Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 191 of 221
Found at i:56209890 original size:22 final size:22
Alignment explanation
Indices: 56209860--56209911 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
56209850 TATATTTTTT
* *
56209860 AAATTTTATATTAAAATATTTA
1 AAATATTATATTAAAAGATTTA
*
56209882 AAATATTATATTTAAAGATTTA
1 AAATATTATATTAAAAGATTTA
*
56209904 ATATATTA
1 AAATATTA
56209912 AAATATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATATTATATTAAAAGATTTA
Found at i:56209945 original size:39 final size:39
Alignment explanation
Indices: 56209831--56209945 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 39
56209821 TAATTATTTT
* **
56209831 TATATTAAAATAATTAAAATAT-AT-TTTTTAAATTT--
1 TATATTAAAATATTTAAAATATCATATTTAAAAATTTAA
* *
56209866 TATATTAAAATATTTAAAATATTATATTTAAAGATTTAA
1 TATATTAAAATATTTAAAATATCATATTTAAAAATTTAA
56209905 TATATTAAAATA-TTAATAAT-TCA-ATTCTAAAAATTATAA
1 TATATTAAAATATTTAA-AATATCATATT-TAAAAATT-TAA
56209944 TA
1 TA
56209946 GATAATTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
35 21 0.31
36 2 0.03
37 11 0.16
38 13 0.19
39 20 0.30
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (39 bp):
TATATTAAAATATTTAAAATATCATATTTAAAAATTTAA
Found at i:56217357 original size:13 final size:13
Alignment explanation
Indices: 56217339--56217377 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
56217329 TGCACATTTT
56217339 TATATATATTATA
1 TATATATATTATA
56217352 TATATATATT-TA
1 TATATATATTATA
56217364 TATA-ATATTCATA
1 TATATATATT-ATA
56217377 T
1 T
56217378 GTATTTGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 6 0.25
13 13 0.54
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATTATA
Found at i:56220881 original size:19 final size:19
Alignment explanation
Indices: 56220836--56220913 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
56220826 ATTCCATATA
*
56220836 TAATAAATTTTAAATACTTT
1 TAAT-AATTTTTAATACTTT
* *
56220856 GACTAATTTTTAATACTTT
1 TAATAATTTTTAATACTTT
*
56220875 TAATAATTTCTT-ATAACTAT
1 TAATAATTT-TTAAT-ACTTT
*
56220895 TAATAATTTTTCATACTTT
1 TAATAATTTTTAATACTTT
56220914 CTCTTAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 29 0.60
20 19 0.40
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (19 bp):
TAATAATTTTTAATACTTT
Found at i:56221029 original size:15 final size:16
Alignment explanation
Indices: 56221003--56221043 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
56220993 TATTTTAAAA
*
56221003 AATATATTTAATTTTT
1 AATATATTTAATATTT
56221019 AATAT-TTTAATATTT
1 AATATATTTAATATTT
*
56221034 AAAATATTTA
1 AATATATTTA
56221044 TTAAATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATATTTAATATTT
Found at i:56221204 original size:3 final size:3
Alignment explanation
Indices: 56221196--56221222 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56221186 TAAAAACTTG
56221196 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
56221223 TGTTGAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56221376 original size:13 final size:13
Alignment explanation
Indices: 56221358--56221382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56221348 AATTGATATC
56221358 AACATAATTTTTA
1 AACATAATTTTTA
56221371 AACATAATTTTT
1 AACATAATTTTT
56221383 TTTTGTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
AACATAATTTTTA
Found at i:56225462 original size:35 final size:35
Alignment explanation
Indices: 56225423--56225499 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
56225413 AACAGTGCTT
*
56225423 GCAGAACTTGGAAGTAATCCTGTTATTCATAACCC
1 GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
*
56225458 GCAGAACTTGTAAGTAATCCTGTTATCCATAACCC
1 GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
56225493 GCAGAAC
1 GCAGAAC
56225500 CTATAATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (35 bp):
GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
Found at i:56226376 original size:24 final size:24
Alignment explanation
Indices: 56226323--56226378 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
56226313 TTCTTCTTTT
*
56226323 TCTTCTTT-TTCTCTTTTGTCTCG
1 TCTTCTTTCTTCTCTTTTGTCTCA
*
56226346 TCATCTTTCTTCTCTTTGTGT-TCA
1 TCTTCTTTCTTCTCTTT-TGTCTCA
56226370 TCTTCTTTC
1 TCTTCTTTC
56226379 GGCTCTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.04, C:0.27, G:0.07, T:0.62
Consensus pattern (24 bp):
TCTTCTTTCTTCTCTTTTGTCTCA
Found at i:56226482 original size:21 final size:21
Alignment explanation
Indices: 56226457--56226497 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56226447 ATCAGAAGAC
*
56226457 GACGAAGAAGATGAAGATGAT
1 GACGAAGAAGAAGAAGATGAT
*
56226478 GACGAGGAAGAAGAAGATGA
1 GACGAAGAAGAAGAAGATGA
56226498 CGATGACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.37, T:0.10
Consensus pattern (21 bp):
GACGAAGAAGAAGAAGATGAT
Found at i:56226487 original size:24 final size:24
Alignment explanation
Indices: 56226454--56226521 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
56226444 CGAATCAGAA
* *
56226454 GACGACGAAGAAGATGAAGATGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
56226478 GACGAGGAAGAAGAAGATGACGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
56226502 GACGACGATGAGGAAGAAGA
1 GACGACGAAGAAGAAGAAGA
56226522 ACCTTTATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.37, T:0.09
Consensus pattern (24 bp):
GACGACGAAGAAGAAGAAGACGAT
Found at i:56226502 original size:27 final size:27
Alignment explanation
Indices: 56226460--56226521 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
56226450 AGAAGACGAC
*
56226460 GAAGAAGATGAAGATGATGACGAGGAA
1 GAAGAAGATGAAGATGACGACGAGGAA
* * *
56226487 GAAGAAGATGACGATGACGACGATGAG
1 GAAGAAGATGAAGATGACGACGAGGAA
56226514 GAAGAAGA
1 GAAGAAGA
56226522 ACCTTTATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.06, G:0.37, T:0.10
Consensus pattern (27 bp):
GAAGAAGATGAAGATGACGACGAGGAA
Found at i:56226645 original size:27 final size:27
Alignment explanation
