGAGAAGGAATAACGTCATCTCCAACAAACA
1 CA-AATTATCTCCAGATTGACCCGATTTTCTCAACAAGAAGGAACAACATCATCTCCAACAAACA
* * *
711007 ATTTATCT-AAAA-GCGACCAGATCTCTTC-ACTATGGATGAGCAGAATTGTCTTCAACA
65 ATTTATATGAAAATG-G-CCAGATCTCTTCAAC-ATGGATGAGCAGAGTCGTCTTCAACA
* * * *
711064 CCAAATTATCTCCATATTGACCCGATTTTCTCAACAAGAAGGAACATCATCATCTTCAACAAATA
1 -CAAATTATCTCCAGATTGACCCGATTTTCTCAACAAGAAGGAACAACATCATCTCCAACAAACA
711129 ATTTATATGAAAATGGCCAGATCTCTTCAACATGGATGAGCA-ATGTCGTCTTCAACA
65 ATTTATATGAAAATGGCCAGATCTCTTCAACATGGATGAGCAGA-GTCGTCTTCAACA
* * * ** * *
711186 CCAAATTATATTCAGATTTACCCGAAGTCCTCAACATGAAGGAACA
1 -CAAATTATCTCCAGATTGACCCGATTTTCTCAACAAGAAGGAACA
711232 GTGTCATCTT
Statistics
Matches: 234, Mismatches: 46, Indels: 19
0.78 0.15 0.06
Matches are distributed among these distances:
120 1 0.00
121 10 0.04
122 213 0.91
123 9 0.04
124 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (121 bp):
CAAATTATCTCCAGATTGACCCGATTTTCTCAACAAGAAGGAACAACATCATCTCCAACAAACAA
TTTATATGAAAATGGCCAGATCTCTTCAACATGGATGAGCAGAGTCGTCTTCAACA
Found at i:712414 original size:29 final size:29
Alignment explanation
Indices: 712368--712424 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
712358 TTAACTACTA
712368 ACTTTTATTTTATCGCATAT-TAACCATTG
1 ACTTTTATTTTATCGCAT-TCTAACCATTG
* *
712397 ACTTTTATTTTCTTGCATTCTAACCATT
1 ACTTTTATTTTATCGCATTCTAACCATT
712425 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (29 bp):
ACTTTTATTTTATCGCATTCTAACCATTG
Found at i:712674 original size:16 final size:16
Alignment explanation
Indices: 712634--712676 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
712624 TGTTAACCAT
* *
712634 TAACCGCTAACTTTTC
1 TAACAGCTAACATTTC
*
712650 TAAGAGCTAACATTTC
1 TAACAGCTAACATTTC
*
712666 TAACTGCTAAC
1 TAACAGCTAAC
712677 CATTAACTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (16 bp):
TAACAGCTAACATTTC
Found at i:713504 original size:2 final size:2
Alignment explanation
Indices: 713497--713547 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
713487 TTTGTCTTTG
713497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
713539 AT AT AT AT A
1 AT AT AT AT A
713548 AGGCAATATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:717153 original size:29 final size:29
Alignment explanation
Indices: 717121--717179 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
717111 AAAGTCACTG
*
717121 ACGAGATTAATTTCTATTTAAATTATAAA
1 ACGAGATTAATCTCTATTTAAATTATAAA
*
717150 ACGATATTAATCTCTATTTAAATTATAAA
1 ACGAGATTAATCTCTATTTAAATTATAAA
717179 A
1 A
717180 TAGGTAGACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
ACGAGATTAATCTCTATTTAAATTATAAA
Found at i:723263 original size:23 final size:21
Alignment explanation
Indices: 723236--723286 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 21
723226 TAAAAATTAT
*
723236 GTTAATAGTAATAATAATTAATA
1 GTTAATAG--ATAATAAATAATA
723259 GTTAAT-GATAATAAATAATA
1 GTTAATAGATAATAAATAATA
723279 GTATAATA
1 GT-TAATA
723287 CTAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 14 0.56
21 4 0.16
22 1 0.04
23 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
GTTAATAGATAATAAATAATA
Found at i:723269 original size:17 final size:16
Alignment explanation
Indices: 723237--723275 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
723227 AAAAATTATG
723237 TTAATAGTAATAATAA
1 TTAATAGTAATAATAA
*
723253 TTAATAGTTAATGATAA
1 TTAATAG-TAATAATAA
*
723270 TAAATA
1 TTAATA
723276 ATAGTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (16 bp):
TTAATAGTAATAATAA
Found at i:723271 original size:20 final size:21
Alignment explanation
Indices: 723246--723285 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
723236 GTTAATAGTA
*
723246 ATAATAATTAATAGT-TAATG
1 ATAATAAATAATAGTATAATG
723266 ATAATAAATAATAGTATAAT
1 ATAATAAATAATAGTATAAT
723286 ACTAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAATAAATAATAGTATAATG
Found at i:724954 original size:39 final size:40
Alignment explanation
Indices: 724906--725016 Score: 115
Period size: 39 Copynumber: 2.9 Consensus size: 40
724896 TTTAAAAACT
*
724906 AATTTAGAATGTTA-ACGTGAAATAATTTAATAAATTA-A
1 AATTTAGAATGTTAGACGTGAAATAATTTAAGAAATTAGA
* * *
724944 AATTTCAGAATTTTATGGCG-GCAA-AATTTAAGAAATTAGA
1 AATTT-AGAATGTTA-GACGTGAAATAATTTAAGAAATTAGA
* *
724984 AAATTAGAATGTTAGA-GTGAAATAATTTGAGAA
1 AATTTAGAATGTTAGACGTGAAATAATTTAAGAA
725017 TTATTAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.02
38 9 0.16
39 38 0.66
40 8 0.14
41 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (40 bp):
AATTTAGAATGTTAGACGTGAAATAATTTAAGAAATTAGA
Found at i:730919 original size:15 final size:15
Alignment explanation
Indices: 730901--730957 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 15
730891 ATAAACATAT
730901 ATATTATAATTTATA
1 ATATTATAATTTATA
*
730916 ATATTAT-A-TAATA
1 ATATTATAATTTATA
730929 ATATTATATATATTATA
1 ATATTATA-AT-TTATA
730946 AT-TTATAATTTA
1 ATATTATAATTTA
730958 AGCAGATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 11 0.31
14 4 0.11
15 10 0.28
16 5 0.14
17 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATAATTTATA
Found at i:730929 original size:20 final size:22
Alignment explanation
Indices: 730900--730945 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
730890 AATAAACATA
*
730900 TATATTATAAT-TTATA-ATAT
1 TATATAATAATATTATATATAT
730920 TATATAATAATATTATATATAT
1 TATATAATAATATTATATATAT
730942 TATA
1 TATA
730946 ATTTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATAATAATATTATATATAT
Found at i:730946 original size:20 final size:19
Alignment explanation
Indices: 730897--730954 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
730887 GTAAATAAAC
*
730897 ATATATATTATAATTTATA
1 ATATATATTATAATATATA
*
730916 ATAT-TA-TATAATAATATT
1 ATATATATTATAAT-ATATA
*
730934 ATATATATTATAATTTATA
1 ATATATATTATAATATATA
730953 AT
1 AT
730955 TTAAGCAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.19
18 9 0.28
19 11 0.34
20 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATATATTATAATATATA
Found at i:731180 original size:83 final size:83
Alignment explanation
Indices: 730982--731558 Score: 618
Period size: 83 Copynumber: 7.0 Consensus size: 83
730972 AGTGTCTTCA
* **** ** *
730982 ATGTCATAGTGTTCAATCCCATCCAAAATGAAAGATATGTTATAAGGGAAGCATTTTCCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
731047 ATTCAGAGAATCTCT-TC
66 ATTCAGAGAATCTCTGTC
* * * * *
731064 ATGTCATAGTGTTTAATCCCATCTGAAATGAAAGGCGCGTTCCATGGGAAACATTTTCCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
* * *
731129 ATTTAGAGAAACTCTATC
66 ATTCAGAGAATCTCTGTC
* * *
731147 ATGTCATAGTGTTCAATCCCATCCGAAAAGAAAGGCGCGTTCTAAGAGAAGCGTTTTCCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
*
731212 ATTCAGAGAATCTTTGTC
66 ATTCAGAGAATCTCTGTC
* * * * * * *
731230 ATGTCATAATGTTCAATCCTATCCCAAATGAAAGGGGCGTTCCAGGGGATGCGTTTTTCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
*
731295 ATTCAGAGAATCTCTGTT
66 ATTCAGAGAATCTCTGTC
* * * * ** * * **
731313 ATGTCATAGTGTTCTATCCCATTCGAAATGAAAAGTGTATTCTAGGGGAAGCACTTTCCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
* * *
731378 ATTCAAAGAATCTTTGCC
66 ATTCAGAGAATCTCTGTC
* * * * * *
731396 ATTTTATAGTGTTCAATCCCATCCGAAATTAAAGGCGCGTTCCAATGGAAGTGTTGTCCATTATT
1 ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
* * * * *
731461 ATTCACATAATATATATC
66 ATTCAGAGAATCTCTGTC
* * * * *
731479 ACGTCATAGTATTTC-ATCCCATCCAAAATGAAAGTCACGTTCCAAGGGAAGCGTTTTCCATTAT
1 ATGTCATAGT-GTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTAT
731543 TATTCAGAGAATCTCT
65 TATTCAGAGAATCTCT
731559 TCCATTTCAC
Statistics
Matches: 401, Mismatches: 92, Indels: 3
0.81 0.19 0.01
Matches are distributed among these distances:
82 67 0.17
83 331 0.83
84 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (83 bp):
ATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGCGCGTTCCAAGGGAAGCGTTTTCCATTATT
ATTCAGAGAATCTCTGTC
