Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 15 of 138
Found at i:4282933 original size:16 final size:16
Alignment explanation
Indices: 4282914--4282946 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4282904 TCTAATAAAT
4282914 ATAAA-TTTTAATTTTA
1 ATAAAGTTTT-ATTTTA
4282930 ATAAAGTTTTATTTTA
1 ATAAAGTTTTATTTTA
4282946 A
1 A
4282947 ATTATAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATAAAGTTTTATTTTA
Found at i:4285052 original size:18 final size:18
Alignment explanation
Indices: 4285029--4285063 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4285019 TTACAACTAG
4285029 AAAATTTCCCCAAAGTTA
1 AAAATTTCCCCAAAGTTA
*
4285047 AAAATTTCTCCAAAGTT
1 AAAATTTCCCCAAAGTT
4285064 TCACATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATTTCCCCAAAGTTA
Found at i:4286185 original size:15 final size:17
Alignment explanation
Indices: 4286154--4286186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4286144 TAAAGCAATC
4286154 TTATTACTACAATAATT
1 TTATTACTACAATAATT
4286171 TTATTACT-C-ATAATT
1 TTATTACTACAATAATT
4286186 T
1 T
4286187 AAAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTACTACAATAATT
Found at i:4286477 original size:9 final size:9
Alignment explanation
Indices: 4286465--4286506 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
4286455 ATAATAAAAC
*
4286465 TAAATATAT
1 TAAAAATAT
4286474 TAAAAATAAT
1 TAAAAAT-AT
4286484 TAAAAATA-
1 TAAAAATAT
*
4286492 TAAATATAT
1 TAAAAATAT
4286501 TAAAAA
1 TAAAAA
4286507 ATAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.25
9 12 0.43
10 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:4286506 original size:18 final size:16
Alignment explanation
Indices: 4286477--4286511 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4286467 AATATATTAA
4286477 AAATAATTAAAAATAT
1 AAATAATTAAAAATAT
4286493 AAATATATTAAAAA-AT
1 AAATA-ATTAAAAATAT
4286509 AAA
1 AAA
4286512 AGAAAACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATTAAAAATAT
Found at i:4287876 original size:21 final size:21
Alignment explanation
Indices: 4287851--4287892 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4287841 GGTAGCAAAG
4287851 AGAAGTGAATTTT-AATGGAAA
1 AGAAGTG-ATTTTGAATGGAAA
4287872 AGAAGTGATTTTGAATGGAAA
1 AGAAGTGATTTTGAATGGAAA
4287893 TGAGCTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (21 bp):
AGAAGTGATTTTGAATGGAAA
Found at i:4300543 original size:25 final size:22
Alignment explanation
Indices: 4300494--4300543 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 22
4300484 AGATTAAAAT
*
4300494 ATTTTATATTTTTATTTTTAAA
1 ATTTTATATTTTTATTTCTAAA
*
4300516 ATTTTATATTATATTCATTTCTATA
1 ATTTTATATT-T-TT-ATTTCTAAA
4300541 ATT
1 ATT
4300544 ATATCCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 2 0.09
25 10 0.43
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTATATTTTTATTTCTAAA
Found at i:4300717 original size:25 final size:24
Alignment explanation
Indices: 4300677--4300736 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
4300667 TTTTTTCTTG
*
4300677 TATAT-TTATATAATTTTTTATAAA
1 TATATATTA-ATAATTTTTAATAAA
4300701 TATATATTAATACATTTTTAATAAA
1 TATATATTAATA-ATTTTTAATAAA
*
4300726 AATATATTAAT
1 TATATATTAAT
4300737 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATATTAATAATTTTTAATAAA
Found at i:4312900 original size:14 final size:14
Alignment explanation
Indices: 4312881--4312908 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4312871 TTATTTATTT
4312881 TTGGGAAGGGCGGG
1 TTGGGAAGGGCGGG
4312895 TTGGGAAGGGCGGG
1 TTGGGAAGGGCGGG
4312909 GTGTTCGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.64, T:0.14
Consensus pattern (14 bp):
TTGGGAAGGGCGGG
Found at i:4314861 original size:17 final size:16
Alignment explanation
Indices: 4314839--4314894 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
4314829 ATGCCCACTT
4314839 TATTTTTTTGTATTTTA
1 TATTTTTTT-TATTTTA
*
4314856 TA-TTTTATTATTATTA
1 TATTTTTTTTATT-TTA
*
4314872 TTATTTTATTTATTTTA
1 -TATTTTTTTTATTTTA
4314889 T-TTTTT
1 TATTTTT
4314895 CCTTTATATC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 8 0.25
16 9 0.28
17 7 0.22
18 8 0.25
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
TATTTTTTTTATTTTA
Found at i:4314880 original size:5 final size:5
Alignment explanation
Indices: 4314837--4314892 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
4314827 ATATGCCCAC
4314837 TTTAT TTT-T TTGTATT TTATAT TTTAT TATTAT TATTAT TTTA- TTTAT
1 TTTAT TTTAT TT-TA-T TT-TAT TTTAT T-TTAT T-TTAT TTTAT TTTAT
4314885 TTTAT TTT
1 TTTAT TTT
4314893 TTCCTTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
4 7 0.16
5 19 0.42
6 14 0.31
7 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:4314959 original size:25 final size:25
Alignment explanation
Indices: 4314924--4315010 Score: 88
Period size: 25 Copynumber: 3.3 Consensus size: 25
4314914 TATTATTCAT
*
4314924 TTATTACTATTTATTAATATATTTA
1 TTATTATTATTTATTAATATATTTA
*
4314949 TTATTATTATTTGTTAATAT-TTATA
1 TTATTATTATTTATTAATATATT-TA
4314974 TATATT-TTATTTATCTAGTTATATATTTA
1 T-TATTATTATTTAT-TA---ATATATTTA
4315003 TTATTATT
1 TTATTATT
4315011 TATCTATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.04
25 28 0.55
26 6 0.12
28 4 0.08
29 9 0.18
30 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATTATTATTTATTAATATATTTA
Found at i:4314975 original size:31 final size:34
Alignment explanation
Indices: 4314947--4315085 Score: 88
Period size: 34 Copynumber: 4.3 Consensus size: 34
4314937 TTAATATATT
*
4314947 TATTATTA-TTAT-TTGTTA-ATATTTATATA--
1 TATTATTATTTATCTAGTTATATATTTATATATT
4314976 TATT-TTATTTATCTAGTTATATATTTAT-TA-T
1 TATTATTATTTATCTAGTTATATATTTATATATT
* *
4315007 TATTTATCTATTTATCTA-TTATA-AGTTATCTATTAT
1 TA-TTAT-TATTTATCTAGTTATATATTTATATA-T-T
* *
4315043 TATTTTTATTTATCT-GTTA-ATATTT-TGATATA
1 TATTATTATTTATCTAGTTATATATTTAT-ATATT
*
4315075 TATGATTATTT
1 TATTATTATTT
4315086 TTTTAATTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
28 3 0.03
29 8 0.09
30 7 0.08
31 10 0.11
32 16 0.18
33 11 0.12
34 27 0.31
35 3 0.03
36 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (34 bp):
TATTATTATTTATCTAGTTATATATTTATATATT
Found at i:4315018 original size:14 final size:13
Alignment explanation
Indices: 4314860--4315052 Score: 98
Period size: 12 Copynumber: 14.4 Consensus size: 13
4314850 ATTTTATATT
4314860 TTATTATTA-TTA
1 TTATTATTATTTA
4314872 TTATT-TTATTTA
1 TTATTATTATTTA
* *
4314884 TT-TTATTTTTTC
1 TTATTATTATTTA
*
4314896 CT-TTA-TATCTTA
1 TTATTATTAT-TTA
*
4314908 TGTACTTATTATTCA
1 T-TA-TTATTATTTA
*
4314923 TTTATTACTATTTA
1 -TTATTATTATTTA
*
4314937 TTAATA-TATTTA
1 TTATTATTATTTA
*
4314949 TTATTATTATTTG
1 TTATTATTATTTA
* *
4314962 TTAATATT-TATA
1 TTATTATTATTTA
4314974 TATATT-TTATTTA
1 T-TATTATTATTTA
4314987 TCTAGTTATATATTTA
1 T-TA-TTAT-TATTTA
*
4315003 TTATTATTTATCTA
1 TTATTA-TTATTTA
4315017 TTTATCTATTATAAGTTA
1 -TTAT-TATTAT---TTA
4315035 TCTATTATTATTT-
1 T-TATTATTATTTA
4315048 TTATT
1 TTATT
4315053 TATCTGTTAA
Statistics
Matches: 140, Mismatches: 20, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
11 7 0.05
12 41 0.29
13 28 0.20
14 20 0.14
15 19 0.14
16 13 0.09
17 7 0.05
18 5 0.04
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:4315035 original size:26 final size:26
Alignment explanation
Indices: 4314980--4315043 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
4314970 TATATATATT
* *
4314980 TTATTTATCTAGTTATATATTTATTA
1 TTATTTATCTATTTATATATTTATAA
*
4315006 TTATTTATCTATTTATCTA-TTATAA
1 TTATTTATCTATTTATATATTTATAA
*
4315031 GTTATCTAT-TATT
1 -TTATTTATCTATT
4315044 ATTTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.27
26 24 0.73
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTATCTATTTATATATTTATAA
Found at i:4316079 original size:60 final size:59
Alignment explanation
Indices: 4315999--4316336 Score: 391
Period size: 60 Copynumber: 5.7 Consensus size: 59
4315989 ATAAAATTCA
* *
4315999 AAAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTT
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTC
* * * *
4316059 AAAGAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCTAA
1 AAA-AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTT-T-C
* *
4316121 AAAAAAATATTTTTGAGG-AAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGC-TCTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTC
* * *
4316178 TAAAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTC
* * * * *
4316236 AAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCC
1 AAAAA--AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTTC
* *
4316297 AAAAAAATATTTTTTG-GAAAAAGTTGAAAGTATTAATTTT
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT
4316337 TCTCGAAAGT
Statistics
Matches: 240, Mismatches: 27, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
56 2 0.01
57 13 0.05
58 40 0.17
59 26 0.11
60 123 0.51
61 33 0.14
62 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (59 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTC
Found at i:4316123 original size:118 final size:116
Alignment explanation
Indices: 4316000--4316344 Score: 417
Period size: 118 Copynumber: 2.9 Consensus size: 116
4315990 TAAAATTCAA
*
4316000 AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTTAAAGAA
1 AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAA-AA
*
4316065 AATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
65 AATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
* * * *
4316118 TAAAAAAAAATATTTTTGAGG-AAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTCTCT-AA
1 ---AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAA
* * * *
4316181 AAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC
63 AAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
* * * * *
4316236 AAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCCAAA
1 AAAAA--ATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTCTAAA
* * *
4316300 AAAATATTTTTTGGAAAAAGTTGAAAGTATTAATTTTTCTCGAAA
63 AAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAA
4316345 GTATCAATTT
Statistics
Matches: 194, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
115 5 0.03
117 14 0.07
118 77 0.40
119 45 0.23
120 37 0.19
121 16 0.08
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (116 bp):
AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAA
ATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
Found at i:4316212 original size:178 final size:177
Alignment explanation
Indices: 4316000--4316336 Score: 466
Period size: 178 Copynumber: 1.9 Consensus size: 177
4315990 TAAAATTCAA
* * * * *
4316000 AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTTTAAAGAA
1 AAAAAATATTTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTTCAAA-AA
* *
4316065 -AATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAAT-AAGCTTTCTAAAAAAAAA
64 GAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAAATAAAG-TTTCCAAAAAAAAA
*
4316128 TATTTTT-GAGGAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTCTCT
128 T-TTTTTGGA-AAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTCTCT
4316179 AAAAAATATTTTTAGA-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATG
1 AAAAAATATTTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAA-G
* * * * *
4316243 AATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAAATATT
65 AATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAAATAAAGTTTCCAAAAAAAAATT
*
4316308 TTTTGGAAAAAGTTGAAAGTATTAATTTT
130 TTTTGGAAAAAGTTGAAAGTATCAATTTT
4316337 TCTCGAAAGT
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
176 2 0.01
177 32 0.23
178 89 0.64
179 17 0.12
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (177 bp):
AAAAAATATTTTTAGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAGA
ATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAAATAAAGTTTCCAAAAAAAAATTT
TTTGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTCTCT
Found at i:4316346 original size:19 final size:19
Alignment explanation
Indices: 4316322--4316363 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
4316312 GGAAAAAGTT
*
4316322 GAAAGTATTAATTTTTCTC
1 GAAAGTATCAATTTTTCTC
4316341 GAAAGTATCAATTTTTCTC
1 GAAAGTATCAATTTTTCTC
4316360 GAAA
1 GAAA
4316364 TTAAAGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
GAAAGTATCAATTTTTCTC
Found at i:4316347 original size:78 final size:77
Alignment explanation
Indices: 4316263--4316421 Score: 273
Period size: 77 Copynumber: 2.1 Consensus size: 77
4316253 AGGAAAAGTT
*
4316263 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAAATATTTTTTGGAAAAAGTTGAAAGT
1 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC-AAAAAATATTTTTGGGAAAAAGTTGAAAGT
*
4316328 ATTAATTTTTCTC
65 ATCAATTTTTCTC
*
4316341 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTA
1 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTA
*
4316406 TCAATTTTTCTT
66 TCAATTTTTCTC
4316418 GAAA
1 GAAA
4316422 TTAAAGTTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 43 0.56
78 34 0.44
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (77 bp):
GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTA
TCAATTTTTCTC
Found at i:4316404 original size:136 final size:136
Alignment explanation
Indices: 4316203--4316471 Score: 400
Period size: 136 Copynumber: 2.0 Consensus size: 136
4316193 GAAAAAAGTT
* *
4316203 GAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTTTGAGGAAAAGTTGAAAG
1 GAAAGTATCAATTTTCCTCAAAAATAAGTTTTCAAAAA-GAATATTTTTGAGGAAAAGTTGAAAG
*
4316268 TATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAAATATTTTTTGGA-AAAAGTTGAAAGTATTA
65 TATCAATTTTTCTCGAAATTAAAGTTTCC-AAAAAATA-TTTTTGGAGAAAAGTTGAAAGTATCA
4316332 ATTTTTCTC
128 ATTTTTCTC
* * * * *
4316341 GAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCCAAAA-AATATTTTTGGGGAAAAGTTGAAAG
1 GAAAGTATCAATTTTCCTCAAAAAT-AAGTTTTCAAAAAGAATATTTTTGAGGAAAAGTTGAAAG
*
4316404 TATCAATTTTTCTTGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAAT
65 TATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAAT
4316469 TTT
130 TTT
4316472 CCTTAAAAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
134 8 0.07
135 29 0.24
136 51 0.43
138 29 0.24
139 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (136 bp):
GAAAGTATCAATTTTCCTCAAAAATAAGTTTTCAAAAAGAATATTTTTGAGGAAAAGTTGAAAGT
ATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATT
TTTCTC
Found at i:4316407 original size:58 final size:58
Alignment explanation
Indices: 4316341--4316592 Score: 310
Period size: 58 Copynumber: 4.3 Consensus size: 58
4316331 AATTTTTCTC
*
4316341 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTT
1 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTT
*
4316399 GAAAGTATCAATTTTTCTTGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTT
1 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTT
* ** * * * * *
4316457 GAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAATAAAGTTTTTTTTTTGAGAAAAGTT
1 GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAA-AAA--ATATTTTTGGAGAAAAGTT
* * *
4316517 GAAAGTATCAATTTTTTCTCGAAATTAAAGTTTCTAAAAAA-ATATTTTGGGGAGAAGTT
1 GAAAGTATCAA-TTTTTCTCGAAATTAAAGTTTCCAAAAAATAT-TTTTGGAGAAAAGTT
* *
4316576 AAAAATATCAATTTTTC
1 GAAAGTATCAATTTTTC
4316593 CTGTACAAAA
Statistics
Matches: 166, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
57 6 0.04
58 91 0.55
59 21 0.13
60 27 0.16
61 16 0.10
62 5 0.03
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (58 bp):
GAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTT
Found at i:4316535 original size:196 final size:195
Alignment explanation
Indices: 4316145--4316540 Score: 480
Period size: 196 Copynumber: 2.0 Consensus size: 195
4316135 GAGGAAAGTT
* *
4316145 GAAAGTATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTAGAAAAAAGTTGAAAGTA
1 GAAAGTATCAATTTTCTTCGAAAATAAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTA
* *
4316210 TCAATTTTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAAT
66 TCAATTTTCCTTAAAAATAAGTTTCCAAAAAT-AATTTTTTGGAGGAAAAGTTGAAAGTATCAAT
* * * *
4316275 TTTTCTCGAAATTAAAGTTTCCAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATTAATTTTTCT
130 TTTCCTCAAAAATAAAGTTTCCAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCT
4316340 C
195 C
* * * **
4316341 GAAAGTATCAATTTT-TCTCGAAATTAAAG-TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAG
1 GAAAGTATCAATTTTCT-TCGAAAAT-AAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAG
* * *
4316404 TATCAATTTTTCTTGAAATTAAAGTTTCC-AAAA-AATATTTTTGGA-GAAAAGTTGAAAGTATC
64 TATCAATTTTCCTTAAAAAT-AAGTTTCCAAAAATAAT-TTTTTGGAGGAAAAGTTGAAAGTATC
* * ** * *
4316466 AATTTTCCTTAAAAATAAA-TTTTCAATAAAGTTTTTTTTTTGAGAAAAGTTGAAAGTATCAATT
127 AATTTTCCTCAAAAATAAAGTTTCCAA-AAAAATATTTTTTGGA-AAAAGTTGAAAGTATCAA-T
4316530 TTTTCTC
189 TTTTCTC
4316537 GAAA
1 GAAA
4316541 TTAAAGTTTC
Statistics
Matches: 171, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
193 6 0.04
194 47 0.27
195 25 0.15
196 83 0.49
197 10 0.06
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (195 bp):
GAAAGTATCAATTTTCTTCGAAAATAAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTA
TCAATTTTCCTTAAAAATAAGTTTCCAAAAATAATTTTTTGGAGGAAAAGTTGAAAGTATCAATT
TTCCTCAAAAATAAAGTTTCCAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTC
Found at i:4316591 original size:254 final size:254
Alignment explanation
Indices: 4316086--4316592 Score: 713
Period size: 254 Copynumber: 2.0 Consensus size: 254
4316076 GGAAAAGTTA
*
4316086 AAAGTATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAAAAATATTTTTGAGGAAAGTTGAAAGT
1 AAAGTATCAATTTTTCTCGAAAATAAGCTTTC--AAAAAAAATATTTTTGAGGAAAGTTGAAAGT
*
4316151 ATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATT
64 ATCAATTTTCTTTGAAAATAAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATT
*
4316216 TTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
129 TTCCTTAAAAATAAATTTTCAAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
4316281 CGAAATTAAAGTTTCCAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATTAATTTTTCTCG
194 CGAAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTAAAAATATCAATTTTTCTCG
* * *
4316342 AAAGTATCAATTTTTCTCGAAATTAAAG-TTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGT
1 AAAGTATCAATTTTTCTCGAAAAT-AAGCTTTCAAAAAAAATATTTTTGAGG-AAAGTTGAAAGT
* * * *
4316405 ATCAATTTT-TCTTGAAATTAAAG-TTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAA
64 ATCAATTTTCT-TTGAAAAT-AAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAA
**
4316468 TTTTCCTTAAAAATAAATTTTCAATAAA-GTTTTTTTTTTGA-GAAAAGTTGAAAGTATCAATTT
127 TTTTCCTTAAAAATAAATTTTCAA-AAATG-AATTTTTTTGAGGAAAAGTTGAAAGTATCAA-TT
* * *
4316531 TTTCTCGAAATTAAAGTTTCTAAAAAAATA-TTTTGGGGAGAAGTTAAAAATATCAATTTTTC
189 TTTCTCGAAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTAAAAATATCAATTTTTC
4316593 CTGTACAAAA
Statistics
Matches: 225, Mismatches: 19, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
253 17 0.08
254 133 0.59
255 46 0.20
256 26 0.12
257 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (254 bp):
AAAGTATCAATTTTTCTCGAAAATAAGCTTTCAAAAAAAATATTTTTGAGGAAAGTTGAAAGTAT
CAATTTTCTTTGAAAATAAGCTCTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTT
CCTTAAAAATAAATTTTCAAAAATGAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCG
AAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTAAAAATATCAATTTTTCTCG
Found at i:4318895 original size:6 final size:6
Alignment explanation
Indices: 4318884--4318929 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
4318874 TGTTTAATAT
4318884 TTTTTA TTTTTA -TTTTA TTTTT- TATTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTT
4318930 TTAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.16
6 30 0.81
7 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:4318915 original size:23 final size:24
Alignment explanation
Indices: 4318885--4318930 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
4318875 GTTTAATATT
4318885 TTTTATTTTTA-TTTTATTTTTTA
1 TTTTATTTTTATTTTTATTTTTTA
4318908 TTTTATTTTTATTTTTATTTTTT
1 TTTTATTTTTATTTTTATTTTTT
4318931 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTATTTTTATTTTTATTTTTTA
Found at i:4318917 original size:18 final size:18
Alignment explanation
Indices: 4318881--4318929 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
4318871 ATTTGTTTAA
4318881 TATTTTTTATTTTTATTT
1 TATTTTTTATTTTTATTT
4318899 TATTTTTTA-TTTTATTT
1 TATTTTTTATTTTTATTT
4318916 T-TATTTTTATTTTT
1 TAT-TTTTTATTTTT
4318930 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.03
17 15 0.52
18 13 0.45
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TATTTTTTATTTTTATTT
Found at i:4319025 original size:59 final size:59
Alignment explanation