Indices: 56226609--56226682 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
56226599 TTTTCTTCTT
*
56226609 TTTCTTTTTCTCTTTCTCTTTCCCATC
1 TTTCTCTTTCTCTTTCTCTTTCCCATC
* * ***
56226636 TTTGTCTTTCT-TCTTCTTTTTCTTTTC
1 TTTCTCTTTCTCT-TTCTCTTTCCCATC
56226663 TTTCTCTTTCTCTTTCTCTT
1 TTTCTCTTTCTCTTTCTCTT
56226683 CGTCTCCCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.69
Consensus pattern (27 bp):
TTTCTCTTTCTCTTTCTCTTTCCCATC
Found at i:56226722 original size:48 final size:48
Alignment explanation
Indices: 56226664--56226772 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
56226654 TTTCTTTTCT
* * *
56226664 TTCTCTTTCTCTTTCTCTTCGTCTCCCTTAACCTCTTTATCCTTATCC
1 TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
* * * * *
56226712 TTTTCCTTCTCCTTCTCTTCTTTTTCCTTAACCTCTGTATCCTTCTCC
1 TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
56226760 TTCTCCTTCTCCT
1 TTCTCCTTCTCCT
56226773 CTTCTTTTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.06, C:0.39, G:0.02, T:0.53
Consensus pattern (48 bp):
TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
Found at i:56236921 original size:108 final size:112
Alignment explanation
Indices: 56236670--56236977 Score: 459
Period size: 108 Copynumber: 2.8 Consensus size: 112
56236660 AAAATTCAAG
** * *
56236670 AGGATATTTGGCCATTTGGTTAAACGAG--AAATCGATACCCAGCACCTTAGGGCATG-TTCCTC
1 AGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*** *
56236732 GAATTTCCAAACGCAAAACATTGCCTTATTTTGTATTTTTTTTGGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGTATAAATTTTGAAA
* *
56236779 AGGATATTAAGCCAGTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
56236844 GAATTTCCAAACGCAAAACATTGCCTTA-TTT-TA-AAATTTT-AAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGTATAAATTTTGAAA
*
56236887 AGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
56236952 GAATTTTCAAACGCAAAACATTGCCT
66 GAATTTCCAAACGCAAAACATTGCCT
56236978 CAATTAGAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
108 89 0.49
109 28 0.15
110 2 0.01
111 30 0.16
112 33 0.18
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (112 bp):
AGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGTATAAATTTTGAAA
Found at i:56238783 original size:41 final size:41
Alignment explanation
Indices: 56238722--56238801 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
56238712 TTTGGGTTAA
56238722 TTTTAGTTTGGGTTTAGGTTGTAATTGGGCCTGGGCAAAGT
1 TTTTAGTTTGGGTTTAGGTTGTAATTGGGCCTGGGCAAAGT
*
56238763 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAA
1 TTTTAGTTTGGGTTTAGGTTGTAATTGGGCCTGGGCAAA
56238802 ATGGCCTACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.16, C:0.07, G:0.35, T:0.41
Consensus pattern (41 bp):
TTTTAGTTTGGGTTTAGGTTGTAATTGGGCCTGGGCAAAGT
Found at i:56243239 original size:22 final size:22
Alignment explanation
Indices: 56243180--56243240 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
56243170 AAATGGTAGC
56243180 AAAATAGTAAAAAAAATAACAAG
1 AAAATAGT-AAAAAAATAACAAG
* ** *
56243203 AAAATAGCAGCAAAATAGCAAG
1 AAAATAGTAAAAAAATAACAAG
*
56243225 AAAACAGTAAAAAAAT
1 AAAATAGTAAAAAAAT
56243241 TATCTTTTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.69, C:0.08, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAATAGTAAAAAAATAACAAG
Found at i:56244183 original size:10 final size:10
Alignment explanation
Indices: 56244163--56244221 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 10
56244153 ATAATTTCTT
56244163 AAATTATAAA
1 AAATTATAAA
56244173 AAA-TATAAA
1 AAATTATAAA
* *
56244182 AAA-AATTAA
1 AAATTATAAA
*
56244191 AAATTGTAAA
1 AAATTATAAA
*
56244201 ACATTATAAA
1 AAATTATAAA
56244211 AAATTATAAA
1 AAATTATAAA
56244221 A
1 A
56244222 GAAAAACAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 16 0.40
10 24 0.60
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAATTATAAA
Found at i:56244200 original size:28 final size:28
Alignment explanation
Indices: 56244163--56244221 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
56244153 ATAATTTCTT
56244163 AAATTATAAAAAATATAAAAAAAATTA-A
1 AAATTATAAAAAAT-TAAAAAAAATTATA
* * *
56244191 AAATTGTAAAACATTATAAAAAATTATA
1 AAATTATAAAAAATTAAAAAAAATTATA
56244219 AAA
1 AAA
56244222 GAAAAACAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
AAATTATAAAAAATTAAAAAAAATTATA
Found at i:56252751 original size:19 final size:19
Alignment explanation
Indices: 56252729--56252785 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
56252719 TAAAAAGAAT
56252729 TTAAAAAAATTAAAAATTA
1 TTAAAAAAATTAAAAATTA
* * *
56252748 TTAAAAATTACTAAAAGTTA
1 TTAAAAA-AATTAAAAATTA
56252768 -TAAAAAAATATAAAAATT
1 TTAAAAAAAT-TAAAAATT
56252786 TGAAAATGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 1 0.03
19 20 0.67
20 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TTAAAAAAATTAAAAATTA
Found at i:56252754 original size:20 final size:18
Alignment explanation
Indices: 56252726--56252785 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 18
56252716 TTATAAAAAG
56252726 AATT-TAAAAAAATTAAA
1 AATTATAAAAAAATTAAA
*
56252743 AATTAT-TAAAAATTACTAA
1 AATTATAAAAAAATTA--AA
56252762 AAGTTATAAAAAAATATAAA
1 AA-TTATAAAAAAAT-TAAA
56252782 AATT
1 AATT
56252786 TGAAAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 12 0.34
18 1 0.03
19 6 0.17
20 8 0.23
21 6 0.17
22 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AATTATAAAAAAATTAAA
Found at i:56252755 original size:10 final size:10
Alignment explanation
Indices: 56252737--56252785 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
56252727 ATTTAAAAAA
56252737 ATTAAAAATT
1 ATTAAAAATT
56252747 ATTAAAAATT
1 ATTAAAAATT
* *
56252757 ACTAAAAGTT
1 ATTAAAAATT
* *
56252767 ATAAAAAAAT
1 ATTAAAAATT
56252777 A-TAAAAATT
1 ATTAAAAATT
56252786 TGAAAATGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
9 6 0.19
10 25 0.81
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:56252791 original size:19 final size:19