Found at i:735315 original size:2 final size:2
Alignment explanation
Indices: 735302--735346 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
735292 CTTTTAAAAC
*
735302 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
735344 AT A
1 AT A
735347 CCCCCATCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:735569 original size:24 final size:24
Alignment explanation
Indices: 735542--735617 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
735532 TATATCAAAA
735542 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* * *
735566 ATCATATCAAACTCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
735590 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
735614 ATCA
1 ATCA
735618 GATCAGAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:735618 original size:24 final size:24
Alignment explanation
Indices: 735559--735674 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
735549 CATAAATCAG
* *
735559 GTCAAGTATCATATCA-AACTCCAG
1 GTCAAGTATCAGATCAGAA-TCCAT
*
735583 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
735607 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
*
735631 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
735655 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
735675 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 2 0.02
24 76 0.93
25 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:736048 original size:34 final size:32
Alignment explanation
Indices: 735986--736055 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
735976 ACCTTACAAC
*
735986 TCCCTAGTTTTTCCGGACTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGACTAAACTAGAACCTT
* *
736018 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGACTAAACTAGAACCTT
736052 TCCC
1 TCCC
736056 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGACTAAACTAGAACCTT
Found at i:736364 original size:21 final size:21
Alignment explanation
Indices: 736338--736379 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
736328 CCAGAATAGG
*
736338 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
736359 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
736380 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:736492 original size:19 final size:19
Alignment explanation
Indices: 736464--736549 Score: 127
Period size: 19 Copynumber: 4.5 Consensus size: 19
736454 GAGCCTCGGG
* *
736464 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAATAGTAAT
*
736483 TTACTATTCAAATAGTAAT
1 TTACTGTTCAAATAGTAAT
736502 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAATAGTAAT
*
736521 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAATAGTAAT
*
736540 TTACTATTCA
1 TTACTGTTCA
736550 TAAAAACATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (19 bp):
TTACTGTTCAAATAGTAAT
Found at i:736646 original size:29 final size:31
Alignment explanation
Indices: 736614--736673 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
736604 AAATTTTGAA
*
736614 TAAATTCAATT-AAGTCCAAACA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
736643 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
736674 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:737574 original size:26 final size:26
Alignment explanation
Indices: 737545--737597 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
737535 TCAGTTTTAT
*
737545 TCCATTCATTTCAGAGCTCGAGGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
* * *
737571 TCCAATCATTTCTGAGCTTGATGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
737597 T
1 T
737598 TCTTGGATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (26 bp):
TCCAATCATTTCAGAGCTCGAGGATA
Found at i:739031 original size:7 final size:8
Alignment explanation
Indices: 739013--739047 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
739003 GCCGATCAAT
739013 GGTCAACG
1 GGTCAACG
739021 GGTCAAC-
1 GGTCAACG
739028 GGTCAACG
1 GGTCAACG
*
739036 GGTCAACA
1 GGTCAACG
739044 GGTC
1 GGTC
739048 GGGTCGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:739031 original size:15 final size:15
Alignment explanation
Indices: 739008--739047 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
738998 TCAACGCCGA
*
739008 TCAATGGTCAACGGG
1 TCAACGGTCAACGGG
739023 TCAACGGTCAACGGG
1 TCAACGGTCAACGGG
739038 TCAACAGGTC
1 TCAAC-GGTC
739048 GGGTCGGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.17
Consensus pattern (15 bp):
TCAACGGTCAACGGG
Found at i:740440 original size:19 final size:19
Alignment explanation
Indices: 740384--740440 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
740374 TAATTTTTAA
*
740384 AAAAATATTTTCTAAAAAT
1 AAAAATATTTTCTAAAACT
*****
740403 AAAAATAGGAAATAAAAACT
1 AAAAATATTTTCT-AAAACT
740423 AAAAATATTTTCTAAAAC
1 AAAAATATTTTCTAAAAC
740441 AAATTGACCC
Statistics
Matches: 26, Mismatches: 11, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATATTTTCTAAAACT
Found at i:749168 original size:23 final size:23
Alignment explanation
Indices: 749118--749168 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
749108 TCCTTCTTTT
749118 TGTTTTTTTCTTAAATATTTATA
1 TGTTTTTTTCTTAAATATTTATA
*
749141 T-TTTTTGTTC-TAATTATTT-TA
1 TGTTTTT-TTCTTAAATATTTATA
749162 CTGTTTT
1 -TGTTTT
749169 CAATCAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (23 bp):
TGTTTTTTTCTTAAATATTTATA
Found at i:750706 original size:36 final size:37
Alignment explanation
Indices: 750666--750739 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 37
750656 ATCAACCTTA
*
750666 AATTTTGAAT-GGGTACTAAAATGAAATAAAAACTAC
1 AATTTTGAATGGGGTACTAAAATGAAACAAAAACTAC
* *
750702 AATTTTTAATGGAGGGTACTAAAATGAAACAGAAACTA
1 AATTTTGAAT-G-GGGTACTAAAATGAAACAAAAACTA
750740 AACTTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.28
39 23 0.72
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (37 bp):
AATTTTGAATGGGGTACTAAAATGAAACAAAAACTAC
Found at i:759699 original size:2 final size:2
Alignment explanation
Indices: 759688--759716 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
759678 AATAGATCAA
759688 AT AT -T 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
759717 TTGAACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:765265 original size:15 final size:15
Alignment explanation
Indices: 765245--765275 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
765235 ATGCAGATAC
765245 AAAATGGGGTTTCAA
1 AAAATGGGGTTTCAA
765260 AAAATGGGGTTTCAA
1 AAAATGGGGTTTCAA
765275 A
1 A
765276 TTAACTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (15 bp):
AAAATGGGGTTTCAA
Found at i:766293 original size:2 final size:2
Alignment explanation
Indices: 766288--766328 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
766278 GCACACAAAC
766288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
766329 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:766333 original size:2 final size:2
Alignment explanation
Indices: 766328--766361 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
766318 ATATATATAT
766328 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
766362 GGACGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:768436 original size:54 final size:56
Alignment explanation
Indices: 768372--768476 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 56
768362 ATTTTATATT
768372 ATTACAATTTATCATAGTTTCCCTTT-ATATTA-TTATAAATAATTAGTTTCTATC
1 ATTACAATTTATCATAGTTTCCCTTTAATATTATTTATAAATAATTAGTTTCTATC
*
768426 ATTATAATTTATCATAGTTTCCCTTTAATATTATTTATAAATAATTAGTTT
1 ATTACAATTTATCATAGTTTCCCTTTAATATTATTTATAAATAATTAGTTT
768477 TGACAATACT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 25 0.52
55 6 0.12
56 17 0.35
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (56 bp):
ATTACAATTTATCATAGTTTCCCTTTAATATTATTTATAAATAATTAGTTTCTATC
Found at i:768459 original size:29 final size:29
Alignment explanation
Indices: 768371--768459 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
