Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 21 of 84
Found at i:4245932 original size:18 final size:17
Alignment explanation
Indices: 4245909--4245952 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
4245899 CCGCTCCAAG
4245909 GTTTTTTTTATTTATTTT
1 GTTTTTTTTA-TTATTTT
*
4245927 GTTTTTTATGATTATTTT
1 GTTTTTT-TTATTATTTT
4245945 -TTTTTTTT
1 GTTTTTTTT
4245953 TGCCAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 6 0.26
18 14 0.61
19 2 0.09
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (17 bp):
GTTTTTTTTATTATTTT
Found at i:4245933 original size:16 final size:16
Alignment explanation
Indices: 4245910--4245950 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
4245900 CGCTCCAAGG
4245910 TTTTTTTTAT-TTATT
1 TTTTTTTTATATTATT
4245925 TTGTTTTTTATGATTATT
1 TT-TTTTTTAT-ATTATT
4245943 TTTTTTTT
1 TTTTTTTT
4245951 TTTGCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 8 0.35
17 6 0.26
18 7 0.30
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTTTTTATATTATT
Found at i:4247702 original size:15 final size:15
Alignment explanation
Indices: 4247679--4247709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4247669 TATTTTAAAT
*
4247679 AATATATTAAAATTA
1 AATAAATTAAAATTA
4247694 AATAAATTAAAATTA
1 AATAAATTAAAATTA
4247709 A
1 A
4247710 CTCTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATTAAAATTA
Found at i:4247885 original size:14 final size:14
Alignment explanation
Indices: 4247862--4247914 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
4247852 CCCTAGACCC
4247862 TCAAAACCCTAAAA
1 TCAAAACCCTAAAA
*
4247876 TCAAATCCCTAAAACA
1 TCAAAACCCT-AAA-A
* *
4247892 TAAAAACCCTAACA
1 TCAAAACCCTAAAA
*
4247906 TAAAAACCC
1 TCAAAACCC
4247915 CAAACCTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 19 0.58
15 5 0.15
16 9 0.27
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
TCAAAACCCTAAAA
Found at i:4260631 original size:104 final size:104
Alignment explanation
Indices: 4260496--4260871 Score: 379
Period size: 104 Copynumber: 3.6 Consensus size: 104
4260486 ATCTGACATG
* * * * * * *
4260496 TGGTTTAATCCCAATTTTTATTATTTCTCTGACTTACGATTTAATCTCGGTCTCTTTATTTTTTT
1 TGGTTTAATCTCGATCTTCATTTTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTTCTT
* *
4260561 GACTCGTAGTTCAATCCTAGTCTTTTTACGTCTACATCA
66 GACTCGTAGTTCAATCCTAGTCTCTTTACTTCTACATCA
* *
4260600 TGGTTTAATCTCGATCCTCATTTTTTCTCTGACTTGCAGA-TTAATCTCGATCTCTTTATTTTCT
1 TGGTTTAATCTCGATCTTCATTTTTTCTCTGACTTAC-GATTTAATCTCGATCTCTTTATTTTCT
* * *
4260664 TGACTTGTGGTTCAAT-CTCGATCTCTTTACTTCTACATCA
65 TGACTCGTAGTTCAATCCTAG-TCTCTTTACTTCTACATCA
* * * * *
4260704 TCGTTTAATCTCGATCTTCATTATTTCTCTAACTTTC-AGTTTAATC-CTGATCTATTTATTTTC
1 TGGTTTAATCTCGATCTTCATTTTTTCTCTGACTTACGA-TTTAATCTC-GATCTCTTTATTTTC
* * *
4260767 TTAACTTGCG-A-TTCAATCCCAGTCTCTTTACTTCTACATCG
64 TTGAC-T-CGTAGTTCAATCCTAGTCTCTTTACTTCTACATCA
* * * * *
4260808 TGGTTTAATCTCTATCTTCATTATTTT-TCTTGACTCACGATTCAATCCCGATTTCTTTACTTTT
1 TGGTTTAATCTCGATCTTCATT-TTTTCTC-TGACTTACGATTTAATCTCGATCTCTTTA-TTTT
4260872 ACATCGCGAT
Statistics
Matches: 224, Mismatches: 35, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 185 0.83
105 27 0.12
106 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (104 bp):
TGGTTTAATCTCGATCTTCATTTTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTTCTT
GACTCGTAGTTCAATCCTAGTCTCTTTACTTCTACATCA
Found at i:4260853 original size:70 final size:69
Alignment explanation
Indices: 4260775--4260911 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 69
4260765 TCTTAACTTG
* * *
4260775 CGATTCAATCCC-AGTCTCTTTACTTCTACATCGTGGTTTAATCTCT-ATCTTCATTATTTTTCT
1 CGATTCAATCCCGA-TCTCTTTACTTCTACATCGCGATTTAATC-CTGATCTTCATTATTTCT-T
4260838 TGACTCA
63 TGACTCA
* *
4260845 CGATTCAATCCCGATTTCTTTACTTTTACATCGCGATTTAATCCTGATCTTCATTATTTCTTTGA
1 CGATTCAATCCCGATCTCTTTACTTCTACATCGCGATTTAATCCTGATCTTCATTATTTCTTTGA
4260910 CT
66 CT
4260912 TGCGACTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
69 8 0.13
70 51 0.85
71 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (69 bp):
CGATTCAATCCCGATCTCTTTACTTCTACATCGCGATTTAATCCTGATCTTCATTATTTCTTTGA
CTCA
Found at i:4260867 original size:174 final size:174
Alignment explanation
Indices: 4260640--4261015 Score: 433
Period size: 174 Copynumber: 2.2 Consensus size: 174
4260630 GACTTGCAGA
* *** * *
4260640 TTAATCTCGATC-TCTTTA-TTTTCTTGACTTGTGGTTCAATCTCGATCTCTTTACTTCTACATC
1 TTAATCTCGATCTTCATTATTTTTCTTGACTCACGATTCAATCCCGATCTCTTTACTTCTACATC
* * * * *
4260703 ATCG-TTTAAT-CTCGATCTTCATTATTTCTCTAACTTTC-AGTTTAATCCTGATCTATTTATTT
66 -GCGATTTAATCCT-GATCTTCATTATTTCTCTAACTTGCGA-CTTAACCCCGATCTATTTATTT
**
4260765 TCTTAACTTGCGA-TTCAATCCCAGTCTCTTTACTTCTACATCGTGGT
128 TCTTAACTTG-GAGTTCAATCCCAGTCTCTTTACTTCTACATCACGGT
* * *
4260812 TTAATCTCTATCTTCATTATTTTTCTTGACTCACGATTCAATCCCGATTTCTTTACTTTTACATC
1 TTAATCTCGATCTTCATTATTTTTCTTGACTCACGATTCAATCCCGATCTCTTTACTTCTACATC
* * * *
4260877 GCGATTTAATCCTGATCTTCATTATTTCTTTGACTTGCGACTTAACCCCGGTCTCTTTATTTTCT
66 GCGATTTAATCCTGATCTTCATTATTTCTCTAACTTGCGACTTAACCCCGATCTATTTATTTTCT
* * * * *
4260942 TGACTTGTAGTTCAATCTCGGTCTCTTTACTTCTACATTACGGT
131 TAACTTGGAGTTCAATCCCAGTCTCTTTACTTCTACATCACGGT
*
4260986 TTAATCTCGATCTTTATTATTTTTC-TGACT
1 TTAATCTCGATCTTCATTATTTTTCTTGACT
4261016 TGCGGTTTAA
Statistics
Matches: 171, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
172 11 0.06
173 13 0.08
174 144 0.84
175 3 0.02
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (174 bp):
TTAATCTCGATCTTCATTATTTTTCTTGACTCACGATTCAATCCCGATCTCTTTACTTCTACATC
GCGATTTAATCCTGATCTTCATTATTTCTCTAACTTGCGACTTAACCCCGATCTATTTATTTTCT
TAACTTGGAGTTCAATCCCAGTCTCTTTACTTCTACATCACGGT
Found at i:4261062 original size:278 final size:278
Alignment explanation
Indices: 4260603--4261111 Score: 697
Period size: 278 Copynumber: 1.8 Consensus size: 278
4260593 TACATCATGG
* * *
4260603 TTTAATCTCGATCCTCATTTTTTCTCTGACTTGCAGATTAATCTCGATCTCTTTATTTTCTTGAC
1 TTTAATCTCGATCCTCATTATTTCTCTGACTTGCAGATTAACCCCGATCTCTTTATTTTCTTGAC
*
4260668 TTGTGGTTCAATCTCGATCTCTTTACTTCTACATCATCGTTTAATCTCGATCTTCATTATTTCTC
66 TTGTAGTTCAATCTCGATCTCTTTACTTCTACATCATCGTTTAATCTCGATCTTCATTATTTCTC
* * * *
4260733 TAACTTTCAGTTTAATCCTGATCTATTTATTTTCTTAACTTGCGATTCAATCCCAGTCTCTTTAC
131 TAACTTGCAGTTTAATCCAGATCTATTTATTTTCTTAACTTACGATTCAATCACAGTCTCTTTAC
* *
4260798 TTCTACATCGTGGTTTAATCTCT-ATCTTCATTATTTTTCTTGACTCACGATTCAATCCCGATTT
196 TTCTACATCATGGTTTAATC-CTGATCCTCATTATTTTTCTTGACTCACGATTCAATCCCGATTT
4260862 CTTTACTTTTACATCGCGA
260 CTTTACTTTTACATCGCGA
* * *
4260881 TTTAATC-CTGATCTTCATTATTTCTTTGACTTGC-GACTTAACCCCGGTCTCTTTATTTTCTTG
1 TTTAATCTC-GATCCTCATTATTTCTCTGACTTGCAGA-TTAACCCCGATCTCTTTATTTTCTTG
* * *
4260944 ACTTGTAGTTCAATCTCGGTCTCTTTACTTCTACATTA-CGGTTTAATCTCGATCTTTATTATTT
64 ACTTGTAGTTCAATCTCGATCTCTTTACTTCTACATCATC-GTTTAATCTCGATCTTCATTATTT
* * * * **
4261008 TTCTGACTTGCGGTTTAATCCCAG-TCTCTTTATTTTCTTAACTTAC-AGTTCAATCATGGTCTC
128 CTCTAACTTGCAGTTTAAT-CCAGATCTATTTATTTTCTTAACTTACGA-TTCAATCACAGTCTC
* * *
4261071 TTTATTTTTATATCATGGTTTAATCCTGATCCTCATTATTT
191 TTTACTTCTACATCATGGTTTAATCCTGATCCTCATTATTT
4261112 CTCTAACTTG
Statistics
Matches: 200, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
277 7 0.04
278 190 0.95
279 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.48
Consensus pattern (278 bp):
TTTAATCTCGATCCTCATTATTTCTCTGACTTGCAGATTAACCCCGATCTCTTTATTTTCTTGAC
TTGTAGTTCAATCTCGATCTCTTTACTTCTACATCATCGTTTAATCTCGATCTTCATTATTTCTC
TAACTTGCAGTTTAATCCAGATCTATTTATTTTCTTAACTTACGATTCAATCACAGTCTCTTTAC
TTCTACATCATGGTTTAATCCTGATCCTCATTATTTTTCTTGACTCACGATTCAATCCCGATTTC
TTTACTTTTACATCGCGA
Found at i:4261310 original size:105 final size:105
Alignment explanation
Indices: 4260828--4261461 Score: 467
Period size: 104 Copynumber: 6.1 Consensus size: 105
4260818 TCTATCTTCA
* * * * * * * *
4260828 TTATTTTTCTTGACTCACGATTCAATCCCGATTTCTTTACTTTTACA-TCGCGATTTAATCCTGA
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTA-AGTCACGGTTTAATCCCGA
* * * * *
4260892 TCTTCATTATTTCTTTGACTTGCGACTTAACCCCGGTCTCT
65 TCCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
* ** * ** * * *
4260933 TTA-TTTTCTTGACTTGTAGTTCAATCTCGGTCTCTTTACTTCTACA-TTACGGTTTAATCTCGA
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTA-AGTCACGGTTTAATCCCGA
* * * *
4260996 TCTTTATTATTTTTCTGACTTGCGGTTTAATCCCAGTCTCT
65 TCCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
* ** * **** * * * * *
4261037 TTA-TTTTCTTAACTTACAGTTCAATCATGGTCTCTTTATTTTTATA-TCATGGTTTAATCCTGA
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTA-AGTCACGGTTTAATCCCGA
* * * * *
4261100 TCCTCATTATTTCTCTAACTTGTGATTTAATCTCAATTTCT
65 TCCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
* * * * **
4261141 TTA-TTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTACTTTTAAGTTGCGGTTTAATCCCGAT
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTAAGTCACGGTTTAATCCCGAT
* *
4261205 CCTCATTCTTTCTCTGACTTACGATTTAATCCCAGTCTCT
66 CCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
* * * * * * *
4261245 TTATTTTTCTTGATTCGCGGATCAATCCCAATTTTTTTAATTCTAAGTCATGGTTTAATCTCGAT
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTAAGTCACGGTTTAATCCCGAT
* * * * *
4261310 CTTTAGTATTTCTC-GAACTTGCGATTTAATCTC-GATCTTT
66 CCTCATTATTTCTCTG-ACTTGCGATTTAATCCCAG-TCTCT
* * ** * *
4261350 TTGTTTTTCTTTACTCATGGTTCAATCCCAATATCTTTACTTCTAAGTCACGATTTAACCCCGAT
1 TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTAAGTCACGGTTTAATCCCGAT
* ** * * * *
4261415 CATTGTTATTT-TTTGACTTGTGATTTAATCCCAGTCACC
66 CCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
4261454 TTATTTTT
1 TTATTTTT
4261462 TGACTTGTGA
Statistics
Matches: 420, Mismatches: 103, Indels: 13
0.78 0.19 0.02
Matches are distributed among these distances:
103 1 0.00
104 276 0.66
105 143 0.34
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (105 bp):
TTATTTTTCTTGACTCGCGGTTCAATCCCAATATCTTTACTTCTAAGTCACGGTTTAATCCCGAT
CCTCATTATTTCTCTGACTTGCGATTTAATCCCAGTCTCT
Found at i:4261442 original size:209 final size:209
Alignment explanation
Indices: 4261083--4261461 Score: 467
Period size: 209 Copynumber: 1.8 Consensus size: 209
4261073 TATTTTTATA
* * *
4261083 TCATGGTTTAATCCTGATCCTCATTATTTCTCTAACTTGTGATTTAATCTCAATTTCTTTATTTT
1 TCATGGTTTAATCCTGATCCTCAGTATTTCTCGAACTTGCGATTTAATCTCAATTTCTTTATTTT
* * * * * ** * * * *
4261148 CTTGACTCGCGGTTCAATCTCGATCTCTTTACTTTTAAGTTGCGGTTTAATCCCGATCCTCATTC
66 CTTGACTCACGGTTCAATCCCAATATCTTTACTTCTAAGTCACGATTTAACCCCGATCATCATTA
* *
4261213 TTTCTCTGACTTACGATTTAATCCCAGTCTCTTTATTTTTCTTGATTCGCGGATCAATCCCAATT
131 TTTCTCTGACTTACGATTTAATCCCAGTCACCTTATTTTTCTTGATTCGCGGATCAATCCCAATT
4261278 TTTTTAATTCTAAG
196 TTTTTAATTCTAAG
* * * *
4261292 TCATGGTTTAAT-CTCGATCTTTAGTATTTCTCGAACTTGCGATTTAATCTCGATCTT-TTTGTT
1 TCATGGTTTAATCCT-GATCCTCAGTATTTCTCGAACTTGCGATTTAATCTCAAT-TTCTTT-AT
* * **
4261355 TTTCTTTACTCATGGTTCAATCCCAATATCTTTACTTCTAAGTCACGATTTAACCCCGATCATTG
63 TTTCTTGACTCACGGTTCAATCCCAATATCTTTACTTCTAAGTCACGATTTAACCCCGATCATCA
* **
4261420 TTATTT-TTTGACTTGTGATTTAATCCCAGTCACCTTATTTTT
128 TTATTTCTCTGACTTACGATTTAATCCCAGTCACCTTATTTTT
4261462 TGACTTGTGA
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
208 2 0.01
209 79 0.56
210 59 0.42
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.47
