Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 168 of 240
Found at i:52274056 original size:19 final size:19
Alignment explanation
Indices: 52274028--52274064 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
52274018 CGCTTTAGCT
52274028 TTTCTTTTTTTT-CTTTTG
1 TTTCTTTTTTTTCCTTTTG
52274046 TTTCTTTTTTTTTCCTTTT
1 TTTC-TTTTTTTTCCTTTT
52274065 TGGATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTCTTTTTTTTCCTTTTG
Found at i:52279310 original size:19 final size:18
Alignment explanation
Indices: 52279286--52279333 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
52279276 TTTGATATTG
*
52279286 TTAAATTTCTATAATTAGT
1 TTAAATTT-GATAATTAGT
**
52279305 TTAAATTTGATCTTTAGT
1 TTAAATTTGATAATTAGT
52279323 TTAAATTTGAT
1 TTAAATTTGAT
52279334 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (18 bp):
TTAAATTTGATAATTAGT
Found at i:52279323 original size:18 final size:18
Alignment explanation
Indices: 52279300--52279338 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
52279290 ATTTCTATAA
52279300 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
52279318 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
52279336 TTA
1 TTA
52279339 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:52280827 original size:19 final size:18
Alignment explanation
Indices: 52280803--52280850 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
52280793 TCGTGACTGC
52280803 AAAATAAATTAAGCGAAAT
1 AAAATAAATTAAG-GAAAT
*
52280822 AAAATAAATT-AGTAAAT
1 AAAATAAATTAAGGAAAT
*
52280839 AAAATATATTAA
1 AAAATAAATTAA
52280851 AGCTTAGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 3 0.12
19 10 0.38
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAATAAATTAAGGAAAT
Found at i:52283404 original size:50 final size:50
Alignment explanation
Indices: 52283314--52283492 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
52283304 GGTAAAGATG
* * **
52283314 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
52283364 TCCTC-TGTAAGACCATGTCTGGGACATGGTATGGGTACCGATATGAGAAC
1 TCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* ** * * * *
52283414 TCCCATGTAAGACCATATCTTAGATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
*
52283462 ATCCCATGTAAGACCATGTATGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
52283493 TTTGGCATGT
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.04
49 30 0.29
50 69 0.66
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:52286138 original size:15 final size:16
Alignment explanation
Indices: 52286118--52286147 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52286108 TTTAATCTGG
52286118 AAAAGG-TTTTATATA
1 AAAAGGATTTTATATA
52286133 AAAAGGATTTTATAT
1 AAAAGGATTTTATAT
52286148 GACAATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (16 bp):
AAAAGGATTTTATATA
Found at i:52286350 original size:28 final size:29
Alignment explanation
Indices: 52286310--52286376 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
52286300 TACCAAAAAA
*
52286310 GCCATTTTTTTTA-AATTTACCGAAATGG
1 GCCAATTTTTTTATAATTTACCGAAATGG
* *
52286338 GCCAATTTTTTTATTATTTACCGGAATGG
1 GCCAATTTTTTTATAATTTACCGAAATGG
*
52286367 TCC-ATTTTTT
1 GCCAATTTTTT
52286377 GAGAAATCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 19 0.56
29 15 0.44
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (29 bp):
GCCAATTTTTTTATAATTTACCGAAATGG
Found at i:52286812 original size:123 final size:125
Alignment explanation
Indices: 52286593--52286870 Score: 508
Period size: 123 Copynumber: 2.2 Consensus size: 125
52286583 TTATTTCGAG
52286593 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
52286657 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-A-TTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
*
52286716 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
52286781 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
*
52286841 TTGATGTTTCTGAGCAAATAGTATAAAATC
1 TTGACGTTTCTGAGCAAATAGTATAAAATC
52286871 ACACCCTCGT
Statistics
Matches: 150, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
123 113 0.75
124 2 0.01
125 35 0.23
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
Found at i:52287130 original size:16 final size:16
Alignment explanation
Indices: 52287109--52287145 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
52287099 TCATTTAACT
52287109 AGAACATAGATTTGAC
1 AGAACATAGATTTGAC
52287125 AGAACATAGATTTGAC
1 AGAACATAGATTTGAC
52287141 AGAAC
1 AGAAC
52287146 TTCGTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (16 bp):
AGAACATAGATTTGAC
Found at i:52290088 original size:29 final size:29
Alignment explanation
Indices: 52290023--52290193 Score: 308
Period size: 29 Copynumber: 5.9 Consensus size: 29
52290013 TTTTGTTAAT
52290023 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
52290052 GATTTAGGGTTTTTAATTAAATTAGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
52290082 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
52290111 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
52290141 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
52290170 GGTTA-GGTTTTTAATTAAATTAGG
1 GGTTAGGGTTTTTAATTAAATTAGG
52290194 ATTTTTATTA
Statistics
Matches: 138, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
28 19 0.14
29 62 0.45
30 57 0.41
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:52290117 original size:59 final size:59
Alignment explanation
Indices: 52290023--52290193 Score: 319
Period size: 59 Copynumber: 2.9 Consensus size: 59
52290013 TTTTGTTAAT
*
52290023 GGTTAGGGTTTTTAATTAAATTAGGTTAGGATTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
52290082 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
52290141 GGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTA-GGTTTTTAATTAAATTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGG
52290194 ATTTTTATTA
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
57 19 0.17
58 3 0.03
59 89 0.80
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (59 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:52292547 original size:20 final size:20
Alignment explanation
Indices: 52292507--52292550 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
52292497 ATGAAAATAT
52292507 AAAAAATTAAAATTATTTTTA
1 AAAAAATTAAAATTA-TTTTA
52292528 AAAAAATATAAAATTA-TTTA
1 AAAAAAT-TAAAATTATTTTA
52292548 AAA
1 AAA
52292551 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTAAAATTATTTTA
Found at i:52292554 original size:32 final size:30
Alignment explanation
Indices: 52292500--52292564 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 30
52292490 ACCATTGATG
52292500 AAAATATAAAAAATTAAAATTATTTTTAAA
1 AAAATATAAAAAATTAAAATTATTTTTAAA
*
52292530 AAAATATAAAATTATTTAAAATTATTTTTAAA
1 AAAATATAAAA--AATTAAAATTATTTTTAAA
52292562 AAA
1 AAA
52292565 TGAAATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 11 0.34
32 21 0.66
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAATTAAAATTATTTTTAAA
Found at i:52292624 original size:22 final size:22
Alignment explanation
Indices: 52292599--52292670 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
52292589 TAATATGGAT
52292599 TTGAGA-GATTTTTGGAAGGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
52292621 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
52292643 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
52292665 TTGAGA
1 TTGAGA
52292671 TAGGATTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 47 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.35, T:0.29
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:52296487 original size:25 final size:24
Alignment explanation
Indices: 52296459--52296526 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
52296449 TTTTAAAACT
*
52296459 TATATGTAAAATATATTTATATGAA
1 TATAT-TAAAATATATTTACATGAA
* * *
52296484 TATAATTTAGATATATTTACATGTA
1 TAT-ATTAAAATATATTTACATGAA
*
52296509 TATA-TAATATATAATTTA
1 TATATTAAAATAT-ATTTA
52296527 TTTTTACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 6 0.17
24 6 0.17
25 21 0.60
26 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (24 bp):
TATATTAAAATATATTTACATGAA
Found at i:52299280 original size:64 final size:64
Alignment explanation
Indices: 52299159--52299281 Score: 140
Period size: 64 Copynumber: 1.9 Consensus size: 64
52299149 TCCCGATCAG
* * ** * * ****
52299159 TATTGATCGTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAATGTCTTGTTATATGATTGA
1 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAACGTCCCAATATATGATTGA
52299223 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTAT-AAGCGTCCCAATATATG
1 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAA-CGTCCCAATATATG
52299282 GCTCTTCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 2 0.04
64 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (64 bp):
TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAACGTCCCAATATATGATTGA
Found at i:52301033 original size:23 final size:23
Alignment explanation
Indices: 52301004--52301047 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
52300994 TTGGTAAACT
*
52301004 TTAGTTACAAATATGCATATAAG
1 TTAGTTACAAATATGAATATAAG
* *