768361 CATTTTATAT
*
768371 TATTACAATTTATCATAGTTTCCCTTTATA
1 TATTATAATTTATCATAGTTTCCCTTTA-A
* *
768401 TTATTATAAATAAT--TAGTTT--C--T-A
1 -TATTATAATTTATCATAGTTTCCCTTTAA
768424 TCATTATAATTTATCATAGTTTCCCTTTAA
1 T-ATTATAATTTATCATAGTTTCCCTTTAA
768454 TATTAT
1 TATTAT
768460 TTATAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
22 1 0.02
23 11 0.24
25 7 0.16
27 2 0.04
29 12 0.27
30 2 0.04
31 10 0.22
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (29 bp):
TATTATAATTTATCATAGTTTCCCTTTAA
Found at i:768830 original size:14 final size:14
Alignment explanation
Indices: 768813--768839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
768803 TTTAAATAAA
768813 TAATTTTTAAAATT
1 TAATTTTTAAAATT
768827 TAATTTTTAAAAT
1 TAATTTTTAAAAT
768840 ATTTGATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTTTTAAAATT
Found at i:769157 original size:21 final size:21
Alignment explanation
Indices: 769128--769180 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
769118 ATTCTGACTA
769128 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
769149 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
769170 TCGCAATGCGA
1 TCGCATTGCGA
769181 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:769322 original size:20 final size:20
Alignment explanation
Indices: 769170--769315 Score: 274
Period size: 20 Copynumber: 7.3 Consensus size: 20
769160 TTTTCCTAAT
769170 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
769190 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
769210 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
769230 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
769250 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
769270 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
769290 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
769310 TCGCAA
1 TCGCAA
769316 CTCGAATCTG
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 122 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:769333 original size:60 final size:60
Alignment explanation
Indices: 769170--769340 Score: 228
Period size: 60 Copynumber: 2.9 Consensus size: 60
769160 TTTTCCTAAT
769170 TCGCAATGCGAATACGTAAATCGCAATGCG-AT-T-ACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGAC-T--ATCGCAATGCGAATACGTAAA
*
769230 TCGCAATGCGAATACGTAAATCGCAATGCGAATAC-GTA-AATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTG-ACTATCGCAATGCGAATACGTAAA
*
769290 TCGTAATGCGAATACGTAAATCGCAACT-CGAATCTGACTATCGCAATGCGA
1 TCGCAATGCGAATACGTAAATCGCAA-TGCGAATCTGACTATCGCAATGCGA
769341 TTTACATAGC
Statistics
Matches: 100, Mismatches: 3, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
59 2 0.02
60 94 0.94
61 3 0.03
64 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTATCGCAATGCGAATACGTAAA
Found at i:769542 original size:22 final size:22
Alignment explanation
Indices: 769517--769582 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
769507 GGCGACATCC
*
769517 GTCCCCATCTCCTACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
769539 GTCCCCATCTCCGAGGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
769561 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
769583 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:769935 original size:19 final size:20
Alignment explanation
Indices: 769911--769961 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
769901 GCGATTCTGT
769911 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
**
769930 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
769950 TGTTGCGATTTT
1 CGTTGCGATTTT
769962 AAGTTTCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:771937 original size:20 final size:20
Alignment explanation
Indices: 771912--772016 Score: 174
Period size: 20 Copynumber: 5.2 Consensus size: 20
771902 AACAAAATAT
771912 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
771932 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
771952 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
*
771972 CAATGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
* **
771992 CAATGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
772012 CAACG
1 CAACG
772017 AAAGAATCGC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:772086 original size:20 final size:20
Alignment explanation
Indices: 772059--772127 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
772049 GTGATTCTCT
**
772059 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
772079 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
772099 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
772119 CGTTGCGAT
1 CGTTGCGAT
772128 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:772137 original size:20 final size:20
Alignment explanation
Indices: 772059--772137 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
772049 GTGATTCTCT
*
772059 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
772079 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
772099 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
772119 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
772138 AGATTCTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:774120 original size:14 final size:14
Alignment explanation
Indices: 774101--774136 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
774091 ATTGTTTAAT
774101 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
774115 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
774129 TGATTTGT
1 TGATTTGT
774137 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:774299 original size:33 final size:34
Alignment explanation
Indices: 774242--774315 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
774232 AAAACAGACT
** *
774242 ATCGCAATGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAGA
*
774276 ATCGCAATGC-GAAATGAAAATCGCAACAAGTGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAGA
774309 ATCGCAA
1 ATCGCAA
774316 CGAGTGAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAGA
Found at i:774424 original size:33 final size:33
Alignment explanation
Indices: 774366--774451 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 33
774356 TTTAGTTTCG
*
774366 CGTTACGATTTTCATTTTTCGCATTGCAATTCTCT
1 CGTTGCGATTTTCA--TTTCGCATTGCAATTCTCT
*
774401 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCAATTCTCT
**
774434 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
774452 CGCGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
33 34 0.72
35 13 0.28
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCAATTCTCT
Found at i:774459 original size:20 final size:20
Alignment explanation
Indices: 774434--774522 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
774424 GCGATTCTCT
774434 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
774454 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
774474 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
774494 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
774514 CGTTGCGAT
1 CGTTGCGAT
774523 TTTCGCGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:774529 original size:14 final size:14
Alignment explanation
Indices: 774510--774536 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
774500 GATAGTCATA
774510 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
774524 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
774537 AGTCAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:777875 original size:20 final size:20
Alignment explanation
Indices: 777850--777916 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
777840 AAATGCAGTA
777850 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
*
777870 TTGCGATAATCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
777890 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
777910 TTGCGAT
1 TTGCGAT