Indices: 4318944--4319055 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
4318934 ATAAAATTCA
4318944 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAGCTTTCT
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAGCTTTCT
* * *
4319003 AAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG
4319056 TATCAATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
59 48 0.98
60 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (59 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTTCT
Found at i:4319041 original size:30 final size:30
Alignment explanation
Indices: 4318953--4319056 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 30
4318943 AAAAAAAATA
4318953 TTTTTGAGAAAAAGTTGAAAGTATCAATTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTT
* *
4318983 TTCTTGA-AAATAAGCTTTCTAAA--A--AATTT
1 TTTTTGAGAAA-AAG--TT-GAAAGTATCAATTT
*
4319012 TTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTT
*
4319042 TCTTTGA-AAATAAGT
1 TTTTTGAGAAA-AAGT
4319057 ATCAATTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
26 3 0.05
27 2 0.04
28 1 0.02
29 19 0.33
30 26 0.46
31 1 0.02
32 2 0.04
33 3 0.05
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.40
Consensus pattern (30 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAATTT
Found at i:4319050 original size:19 final size:19
Alignment explanation
Indices: 4319025--4319073 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
4319015 TTGAGGAAAA
4319025 GTTGAAAGTATCAATTTTC
1 GTTGAAAGTATCAATTTTC
*
4319044 TTTGAAAATAAGTATCAATTTTC
1 GTTG---A-AAGTATCAATTTTC
4319067 GTTGAAA
1 GTTGAAA
4319074 ATAAGCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
19 5 0.21
20 1 0.04
22 1 0.04
23 17 0.71
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (19 bp):
GTTGAAAGTATCAATTTTC
Found at i:4319056 original size:23 final size:23
Alignment explanation
Indices: 4319030--4319078 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
4319020 GAAAAGTTGA
*
4319030 AAGTATCAATTTTCTTTGAAAAT
1 AAGTATCAATTTTCGTTGAAAAT
4319053 AAGTATCAATTTTCGTTGAAAAT
1 AAGTATCAATTTTCGTTGAAAAT
4319076 AAG
1 AAG
4319079 CTTTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (23 bp):
AAGTATCAATTTTCGTTGAAAAT
Found at i:4319060 original size:82 final size:83
Alignment explanation
Indices: 4318971--4319138 Score: 286
Period size: 83 Copynumber: 2.0 Consensus size: 83
4318961 AAAAAGTTGA
* * *
4318971 AAGTATCAATTTTTC-TTGAAAATAAGCTTTCT-AAAAAATTTTTTTTGAGGAAAAGTTGAAAGT
1 AAGTATCAA-TTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAAT
4319034 ATCAATTTTCTTTGAAAAT
65 ATCAATTTTCTTTGAAAAT
4319053 AAGTATCAATTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAATA
1 AAGTATCAATTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAATA
4319118 TCAATTTTCTTTGAAAAT
66 TCAATTTTCTTTGAAAAT
4319136 AAG
1 AAG
4319139 CTCTCTAAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
81 5 0.06
82 26 0.32
83 50 0.62
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (83 bp):
AAGTATCAATTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAATA
TCAATTTTCTTTGAAAAT
Found at i:4319132 original size:60 final size:58
Alignment explanation
Indices: 4319056--4319194 Score: 201
Period size: 58 Copynumber: 2.4 Consensus size: 58
4319046 TGAAAATAAG
* *
4319056 TATCAATTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTT-GAGGAAAAGTTGAAAA
1 TATCAATTTTCTTTGAAAATAAGCTCTCT--AAAAAATATTTTTGGA-GAAAAGTTGAAAA
*
4319116 TATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTGGAGAAAAGTTGAAAG
1 TATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTGGAGAAAAGTTGAAAA
*
4319174 TATCAATTTT-TTTAAAAATAA
1 TATCAATTTTCTTTGAAAATAA
4319195 ATTTTTAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
57 10 0.14
58 35 0.47
59 2 0.03
60 27 0.36
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
TATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTGGAGAAAAGTTGAAAA
Found at i:4319178 original size:58 final size:57
Alignment explanation
Indices: 4319053--4319300 Score: 216
Period size: 60 Copynumber: 4.2 Consensus size: 57
4319043 CTTTGAAAAT
*
4319053 AAGTATCAATTTTCGTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAGGAAAAGTTGA
1 AAGTATCAATTTTCTTTGAAAATAAGCTTTCT--AAAAAATATTTTTGA-GAAAAGTTGA
* *
4319113 AAATATCAATTTTCTTTGAAAATAAGCTCTCTAAAAAATATTTTTGGAGAAAAGTTGA
1 AAGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAAATATTTTT-GAGAAAAGTTGA
* * * * *
4319171 AAGTATCAATTTT-TTTAAAAATAA-ATTTTTAATAAAGTTTTTTTTTTTGAGAAAAGTTGA
1 AAGTATCAATTTTCTTTGAAAATAAGCTTTCTAA-AAA----ATATTTTTGAGAAAAGTTGA
* * ** * * * *
4319231 AAGTATCAATTTT-TCTCGAAATTAAATTTTTTTAAAAATATTTTGGGGAGAAA-TTGA
1 AAGTATCAATTTTCT-TTGAAAATAAGCTTTCTAAAAAATATTTTTGAGA-AAAGTTGA
*
4319288 AAATATCAATTTT
1 AAGTATCAATTTT
4319301 TTCTGTACAA
Statistics
Matches: 159, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
56 5 0.03
57 37 0.23
58 38 0.24
59 2 0.01
60 55 0.35
61 16 0.10
62 6 0.04
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (57 bp):
AAGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGAAAAGTTGA
Found at i:4324800 original size:2 final size:2
Alignment explanation
Indices: 4324793--4324817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4324783 CCTCTTATTT
4324793 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4324818 TACATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4335390 original size:59 final size:57
Alignment explanation
Indices: 4335186--4335636 Score: 458
Period size: 59 Copynumber: 7.7 Consensus size: 57
4335176 TTGTGCAGAA
* * * * **
4335186 AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAATTTTAATCTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAATTTATTTTTAAGG
* * *
4335243 AAAATTGATACCTTCAACTTTTCC-CCAAAATATCTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * **
4335299 AAAATTGATATTATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAAACTTTAATTTCGAGG
1 AAAATTG-----ATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAAA-TTTATTTTTAAGG
*
4335363 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TA-TTTTTTGAAAATTTATTTTTAAGG
* * * **
4335423 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTAATTTCGA-G
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-GAAAATTTATTTTTAAGG
* * * *
4335481 AGAAATTGATACTTTCAACTTTCCCTCAAAAATCTTTTTTTTTAAAATTTATTTTTAAGA
1 A-AAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAAATTTATTTTTAAGG
* * *
4335541 AAAATTGATACTCTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * * * *
4335598 AAAATTGATATTTTCAATTTTTCCCCAAAATTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
4335637 TGATTTTATT
Statistics
Matches: 334, Mismatches: 43, Indels: 34
0.81 0.10 0.08
Matches are distributed among these distances:
56 21 0.06
57 92 0.28
58 10 0.03
59 102 0.31
60 46 0.14
61 22 0.07
62 20 0.06
63 4 0.01
64 17 0.05
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:4335409 original size:17 final size:17
Alignment explanation
Indices: 4335389--4335428 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4335379 ACTTTTCCTC
**
4335389 AAAAATTTATTTTTTTG
1 AAAAATTTATTTTTAAG
4335406 -AAAATTTATTTTTAAG
1 AAAAATTTATTTTTAAG
4335422 AAAAATT
1 AAAAATT
4335429 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AAAAATTTATTTTTAAG
Found at i:4335476 original size:119 final size:116
Alignment explanation
Indices: 4335185--4335639 Score: 553
Period size: 119 Copynumber: 3.9 Consensus size: 116
4335175 TTTGTGCAGA
* * * *
4335185 AAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAATTTTAATCTCGAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATT
* * * *
4335249 GATACCTTCAACTTTTCCCCAAAA--TATCTTTTGAAAATTTATTTTTAAGG
66 GATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGAAAATTTATTTTTAA-G
* * *
4335299 AAAATTGATATTATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAAACTTTAATTTCGAGGA
1 AAAA---AT-TGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-GAAACTTTAATTTCGAGGA
4335364 AAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAG
61 AAATTGATACTTTCAACTTTTCC-CAAAAATTT-TTTTTTTGAAAATTTATTTTTAAG
*
4335422 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTAATTTCGA-GAGAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGGAAACTTTAATTTCGAGGA-AAA
*
4335486 TTGATACTTTCAACTTTCCCTCAAAAATCTTTTTTTTT-AAAATTTATTTTTAAG
64 TTGATACTTTCAACTTTTCC-CAAAAAT-TTTTTTTTTGAAAATTTATTTTTAAG
* * * * ** *
4335540 AAAAATTGATACTCTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATT
* * *
4335604 GATATTTTCAATTTTTCCCCAAAATTTTTTTTTTGA
66 GATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGA
4335640 TTTTATTTAA
Statistics
Matches: 300, Mismatches: 26, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
114 13 0.04
115 7 0.02
116 38 0.13
117 3 0.01
118 69 0.23
119 89 0.30
120 49 0.16
121 5 0.02
123 6 0.02
124 21 0.07
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATT
GATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGAAAATTTATTTTTAAG
Found at i:4335637 original size:118 final size:117
Alignment explanation
Indices: 4335185--4335637 Score: 544
Period size: 118 Copynumber: 3.8 Consensus size: 117
4335175 TTTGTGCAGA
* * * * *
4335185 AAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAATTTTAATCTCGAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGAAAAATT
* * *
4335249 GATACCTTCAACTTTTCCCCAAAA---TATCTTTTGAAAATTTATTTTTAAGG
66 GATACTTTCAACTTTTCCCCAAAATTTTTTTTTTTGAAAATTTATTTTTAA-G
* * *
4335299 AAAATTGATATTATACTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAAACTTTAATTTCGAGG
1 AAAA---AT-TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAAA-TTTAATTTCGAGA
* *
4335363 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAG
60 AAAATTGATACTTTCAACTTTTCC-CCAAAATTTTTTTTTTTGAAAATTTATTTTTAAG
* * *
4335422 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAGAGAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAATTTAATTTCGAGAAAAAT
*
4335487 TGATACTTTCAAC-TTTCCCTCAAAAATCTTTTTTTTT-AAAATTTATTTTTAAG
65 TGATACTTTCAACTTTTCCC-C-AAAATTTTTTTTTTTGAAAATTTATTTTTAAG
* * **
4335540 AAAAATTGATACTCTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGAAAAATT
* *
4335604 GATATTTTCAATTTTTCCCCAAAATTTTTTTTTT
66 GATACTTTCAACTTTTCCCCAAAATTTTTTTTTT
4335638 GATTTTATTT
Statistics
Matches: 295, Mismatches: 28, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
114 4 0.01
115 13 0.04
116 30 0.10
117 16 0.05