Consensus pattern (209 bp):
TCATGGTTTAATCCTGATCCTCAGTATTTCTCGAACTTGCGATTTAATCTCAATTTCTTTATTTT
CTTGACTCACGGTTCAATCCCAATATCTTTACTTCTAAGTCACGATTTAACCCCGATCATCATTA
TTTCTCTGACTTACGATTTAATCCCAGTCACCTTATTTTTCTTGATTCGCGGATCAATCCCAATT
TTTTTAATTCTAAG
Found at i:4261605 original size:37 final size:37
Alignment explanation
Indices: 4261499--4261594 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 37
4261489 CTTGATCTTG
* *
4261499 TTATTTCTCGACTCGCGGTGTTATCCCGATCATTTTTT
1 TTATTTTTCGACTCGCGGTGTTATCCCGATCA-ATTTT
* * *
4261537 TTACTTTTCGACTTGCGATGTTATCCCGATCAATTTT
1 TTATTTTTCGACTCGCGGTGTTATCCCGATCAATTTT
*
4261574 TTATTTTTTGACTCGCGGTGT
1 TTATTTTTCGACTCGCGGTGT
4261595 CATCTTGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 21 0.43
38 28 0.57
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.48
Consensus pattern (37 bp):
TTATTTTTCGACTCGCGGTGTTATCCCGATCAATTTT
Found at i:4261879 original size:16 final size:17
Alignment explanation
Indices: 4261850--4261884 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4261840 GTTTAATTAA
4261850 AATTAAAAAAATTAATT
1 AATTAAAAAAATTAATT
*
4261867 AATT-AAAATATTAATT
1 AATTAAAAAAATTAATT
4261883 AA
1 AA
4261885 AAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTAAAAAAATTAATT
Found at i:4263359 original size:21 final size:21
Alignment explanation
Indices: 4263335--4263378 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4263325 CCAAACCTCC
4263335 AACCTTAAAAT-CAAAATCCTA
1 AACCTTAAAATCCAAAA-CCTA
*
4263356 AACCTTAAGATCCAAAACCTA
1 AACCTTAAAATCCAAAACCTA
4263377 AA
1 AA
4263379 AATCTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCTTAAAATCCAAAACCTA
Found at i:4264607 original size:92 final size:93
Alignment explanation
Indices: 4264500--4264699 Score: 278
Period size: 93 Copynumber: 2.2 Consensus size: 93
4264490 ACGACATTTA
* * *
4264500 TACTGGCTTTTGGATA-TAGGGATTTCTTTTGACTT-GGACATATTTTTTTATTTTTCCTTGCAT
1 TACTGGCTTTTGGATAGT-GGGATTGCTTTTGACTTAAGACATACTTTTTTATTTTTCCTTGCAT
*
4264563 TTGATCTATTGGCTACGGGTTGGCTAATT
65 TTGATCTATTGGCTACGGGTTAGCTAATT
* * ** *
4264592 TACTGGCTTCTGGATAGTGGGATTGCTTTTTACTTAAGAGTTGCTTTTTTATTTTTCCTTGCATT
1 TACTGGCTTTTGGATAGTGGGATTGCTTTTGACTTAAGACATACTTTTTTATTTTTCCTTGCATT
*
4264657 TGATCTATTGGCTACGGGTTAGCTCATT
66 TGATCTATTGGCTACGGGTTAGCTAATT
*
4264685 TACTAGCTTTTGGAT
1 TACTGGCTTTTGGAT
4264700 TGTTCATCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
92 30 0.32
93 64 0.68
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (93 bp):
TACTGGCTTTTGGATAGTGGGATTGCTTTTGACTTAAGACATACTTTTTTATTTTTCCTTGCATT
TGATCTATTGGCTACGGGTTAGCTAATT
Found at i:4267342 original size:13 final size:13
Alignment explanation
Indices: 4267324--4267381 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 13
4267314 TTTCTTTAAG
4267324 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
4267337 AAAAAAGAAAGAAA
1 AAAAAAGAAA-AAA
*
4267351 GAAAGGAAGGAAAAAA
1 -AAA--AAAGAAAAAA
4267367 AAAAGAAGAAAAAA
1 AAAA-AAGAAAAAA
4267381 A
1 A
4267382 TAGGAGAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 11 0.29
14 12 0.32
15 6 0.16
16 3 0.08
17 6 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:4267352 original size:28 final size:30
Alignment explanation
Indices: 4267321--4267377 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4267311 GGTTTTCTTT
4267321 AAGAAA-AAAGAAAAAAAAAA-AAGAAAGA
1 AAGAAAGAAAGAAAAAAAAAAGAAGAAAGA
*
4267349 AAGAAAGGAAGGAAAAAAAAAAGAAGAAA
1 AAGAAA-GAAAGAAAAAAAAAAGAAGAAA
4267378 AAAATAGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
30 13 0.52
31 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (30 bp):
AAGAAAGAAAGAAAAAAAAAAGAAGAAAGA
Found at i:4267368 original size:40 final size:41
Alignment explanation
Indices: 4267324--4267408 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
4267314 TTTCTTTAAG
*
4267324 AAAAAAGAAAAAAAAAAAAGAAAGAAAGAAAGGAAG-GAAAA
1 AAAAAAGAAAAAAAAAAAAG-AAGAAAGAAAGAAAGAGAAAA
* * * *
4267365 AAAAAAGAAGAAAAAAATAGGAGAAAGGAAGAAAGAGAAAA
1 AAAAAAGAAAAAAAAAAAAGAAGAAAGAAAGAAAGAGAAAA
4267406 AAA
1 AAA
4267409 TGAGGTTGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 12 0.32
41 26 0.68
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (41 bp):
AAAAAAGAAAAAAAAAAAAGAAGAAAGAAAGAAAGAGAAAA
Found at i:4267390 original size:27 final size:28
Alignment explanation
Indices: 4267328--4267409 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 28
4267318 TTTAAGAAAA
*
4267328 AAGAAAAAAAAAA-AAGAAAGAAAGAAAGG
1 AAGAAAAAAAAAAGAAGAAA-AAA-ATAGG
4267357 AAGGAAAAAAAAAAGAAGAAAAAAATAGG
1 AA-GAAAAAAAAAAGAAGAAAAAAATAGG
* *
4267386 -AGAAAGGAAGAAAG-AGAAAAAAAT
1 AAGAAA-AAAAAAAGAAGAAAAAAAT
4267410 GAGGTTGGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.30
28 7 0.15
29 6 0.13
30 14 0.30
31 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (28 bp):
AAGAAAAAAAAAAGAAGAAAAAAATAGG
Found at i:4267455 original size:9 final size:10
Alignment explanation
Indices: 4267433--4267471 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
4267423 TGAGAAAGAG
4267433 AAAAAGAACA
1 AAAAAGAACA
4267443 AAAAAGAACA
1 AAAAAGAACA
*
4267453 AAAAAGAGAGA
1 AAAAAGA-ACA
4267464 AAAAAGAA
1 AAAAAGAA
4267472 AGAACAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAGAACA
Found at i:4267456 original size:11 final size:11
Alignment explanation
Indices: 4267433--4267480 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 11
4267423 TGAGAAAGAG
4267433 AAAAAGAAC-A
1 AAAAAGAACAA
4267443 AAAAAGAACAA
1 AAAAAGAACAA
*
4267454 AAAAGAGAGAAAA
1 AAAA-AGA-ACAA
4267467 AAGAAAGAACAA
1 AA-AAAGAACAA
4267479 AA
1 AA
4267481 GAATAGAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.28
11 5 0.16
12 8 0.25
13 8 0.25
14 2 0.06
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAACAA
Found at i:4267466 original size:21 final size:20
Alignment explanation
Indices: 4267433--4267471 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4267423 TGAGAAAGAG
4267433 AAAAAGAACAAAAAAGAACA
1 AAAAAGAACAAAAAAGAACA
*
4267453 AAAAAGAGAGAAAAAAGAA
1 AAAAAGA-ACAAAAAAGAA
4267472 AGAACAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAGAACAAAAAAGAACA
Found at i:4267486 original size:102 final size:103
Alignment explanation
Indices: 4267329--4267550 Score: 281
Period size: 102 Copynumber: 2.2 Consensus size: 103
4267319 TTAAGAAAAA
* * * *
4267329 AGAAAAAAAAAAAAGAAAGAA-AGAAAGGA-AGGAAAAAAAAAAGAAGAAAAAAATAGGAGAAAG
1 AGAAAAAAAAAAAA-AAAGAACAAAAAAGAGA-GAAAAAAAAAAGAACAAAAAAATAGAAGAAAG
4267392 GAAGAAAGAGAAAAAAA-TGAGGTT-GGGAAGGTGAGAAAG
64 GAAGAAAGAGAAAAAAAGTGAGGTTAGGGAA-GTGAGAAAG
* * * * * *
4267431 AGAAAAAGAACAAAAAAGAACAAAAAAGAGAGAAAAAAGAAAGAACAAAAGAATAGAAGCATGGA
1 AGAAAAAAAAAAAAAAAGAACAAAAAAGAGAGAAAAAAAAAAGAACAAAAAAATAGAAGAAAGGA
* *
4267496 AGAAAGAGAAAAAAAGTGAGTTTAGGTAAGTGAGAAAG
66 AGAAAGAGAAAAAAAGTGAGGTTAGGGAAGTGAGAAAG
4267534 AGAAAAAAAAAAAAAAA
1 AGAAAAAAAAAAAAAAA
4267551 AAGGAAGTGG
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
101 6 0.06
102 61 0.60
103 31 0.30
104 4 0.04
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.06
Consensus pattern (103 bp):
AGAAAAAAAAAAAAAAAGAACAAAAAAGAGAGAAAAAAAAAAGAACAAAAAAATAGAAGAAAGGA
AGAAAGAGAAAAAAAGTGAGGTTAGGGAAGTGAGAAAG
Found at i:4274536 original size:68 final size:68
Alignment explanation
Indices: 4274426--4274562 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
4274416 AAAGAAAAAA
* * *
4274426 AAAAAAACTTTAGACAAAGCTATTGTGTCGTTCAACAGCCAAAGTTGTCGACTTGATCTGGATAT
1 AAAAAAACTTTAGACAAAGATATTGTGCCGTTCAACAACCAAAGTTGTCGACTTGATCTGGATAT
4274491 CAT
66 CAT
* *
4274494 AAAAAAACTTTAGATAAAGATATTGTGCCGTTCAACAACCAAAGTTGTTGACTTGATCTGGATAT
1 AAAAAAACTTTAGACAAAGATATTGTGCCGTTCAACAACCAAAGTTGTCGACTTGATCTGGATAT
4274559 CAT
66 CAT
4274562 A
1 A
4274563 TTACTTTCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (68 bp):
AAAAAAACTTTAGACAAAGATATTGTGCCGTTCAACAACCAAAGTTGTCGACTTGATCTGGATAT
CAT
Found at i:4278487 original size:16 final size:16
Alignment explanation
Indices: 4278462--4278531 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
4278452 ATTTTGGGGA
4278462 GGTTTTGGATTTTAGG
1 GGTTTTGGATTTTAGG
* *
4278478 GGTTTCGGATTTTA-T
1 GGTTTTGGATTTTAGG
* *
4278493 GATTTTAGATTTTAGGG
1 GGTTTTGGATTTTA-GG
4278510 GGTTTTGGATTTTAGG
1 GGTTTTGGATTTTAGG
*
4278526 AGTTTT
1 GGTTTT
4278532 AGAAACCTAG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
15 11 0.26
16 20 0.47
17 12 0.28
ACGTcount: A:0.16, C:0.01, G:0.31, T:0.51
Consensus pattern (16 bp):
GGTTTTGGATTTTAGG
Found at i:4278520 original size:32 final size:32
Alignment explanation
Indices: 4278446--4278534 Score: 108
Period size: 32 Copynumber: 2.7 Consensus size: 32
4278436 AGGTTTAGGA
* *
4278446 TTTCGGATTTTGGGGAGGTTTTGGATTTTAGGGG
1 TTTCGGATTTT-AGGA-GTTTTAGATTTTAGGGG
*
4278480 TTTCGGATTTTATGA-TTTTAGATTTTAGGGGG
1 TTTCGGATTTTAGGAGTTTTAGATTTTA-GGGG
*
4278512 TTTTGGATTTTAGGAGTTTTAGA
1 TTTCGGATTTTAGGAGTTTTAGA
4278535 AACCTAGGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
31 11 0.23
32 17 0.35
33 9 0.19
34 11 0.23
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (32 bp):
TTTCGGATTTTAGGAGTTTTAGATTTTAGGGG
Found at i:4280116 original size:13 final size:13
Alignment explanation
Indices: 4280096--4280127 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4280086 TATTTAAAAA
4280096 AATATTTATTATT
1 AATATTTATTATT
*
4280109 ATTATTTATTATT
1 AATATTTATTATT
4280122 AATATT
1 AATATT
4280128 AAACTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATTATT
Found at i:4280557 original size:33 final size:34
Alignment explanation
Indices: 4280446--4280565 Score: 170
Period size: 34 Copynumber: 3.5 Consensus size: 34
4280436 AGGAGACCGA
* * ** *
4280446 GATTAAACCACGAGTAAGAGAAATACTGAGGATCAT
1 GATTAAACCACGAATCAGAG-AATAAAGA-GATCAG
4280482 GATTAAACCACGAATCAGAGAATAAAGAGATCAG
1 GATTAAACCACGAATCAGAGAATAAAGAGATCAG
4280516 GATTAAACCACGAATCAGAGAATAAAGAGATC-G
1 GATTAAACCACGAATCAGAGAATAAAGAGATCAG
4280549 GATTAAACCACGAATCA
1 GATTAAACCACGAATCA
4280566 AAAAATGACG
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
33 18 0.23
34 37 0.47
35 6 0.08
36 18 0.23
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (34 bp):
GATTAAACCACGAATCAGAGAATAAAGAGATCAG
Found at i:4280743 original size:174 final size:174
Alignment explanation
Indices: 4280504--4280919 Score: 617
Period size: 174 Copynumber: 2.4 Consensus size: 174
4280494 AATCAGAGAA
* * *
4280504 TAAAGAGATC-AGGATTAAACC-ACGAATCAGAGAATAAAGAGATC-GGATTAAACCACGAATCA
1 TAAAGAGATCGA-GATTGAACCGAC-AATCAGAGAATAAAGAGATCGGGATTAAATCACGAGTCA
4280566 AAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAGAAGACCG-GAAACAAACCACG
64 AAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAGAAGACCGAG-AACAAACCACG
*
4280630 AGTTAGAGG-TTAACAACAACAATCGAGATTAAACTATGATTTTAAAT
128 AGTCAG-GGATTAACAACAACAATCGAGATTAAACTATGATTTTAAAT
* * * * *
4280677 TAAAGAGATCGAGATTGAACTGTCAATCGGAGAATAAAGAGACCGGGATTAAATCGCGAGTCAAA
1 TAAAGAGATCGAGATTGAACCGACAATCAGAGAATAAAGAGATCGGGATTAAATCACGAGTCAAA
* *
4280742 AAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAGAAGATCGAGAATAAACCACGAGT
66 AAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAGAAGACCGAGAACAAACCACGAGT
*
4280807 CAGGGATTAACAATAACAATCGAGATTAAACTATGATTTTAAAT