777917 TTACGTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:777926 original size:20 final size:20
Alignment explanation
Indices: 777903--777996 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
777893 CGATAGTCAG
*
777903 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
777923 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
777943 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
777964 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
777984 ATTCGCATTGCGA
1 ATTCGCATTGCGA
777997 ATTTGGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:778017 original size:41 final size:41
Alignment explanation
Indices: 777931--778018 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
777921 GTATTCGCAT
* * * **
777931 TGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCGCGT
1 TGCGATTTACGTAATCGCATTGCGAATTTCCAAAATCACAA
* **
777972 TGCGATTTACGTATTCGCATTGCGAATTTGGAAAATCACAA
1 TGCGATTTACGTAATCGCATTGCGAATTTCCAAAATCACAA
778013 TGCGAT
1 TGCGAT
778019 AGTCAGAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (41 bp):
TGCGATTTACGTAATCGCATTGCGAATTTCCAAAATCACAA
Found at i:778035 original size:61 final size:60
Alignment explanation
Indices: 777891--778037 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 60
777881 AGAATCTCGT
* * * *
777891 TGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCAT
1 TGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAAATCACAA
** *
777951 TGCGATTTTCCA-AATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTT-GGAAAATCACAA
1 TGCGATAGT-CAGAA-TCGCGTTGCGATTTACGTATTCGCATTGCG-ATTTACG-AAATCACAA
*
778013 TGCGATAGTCAGAATCGAGTTGCGA
1 TGCGATAGTCAGAATCGCGTTGCGA
778038 ATCTGGAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
60 8 0.11
61 45 0.62
62 19 0.26
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (60 bp):
TGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAAATCACAA
Found at i:779452 original size:20 final size:20
Alignment explanation
Indices: 779405--779459 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
779395 TCGATTTTGT
*
779405 TGGTTTTCAGCCGGTTTATCC
1 TGGTTTTCAGTCGGTTTA-CC
*
779426 CGGTTTTCAGTCGGTTCTA-C
1 TGGTTTTCAGTCGGTT-TACC
779446 TGGTTTTCAGTCGG
1 TGGTTTTCAGTCGG
779460 CTCATTGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.09, C:0.22, G:0.27, T:0.42
Consensus pattern (20 bp):
TGGTTTTCAGTCGGTTTACC
Found at i:782156 original size:22 final size:24
Alignment explanation
Indices: 782109--782156 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
782099 GAACAGCTCG
* *
782109 AAAATATAATATATTAATATTTTT
1 AAAATATAATATATTAATAATATT
782133 AAAATA-AAT-TATTAATAATATT
1 AAAATATAATATATTAATAATATT
782155 AA
1 AA
782157 CATTTATGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 3 0.14
24 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATATAATATATTAATAATATT
Found at i:782751 original size:23 final size:22
Alignment explanation
Indices: 782704--782775 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
782694 TTTTAATCAA
* *
782704 AATAT-TAATTATTAAAATATTT
1 AATATATATTTATTAATAT-TTT
782726 AATATATATTTATTAATATTTCT
1 AATATATATTTATTAATATTT-T
*
782749 AATA-ATATAATATT-ATATTTTT
1 AATATATAT-TTATTAATA-TTTT
782771 AATAT
1 AATAT
782776 TATAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATATATTTATTAATATTTT
Found at i:782765 original size:8 final size:8
Alignment explanation
Indices: 782704--782811 Score: 61
Period size: 8 Copynumber: 14.2 Consensus size: 8
782694 TTTTAATCAA
782704 AATATTA-
1 AATATTAT
* *
782711 ATTATTAA
1 AATATTAT
782719 AATATT-T
1 AATATTAT
782726 AATA-TAT
1 AATATTAT
782733 -AT-TTATT
1 AATATTA-T
*
782740 AATATTTCT
1 AATA-TTAT
*
782749 AATAATAT
1 AATATTAT
782757 AATATTAT
1 AATATTAT
*
782765 -AT-TTTT
1 AATATTAT
782771 AATATTAT
1 AATATTAT
*
782779 AATAATAT
1 AATATTAT
*
782787 AAGA-TAT
1 AATATTAT
*
782794 TATATTAT
1 AATATTAT
*
782802 AATAATAT
1 AATATTAT
782810 AA
1 AA
782812 GATATTATAT
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
6 8 0.11
7 21 0.28
8 40 0.53
9 5 0.07
10 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (8 bp):
AATATTAT
Found at i:782766 original size:22 final size:22
Alignment explanation
Indices: 782736--782787 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
782726 AATATATATT
782736 TATTAATATTTCTAATAATATAA
1 TATT-ATATTTCTAATAATATAA
* *
782759 TATTATATTTTTAATATTATAA
1 TATTATATTTCTAATAATATAA
*
782781 TAATATA
1 TATTATA
782788 AGATATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTATATTTCTAATAATATAA
Found at i:782794 original size:32 final size:32
Alignment explanation
Indices: 782725--782809 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
782715 TTAAAATATT
*
782725 TAATA-TATATTTATTAATATTTCTAATAATA
1 TAATATTATATTTATTAATATTTATAATAATA
782756 TAATATTATATTT-TTAATA-TTATAATAATA
1 TAATATTATATTTATTAATATTTATAATAATA
*
782786 TAAGATATTATATTATAATAATAT
1 T-A-ATATTATATT-TATTAATAT
782810 AAGATATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
30 11 0.24
31 12 0.26
32 17 0.37
33 1 0.02
34 5 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
TAATATTATATTTATTAATATTTATAATAATA
Found at i:782802 original size:23 final size:23
Alignment explanation
Indices: 782772--782822 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
782762 TATATTTTTA
782772 ATATTATAATAATATAAGATATT
1 ATATTATAATAATATAAGATATT
782795 ATATTATAATAATATAAGATATT
1 ATATTATAATAATATAAGATATT
782818 ATATT
1 ATATT
782823 TTTATTTTAA
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:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
ATATTATAATAATATAAGATATT
Found at i:782923 original size:19 final size:18
Alignment explanation
Indices: 782899--782967 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
782889 ATATTATTAA
782899 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
782918 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
782936 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
782958 ATT-TTAATAA
1 ATTATTAATAA
782968 ATATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:782942 original size:27 final size:27
Alignment explanation
Indices: 782862--782947 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
782852 AATAAAATTT
* *
782862 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
782889 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
782916 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
782945 ATA
1 ATA
782948 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:782981 original size:23 final size:23
Alignment explanation
Indices: 782934--783006 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
782924 TATATATTTA
*
782934 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
782958 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
782981 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
783004 ATA
1 ATA
783007 ATATAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 29 0.69
24 13 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:783028 original size:35 final size:35
Alignment explanation
Indices: 782950--783015 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
782940 ATATAATAAT
*
782950 CTAA-TAATATTTTAATAAATATATTTAAAATATA
1 CTAATTAATATTTTAATAAATATATATAAAATATA
*
782984 CTAATTAATATTTTTA-AAATATAATATAAAAT
1 CTAATTAATATTTTAATAAATAT-ATATAAAAT
783016 TATTAGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (35 bp):
CTAATTAATATTTTAATAAATATATATAAAATATA
Found at i:783060 original size:85 final size:88
Alignment explanation
Indices: 782958--783147 Score: 203
Period size: 91 Copynumber: 2.2 Consensus size: 88
782948 ATCTAATAAT
* * * * *
782958 ATTTTAATAAATATA-TT-TAAAATATA-CTA-ATTAATATTTTTA-AAATATAA-TATAAAATT
1 ATTTTAATAATTTTATTTATAAAATATACCAATATTAATATTTTTATAAATAAAATTATAAAAAT
* *
783017 ATTAGTTTAATAAATAATTAATATA
66 AATA-TTTAATAAATAAATAA-ATA
* *