118 78 0.26
119 76 0.26
120 46 0.16
121 6 0.02
123 5 0.02
124 21 0.07
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (117 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGAAAAATT
GATACTTTCAACTTTTCCCCAAAATTTTTTTTTTTGAAAATTTATTTTTAAG
Found at i:4336643 original size:15 final size:15
Alignment explanation
Indices: 4336620--4336656 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4336610 TCAGTCGGAT
4336620 AAATAAAAAAAAATC
1 AAATAAAAAAAAATC
*
4336635 AAATGAAAAAAAATC
1 AAATAAAAAAAAATC
4336650 AAATAAA
1 AAATAAA
4336657 TCAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (15 bp):
AAATAAAAAAAAATC
Found at i:4336676 original size:21 final size:21
Alignment explanation
Indices: 4336652--4336700 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4336642 AAAAAATCAA
4336652 ATAAATCAAAA-AAATTAACAG
1 ATAAATCAAAATAAA-TAACAG
*
4336673 ATAAATTAAAATTAAATAACAG
1 ATAAATCAAAA-TAAATAACAG
4336695 ATAAAT
1 ATAAAT
4336701 TAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 12 0.48
23 3 0.12
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (21 bp):
ATAAATCAAAATAAATAACAG
Found at i:4336680 original size:12 final size:12
Alignment explanation
Indices: 4336663--4336703 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4336653 TAAATCAAAA
4336663 AAATTAACAGAT
1 AAATTAACAGAT
4336675 AAATTAA-A-ATT
1 AAATTAACAGA-T
4336686 AAA-TAACAGAT
1 AAATTAACAGAT
4336697 AAATTAA
1 AAATTAA
4336704 TATATAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.16
11 10 0.40
12 11 0.44
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:4336817 original size:6 final size:6
Alignment explanation
Indices: 4336806--4336927 Score: 65
Period size: 6 Copynumber: 19.8 Consensus size: 6
4336796 AATATCTAAG
* * * * *
4336806 ATAAAA AT-AAA AGAAAA ATATAT ATAAAA AAAACACTA ATAATA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA-A--A ATAAAA ATAAAA
* *
4336856 ATAAAA AT-AAA ATAGAA AT-AAA ATAAAA ATGTAAAA TACAATAA ATAAATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A--TAAAA -ATAA-AA ATAAA-A
*
4336907 A-ATAA ATAAAA AT-AAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAA
4336928 GAAAAAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 26
0.67 0.12 0.20
Matches are distributed among these distances:
5 20 0.23
6 47 0.54
7 8 0.09
8 7 0.08
9 5 0.06
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:4336937 original size:19 final size:18
Alignment explanation
Indices: 4336898--4336937 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4336888 AAAATACAAT
* *
4336898 AAATAAATAAATAAATAA
1 AAATAAATAAAGAAAAAA
4336916 AAATAAAATAAAGAAAAAA
1 AAAT-AAATAAAGAAAAAA
4336935 AAA
1 AAA
4336938 CATAAACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAGAAAAAA
Found at i:4336942 original size:27 final size:25
Alignment explanation
Indices: 4336852--4336943 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 25
4336842 TAATAATAAT
4336852 AAAAATAAAAATAAAATAGAAATAAAA
1 AAAAATAAAAATAAAATA-AAA-AAAA
* *
4336879 TAAAAATGTAAAATACAATAAATAAATAA
1 -AAAAAT-AAAAATAAAATAAA-AAA-AA
*
4336908 ATAAATAAAAATAAAATAAAGAAAAA
1 AAAAATAAAAATAAAATAAA-AAAAA
4336934 AAAACATAAA
1 AAAA-ATAAA
4336944 CTTACCTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
26 5 0.09
27 20 0.38
28 15 0.28
29 13 0.25
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.17
Consensus pattern (25 bp):
AAAAATAAAAATAAAATAAAAAAAA
Found at i:4339084 original size:2 final size:2
Alignment explanation
Indices: 4339077--4339103 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4339067 TCAGCTAGTT
4339077 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 T
4339104 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4346308 original size:21 final size:21
Alignment explanation
Indices: 4346284--4346353 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
4346274 TTACCCGATT
4346284 GATCCCTTGCTTGAGGGGATC
1 GATCCCTTGCTTGAGGGGATC
** * *
4346305 GATCTATT-CTTTAGGTGATC
1 GATCCCTTGCTTGAGGGGATC
*
4346325 GATCCCCTATG--TGGGGGGATC
1 GAT-CCCT-TGCTTGAGGGGATC
4346346 GATCCCTT
1 GATCCCTT
4346354 TTGCTTATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
19 1 0.03
20 17 0.46
21 18 0.49
22 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.33
Consensus pattern (21 bp):
GATCCCTTGCTTGAGGGGATC
Found at i:4349476 original size:2 final size:2
Alignment explanation
Indices: 4349436--4349460 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4349426 CTAAGTCATT
4349436 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
4349461 TTCTTTTAGT
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:4349619 original size:12 final size:12
Alignment explanation
Indices: 4349604--4349637 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4349594 TTCTAAAATT
4349604 TCTTCTTATCTC
1 TCTTCTTATCTC
*
4349616 TCTTCTTTTCTC
1 TCTTCTTATCTC
4349628 TCTT-TTATCT
1 TCTTCTTATCT
4349638 TTATTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTCTTATCTC
Found at i:4357493 original size:22 final size:22
Alignment explanation
Indices: 4357468--4357511 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4357458 ATTTTTCATC
**
4357468 CTTAATTCTAATGATACAAATA
1 CTTAATTCTAAAAATACAAATA
4357490 CTTAATTCTAAAAATACAAATA
1 CTTAATTCTAAAAATACAAATA
4357512 TAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAAAAATACAAATA
Found at i:4357523 original size:22 final size:22
Alignment explanation
Indices: 4357481--4357523 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4357471 AATTCTAATG
* *
4357481 ATACAAATACTTAATTCTAAAA
1 ATACAAATACTAAATTATAAAA
4357503 ATACAAATA-TAAATATATAAA
1 ATACAAATACTAAAT-TATAAA
4357524 TTACAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
ATACAAATACTAAATTATAAAA
Found at i:4362428 original size:22 final size:22
Alignment explanation
Indices: 4362396--4362438 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4362386 TTTTCCATCA
*
4362396 TTAATTCTAGAGATACAAATAC
1 TTAATTCTAGACATACAAATAC
*
4362418 TTAATTTTAGACATACAAATA
1 TTAATTCTAGACATACAAATA
4362439 TAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGACATACAAATAC
Found at i:4362450 original size:22 final size:22
Alignment explanation
Indices: 4362398--4362450 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
4362388 TTCCATCATT
* * *
4362398 AATTCTAGAGATACAAATACTT
1 AATTATAGACATACAAATACTA
*
4362420 AATTTTAGACATACAAATA-TA
1 AATTATAGACATACAAATACTA
4362441 AATATATAGA
1 AAT-TATAGA
4362451 TTACAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (22 bp):
AATTATAGACATACAAATACTA
Found at i:4366027 original size:23 final size:23
Alignment explanation
Indices: 4365979--4366028 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4365969 TATAATTTTT
** *
4365979 TTAATTTTACATATTTTTAATTA
1 TTAATTTTACATAAATTTAATAA
4366002 TTAATTTTA-ATAAATTTAATAAA
1 TTAATTTTACATAAATTTAAT-AA
4366025 TTAA
1 TTAA
4366029 ATTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTACATAAATTTAATAA
Found at i:4366482 original size:19 final size:18
Alignment explanation
Indices: 4366449--4366484 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4366439 TATAAAACCA
4366449 AATATTAAAATTATAGTT
1 AATATTAAAATTATAGTT
*
4366467 AATATATAAGATTATAGT
1 AATAT-TAAAATTATAGT
4366485 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
AATATTAAAATTATAGTT
Found at i:4367470 original size:25 final size:26
Alignment explanation
Indices: 4367424--4367481 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
4367414 ATATTTTATT
*
4367424 TTGATTCAAGATGAAAAAGATTATAAC
1 TTGAATCAAGATG-AAAAGATTATAAC
*
4367451 TTGAATCAAGATG-AACGATTATAAC
1 TTGAATCAAGATGAAAAGATTATAAC
4367476 TTGAAT
1 TTGAAT
4367482 GTAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.59
27 12 0.41
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.31
Consensus pattern (26 bp):
TTGAATCAAGATGAAAAGATTATAAC
Found at i:4368198 original size:11 final size:11
Alignment explanation
Indices: 4368179--4368222 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
4368169 AATTATAATT
4368179 TAAAA-TTATA
1 TAAAATTTATA
4368189 TAAAATTTAT-
1 TAAAATTTATA
4368199 TAAAATTTTATA
1 TAAAA-TTTATA
*
4368211 TGAAATTTATA
1 TAAAATTTATA
4368222 T
1 T
4368223 TTATAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.33
11 16 0.53
12 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:4368941 original size:12 final size:12
Alignment explanation
Indices: 4368924--4368953 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4368914 GGTACTTTCC
4368924 CTCTCTTTCTCT
1 CTCTCTTTCTCT
4368936 CTCTCTTTCTCT
1 CTCTCTTTCTCT
*
4368948 ATCTCT
1 CTCTCT
4368954 CTATCTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (12 bp):
CTCTCTTTCTCT
Found at i:4368952 original size:18 final size:18
Alignment explanation
Indices: 4368925--4368966 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4368915 GTACTTTCCC
* * *
4368925 TCTCTTTCTCTCTCTCTT
1 TCTCTATCTCTCTATCTG
4368943 TCTCTATCTCTCTATCTG
1 TCTCTATCTCTCTATCTG
4368961 TCTCTA
1 TCTCTA
4368967 CTTCTTCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.02, T:0.55
Consensus pattern (18 bp):
TCTCTATCTCTCTATCTG
Found at i:4373393 original size:19 final size:20
Alignment explanation
Indices: 4373369--4373411 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
4373359 AAAATGAACT
4373369 AAAACACA-CACACACACAC
1 AAAACACAGCACACACACAC
*
4373388 AAAACACATGTACACACACAC
1 AAAACACA-GCACACACACAC
4373409 AAA
1 AAA
4373412 CATGCAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.58, C:0.35, G:0.02, T:0.05
Consensus pattern (20 bp):
AAAACACAGCACACACACAC
Found at i:4381389 original size:24 final size:25
Alignment explanation
Indices: 4381362--4381410 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4381352 TAAATTAAAG
*
4381362 ATAAAA-TAATCAATATAATTTTTT
1 ATAAAATTAATAAATATAATTTTTT
*
4381386 ATAAAATTAATAAATGTAATTTTTT
1 ATAAAATTAATAAATATAATTTTTT
4381411 GTATTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAAAATTAATAAATATAATTTTTT
Found at i:4383546 original size:22 final size:22
Alignment explanation
Indices: 4383491--4383544 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
4383481 CAATTCTTAT
4383491 AATCAA-CTAAATTAATATCTA
1 AATCAATCTAAATTAATATCTA
*
4383512 ATAT-TATCTAAATTAATATC-A
1 A-ATCAATCTAAATTAATATCTA
4383533 AATCAATCTAAA
1 AATCAATCTAAA
4383545 ATATTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 11 0.39