131 CAGGGATTAACAACAACAATCGAGATTAAACTATGATTTTAAAT
* * * *
4280851 TAAAGAGATCGAGATTGAACCGAGAATCAAAGAATAAAGTGATCGGGATTAAATCATGAGTCAAA
1 TAAAGAGATCGAGATTGAACCGACAATCAGAGAATAAAGAGATCGGGATTAAATCACGAGTCAAA
4280916 AAAT
66 AAAT
4280920 AACAACAATC
Statistics
Matches: 217, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
173 37 0.17
174 179 0.82
175 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (174 bp):
TAAAGAGATCGAGATTGAACCGACAATCAGAGAATAAAGAGATCGGGATTAAATCACGAGTCAAA
AAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAGAAGACCGAGAACAAACCACGAGT
CAGGGATTAACAACAACAATCGAGATTAAACTATGATTTTAAAT
Found at i:4280941 original size:276 final size:273
Alignment explanation
Indices: 4280644--4281139 Score: 750
Period size: 276 Copynumber: 1.8 Consensus size: 273
4280634 AGAGGTTAAC
* *
4280644 AACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATC-GAGATTGAA-CTGTC-AATCG
1 AACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGA-ATTAAATC-G-CGAATC-
* * *
4280706 GA-GAATAAAGAGACCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACA
62 GATGAATAAAAAAACCGGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACA
* *
4280770 AGTCAAAAAATAAGAAGATCGAGAATAAACCACGAGTCA-GGGATTAACAATAACAATCGAGATT
127 AGTCAAAAAATAAAAAGATCGAGAATAAACCACGAGTCATAGG-TTAAC---AACAATCGAGATT
*
4280834 AAACTATGATTTTAAATTAAAGAGATCGAGATTGAACCGAGAATCAAAGAATAAAGTGATCGGGA
188 AAACTACGATTTTAAATTAAAGAGATCGAGATTGAACCGAGAATCAAAGAATAAAGTGATCGGGA
4280899 TTAAATCATGAGTCAAAAAAT
253 TTAAATCATGAGTCAAAAAAT
4280920 AACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAATCGCGAATCGATG
1 AACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAATCGCGAATCGATG
** *
4280985 AATAAAAAAATTGGGATTAAACCGTGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTC
66 AATAAAAAAACCGGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTC
* * *
4281050 AAAAAATAAAAAGATCGGGAATAAACCATGAGTCATAGGTTAACAACAATCGAGATTAGACTACG
131 AAAAAATAAAAAGATCGAGAATAAACCACGAGTCATAGGTTAACAACAATCGAGATTAAACTACG
*
4281115 ATTTTAAATTAAAGAGATCGGGATT
196 ATTTTAAATTAAAGAGATCGAGATT
4281140 AAATCGTAAG
Statistics
Matches: 200, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
273 43 0.22
275 3 0.01
276 149 0.75
277 5 0.03
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (273 bp):
AACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAATCGCGAATCGATG
AATAAAAAAACCGGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTC
AAAAAATAAAAAGATCGAGAATAAACCACGAGTCATAGGTTAACAACAATCGAGATTAAACTACG
ATTTTAAATTAAAGAGATCGAGATTGAACCGAGAATCAAAGAATAAAGTGATCGGGATTAAATCA
TGAGTCAAAAAAT
Found at i:4280957 original size:102 final size:102
Alignment explanation
Indices: 4280821--4281021 Score: 278
Period size: 102 Copynumber: 2.0 Consensus size: 102
4280811 GATTAACAAT
* *
4280821 AACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATC-GAGATTGAACCGAGAATCAAAGAA
1 AACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGA-ATTAAACCGAGAATCAAAGAA
*** *
4280885 TAAAGTGATCGGGATTAAATCATGAGTCAAAAAATAAC
65 TAAAAAAATCGGGATTAAACCATGAGTCAAAAAATAAC
* * * *
4280923 AACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAATCGCGAATCGATGAAT
1 AACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAACCGAGAATCAAAGAAT
* *
4280988 AAAAAAATTGGGATTAAACCGTGAGTCAAAAAAT
66 AAAAAAATCGGGATTAAACCATGAGTCAAAAAAT
4281022 GACGTTAACT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 84 0.98
103 2 0.02
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (102 bp):
AACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAGAATTAAACCGAGAATCAAAGAAT
AAAAAAATCGGGATTAAACCATGAGTCAAAAAATAAC
Found at i:4281165 original size:36 final size:36
Alignment explanation
Indices: 4281125--4281222 Score: 144
Period size: 36 Copynumber: 2.7 Consensus size: 36
4281115 ATTTTAAATT
*
4281125 AAAGAGA-TCGGGATTAAATCGTAAGTTAGAAAGATA
1 AAAGAGACT-GGGATTAAATCATAAGTTAGAAAGATA
* *
4281161 AAAGAGACTGGGATTAAACCACAAGTTAGAAAGATA
1 AAAGAGACTGGGATTAAATCATAAGTTAGAAAGATA
*
4281197 AAAGAGACTAGGATTAAATCATAAGT
1 AAAGAGACTGGGATTAAATCATAAGT
4281223 CAGAGAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.20
Consensus pattern (36 bp):
AAAGAGACTGGGATTAAATCATAAGTTAGAAAGATA
Found at i:4281331 original size:36 final size:36
Alignment explanation
Indices: 4281125--4281331 Score: 129
Period size: 36 Copynumber: 5.7 Consensus size: 36
4281115 ATTTTAAATT
* **
4281125 AAAGAGA-TCGGGATTAAATCGTAAGTTAGAAAGATA
1 AAAGAGACT-GGGATTAAACCACAAGTTAGAAAGATA
4281161 AAAGAGACTGGGATTAAACCACAAGTTAGAAAGATA
1 AAAGAGACTGGGATTAAACCACAAGTTAGAAAGATA
* * * *
4281197 AAAGAGACTAGGATTAAATCATAAGTCAGAGAA-ATA
1 AAAGAGACTGGGATTAAACCACAAGTTAGA-AAGATA
** ** * *
4281233 ATGAA-ATGA-TCGGGATTAAACCATGAG--CCAAATATT
1 A--AAGA-GACT-GGGATTAAACCACAAGTTAGAAAGATA
* * * * * *
4281269 GATGACGACTGAGATTGAACCGCAAGTTAGAGAGATA
1 AAAGA-GACTGGGATTAAACCACAAGTTAGAAAGATA
*
4281306 AAAGAGACTGGGATTAAATCACAAGT
1 AAAGAGACTGGGATTAAACCACAAGT
4281332 CAAATGTTAA
Statistics
Matches: 128, Mismatches: 32, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
34 1 0.01
35 16 0.12
36 82 0.64
37 12 0.09
38 17 0.13
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (36 bp):
AAAGAGACTGGGATTAAACCACAAGTTAGAAAGATA
Found at i:4281507 original size:22 final size:22
Alignment explanation
Indices: 4281479--4281521 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4281469 TCGCGAATCA
4281479 AAATTATG-TCCGAAGGTCTTAG
1 AAATTATGCT-CGAAGGTCTTAG
4281501 AAATTATGCTCGAAGGTCTTA
1 AAATTATGCTCGAAGGTCTTA
4281522 TAAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (22 bp):
AAATTATGCTCGAAGGTCTTAG
Found at i:4281825 original size:110 final size:108
Alignment explanation
Indices: 4281449--4281829 Score: 440
Period size: 110 Copynumber: 3.5 Consensus size: 108
4281439 CAAAAAAATT
* * * *
4281449 AAGAATCGATTGGGAGAACATCGCGAATCAAAATTATGTCCGAAGGTCTTAGAAATTATGCTCGA
1 AAGAATCGATCGGGATAACATCGCGAATCAAAATTATGCCCG-AGGTCTTAGAAATCATGCTCGA
* * * * * * *
4281514 AGGTCTTATAAAATTGATTGGGACAACACCTCAAGTCAAAAAAT-
65 AGGTCTTACAAAATCGAATGGGATAACA-CACAAGTCGAAAGATA
* * ** * *
4281558 AAGAAATCGATCGGGATAACATCGCGAATCTAATTTATGCTCAAAGGTCTTAAAAATCATGCCCG
1 AAG-AATCGATCGGGATAACATCGCGAATCAAAATTATGC-CCGAGGTCTTAGAAATCATGCTCG
* * *
4281623 GAGGTCTTACAGAATCAAATGGGATAACACTACAAGTCGAAAGATA
64 AAGGTCTTACAAAATCGAATGGGATAACAC-ACAAGTCGAAAGATA
* *
4281669 AAGAATCGATCGGGATAACATCGCGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCTTGA
1 AAGAATCGATCGGGATAACATCGCGAATCAAAATTATGCCC-GAGGTCTTAGAAATCATGCTCGA
* *
4281734 AGGACTTACAAAATCGACTGGGATAACATCACAAGTCGAAAGATA
65 AGGTCTTACAAAATCGAATGGGATAACA-CACAAGTCGAAAGATA
* * *
4281779 AAGAATCGATCGAGATAACACCGCGAATCAAAATTATACCCTGAGGTCTTA
1 AAGAATCGATCGGGATAACATCGCGAATCAAAATTATGCCC-GAGGTCTTA
4281830 CAGAATTGAC
Statistics
Matches: 229, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
109 5 0.02
110 219 0.96
111 5 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (108 bp):
AAGAATCGATCGGGATAACATCGCGAATCAAAATTATGCCCGAGGTCTTAGAAATCATGCTCGAA
GGTCTTACAAAATCGAATGGGATAACACACAAGTCGAAAGATA
Found at i:4281845 original size:88 final size:87
Alignment explanation
Indices: 4281738--4282003 Score: 308
Period size: 86 Copynumber: 3.0 Consensus size: 87
4281728 GCTTGAAGGA
* * *
4281738 CTTACAAAATCGACTGGGATAACATCACAAGTCGAAAGATAAAGAATCGATCGAGATAACACCGC
1 CTTACAGAATCGACTGGGATAACATCATAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGC
*
4281803 GAATCAAAATTATACCCTGAGGT
66 GAATCAAAATTATGCCC-GAGGT
* * * *
4281826 CTTACAGAATTGACCGGGATAACA-CTGTAAGT-TAGAA-ATAAA-AATCGATCGGGATAACACC
1 CTTACAGAATCGACTGGGATAACATC-ATAAGTCGA-AAGATAAAGAATCGATCGGGATAACACC
4281887 GCGAATCAAAATTATGCCCGAAGGT
64 GCGAATCAAAATTATGCCCG-AGGT
* ** * *
4281912 CTTACAGAATCGATTGGGATAACATTTTGAGTCGAAAGAT-AAGAAATCGATTGGGATAACACCG
1 CTTACAGAATCGACTGGGATAACATCATAAGTCGAAAGATAAAG-AATCGATCGGGATAACACCG
* *
4281976 TGAATCAAAATTATGCTCGGAGGT
65 CGAATCAAAATTATGC-CCGAGGT
4282000 CTTA
1 CTTA
4282004 AAAATCATGC
Statistics
Matches: 151, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
85 1 0.01
86 69 0.46
87 10 0.07
88 69 0.46
89 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (87 bp):
CTTACAGAATCGACTGGGATAACATCATAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGC
GAATCAAAATTATGCCCGAGGT
Found at i:4281883 original size:86 final size:86
Alignment explanation
Indices: 4281738--4282003 Score: 295
Period size: 88 Copynumber: 3.0 Consensus size: 86
4281728 GCTTGAAGGA
* * ** * *
4281738 CTTACAAAATCGACTGGGATAACA-TCACAAGTCGAAAGATAAAGAATCGATCGAGATAACACCG
1 CTTACAGAATCGACCGGGATAACACT-GTAAGTAGAAAGATAAA-AATCGATCGGGATAACACCG
*
4281802 CGAATCAAAATTATACCCTGAGGT
64 CGAATCAAAATTATGCCC-GAGGT
*
4281826 CTTACAGAATTGACCGGGATAACACTGTAAGTTAG-AA-ATAAAAATCGATCGGGATAACACCGC
1 CTTACAGAATCGACCGGGATAACACTGTAAG-TAGAAAGATAAAAATCGATCGGGATAACACCGC
4281889 GAATCAAAATTATGCCCGAAGGT
65 GAATCAAAATTATGCCCG-AGGT
** * * * * * *
4281912 CTTACAGAATCGATTGGGATAACATTTTGAGTCGAAAGATAAGAAATCGATTGGGATAACACCGT
1 CTTACAGAATCGACCGGGATAACACTGTAAGTAGAAAGATAA-AAATCGATCGGGATAACACCGC
*
4281977 GAATCAAAATTATGCTCGGAGGT
65 GAATCAAAATTATGC-CCGAGGT
4282000 CTTA
1 CTTA
4282004 AAAATCATGC
Statistics
Matches: 153, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
85 3 0.02
86 67 0.44
87 9 0.06
88 69 0.45
89 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (86 bp):
CTTACAGAATCGACCGGGATAACACTGTAAGTAGAAAGATAAAAATCGATCGGGATAACACCGCG
AATCAAAATTATGCCCGAGGT
Found at i:4282219 original size:22 final size:23
Alignment explanation
Indices: 4282192--4282246 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4282182 TTACTTAAAA
*
4282192 GTCTTA-AAATTTATGCCTGGAG
1 GTCTTACAAATTTATGCCCGGAG
* *
4282214 GTCTTAGAGA-TTATGCCCGGAG
1 GTCTTACAAATTTATGCCCGGAG
4282236 GTCTTACAAAT
1 GTCTTACAAAT
4282247 CTCAAAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (23 bp):
GTCTTACAAATTTATGCCCGGAG
Found at i:4282437 original size:42 final size:41
Alignment explanation
Indices: 4282379--4282485 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
4282369 TGAGGAAGAT
**
4282379 TTCCTC-TAAACAGAGGCTTTCAAAATCTTGATTGAA-ATTGG
1 TTCCTCTTAAACAGAGGCTTT-AAAATCTTGATT-AAGAACGG
* * *
4282420 TTCCTTTTAAACAGAGGCTTTGAAATTTTGATTAAGAACGG
1 TTCCTCTTAAACAGAGGCTTTAAAATCTTGATTAAGAACGG
*
4282461 TTCCTCTTAAACAGAGACTTTAAAA
1 TTCCTCTTAAACAGAGGCTTTAAAA
4282486 CTTTAAAAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.04
41 40 0.71
42 14 0.25
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (41 bp):
TTCCTCTTAAACAGAGGCTTTAAAATCTTGATTAAGAACGG
Found at i:4284811 original size:14 final size:14
Alignment explanation
Indices: 4284792--4284823 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4284782 AAAATAAAAC
4284792 TTTTTTT-CTTTTT
1 TTTTTTTGCTTTTT
4284805 TTTTTTTGCTTTTT
1 TTTTTTTGCTTTTT
4284819 TTTTT
1 TTTTT
4284824 GAAATCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (14 bp):
TTTTTTTGCTTTTT
Found at i:4289522 original size:17 final size:17
Alignment explanation
Indices: 4289496--4289602 Score: 73
Period size: 17 Copynumber: 6.6 Consensus size: 17
4289486 AGAGTTTAAA
4289496 GATTTT-AGGGGTTTCG
1 GATTTTAAGGGGTTTCG
*
4289512 AATTTTAA-GGGTTT-G
1 GATTTTAAGGGGTTTCG
* * *
4289527 GA-TTTAAGAGATTTTG
1 GATTTTAAGGGGTTTCG
*
4289543 GATTTTTAGGGGTTTCG
1 GATTTTAAGGGGTTTCG