783042 ATTTATAATATTTTTATTTCAATAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAA
1 ATTT-TAATAATTTTATTT--ATAAAATATACCAATATTAATATTTTTATAAATAAAATTATAAA
*
783107 AATAATATTTAATTAATAAATAAATA
63 AATAATATTTAATAAATAAATAAATA
783133 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
783148 AAATAATAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
84 4 0.05
85 8 0.09
86 2 0.02
89 9 0.10
90 12 0.14
91 20 0.23
92 20 0.23
93 11 0.13
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (88 bp):
ATTTTAATAATTTTATTTATAAAATATACCAATATTAATATTTTTATAAATAAAATTATAAAAAT
AATATTTAATAAATAAATAAATA
Found at i:783346 original size:14 final size:14
Alignment explanation
Indices: 783312--783346 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
783302 AAAAGTAATT
*
783312 CATTTTATGAAAAA
1 CATTTTCTGAAAAA
783326 CATTTTCTGAAAAA
1 CATTTTCTGAAAAA
*
783340 CGTTTTC
1 CATTTTC
783347 CAGAAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (14 bp):
CATTTTCTGAAAAA
Found at i:783375 original size:14 final size:14
Alignment explanation
Indices: 783356--783414 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
783346 CCAGAAATGT
*
783356 AATTCATTTTCCAG
1 AATTCAATTTCCAG
*
783370 AATTCAAATTCCAG
1 AATTCAATTTCCAG
* *
783384 TAATTCATTTTCCAA
1 -AATTCAATTTCCAG
783399 AATTCAATTTCCAG
1 AATTCAATTTCCAG
783413 AA
1 AA
783415 AACCAATTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
14 26 0.70
15 11 0.30
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:783379 original size:20 final size:20
Alignment explanation
Indices: 783342--783380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
783332 CTGAAAAACG
**
783342 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
783362 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
783381 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:783396 original size:29 final size:29
Alignment explanation
Indices: 783354--783412 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
783344 TTCCAGAAAT
*
783354 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAAAATTCAAATTCCA
*
783383 GTAATTCATTTTCCAAAATTCAATTTCCA
1 GTAATTCATTTTCCAAAATTCAAATTCCA
783412 G
1 G
783413 AAAACCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (29 bp):
GTAATTCATTTTCCAAAATTCAAATTCCA
Found at i:784417 original size:21 final size:21
Alignment explanation
Indices: 784368--784431 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
784358 TTTGAAAATT
* *
784368 TTGTCCCAAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
* *
784389 TATGTCCCGAAGGACTTATGAG
1 T-TGTCCCGAAGGACCTATGAA
784411 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
784432 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:788051 original size:18 final size:18
Alignment explanation
Indices: 788024--788076 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
788014 ACTGAATATT
* **
788024 TGTCCTGAAGGACTTCTA
1 TGTCCCGAAGGACCACTA
*
788042 TGTCCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
788060 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
788077 GTATATCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:788340 original size:2 final size:2
Alignment explanation
Indices: 788333--788374 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
788323 ACTATATCCA
788333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
788375 GGATGCATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:791656 original size:29 final size:30
Alignment explanation
Indices: 791600--791662 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
791590 ATTTCATTCT
*
791600 AATATATTGACTCAATTTTATAAAAATA-A
1 AATATATTAACTCAATTTTATAAAAATATA
* *
791629 AATATATTAACTGAATTTTCA-AATAATATA
1 AATATATTAACTCAATTTT-ATAAAAATATA
791659 AATA
1 AATA
791663 CATATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (30 bp):
AATATATTAACTCAATTTTATAAAAATATA
Found at i:793190 original size:25 final size:25
Alignment explanation
Indices: 793161--793214 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
793151 ATATATGTTT
793161 ATATCACTAAAGAAGATGACATGTC
1 ATATCACTAAAGAAGATGACATGTC
* * *
793186 ATATCACTCAAGAGGATGATATGTC
1 ATATCACTAAAGAAGATGACATGTC
793211 ATAT
1 ATAT
793215 GTCATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (25 bp):
ATATCACTAAAGAAGATGACATGTC
Found at i:802574 original size:15 final size:16
Alignment explanation
Indices: 802554--802584 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
802544 AAAAAATAAG
802554 AATTAAATAAA-AAAT
1 AATTAAATAAACAAAT
802569 AATTAAATAAACAAAT
1 AATTAAATAAACAAAT
802585 TAAAGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAAATAAACAAAT
Found at i:805254 original size:11 final size:11
Alignment explanation
Indices: 805238--805283 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
805228 AAAAAATAAA
805238 AAAATAAAACG
1 AAAATAAAACG
805249 AAAATAAAA--
1 AAAATAAAACG
*
805258 AAAATAAAAACA
1 AAAAT-AAAACG
*
805270 AAAATATAACG
1 AAAATAAAACG
805281 AAA
1 AAA
805284 TGGGTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
11 16 0.53
12 5 0.17
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAATAAAACG
Found at i:805259 original size:21 final size:21
Alignment explanation
Indices: 805229--805275 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
805219 AAATTCGCTA
805229 AAAAAT-AAAAAAAT-AAAAC
1 AAAAATAAAAAAAATAAAAAC
*
805248 GAAAATAAAAAAAATAAAAAC
1 AAAAATAAAAAAAATAAAAAC
805269 AAAAATA
1 AAAAATA
805276 TAACGAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAATAAAAAAAATAAAAAC
Found at i:806768 original size:18 final size:17
Alignment explanation
Indices: 806745--806789 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 17
806735 GTTGTGGTTA
806745 AAATAAAAAATAAGAATT
1 AAATAAAAAATAA-AATT
806763 AAAT-AAAAA-AAAATT
1 AAATAAAAAATAAAATT
806778 AAATAAACAAAT
1 AAATAAA-AAAT
806790 TAAAGAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.33
16 4 0.17
17 8 0.33
18 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAATAAAAAATAAAATT
Found at i:807500 original size:75 final size:76
Alignment explanation
Indices: 807433--807596 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 76
807423 AAAAAATAAT
* *
807433 ATAATATTCTAAATCCTAATTAAAATACTA-AAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTATAAACCTATTTAAACTAAAATACAAAGATAAAGAT
807497 AAAATATAAAA
66 AAAATATAAAA
* * *
807508 ATAATATCCTAAAACTTAATTAAAATACTATACATCTATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACTATAAACCTATTTAAACTAAAATACAAAGATAAAGAT
* * *
807572 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
807584 ATATTATCCTAAA
1 ATAATATCCTAAA
807597 TTTGAGTTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 33 0.42
76 45 0.58
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTATAAACCTATTTAAACTAAAATACAAAGATAAAGAT
AAAATATAAAA
Found at i:811957 original size:16 final size:16
Alignment explanation
Indices: 811929--811961 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
811919 CATGTGAGGA
811929 TTATCTTATTTTTATT
1 TTATCTTATTTTTATT
811945 TTAT-TTATCTTTTATT
1 TTATCTTAT-TTTTATT
811961 T
1 T
811962 ATTGTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATCTTATTTTTATT
Found at i:817268 original size:12 final size:12
Alignment explanation
Indices: 817251--817306 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
817241 TTGTCATGCC
817251 ATTCAAACTTCA
1 ATTCAAACTTCA
817263 ATTCAAACTTCA
1 ATTCAAACTTCA
817275 ATTCAAACTTCA
1 ATTCAAACTTCA
817287 ATTC-AACTTC-
1 ATTCAAACTTCA
*
817297 ATTTAAACTT
1 ATTCAAACTT
817307 TGCTCATCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
10 3 0.07
11 11 0.26
12 28 0.67
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTCAAACTTCA
Found at i:825613 original size:7 final size:7
Alignment explanation
Indices: 825601--825729 Score: 64
Period size: 7 Copynumber: 18.4 Consensus size: 7
825591 TAGATTACAA
825601 CCTAAAC
1 CCTAAAC