Alignment explanation
Indices: 56252726--56252785 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
56252716 TTATAAAAAG
56252726 AATT-TAAAAAAAT-TAAA
1 AATTATAAAAAAATATAAA
* *
56252743 AATTATTAAAAATTACTAAA
1 AATTATAAAAAAATA-TAAA
*
56252763 AGTTATAAAAAAATATAAA
1 AATTATAAAAAAATATAAA
56252782 AATT
1 AATT
56252786 TGAAAATGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 4 0.12
18 7 0.21
19 7 0.21
20 16 0.47
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTATAAAAAAATATAAA
Found at i:56256335 original size:13 final size:13
Alignment explanation
Indices: 56256317--56256342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56256307 CGTATCCGTC
56256317 GCCGAATTAGGGT
1 GCCGAATTAGGGT
56256330 GCCGAATTAGGGT
1 GCCGAATTAGGGT
56256343 TACGAGGCAT
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:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
GCCGAATTAGGGT
Found at i:56257105 original size:41 final size:41
Alignment explanation
Indices: 56257060--56257209 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
56257050 ATTAACGTAT
* * *
56257060 TCACCCGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
56257101 TCACCGGCACATAGCCTGCTAGGTTTATAACCTGGTTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGATTCAGA
*
56257142 TCACCGGCACATAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
56257183 TCACCGGCACTTAGCCTGGTAGACTTA
1 TCACCGGCACATAGCCTGCTAGGCTTA
56257210 AAGTCCGAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACATAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:56264351 original size:15 final size:15
Alignment explanation
Indices: 56264328--56264392 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
56264318 GAAATGTAGA
56264328 AACAATAATAATAAT
1 AACAATAATAATAAT
*
56264343 AACATTAATAATAAT
1 AACAATAATAATAAT
* * *
56264358 AGCAATAAAAACAAT
1 AACAATAATAATAAT
56264373 GAACTAAATAATAATAAT
1 -AAC--AATAATAATAAT
56264391 AA
1 AA
56264393 AAAAAGGGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 25 0.64
16 2 0.05
17 2 0.05
18 10 0.26
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.25
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:56269138 original size:41 final size:41
Alignment explanation
Indices: 56269093--56269242 Score: 228
Period size: 41 Copynumber: 3.7 Consensus size: 41
56269083 ATTAACGTAT
* * * *
56269093 TCACCCGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGGTTCAGA
*
56269134 TCACCGGCACATAGCCTGCTAGGTTTATAACCTGGTTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGGTTCAGA
*
56269175 TCACCGGCACATAGCCTGCTAGGTTTATAACCTGGTTCAGA
1 TCACCGGCACATAGCCTGCTAGGCTTATAACCTGGTTCAGA
* *
56269216 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACATAGCCTGCTAGGCTTA
56269243 AAATCCGAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACATAGCCTGCTAGGCTTATAACCTGGTTCAGA
Found at i:56269884 original size:20 final size:21
Alignment explanation
Indices: 56269856--56269903 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
56269846 TCCAAGAGTT
*
56269856 TATACATGTATAG-ACCT-ATA
1 TATATATGT-TAGAACCTAATA
*
56269876 TATATATGTTCGAACCTAATA
1 TATATATGTTAGAACCTAATA
56269897 TATATAT
1 TATATAT
56269904 ATTATACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (21 bp):
TATATATGTTAGAACCTAATA
Found at i:56279774 original size:24 final size:22
Alignment explanation
Indices: 56279735--56279784 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
56279725 TAACCATACG
56279735 TTTAGTTATTTGTTTTT-TTTAA
1 TTTAGTTATTTGTTTTTCTTT-A
*
56279757 TTTAGTTCAATTTTTTTTTCTTTA
1 TTTAGTT--ATTTGTTTTTCTTTA
56279781 TTTA
1 TTTA
56279785 ATTTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
24 14 0.58
25 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (22 bp):
TTTAGTTATTTGTTTTTCTTTA
Found at i:56279780 original size:20 final size:19
Alignment explanation
Indices: 56279747--56279790 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
56279737 TAGTTATTTG
56279747 TTTTTTTTAATTTAGTTCAA
1 TTTTTTTTAATTTA-TTCAA
** *
56279767 TTTTTTTTTCTTTATTTAA
1 TTTTTTTTAATTTATTCAA
56279786 TTTTT
1 TTTTT
56279791 CAAATAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTTTAATTTATTCAA
Found at i:56296587 original size:50 final size:50
Alignment explanation
Indices: 56296526--56296891 Score: 415
Period size: 50 Copynumber: 7.3 Consensus size: 50
56296516 AATTAAGAAG
*
56296526 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAA
1 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAA
* * * *
56296576 ATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAA
* ** ** *
56296625 GATTGAAGCTAAAACAGCATATCTTACTTTCC-AGGCGGTGCAGTGGAACAG
1 -ATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAACAA
* * * *
56296676 ATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAA
*
56296725 GATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAG
1 -ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAA
* * *
56296776 ATTGAAGCTACAACAGCGGATCTTAC-TTCTCT-GACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTTC-CTAG-CATTGCAGTGGAACAA
*
56296825 GATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAA
1 -ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAA
*
56296876 ATTAAAGCTACAACAG
1 ATTGAAGCTACAACAG
56296892 TGAATCTCAC
Statistics
Matches: 261, Mismatches: 39, Indels: 32
0.79 0.12 0.10
Matches are distributed among these distances:
49 16 0.06
50 229 0.88
51 16 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAA
Found at i:56296685 original size:100 final size:100
Alignment explanation
Indices: 56296512--56297210 Score: 806
Period size: 100 Copynumber: 7.0 Consensus size: 100
56296502 AAACCATAGT
*
56296512 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAAA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
56296577 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* ** *
56296612 TTGCAATTAAGAAGATTGAAGCTAAAACAGCATATCTTACTTTCC-AGGCGGTGCAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAG
56296676 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
56296712 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
56296777 TTGAAGCTACAACAGCGGATCTTACTTCTCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
56296812 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAAA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* * * * *
56296877 TTAAAGCTACAACAGTGAATCTCACTTCCCCGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * * *
56296912 TTGCAATTTAA-AAGATTGAGGCCACGACGGCGGATCTTAC-TTCCAAGCGAT-CTAGAGGAACA
1 TTGCAA-TTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGC-AGTGGAACA
**
56296974 GATTGAAGCTACAATGGCGGATCTTAC-TCCCTCGACA
64 GATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACA
* * * * * * *** * * *
56297011 TTGCAATTTAA-AAGATTGAGGCCACGACGGCAGATCTTAC-TTCCAAGTAATACAGCGTAACAG
1 TTGCAA-TTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
** * *
56297074 ATTGAAGCTACAATGGCGAATCTCACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * ** * * *
56297110 TTGCAATTAA-AAGATTGAGGCCACAACGGCAAATCTTA--TTCCTAAGTAGGTACAGTGGAACA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AG-CGTTGCAGTGGAACA
** * **
56297172 GATTGAAGCTACAATGGCGAATCTCGCTTCCCTGACA
64 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
56297209 TT
1 TT
56297211 TTAAACAGAT
Statistics
Matches: 540, Mismatches: 50, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
97 4 0.01
98 37 0.07
99 180 0.33
100 314 0.58
101 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:56296916 original size:50 final size:50
Alignment explanation
Indices: 56296526--56297015 Score: 381
Period size: 50 Copynumber: 9.8 Consensus size: 50
56296516 AATTAAGAAG
* * *
56296526 ATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCGTTGCAGTGGAACAA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAGTGGAACAA
* * * *
56296576 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
* ** * * * ** *
56296625 GATTGAAGCTAAAACAGCATATCTTACTTTCCAGGCGGTGCAGTGGAACAG
1 -ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
* * * *
56296676 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
* * *
56296725 GATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCATTGCAGTGGAACAG
1 -ATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAGTGGAACAA
* * * * *
56296776 ATTGAAGCTACAACAGCGGATCTTACTTCTCTGACATTGCAAT-TAAGAA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
* * *
56296825 GATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCGTTGCAGTGGAACAA
1 -ATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAGTGGAACAA
* * * * * **
56296876 ATTAAAGCTACAACAGTGAATCTCACTTCCCCGACATTGCAATTTAA-AA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
* * * * ** * *
56296925 GATTGAGGCCACGACGGCGGATCTTACTTCCAAG-CGA-T-CTAGAGGAACAG
1 -ATTGAAGCTACAACAGCGGATCTTACTTCCCCGAC-ATTGC-AGTGGAACAA
**
56296975 ATTGAAGCTACAATGGCGGATCTTAC-TCCCTCGACATTGCA
1 ATTGAAGCTACAACAGCGGATCTTACTTCCC-CGACATTGCA
56297016 ATTTAAAAGA
Statistics
Matches: 340, Mismatches: 81, Indels: 38
0.74 0.18 0.08
Matches are distributed among these distances:
48 4 0.01
49 46 0.14
50 271 0.80
51 19 0.06
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (50 bp):
ATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAGTGGAACAA
Found at i:56297048 original size:50 final size:49
Alignment explanation
Indices: 56296903--56297051 Score: 137
Period size: 49 Copynumber: 3.0 Consensus size: 49
56296893 GAATCTCACT
56296903 TCCCCGACATTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTAC
1 TCCCCGACATTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTAC
* * * * * * *
56296952 T-TCC-A-A--GCGATCTAGAGGAACAGATTGAAGCTACAATGGCGGATCTTAC
1 TCCCCGACATTGCAAT-T-TA--AA-AGATTGAGGCCACGACGGCGGATCTTAC
*
56297001 TCCCTCGACATTGCAATTTAAAAGATTGAGGCCACGACGGCAGATCTTAC
1 TCCC-CGACATTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTAC
56297051 T
1 T
56297052 TCCAAGTAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
44 4 0.05
45 1 0.01
46 2 0.03
47 1 0.01
48 4 0.05
49 26 0.35
50 25 0.34
51 3 0.04
52 1 0.01
53 2 0.03
54 1 0.01
55 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (49 bp):
TCCCCGACATTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTAC
Found at i:56298898 original size:5 final size:5
Alignment explanation
Indices: 56298888--56298916 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
56298878 AGCTTTGTGT
56298888 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
56298917 TTATCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:56304619 original size:27 final size:26
Alignment explanation
Indices: 56304584--56304658 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
56304574 ATATTTTCTC
56304584 AAAATTTTACCAGGGGTAAAATCGTCA
1 AAAATTTTACCAGGGGTAAAATCGT-A
* ** * *
56304611 AAAATTTTACGATTGGTAAAATTGTT
1 AAAATTTTACCAGGGGTAAAATCGTA
* *
56304637 AAAATTTTAGCAGGGATAAAAT
1 AAAATTTTACCAGGGGTAAAAT
56304659 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTAAAATCGTA
Found at i:56307725 original size:53 final size:53
Alignment explanation
Indices: 56307611--56307730 Score: 122
Period size: 53 Copynumber: 2.3 Consensus size: 53
56307601 TAATTCTTTT
* * * * *
56307611 ATTTATTTACTTGTTTATTTATTCCTTATTCCTTTTATTTTATTCATTTATTT
1 ATTTATTTACTTATTTATTCATTCATTATTCATTTTATTTTATTCATTTATTC
* *
56307664 GTTCATTTACTTATTTATTCATAT-ATTATTCATTTT-TTTTAATTC-TTGTATTC
1 ATTTATTTACTTATTTATTCAT-TCATTATTCATTTTATTTT-ATTCATT-TATTC
56307717 ATTTATTTA-TTATT
1 ATTTATTTACTTATT
56307731 CCTTCATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
52 11 0.20
53 43 0.78
54 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.03, T:0.66
Consensus pattern (53 bp):
ATTTATTTACTTATTTATTCATTCATTATTCATTTTATTTTATTCATTTATTC
Found at i:56307815 original size:14 final size:15
Alignment explanation
Indices: 56307798--56307827 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56307788 TATACCTTCA