* * *
4289560 GATTTT-A-TGATTTTG
1 GATTTTAAGGGGTTTCG
* * *
4289575 GACTTTAGGGGGTTTTG
1 GATTTTAAGGGGTTTCG
4289592 GATTTTAAGGG
1 GATTTTAAGGG
4289603 TTTTAGAAAC
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.07
15 16 0.24
16 15 0.22
17 32 0.47
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.46
Consensus pattern (17 bp):
GATTTTAAGGGGTTTCG
Found at i:4289523 original size:47 final size:48
Alignment explanation
Indices: 4289472--4289566 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
4289462 TGAAAGGTTT
* *
4289472 AGGGTTTTGATTTTAGAG-TTTAAAGA-TTTTAGGGGTTTCGAATTTTA
1 AGGGTTTGGATTTAAGAGATTT-AAGATTTTTAGGGGTTTCGAATTTTA
** *
4289519 AGGGTTTGGATTTAAGAGATTTTGGATTTTTAGGGGTTTCGGATTTTA
1 AGGGTTTGGATTTAAGAGATTTAAGATTTTTAGGGGTTTCGAATTTTA
4289567 TGATTTTGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 18 0.44
48 23 0.56
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.46
Consensus pattern (48 bp):
AGGGTTTGGATTTAAGAGATTTAAGATTTTTAGGGGTTTCGAATTTTA
Found at i:4289565 original size:48 final size:49
Alignment explanation
Indices: 4289498--4289602 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 49
4289488 AGTTTAAAGA
*
4289498 TTTTAGGGGTTTCGAATTTTAAGGGTTTGGA-TTTAAGAGATTTTGGAT
1 TTTTAGGGGTTTCGAATTTTAAGAGTTTGGACTTTAAGAGATTTTGGAT
* * * * * *
4289546 TTTTAGGGGTTTCGGATTTTATGATTTTGGACTTTAGGGGGTTTTGGAT
1 TTTTAGGGGTTTCGAATTTTAAGAGTTTGGACTTTAAGAGATTTTGGAT
*
4289595 TTTAAGGG
1 TTTTAGGG
4289603 TTTTAGAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 27 0.56
49 21 0.44
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (49 bp):
TTTTAGGGGTTTCGAATTTTAAGAGTTTGGACTTTAAGAGATTTTGGAT
Found at i:4289605 original size:16 final size:16
Alignment explanation
Indices: 4289496--4289606 Score: 84
Period size: 16 Copynumber: 6.9 Consensus size: 16
4289486 AGAGTTTAAA
* *
4289496 GATTTTAGGGGTTTCG
1 GATTTTAAGGGTTTTG
*
4289512 AATTTTAAGGG-TTTG
1 GATTTTAAGGGTTTTG
*
4289527 GA-TTTAAGAGATTTTG
1 GATTTTAAG-GGTTTTG
* *
4289543 GATTTTTAGGGGTTTCG
1 GA-TTTTAAGGGTTTTG
* *
4289560 GATTTT-ATGATTTTG
1 GATTTTAAGGGTTTTG
* *
4289575 GACTTTAGGGGGTTTTG
1 GATTTTA-AGGGTTTTG
4289592 GATTTTAAGGGTTTT
1 GATTTTAAGGGTTTT
4289607 AGAAACCTAG
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 6 0.08
15 15 0.21
16 26 0.37
17 19 0.27
18 5 0.07
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.48
Consensus pattern (16 bp):
GATTTTAAGGGTTTTG
Found at i:4289834 original size:16 final size:16
Alignment explanation
Indices: 4289810--4289840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4289800 ACATCTAGGC
*
4289810 GAAATTATTTTTTTAA
1 GAAAATATTTTTTTAA
4289826 GAAAATATTTTTTTA
1 GAAAATATTTTTTTA
4289841 TTCCCTCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
GAAAATATTTTTTTAA
Found at i:4290017 original size:15 final size:14
Alignment explanation
Indices: 4289999--4290053 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 14
4289989 ATGCAAGAAT
4289999 AAATAAAAAAACTCA
1 AAATAAAAAAA-TCA
4290014 AAATAACAAAAAT-A
1 AAATAA-AAAAATCA
4290028 ATAATATAAAAAATTCA
1 A-AATA-AAAAAA-TCA
4290045 AAA-AAAAAA
1 AAATAAAAAA
4290054 TTTTTTTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 7 0.20
15 17 0.49
16 9 0.26
17 2 0.06
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAAAAAATCA
Found at i:4290590 original size:7 final size:8
Alignment explanation
Indices: 4290565--4290604 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
4290555 GAGCTCAAAG
*
4290565 TTTCTGTT
1 TTTCTTTT
*
4290573 TCTCTTTT
1 TTTCTTTT
4290581 TTTCTTTT
1 TTTCTTTT
4290589 TTTCTTTT
1 TTTCTTTT
*
4290597 TTTGTTTT
1 TTTCTTTT
4290605 GTTTTGTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:4295156 original size:19 final size:19
Alignment explanation
Indices: 4295132--4295168 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4295122 TTTATACAGG
4295132 CTGAGAAATGCAAAAACAT
1 CTGAGAAATGCAAAAACAT
4295151 CTGAGAAATGCAAAAACA
1 CTGAGAAATGCAAAAACA
4295169 ACAGTGACAA
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:0.54, C:0.16, G:0.16, T:0.14
Consensus pattern (19 bp):
CTGAGAAATGCAAAAACAT
Found at i:4299219 original size:22 final size:21
Alignment explanation
Indices: 4299192--4299241 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4299182 ATAAATATTG
4299192 AAAATTAAATTTCAATTTTAAT
1 AAAATTAAATTTCAATTTT-AT
* * *
4299214 AAAATTCAGTTTTAATTTTAT
1 AAAATTAAATTTCAATTTTAT
4299235 AATAATT
1 AA-AATT
4299242 TAACTGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAATTAAATTTCAATTTTAT
Found at i:4309014 original size:23 final size:23
Alignment explanation
Indices: 4308984--4309051 Score: 136
Period size: 23 Copynumber: 3.0 Consensus size: 23
4308974 TAATTAATAA
4308984 AGTAACAATCAAGACATAAATGT
1 AGTAACAATCAAGACATAAATGT
4309007 AGTAACAATCAAGACATAAATGT
1 AGTAACAATCAAGACATAAATGT
4309030 AGTAACAATCAAGACATAAATG
1 AGTAACAATCAAGACATAAATG
4309052 GGTAATGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (23 bp):
AGTAACAATCAAGACATAAATGT
Found at i:4310139 original size:25 final size:25
Alignment explanation
Indices: 4310109--4310175 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
4310099 TATTAATATA
4310109 ATTATTAAAATATTAAAAAATATTT
1 ATTATTAAAATATTAAAAAATATTT
** *
4310134 ATTATTAAAATATATTGAAATTATTT
1 ATTATTAAAATAT-TAAAAAATATTT
*
4310160 ATTATTAAATTATTAA
1 ATTATTAAAATATTAA
4310176 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.40
26 21 0.60
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAAATATTT
Found at i:4310181 original size:14 final size:15
Alignment explanation
Indices: 4310145--4310182 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4310135 TTATTAAAAT
4310145 ATATTGAAATTATTTA
1 ATATT-AAATTATTTA
*
4310161 TTATTAAATTA-TTA
1 ATATTAAATTATTTA
4310175 ATATTAAA
1 ATATTAAA
4310183 AAATAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
15 6 0.30
16 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATATTAAATTATTTA
Found at i:4310302 original size:23 final size:22
Alignment explanation
Indices: 4310269--4310439 Score: 111
Period size: 23 Copynumber: 7.5 Consensus size: 22
4310259 ATTATTCTTT
4310269 ATATTATTTATTAATATATTATA
1 ATATTA-TTATTAATATATTATA
4310292 ATATTACTTATTAATATATTATA
1 ATATTA-TTATTAATATATTATA
*
4310315 ATATGATTTATTAATAGTA-TAT-
1 ATATTA-TTATTAATA-TATTATA
4310337 -TA-T-TTATTAATATATTATA
1 ATATTATTATTAATATATTATA
* * * *
4310356 TTAATAATATATAATTTATTCATATA
1 ATATTATTAT-TAATATA-T--TATA
*
4310382 ATATTACTTATTAATATGTTATA
1 ATATTA-TTATTAATATATTATA
* *
4310405 ATATAATATTATTTATTTATTA-A
1 ATAT--TATTATTAATATATTATA
*
4310428 TATAATATTATT
1 -ATATTATTATT
4310440 TATAAATAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
17 2 0.02
18 12 0.10
20 2 0.02
21 3 0.03
22 10 0.08
23 54 0.45
24 17 0.14
25 3 0.03
26 13 0.11
27 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTATTATTAATATATTATA
Found at i:4310341 original size:18 final size:17
Alignment explanation
Indices: 4310268--4310447 Score: 100
Period size: 18 Copynumber: 11.0 Consensus size: 17
4310258 TATTATTCTT
4310268 TATATTATTTATT-A-A
1 TATATTATTTATTAATA
* *
4310283 TATATTATAATATTACT-
1 TATATTAT-TTATTAATA
* *
4310300 TAT-TAATATATT-ATA
1 TATATTATTTATTAATA
*
4310315 -ATATGATTTATTAATA
1 TATATTATTTATTAATA
4310331 GTATATTATTTATT-A-A
1 -TATATTATTTATTAATA
4310347 TATATTA--TATTAATAA
1 TATATTATTTATTAAT-A
* *
4310363 TATATAATTTATTCATA
1 TATATTATTTATTAATA
*
4310380 TAATATTACTTATT-A-A
1 T-ATATTATTTATTAATA
* *
4310396 TATGTTA-TAATATAATA
1 TATATTATTTAT-TAATA
4310413 T-TATTTATTTATTAATA
1 TATA-TTATTTATTAATA
*
4310430 TAATATTATTTATAAATA
1 T-ATATTATTTATTAATA
4310448 AAATTATATT
Statistics
Matches: 128, Mismatches: 16, Indels: 39
0.70 0.09 0.21
Matches are distributed among these distances:
13 4 0.03
14 7 0.05
15 33 0.26
16 22 0.17
17 18 0.14
18 42 0.33
19 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:4310353 original size:49 final size:48
Alignment explanation
Indices: 4310269--4310456 Score: 161
Period size: 49 Copynumber: 3.9 Consensus size: 48
4310259 ATTATTCTTT
* * * * *
4310269 ATATTATTTATTAATATATTA-TA-ATATTACT-TATTAATATATTATA
1 ATATAATTTATTAATATAATATTATTTATTAATATATT-ATATATAATA
*
4310315 ATATGATTTATTAATAGT-ATATTATTTATTAATATATTATAT-TAATAA
1 ATATAATTTATTAATA-TAATATTATTTATTAATATATTATATATAAT-A
* * *
4310363 TATATAATTTATTCATATAATATTACTTATTAATATGTTATAATATAATA
1 -ATATAATTTATTAATATAATATTATTTATTAATATATTAT-ATATAATA
* * * *
4310413 TTATTTATTTATTAATATAATATTATTTATAAATAAAATTATAT
1 ATA-TAATTTATTAATATAATATTATTTATTAAT-ATATTATAT
4310457 TCAAAAGTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
46 17 0.15
47 6 0.05
48 12 0.10
49 40 0.35
50 31 0.27
51 9 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (48 bp):
ATATAATTTATTAATATAATATTATTTATTAATATATTATATATAATA
Found at i:4310439 original size:46 final size:48
Alignment explanation
Indices: 4310269--4310439 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 48
4310259 ATTATTCTTT
* * *
4310269 ATATTATTTATTAATATATTATAATA-TTACTT-AT-TAATATATTATA
1 ATATTATTTATTTATATAATATAATACTTA-TTAATATATTATATTATA
* * * *
4310315 ATATGATTTA-TTA-ATAGTATATTATTTATTAATATATTATATTAATA
1 ATATTATTTATTTATATAATATAATACTTATTAATATATTATATT-ATA
* * *
4310362 ATATATAATTTATTCATATAATAT--TACTTATTAATATGTTATAATATA
1 ATAT-T-ATTTATTTATATAATATAATACTTATTAATATATTATATTATA
4310410 ATATTATTTATTTAT-TAATATAATA-TTATT
1 ATATTATTTATTTATATAATATAATACTTATT
4310440 TATAAATAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.11
45 13 0.13
46 31 0.30
47 10 0.10
48 7 0.07
49 23 0.22
50 2 0.02
51 6 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (48 bp):
ATATTATTTATTTATATAATATAATACTTATTAATATATTATATTATA
Found at i:4310457 original size:18 final size:19
Alignment explanation
Indices: 4310400--4310454 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
4310390 TATTAATATG
*
4310400 TTATAATATAATATTATTTAT
1 TTATAA-ATAAAATTA-TTAT
* *
4310421 TTATTAATATAA-TATTAT
1 TTATAAATAAAATTATTAT
4310439 TTATAAATAAAATTAT
1 TTATAAATAAAATTAT
4310455 ATTCAAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 14 0.50
19 5 0.18
20 4 0.14
21 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAAATAAAATTATTAT
Found at i:4314707 original size:2 final size:2
Alignment explanation
Indices: 4314700--4314732 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4314690 CCTAGTCCGA
*
4314700 AT AT AT AT AT AT AT AT AT AT AT TT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4314733 GTTGATTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:4318034 original size:48 final size:48
Alignment explanation
Indices: 4317982--4318082 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
4317972 TGAGTACCTA
* *
4317982 TTTTTTAAACTAGGACTGTACACCATGATTGATGATAATGTCAGCAAG
1 TTTTTTAAACTAGGACTCTACACCATGATTGATAATAATGTCAGCAAG
4318030 TTTTTTAAACTAGGACTCTACACCATGATTGATAATAATGTCAGCAAG
1 TTTTTTAAACTAGGACTCTACACCATGATTGATAATAATGTCAGCAAG
4318078 TTTTT
1 TTTTT
4318083 CCAATCAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (48 bp):
TTTTTTAAACTAGGACTCTACACCATGATTGATAATAATGTCAGCAAG
Found at i:4319493 original size:22 final size:22
Alignment explanation
Indices: 4319468--4319516 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
4319458 CCCGAAATTA