825608 CCTAAAC
1 CCTAAAC
*
825615 TCTAAAC
1 CCTAAAC
**
825622 TATAAAC
1 CCTAAAC
* *
825629 CTTAAAT
1 CCTAAAC
825636 CCTAAAC
1 CCTAAAC
825643 CCTAAAC
1 CCTAAAC
825650 CCTAATA-
1 CCTAA-AC
*
825657 TCTAAGA-
1 CCTAA-AC
* *
825664 CATAAAT
1 CCTAAAC
*
825671 CATAAAC
1 CCTAAAC
*
825678 CCTAATC
1 CCTAAAC
* *
825685 CTTAAGC
1 CCTAAAC
*
825692 CATAAAC
1 CCTAAAC
*
825699 CCTAAAT
1 CCTAAAC
**
825706 TATAAAC
1 CCTAAAC
* *
825713 CATAAAT
1 CCTAAAC
825720 CCTAAAC
1 CCTAAAC
825727 CCT
1 CCT
825730 TATTTCGATT
Statistics
Matches: 93, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
6 1 0.01
7 91 0.98
8 1 0.01
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:825629 original size:21 final size:21
Alignment explanation
Indices: 825599--825725 Score: 80
Period size: 21 Copynumber: 5.8 Consensus size: 21
825589 GTTAGATTAC
825599 AACC-TAAACCCTAAA-CTCTA
1 AACCATAAACCCTAAATC-CTA
* *
825619 AACTATAAACCTTAAATCCTA
1 AACCATAAACCCTAAATCCTA
*
825640 AACCCTAAACCCTAATATCTAAGACATA
1 AACCATAAACCCTAA-ATC-----C-TA
*
825668 AATCATAAACCCT-AATCCTTA
1 AACCATAAACCCTAAATCC-TA
* **
825689 AGCCATAAACCCTAAATTATA
1 AACCATAAACCCTAAATCCTA
*
825710 AACCATAAATCCTAAA
1 AACCATAAACCCTAAA
825726 CCCTTATTTC
Statistics
Matches: 83, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.04
21 55 0.66
22 7 0.08
26 3 0.04
27 2 0.02
28 13 0.16
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (21 bp):
AACCATAAACCCTAAATCCTA
Found at i:825669 original size:28 final size:28
Alignment explanation
Indices: 825638--825704 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
825628 CCTTAAATCC
*
825638 TAAACCCTAAACCCTAAT-ATCTAAGACA
1 TAAACCCTAAACCCTAATCCT-TAAGACA
* * *
825666 TAAATCATAAACCCTAATCCTTAAGCCA
1 TAAACCCTAAACCCTAATCCTTAAGACA
825694 TAAACCCTAAA
1 TAAACCCTAAA
825705 TTATAAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.22
Consensus pattern (28 bp):
TAAACCCTAAACCCTAATCCTTAAGACA
Found at i:825670 original size:35 final size:35
Alignment explanation
Indices: 825601--825726 Score: 103
Period size: 35 Copynumber: 3.6 Consensus size: 35
825591 TAGATTACAA
* *
825601 CCTAAACCCTAAACTCTAAACTATAAACCTTAAAT
1 CCTAAACCCTAAACCCTAAACTATAAACCATAAAT
*
825636 CCTAAACCCTAAACCCTAATATCTA-AGA-CATAAAT
1 CCTAAACCCTAAACCCTAA-A-CTATAAACCATAAAT
* * * * * *
825671 CATAAACCCTAATCCTTAAGCCATAAACCCTAAAT
1 CCTAAACCCTAAACCCTAAACTATAAACCATAAAT
** * *
825706 TATAAACCATAAATCCTAAAC
1 CCTAAACCCTAAACCCTAAAC
825727 CCTTATTTCG
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
33 2 0.03
34 2 0.03
35 61 0.86
36 3 0.04
37 3 0.04
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.24
Consensus pattern (35 bp):
CCTAAACCCTAAACCCTAAACTATAAACCATAAAT
Found at i:827602 original size:11 final size:11
Alignment explanation
Indices: 827588--827621 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
827578 TTGAGCTTAA
827588 AATCGAGCTTG
1 AATCGAGCTTG
* *
827599 AATCGAGTTTC
1 AATCGAGCTTG
827610 AATCGAGCTTG
1 AATCGAGCTTG
827621 A
1 A
827622 GTATTGAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (11 bp):
AATCGAGCTTG
Found at i:827615 original size:22 final size:23
Alignment explanation
Indices: 827588--827639 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
827578 TTGAGCTTAA
827588 AATCGAGCTTGA-ATCGAGTTTC
1 AATCGAGCTTGAGATCGAGTTTC
*
827610 AATCGAGCTTGAGTATTGAGTTTC
1 AATCGAGCTTGAG-ATCGAGTTTC
827634 AATCGA
1 AATCGA
827640 ATTTTTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 12 0.44
24 15 0.56
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (23 bp):
AATCGAGCTTGAGATCGAGTTTC
Found at i:828317 original size:16 final size:16
Alignment explanation
Indices: 828296--828348 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
828286 ATGGGCATGA
828296 GAACAAGTGTAATCAT
1 GAACAAGTGTAATCAT
828312 GAACAAGTGTAATCAT
1 GAACAAGTGTAATCAT
828328 GAACAAGTGTAATCAT
1 GAACAAGTGTAATCAT
828344 GAACA
1 GAACA
828349 TGTACTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (16 bp):
GAACAAGTGTAATCAT
Found at i:832591 original size:42 final size:42
Alignment explanation
Indices: 832532--832617 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
832522 GAAATGTACA
* *
832532 TACTTACATCGGTGTAAGTACGTGTTAAGTGCTACACTTATT
1 TACTTACACCGGTGTAAGTACGTATTAAGTGCTACACTTATT
* * *
832574 TACTTACACCGTTGTAAGTATGTATTAAGTGCTACACTTTTT
1 TACTTACACCGGTGTAAGTACGTATTAAGTGCTACACTTATT
832616 TA
1 TA
832618 TTTTATTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (42 bp):
TACTTACACCGGTGTAAGTACGTATTAAGTGCTACACTTATT
Found at i:832630 original size:51 final size:51
Alignment explanation
Indices: 832569--832819 Score: 378
Period size: 51 Copynumber: 4.9 Consensus size: 51
832559 AGTGCTACAC
* * *
832569 TTATTTACTTACACCGTTGTAAGTATGTATTAAGTGCTACACTTTTTTATT
1 TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATT
*
832620 TTATTCACTTACACCGGTGT-AGTATGTGTTAAGTGCTACACTTTTTTGTT
1 TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATT
* * *
832670 TTATTTACTTATACCGGTGTAAGTATGTGTTAAGTGCTACACTTGTTTATT
1 TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATT
* * *
832721 TTATTCACTTACAGCGGTGTAAGTATGTGTCAAGTGCTACACTTATTTATT
1 TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATT
* * *
832772 TTATTCACTTACACCGGTGTAAATATGTGTCAAGTGCTACATTTTTTT
1 TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
832820 GTATTATGAA
Statistics
Matches: 182, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 46 0.25
51 136 0.75
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (51 bp):
TTATTCACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATT
Found at i:834523 original size:4 final size:4
Alignment explanation
Indices: 834464--834507 Score: 63
Period size: 4 Copynumber: 11.0 Consensus size: 4
834454 TGATAAAAAC
*
834464 ATAA ATAA A-ATA ATAA ATAA ATAA ATAA CTAA ATAA ATAA ATAA
1 ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
834508 TTTATCATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 1 0.03
4 34 0.94
5 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:836014 original size:95 final size:95
Alignment explanation
Indices: 835851--836046 Score: 347
Period size: 95 Copynumber: 2.1 Consensus size: 95
835841 GTAGGGATCA
* *
835851 AATAAACAAATGAACCCATATGAATTATATAGGTGACCTAGAAAACAAGATTAACTTAATACTCA
1 AATAAACAAATGAACACATAAGAATTATATAGGTGACCTAGAAAACAAGATTAACTTAATACTCA
835916 GCTCTACATATCGATTGCCATCGTAGGTGC
66 GCTCTACATATCGATTGCCATCGTAGGTGC
*
835946 AATAAACAAATGAACACATAAGAATTATATAGGTGACCTAGAAAACAAGATTAACTTAATAGTCA
1 AATAAACAAATGAACACATAAGAATTATATAGGTGACCTAGAAAACAAGATTAACTTAATACTCA
**
836011 GCTCTACATATCGATTTTCATCGTAGGTGC
66 GCTCTACATATCGATTGCCATCGTAGGTGC
836041 AATAAA
1 AATAAA
836047 GAACAACTCA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (95 bp):
AATAAACAAATGAACACATAAGAATTATATAGGTGACCTAGAAAACAAGATTAACTTAATACTCA
GCTCTACATATCGATTGCCATCGTAGGTGC
Found at i:839904 original size:2 final size:2
Alignment explanation
Indices: 839897--839924 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
839887 TTCTCATCTT
839897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
839925 ACTCTGGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:841619 original size:2 final size:2
Alignment explanation
Indices: 841612--841641 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
841602 AATTACACAA
841612 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
841642 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:841646 original size:2 final size:2
Alignment explanation
Indices: 841641--841667 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
841631 TATATATATA
841641 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
841668 ATTTGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:847799 original size:23 final size:23
Alignment explanation
Indices: 847773--847841 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