56307798 TTATTATTA-CTATT
1 TTATTATTATCTATT
56307812 TTATTATTATCTATT
1 TTATTATTATCTATT
56307827 T
1 T
56307828 ATCTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:56307818 original size:28 final size:27
Alignment explanation
Indices: 56307751--56307818 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
56307741 TTATATTTTA
*
56307751 ATTT-TTTTATT-TACTTTCATCGATT
1 ATTTATTTTATTATACCTTCATCGATT
*
56307776 ATTTATTTTATTTATACCTTCAT-TATT
1 ATTTATTTTA-TTATACCTTCATCGATT
56307803 ATTACTATTTTATTAT
1 ATT--TATTTTATTAT
56307819 TATCTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 8 0.22
28 12 0.33
29 7 0.19
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.63
Consensus pattern (27 bp):
ATTTATTTTATTATACCTTCATCGATT
Found at i:56323933 original size:50 final size:50
Alignment explanation
Indices: 56323870--56324397 Score: 522
Period size: 50 Copynumber: 10.6 Consensus size: 50
56323860 GCAATTAAGA
*
56323870 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * *
56323920 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAA-C
* *
56323970 AGATTGAAGCTACAATAGCAGATCTTACTTT-CTAG-GTGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGT--TGCAGTGGAAC
* * * * * *
56324020 AGATTGAAGCTACAACAGCAGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAA-C
*
56324070 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGCTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * * * *
56324120 AAATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAA-C
* * * *
56324170 AGATTGAAGCTACAAAAGCAGATCTTACTTTCC-AGGCGGTGAAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* * * * *
56324220 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAA-C
*
56324270 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGCTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * ** *
56324320 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAAC
*
56324370 ATATTGAAGCTACAACAGCAGG-TCTTAC
1 AGATTGAAGCTACAACAGC-GGATCTTAC
56324398 CCCCTGACGT
Statistics
Matches: 390, Mismatches: 66, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
48 1 0.00
49 14 0.04
50 360 0.92
51 14 0.04
52 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
Found at i:56324031 original size:100 final size:101
Alignment explanation
Indices: 56323858--56324397 Score: 883
Period size: 100 Copynumber: 5.4 Consensus size: 101
56323848 AAACCATAGT
** *
56323858 TTGCAATTAAGAAGATTGAAGCTACAACAGTGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
*
56323922 ATTGAAGCTACAACAGCGGATCTTACTTTCCTGACA
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
56323958 TTGCAATTAAGAAGATTGAAGCTACAATAGCAGATCTTACTTT-CTAGGTGGTGCAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
*
56324022 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
56324058 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGCTGCAGTGGAACAA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
*
56324122 ATTGAAGCTACAACAGCGGATCTTACTTCCCTAACA
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
56324158 TTGCAATTAAGAAGATTGAAGCTACAAAAGCAGATCTTACTTTCC-AGGCGGTGAAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
56324222 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
56324258 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGCTGCAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
56324322 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
56324358 TTGCAATTAAAAATATTGAAGCTACAACAGCAGGTCTTAC
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTAC
56324398 CCCCTGACGT
Statistics
Matches: 408, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
99 4 0.01
100 400 0.98
101 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (101 bp):
TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGGCGCTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:56330840 original size:15 final size:14
Alignment explanation
Indices: 56330807--56330840 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56330797 AATTATGTCT
56330807 ATTAAGGTTTAGAG
1 ATTAAGGTTTAGAG
*
56330821 TTTAAGGTTTAAGAG
1 ATTAAGGTTT-AGAG
56330836 ATTAA
1 ATTAA
56330841 TCACTCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (14 bp):
ATTAAGGTTTAGAG
Found at i:56333430 original size:42 final size:42
Alignment explanation
Indices: 56333379--56333502 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
56333369 TTTACAAACA
* *
56333379 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTCCTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTT-CTT
* * * *
56333422 -AAGCGCCGCTAAAGAACATATTCTTTAGTGGCATTTTTTTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTCTT
* *
56333463 ACAAACGCCGCGAAAGAACATGTTCTTTAGTGGCGCTTTT
1 A-AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTT
56333503 ATACAAAAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.03
42 33 0.49
43 33 0.49
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (42 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTCTT
Found at i:56333591 original size:14 final size:14
Alignment explanation
Indices: 56333568--56333601 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
56333558 GCCCTCCTGT
*
56333568 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
56333582 AGCAACAATTCAAA
1 AGCAACAATTCAAA
56333596 AGCAAC
1 AGCAAC
56333602 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:56333850 original size:21 final size:21
Alignment explanation
Indices: 56333824--56333894 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
56333814 TTTTGTTCTG
*
56333824 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
56333845 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
56333866 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
56333887 CTCTGCTT
1 CTCTGCTT
56333895 TAAGTTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.03, C:0.46, G:0.18, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:56339429 original size:51 final size:50