22 15 0.54
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
AATCAATCTAAATTAATATCTA
Found at i:4383587 original size:41 final size:43
Alignment explanation
Indices: 4383511--4383591 Score: 123
Period size: 41 Copynumber: 1.9 Consensus size: 43
4383501 ATTAATATCT
4383511 AATATTATCTAAATTAATATCAAATCAATCTAAAATATTATTAA
1 AATATTATCTAAATTAATATC-AATCAATCTAAAATATTATTAA
4383555 AATATTAT-TAGAA-TAATATC-ATCAATCTAAAATATTA
1 AATATTATCTA-AATTAATATCAATCAATCTAAAATATTA
4383592 CCAGAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
41 17 0.47
43 9 0.25
44 10 0.28
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (43 bp):
AATATTATCTAAATTAATATCAATCAATCTAAAATATTATTAA
Found at i:4383600 original size:41 final size:43
Alignment explanation
Indices: 4383511--4383602 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 43
4383501 ATTAATATCT
**
4383511 AATATTATCTAAATTAATATCAAATCAATCTAAAATATTATTAA
1 AATATTATCTAAATTAATATC-AATCAATCTAAAATATTACCAA
*
4383555 AATATTAT-TAGAA-TAATATC-ATCAATCTAAAATATTACCAG
1 AATATTATCTA-AATTAATATCAATCAATCTAAAATATTACCAA
4383596 AATATTA
1 AATATTA
4383603 CTACAATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 25 0.57
43 9 0.20
44 10 0.23
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (43 bp):
AATATTATCTAAATTAATATCAATCAATCTAAAATATTACCAA
Found at i:4383704 original size:2 final size:2
Alignment explanation
Indices: 4383699--4383726 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4383689 ATTAAACCGC
4383699 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
4383727 GTTCTAGCTT
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:4386401 original size:20 final size:19
Alignment explanation
Indices: 4386355--4386403 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4386345 AAATATAAAA
4386355 AATAAATAATTTAAAATGTT
1 AATAAA-AATTTAAAATGTT
*
4386375 AACAAAAATTATATAAAT-TT
1 AATAAAAATT-TA-AAATGTT
4386395 AATAAAAAT
1 AATAAAAAT
4386404 AAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATAAAAATTTAAAATGTT
Found at i:4387514 original size:2 final size:2
Alignment explanation
Indices: 4387507--4387554 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4387497 CAACCTTGAT
4387507 TA TA TA TA TA TA 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 TA TA TA TA TA TA
4387549 TA TA TA
1 TA TA TA
4387555 AAGCTCTCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4406757 original size:6 final size:6
Alignment explanation
Indices: 4406748--4406776 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4406738 AAATAAAAAC
4406748 AAACCA AAACCA AAACCA AAACCA AAACC
1 AAACCA AAACCA AAACCA AAACCA AAACC
4406777 CCGCAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCA
Found at i:4407566 original size:36 final size:36
Alignment explanation
Indices: 4407526--4407594 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
4407516 ATATCAAGAC
4407526 GAACAAAGTTACATATTAAGTCAATTCTATAACAGG
1 GAACAAAGTTACATATTAAGTCAATTCTATAACAGG
4407562 GAACAAAGTTACATATTAAGTCAATTCTATAAC
1 GAACAAAGTTACATATTAAGTCAATTCTATAAC
4407595 TAAGATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (36 bp):
GAACAAAGTTACATATTAAGTCAATTCTATAACAGG
Found at i:4410605 original size:14 final size:14
Alignment explanation
Indices: 4410569--4410605 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
4410559 AAAGTTAAAC
4410569 TTTA-ATTAAAAAA
1 TTTATATTAAAAAA
*
4410582 TTT-TAATAAAAAA
1 TTTATATTAAAAAA
4410595 TTTATATTAAA
1 TTTATATTAAA
4410606 TGAATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTATATTAAAAAA
Found at i:4415792 original size:15 final size:15
Alignment explanation
Indices: 4415772--4415810 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4415762 TCTGTGAAAA
* *
4415772 AGTTATTTCGTGAAT
1 AGTTATTTCATAAAT
*
4415787 AGTTATTTTATAAAT
1 AGTTATTTCATAAAT
4415802 AGTTATTTC
1 AGTTATTTC
4415811 TTACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (15 bp):
AGTTATTTCATAAAT
Found at i:4424577 original size:186 final size:183
Alignment explanation
Indices: 4423861--4425351 Score: 1366
Period size: 186 Copynumber: 8.0 Consensus size: 183
4423851 GGACAGTTAG
* * *
4423861 TGAAGGCAT-TTCTTGAGAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTTAGATTAATAAA
1 TGAAGGCATCTT-TTGAGATCAAACGCCTTCAATAATTTT-T-TTAAAATTTTTAGATTATTAAA
* * * * * ** * * * *
4423925 AGCGTTTTTCACTGAAAAACGCCTTTAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGA
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTGAAGG
* * * * * *
4423990 CATTTATTCTAGAAAAATACCTTCATTAATT-TCTTCAAATTTATGTGCACAATTAT
128 CGTTTATTCTAGAAAAATACATTCACTAATTCT-TTCTAATTTACGTGCATAATTAT
* ** * ** *
4424046 TAAAGGTGTCTTTTGAGATCAAATGCCTTC-ATAATTTTTTTTTTTTAATTTTGAGATTATTAAA
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAA---TTTTTTTAAAATTTTTAGATTATTAAA
* * * *
4424110 GGTGTCTTCTAGTGAAAAATGCCTTCAATATTCTACAACTCAAATTTTGATATGGTTAATGAAGG
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTGAAGG
* * * * *
4424175 CATTTATTCTAGAAAAATACATTCACTAATTCCTTCAAATTTACATGCACAATTAT
128 CGTTTATTCTAGAAAAATACATTCACTAATTCTTTCTAATTTACGTGCATAATTAT
* * * *
4424231 TAAAGGCATATTTTGAGATCAAACGCCTTCAATAAATTTTTTTTTTTTTAAA-TTTGAGATTATT
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAAT-AA-----TTTTTTTAAAATTTTTAGATTATT
* * * * * * * *
4424295 AAAAGTGTTTTCCAATAAAAAAATACCTTCAATATTCCACAACTCAAATTTTGAGATGGTTTGTG
60 AAAGGTGTCTTCCAGT-GAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTG
* * *
4424360 AAGGCGTTTATTCTAAAAAAATACATTCACTAATTCTTTCAAATTTACGTGCGTAATTAT
124 AAGGCGTTTATTCTAGAAAAATACATTCACTAATTCTTTCTAATTTACGTGCATAATTAT
* * * *
4424420 TGAAGGCGTTTTTTGATATCAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAA
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTT-T-TTAAAA-TTTTTAGATTATTAAA
* * * * * *
4424485 GGTGTCTTCCAGTAAAAAATACCTTAAATATTCTACAACACAAATTTTGATACAGTTTGTGAAGA
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTGAAGG
* * * *
4424550 CATTTATTCCAGAAAAATGCATTCACTAATT-TCTTCTAATTTATGTGCATAATTAT
128 CGTTTATTCTAGAAAAATACATTCACTAATTCT-TTCTAATTTACGTGCATAATTAT
* * * *
4424606 TGAATGCGTCTTTTGAGATCAAACGCCTTCAATAATTTTTTAAAAAATTTTAGAATTATTAAAGG
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTTAAAATTTTTAG-ATTATTAAAGG
* ** **** * * * *
4424671 TTTCTTATAGTGAAAAACGTTTTCAATATT-TCATAACTCAAATTTTAATACGATTAGTAAAGGC
65 TGTCTTCCAGTGAAAAATACCTTCAATATTCT-ACAACTCAAATTTTGATACGGTTAGTGAAGGC
* * *
4424735 GTTTATTCCAGAAAAATACCTTCACTAATTTCTTT-TAATTTACATGCATAATTAT
129 GTTTATTCTAGAAAAATACATTCACTAA-TTCTTTCTAATTTACGTGCATAATTAT
* * * * *
4424790 TAAATGCATCTTTTGATATCAAACACCTTTAATAATTTTTTTAAAAAATTTTTAAGATTATTAAA
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTT--AAAATTTTT-AGATTATTAAA
** * ** ** * * * *
4424855 TATGTTTTTTAGTGAAAAACGCCTTTAATATT-TCACAACACAAATTTTGAGACAGTTAGTGAAG
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCT-ACAACTCAAATTTTGATACGGTTAGTGAAG
* * * ** * *
4424919 GCGTTTATTCCATAATAACGCTTTCACTAATTCCTTCTAATTTACGTGCATAATTAT
127 GCGTTTATTCTAGAAAAATACATTCACTAATTCTTTCTAATTTACGTGCATAATTAT
* * * *
4424976 TGAATGCATTTTTTGAGATCAAATGCCTTCAATAATTTTTTCTTAAAATTTTTAAGACTATTAAA
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAA-TTTTT-TTAAAATTTTT-AGATTATTAAA
* * * * * * *
4425041 GGCGTCTTCCAGTGAAAAATATCTTCAATATTTTACAACTCAAATTTTAAAATGGTTAGTGAAGA
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTGAAGG
** * *
4425106 CGTTTATTCTAGAAAAATATTTTCACTAATTCCTTCTAATTTACATGCATAATTAT
128 CGTTTATTCTAGAAAAATACATTCACTAATTCTTTCTAATTTACGTGCATAATTAT
4425162 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATATTTTTTAAAAATTTTTAGGATTATTAAA
1 TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAAT-TTTTTT-AAAATTTTTA-GATTATTAAA
** * * * * * ** * *
4425227 AATATCTTTCAGTAAAAAATACCTTCATTATT-TCATAAC-CAAAAGGTTGAGATGGTTAGTGAA
63 GGTGTCTTCCAGTGAAAAATACCTTCAATATTCT-ACAACTC-AAATTTTGATACGGTTAGTGAA
* * ** *
4425290 GGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTT-TAATTTTTGTACATAATTAT
126 GGCGTTTATTCTAGAAAAATACATTCACTAATT-CTTTCTAATTTACGTGCATAATTAT
4425348 TGAA
1 TGAA
4425352 TGTGGTTGTC
Statistics
Matches: 1090, Mismatches: 184, Indels: 63
0.82 0.14 0.05
Matches are distributed among these distances:
183 11 0.01
184 145 0.13
185 191 0.18
186 537 0.49
187 41 0.04
188 28 0.03
189 137 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (183 bp):
TGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTTAAAATTTTTAGATTATTAAAGGT
GTCTTCCAGTGAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACGGTTAGTGAAGGCGT
TTATTCTAGAAAAATACATTCACTAATTCTTTCTAATTTACGTGCATAATTAT
Found at i:4425040 original size:556 final size:555
Alignment explanation
Indices: 4423861--4425333 Score: 1765
Period size: 556 Copynumber: 2.6 Consensus size: 555
4423851 GGACAGTTAG
* * * *
4423861 TGAAGGCATTTCTTGAGAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTTAGATTAATAAAA
1 TGAAGGCATTTTTTGAGATCAAATGCCTTCAATAATTTTCTCTTAAAATTTTTAGATTATTAAAG
* * * ** *
4423926 GCGTTTTTCACTGAAAAACGCCTTTAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGAC
66 GCGTCTTCCAGTGAAAAATACCTTAAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGAC
* * * * * *
4423991 ATTTATTCTAGAAAAATACCTTCATTAATTTCTTCAAATTTATGTGCACAATTATTAAAGGTGTC
131 ATTTATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTATGTGCATAATTATTGAAGGCGTC
* **** *
4424056 TTTTGAGATCAAATGCCTTC-ATAATTTTTTTTTTTTAATTTT-GAGATTATTAAAGGTGTCTTC
196 TTTTGAGATCAAACGCCTTCAATAA--TTTTTTAAAAAATTTTAGA-ATTATTAAAGGTATCTT-
* * *
4424119 TAGTGAAAAATGCCTTCAATA-TTCTACAACTCAAATTTTGATATGGTTAATGAAGGCATTTATT
257 TAGTGAAAAATGCCTTCAATATTTC-ATAACTCAAATTTTGATATGGTTAGTGAAGGCGTTTATT
* **
4424183 CTAGAAAAATACATTCACTAATTCCTTCAAATTTACATGCACAATTATTAAAGGCATATTTTGAG
321 CTAGAAAAATACCTTCACTAATTCCTTTTAATTTACATGCACAATTATTAAAGGCATATTTTGAG
* *** *
4424248 ATCAAACGCCTTCAATAAATTTTTTTTTTTTTAAATTTGAGATTATTAAAAGTGTTTTCCAATAA
386 ATCAAACACCTTCAATAAA--TTTTTTTTAAAAAATTTAAGATTATTAAAAGTGTTTTCCAATAA
* * ** * *
4424313 AAAAATACCTTCAATATTCCACAACTCAAATTTTGAGATGGTTTGTGAAGGCGTTTATTCTAAAA
449 AAAAACACCTTCAATATTCCACAACACAAATTTTGAGACAGTTAGTGAAGGCGTTTATTCCAAAA
* * *
4424378 AAATACATTCACTAATTCTTTCAAATTTACGTGCGTAATTAT
514 AAACACATTCACTAATTCCTTCAAATTTACGTGCATAATTAT
* * **
4424420 TGAAGGCGTTTTTTGATATCAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAA
1 TGAAGGCATTTTTTGAGATCAAATGCCTTCAATAATTTTCTCTTAAAA-TTTTTAGATTATTAAA