52301027 TTAGTTATACATATGAATATA
1 TTAGTTACAAATATGAATATA
52301048 TTAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
TTAGTTACAAATATGAATATAAG
Found at i:52305085 original size:28 final size:28
Alignment explanation
Indices: 52305042--52305098 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
52305032 CCTTTCTCTG
* *
52305042 GTTAGCACTTACTGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
52305070 GTTAACACTTAATGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
52305098 G
1 G
52305099 ATGCTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (28 bp):
GTTAACACTTAATGATCTGTTAGTATTT
Found at i:52305888 original size:13 final size:13
Alignment explanation
Indices: 52305870--52305895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52305860 TTTAAATGAA
52305870 TTCCATTCAAATT
1 TTCCATTCAAATT
52305883 TTCCATTCAAATT
1 TTCCATTCAAATT
52305896 CTTGATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCCATTCAAATT
Found at i:52307662 original size:35 final size:36
Alignment explanation
Indices: 52307618--52307686 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
52307608 ATTTGTTAGA
52307618 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
* *
52307654 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAA
52307687 ATGATTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
Found at i:52309061 original size:34 final size:35
Alignment explanation
Indices: 52309003--52309069 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
52308993 CAAACACCAG
52309003 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
* *
52309038 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAA
52309070 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:52310396 original size:3 final size:3
Alignment explanation
Indices: 52310388--52310425 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
52310378 TAGTATTGTT
*
52310388 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52310426 GGCAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:52314961 original size:27 final size:27
Alignment explanation
Indices: 52314937--52314990 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
52314927 ACATTTTTGT
52314937 TCAATCTCAATCTCGTTTTTCTTTTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
* * *
52314964 TCACTCTCACTCTC-TTTTT-TTCTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
52314989 TC
1 TC
52314991 TCGAGTTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.11, C:0.31, G:0.02, T:0.56
Consensus pattern (27 bp):
TCAATCTCAATCTCGTTTTTCTTTTTC
Found at i:52318805 original size:47 final size:47
Alignment explanation
Indices: 52318705--52319177 Score: 775
Period size: 47 Copynumber: 9.9 Consensus size: 47
52318695 TAGTATGGCG
*
52318705 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
52318754 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52318801 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
52318848 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
52318897 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52318944 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
52318993 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
52319040 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
52319087 TAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
52319134 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52319178 TCCCGAAGGG
Statistics
Matches: 401, Mismatches: 19, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
47 280 0.70
49 121 0.30
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:52318883 original size:96 final size:96
Alignment explanation
Indices: 52318705--52319177 Score: 778
Period size: 96 Copynumber: 5.0 Consensus size: 96
52318695 TAGTATGGCG
*
52318705 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
52318770 GAATGTGAAAGTG--TATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATATGTGATAAGGCC
*
52318801 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
52318866 ATGTGAAAGTGTATATATATGTGATAGGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
52318897 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
52318962 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
*
52318993 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
52319058 ATGTGAAAGTG--TATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * * * *
52319087 TAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
52319152 ATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGAAAGTGTATATATATGTGATAAG
52319178 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
94 140 0.39
95 1 0.00
96 217 0.61
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:52318968 original size:143 final size:143
Alignment explanation
Indices: 52318705--52319175 Score: 797
Period size: 143 Copynumber: 3.3 Consensus size: 143
52318695 TAGTATGGCG
52318705 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
52318770 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
52318835 ATGTGATAAGGCC
131 ATGTGATAAGGCC
*
52318848 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
52318913 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
52318978 ATATGTGATAAGGCC
129 ATATGTGATAAGGCC
* *
52318993 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
52319056 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
52319121 ATGTGACAGGGCC
131 ATGTGATAAGGCC
* * * * *
52319134 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
52319176 AGTCCCGAAG
Statistics
Matches: 312, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
141 48 0.15
142 1 0.00
143 217 0.70
145 46 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCC
Found at i:52319352 original size:37 final size:37
Alignment explanation
Indices: 52319299--52319371 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
52319289 AGCTCTAAAG
* * *
52319299 ACCCGATGACTACGTGTG-GGAATTTTGTCCGGGTAAT
1 ACCCGATAACTACGTGTGAAG-ATTATGTCCGGGTAAT
*
52319336 ACCCGATAACTTCGTGTGAAGATTATGTCCGGGTAA
1 ACCCGATAACTACGTGTGAAGATTATGTCCGGGTAA
52319372 GACTTCGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGAAGATTATGTCCGGGTAAT
Found at i:52321316 original size:29 final size:29
Alignment explanation
Indices: 52321281--52321354 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
52321271 GTTGTGAGAT
* *
52321281 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
52321310 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52321339 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52321355 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52321719 original size:40 final size:40
Alignment explanation
Indices: 52321669--52321891 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
52321659 TCGAATGATG
52321669 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
52321709 TCCGAACTAAGTTCCGAAGAGCATTTGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
52321749 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
52321789 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*** * * *
52321829 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
52321869 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCA
52321892 ATCATGCTGG
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 166 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:52325700 original size:47 final size:47
Alignment explanation
Indices: 52325600--52325976 Score: 583
Period size: 47 Copynumber: 7.9 Consensus size: 47
52325590 TAGTATGGCG
* *
52325600 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
52325649 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
52325696 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
52325743 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
52325792 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
52325839 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
52325886 TAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
52325933 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52325977 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 22, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
47 232 0.76
49 72 0.24
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:52325858 original size:143 final size:143
Alignment explanation
Indices: 52325600--52325976 Score: 641
Period size: 143 Copynumber: 2.7 Consensus size: 143
52325590 TAGTATGGCG
52325600 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
52325665 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
52325730 ATGTAATAAGGCC
131 ATGTAATAAGGCC
52325743 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
52325808 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
52325873 ATGTGATAAGGCC
131 ATGTAATAAGGCC
* * * * * * *
52325886 TAATGGCCGATGTGATGAATGTGAAAATG--TATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
* *
52325949 GGATGTGAAAGTGTATAAATGTGATAAG
66 GAATGTGAAAGTGTATATATGTGATAAG
52325977 TCCCGAAGGG
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 55 0.25
143 168 0.75
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTAATAAGGCC
Found at i:52326151 original size:37 final size:37
Alignment explanation