4319468 ATAAAATA-TTATTTTTTAAAAT
1 ATAAAATATTTATTTTTT-AAAT
4319490 ATAAAATATTTATTTTTTAAAT
1 ATAAAATATTTATTTTTTAAAT
4319512 ATAAA
1 ATAAA
4319517 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTTATTTTTTAAAT
Found at i:4319525 original size:30 final size:32
Alignment explanation
Indices: 4319507--4319566 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
4319497 ATTTATTTTT
4319507 TAAATATA-A-ATAATTAAAAATATAATTATA
1 TAAATATATATATAATTAAAAATATAATTATA
4319537 TAAATATATATATAATTAAATAAT-TAATTA
1 TAAATATATATATAATTAAA-AATATAATTA
4319567 AAAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 8 0.30
31 1 0.04
32 15 0.56
33 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
TAAATATATATATAATTAAAAATATAATTATA
Found at i:4319557 original size:16 final size:15
Alignment explanation
Indices: 4319506--4319558 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
4319496 TATTTATTTT
4319506 TTAAATATA-AATAA
1 TTAAATATATAATAA
* *
4319520 TTAAAAATATAATTA
1 TTAAATATATAATAA
4319535 TATAAATATATATATAA
1 T-TAAATATATA-ATAA
4319552 TTAAATA
1 TTAAATA
4319559 ATTAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.25
15 5 0.16
16 15 0.47
17 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAATATATAATAA
Found at i:4324155 original size:36 final size:35
Alignment explanation
Indices: 4324090--4324168 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
4324080 AAATATAATT
*
4324090 AATATTTGAAGTCAGTTGTACGTTGATGCCCATAAA
1 AATATTTGAAGTCAGTTGTACATTGATGCCCA-AAA
* * * *
4324126 AATGTTTGTAGTCAGTTGTATATTTATGCCCAAAA
1 AATATTTGAAGTCAGTTGTACATTGATGCCCAAAA
4324161 AATATTTG
1 AATATTTG
4324169 GTTTATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 10 0.27
36 27 0.73
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (35 bp):
AATATTTGAAGTCAGTTGTACATTGATGCCCAAAA
Found at i:4328949 original size:332 final size:328
Alignment explanation
Indices: 4328171--4329101 Score: 1244
Period size: 331 Copynumber: 2.8 Consensus size: 328
4328161 TGAATGCGGC
* * * *
4328171 TTATAATAAAAGACACATTTAATAATCCGAAAAAATTTTTTTGGAAAAA-TATTAAAGGCA-TTG
1 TTATAAT-AAAGACGCCTTTAATAATCCG-AAAAATTTTATTAGAAAAATTATTAAAGG-AGTTG
* ** * * *
4328234 TTATCTGAAACTGCCTTCAGTAATTATATACAAACTATGATAGAAATTATTAAATGCATTTATCT
63 TTTTCTGAAACCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGCATCTATCT
* * *
4328299 TAAATATACACCTTCAATAACAGTGTTACAATTTTTGTGGTGGTATAT-GAAGGTATTTTACAGT
128 TAAATATA-TCCTTCAATAACAGTGTTACAATTTGTGTGGT-GTATATAGAAGGTATTTTATAGT
* * * * *
4328363 AGAAGATACCTTTACTAATTCCCAAAATATTTAGTGAGAAATTTTTGAAAGCAAATGTTATTAAC
191 AGAAGATGCCTTTACTAATT-CCAAAATATTTAGTGAAAAAATTTTGAAGGCATATGTTATTAAC
*
4328428 AAACGCCTTCAGCAATTGAAGGTACCTTTTCTAATAAACGCCTTCCATTACCATCGTGGCATATT
255 AAACGCCTTCAGCAATTGAAGGTACCTTTTCTAATAAACGCCTTCCATTACCATCGTGGCATATC
*
4328493 GAAGGCGTT
320 GAAAGCGTT
* * *
4328502 TTATAATAAAGACGCCTTTAATAATCCTGAAAACTTTTATTA-AGAAAATTATTGAAGGTGTTGT
1 TTATAATAAAGACGCCTTTAATAATCC-GAAAAATTTTATTAGA-AAAATTATTAAAGGAGTTGT
* *
4328566 TTTCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGCATCTCTCTT
64 TTTCTGAAACCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTT
* * *
4328631 AAATATATGCCTTTAATAACAATGTTACAATTTGTGTGGTAGTATATAAAAGGTATTTTATAGTA
129 AAATATAT-CCTTCAATAACAGTGTTACAATTTGTGTGGT-GTATATAGAAGGTATTTTATAGTA
* *
4328696 GAAGACGCCTTTACTAATTCCAAAATATTTAGTGAAAAAATTTTGATGGCATATGTTATTAACAA
192 GAAGATGCCTTTACTAATTCCAAAATATTTAGTGAAAAAATTTTGAAGGCATATGTTATTAACAA
* * * * * *
4328761 ACACCTTTAGTAATTGAAGG-CCCATTTTCTAATAAATGCCTTCCATTACCATCGTGGTATATCG
257 ACGCCTTCAGCAATTGAAGGTACC-TTTTCTAATAAACGCCTTCCATTACCATCGTGGCATATCG
4328825 AAAGCGTT
321 AAAGCGTT
*
4328833 TTATAATGAAAGACGCCTTTAGTAATCCGACAAAATTTTATTAGAAAAATTATTAAAGGAGTTGT
1 TTATAAT-AAAGACGCCTTTAATAATCCGA-AAAATTTTATTAGAAAAATTATTAAAGGAGTTGT
* * *
4328898 TTTCTGAAACCACCTTTAGTAATTATATACAAACTGTGAGAGAAATTATTAAAGGCGTCTATCTT
64 TTTCTGAAACCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTT
* *
4328963 AAATATACTCATTCAATAACAGTGTTACAATTTGTGTAGTGATATATAGAAGGTATTTTATAGTA
129 AAATATA-TCCTTCAATAACAGTGTTACAATTTGTGTGGTG-TATATAGAAGGTATTTTATAGTA
* * * * *
4329028 GAAGATGCATTTAATAATTTCCAAAATATTTAGTGGAAAAATTTTGAAGGCGTCTGTT-TCTAAC
192 GAAGATGCCTTTACTAA-TTCCAAAATATTTAGTGAAAAAATTTTGAAGGCATATGTTAT-TAAC
4329092 AAACGCCTTC
255 AAACGCCTTC
4329102 TGTAATGGAT
Statistics
Matches: 526, Mismatches: 60, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
329 1 0.00
330 34 0.06
331 230 0.44
332 211 0.40
333 50 0.10
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (328 bp):
TTATAATAAAGACGCCTTTAATAATCCGAAAAATTTTATTAGAAAAATTATTAAAGGAGTTGTTT
TCTGAAACCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAGGCATCTATCTTAA
ATATATCCTTCAATAACAGTGTTACAATTTGTGTGGTGTATATAGAAGGTATTTTATAGTAGAAG
ATGCCTTTACTAATTCCAAAATATTTAGTGAAAAAATTTTGAAGGCATATGTTATTAACAAACGC
CTTCAGCAATTGAAGGTACCTTTTCTAATAAACGCCTTCCATTACCATCGTGGCATATCGAAAGC
GTT
Found at i:4333124 original size:30 final size:30
Alignment explanation
Indices: 4333088--4333171 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
4333078 TCGGTCCGGT
* *
4333088 GGTTCGGCTCGGTCTGGACGGTTCAATACC
1 GGTTCGGTTCGGTCTGGGCGGTTCAATACC
4333118 GGTTCGGTTCGGTCTGGGCGGTTCAATACC
1 GGTTCGGTTCGGTCTGGGCGGTTCAATACC
* *
4333148 GATTTGGTTCGGTCTGGGCGGTTC
1 GGTTCGGTTCGGTCTGGGCGGTTC
4333172 GGTTCCGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.10, C:0.23, G:0.37, T:0.31
Consensus pattern (30 bp):
GGTTCGGTTCGGTCTGGGCGGTTCAATACC
Found at i:4334329 original size:46 final size:46
Alignment explanation
Indices: 4334219--4335033 Score: 1110
Period size: 46 Copynumber: 17.8 Consensus size: 46
4334209 TTGAAAGTTT
4334219 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-T-TATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCT-TG
* *
4334264 AAAAGGCTCATCTCAGCAGAGGCTCAACGACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * *
4334310 AAAAGGCTCATCTCAGCAGAGACTCAATAACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
*
4334356 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
*
4334401 AAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
4334447 AAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * * * *
4334492 AAAAGACTTCTCTCAGTAGAGGCTCAACGACTTTAAAATTCTTTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * *
4334538 AAAAGGCTCCTTTCGGCAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* ** **
4334583 AAAAGGCTCTTCTCAATAGAGGCTCAATGACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
4334629 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
4334675 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * *
4334721 AAAATGTTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* ** *
4334766 AAAAGGCTCTTCTCAATAGAGGCTCAACGACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
4334812 AAGAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
** **
4334857 AAAAGGCTCCTCTCAATAGAGGCTTC-ATGACTTTAAAATTCTCTTG
1 AAAAGGCTCCTCTCAGCAGAGGC-TCAACAACTTTAAAATTCTCTTG
* *
4334903 AAAAGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * * * *
4334948 AAAAAGCTCCTCTCAACAAAGGCTCCATAACTTTAAAATTCATCTTGG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTT-G
* *
4334996 AAAA-GCTCCTCTCAGCAGAGGCTCAACGATTTTAAAAT
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
4335034 CTTCATCTGT
Statistics
Matches: 673, Mismatches: 85, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
45 272 0.40
46 364 0.54
47 32 0.05
48 5 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (46 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
Found at i:4334336 original size:91 final size:91
Alignment explanation
Indices: 4334219--4335035 Score: 1183
Period size: 91 Copynumber: 9.0 Consensus size: 91
4334209 TTGAAAGTTT
* * *
4334219 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-T-TATGAAAAGGCTCATCTCAGCA
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCT-TGAAAAGGCTCCTCTCAGCA
* *
4334282 GAGGCTCAACGACTTTAAAATTCTCTTG
65 GAGGCTCAACAACTTTAAAA-TCTCATG
* * *
4334310 AAAAGGCTCATCTCAGCAGAGACTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
*
4334375 AGGCTCAACAACTTTAAAATTTCATG
66 AGGCTCAACAACTTTAAAATCTCATG
* * * *
4334401 AAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGTAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
4334466 AGGCTCAACAACTTTAAAATCTCATG
66 AGGCTCAACAACTTTAAAATCTCATG
* * ** * * *
4334492 AAAAGACTTCTCTCAGTAGAGGCTCAACGACTTTAAAATTCTTTTGAAAAGGCTCCTTTCGGCAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
4334557 AGGCTCAACAACTTTAAAATCTCATG
66 AGGCTCAACAACTTTAAAATCTCATG
* * *
4334583 AAAAGGCTCTTCTCAATAGAGGCTCAATGACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
*
4334648 AGGCTCAACAACTTTAAAATTCTCTTG
66 AGGCTCAACAACTTTAAAA-TCTCATG
* *
4334675 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAATGTTCCTCTCAGCAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
4334740 AGGCTCAACAACTTTAAAATCTCATG
66 AGGCTCAACAACTTTAAAATCTCATG
* * ** *
4334766 AAAAGGCTCTTCTCAATAGAGGCTCAACGACTTTAAAATTCTCTTGAAGAGGCTCCTCTCAGCAG
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
4334831 AGGCTCAACAACTTTAAAATCTCATG
66 AGGCTCAACAACTTTAAAATCTCATG
* * *
4334857 AAAAGGCTCCTCTCAATAGAGGCTTC-ATGACTTTAAAATTCTCTTGAAAAGGCTTCTCTCAGCA
1 AAAAGGCTCCTCTCAGTAGAGGC-TCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCA
4334921 GAGGCTCAACAACTTTAAAATCTCATG
65 GAGGCTCAACAACTTTAAAATCTCATG
* ** * *
4334948 AAAAAGCTCCTCTCAACAAAGGCTCCATAACTTTAAAATTCATCTTGGAAAA-GCTCCTCTCAGC
1 AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTC-TCTT-GAAAAGGCTCCTCTCAGC
* *
4335012 AGAGGCTCAACGATTTTAAAATCT
64 AGAGGCTCAACAACTTTAAAATCT
4335036 TCATCTGTTT
Statistics
Matches: 664, Mismatches: 55, Indels: 13
0.91 0.08 0.02
Matches are distributed among these distances:
90 2 0.00
91 493 0.74
92 163 0.25
93 6 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (91 bp):
AAAAGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAATCTCATG
Found at i:4334423 original size:137 final size:138
Alignment explanation
Indices: 4334219--4335021 Score: 1111
Period size: 137 Copynumber: 5.9 Consensus size: 138
4334209 TTGAAAGTTT
* *
4334219 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TTATGAAAAGGCTCATCTCAGCAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* * *
4334283 AGGCTCAACGACTTTAAAATTCTCTTGAAAAGGCTCATCTCAGCAGAGACTCAATAACTTTAAAA
66 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
4334348 TTCTCTTG
131 TTCTCTTG
*
4334356 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TCATGAAAAGGCTCCTCTTAGCAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* *
4334420 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAA
66 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
*
4334485 -TCTCATG
131 TTCTCTTG
* * * * ** * *
4334492 AAAAGACTTCTCTCAGTAGAGGCTCAACGACTTTAAAATTCTTTTGAAAAGGCTCCTTTCGGCAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* * ** *
4334557 AGGCTCAACAACTTTAAAA-TCTCATGAAAAGGCTCTTCTCAATAGAGGCTCAATGACTTTAAAA
66 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
4334621 TTCTCTTG
131 TTCTCTTG
* *
4334629 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGTAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* * * *