* * * * * * *
4424485 GGTGTCTTCCAGTAAAAAATACCTTAAATATTCTACAACACAAATTTTGATACAGTTTGTGAAGA
65 GGCGTCTTCCAGTGAAAAATACCTTAAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGA
* * *
4424550 CATTTATTCCAGAAAAATGCATTCACTAATTTCTTCTAATTTATGTGCATAATTATTGAATGCGT
130 CATTTATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTATGTGCATAATTATTGAAGGCGT
*
4424615 CTTTTGAGATCAAACGCCTTCAATAATTTTTTAAAAAATTTTAGAATTATTAAAGGTTTCTTATA
195 CTTTTGAGATCAAACGCCTTCAATAATTTTTTAAAAAATTTTAGAATTATTAAAGGTATCTT-TA
* ** * * * * *
4424680 GTGAAAAACGTTTTCAATATTTCATAACTCAAATTTTAATACGATTAGTAAAGGCGTTTATTCCA
259 GTGAAAAATGCCTTCAATATTTCATAACTCAAATTTTGATATGGTTAGTGAAGGCGTTTATTCTA
* * * * *
4424745 GAAAAATACCTTCACTAATTTCTTTTAATTTACATGCATAATTATTAAATGCATCTTTTGATATC
324 GAAAAATACCTTCACTAATTCCTTTTAATTTACATGCACAATTATTAAAGGCATATTTTGAGATC
* ** * *
4424810 AAACACCTTTAAT-AA-TTTTTTTAAAAAATTTTTAAGATTATTAAATA-TGTTTTTTAGT-GAA
389 AAACACCTTCAATAAATTTTTTTTAAAAAA--TTTAAGATTATTAAA-AGTGTTTTCCAATAAAA
* * * * *
4424871 AAACGCCTTTAATATTTCACAACACAAATTTTGAGACAGTTAGTGAAGGCGTTTATTCCATAATA
451 AAACACCTTCAATATTCCACAACACAAATTTTGAGACAGTTAGTGAAGGCGTTTATTCCAAAAAA
* * *
4424936 ACGCTTTCACTAATTCCTTCTAATTTACGTGCATAATTAT
516 ACACATTCACTAATTCCTTCAAATTTACGTGCATAATTAT
* * *
4424976 TGAATGCATTTTTTGAGATCAAATGCCTTCAATAATTTTTTCTTAAAATTTTTAAGACTATTAAA
1 TGAAGGCATTTTTTGAGATCAAATGCCTTCAATAATTTTCTCTTAAAATTTTT-AGATTATTAAA
* * * *
4425041 GGCGTCTTCCAGTGAAAAATATCTTCAATATTTTACAACTCAAATTTTAAAATGGTTAGTGAAGA
65 GGCGTCTTCCAGTGAAAAATACCTTAAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGA
* ** * ** *
4425106 CGTTTATTCTAGAAAAATATTTTCACTAATTCCTTCTAATTTACATGCATAATTATTGAAGGCAT
130 CATTTATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTATGTGCATAATTATTGAAGGCGT
* * **
4425171 CTTTTGAGATCAAACGCCTTCAATAATATTTTTTAAAAATTTTTAGGATTATTAAAAATATCTTT
195 CTTTTGAGATCAAACGCCTTCAAT-A-ATTTTTTAAAAAATTTTAGAATTATTAAAGGTATCTTT
* * * ** *
4425236 CAGTAAAAAATACCTTCATTATTTCATAAC-CAAAAGGTTGAGATGGTTAGTGAAGGCGTTTATT
258 -AGTGAAAAATGCCTTCAATATTTCATAACTC-AAATTTTGATATGGTTAGTGAAGGCGTTTATT
*
4425300 CTAGAAAAATGCCTTCACTAATTCCTTTTAATTT
321 CTAGAAAAATACCTTCACTAATTCCTTTTAATTT
4425334 TTGTACATAA
Statistics
Matches: 770, Mismatches: 132, Indels: 25
0.83 0.14 0.03
Matches are distributed among these distances:
555 15 0.02
556 275 0.36
557 25 0.03
558 114 0.15
559 190 0.25
560 147 0.19
561 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (555 bp):
TGAAGGCATTTTTTGAGATCAAATGCCTTCAATAATTTTCTCTTAAAATTTTTAGATTATTAAAG
GCGTCTTCCAGTGAAAAATACCTTAAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGAC
ATTTATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTATGTGCATAATTATTGAAGGCGTC
TTTTGAGATCAAACGCCTTCAATAATTTTTTAAAAAATTTTAGAATTATTAAAGGTATCTTTAGT
GAAAAATGCCTTCAATATTTCATAACTCAAATTTTGATATGGTTAGTGAAGGCGTTTATTCTAGA
AAAATACCTTCACTAATTCCTTTTAATTTACATGCACAATTATTAAAGGCATATTTTGAGATCAA
ACACCTTCAATAAATTTTTTTTAAAAAATTTAAGATTATTAAAAGTGTTTTCCAATAAAAAAACA
CCTTCAATATTCCACAACACAAATTTTGAGACAGTTAGTGAAGGCGTTTATTCCAAAAAAACACA
TTCACTAATTCCTTCAAATTTACGTGCATAATTAT
Found at i:4425211 original size:372 final size:370
Alignment explanation
Indices: 4423861--4425353 Score: 1510
Period size: 370 Copynumber: 4.0 Consensus size: 370
4423851 GGACAGTTAG
* * * * * *
4423861 TGAAGGCATTTCTTGAGAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTTAGATTAATAAAA
1 TGAATGCATTTTTTGAGATCAAACGCCTTCAATAATTTTTTCTTAAAATTTTTAGATTATTAAAA
* * * * * * *
4423926 GCGTTTTTCACTGAAAAACGCCTTTAATATTTTACAACTCAAATTTTGAAACGGTTAGTGAAGAC
66 GCGTCTTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAATTTTAAAACGGTTAGTGAAGAC
* * * ** * **
4423991 ATTTATTCTAGAAAAATACCTTCATTAATTTCTTCAAATTTATGTGCACAATTATTAAAGGTGTC
131 GTTTATTCTAGAAAAATACCTTCACTAATTCCTTCAAATTTACATGCATAATTATTAAAGGCATC
** *** * *
4424056 TTTTGAGATCAAATGCCTTC-ATAATTTTTTTTTTTTAA-TTTTGAGATTATTAAAGGTGTCTTC
196 TTTTGAGATCAAACACCTTCAATAA--TTTTTTTAAAAATTTTTAAGATTATTAAAGATGTCTTC
* * * * * ** *
4424119 TAGTGAAAAATGCCTTCAATATTCTACAACTCAAATTTTGATATGGTTAATGAAGGCATTTATTC
259 CAGTAAAAAATACCTTCAATATTCTACAACACAAATTTTGAGACAGTTAGTGAAGGCATTTATTC
* * * * *
4424184 TAGAAAAATACATTCACTAATTCCTTCAAATTTACATGCACAATTAT
324 CAGAAAAATGCATTCACTAATTCCTTCTAATTTACGTGCATAATTAT
* * * * * *
4424231 TAAAGGCATATTTTGAGATCAAACGCCTTCAATAAATTTTTTTTTTTTTAAA-TTTGAGATTATT
1 TGAATGCATTTTTTGAGATCAAACGCCTTCAAT-AA---TTTTTTCTTAAAATTTTTAGATTATT
* * * * * * * * * *
4424295 AAAAGTGTTTTCCAATAAAAAAATACCTTCAATATTCCACAACTCAAATTTTGAGATGGTTTGTG
62 AAAAGCGTCTTCCAGT-GAAAAACACCTTCAATATTTCACAACTCAAATTTTAAAACGGTTAGTG
* * * * * * *
4424360 AAGGCGTTTATTCTAAAAAAATACATTCACTAATTCTTTCAAATTTACGTGCGTAATTATTGAAG
126 AAGACGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCAAATTTACATGCATAATTATTAAAG
* * * * *
4424425 GCGTTTTTTGATATCAAACACCTTCAATAATTTTCTCTT-AAAATTTTTTAGATTATTAAAGGTG
191 GCATCTTTTGAGATCAAACACCTTCAATAATTTT-T-TTAAAAATTTTTAAGATTATTAAAGATG
* * * *
4424489 TCTTCCAGTAAAAAATACCTTAAATATTCTACAACACAAATTTTGATACAGTTTGTGAAGACATT
254 TCTTCCAGTAAAAAATACCTTCAATATTCTACAACACAAATTTTGAGACAGTTAGTGAAGGCATT
* *
4424554 TATTCCAGAAAAATGCATTCACTAATTTCTTCTAATTTATGTGCATAATTAT
319 TATTCCAGAAAAATGCATTCACTAATTCCTTCTAATTTACGTGCATAATTAT
* * * *
4424606 TGAATGCGTCTTTTGAGATCAAACGCCTTCAATAA-TTTTT-TAAAAAATTTTAGAATTATTAAA
1 TGAATGCATTTTTTGAGATCAAACGCCTTCAATAATTTTTTCTTAAAATTTTTAG-ATTATTAAA
* ** ** *** * * * * *
4424669 GGTTTCTTATAGTGAAAAACGTTTTCAATATTTCATAACTCAAATTTTAATACGATTAGTAAAGG
65 AGCGTCTTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAATTTTAAAACGGTTAGTGAAGA
* * ** *
4424734 CGTTTATTCCAGAAAAATACCTTCACTAATTTCTTTTAATTTACATGCATAATTATTAAATGCAT
130 CGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCAAATTTACATGCATAATTATTAAAGGCAT
* * * * *
4424799 CTTTTGATATCAAACACCTTTAATAATTTTTTTAAAAAATTTTTAAGATTATTAAATATGTTTTT
195 CTTTTGAGATCAAACACCTTCAATAATTTTTTT-AAAAATTTTTAAGATTATTAAAGATGTCTTC
* * ** * *
4424864 TAGTGAAAAACGCCTTTAATATT-TCACAACACAAATTTTGAGACAGTTAGTGAAGGCGTTTATT
259 CAGTAAAAAATACCTTCAATATTCT-ACAACACAAATTTTGAGACAGTTAGTGAAGGCATTTATT
* * * *
4424928 CCATAATAACGCTTTCACTAATTCCTTCTAATTTACGTGCATAATTAT
323 CCAGAAAAATGCATTCACTAATTCCTTCTAATTTACGTGCATAATTAT
* *
4424976 TGAATGCATTTTTTGAGATCAAATGCCTTCAATAATTTTTTCTTAAAATTTTTAAGACTATTAAA
1 TGAATGCATTTTTTGAGATCAAACGCCTTCAATAATTTTTTCTTAAAATTTTT-AGATTATTAAA
* * * * *
4425041 GGCGTCTTCCAGTGAAAAATATCTTCAATATTTTACAACTCAAATTTTAAAATGGTTAGTGAAGA
65 AGCGTCTTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAATTTTAAAACGGTTAGTGAAGA
** * *
4425106 CGTTTATTCTAGAAAAATATTTTCACTAATTCCTTCTAATTTACATGCATAATTATTGAAGGCAT
130 CGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCAAATTTACATGCATAATTATTAAAGGCAT
* * * * *
4425171 CTTTTGAGATCAAACGCCTTCAATAATATTTTTTAAAAATTTTTAGGATTATTAAAAATATCTTT
195 CTTTTGAGATCAAACACCTTCAATAAT-TTTTTTAAAAATTTTTAAGATTATTAAAGATGTCTTC
* * ** ** *
4425236 CAGTAAAAAATACCTTCATTATT-TCATAAC-CAAAAGGTTGAGATGGTTAGTGAAGGCGTTTAT
259 CAGTAAAAAATACCTTCAATATTCT-ACAACAC-AAATTTTGAGACAGTTAGTGAAGGCATTTAT
* * * ** *
4425299 TCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTTTGTACATAATTAT
322 TCCAGAAAAATGCATTCACTAATTCCTTCTAATTTACGTGCATAATTAT
4425348 TGAATG
1 TGAATG
4425354 TGGTTGTCTA
Statistics
Matches: 932, Mismatches: 172, Indels: 36
0.82 0.15 0.03
Matches are distributed among these distances:
368 2 0.00
369 6 0.01
370 310 0.33
371 24 0.03
372 273 0.29
373 35 0.04
374 128 0.14
375 154 0.17
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (370 bp):
TGAATGCATTTTTTGAGATCAAACGCCTTCAATAATTTTTTCTTAAAATTTTTAGATTATTAAAA
GCGTCTTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAATTTTAAAACGGTTAGTGAAGAC
GTTTATTCTAGAAAAATACCTTCACTAATTCCTTCAAATTTACATGCATAATTATTAAAGGCATC
TTTTGAGATCAAACACCTTCAATAATTTTTTTAAAAATTTTTAAGATTATTAAAGATGTCTTCCA
GTAAAAAATACCTTCAATATTCTACAACACAAATTTTGAGACAGTTAGTGAAGGCATTTATTCCA
GAAAAATGCATTCACTAATTCCTTCTAATTTACGTGCATAATTAT
Found at i:4426031 original size:25 final size:25
Alignment explanation
Indices: 4426000--4426090 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
4425990 AATCGTATAC
4426000 TGAATGGTTTGCTAAATGGGGTTTA
1 TGAATGGTTTGCTAAATGGGGTTTA
* *
4426025 TGAATGGTTTGCTGAATAGGGTTTA
1 TGAATGGTTTGCTAAATGGGGTTTA
* * * ** *
4426050 TGAATGATTTACTGAATGATGTTTC
1 TGAATGGTTTGCTAAATGGGGTTTA
4426075 TGAAAT-GTTTGCTAAA
1 TG-AATGGTTTGCTAAA
4426091 GGGTGTGTCT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 51 0.94
26 3 0.06
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.41
Consensus pattern (25 bp):
TGAATGGTTTGCTAAATGGGGTTTA
Found at i:4427583 original size:21 final size:21
Alignment explanation
Indices: 4427532--4427584 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
4427522 ATCATTGAGC
*
4427532 AACAACAGCAACGAATTGATG
1 AACAACAGCAACGAATTAATG
* **
4427553 ATCAGA-AGCAACGCTTTAATG
1 AACA-ACAGCAACGAATTAATG
4427574 AACAACAGCAA
1 AACAACAGCAA
4427585 AGACTTGCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.47, C:0.21, G:0.17, T:0.15
Consensus pattern (21 bp):
AACAACAGCAACGAATTAATG
Found at i:4438538 original size:2 final size:2
Alignment explanation
Indices: 4438533--4438561 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4438523 ATGTGTAAAC
4438533 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4438562 AGAGTATCCT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4443521 original size:9 final size:9
Alignment explanation
Indices: 4443509--4443568 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
4443499 TAAAAATTAA
4443509 AAATTAATC
1 AAATTAATC
4443518 AAATTAATC
1 AAATTAATC
* *
4443527 AATTTAA-A
1 AAATTAATC
*
4443535 AAATTAATT
1 AAATTAATC
4443544 ATAATTAAAATC
1 A-AATT--AATC
*
4443556 AAATAAATC
1 AAATTAATC
4443565 AAAT
1 AAAT
4443569 CGATTTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 6 0.15
9 24 0.59
10 4 0.10
11 3 0.07
12 4 0.10
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAATC
Found at i:4443557 original size:38 final size:33
Alignment explanation
Indices: 4443491--4443566 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
4443481 CAGTATGGTT
* *
4443491 ATCAATTTTAAAAATTAAAAATTAATCAAATTA
1 ATCAATTTAAAAAATTAAAAATTAATCAAATAA
4443524 ATCAATTTAAAAAATTAATTATAATTAAAATCAAATAA
1 ATCAATTTAAAAAATTAA--A-AATT--AATCAAATAA
4443562 ATCAA
1 ATCAA
4443567 ATCGATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 17 0.47
35 1 0.03
36 4 0.11
38 14 0.39