Indices: 52326095--52326173 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
52326085 CCGAGCTCTA
* *
52326095 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
52326132 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52326169 AAGAC
1 AAGAC
52326174 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52327619 original size:13 final size:14
Alignment explanation
Indices: 52327601--52327639 Score: 71
Period size: 13 Copynumber: 2.9 Consensus size: 14
52327591 TAGCTTCTTC
52327601 TTTTTTTCACAATT
1 TTTTTTTCACAATT
52327615 TTTTTTTCACAA-T
1 TTTTTTTCACAATT
52327628 TTTTTTTCACAA
1 TTTTTTTCACAA
52327640 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTCACAATT
Found at i:52327697 original size:13 final size:12
Alignment explanation
Indices: 52327678--52327721 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
52327668 GGAAACTAAT
52327678 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
52327690 TTTCTTTTTCAAA
1 TTT-TTTTTCGAA
* *
52327703 TGTTTTTTCGAG
1 TTTTTTTTCGAA
52327715 TTTTTTT
1 TTTTTTT
52327722 CGAGAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:52327930 original size:16 final size:16
Alignment explanation
Indices: 52327906--52327939 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52327896 AATGGCTTCA
*
52327906 AAAAAAGATAATAAAC
1 AAAAAAGATAAGAAAC
*
52327922 AAAATAGATAAGAAAC
1 AAAAAAGATAAGAAAC
52327938 AA
1 AA
52327940 TAACAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAAAGATAAGAAAC
Found at i:52333844 original size:34 final size:35
Alignment explanation
Indices: 52333800--52333866 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
52333790 CAGTAAAATA
*
52333800 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
52333834 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
52333867 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:52336428 original size:22 final size:24
Alignment explanation
Indices: 52336381--52336429 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
52336371 TAAAATAATT
52336381 GGTCACACTGTATGAAAATTAATAG
1 GGTCACACTGTATG-AAATTAATAG
52336406 GGTCACACTGTATG-AA-TAATAG
1 GGTCACACTGTATGAAATTAATAG
52336428 GG
1 GG
52336430 AGAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
23 2 0.08
25 14 0.58
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (24 bp):
GGTCACACTGTATGAAATTAATAG
Found at i:52337107 original size:30 final size:30
Alignment explanation
Indices: 52337071--52337132 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
52337061 ACTTATTTTA
52337071 TTGTTAATTTTGCTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
* * *
52337101 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
52337131 TT
1 TT
52337133 ACTTATTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:52347763 original size:20 final size:20
Alignment explanation
Indices: 52347738--52347786 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
52347728 TGAGTTTAGA
*
52347738 AAAAAATCTAGATAATT-ATT
1 AAAAAATATAGA-AATTAATT
*
52347758 AAAAAATATTGAAATTAATT
1 AAAAAATATAGAAATTAATT
52347778 AAAAAATAT
1 AAAAAATAT
52347787 TAAAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAAAATATAGAAATTAATT
Found at i:52349073 original size:63 final size:62
Alignment explanation
Indices: 52349006--52349174 Score: 196
Period size: 63 Copynumber: 2.7 Consensus size: 62
52348996 ACACACCCAA
* *
52349006 GTCTCTGGCCTGTGTGACTCTAATTCCAAAACAGTGAGTTACACGACTTGGACACACTCTTGT
1 GTCTCTGGCCTGTGTGACTCTAATT-CAAAACAGTGAGTTACACGACCTGGACACACACTTGT
* * * * *
52349069 GTCTCTGGCCCGTGTGACCCTAATTTACAAATAGTGAGTTACACGGCCTGGACACACACTTGT
1 GTCTCTGGCCTGTGTGACTCTAATTCA-AAACAGTGAGTTACACGACCTGGACACACACTTGT
* * * *
52349132 GCCTCTAGCCTATGTGACTCT-ATCTGCAAAACAATGAGTTACA
1 GTCTCTGGCCTGTGTGACTCTAAT-T-CAAAACAGTGAGTTACA
52349175 TGGTCTACCA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
62 3 0.03
63 84 0.95
64 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
GTCTCTGGCCTGTGTGACTCTAATTCAAAACAGTGAGTTACACGACCTGGACACACACTTGT
Found at i:52350181 original size:10 final size:9
Alignment explanation
Indices: 52350163--52350220 Score: 71
Period size: 10 Copynumber: 6.1 Consensus size: 9
52350153 GAAAGTTGTT
52350163 TAAAAATTA
1 TAAAAATTA
52350172 TAATAAATTA
1 TAA-AAATTA
52350182 TAAATAATTA
1 TAAA-AATTA
* *
52350192 TTAAAATTT
1 TAAAAATTA
52350201 TAAAAATTAA
1 TAAAAATT-A
52350211 TAAAAATTA
1 TAAAAATTA
52350220 T
1 T
52350221 TATAAAAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 17 0.40
10 25 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TAAAAATTA
Found at i:52350208 original size:18 final size:18
Alignment explanation
Indices: 52350161--52350215 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
52350151 TAGAAAGTTG
*
52350161 TTTAAAAATTATAATAAAT
1 TTTAAAAATTATTA-AAAT
*
52350180 TATAAATAATTATTAAAAT
1 TTTAAA-AATTATTAAAAT
*
52350199 TTTAAAAATTAATAAAA
1 TTTAAAAATTATTAAAA
52350216 ATTATTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAAAATTATTAAAAT
Found at i:52350218 original size:28 final size:29
Alignment explanation
Indices: 52350165--52350222 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
52350155 AAGTTGTTTA
52350165 AAAATTATAATAAATTATAAATAATTATT
1 AAAATTATAATAAATTATAAATAATTATT
*
52350194 AAAATTTTAA-AAATTAATAAA-AATTATT
1 AAAATTATAATAAATT-ATAAATAATTATT
52350222 A
1 A
52350223 TAAAAGGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAATTATAATAAATTATAAATAATTATT
Found at i:52351967 original size:21 final size:20
Alignment explanation
Indices: 52351943--52351981 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52351933 AATAAATAAA
52351943 TAATAATATAATTTAAAATCT
1 TAAT-ATATAATTTAAAATCT
**
52351964 TAATATATGGTTTAAAAT
1 TAATATATAATTTAAAAT
52351982 TTGTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATATATAATTTAAAATCT
Found at i:52355945 original size:13 final size:13
Alignment explanation
Indices: 52355927--52355952 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52355917 CGTGTTTCTA
52355927 AAAACCATTTGTT
1 AAAACCATTTGTT
52355940 AAAACCATTTGTT
1 AAAACCATTTGTT
52355953 TACGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:52364606 original size:13 final size:13
Alignment explanation
Indices: 52364588--52364613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52364578 CGTGTTTTCA
52364588 AAAACCATTTGTT
1 AAAACCATTTGTT
52364601 AAAACCATTTGTT
1 AAAACCATTTGTT
52364614 TGCGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:52366376 original size:16 final size:16
Alignment explanation
Indices: 52366355--52366392 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
52366345 CCTTTTTTCT
**
52366355 TTTCCATTTTCCACCA
1 TTTCCATTTTAAACCA
52366371 TTTCCA-TTTAAACCA
1 TTTCCATTTTAAACCA
52366386 TTTCCAT
1 TTTCCAT
52366393 ACACCAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTCCATTTTAAACCA
Found at i:52367810 original size:16 final size:16
Alignment explanation
Indices: 52367791--52367821 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52367781 ATAAAAAATA
*
52367791 AAAAAAATTATAATTC
1 AAAAAAATTAAAATTC
52367807 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
52367822 ATTTCAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAAATTAAAATTC
Found at i:52369145 original size:18 final size:18
Alignment explanation
Indices: 52369124--52369158 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52369114 TAGAAAATTA
*
52369124 TTAAAATTTAATAAAAAT
1 TTAAAAATTAATAAAAAT
*
52369142 TTAAAAATTATTAAAAA
1 TTAAAAATTAATAAAAA
52369159 GTATATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAATTAATAAAAAT
Found at i:52369155 original size:10 final size:10
Alignment explanation
Indices: 52369108--52369158 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
52369098 AATAAATAAT
52369108 AAATT-TTAGA
1 AAATTATTA-A
52369118 AAATTATTAA
1 AAATTATTAA
* *
52369128 AATTTAATAA
1 AAATTATTAA
52369138 AAA-T-TTAA
1 AAATTATTAA
52369146 AAATTATTAA
1 AAATTATTAA
52369156 AAA
1 AAA
52369159 GTATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
10 23 0.68
11 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:52369463 original size:9 final size:9
Alignment explanation
Indices: 52369425--52369486 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
52369415 ACTTGATAAA
52369425 ATTTTATAAT
1 ATTTTAT-AT
* *
52369435 TTTTTTTAT
1 ATTTTATAT
52369444 ATTTCTATAT
1 ATTT-TATAT
52369454 ATTTTATAT
1 ATTTTATAT
*
52369463 ATTTT-TACG
1 ATTTTATA-T
52369472 ATTTTTATAT
1 A-TTTTATAT
52369482 ATTTT
1 ATTTT
52369487 TCTAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
8 2 0.05
9 20 0.48
10 18 0.43
11 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTATAT
Found at i:52369494 original size:9 final size:10
Alignment explanation
Indices: 52369426--52369514 Score: 71
Period size: 10 Copynumber: 9.2 Consensus size: 10
52369416 CTTGATAAAA
52369426 TTTTATA-ATT
1 TTTTATATA-T
*
52369436 TTTTTTATAT
1 TTTTATATAT
*
52369446 TTCTATATA-
1 TTTTATATAT
52369455 TTTTATATAT
1 TTTTATATAT
**
52369465 TTTTA-CGAT
1 TTTTATATAT
52369474 TTTTATATAT
1 TTTTATATAT
*
52369484 TTTTCTA-AT
1 TTTTATATAT
*
52369493 TTTTAATAAAT
1 TTTT-ATATAT
52369504 TTTTA-ATAT