Alignment explanation
Indices: 56339348--56339782 Score: 623
Period size: 51 Copynumber: 8.6 Consensus size: 50
56339338 CAATGGTAAG
56339348 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
* *
56339400 TTTTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATG--
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
* * *
56339449 -TAT-T--G-TGTAAGTTAAATGTATTGTGTAAGTTGTAATTTATTATGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTA
* *
56339495 TTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTA
56339546 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
*
56339596 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
*
56339647 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
* *
56339698 TTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
*
56339749 TTATGCAAGTTATGTAAGTTAAATGTATTATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTATTATGTA
56339783 GGTTATGTAG
Statistics
Matches: 356, Mismatches: 15, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
43 22 0.06
44 12 0.03
45 1 0.00
47 4 0.01
48 3 0.01
50 34 0.10
51 250 0.70
52 21 0.06
53 9 0.03
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (50 bp):
TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
Found at i:56339451 original size:76 final size:76
Alignment explanation
Indices: 56339348--56339782 Score: 645
Period size: 76 Copynumber: 5.8 Consensus size: 76
56339338 CAATGGTAAG
*
56339348 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTTTGTAAGTTGT
1 TTATGTAAG-T-TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGT
56339413 AAGTTATTATGTA
64 AAGTTATTATGTA
*
56339426 TTATGTAAGTTGTAAGTTAAATG---TAT-T--G-TGTAAGTTAAATGTATTGTGTAAGTTGTAA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAA
*
56339484 TTTATTATGTA
66 GTTATTATGTA
* *
56339495 TTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTA
*
56339560 AGTTA-AATGTA
65 AGTTATTATGTA
*
56339571 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTA
*
56339636 AGTTA-AATGTA
65 AGTTATTATGTA
* *
56339647 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
56339712 AGTTATTATGTA
65 AGTTATTATGTA
*
56339724 TTATGTAAGTTGTAAGTTAAATGTATTATGCAAGTTATGTAAGTTAAATGTATTATGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAG-T-TGTAAGTTAAATGTATTATGTA
56339783 GGTTATGTAG
Statistics
Matches: 330, Mismatches: 15, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
69 62 0.19
70 1 0.00
72 3 0.01
73 4 0.01
75 1 0.00
76 157 0.48
77 72 0.22
78 30 0.09
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (76 bp):
TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAA
GTTATTATGTA
Found at i:56339596 original size:127 final size:127
Alignment explanation
Indices: 56339348--56339782 Score: 681
Period size: 127 Copynumber: 3.5 Consensus size: 127
56339338 CAATGGTAAG
* *
56339348 TTATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTATTTTGTAAGTTG
1 TTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTG
56339412 TAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATG---TAT-T--G-TGTAAGTTAAATGTA
64 TAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
* * *
56339469 TTGTGTAAGTTGTAATTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
56339534 AGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
66 AGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
56339596 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
* *
56339661 AGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTA
66 AGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTA
* *
56339724 TTATGTAAGTTGTAAGTTA-AATGTATTATGCAAGTTATGTAAGTTAAATGTATTATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAG-T-TGTAAGTTAAATGTATTATGTA
56339783 GGTTATGTAG
Statistics
Matches: 292, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
119 8 0.03
120 79 0.27
121 8 0.03
123 3 0.01
124 1 0.00
126 1 0.00
127 145 0.50
128 25 0.09
129 22 0.08
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (127 bp):
TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
AGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
Found at i:56339801 original size:9 final size:9
Alignment explanation
Indices: 56339776--56339806 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56339766 GTTAAATGTA
*
56339776 TTATGTAGG
1 TTATGTAGC
56339785 TTATGTAGC
1 TTATGTAGC
56339794 TTATGTAGC
1 TTATGTAGC
56339803 TTAT
1 TTAT
56339807 TGTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (9 bp):
TTATGTAGC
Found at i:56340254 original size:13 final size:13
Alignment explanation
Indices: 56340236--56340277 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
56340226 TAAATTTTAG
*
56340236 TAAGTAATGTATT
1 TAAGTAATATATT
*
56340249 TAAGTAACATATT
1 TAAGTAATATATT
*
56340262 TAAGTAATAAATT
1 TAAGTAATATATT
56340275 TAA
1 TAA
56340278 ACAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:56340304 original size:17 final size:17
Alignment explanation
Indices: 56340282--56340439 Score: 140
Period size: 17 Copynumber: 8.6 Consensus size: 17
56340272 ATTTAAACAA
56340282 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
56340299 ATTTTAGTAAATAATGT
1 ATTTTAGTAAGTAATGT
*
56340316 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
56340336 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATGT
56340356 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
56340373 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
56340390 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
56340413 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
56340430 ATTTTAGTAA
1 ATTTTAGTAA
56340440 TAAATTTAAC
Statistics
Matches: 119, Mismatches: 6, Indels: 32
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.02
17 85 0.71
19 1 0.01
20 2 0.02
21 1 0.01
23 26 0.22
24 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:56340328 original size:57 final size:57
Alignment explanation