847763 CACCACAGCT
*
847773 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
847796 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
847819 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
847842 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:848090 original size:30 final size:30
Alignment explanation
Indices: 848054--848123 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
848044 ACATAATTTG
* * *
848054 TATCACATAAACATATTATTTTCATACCTT
1 TATCACATAAACATATCATTTCCATACATT
*
848084 TATCACATAGACATATCATTTCCATACATT
1 TATCACATAAACATATCATTTCCATACATT
848114 TATCACATAA
1 TATCACATAA
848124 CTCATATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (30 bp):
TATCACATAAACATATCATTTCCATACATT
Found at i:860592 original size:24 final size:24
Alignment explanation
Indices: 860538--860582 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
860528 ATAAAAAGGT
*
860538 AAGAATAA-AAATTAAATAAAATG
1 AAGAAAAACAAATTAAATAAAATG
860561 AAGAAAAACAAATTAAATAAAA
1 AAGAAAAACAAATTAAATAAAA
860583 GATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (24 bp):
AAGAAAAACAAATTAAATAAAATG
Found at i:860625 original size:6 final size:6
Alignment explanation
Indices: 860611--860692 Score: 58
Period size: 6 Copynumber: 12.7 Consensus size: 6
860601 AAATAGTAAG
* * *
860611 TAAAAA TAAATA TAAAAAA AAAAAA TAAAAA AAAAGAA TAATATAA TAATAAA
1 TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA TAAA-AA TAA-A-AA TAA-AAA
*
860664 TAAAAAA TAAAAA TATAAAA -AAAAG TAAA
1 T-AAAAA TAAAAA TA-AAAA TAAAAA TAAA
860693 TAATCTATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 30 0.48
7 19 0.31
8 10 0.16
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:860703 original size:2 final size:2
Alignment explanation
Indices: 860698--860784 Score: 90
Period size: 2 Copynumber: 45.0 Consensus size: 2
860688 GTAAATAATC
* * * *
860698 TA TA TA TC TA TA TA TA TA TA TA TA TA TA -A TA AA AA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
860739 TA -A TA TA TA TA TA TA TA TA TA TA TA TA TC TA AA AA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
860779 TA TA TA
1 TA TA TA
860785 CTAAAGTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
1 3 0.04
2 69 0.96
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:861031 original size:21 final size:21
Alignment explanation
Indices: 861005--861061 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
860995 TACAATAGGT
861005 TTGCCTTTGTATTTTCCGTGC
1 TTGCCTTTGTATTTTCCGTGC
861026 TTGCCTTTGTATTTTCCGTGC
1 TTGCCTTTGTATTTTCCGTGC
* *
861047 TTTCCTCTGTATTTT
1 TTGCCTTTGTATTTT
861062 GTATGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.23, G:0.16, T:0.56
Consensus pattern (21 bp):
TTGCCTTTGTATTTTCCGTGC
Found at i:861990 original size:39 final size:38
Alignment explanation
Indices: 861922--861998 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
861912 CGAGGGTTTG
* *
861922 GTGTTTCAAGAGAAATATTTTCAAAGGTTTTTTGTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTT-TGTGT
* *
861961 GTGTTTCAAGAGAAACAATTTCGAGGGTTTTTTTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGT
861999 TTCAAGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (38 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGT
Found at i:862036 original size:36 final size:36
Alignment explanation
Indices: 861996--862229 Score: 200
Period size: 36 Copynumber: 6.6 Consensus size: 36
861986 GGTTTTTTTG
*
861996 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
862032 TGTTTCAAAAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
862069 AG-TTCTAAAAGAAACTGTCTGAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
862105 TGTTTCAAG-GAAA-AGATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTG-T-CTCAAGAGAGACAAAATT
* * *
862134 TGTTTCAAGGGAAATTGTCTCAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
862170 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAATATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
*
862207 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGAGAAACTGTCTCAA
862230 AACTCGTTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
29 14 0.09
30 6 0.04
31 2 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 6 0.04
36 73 0.45
37 56 0.35
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:862230 original size:102 final size:102
Alignment explanation
Indices: 862030--862216 Score: 254
Period size: 102 Copynumber: 1.8 Consensus size: 102
862020 AGGGACAAAA
* * *
862030 TTTGTTTCAAAAGAAATTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTGAAGGG
1 TTTGTTTCAAAAGAAATTGTCTCAAAAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
862095 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * **
862132 TTTGTTTCAAGGGAAATTGTCTCAAAAGAGACAAAA-TTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAATTGTCTCAAAAGAGACAAAACTTAGTTCT-AAAAGAAACTGTCTCAAGA
862195 GAGAC-AATATTTTGTTTCAAGG
65 GAGACGAA-A-TTTGTTTCAAGG
862217 GAAACTGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 3 0.04
101 26 0.35
102 45 0.61
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAATTGTCTCAAAAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:862345 original size:37 final size:37
Alignment explanation
Indices: 862296--862482 Score: 137
Period size: 37 Copynumber: 5.3 Consensus size: 37
862286 AAGGTTTATG
*
862296 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTA
1 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTTA
* *
862333 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTAA
1 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTTA
* * * * *
862369 TTTCAAAGGAAA-TGTTTTCAA---TG------TTTATG
1 TTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATTT-TA
* * *
862398 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTTA
* * * *
862435 TTTCAAGGGAAACTACCCCAAGCGAGATAAAA-TTTA
1 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTTA
862471 TTTCAAGGGAAA
1 TTTCAAGGGAAA
862483 TGTTTTCAAT
Statistics
Matches: 116, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
28 2 0.02
29 15 0.13
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 34 0.29
37 58 0.50
38 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTTA
Found at i:862387 original size:102 final size:102
Alignment explanation
Indices: 862267--862506 Score: 372
Period size: 102 Copynumber: 2.4 Consensus size: 102
862257 ATATTTTGTG
* *
862267 TTTCAAGGGAAATATTTTCAAGGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* *
862332 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
66 ATTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* *
862369 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* * * *
862434 GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 ATTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
**
862471 TTTCAAGGGAAATGTTTTCAATACTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
862507 GGAGACAAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 125 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
ATTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:862628 original size:87 final size:87
Alignment explanation
Indices: 862415--862642 Score: 357
Period size: 87 Copynumber: 2.6 Consensus size: 87
862405 AGAAACTGTC
* * * *
862415 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATTCATTTCAAGGG
862480 AAATGTTTTCAATACTTATGTT
66 AAATGTTTTCAATACTTATGTT
*
862502 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATTCATTTCAAGGG
* **
862567 AAATGTTTTTAATGTTTATGTT
66 AAATGTTTTCAATACTTATGTT
* * *
862589 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATT
862643 TAGTTCCAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 129 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATACTTATGTT
Found at i:862639 original size:37 final size:37
Alignment explanation