1 TTTTATATAT
52369513 TT
1 TT
52369515 GAATTTTTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
9 26 0.41
10 30 0.48
11 7 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:52369494 original size:19 final size:19
Alignment explanation
Indices: 52369426--52369507 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 19
52369416 CTTGATAAAA
* *
52369426 TTTTATAATTTTT-TTTAT
1 TTTTCTAATTTTTATATAT
*
52369444 ATTTCTATATATTTTATATAT
1 TTTTCTA-AT-TTTTATATAT
*
52369465 TTTTAC-GATTTTTATATAT
1 TTTT-CTAATTTTTATATAT
*
52369484 TTTTCTAATTTTTAATAAAT
1 TTTTCTAATTTTT-ATATAT
52369504 TTTT
1 TTTT
52369508 AATATTTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.12
19 22 0.43
20 15 0.29
21 7 0.14
22 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTCTAATTTTTATATAT
Found at i:52369680 original size:89 final size:89
Alignment explanation
Indices: 52369582--52369789 Score: 237
Period size: 93 Copynumber: 2.3 Consensus size: 89
52369572 AATTTTTAAT
* * *
52369582 AAAAGTAGGGGCTTAATGGCTTTTTTTTAAAAAATTTTGAGGG-TCTTTTTGATGCATTTTGAAA
1 AAAAGTAGGGGCTTAATTGCTTTTTTTTAAAAAAGTTTGAGGGCTCTTTTTGATACATTTTGAAA
* *
52369646 GTTCAAGTACCCAATTCAGTGCAAA
66 GTTCAAGTACCCAACTCAGTAC-AA
** * **
52369671 AAAAGTAGGGGCTTAATTG-TTTTTTAAGAAAAAAAAGTTTGAGGGCTTTTTTTTTTTACATTTT
1 AAAAGTAGGGGCTTAATTGCTTTTTT---TTAAAAAAGTTTGAGGGC-TCTTTTTGATACATTTT
*
52369735 GAAAGTTCAAGTACCCAACTGAGTACAA
62 GAAAGTTCAAGTACCCAACTCAGTACAA
52369763 AAAA--A-GGGCTTAATTGCTTTTTTTTAA
1 AAAAGTAGGGGCTTAATTGCTTTTTTTTAA
52369790 GAGATTGAGG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
87 2 0.02
88 6 0.06
89 29 0.29
90 7 0.07
91 14 0.14
92 6 0.06
93 36 0.36
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (89 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTTAAAAAAGTTTGAGGGCTCTTTTTGATACATTTTGAAA
GTTCAAGTACCCAACTCAGTACAA
Found at i:52369898 original size:10 final size:10
Alignment explanation
Indices: 52369878--52369938 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
52369868 ATTGCTTTAA
*
52369878 TTTCGTATAT
1 TTTCATATAT
*
52369888 TTTCATTTAT
1 TTTCATATAT
*
52369898 TTCCATATAT
1 TTTCATATAT
52369908 TTGT--TATAT
1 TT-TCATATAT
*
52369917 TTTCATTTAT
1 TTTCATATAT
*
52369927 TTCCATATAT
1 TTTCATATAT
52369937 TT
1 TT
52369939 GTTTTTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 32 0.80
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTCATATAT
Found at i:52369917 original size:29 final size:29
Alignment explanation
Indices: 52369883--52369941 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52369873 TTTAATTTCG
52369883 TATATTTTCATTTATTTCCATATATTTGT
1 TATATTTTCATTTATTTCCATATATTTGT
52369912 TATATTTTCATTTATTTCCATATATTTGT
1 TATATTTTCATTTATTTCCATATATTTGT
52369941 T
1 T
52369942 TTTCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (29 bp):
TATATTTTCATTTATTTCCATATATTTGT
Found at i:52378425 original size:44 final size:41
Alignment explanation
Indices: 52378314--52378426 Score: 95
Period size: 44 Copynumber: 2.7 Consensus size: 41
52378304 AATTCTTCGG
* * *
52378314 TCCATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGA
1 TCCACTCCGCTGTAATCTCAAGGAGATAAGACCTGATGCAA
* * * **
52378355 TCTACTCTGCTGTAA-CTTC-AGAGAGATAAGATCCTTTATTTTAA
1 TCCACTCCGCTGTAATC-TCAAG-GAGATAAGA-CC-TGA-TGCAA
52378399 TCCACTCCGCTGTAATCTCAAGGAGATA
1 TCCACTCCGCTGTAATCTCAAGGAGATA
52378427 GGATTACTAG
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
40 3 0.05
41 22 0.40
42 2 0.04
43 2 0.04
44 23 0.42
45 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
TCCACTCCGCTGTAATCTCAAGGAGATAAGACCTGATGCAA
Found at i:52378456 original size:44 final size:44
Alignment explanation
Indices: 52378403--52378661 Score: 218
Period size: 44 Copynumber: 5.7 Consensus size: 44
52378393 TTTTAATCCA
* * *
52378403 CTCCGCTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* * *
52378447 CTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA--T-CTG
* * * * * * *
52378494 CGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCG
1 C--TC--CACTG-TA-ATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTG
* *
52378545 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
** *
52378589 CTCTGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
52378633 CTCCACTGTAA-CATCAGGGAGATAAGATT
1 CTCCACTGTAATC-TCAGGGAGATAAGATT
52378662 CACCATTTTT
Statistics
Matches: 169, Mismatches: 31, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 119 0.70
45 2 0.01
46 3 0.02
47 6 0.04
49 4 0.02
51 6 0.04
52 3 0.02
53 2 0.01
54 18 0.11
55 1 0.01
56 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
Found at i:52378603 original size:142 final size:142
Alignment explanation
Indices: 52378347--52378629 Score: 494
Period size: 142 Copynumber: 2.0 Consensus size: 142
52378337 AGATAAGACC
* * *
52378347 TGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCGCTGT
1 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
52378412 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
*
52378477 CTGGCTTCAATT
131 CTAGCTTCAATT
*
52378489 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTAT
1 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
* **
52378554 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
52378619 CTAGCTTCAAT
131 CTAGCTTCAAT
52378630 CTGCTCCACT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
CTAGCTTCAATT
Found at i:52396950 original size:7 final size:7
Alignment explanation
Indices: 52396938--52396967 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
52396928 GGTCTTTTTT
52396938 TTATTTA
1 TTATTTA
52396945 TTATTTA
1 TTATTTA
52396952 TTATTTA
1 TTATTTA
52396959 TT-TTTA
1 TTATTTA
52396965 TTA
1 TTA
52396968 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:52397027 original size:30 final size:31
Alignment explanation
Indices: 52396992--52397050 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
52396982 GTTATTAAGT
52396992 TATTATTATTAC-T-ATATATATACATACGCA
1 TATTATT-TTACATAATATATATACATACGCA
52397022 TATTATTTTACAATAATATATATACATAC
1 TATTATTTTAC-ATAATATATATACATAC
52397051 ATTTGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 7 0.27
31 1 0.04
32 14 0.54
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (31 bp):
TATTATTTTACATAATATATATACATACGCA
Found at i:52397161 original size:17 final size:17
Alignment explanation
Indices: 52397139--52397173 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52397129 TTTATATACA
* *
52397139 TATATATATTTACATTT
1 TATATACATATACATTT
52397156 TATATACATATACATTT
1 TATATACATATACATTT
52397173 T
1 T
52397174 TTATTTCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:52398362 original size:13 final size:13
Alignment explanation
Indices: 52398344--52398369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52398334 ACTAAGGATA
52398344 GTATTTATTAACT
1 GTATTTATTAACT
52398357 GTATTTATTAACT
1 GTATTTATTAACT
52398370 CTCGACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
GTATTTATTAACT
Found at i:52399173 original size:8 final size:8
Alignment explanation
Indices: 52399160--52399184 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52399150 GTTTTTTTAA
52399160 ATTAAAAT
1 ATTAAAAT
52399168 ATTAAAAT
1 ATTAAAAT
52399176 ATTAAAAT
1 ATTAAAAT
52399184 A
1 A
52399185 ATTTTTAATA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAAAT
Found at i:52401287 original size:9 final size:9
Alignment explanation
Indices: 52401273--52401298 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52401263 GGATTAAATT
52401273 GTAAAAGTA
1 GTAAAAGTA
52401282 GTAAAAGTA
1 GTAAAAGTA
52401291 GTAAAAGT
1 GTAAAAGT
52401299 TAATCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GTAAAAGTA
Found at i:52403886 original size:2 final size:2
Alignment explanation
Indices: 52403881--52403906 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52403871 TATTATATAC
52403881 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
52403907 ACACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52429389 original size:220 final size:219
Alignment explanation
Indices: 52429093--52429537 Score: 651
Period size: 220 Copynumber: 2.0 Consensus size: 219
52429083 AATGCTACGA
* * *
52429093 TTAAAAGAAGGTAGCTTAGCATGTATAATGAAGGTAAGTAGAGCTGATTATGGGACAAGCTTGAT
1 TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
* * * *
52429158 CCATGCAAGGTATTTAGATTAATTTTTTAAGTTTGAGTTCGATCTGAT-TTGAAAAATGGATTTA
66 CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCT-AAAAATGGATTTA
* * *
52429222 ATTTTTTGTTTACGTTTGGTCCAATTTAAGAAAGGTAAATTC-GGCCCAACCCGGTCCACCCATA
130 ATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATA
52429286 TTTAATTTTTTAGATTAGTTTTTAT
195 TTTAATTTTTTAGATTAGTTTTTAT
* * * *
52429311 TTAAAAGAAAGTAGCTTAGCATGTATATAATAAAGGTAACTAGAGGTGATTATGGGCCGAGTTTG
1 TTAAAAGAAAGTAGCTTAGCATG--TATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTG
* * * *
52429376 ATTCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCTACCCGATCCTAGAAATGGGTTT
64 ATCCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTT
* * *
52429441 AATTTTTTGTTTACGTTCGATCCGATTTAAGAAAGGTAAATCCGGGCCTAACCCGGTCCACTCAT
129 AATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCAT
*