Indices: 56340227--56340448 Score: 353
Period size: 57 Copynumber: 4.0 Consensus size: 57
56340217 ATATATACTT
* * *
56340227 AAATTTTAGTAAGTAATGTATTTAAGT-AA-CA--TATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAAAC
*
56340280 AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAATC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAAAC
* *
56340337 AAATTTTAGTAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAAAC
*
56340394 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
1 AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAA
56340449 CATTCAATCG
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
53 26 0.17
54 2 0.01
55 1 0.01
57 128 0.82
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (57 bp):
AAATTTTAGTAAGTAATGTATTTTAGTAAATAATGTATTTTAGTAATAAATTTAAAC
Found at i:56342723 original size:84 final size:84
Alignment explanation
Indices: 56342581--56343017 Score: 730
Period size: 84 Copynumber: 5.1 Consensus size: 84
56342571 CCACATTTCC
*
56342581 GGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGCGG
1 GGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGG
56342646 TCTGGAATTGCATTATTTGT
65 TCTGGAATTGCATTATTTGT
*
56342666 GGCGTTTTCCCAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
56342731 CTGGAATTGCATTATTTGT
66 CTGGAATTGCATTATTTGT
56342750 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGG
56342815 TCTGGAATAATTGCATTATTTGT
65 TCTGG---AATTGCATTATTTGT
56342838 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
56342903 CTGGAATTGCATTATTTGT
66 CTGGAATTGCATTATTTGT
* * * *
56342922 GGTGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACTGTTTTGCATGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGG
*
56342987 TCTGGAATAATTGCATTATTTCT
65 TCTGG---AATTGCATTATTTGT
56343010 GGCGTTTT
1 GGCGTTTT
56343018 AAGCACAAAT
Statistics
Matches: 335, Mismatches: 9, Indels: 13
0.94 0.03 0.04
Matches are distributed among these distances:
84 201 0.60
85 29 0.09
87 10 0.03
88 95 0.28
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (84 bp):
GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
CTGGAATTGCATTATTTGT
Found at i:56342871 original size:172 final size:172
Alignment explanation
Indices: 56342581--56343017 Score: 774
Period size: 172 Copynumber: 2.6 Consensus size: 172
56342571 CCACATTTCC
*
56342581 GGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGCG
1 GGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTG
56342645 GTCTGG---AATTGCATTATTTGTGGCGTTTTCCCAAAAACGCCACTAAATATTACAGCTGTGAA
65 GTCTGGAATAATTGCATTATTTGTGGCGTTTTCCCAAAAACGCCACTAAATATTACAGCTGTGAA
56342707 CAGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
130 CAGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
56342750 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
*
56342815 TCTGGAATAATTGCATTATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAAC
66 TCTGGAATAATTGCATTATTTGTGGCGTTTTCCCAAAAACGCCACTAAATATTACAGCTGTGAAC
56342880 AGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
131 AGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
* * * *
56342922 GGTGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACTGTTTTGCATGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
*
56342987 TCTGGAATAATTGCATTATTTCTGGCGTTTT
66 TCTGGAATAATTGCATTATTTGTGGCGTTTT
56343018 AAGCACAAAT
Statistics
Matches: 257, Mismatches: 7, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
168 48 0.19
169 20 0.08
172 189 0.74
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (172 bp):
GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
TCTGGAATAATTGCATTATTTGTGGCGTTTTCCCAAAAACGCCACTAAATATTACAGCTGTGAAC
AGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
Found at i:56345722 original size:114 final size:110
Alignment explanation
Indices: 56345538--56345791 Score: 384
Period size: 114 Copynumber: 2.3 Consensus size: 110
56345528 AACACCTAGA
*
56345538 TTAGCGGCGCTTTACAAAAAA-GCCACTAATTCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCAAAAGACACAAAACGGCACCGTCTGGG
56345602 TGTATTATTTGCGGCGTTTTTATAAACGCTGCTAATGTTAACTCT
66 TGTATTATTTGCGGCGTTTTTATAAACGCTGCTAATGTTAACTCT
* * *
56345647 TTAGCTGCGCTTTACAAAAAACGCCACTAATTCCCCCCCCCCAAAAGCCACAAAACGGCACTGTC
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATT----CCCCCCAAAAGACACAAAACGGCACCGTC
*
56345712 TGGGTGTATTATTTGCGGCGTTTTTATAAACGCTGCTAATGTTCACTCT
62 TGGGTGTATTATTTGCGGCGTTTTTATAAACGCTGCTAATGTTAACTCT
* ***
56345761 TTAGCGGCGCTTTTCCTTAAACGCCACTAAT
1 TTAGCGGCGCTTTACAAAAAACGCCACTAAT
56345792 GCTCACTCTT
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
109 20 0.15
110 10 0.08
114 100 0.77
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (110 bp):
TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCAAAAGACACAAAACGGCACCGTCTGGG
TGTATTATTTGCGGCGTTTTTATAAACGCTGCTAATGTTAACTCT
Found at i:56345782 original size:40 final size:40
Alignment explanation
Indices: 56345738--56345871 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
56345728 GGCGTTTTTA
* *
56345738 TAAACGCTGCTAATGTTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
*
56345778 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
* **
56345818 TAAACGCCGCTAATGCTCACTCTTTAGCAGCG-TTTTTGT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
56345857 TCCAAACGCCGCTAA
1 T--AAACGCCGCTAA
56345872 AAGTGCTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
39 6 0.07
40 67 0.79
41 12 0.14
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
Found at i:56367257 original size:22 final size:22
Alignment explanation
Indices: 56367232--56367273 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56367222 TTCTTTAATT
56367232 TCCTCTC-AATTTGCTCTCAATC
1 TCCTCTCAAATTT-CTCTCAATC
*
56367254 TCCTTTCAAATTTCTCTCAA
1 TCCTCTCAAATTTCTCTCAA
56367274 ATCCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.43
Consensus pattern (22 bp):
TCCTCTCAAATTTCTCTCAATC