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (33 bp):
ATCAATTTAAAAAATTAAAAATTAATCAAATAA
Found at i:4443971 original size:15 final size:15
Alignment explanation
Indices: 4443951--4443992 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4443941 TGATAAAATT
*
4443951 TAATATAAAAATCAA
1 TAATATAAAAATAAA
4443966 TAATATACAAAA-AAA
1 TAATATA-AAAATAAA
4443981 TAAT-TAAAAATA
1 TAATATAAAAATA
4443993 TTATTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 3 0.12
15 13 0.54
16 4 0.17
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATATAAAAATAAA
Found at i:4452282 original size:17 final size:18
Alignment explanation
Indices: 4452260--4452298 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
4452250 GGGACCACCG
4452260 TCCTCCCCCTCTCCTCC-
1 TCCTCCCCCTCTCCTCCA
*
4452277 TCCTCCTCCTCTCCTCCA
1 TCCTCCCCCTCTCCTCCA
4452295 TCCT
1 TCCT
4452299 GCAACTCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.03, C:0.64, G:0.00, T:0.33
Consensus pattern (18 bp):
TCCTCCCCCTCTCCTCCA
Found at i:4455362 original size:22 final size:22
Alignment explanation
Indices: 4455329--4455370 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
4455319 ATCTCTTGTC
4455329 ATTTTAATTTCT-TATGCAAAGT
1 ATTTTAATTTCTCTAT-CAAAGT
4455351 ATTTTAGA-TTCTCTATCAAA
1 ATTTTA-ATTTCTCTATCAAA
4455371 ATAACAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTTAATTTCTCTATCAAAGT
Found at i:4461556 original size:12 final size:13
Alignment explanation
Indices: 4461539--4461571 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
4461529 AAGGAAAGAG
4461539 AAAAAAACAAA-A
1 AAAAAAACAAACA
4461551 AAAAAAACAAACA
1 AAAAAAACAAACA
4461564 AAGAAAAA
1 AA-AAAAA
4461572 GGGGGTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAACA
Found at i:4461564 original size:16 final size:16
Alignment explanation
Indices: 4461539--4461571 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4461529 AAGGAAAGAG
4461539 AAAAAAACAAA-AAAA
1 AAAAAAACAAAGAAAA
4461554 AAAACAAACAAAGAAAA
1 AAAA-AAACAAAGAAAA
4461571 A
1 A
4461572 GGGGGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAGAAAA
Found at i:4462731 original size:14 final size:15
Alignment explanation
Indices: 4462705--4462733 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4462695 GGACAGAGTA
4462705 GAGAAAGAAACAGAG
1 GAGAAAGAAACAGAG
4462720 GAGAAA-AAACAGAG
1 GAGAAAGAAACAGAG
4462734 AAGATGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.07, G:0.31, T:0.00
Consensus pattern (15 bp):
GAGAAAGAAACAGAG
Found at i:4467810 original size:15 final size:15
Alignment explanation
Indices: 4467790--4467819 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4467780 TAAATATATG
4467790 TATAACAAAATGAAT
1 TATAACAAAATGAAT
4467805 TATAACAAAATGAAT
1 TATAACAAAATGAAT
4467820 ATATTAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (15 bp):
TATAACAAAATGAAT
Found at i:4468059 original size:9 final size:9
Alignment explanation
Indices: 4468032--4468066 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
4468022 CTAAAAATCT
4468032 TTTTATATA
1 TTTTATATA
4468041 TTATTAATATA
1 TT-TT-ATATA
4468052 TTTTATATA
1 TTTTATATA
4468061 TTTTAT
1 TTTTAT
4468067 GAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Found at i:4470983 original size:15 final size:15
Alignment explanation
Indices: 4470960--4470996 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4470950 ATCTCAAACC
4470960 CCACCACGACCACGA
1 CCACCACGACCACGA
*
4470975 CCACGACGACCACGA
1 CCACCACGACCACGA
4470990 CCACCAC
1 CCACCAC
4470997 CACCCGGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.54, G:0.14, T:0.00
Consensus pattern (15 bp):
CCACCACGACCACGA
Found at i:4473631 original size:19 final size:19
Alignment explanation
Indices: 4473593--4473630 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4473583 TTCAAAATCA
4473593 TAATTTTTTTAGTTATTTT
1 TAATTTTTTTAGTTATTTT
*
4473612 TAATTTTTTTTGTT-TTTT
1 TAATTTTTTTAGTTATTTT
4473630 T
1 T
4473631 TTTTTCCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (19 bp):
TAATTTTTTTAGTTATTTT
Found at i:4477958 original size:55 final size:56
Alignment explanation
Indices: 4477839--4477971 Score: 146
Period size: 55 Copynumber: 2.4 Consensus size: 56
4477829 CCTGGTCGCT
* *
4477839 ATCA-TTTTTCAGATTCATGGTTTTATCCCAGTCATTCGATCTTGACTTAGTTTAG
1 ATCATTTTTTCAGATTCATGATTTTATCCCAGTCATTCGATCTTGACTTAGTCTAG
* * * * * * *
4477894 AACATTTTTTCAGA-TCGTGATTTTTTCCTAGTTATTTGATCTTGGCTTAGTCTAG
1 ATCATTTTTTCAGATTCATGATTTTATCCCAGTCATTCGATCTTGACTTAGTCTAG
* *
4477949 ATCATTTTTT-TGATTCACGATTT
1 ATCATTTTTTCAGATTCATGATTT
4477972 CGTCTTGTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
54 2 0.03
55 52 0.83
56 9 0.14
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (56 bp):
ATCATTTTTTCAGATTCATGATTTTATCCCAGTCATTCGATCTTGACTTAGTCTAG
Found at i:4478393 original size:3 final size:3
Alignment explanation
Indices: 4478385--4478540 Score: 119
Period size: 3 Copynumber: 57.0 Consensus size: 3
4478375 AATACATTAC
* * *
4478385 ATT ATT ATT -TT ATT A-T ATC A-T GTT A-T ATT ATT A-T ATC A-T ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* *
4478428 ATT ATT A-T ATT ATT A-T ATT -CT ATT A-T ATT A-T ATT A-T ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
4478469 ACT A-T ACT ATT GTT ATT 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
4478516 ATT ATT ATT ATT ATT -TT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4478541 TTTCTTTCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 34
0.74 0.06 0.20
Matches are distributed among these distances:
2 28 0.22
3 95 0.76
4 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4478543 original size:6 final size:6
Alignment explanation
Indices: 4478385--4478540 Score: 119
Period size: 5 Copynumber: 28.5 Consensus size: 6
4478375 AATACATTAC
* * *
4478385 ATTATT ATT-TT ATTA-T ATCA-T GTTA-T ATTATT A-TATC A-TATTT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTA-TT
* *
4478428 ATTATT A-TATT ATTA-T ATT-CT ATTA-T ATTA-T ATTA-T ACTA-T
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * *
4478469 ACTA-T ACTATT GTTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
4478516 ATTATT ATTATT ATT-TT ATT-TT ATT
1 ATTATT ATTATT ATTATT ATTATT ATT
4478541 TTTCTTTCTT
Statistics
Matches: 132, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
5 69 0.52
6 61 0.46
7 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (6 bp):
ATTATT
Found at i:4479325 original size:9 final size:8
Alignment explanation
Indices: 4479306--4479401 Score: 61
Period size: 8 Copynumber: 11.6 Consensus size: 8
4479296 GAATCGCGGG
*
4479306 TTTTCTTT
1 TTTTATTT
*
4479314 TTTCATTT
1 TTTTATTT
4479322 TTTTATTT
1 TTTTATTT
*
4479330 TTTGATTT
1 TTTTATTT
*
4479338 TTTGATTT
1 TTTTATTT
*
4479346 TTTGA-TT
1 TTTTATTT
*
4479353 TTATA-TT
1 TTTTATTT
*
4479360 TTTAATTT
1 TTTTATTT
4479368 ATTTTAATTT
1 -TTTT-ATTT
*
4479378 ATTTTCAATT
1 -TTTT-ATTT
4479388 TTTTATTT
1 TTTTATTT
4479396 ATTTTA
1 -TTTTA
4479402 CTGATTTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
7 10 0.14
8 38 0.53
9 12 0.17
10 12 0.17
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:4479330 original size:7 final size:7
Alignment explanation
Indices: 4479306--4479395 Score: 56
Period size: 7 Copynumber: 12.1 Consensus size: 7
4479296 GAATCGCGGG
*
4479306 TTTTCTT
1 TTTTATT
4479313 TTTTCATTT
1 TTTT-A-TT
4479322 TTTTATT
1 TTTTATT
4479329 TTTTGATT
1 TTTT-ATT
4479337 TTTTGATT
1 TTTT-ATT
4479345 TTTTGATT
1 TTTT-ATT
*
4479353 TTATATT
1 TTTTATT
*
4479360 TTTAATT
1 TTTTATT
*
4479367 TATTT-TA
1 T-TTTATT
*
4479374 ATTTATT
1 TTTTATT
**
4479381 TTCAATT
1 TTTTATT
4479388 TTTTATT
1 TTTTATT
4479395 T
1 T
4479396 ATTTTACTGA
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
6 3 0.05
7 31 0.48
8 25 0.38
9 6 0.09
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTATT
Found at i:4479345 original size:24 final size:23
Alignment explanation
Indices: 4479311--4479362 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
4479301 GCGGGTTTTC
* *
4479311 TTTTTTCATTTTTTTATTTTTTGA
1 TTTTTTCATTTTTTGATTTTAT-A
*
4479335 TTTTTTGATTTTTTGATTTTATA
1 TTTTTTCATTTTTTGATTTTATA
4479358 TTTTT
1 TTTTT
4479363 AATTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTTTCATTTTTTGATTTTATA
Found at i:4479360 original size:15 final size:15
Alignment explanation
Indices: 4479306--4479362 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
4479296 GAATCGCGGG
* *
4479306 TTTTCTTTTTTCATTT
1 TTTTATTTTTTGA-TT
4479322 TTTTATTTTTTGATT
1 TTTTATTTTTTGATT
4479337 TTTTGATTTTTTGATT
1 TTTT-ATTTTTTGATT
*
4479353 TTATATTTTT
1 TTTTATTTTT
4479363 AATTTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.32
16 25 0.68
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTTGATT
Found at i:4479363 original size:8 final size:8
Alignment explanation
Indices: 4479311--4479354 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
4479301 GCGGGTTTTC
*
4479311 TTTTTTCA
1 TTTTTTGA
*
4479319 TTTTTTTA
1 TTTTTTGA
4479327 TTTTTTGA
1 TTTTTTGA
4479335 TTTTTTGA
1 TTTTTTGA
4479343 TTTTTTGA
1 TTTTTTGA
4479351 TTTT
1 TTTT
4479355 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (8 bp):
TTTTTTGA
Found at i:4479374 original size:10 final size:10
Alignment explanation
Indices: 4479359--4479401 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
4479349 GATTTTATAT
4479359 TTTTAATTTA
1 TTTTAATTTA
4479369 TTTTAATTTA
1 TTTTAATTTA
4479379 TTTTCAA-TT-
1 TTTT-AATTTA
4479388 TTTT-ATTTA
1 TTTTAATTTA
4479397 TTTTA
1 TTTTA
4479402 CTGATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 1 0.03
8 2 0.07
9 8 0.28
10 16 0.55
11 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:4479410 original size:28 final size:26
Alignment explanation
Indices: 4479350--4479426 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 26
4479340 TGATTTTTTG
*
4479350 ATTTTATATTTTTAATTTATTTTAATTT
1 ATTTTAT-TTTTT-ATTTATTTTAATAT
*
4479378 ATTTTCAATTTTTTATTTATTTTACTGAT
1 ATTTT--ATTTTTTATTTATTTTAAT-AT
*
4479407 -TTTTATTATTTATTTATTTT
1 ATTTTATTTTTTATTTATTTT
4479427 TACTCAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 15 0.35
28 20 0.47
29 6 0.14
30 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (26 bp):
ATTTTATTTTTTATTTATTTTAATAT
Found at i:4479428 original size:10 final size:10
Alignment explanation