52429506 ATTTGATTTTTTAGATTAGTTTTTAT
194 ATTTAATTTTTTAGATTAGTTTTTAT
52429532 TTAAAA
1 TTAAAA
52429538 TCATTTAAAA
Statistics
Matches: 201, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
218 22 0.11
220 128 0.64
221 51 0.25
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (219 bp):
TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTTAA
TTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATAT
TTAATTTTTTAGATTAGTTTTTAT
Found at i:52437443 original size:13 final size:14
Alignment explanation
Indices: 52437414--52437446 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
52437404 TATGATTAGT
*
52437414 GTTAATTAGGCTTA
1 GTTAATTAAGCTTA
52437428 GTTAATTAAG-TTA
1 GTTAATTAAGCTTA
52437441 GTTAAT
1 GTTAAT
52437447 ATTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (14 bp):
GTTAATTAAGCTTA
Found at i:52439450 original size:23 final size:21
Alignment explanation
Indices: 52439424--52439486 Score: 56
Period size: 24 Copynumber: 2.9 Consensus size: 21
52439414 ATATGAAATA
52439424 TAACATACAAAATAATATATAC
1 TAACATA-AAAATAATATATAC
* * *
52439446 TTAACCTAAATAAATATTACATAC
1 -TAACAT-AA-AAATAATATATAC
52439470 TAA-ATAAAAATAATATA
1 TAACATAAAAATAATATA
52439487 AAACCAACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.25
21 2 0.06
22 1 0.03
23 9 0.28
24 12 0.38
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACATAAAAATAATATATAC
Found at i:52439681 original size:3 final size:3
Alignment explanation
Indices: 52439673--52439719 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
52439663 ATAATCAGAT
* *
52439673 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
52439718 AT
1 AT
52439720 TAAGTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:52440899 original size:44 final size:44
Alignment explanation
Indices: 52440838--52441109 Score: 329
Period size: 44 Copynumber: 6.2 Consensus size: 44
52440828 TTCGATCTGC
*
52440838 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTAT
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTAT
* * * *
52440882 TACACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
*
52440926 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * *
52440970 TCCACTACTGTTCAGGGAG-CTAGGACTTGCAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * * *
52441014 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
* *
52441058 TCCACTGCTGGTT-AGGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCT-GTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
52441102 TCCACTGC
1 TCCACTGC
52441110 CGTCTAAGGA
Statistics
Matches: 206, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
43 2 0.01
44 202 0.98
45 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
Found at i:52440943 original size:88 final size:88
Alignment explanation
Indices: 52440838--52441109 Score: 372
Period size: 88 Copynumber: 3.1 Consensus size: 88
52440828 TTCGATCTGC
* *
52440838 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAG
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTATTCCACTGCTGTTCAGGGAG
* *
52440901 ATAGGACATACAATCTTCCACCTAT
64 ATAGGACTTGCAATCTTCCACCTAT
* * *
52440926 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTATTCCACTACTGTTCAGGGAGC
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGA
52440990 TAGGACTTGCAATCTTCCACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
* * * *
52441014 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGA
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGA
*
52441078 TAGGACTTGCAATCTTCAACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
52441102 TCCACTGC
1 TCCACTGC
52441110 CGTCTAAGGA
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
87 3 0.02
88 157 0.96
89 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (88 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGAT
AGGACTTGCAATCTTCCACCTAT
Found at i:52441063 original size:132 final size:132
Alignment explanation
Indices: 52440838--52441107 Score: 377
Period size: 132 Copynumber: 2.0 Consensus size: 132
52440828 TTCGATCTGC
*
52440838 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
* * *
52440903 AGGACATACAATCTTCCACCTATTCCACTGCT-GTTCAGGGAGCTAGGACTTACAATCTTCCACC
66 AGGACATACAATCTTCAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTACAATCTTCAACC
52440967 TAT
130 TAT
* * *
52440970 TCCACTACTG-TTCAGGGAG-CTAGGA-CTTGCAATCTTCCACCTATTCCACTGCTGGTCAGGGA
1 TCCACTACTGCTT-AGGGAGAC-AGGATC-TACAATCTTCAACCTATTACACTGCTGGTCAGGGA
* * * *
52441032 GATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTGCAATCTTCAA
63 GATAGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAA
52441097 CCTAT
128 CCTAT
52441102 TCCACT
1 TCCACT
52441108 GCCGTCTAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
131 4 0.03
132 116 0.94
133 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
AGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAACCT
AT
Found at i:52441121 original size:44 final size:44
Alignment explanation
Indices: 52440867--52441126 Score: 362
Period size: 44 Copynumber: 5.9 Consensus size: 44
52440857 ACAGGATCTA
* * *
52440867 CAATCTTCAACCTATTACACTGCTGTTCAGGGAGATAGGACATA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
52440911 CAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
52440955 CAATCTTCCACCTATTCCACTACTGTTCAGGGAGCTAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* *
52440999 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
*
52441043 CAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGATAGGACTTG
* *
52441087 CAATCTTCAACCTATTCCACTGCCG-TCTAAGGAGATAGGA
1 CAATCTTCAACCTATTCCACTGCTGTTC-AGGGAGATAGGA
52441127 ATAGTGGCTT
Statistics
Matches: 198, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 194 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
Found at i:52441278 original size:44 final size:44
Alignment explanation
Indices: 52441177--52441278 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
52441167 AAGATTTGCC
* *
52441177 ATCTTTGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
* * * *
52441221 ATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAG-GCT-TACA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGT--A
52441265 ATCTTCGATCTGCT
1 ATCTTCGATCTGCT
52441279 TCACCGTTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 44 0.94
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (44 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
Found at i:52441348 original size:89 final size:88
Alignment explanation
Indices: 52441211--52441404 Score: 192
Period size: 88 Copynumber: 2.2 Consensus size: 88
52441201 TTAGGAAGAT
* * ** * * *
52441211 AAGATCTGTAATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGAC-ATCTTCGATCT
* * *
52441276 GCTTCACCGTTAGTACAGGGAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
* * * *
52441300 AAGATCTGTTATTTTCAACCTGCTCCGCTA-TAACCCAAGGAGGCAAGGCTGGCGTCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACT-ACCCAAGGAGACAAGGCTGACATCTTCGATCT
* * * *
52441364 GCTTCGCTGTCGGTGCAAGAAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
*
52441388 AAGATCTGTTATCTTCA
1 AAGATCTGTTATTTTCA
52441405 CTGATCTGTT
Statistics
Matches: 85, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
88 44 0.52
89 41 0.48
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGACATCTTCGATCTG
CTTCACCGTCAGTACAAGAAGGC
Found at i:52447818 original size:31 final size:31
Alignment explanation
Indices: 52447745--52447821 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
52447735 ACTAGAATGA
* * *
52447745 GTATGATATGAACTACTAATTGACATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
* * *
52447776 ATGTGATATGAATTGCTAAATGATATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
*
52447807 GTATGAAATGAATTG
1 GTATGATATGAATTG
52447822 ATGATGAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (31 bp):
GTATGATATGAATTGCTAAATGACATGTGAT
Found at i:52449520 original size:25 final size:25
Alignment explanation
Indices: 52449486--52449539 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
52449476 ATGAAAGGAA
52449486 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
52449511 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
52449536 TGTA
1 TGTA
52449540 GTCAAGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (25 bp):
TGTACCAACGTATTACAGATCAAGT
Found at i:52450757 original size:46 final size:45
Alignment explanation
Indices: 52450661--52450762 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 45
52450651 TTTTCATAAC
* * *
52450661 ATATGATTCAATACTAAAATCATTCCAAACTAACATGATAAGCAAT
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
* ** *
52450707 ATATGACTCAATACTAAAATCATTCCCAACTAGTATAACAAGTAAA
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
52450753 ATATGATCAA
1 ATATGATCAA
52450763 AATTGTAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (45 bp):
ATATGATCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
Found at i:52453882 original size:84 final size:84
Alignment explanation
Indices: 52453768--52454103 Score: 564
Period size: 84 Copynumber: 4.0 Consensus size: 84
52453758 CGTAAAAAAT
* *