4334694 AGGCTCAATAACTTTAAAATTCTCTTGAAAATGTTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
66 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
*
4334759 -TCTCATG
131 TTCTCTTG
* ** * * *
4334766 AAAAGGCTCTTCTCAATAGAGGCTCAACGACTTTAAAATTCTCTTGAAGAGGCTCCTCTCAGCAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* ** *
4334831 AGGCTCAACAACTTTAAAA-TCTCATGAAAAGGCTCCTCTCAATAGAGGCTTC-ATGACTTTAAA
66 AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGC-TCAATAACTTTAAA
4334894 ATTCTCTTG
130 ATTCTCTTG
* * * *
4334903 AAAAGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATGAAAAAGCTCCTCTCAACAA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
* *
4334967 AGGCTCCATAACTTTAAAATTCATCTTGGAAAA-GCTCCTCTCAGCAGAGGCTCAA
66 AGGCTCAACAACTTTAAAATTC-TCTT-GAAAAGGCTCCTCTCAGCAGAGGCTCAA
4335022 CGATTTTAAA
Statistics
Matches: 585, Mismatches: 72, Indels: 17
0.87 0.11 0.03
Matches are distributed among these distances:
136 155 0.26
137 368 0.63
138 57 0.10
139 5 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (138 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATGAAAAGGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAATTCTCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
TTCTCTTG
Found at i:4337996 original size:55 final size:55
Alignment explanation
Indices: 4337912--4338181 Score: 261
Period size: 55 Copynumber: 5.0 Consensus size: 55
4337902 AACAATCAAG
4337912 ACATAAAT-GAGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
1 ACATAAATAG-GACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
* *
4337967 ACATAAATAGGACGTTGCACTTAACATCAGGTAGAATGAACAACTCATTCTT--A
1 ACATAAATAGGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
** * * ** * ** *
4338020 ACATCAGGTA-GA--ATGAAC--AAC-TCATTCTTAAAACATAAAACTCATTCTTAAA
1 ACAT-AAATAGGACGTTGCACTTAACATCAGGCAT-AATGA-ACAACTCATTCTTAAA
* * *
4338072 ACATAAATGGGACGGTGCACTTAACATCAGGTATAATGAACAACTCATTCTTAAA
1 ACATAAATAGGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
* * * * *
4338127 ACATAAATGGGAGGTTGAACATAACATCAGGCATAATGAACAAGTCATTCTTAAA
1 ACATAAATAGGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
4338182 CAAGGTCTTC
Statistics
Matches: 171, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
48 3 0.02
49 6 0.04
50 12 0.07
51 6 0.04
52 7 0.04
53 7 0.04
54 7 0.04
55 112 0.65
56 7 0.04
57 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (55 bp):
ACATAAATAGGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAA
Found at i:4338022 original size:30 final size:30
Alignment explanation
Indices: 4337986--4338050 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
4337976 GGACGTTGCA
4337986 CTTAACATCAGGTAGAATGAACAACTCATT
1 CTTAACATCAGGTAGAATGAACAACTCATT
4338016 CTTAACATCAGGTAGAATGAACAACTCATT
1 CTTAACATCAGGTAGAATGAACAACTCATT
4338046 CTTAA
1 CTTAA
4338051 AACATAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (30 bp):
CTTAACATCAGGTAGAATGAACAACTCATT
Found at i:4338063 original size:20 final size:20
Alignment explanation
Indices: 4338038--4338078 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4338028 TAGAATGAAC
4338038 AACTCATTCTTAAAACATAA
1 AACTCATTCTTAAAACATAA
4338058 AACTCATTCTTAAAACATAA
1 AACTCATTCTTAAAACATAA
4338078 A
1 A
4338079 TGGGACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (20 bp):
AACTCATTCTTAAAACATAA
Found at i:4338162 original size:105 final size:104
Alignment explanation
Indices: 4337912--4338162 Score: 249
Period size: 105 Copynumber: 2.3 Consensus size: 104
4337902 AACAATCAAG
* * * *
4337912 ACATAAATGAGACGTTGCACTTAACATCAGGCATAATGAACAACTCATTCTTAAAACATAAATAG
1 ACATAAATGGGAGGTTGAACATAACATCAGGC---AT-AACAACTCATTCTTAAAACATAAATAG
*
4337977 GACGTTGCACTTAACATCAGGTAGAATGAACAACTCATTCTTA
62 GACGGTGCACTTAACATCAGGTAGAATGAACAACTCATTCTTA
* * ** * ** *
4338020 ACAT-CA-GGTAGAATGAACA-ACTCATTCTTAAAACATAA-AACTCATTCTTAAAACATAAATG
1 ACATAAATGGGAGGTTGAACATA-ACA-TC---AGGCATAACAACTCATTCTTAAAACATAAATA
*
4338081 GGACGGTGCACTTAACATCAGGTATAATGAACAACTCATTCTTAAA
61 GGACGGTGCACTTAACATCAGGTAGAATGAACAACTCATTCTT--A
4338127 ACATAAATGGGAGGTTGAACATAACATCAGGCATAA
1 ACATAAATGGGAGGTTGAACATAACATCAGGCATAA
4338163 TGAACAAGTC
Statistics
Matches: 112, Mismatches: 21, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
105 70 0.62
106 10 0.09
107 10 0.09
108 7 0.06
109 12 0.11
110 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (104 bp):
ACATAAATGGGAGGTTGAACATAACATCAGGCATAACAACTCATTCTTAAAACATAAATAGGACG
GTGCACTTAACATCAGGTAGAATGAACAACTCATTCTTA
Found at i:4353037 original size:22 final size:22
Alignment explanation
Indices: 4352982--4353042 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
4352972 GCTATTGCCA
*
4352982 CCCCC-GACCAGCCACCCTACAG
1 CCCCCTGACCAG-CTCCCTACAG
*
4353004 CCCCCTG-TCAGCTCCCTGAC-G
1 CCCCCTGACCAGCTCCCT-ACAG
4353025 CCCCCTGACCAGCTCCCT
1 CCCCCTGACCAGCTCCCT
4353043 TTCAACCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.39
22 19 0.58
23 1 0.03
ACGTcount: A:0.15, C:0.57, G:0.15, T:0.13
Consensus pattern (22 bp):
CCCCCTGACCAGCTCCCTACAG
Found at i:4354421 original size:16 final size:17
Alignment explanation
Indices: 4354395--4354429 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4354385 CTAAGTTCTT
*
4354395 AAATCCCCTAAAATTCA
1 AAATCCCCTAAAATCCA
4354412 AAAT-CCCTAAAATCCA
1 AAATCCCCTAAAATCCA
4354428 AA
1 AA
4354430 CCCTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATCCCCTAAAATCCA
Found at i:4354438 original size:14 final size:14
Alignment explanation
Indices: 4354400--4354445 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
4354390 TTCTTAAATC
4354400 CCCTAAAATTCAAAA
1 CCCTAAAA-TCAAAA
*
4354415 TCCCTAAAATCCAAA
1 -CCCTAAAATCAAAA
*
4354430 CCCTTAAATCAAAA
1 CCCTAAAATCAAAA
4354444 CC
1 CC
4354446 TCAAACCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 5 0.19
16 8 0.30
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAAATCAAAA
Found at i:4354472 original size:29 final size:29
Alignment explanation
Indices: 4354440--4354500 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
4354430 CCCTTAAATC
*
4354440 AAAACCT-CAAAC-CGTAAAACCCAAACCCT
1 AAAACCTCCAAACTC-TAAAA-CCAAAACCT
*
4354469 AAAATCTCCAAACTCTAAAACCAAAACCT
1 AAAACCTCCAAACTCTAAAACCAAAACCT
4354498 AAA
1 AAA
4354501 CCTTCCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 17 0.61
30 10 0.36
31 1 0.04
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (29 bp):
AAAACCTCCAAACTCTAAAACCAAAACCT
Found at i:4354481 original size:16 final size:14
Alignment explanation
Indices: 4354440--4354500 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 14
4354430 CCCTTAAATC
*
4354440 AAAACCTCAAACCGT
1 AAAACC-CAAACCCT
4354455 AAAACCCAAACCCT
1 AAAACCCAAACCCT
*
4354469 AAAATCTCCAAACTCT
1 AAAA-C-CCAAACCCT
*
4354485 AAAA-CCAAAACCT
1 AAAACCCAAACCCT
4354498 AAA
1 AAA
4354501 CCTTCCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 10 0.25
14 11 0.28
15 7 0.17
16 12 0.30
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (14 bp):
AAAACCCAAACCCT
Found at i:4362510 original size:33 final size:33
Alignment explanation
Indices: 4362454--4362733 Score: 217
Period size: 33 Copynumber: 8.6 Consensus size: 33
4362444 AAAAAAAAAA
* *
4362454 CTTTAAGCCCAATTTATCT-GCCATTAATGAAG
1 CTTTAAGCCTAGTTTATCTGGCCATTAATGAAG
* * *
4362486 CTTCAAGCCTAGTTTACCTGGCCATCAATG-AG
1 CTTTAAGCCTAGTTTATCTGGCCATTAATGAAG
* * *
4362518 ACTTTAAACCCAGTTTATATGGCTCA--AAT-AAGG
1 -CTTTAAGCCTAGTTTATCTGGC-CATTAATGAA-G
4362551 CTTTAAGTCC-AGTTTATCTGGCC-TTAAATGAAG
1 CTTTAAG-CCTAGTTTATCTGGCCATT-AATGAAG
* * *
4362584 ATTTAAGCCTAATTTATTTGGCCATTAATGAAG
1 CTTTAAGCCTAGTTTATCTGGCCATTAATGAAG
* *
4362617 CTTTAAACCTAGTTTATCTGGCTCA--AATGAGG
1 CTTTAAGCCTAGTTTATCTGGC-CATTAATGAAG
* *
4362649 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCTAGTTTATCTGGCCAT-TAATGAAG
* * * *
4362682 ATCTAAGCCTAGTTTATCTAGCCATCAATGATA-
1 CTTTAAGCCTAGTTTATCTGGCCATTAATGA-AG
4362715 -TTTAAG-CTCAGTTTATCTG
1 CTTTAAGCCT-AGTTTATCTG
4362734 ACCTCAAATG
Statistics
Matches: 199, Mismatches: 30, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
31 4 0.02
32 80 0.40
33 105 0.53
34 10 0.05
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCTAGTTTATCTGGCCATTAATGAAG
Found at i:4362572 original size:65 final size:64
Alignment explanation
Indices: 4362455--4362800 Score: 283
Period size: 65 Copynumber: 5.3 Consensus size: 64
4362445 AAAAAAAAAC
* * *
4362455 TTTAAGCCCAATTTATCT-GC-CATTAATGAAGCTTCAAGCCTAGTTTACCTGGCCATCAATGAG
1 TTTAAGCCCAGTTTATCTGGCTCA--AATGAAGCTTTAAGCCTAGTTTATCTGGCCATCAATGAG
4362518 A
64 A
* * * *
4362519 CTTTAAACCCAGTTTATATGGCTCAAAT-AAGGCTTTAAGTCC-AGTTTATCTGGCCTTAAATGA
1 -TTTAAGCCCAGTTTATCTGGCTCAAATGAA-GCTTTAAG-CCTAGTTTATCTGGCCATCAATG-
4362582 AGA
62 AGA
* * * *
4362585 TTTAAGCCTAATTTATTTGGC-CATTAATGAAGCTTTAAACCTAGTTTATCTGG-C-TCAAATGA
1 TTTAAGCCCAGTTTATCTGGCTCA--AATGAAGCTTTAAGCCTAGTTTATCTGGCCATC-AATGA
*
4362647 GGC
63 -GA
* * * *
4362650 TTTAAGCCCAGTTTATCTGGCCTCAAATGAAGATCTAAGCCTAGTTTATCTAGCCATCAATGATA
1 TTTAAGCCCAGTTTATCTGG-CTCAAATGAAGCTTTAAGCCTAGTTTATCTGGCCATCAATGAGA
* * * * * * * * * * *
4362715 TTTAAGCTCAGTTTATCTGACCTCAAATGAGGTTTTAAGCCCAATTTAACTAGCCTTCAATAAAA
1 TTTAAGCCCAGTTTATCTG-GCTCAAATGAAGCTTTAAGCCTAGTTTATCTGGCCATCAATGAGA
*
4362780 TTTAAGCCCAGTTTATTTGGC
1 TTTAAGCCCAGTTTATCTGGC
4362801 CCTAAAAGAA
Statistics
Matches: 228, Mismatches: 37, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
64 7 0.03
65 178 0.78
66 35 0.15
67 8 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (64 bp):
TTTAAGCCCAGTTTATCTGGCTCAAATGAAGCTTTAAGCCTAGTTTATCTGGCCATCAATGAGA
Found at i:4362622 original size:98 final size:98
Alignment explanation
Indices: 4362454--4362801 Score: 393
Period size: 98 Copynumber: 3.6 Consensus size: 98
4362444 AAAAAAAAAA
* * *
4362454 CTTTAAGCCCAATTTATCT-GCCATT-AATGAAGCTTCAAGCCTAGTTTACCTGGCCATCAATG-
1 CTTTAAGCCCAATTTATCTGGCC-TTAAATGAAGATTTAAGCCTAGTTTATCTGGCCATCAATGA
* *
4362516 AGACTTTAAACCCAGTTTATATGGCTCAAATAAGG
65 AG-CTTTAAACCCAGTTTATCTGGCTCAAATGAGG
* * * * *
4362551 CTTTAAGTCCAGTTTATCTGGCCTTAAATGAAGATTTAAGCCTAATTTATTTGGCCATTAATGAA
1 CTTTAAGCCCAATTTATCTGGCCTTAAATGAAGATTTAAGCCTAGTTTATCTGGCCATCAATGAA
*
4362616 GCTTTAAACCTAGTTTATCTGGCTCAAATGAGG
66 GCTTTAAACCCAGTTTATCTGGCTCAAATGAGG
* * * *
4362649 CTTTAAGCCCAGTTTATCTGGCCTCAAATGAAGATCTAAGCCTAGTTTATCTAGCCATCAATGAT
1 CTTTAAGCCCAATTTATCTGGCCTTAAATGAAGATTTAAGCCTAGTTTATCTGGCCATCAATGA-
* * *
4362714 A--TTTAAGCTCAGTTTATCTGACCTCAAATGAGG
65 AGCTTTAAACCCAGTTTATCTG-GCTCAAATGAGG
* * * * * * *
4362747 TTTTAAGCCCAATTTAACTAGCCTTCAAT-AAAATTTAAGCCCAGTTTATTTGGCC
1 CTTTAAGCCCAATTTATCTGGCCTTAAATGAAGATTTAAGCCTAGTTTATCTGGCC
4362802 CTAAAAGAAG
Statistics
Matches: 213, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
97 56 0.26
98 154 0.72
99 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (98 bp):
CTTTAAGCCCAATTTATCTGGCCTTAAATGAAGATTTAAGCCTAGTTTATCTGGCCATCAATGAA
GCTTTAAACCCAGTTTATCTGGCTCAAATGAGG
Found at i:4363450 original size:119 final size:119
Alignment explanation
Indices: 4363323--4363626 Score: 511
Period size: 121 Copynumber: 2.5 Consensus size: 119
4363313 AAATCATTTT
* *
4363323 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTAAGATTTGTAAAACCT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTAAGATTTGTAAGACCT
*
4363388 GGGCATAATCTCCAAAAATCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCA
66 GGGCATAATCTCCAAAAACCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCA
*
4363442 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACTT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTAAGATTTGTAAGAC--
* *
4363507 CCGGGCATAATCTCTAAAAACCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCA
64 CTGGGCATAATCTCCAAAAACCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCA
* *
4363563 AATTTTAAA-TTTCATTGCCTCTTATTATGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCT
1 AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTAAGATTTGTAAGACCT
4363627 TCAGACATGA
Statistics
Matches: 173, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
118 1 0.01
119 60 0.35
120 50 0.29
121 62 0.36
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (119 bp):
AATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTAAGATTTGTAAGACCT
GGGCATAATCTCCAAAAACCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCA
Found at i:4363670 original size:22 final size:21
Alignment explanation
Indices: 4363614--4363678 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 21
4363604 AGATTTTAAA
* *
4363614 ATTTGTAAGACCTTCAGACATG
1 ATTTGTAAGACC-TCGGGCATG
4363636 ATTCTGTAAGACCTCCGGGCATG
1 ATT-TGTAAGACCT-CGGGCATG
*
4363659 ATTTCTAAGACCTCGGGCAT
1 ATTTGTAAGACCTCGGGCAT
4363679 AAATTTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 7 0.18
22 13 0.34
23 18 0.47
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (21 bp):
ATTTGTAAGACCTCGGGCATG
Found at i:4363792 original size:23 final size:22
Alignment explanation
Indices: 4363744--4363810 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
4363734 TATCCTAATC
* *
4363744 GATTCTGTAAGACTTCGAGCAT
1 GATTCTGTAAGACCTCGGGCAT
4363766 GATTCTGTAAGACCTCTGGGCAT
1 GATTCTGTAAGACCTC-GGGCAT
*
4363789 GATT-TCTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCT-CGGGCAT
4363811 AAATTCGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 30 0.75
23 10 0.25
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (22 bp):
GATTCTGTAAGACCTCGGGCAT
Found at i:4363863 original size:131 final size:132
Alignment explanation
Indices: 4363617--4363911 Score: 440
Period size: 131 Copynumber: 2.2 Consensus size: 132
4363607 TTTTAAAATT
4363617 TGTAAGACCTTC-AGACATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCGGGCATAA
1 TGTAAGA-CTTCGAGACATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCGGGCATAA
* * * *
4363681 ATTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTAGACTTGTGGTGTTATCCTAATCGA
65 ATTCGATTCACGATGTTATCCCGATCGATTCTTTATCTTTAGACTTGTGGTGTTATCCCAATCGA
4363746 TTC
130 TTC
*
4363749 TGTAAGACTTCGAG-CATGATTCTGTAAGACCTCTGGGCATGATTTCTAAGACCTCCGGGCATAA
1 TGTAAGACTTCGAGACATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCT-CGGGCATAA
* *
4363813 ATTCGATTCACG-TGTTATCCCGATCGATTCTTTATCTTTTA-ATTTTTGGTGTTATCCCAATCG
65 ATTCGATTCACGATGTTATCCCGATCGATTCTTTATC-TTTAGACTTGTGGTGTTATCCCAATCG
4363876 ATTC
129 ATTC
*
4363880 TGTAAGAACTCCG-GACATGATT-TGTAAGACCT
1 TGTAAG-ACTTCGAGACATGATTCTGTAAGACCT
4363912 TCAGGCATAA
Statistics
Matches: 150, Mismatches: 8, Indels: 11
0.89 0.05 0.07
Matches are distributed among these distances:
131 106 0.71
132 44 0.29
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (132 bp):
TGTAAGACTTCGAGACATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCGGGCATAAA
TTCGATTCACGATGTTATCCCGATCGATTCTTTATCTTTAGACTTGTGGTGTTATCCCAATCGAT
TC
Found at i:4364127 original size:12 final size:11
Alignment explanation
Indices: 4364112--4364199 Score: 53
Period size: 12 Copynumber: 8.2 Consensus size: 11
4364102 TTTTAATTTT
4364112 AATAATAATAAA
1 AATAATAAT-AA
4364124 AATAATAATAA
1 AATAATAATAA
* *
4364135 AATAATTATTA
1 AATAATAATAA
*
4364146 ATTATATAA-ATA
1 AATA-ATAATA-A
* *
4364158 TATATATAAAAA
1 AATA-ATAATAA
4364170 AATAA-AATAA
1 AATAATAATAA
4364180 AA-AA-AATAA
1 AATAATAATAA
4364189 AA-AATAA-AA
1 AATAATAATAA
4364198 AA
1 AA
4364200 ACAGAAAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
9 15 0.24
10 8 0.13
11 15 0.24
12 24 0.38
13 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:4364131 original size:15 final size:15
Alignment explanation
Indices: 4364111--4364198 Score: 69
Period size: 15 Copynumber: 6.0 Consensus size: 15
4364101 TTTTTAATTT
4364111 TAATAATAATAAAAA
1 TAATAATAATAAAAA
*
4364126 TAATAATAA-AATAAT
1 TAATAATAATAA-AAA
* * *
4364141 TATTAATTATATAAA
1 TAATAATAATAAAAA
4364156 TATATATATAA-AAAAA
1 TA-ATA-ATAATAAAAA
*
4364172 TAA-AATAAAAAAAA
1 TAATAATAATAAAAA
4364186 TAA-AA-AATAAAAA
1 TAATAATAATAAAAA
4364199 AACAGAAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
13 11 0.19
14 13 0.22
15 23 0.39
16 9 0.15
17 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAATAATAAAAA
Found at i:4364183 original size:7 final size:7
Alignment explanation
Indices: 4364166--4364199 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
4364156 TATATATATA
4364166 AAAAAAT
1 AAAAAAT
4364173 AAAATAA-
1 AAAA-AAT
4364180 AAAAAAT
1 AAAAAAT
4364187 AAAAAAT
1 AAAAAAT
4364194 AAAAAA
1 AAAAAA
4364200 ACAGAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:4364184 original size:16 final size:16
Alignment explanation
Indices: 4364165--4364200 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4364155 ATATATATAT
4364165 AAAAAAAT--AAAATA
1 AAAAAAATAAAAAATA
4364179 AAAAAAATAAAAAATA
1 AAAAAAATAAAAAATA
4364195 AAAAAA
1 AAAAAA
4364201 CAGAAAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:4365676 original size:21 final size:21
Alignment explanation
Indices: 4365651--4365692 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4365641 TCCCTAAAAT
*
4365651 TCAAACCCTT-AAATCAAAACC
1 TCAAA-CCTTAAAACCAAAACC
4365672 TCAAACCTTAAAACCAAAACC
1 TCAAACCTTAAAACCAAAACC
4365693 CTAAAATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TCAAACCTTAAAACCAAAACC
Found at i:4365697 original size:14 final size:14
Alignment explanation
Indices: 4365674--4365727 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
4365664 TCAAAACCTC
*
4365674 AAACCTTAAAACCA
1 AAACCCTAAAACCA
*
4365688 AAACCCTAAAATCTCC
1 AAACCCTAAAA-C-CA
*
4365704 AAACTCTAAAACCA
1 AAACCCTAAAACCA
4365718 AAACCCTAAA
1 AAACCCTAAA
4365728 CCTTCCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 20 0.61
15 2 0.06
16 11 0.33
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAAACCA
Found at i:4365707 original size:51 final size:51
Alignment explanation
Indices: 4365629--4365731 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 51
4365619 TTAAACCCCC
* *
4365629 TAAAATCCAAAATCCCTAAAATTCAAACCCTTAAATCAAAA-CCTCAAACCT
1 TAAAATCCAAAATCCCTAAAATTCAAACCCTAAAACCAAAACCCT-AAACCT
*
4365680 TAAAA-CCAAAA-CCCTAAAATCTCCAAACTCTAAAACCAAAACCCTAAACCT
1 TAAAATCCAAAATCCCTAAAAT-T-CAAACCCTAAAACCAAAACCCTAAACCT
4365731 T
1 T
4365732 CCATATCCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
49 9 0.20
50 7 0.15
51 27 0.59
52 3 0.07
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (51 bp):
TAAAATCCAAAATCCCTAAAATTCAAACCCTAAAACCAAAACCCTAAACCT
Found at i:4374297 original size:2 final size:2
Alignment explanation
Indices: 4374290--4374315 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4374280 TATAAGAGAC
4374290 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
4374316 CTCACTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4378658 original size:9 final size:8
Alignment explanation
Indices: 4378639--4378680 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
4378629 TTAACAAAAC
4378639 AAAACAAA
1 AAAACAAA
*
4378647 AAAGCAAA
1 AAAACAAA
4378655 AAAACAAA
1 AAAACAAA
4378663 ACAAACAAA
1 A-AAACAAA
*
4378672 AAACCAAA
1 AAAACAAA
4378680 A
1 A
4378681 CGGAAATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:4378673 original size:17 final size:17
Alignment explanation
Indices: 4378639--4378681 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
4378629 TTAACAAAAC
*
4378639 AAAACAAAA-AAGCAAA
1 AAAACAAAACAAACAAA
4378655 AAAACAAAACAAACAAA
1 AAAACAAAACAAACAAA
*
4378672 AAACCAAAAC
1 AAAACAAAAC
4378682 GGAAATCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAACAAAACAAACAAA
Found at i:4378674 original size:25 final size:26
Alignment explanation
Indices: 4378631--4378680 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
4378621 AATAATATTT
*
4378631 AACAAAACAAAACAAAAAAGCAAAAA
1 AACAAAACAAAACAAAAAACCAAAAA
4378657 AACAAAAC-AAACAAAAAACCAAAA
1 AACAAAACAAAACAAAAAACCAAAA
4378681 CGGAAATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (26 bp):
AACAAAACAAAACAAAAAACCAAAAA
Found at i:4378748 original size:12 final size:12
Alignment explanation
Indices: 4378720--4378759 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4378710 TACGACGCTG
*
4378720 AACTGCCCCGACT
1 AACT-CCCCGACC
*
4378733 AACTCCGCGACC
1 AACTCCCCGACC
4378745 AACTCCCCGACC
1 AACTCCCCGACC
4378757 AAC
1 AAC
4378760 CCAACCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.28, C:0.50, G:0.12, T:0.10
Consensus pattern (12 bp):
AACTCCCCGACC
Found at i:4381679 original size:2 final size:2
Alignment explanation
Indices: 4381672--4381696 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4381662 TTACAGTATG
4381672 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4381697 GCAATCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4384094 original size:370 final size:369
Alignment explanation
Indices: 4383104--4384144 Score: 1464
Period size: 370 Copynumber: 2.8 Consensus size: 369
4383094 TGGTATCAGA
* * *
4383104 GCCAGCCTCCGTGACGAAGGCGTCACGAGATTGGGTGCGGGAGAATGTCACGGACCTAAGGAAGA
1 GCCAGCCTTCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGGAAGA
4383169 GTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTATAAAAGGGTTCACACCACCTC
66 GTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTATAAAAGGGTTCACACCACCTC
* * *
4383234 CACCTTATGAGGCACCTTTTGTAGGACAAAACCGTGAGGCTA-GGAGAGCCAGAGCGGACAATAC
131 CGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGAG-GCCAGAGCGGACAATAC
* * * *
4383298 CTCACAAGGGTGTGAACCGTGACGAAAGGCTGATCTGGGACGTCGAAAGGGTGAATGCCCGGATC
195 CTCACAAGGGTGTGAACCGTGACGGAAGGCTGATCTGGGACGTCGGAAGGGTGAATGCTCGGGTC
* *
4383363 CCGGAGCCACGCAGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAA
260 CCAGAGCCACGCAGTTCGGAGCTTAAGTCTCGACCCGAGACAAGTGGTATCAGAGCCAGCCCTAA
*
4383428 ACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGTAGGCAGGATG
325 ACCATTCGATCCACGCCAAGCACCTCAAGGGAGGTAGGCAGGATG
* * * * *
4383473 GACAACC-TCTGTGACGAGGGCGTCACGAGGTTGAGTGCGGGAGAATATCACGGACTTAAGGAAG
1 GCCAGCCTTC-GTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGGAAG
* * * *
4383537 AGTCTTGAATCCCACATCAAACATAATAGGAGGGTCACTGGGGTATAAAAGGGTTCACACAACCT
65 AGTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTATAAAAGGGTTCACACCACCT
* * *
4383602 CCGCCTTGTGAGGCTCCTTTTGTAGGAC-AAACCATGAGGCCAGGGGGGCCAGAGCGGACAATAC
130 CCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGAGGCCAGAGCGGACAATAC
* * * *
4383666 CTCACAAGGGTGTGAACCGTGGCGGTTAGGCTAATCTGGGACGTCGGAAGGATGAATGCTCGGGT
195 CTCACAAGGGTGTGAACCGTGACGG-AAGGCTGATCTGGGACGTCGGAAGGGTGAATGCTCGGGT
* **
4383731 TCCAGAGCGGCGCAGGTTCGGAGCTTAAGTCTCGACCCGAGACAAGTGGTATCAGAGCCAGCCCT