Indices: 4479356--4479428 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
4479346 TTTGATTTTA
4479356 TATTTTTAATT
1 TATTTTT-ATT
*
4479367 TATTTTAATT
1 TATTTTTATT
* *
4479377 TATTTTCA-A
1 TATTTTTATT
4479386 T-TTTTTATT
1 TATTTTTATT
*
4479395 TA-TTTTACT
1 TATTTTTATT
*
4479404 GATTTTTA-T
1 TATTTTTATT
4479413 TA--TTTATT
1 TATTTTTATT
4479421 TATTTTTA
1 TATTTTTA
4479429 CTCAATATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
7 4 0.08
8 8 0.17
9 11 0.23
10 19 0.40
11 6 0.12
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (10 bp):
TATTTTTATT
Found at i:4479525 original size:36 final size:35
Alignment explanation
Indices: 4479468--4479535 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
4479458 AAAAATAATT
*
4479468 AAAAAAATAAAAAAATATTTTCAAATAAGTTTTAA
1 AAAAAAAGAAAAAAATATTTTCAAATAAGTTTTAA
*
4479503 AAAACAAAGAAAAAAATCTTTTCAAATAAGTTT
1 AAAA-AAAGAAAAAAATATTTTCAAATAAGTTT
4479536 ATGGAATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (35 bp):
AAAAAAAGAAAAAAATATTTTCAAATAAGTTTTAA
Found at i:4480267 original size:221 final size:221
Alignment explanation
Indices: 4479884--4480322 Score: 851
Period size: 221 Copynumber: 2.0 Consensus size: 221
4479874 ACTATTGGGA
4479884 CAATTTTAAGACTAATTTTTAATATTTAATATTTTGGTAAAAGCATAAACATTTTTTAAAGTTTG
1 CAATTTTAAGACTAATTTTTAATATTTAATATTTTGGTAAAAGCATAAACATTTTTTAAAGTTTG
4479949 GATAATTTGAAATCAAACCGGTATCATCTTTTGATGGGCGCTGTGAGGGTGCTATAAGCTTCCTC
66 GATAATTTGAAATCAAACCGGTATCATCTTTTGATGGGCGCTGTGAGGGTGCTATAAGCTTCCTC
*
4480014 ACACGTAATCATATTCCCAAACCTAAAATTTAGTTTCGTAGATCGAATTCAATTAGGTGACCAAT
131 ACACGTAATCATATTCCCAAACCTAAAATTTAGTTTCATAGATCGAATTCAATTAGGTGACCAAT
4480079 CACACCTTAGCAAAAAAGATTGAATT
196 CACACCTTAGCAAAAAAGATTGAATT
*
4480105 CAATTTTAAGACTAATTTTTAATATTTAATATTTTGGTAAAAGCATAAACATTTTTTAAGGTTTG
1 CAATTTTAAGACTAATTTTTAATATTTAATATTTTGGTAAAAGCATAAACATTTTTTAAAGTTTG
4480170 GATAATTTGAAATCAAACCGGTATCATCTTTTGATGGGCGCTGTGAGGGTGCTATAAGCTTCCTC
66 GATAATTTGAAATCAAACCGGTATCATCTTTTGATGGGCGCTGTGAGGGTGCTATAAGCTTCCTC
*
4480235 ACACGTAATCATATTTCCAAACCTAAAATTTAGTTTCATAGATCGAATTCAATTAGGTGACCAAT
131 ACACGTAATCATATTCCCAAACCTAAAATTTAGTTTCATAGATCGAATTCAATTAGGTGACCAAT
4480300 CACACCTTAGCAAAAAAGATTGA
196 CACACCTTAGCAAAAAAGATTGA
4480323 TGGTGACTCT
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 215 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (221 bp):
CAATTTTAAGACTAATTTTTAATATTTAATATTTTGGTAAAAGCATAAACATTTTTTAAAGTTTG
GATAATTTGAAATCAAACCGGTATCATCTTTTGATGGGCGCTGTGAGGGTGCTATAAGCTTCCTC
ACACGTAATCATATTCCCAAACCTAAAATTTAGTTTCATAGATCGAATTCAATTAGGTGACCAAT
CACACCTTAGCAAAAAAGATTGAATT
Found at i:4483535 original size:8 final size:8
Alignment explanation
Indices: 4483522--4483546 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4483512 TAAGATAAGG
4483522 TTTATAAA
1 TTTATAAA
4483530 TTTATAAA
1 TTTATAAA
4483538 TTTATAAA
1 TTTATAAA
4483546 T
1 T
4483547 ATTTATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTATAAA
Found at i:4483891 original size:19 final size:19
Alignment explanation
Indices: 4483867--4483904 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4483857 ACGGCTGGAT
4483867 GTCGGCATGTATATGTTTC
1 GTCGGCATGTATATGTTTC
4483886 GTCGGCATGTATATGTTTC
1 GTCGGCATGTATATGTTTC
4483905 TTATGCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (19 bp):
GTCGGCATGTATATGTTTC
Found at i:4488451 original size:15 final size:15
Alignment explanation
Indices: 4488428--4488457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4488418 TTATAAGAAC
*
4488428 AAAGTAAAAAAAAAA
1 AAAGAAAAAAAAAAA
4488443 AAAGAAAAAAAAAAA
1 AAAGAAAAAAAAAAA
4488458 CCTGGATCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAAA
Found at i:4488452 original size:14 final size:15
Alignment explanation
Indices: 4488428--4488457 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4488418 TTATAAGAAC
4488428 AAAGTAAAAAAAAAA
1 AAAGTAAAAAAAAAA
4488443 AAAG-AAAAAAAAAA
1 AAAGTAAAAAAAAAA
4488457 A
1 A
4488458 CCTGGATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (15 bp):
AAAGTAAAAAAAAAA
Found at i:4503983 original size:23 final size:23
Alignment explanation
Indices: 4503924--4503974 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
4503914 AATTAATAAT
* *
4503924 AAAAATTATTATATTTATGATTA
1 AAAAATTATTATAATTATAATTA
4503947 AAAAATTATTATAATTATAATTA
1 AAAAATTATTATAATTATAATTA
4503970 AAAAA
1 AAAAA
4503975 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAAATTATTATAATTATAATTA
Found at i:4503998 original size:14 final size:13
Alignment explanation
Indices: 4503966--4504013 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
4503956 TATAATTATA
*
4503966 ATTAAAAAAATTT
1 ATTAAAAAATTTT
* *
4503979 AATAAAAATTTTAT
1 ATTAAAAAATTT-T
4503993 ATTAAATAAATTTT
1 ATTAAA-AAATTTT
4504007 ATTAAAA
1 ATTAAAA
4504014 TTGATATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 10 0.36
14 13 0.46
15 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAAAAAATTTT
Found at i:4504024 original size:27 final size:26
Alignment explanation
Indices: 4503952--4504026 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
4503942 GATTAAAAAA
* * *
4503952 TTATTATAATTATAATTAAAAAAATT
1 TTATTAAAATTATATTTAAATAAATT
* * *
4503978 TAATAAAAATTTTATATTAAATAAATT
1 TTATTAAAATTATAT-TTAAATAAATT
4504005 TTATTAAAATTGATATTTAAAT
1 TTATTAAAATT-ATATTTAAAT
4504027 TCAACTAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 10 0.26
27 25 0.66
28 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
TTATTAAAATTATATTTAAATAAATT
Found at i:4505067 original size:32 final size:32
Alignment explanation
Indices: 4505004--4505069 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
4504994 AAATATTAAT
* * *
4505004 AATTTATATATTTATATTTTATTTTACATAAA
1 AATTTATATATATATAATTTATTTGACATAAA
*
4505036 AATTTATATA-ATATAATTTATATTGATATAAA
1 AATTTATATATATATAATTTAT-TTGACATAAA
4505068 AA
1 AA
4505070 ATATAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
AATTTATATATATATAATTTATTTGACATAAA
Found at i:4505510 original size:23 final size:22
Alignment explanation
Indices: 4505460--4505507 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
4505450 TAACATATCT
*
4505460 AAATT-TATTTAAATCTATTAA
1 AAATTATATTAAAATCTATTAA
4505481 AATATTATATTAAAATCATATATAA
1 AA-ATTATATTAAAATC-TAT-TAA
4505506 AA
1 AA
4505508 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 3 0.14
23 9 0.41
24 3 0.14
25 5 0.23
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTATATTAAAATCTATTAA
Found at i:4505604 original size:16 final size:16
Alignment explanation
Indices: 4505570--4505600 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4505560 ATTTTTTAAA
4505570 AAATTAATTCAAATTT
1 AAATTAATTCAAATTT
4505586 AAATTAATT-AAATTT
1 AAATTAATTCAAATTT
4505601 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTAATTCAAATTT
Found at i:4517128 original size:24 final size:24
Alignment explanation
Indices: 4517093--4517150 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
4517083 TGATACATTA
4517093 AGATTTAACAATCATCCTAAAACT
1 AGATTTAACAATCATCCTAAAACT
*
4517117 AGATTTAGCAATCATCCTAAAACT
1 AGATTTAACAATCATCCTAAAACT
4517141 AGATTTAACA
1 AGATTTAACA
4517151 TATTAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (24 bp):
AGATTTAACAATCATCCTAAAACT
Found at i:4521454 original size:37 final size:35
Alignment explanation
Indices: 4521400--4521469 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
4521390 AGCTTATTTT
*
4521400 TTTAATTAGGATGAAATTAAATTTAAATATTAAATA
1 TTTAATTAGGATAAAATTAAATTTAAA-ATTAAATA
* *
4521436 TTTATATTAGGGTAAAATTAAATTTTAAATTAAA
1 TTTA-ATTAGGATAAAATTAAATTTAAAATTAAA
4521470 AATAAAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 10 0.33
37 20 0.67
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (35 bp):
TTTAATTAGGATAAAATTAAATTTAAAATTAAATA
Found at i:4521543 original size:17 final size:18
Alignment explanation
Indices: 4521512--4521547 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4521502 CAAATTATAC
4521512 ATTTTTATTAGTTTTTAT
1 ATTTTTATTAGTTTTTAT
*
4521530 ATTTTTTTTA-TTTTTAT
1 ATTTTTATTAGTTTTTAT
4521547 A
1 A
4521548 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
ATTTTTATTAGTTTTTAT
Found at i:4521595 original size:10 final size:10
Alignment explanation
Indices: 4521582--4521628 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
4521572 TTATTTAAAT
*
4521582 ATATTAAAAA
1 ATATAAAAAA
4521592 ATATAAAAATA
1 ATATAAAAA-A
4521603 ATATAAAAAA
1 ATATAAAAAA
4521613 ATA-AAAAAA
1 ATATAAAAAA
4521622 A-ATAAAA
1 ATATAAAA
4521629 TTTAAAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.03
9 11 0.32
10 12 0.35
11 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
ATATAAAAAA
Found at i:4521606 original size:23 final size:20
Alignment explanation
Indices: 4521582--4521625 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
4521572 TTATTTAAAT
* *
4521582 ATATTAAAAAATATAAAAATA
1 ATATAAAAAAATA-AAAAAAA
4521603 ATATAAAAAAATAAAAAAAA
1 ATATAAAAAAATAAAAAAAA
4521623 ATA
1 ATA
4521626 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
ATATAAAAAAATAAAAAAAA
Found at i:4539873 original size:21 final size:22
Alignment explanation
Indices: 4539830--4539874 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4539820 ATTTAATATA
*
4539830 ATCTTATTTATAATATCATTTT
1 ATCTTATTTATAATATAATTTT
*
4539852 ATCTTATTT-TATTATAATTTT
1 ATCTTATTTATAATATAATTTT
4539873 AT
1 AT
4539875 GTACCAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
ATCTTATTTATAATATAATTTT
Found at i:4540930 original size:22 final size:23
Alignment explanation
Indices: 4540886--4540930 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
4540876 GAATGTTCAA
4540886 AATCTTTGAAAGAGACACACCTAC
1 AATCTTTGAAAGAGA-ACACCTAC
4540910 AATCTTTGAAAGAG-ACACCTA
1 AATCTTTGAAAGAGAACACCTA
4540931 ACCAGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.22
Consensus pattern (23 bp):
AATCTTTGAAAGAGAACACCTAC
Found at i:4544372 original size:37 final size:37
Alignment explanation
Indices: 4544325--4544398 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
4544315 AAAAAAAGAC
4544325 AAATTTTTTGGCTGCCAGGAAGTCGATCATAAGAACA
1 AAATTTTTTGGCTGCCAGGAAGTCGATCATAAGAACA
*
4544362 AAATTTTTTGGCTGTCAGGAAGTCGATCATAAGAACA
1 AAATTTTTTGGCTGCCAGGAAGTCGATCATAAGAACA
4544399 TTGATTAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (37 bp):
AAATTTTTTGGCTGCCAGGAAGTCGATCATAAGAACA
Done.