52453768 AAAACACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52453833 AATGGTCTGCGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* * * *
52453852 AAAATACAATGGCGTCGTTTATTGGCCTTCGGTGGCCTTAGTGGCGTTTTTTGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52453917 AATGGTCTATGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
52453936 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
52454001 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
*
52454020 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGTGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454085 AATGGTATGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
52454104 GGCGTTTTAA
Statistics
Matches: 235, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 235 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:52454235 original size:84 final size:84
Alignment explanation
Indices: 52454133--52454300 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
52454123 CGCAAAAAAT
* *
52454133 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
52454198 AATGGTCTGTGTTTTTAGC
66 AATGGTATGTGTTTTTAGC
52454217 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
52454282 AATGGTATGTGTTTTTAGC
66 AATGGTATGTGTTTTTAGC
52454301 GGCGTTTTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTATGTGTTTTTAGC
Found at i:52454271 original size:197 final size:198
Alignment explanation
Indices: 52453936--52454798 Score: 1410
Period size: 198 Copynumber: 4.4 Consensus size: 198
52453926 TGTTTTTAGC
* *
52453936 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454001 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCA
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
*
52454066 TTTTTGGTCTAGTGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTT-AAAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
52454130 AAT
196 AAT
* *
52454133 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454198 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
*
52454263 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTT-AAAAAAAACGCCG-TAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
52454326 AAT
196 AAT
*
52454329 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454394 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* * * *
52454459 TTTTTGGTCTAGGGCCACTAATGGTTTGTGTTTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
*
52454524 ATT
196 AAT
*
52454527 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454592 AATGGTCTGTATTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* * * * *
52454657 TTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
52454722 AAT
196 AAT
* * *
52454725 AAAATATAACGTCGTCGTTTA----------GTGGCCTTAGTGGCATTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
52454780 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
52454799 GGCGTTTTTA
Statistics
Matches: 630, Mismatches: 34, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
188 51 0.08
196 174 0.28
197 196 0.31
198 209 0.33
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (198 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
AAT
Found at i:52454470 original size:84 final size:84
Alignment explanation
Indices: 52454329--52454496 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
52454319 CCGTAAAAAT
** *
52454329 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
52454394 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
52454413 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACT
1 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
*
52454478 AATGGTTTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
52454497 GGCGTTTTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (84 bp):
AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
AATGGTCTGTGTTTTTAGC
Found at i:52454623 original size:84 final size:84
Alignment explanation
Indices: 52454527--52454694 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 84
52454517 CGCAAAAATT
*
52454527 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
52454592 AATGGTCTGTATTTTTAGC
66 AATGGTCTGTATTTGTAGC
* *
52454611 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
52454676 AATGGTCTGTATTTGTAGC
66 AATGGTCTGTATTTGTAGC
52454695 GGCGTTTTCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTATTTGTAGC
Found at i:52454944 original size:113 final size:113
Alignment explanation
Indices: 52454611--52454967 Score: 443
Period size: 104 Copynumber: 3.2 Consensus size: 113
52454601 TATTTTTAGC
* * **
52454611 AAAATACAACGGCGTCGTTTAGTGGCCT-TCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGC
1 AAAATACAACGGCGTCGTTTAGTGG-CTAT-GGTGGCATTAGTGGCATTTTTGGTCTAGCACCGC
* * * * *
52454675 TAATGGTCTGTATTTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
64 TAATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
* *
52454725 AAAATATAACGTCGTCGTTTAGTGGC--------C-TTAGTGGCATTTTTGGTCTAGCACCGCTA
1 AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAGCACCGCTA
*
52454781 ATGGTCTGTGTTTTTAGCGGCGTTTTTAGGAATAATGCCGCAAAAAAT
66 ATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
* *
52454829 AAAATACAACGTCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCT-GCCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAG-CACCGCT
*
52454893 AATTGTCTGTGTTTTTAGCGGCGTTTTCAGG-ATAAATGCCG-AGAAAAAT
65 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAAT-AATGCCGCA-AAAAAT
52454942 AAAATACAACGGCGTCGTTTAGTGGC
1 AAAATACAACGGCGTCGTTTAGTGGC
52454968 CTTCGGTGGC
Statistics
Matches: 215, Mismatches: 16, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
104 93 0.43
105 1 0.00
112 5 0.02
113 93 0.43
114 23 0.11
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (113 bp):
AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAGCACCGCTA
ATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
Found at i:52456281 original size:391 final size:385
Alignment explanation
Indices: 52455560--52456480 Score: 1453
Period size: 391 Copynumber: 2.4 Consensus size: 385
52455550 GTTCATATAA
* * * * * * *
52455560 TTTTAAGGTTTAGGGAGTACTATATATATAT-T-TATATATGGATTATAGATTAGGGGTTTTGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
*
52455623 TAATTAAGGGTTAGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
* * *
52455688 AGGGATTT-TGTGTTTAGGGTTTCAGGGGTCGGGTTACAGTTTTGGTTTAGATTATTTTTTTATT
131 AGGGATTTAAG-GTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATT
* *
52455752 TATATTTTAAATATGTTCTTATGTAATTGTAAAATATGTATAATTTAGGGTTTAATTAATTATGC
195 TATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAA-TAATTATGC
* *
52455817 CTTGAGAGATATATATATAATAGATAGAGTACTTAAATATTTATATCCCTTCAATGGTTAATTTA
259 CTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTA
52455882 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
324 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
52455944 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* * *
52456009 TAACTAAGGGTTGGTCGGGATTTAAGGTTTAGGGGAGGGGTTTAGGGGTTAGATGTTAGTTGTTA
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTT-----AGGGG-TTAGGGGTTAGATGTTAGTGGTTA
* *
52456074 AAACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCTGGTTACAATTTTGGATTTAGATTAATTT
125 AGACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGG-TTTAGATT-ATTT
52456139 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTT-A-AA
188 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAA
52456202 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
253 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
*
52456267 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTGAGATTTTGAATTTTATACAATTAATTAAT
318 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAAT
52456332 GCT
383 GCT
*
52456335 TTTTAATGTTTAGGGAGTGC--TATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* *
52456398 TAATTAAGGGTTGG-CTGAGATTTAAGATTTAGGGGTTAGGGGTTAGATGCTAGTGGTTAAGACT
66 TAATTAAGGGTTGGTC-GAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACT
* *
52456462 TAGGAATTTAGGGTTTAGG
130 TAGGGATTTAAGGTTTAGG
52456481 AGAGGACCAA
Statistics
Matches: 495, Mismatches: 30, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
383 43 0.09
384 35 0.07
385 1 0.00
386 52 0.11
388 1 0.00
389 68 0.14
391 156 0.32
392 67 0.14
393 10 0.02
394 62 0.13
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (385 bp):
TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
AGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATTT
ATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAATTATGCCT
TGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTAGG
CGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
Found at i:52460605 original size:21 final size:21
Alignment explanation
Indices: 52460565--52460635 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
52460555 CCACAACTTA
* *
52460565 AAGCAGAGGCGGCAGAGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
52460586 AAG-ATGCGGCTGCAGCGAGGG
1 AAGCA-GAGGCTGCAGCGAGGG
*
52460607 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
52460628 AAGCAGAG
1 AAGCAGAG
52460636 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:52462094 original size:2 final size:2
Alignment explanation