259 CCCAGAGCCACGCA-GTTCGGAGCTTAAGTCTCGACCCGAGACAAGTGGTATCAGAGCCAGCCCT
* *
4383796 AAACCATTCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAAGG-TG
323 AAACCATTCGATCCACGCCAAGCACCTCAAGGGAGGTAGGC-AGGATG
* ** *
4383843 GCCAGCCTTCGTGACGAGGGTGTCACGAGGTTGGGTGCATGAGAATGTCACGGACCTAAGTAAGA
1 GCCAGCCTTCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGGAAGA
* *
4383908 GTCCTGAATCTCACATCGAACATAATAGGAAGGTCACTAGGGTATAAAAGGGTTCACACCACCTC
66 GTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTATAAAAGGGTTCACACCACCTC
* * * * *
4383973 CGCTTTGTGAGGCGCCTTTTGTAAGACAAAACTGTGAGGCCAGGGAGGCCAGAGCGTACAATACC
131 CGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGAGGCCAGAGCGGACAATACC
* * ** *
4384038 TCATAAGGGTGTGAACCGTGACGGAAGACTGATCTAAGACG-CTGGAAGGGTGAATGCTTGGGTC
196 TCACAAGGGTGTGAACCGTGACGGAAGGCTGATCTGGGACGTC-GGAAGGGTGAATGCTCGGGTC
* * * * * *
4384102 CTGAAATCGCACG-AGTTCAGAGCTTAAGTCTCGATCCGTGACA
260 C-CAGAGC-CACGCAGTTCGGAGCTTAAGTCTCGACCCGAGACA
4384145 CCAACATAAG
Statistics
Matches: 588, Mismatches: 74, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
368 53 0.09
369 187 0.32
370 282 0.48
371 64 0.11
372 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (369 bp):
GCCAGCCTTCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGGAAGA
GTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTATAAAAGGGTTCACACCACCTC
CGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGAGGCCAGAGCGGACAATACC
TCACAAGGGTGTGAACCGTGACGGAAGGCTGATCTGGGACGTCGGAAGGGTGAATGCTCGGGTCC
CAGAGCCACGCAGTTCGGAGCTTAAGTCTCGACCCGAGACAAGTGGTATCAGAGCCAGCCCTAAA
CCATTCGATCCACGCCAAGCACCTCAAGGGAGGTAGGCAGGATG
Found at i:4384562 original size:47 final size:47
Alignment explanation
Indices: 4384470--4384562 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 47
4384460 TATGATATAT
* * ** *
4384470 ATAATACTTTCTGTTCAAAGTAAATAATATCTCATAGGTTGAATGTG
1 ATAATACTTTCTATTCAAAGTAAATAATATCTCACAAATTAAATGTG
* *
4384517 ATAATACGTTT-TATTCAAAGTAAATAATGTCTTACAAATTAAATGT
1 ATAATAC-TTTCTATTCAAAGTAAATAATATCTCACAAATTAAATGT
4384563 AAATTTCTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 35 0.92
48 3 0.08
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (47 bp):
ATAATACTTTCTATTCAAAGTAAATAATATCTCACAAATTAAATGTG
Found at i:4384838 original size:42 final size:42
Alignment explanation
Indices: 4384772--4384877 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
4384762 AACTCTTAGT
** * * *
4384772 ATGGAGTCAACTCTATAATCCTTGAGGGTTAGGTGGTATTCA
1 ATGGAGTCATTTCTAAAATTCTTGAGGGTTAGGTGGTATACA
4384814 ATGGAGTCATTTCTAAAATTCTTGAGGGTTAGGTGGTATACA
1 ATGGAGTCATTTCTAAAATTCTTGAGGGTTAGGTGGTATACA
4384856 ATGGAGTCATTTCTAAAATTCT
1 ATGGAGTCATTTCTAAAATTCT
4384878 AACATTGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (42 bp):
ATGGAGTCATTTCTAAAATTCTTGAGGGTTAGGTGGTATACA
Found at i:4391346 original size:21 final size:21
Alignment explanation
Indices: 4391304--4391346 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4391294 GGATAAAAAA
*
4391304 TTATTATATTATCTTATATTT
1 TTATTATATTATCATATATTT
* *
4391325 TTATTATTTTAT-ACATATTT
1 TTATTATATTATCATATATTT
4391345 TT
1 TT
4391347 CAGATATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTATATTATCATATATTT
Found at i:4399228 original size:2 final size:2
Alignment explanation
Indices: 4399221--4399250 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4399211 GATATCTTAT
4399221 TA 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 TA
4399251 GATGACATTT
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):
TA
Found at i:4409950 original size:16 final size:16
Alignment explanation
Indices: 4409929--4409971 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4409919 AGATATGTAA
4409929 ATTTTTAAAAAAATAT
1 ATTTTTAAAAAAATAT
* *
4409945 ATTTTTAGATAAATAT
1 ATTTTTAAAAAAATAT
*
4409961 TTTTATTAAAA
1 ATTT-TTAAAA
4409972 GTTTTGAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTTAAAAAAATAT
Found at i:4420646 original size:2 final size:2
Alignment explanation
Indices: 4420639--4420677 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4420629 TAAACCATCC
4420639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4420678 CCTTTTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4421444 original size:16 final size:18
Alignment explanation
Indices: 4421423--4421459 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4421413 GGTAATTATT
4421423 TTGTTT-CACAAA-AATG
1 TTGTTTACACAAACAATG
*
4421439 TTGTTTAGACAAACAATG
1 TTGTTTACACAAACAATG
4421457 TTG
1 TTG
4421460 AAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTGTTTACACAAACAATG
Found at i:4421845 original size:2 final size:2
Alignment explanation
Indices: 4421838--4421866 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4421828 CGAGCGAAAC
4421838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4421867 GGGTTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4422081 original size:20 final size:21
Alignment explanation
Indices: 4422056--4422105 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
4422046 TTTATTTCCT
*
4422056 ATATTA-AGTATACTTATATC
1 ATATTATAGTATAATTATATC
*
4422076 ATATTATTTGGTATAATTATATC
1 ATATTA--TAGTATAATTATATC
4422099 ATATTAT
1 ATATTAT
4422106 TTTTTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
23 18 0.72
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (21 bp):
ATATTATAGTATAATTATATC
Found at i:4422118 original size:23 final size:23
Alignment explanation
Indices: 4422063--4422107 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4422053 CCTATATTAA
*
4422063 GTATACTTATATCATATTATTTG
1 GTATAATTATATCATATTATTTG
4422086 GTATAATTATATCATATTATTT
1 GTATAATTATATCATATTATTT
4422108 TTTTTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (23 bp):
GTATAATTATATCATATTATTTG
Found at i:4422352 original size:2 final size:2
Alignment explanation
Indices: 4422305--4422332 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4422295 TTGCCCAACC
4422305 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
4422333 GTGTGTGTGT
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):
AT
Found at i:4426469 original size:2 final size:2
Alignment explanation
Indices: 4426462--4426487 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4426452 TATTTTGAGT
4426462 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
4426488 AAGGGAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4447334 original size:21 final size:21
Alignment explanation
Indices: 4447310--4447349 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4447300 ACTTTGGTTC
*
4447310 TTTTAAATTTTTAATAATTTT
1 TTTTAAACTTTTAATAATTTT
* *
4447331 TTTTTAACTTTTATTAATT
1 TTTTAAACTTTTAATAATT
4447350 CACTGCAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAAACTTTTAATAATTTT
Found at i:4454592 original size:2 final size:2
Alignment explanation
Indices: 4454585--4454612 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4454575 TTAGCAACCA
4454585 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
4454613 TGGAAAACAT
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):
AT
Found at i:4462472 original size:3 final size:3
Alignment explanation
Indices: 4462459--4462510 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
4462449 TAATTAATTA
* *
4462459 ATT AAT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4462507 ATT A
1 ATT A
4462511 AAAATTCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4465808 original size:17 final size:18
Alignment explanation
Indices: 4465768--4465808 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
4465758 AAGATAGAAT
*
4465768 AATTTATTTATTTGTCAA
1 AATTTATTTATTTCTCAA
*
4465786 AA-TTATTT-TTTCTTAA
1 AATTTATTTATTTCTCAA
4465802 AATTTAT
1 AATTTAT
4465809 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
AATTTATTTATTTCTCAA
Found at i:4468550 original size:21 final size:18
Alignment explanation
Indices: 4468524--4468566 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 18
4468514 AAAATTGACT
4468524 TTAATTTATTTAATATTAAAA
1 TTAATTT-TTT-ATA-TAAAA
*
4468545 TTAATTTTTTTTATAAAA
1 TTAATTTTTTATATAAAA
4468563 TTAA
1 TTAA
4468567 AGTTTCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 3 0.14
21 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTTTTTATATAAAA
Found at i:4478232 original size:3 final size:3
Alignment explanation
Indices: 4478224--4478252 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4478214 ACTCTTATGG
4478224 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4478253 AAAATTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4479817 original size:17 final size:17
Alignment explanation
Indices: 4479795--4479829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4479785 TACTAAGAGC
*
4479795 CCTAATATTGTGCCCTT
1 CCTAATATCGTGCCCTT
*
4479812 CCTAATATCGTGTCCTT
1 CCTAATATCGTGCCCTT
4479829 C
1 C
4479830 ATGTTCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.40
Consensus pattern (17 bp):
CCTAATATCGTGCCCTT
Found at i:4486770 original size:15 final size:15
Alignment explanation
Indices: 4486750--4486785 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4486740 TGGTTGTAAG
4486750 GCTTCAAGAAGAAAT
1 GCTTCAAGAAGAAAT
*
4486765 GCTTCACGAAGAAAT
1 GCTTCAAGAAGAAAT
4486780 GCTTCA
1 GCTTCA
4486786 TCAGTAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (15 bp):
GCTTCAAGAAGAAAT
Found at i:4489483 original size:26 final size:25
Alignment explanation
Indices: 4489409--4489510 Score: 84
Period size: 26 Copynumber: 4.0 Consensus size: 25
4489399 TTTTATTTTG
*
4489409 TTTT-TTATTTAAAAATT-ATAAAA
1 TTTTATTATTTATAAATTAATAAAA
* * *
4489432 TATTTTTTAATTTAT-AATAAACAAAA
1 T-TTTATT-ATTTATAAATTAATAAAA
4489458 TTTTATTATTATATAAATTAATAAAA
1 TTTTATTATT-TATAAATTAATAAAA
*
4489484 TTTATTATTATATTATGAATTAATAAA
1 -TT-TTATTAT-TTATAAATTAATAAA
4489511 TAAATAACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 6 0.10
25 13 0.21
26 20 0.32
27 2 0.03
28 20 0.32
29 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
TTTTATTATTTATAAATTAATAAAA
Found at i:4489487 original size:25 final size:28
Alignment explanation
Indices: 4489454--4489510 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 28
4489444 TATAATAAAC
4489454 AAAATTTTATTATTATA-TA-AATTAAT
1 AAAATTTTATTATTATATTAGAATTAAT
4489480 AAAA-TTTATTATTATATTATGAATTAAT
1 AAAATTTTATTATTATATTA-GAATTAAT
4489508 AAA
1 AAA
4489511 TAAATAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 12 0.43
26 6 0.21
28 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
AAAATTTTATTATTATATTAGAATTAAT
Found at i:4489504 original size:28 final size:26
Alignment explanation
Indices: 4489409--4489510 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 26
4489399 TTTTATTTTG
*
4489409 TTTT-TTATT-TAAAAATT-ATAAAA
1 TTTTATTATTATATAAATTAATAAAA
* * *
4489432 TATTTTTTAATT-TAT-AATAAACAAAA
1 T-TTTATT-ATTATATAAATTAATAAAA
4489458 TTTTATTATTATATAAATTAATAAAA
1 TTTTATTATTATATAAATTAATAAAA
4489484 -TTTATTATTATATTATGAATTAATAAA
1 TTTTATTATTATA-TA--AATTAATAAA
4489511 TAAATAACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.02
24 6 0.09
25 25 0.39
26 22 0.34
28 10 0.16
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TTTTATTATTATATAAATTAATAAAA
Done.