Indices: 862584--862687 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
862574 TTTAATGTTT
* * **
862584 ATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAA
1 ATGTCTCAAGGGAGACAAAATTTAGTTTCAAAAGAAA
* *
862621 CTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAA
1 ATGTCTCAAGGGAGACAAAATTTAGTTTCAAAAGAAA
*
862658 ATGTCTCAAGGGAGACGAAA-TTAGTTTCAA
1 ATGTCTCAAGGGAGACAAAATTTAGTTTCAA
862688 TGAAAACAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
36 9 0.16
37 49 0.84
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (37 bp):
ATGTCTCAAGGGAGACAAAATTTAGTTTCAAAAGAAA
Found at i:862970 original size:63 final size:63
Alignment explanation
Indices: 862893--863030 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
862883 ATCCTCCGCC
* * * *
862893 GTGAAGTTAAAAATTGGATCTGAAACTAAGAAATTGTTTGTTGATAGCCAGCCGCCCCTTCGCT
1 GTGAAGTT-GAAATTGGATCCGAAACTAAGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCT
* * ** * * *
862957 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTT
1 GTGAAGTTGAAATTGGATCCGAAACTAAGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCT
*
863020 GTGGAGTTGAA
1 GTGAAGTTGAA
863031 CTTGTGTTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 54 0.87
64 8 0.13
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (63 bp):
GTGAAGTTGAAATTGGATCCGAAACTAAGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCT
Found at i:863107 original size:40 final size:40
Alignment explanation
Indices: 863063--863144 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
863053 GATATCCTCC
*
863063 GTCGTGGAGTTGAAATCGCAGGTGGCCCTTTCATCGTGAA
1 GTCGTGGAGTTGAAATCGCAGGTGGCCCCTTCATCGTGAA
* *
863103 GTCGTGGAGTTGAAATCGCAGGTGGCCCCTTCGTTGTGAA
1 GTCGTGGAGTTGAAATCGCAGGTGGCCCCTTCATCGTGAA
863143 GT
1 GT
863145 TGAAATCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (40 bp):
GTCGTGGAGTTGAAATCGCAGGTGGCCCCTTCATCGTGAA
Found at i:863673 original size:31 final size:32
Alignment explanation
Indices: 863590--863701 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
863580 TTTGCATCAG
* * * *
863590 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
863622 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
* *
863654 TATGTTAAATCT-AAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
863685 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
863702 GATGCCCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 28 0.41
32 37 0.54
33 4 0.06
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:864749 original size:69 final size:69
Alignment explanation
Indices: 864634--864771 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
864624 AGTCTCTCTC
* * *
864634 TTGATGCTCCATGATCTTCGAGTGGAGTGTTTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCCATGATCTTCGAGTGAAGTGGTTCAGTAATTCAGAAATGATTATGCTTGATCAATC
864699 TCAT
66 TCAT
* * * * *
864703 TTGATGCTCTATGATCTTTGATTGAAGTGGTTCAGTGATTCGGAAATGATTATGCTTGATCAATC
1 TTGATGCTCCATGATCTTCGAGTGAAGTGGTTCAGTAATTCAGAAATGATTATGCTTGATCAATC
864768 TCAT
66 TCAT
864772 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTGATGCTCCATGATCTTCGAGTGAAGTGGTTCAGTAATTCAGAAATGATTATGCTTGATCAATC
TCAT
Found at i:864861 original size:13 final size:13
Alignment explanation
Indices: 864845--864880 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
864835 TTTCTTCAAT
864845 TTTTCT-TTGTTTA
1 TTTTCTCTT-TTTA
864858 TTTTCTCTTTTTA
1 TTTTCTCTTTTTA
864871 TTTTCTCTTT
1 TTTTCTCTTT
864881 GCTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 20 0.91
14 2 0.09
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTCTCTTTTTA
Found at i:864889 original size:28 final size:27
Alignment explanation
Indices: 864843--864897 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
864833 TTTTTCTTCA
*
864843 ATTTTTCTTTGTTTATTTTCTCTTTTT
1 ATTTTTCTTTGTTTATTTTCTATTTTT
864870 ATTTTCTCTTTGCTTT-TTTTCTATTTTT
1 ATTTT-TCTTTG-TTTATTTTCTATTTTT
864898 TCCTCTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 17 0.68
29 3 0.12
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (27 bp):
ATTTTTCTTTGTTTATTTTCTATTTTT
Found at i:864891 original size:15 final size:14
Alignment explanation
Indices: 864844--864891 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
864834 TTTTCTTCAA
864844 TTTT-TCTTTGTTT
1 TTTTCTCTTTGTTT
*
864857 ATTTTCTCTTT-TTA
1 -TTTTCTCTTTGTTT
864871 TTTTCTCTTTGCTTT
1 TTTTCTCTTTG-TTT
864886 TTTTCT
1 TTTTCT
864892 ATTTTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 10 0.34
14 6 0.21
15 13 0.45
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTCTCTTTGTTT
Found at i:868004 original size:26 final size:27
Alignment explanation
Indices: 867960--868010 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
867950 TAAATAAATT
*
867960 AATTAAATTAAAATGAAGA-AAAAACA
1 AATTAAATAAAAATGAAGATAAAAACA
867986 AATTAAATAAAAGAT-AAGATAAAAA
1 AATTAAATAAAA-ATGAAGATAAAAA
868011 AAGTAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.20
Consensus pattern (27 bp):
AATTAAATAAAAATGAAGATAAAAACA
Found at i:868050 original size:9 final size:9
Alignment explanation
Indices: 868032--868102 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
868022 AAATAGTAAG
*
868032 TAAAATAAA
1 TAAAAAAAA
868041 TAAAAAAAA
1 TAAAAAAAA
868050 TAAAGAAAAA
1 TAAA-AAAAA
* *
868060 GAAGAAAAA
1 TAAAAAAAA
868069 TAATATATATAAA
1 TAA-A-A-A-AAA
*
868082 TAAAACAAA
1 TAAAAAAAA
*
868091 TAAATAAAA
1 TAAAAAAAA
868100 TAA
1 TAA
868103 TAATAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 32 0.65
10 7 0.14
11 2 0.04
12 2 0.04
13 6 0.12
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:868051 original size:13 final size:13
Alignment explanation
Indices: 868033--868112 Score: 65
Period size: 13 Copynumber: 6.2 Consensus size: 13
868023 AATAGTAAGT
868033 AAAATAAATAAAA
1 AAAATAAATAAAA
*
868046 AAAATAAAGAAAA
1 AAAATAAATAAAA
* *
868059 AGAAGAAAAATAATA
1 A-AA-ATAAATAAAA
* *
868074 TATATAAATAAAA
1 AAAATAAATAAAA
*
868087 CAAATAAAT-AAA
1 AAAATAAATAAAA
*
868099 ATAAT-AATAAAA
1 AAAATAAATAAAA
868111 AA
1 AA
868113 GTAAAAATAA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 28 0.55
14 3 0.06
15 7 0.14
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:868144 original size:51 final size:49
Alignment explanation
Indices: 868036--868224 Score: 164
Period size: 50 Copynumber: 3.9 Consensus size: 49
868026 AGTAAGTAAA
* * *
868036 ATAAATAAAAAAAATAAAGA-AAAAGAAG-AAAAATAATATATATAAATAAA
1 ATAAATAAATAAAATAAA-ATAAAA-AAGTAAAAATAATATATATATAT-AT
*
868086 ACAAATAAATAAAATAATAATAAAAAAGTAAAAATAATATATATATATAT
1 ATAAATAAATAAAATAA-AATAAAAAAGTAAAAATAATATATATATATAT
* *
868136 AT--AT-AAT-AAATAAAA-AATAAA-TAAAAATATTATATATATATAT
1 ATAAATAAATAAAATAAAATAAAAAAGTAAAAATAATATATATATATAT
* * * *
868179 ATAAATTAATAAAACTGATAATAAAAAAAT-AATAT-ATATATATATA
1 ATAAATAAATAAAA-T-AAAATAAAAAAGTAAAAATAATATATATATA
868225 ATCTAAAATA
Statistics
Matches: 117, Mismatches: 11, Indels: 23
0.77 0.07 0.15
Matches are distributed among these distances:
43 23 0.20
44 5 0.04
45 4 0.03
46 9 0.08
47 6 0.05
48 3 0.03
49 13 0.11
50 30 0.26
51 24 0.21
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (49 bp):
ATAAATAAATAAAATAAAATAAAAAAGTAAAAATAATATATATATATAT
Found at i:868162 original size:43 final size:43
Alignment explanation
Indices: 868101--868226 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
868091 TAAATAAAAT
*
868101 AATAATAAAA-AAGTAAAAATAATATATATATATATATATAATA
1 AATAA-AAAATAAATAAAAATAATATATATATATATATATAATA
* *
868144 AATAAAAAATAAATAAAAATATTATATATATATATATA-AATT
1 AATAAAAAATAAATAAAAATAATATATATATATATATATAATA
*
868186 AAT-AAAACTGATAATAAAAA-AATA-ATATATATATATATAAT
1 AATAAAAAAT-A-AATAAAAATAATATATATATATATATATAAT
868227 CTAAAATATA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
41 18 0.24
42 17 0.23
43 39 0.53
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (43 bp):
AATAAAAAATAAATAAAAATAATATATATATATATATATAATA
Done.