Indices: 52462087--52462120 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
52462077 GAGAAATCAA
52462087 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
52462121 CTAGTTAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52465074 original size:17 final size:17
Alignment explanation
Indices: 52465027--52465076 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
52465017 AAAAAAATTA
*
52465027 AATTATAATATTCAAAG
1 AATTATAATATTTAAAG
*
52465044 AATACATAA-ATTTAAAG
1 AAT-TATAATATTTAAAG
*
52465061 AATTATAATCTTTAAA
1 AATTATAATATTTAAA
52465077 TTTTTACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTATAATATTTAAAG
Found at i:52465325 original size:22 final size:22
Alignment explanation
Indices: 52465300--52465346 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
52465290 AATTTTAATA
52465300 TTCAATTTAGTACTTGAA-TTTT
1 TTCAATTTAGTACTT-AAGTTTT
52465322 TTCAATTTAGTACTTAAGTTTT
1 TTCAATTTAGTACTTAAGTTTT
52465344 TTC
1 TTC
52465347 TTTGTCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (22 bp):
TTCAATTTAGTACTTAAGTTTT
Found at i:52469105 original size:27 final size:27
Alignment explanation
Indices: 52469062--52469113 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
52469052 TCCGCAGGGA
52469062 CAATAAACATAGAGTAGTCCGTCAGGT
1 CAATAAACATAGAGTAGTCCGTCAGGT
* *
52469089 CAATAAATA-AGATGTAGTCTGTCAG
1 CAATAAACATAGA-GTAGTCCGTCAG
52469114 AACATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (27 bp):
CAATAAACATAGAGTAGTCCGTCAGGT
Found at i:52473597 original size:68 final size:68
Alignment explanation
Indices: 52473467--52473601 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
52473457 TGATTAAACT
*
52473467 TAATCACTTTAATATTAAATTAATGTAATATTTATCAAGATAAACATTAAATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAA-GTAATATTTATCAAGATAAACATTAAATTAAATTTAATATT
52473532 AAGA
65 AAGA
* **
52473536 TAATCACTTTAATATTAAATTAA-TAA-ATTACTATTAAGATAAGTATTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATTAAGTAATATT--TATCAAGATAAACATTAAATTAAATTTAATAT
52473599 TAA
64 TAA
52473602 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
66 3 0.05
67 3 0.05
68 31 0.52
69 23 0.38
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAAGTAATATTTATCAAGATAAACATTAAATTAAATTTAATATTA
AGA
Found at i:52475243 original size:16 final size:16
Alignment explanation
Indices: 52475222--52475252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52475212 CTATGCATGC
*
52475222 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
52475238 AAAATACAAAAGACA
1 AAAATACAAAAGACA
52475253 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:52486242 original size:48 final size:48
Alignment explanation
Indices: 52486186--52486281 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
52486176 CGCTTCAGGT
52486186 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
1 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
52486234 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
1 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
52486282 TCTCCTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (48 bp):
GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
Found at i:52487265 original size:19 final size:18
Alignment explanation
Indices: 52487243--52487326 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 18
52487233 AATACAAAAA
52487243 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTTT
*
52487262 AAAATTCAAAATATTTTT
1 AAAAATCAAAATATTTTT
52487280 AAAAATTCTAAAACTTATCTTTT
1 AAAAA-TC-AAAA--TAT-TTTT
* * *
52487303 AAAAAATTATAATTTTTTT
1 -AAAAATCAAAATATTTTT
52487322 AAAAA
1 AAAAA
52487327 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 15 0.28
19 17 0.31
20 6 0.11
22 6 0.11
23 5 0.09
24 5 0.09
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATCAAAATATTTTT
Found at i:52487424 original size:35 final size:35
Alignment explanation
Indices: 52487388--52487464 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
52487378 TTTGGGAACT
52487388 AAATAATTTAATTAATGATTTAAGTTTATCATACTA
1 AAAT-ATTTAATTAATGATTTAAGTTTATCATACTA
*
52487424 AAATATTTAATTAATGATTTAAGTTTATCATACCA
1 AAATATTTAATTAATGATTTAAGTTTATCATACTA
52487459 AAATAT
1 AAATAT
52487465 CTTCTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (35 bp):
AAATATTTAATTAATGATTTAAGTTTATCATACTA
Found at i:52487909 original size:125 final size:123
Alignment explanation
Indices: 52487687--52487938 Score: 371
Period size: 125 Copynumber: 2.0 Consensus size: 123
52487677 AATGCTCACC
* *
52487687 CCTAATTATACCTATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTGATTTTAACAAGAGTGAC
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
*
52487752 CAAAATGACCGAACTATGTAACGTGGGTGCTTAAATTACAAACTTTTTTTATTTTAAGTG
66 CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAA--TTTTTTATTTTAAGTG
* * * *
52487812 CCTAATTATATCAATTCTTTTAACTGTCACTTTATCTTGTTGTTTGTAATTTTAACGAGAGTGA-
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
* * * *
52487876 CAACAATTATCGAACTATATAACGTTGGTGCTTAAATTGCAAATTTTTTATTTTAAGTG
66 CAA-AATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
52487935 CCTA
1 CCTA
52487939 TAATAAAAAG
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
123 20 0.17
124 3 0.03
125 92 0.80
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (123 bp):
CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
Found at i:52491923 original size:24 final size:24
Alignment explanation
Indices: 52491873--52491923 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52491863 TATAACATTT
**
52491873 AAAAATTCCTAAAATTTATGGATA
1 AAAAATTCCTAAAATTTATAAATA
52491897 AAAAATTCCTAAAATTTA-AAATA
1 AAAAATTCCTAAAATTTATAAATA
52491920 AAAA
1 AAAA
52491924 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAATTCCTAAAATTTATAAATA
Found at i:52492743 original size:27 final size:27
Alignment explanation
Indices: 52492713--52492764 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
52492703 TTTTAATAAT
52492713 TTAATTT-TCAAATTTTAGATTTTTTTG
1 TTAATTTAT-AAATTTTAGATTTTTTTG
* *
52492740 TTAATTTATTAATTTTATATTTTTT
1 TTAATTTATAAATTTTAGATTTTTT
52492765 GAATTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TTAATTTATAAATTTTAGATTTTTTTG
Found at i:52493184 original size:23 final size:23
Alignment explanation
Indices: 52493157--52493212 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
52493147 ATCCCTTTAG
52493157 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
52493180 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
52493203 AATCTCAATT
1 AATCTCAATT
52493213 GTTGATGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (23 bp):
AATCTCAATTATAGATTGGCTTT
Found at i:52497665 original size:3 final size:3
Alignment explanation
Indices: 52497634--52497701 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
52497624 ATACACGTAC
* * * *
52497634 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA GTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
52497681 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
52497702 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:52498300 original size:15 final size:16
Alignment explanation
Indices: 52498280--52498318 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
52498270 AGGTAAAAAA
*
52498280 TTTTATTT-TTTTATT
1 TTTTATTTCTTGTATT
52498295 TTTTATTTCTTGTATT
1 TTTTATTTCTTGTATT
52498311 TTTATATT
1 TTT-TATT
52498319 ATACTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 9 0.43
17 4 0.19
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTCTTGTATT
Found at i:52499640 original size:71 final size:73
Alignment explanation
Indices: 52499532--52499682 Score: 211
Period size: 71 Copynumber: 2.1 Consensus size: 73
52499522 CAAACAGATT
* *
52499532 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AA
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAA
52499596 AACACAAAAA
65 AA-ACAAAAA
* **
52499606 TTGAAAATACCTCAGC-GTG-CCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
52499669 AACAAAAA
66 AACAAAAA
52499677 TT-AAAA
1 TTGAAAA
52499683 GGCTTAACTC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
70 4 0.06
71 45 0.63
72 7 0.10
74 15 0.21
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (73 bp):
TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
AACAAAAA
Found at i:52499774 original size:119 final size:122
Alignment explanation
Indices: 52499558--52499783 Score: 359
Period size: 119 Copynumber: 1.9 Consensus size: 122
52499548 ATGTGACCCG
*
52499558 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-AATT-AAACACAAAAATCGAAAATACCTCAGCG
*
52499623 TGCCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 TGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * *
52499682 AGGCTTAACTCACCTCTCGCAATATGAGTTG-A-T-AACACAAAAGTCGAAAATACCTCAGTGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
*
52499744 CCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
52499784 TTTGAAAAAC
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
119 64 0.67
121 1 0.01
122 1 0.01
124 30 0.31
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:52500023 original size:143 final size:144
Alignment explanation
Indices: 52499748--52500025 Score: 321
Period size: 143 Copynumber: 1.9 Consensus size: 144
52499738 AGTGTGCCCG
* * ***
52499748 AGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGATTTTGAAGAGCAGAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTTTGAAAAACAGAAACTGAAGAGCAGAAA
* ** * * * * * *
52499813 TTGTAAATACCTCGGCGTGTCCCGAGGTTCAACTCACTTCTTGCAATATGAGTCGATTTTTTGAA
66 TTGAAAATACCTCAACCTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTTCAA
52499878 AAACAGAAATTAAA
131 AAACAGAAATTAAA
* * * *
52499892 AGGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTT-TAAAACATAAACTGACGA-CAGAA
1 AGGCTCAACTCACCTCTAGCAATATGAGCTGAT-TTTTTTGAAAAACAGAAACTGAAGAGCAGAA
* *
52499955 ATCT-AAAATACCTCAACCTG-CCCTGAGGCTCGACTCACCTCTCGCAATATGAGTTGATTCTTT
65 AT-TGAAAATACCTCAACCTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTT
52500018 CAAAAACA
128 CAAAAACA
52500026 TAATAATGAA
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
142 3 0.03
143 59 0.53
144 43 0.39
145 6 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (144 bp):
AGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTTTGAAAAACAGAAACTGAAGAGCAGAAA
TTGAAAATACCTCAACCTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTTCAA
AAACAGAAATTAAA
Found at i:52500112 original size:88 final size:87
Alignment explanation
Indices: 52499892--52500123 Score: 284
Period size: 88 Copynumber: 2.6 Consensus size: 87
52499882 AGAAATTAAA
* * * **
52499892 AGGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTTTAAAACATAAACTGACGACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTTAAAAACATAAAATGAAAACAGAAAT
* *
52499957 CTAAAATACCTCAACCTGCCCTG
65 CGAAAATACCTCAACCTGACCTG
* * *
52499980 AGGCTCGACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACATAA-AATGAAAACAGAAAT
* ****
52500045 GGAAAATACCTCGGTGTGACCTG
65 CGAAAATACCTCAACCTGACCTG
* * *
52500068 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACATAAAATGAAA
52500124 TTACCTCAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 19 0.16
88 103 0.84
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACATAAAATGAAAACAGAAATC
GAAAATACCTCAACCTGACCTG
Found at i:52500153 original size:74 final size:74
Alignment explanation
Indices: 52500032--52500177 Score: 238
Period size: 74 Copynumber: 2.0 Consensus size: 74
52500022 AACATAATAA
* * *
52500032 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGT
52500097 TGATTTTTT
66 TGATTTTTT
* * *
52500106 TGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 TGAAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGT
52500171 TGATTTT
66 TGATTTT
52500178 GAAAAACAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (74 bp):
TGAAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGT
TGATTTTTT
Found at i:52500290 original size:122 final size:125
Alignment explanation
Indices: 52500068--52500305 Score: 329
Period size: 122 Copynumber: 1.9 Consensus size: 125
52500058 GTGTGACCTG
* * * * *
52500068 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCA--TATTTGAAAACAGAAACTAAAAATACCTCAG
*
52500133 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 CGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * *
52500195 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCATATTTGAAAACAGAAACTAAAAATACCTCAGCG
* * *
52500257 TGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAA
66 TGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
52500306 AATTAAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
122 67 0.68
123 3 0.03
126 2 0.02
127 27 0.27
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCATATTTGAAAACAGAAACTAAAAATACCTCAGCG
TGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:52500339 original size:68 final size:70
Alignment explanation
Indices: 52500195--52500367 Score: 210
Period size: 68 Copynumber: 2.5 Consensus size: 70
52500185 AAAAATTAAA
* * * * **
52500195 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
52500259 CCCTG
66 CCCTG
* *
52500264 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* *
52500327 TCTTG
66 CCCTG
*
52500332 AGGCTCAACTCA-TCTCTTGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
52500368 CCTTGGAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
67 1 0.01
68 55 0.60
69 27 0.30
70 8 0.09
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCTG
Found at i:52501227 original size:12 final size:12
Alignment explanation
Indices: 52501210--52501251 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
52501200 CCTGATCCCC
52501210 TTTTTTTTTCTT
1 TTTTTTTTTCTT
*
52501222 TTTTTTCTTCTT
1 TTTTTTTTTCTT
*
52501234 TTTTTTTTCCTT
1 TTTTTTTTTCTT
52501246 TTTTTT
1 TTTTTT
52501252 AAGATGCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:52512355 original size:24 final size:24
Alignment explanation
Indices: 52512303--52512355 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
52512293 AGGTATAATG
52512303 TAATAATGAATGAACACGAAATGAA
1 TAATAATGAATGAACAC-AAATGAA
52512328 -AATAATGAATGTATACAC-AAT-AA
1 TAATAATGAATG-A-ACACAAATGAA
52512351 TAATA
1 TAATA
52512356 TTAAGAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
23 2 0.08
24 18 0.72
25 1 0.04
26 4 0.16
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (24 bp):
TAATAATGAATGAACACAAATGAA
Found at i:52512799 original size:27 final size:26
Alignment explanation
Indices: 52512735--52512817 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
52512725 AATATTTAGG
52512735 TATATACGTATATAAAACTAGTA-AA-A
1 TATATACGTATATAAAA-TA-TATAATA
52512761 TAT-TACCAGTATATAAAATATATAAGTA
1 TATATA-C-GTATATAAAATATATAA-TA
52512789 TATATACGTAT-TATAAATATATAA-A
1 TATATACGTATATA-AAATATATAATA
52512814 TATA
1 TATA
52512818 ACAAAGCATA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
25 9 0.18
26 10 0.20
27 24 0.48
28 5 0.10
29 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (26 bp):
TATATACGTATATAAAATATATAATA
Found at i:52512971 original size:22 final size:22
Alignment explanation
Indices: 52512946--52513006 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
52512936 TGTATACACG
52512946 TACATAATAA-AATATATACTAA
1 TACATAATAATAATA-ATACTAA
*
52512968 TACATAATAATAATAATAGTAA
1 TACATAATAATAATAATACTAA
*
52512990 TAC-TAATAATACTAATA
1 TACATAATAATAATAATA
52513007 ATATAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 13 0.36
22 19 0.53
23 4 0.11
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (22 bp):
TACATAATAATAATAATACTAA
Found at i:52512979 original size:3 final size:3
Alignment explanation
Indices: 52512949--52513017 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
52512939 ATACACGTAC
* * *
52512949 ATA ATA A-A ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
52512995 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
52513018 CAAGGATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.11
3 41 0.77
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:52513615 original size:15 final size:16
Alignment explanation
Indices: 52513595--52513630 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
52513585 AGGTAAAAAA
*
52513595 TTTATTT-TTTTATTT
1 TTTATTTCTTGTATTT
52513610 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
52513626 TTTAT
1 TTTAT
52513631 ATTATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:52514648 original size:18 final size:17
Alignment explanation
Indices: 52514623--52514658 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
52514613 TTTAATCAAT
*
52514623 TTAAAAATTATTATAAA
1 TTAAAAATTATTAGAAA
52514640 TTAATAAATTATTAGAAA
1 TTAA-AAATTATTAGAAA
52514658 T
1 T
52514659 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAAAATTATTAGAAA
Found at i:52514769 original size:21 final size:22
Alignment explanation
Indices: 52514739--52514784 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
52514729 GAAAAAATAA
*
52514739 TAAATATTATT-T-ATTATTTT
1 TAAATATTATTATAAATATTTT
52514759 TAAATTATTATTATAAATATTTT
1 TAAA-TATTATTATAAATATTTT
52514782 TAA
1 TAA
52514785 TAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 1 0.05
23 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAAATATTATTATAAATATTTT
Found at i:52528801 original size:15 final size:15
Alignment explanation
Indices: 52528781--52528814 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52528771 ATTAATTTTG
*
52528781 ATATTTTCTATTATT
1 ATATTTACTATTATT
52528796 ATATTTACTATTATT
1 ATATTTACTATTATT
52528811 -TATT
1 ATATT
52528815 GCCATCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTTACTATTATT
Found at i:52528829 original size:3 final size:3
Alignment explanation
Indices: 52528823--52528863 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
52528813 TTGCCATCTC
52528823 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
52528864 CGTATTAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:52529643 original size:7 final size:8
Alignment explanation
Indices: 52529631--52529664 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
52529621 ATAATAAAAT
52529631 ATAT-AAA
1 ATATCAAA
52529638 ATAT-AAA
1 ATATCAAA
52529645 ATATCAAA
1 ATATCAAA
52529653 ATATCAAA
1 ATATCAAA
52529661 ATAT
1 ATAT
52529665 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Done.