Found at i:56367340 original size:19 final size:19
Alignment explanation
Indices: 56367295--56367344 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
56367285 AAAGAGCTTT
56367295 AATTTTTTT-AATTATTTA
1 AATTTTTTTAAATTATTTA
*** *
56367313 AAAAATTTTAAATTTTTTA
1 AATTTTTTTAAATTATTTA
56367332 AATTTTTTTAAAT
1 AATTTTTTTAAAT
56367345 CGTAAAAATT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTTTTAAATTATTTA
Found at i:56369142 original size:18 final size:18
Alignment explanation
Indices: 56369115--56369154 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56369105 CAGGTGCGTA
* *
56369115 TCCTAGCCCTTTTATGTG
1 TCCTAACCCTTATATGTG
*
56369133 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTG
56369151 TCCT
1 TCCT
56369155 TTTTCTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTG
Found at i:56372944 original size:125 final size:126
Alignment explanation
Indices: 56372719--56372996 Score: 441
Period size: 125 Copynumber: 2.2 Consensus size: 126
56372709 CAGGCCATGC
**
56372719 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGAAAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
* * *
56372784 GCTTAAAGCGTTTTTGACACTGTTTACTCAGAAACGTCTACTCGAAATT-TTTTTTCAGGA
66 GCTTAAAGCATTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
* * * * *
56372844 GCTACTGTAGCAAAAGCGTGTCCACGTGAAAGCTTTTTTTAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGAAAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
* *
56372909 GCTTAAAGCATTTCTGATACTGTTTACTCAGAAACGTCTACTCGACATTATTTTCTCAGGA
66 GCTTAAAGCATTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
56372970 GCCACTGTAGCAAAAGCGCGTCCACGT
1 GCCACTGTAGCAAAAGCGCGTCCACGT
56372997 AGGAGCTTCT
Statistics
Matches: 138, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 103 0.75
126 35 0.25
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (126 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGAAAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
GCTTAAAGCATTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
Found at i:56374949 original size:26 final size:25
Alignment explanation
Indices: 56374880--56374949 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
56374870 GCAGTTATAA
*
56374880 TAAATATTT-TTA-TTATGTTATTTT
1 TAAA-ATTTATTATTTATTTTATTTT
*
56374904 TAAAATTTATTATTACATTTTATTTT
1 TAAAATTTATTATT-TATTTTATTTT
* *
56374930 TATTATTTTATTATTTATTT
1 TA-AAATTTATTATTTATTT
56374950 CTTATAACGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 4 0.11
24 7 0.19
25 1 0.03
26 15 0.41
27 10 0.27
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (25 bp):
TAAAATTTATTATTTATTTTATTTT
Found at i:56392178 original size:15 final size:15
Alignment explanation
Indices: 56392159--56392187 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56392149 ATGAGTCTTT
56392159 TTTTTTAATA-TTTA
1 TTTTTTAATAGTTTA
56392173 TTTTTTAATAGTTTA
1 TTTTTTAATAGTTTA
56392188 CTATACCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTTAATAGTTTA
Found at i:56393971 original size:31 final size:30
Alignment explanation
Indices: 56393903--56393977 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
56393893 TAACAGCACA
* *
56393903 ATAAAATTAATTTACTCTTTAAACTAACAT
1 ATAAAATTAATTTACTCTTTAAACAAAAAT
*
56393933 ATAAAAATTAATTTATCTATTTTAAA-AAAAAT
1 AT-AAAATTAATTTA-CT-CTTTAAACAAAAAT
56393965 ATAAAATCTAATT
1 ATAAAAT-TAATT
56393978 CTCATACTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 2 0.05
31 17 0.45
32 13 0.34
33 6 0.16
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAAAATTAATTTACTCTTTAAACAAAAAT
Found at i:56405993 original size:18 final size:18
Alignment explanation
Indices: 56405919--56405994 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
56405909 CTCTATCAAT
* *
56405919 AAAAATTACAAAAA-ATC
1 AAAAATTATAAAAATTTC
56405936 AAAATATTTATAAAAATTTC
1 AAAA-A-TTATAAAAATTTC
* * * *
56405956 --AAATTTTATATATTTA
1 AAAAATTATAAAAATTTC
56405972 AAAAATTATAAAAATTTC
1 AAAAATTATAAAAATTTC
56405990 AAAAA
1 AAAAA
56405995 AATTCTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 20 0.45
19 8 0.18
20 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTATAAAAATTTC
Found at i:56406014 original size:11 final size:10
Alignment explanation
Indices: 56405970--56406029 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
56405960 TTTATATATT
56405970 TAAAAAATTA
1 TAAAAAATTA
*
56405980 TAAAAATTTCA
1 TAAAAAATT-A
*
56405991 -AAAAAATTC
1 TAAAAAATTA
56406000 TAAAAAATATA
1 TAAAAAAT-TA
*
56406011 TAAAGAAAGT-
1 TAAA-AAATTA
56406021 TAAAAAATT
1 TAAAAAATT
56406030 TAATAAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 4 0.10
10 26 0.65
11 7 0.17
12 3 0.08
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:56407219 original size:30 final size:30
Alignment explanation
Indices: 56407183--56407254 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
56407173 TCGAAAAAGT
*
56407183 TCGGTTAACCGACCGAATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCAGTTAATCGG
56407213 TCGGTTAACCGACCGAATTCAGTTAATCGG
1 TCGGTTAACCGACCGAATTCAGTTAATCGG
56407243 TCGGTTAACCGA
1 TCGGTTAACCGA
56407255 ATTTTTTAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (30 bp):
TCGGTTAACCGACCGAATTCAGTTAATCGG
Found at i:56407586 original size:9 final size:9
Alignment explanation
Indices: 56407572--56407622 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
56407562 TATTTTTCAG
56407572 TAATTCGGT
1 TAATTCGGT
56407581 TAATTCGGT
1 TAATTCGGT
*
56407590 TAATTCGAT
1 TAATTCGGT
*
56407599 TAATTCGGG
1 TAATTCGGT
56407608 TAATTCAGG-
1 TAATTC-GGT
56407617 TAATTC
1 TAATTC
56407623 AGGTAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 36 0.95
10 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:56407595 original size:18 final size:18
Alignment explanation
Indices: 56407571--56407630 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
56407561 ATATTTTTCA
56407571 GTAATTCGGTTAATTCGG
1 GTAATTCGGTTAATTCGG
* *
56407589 TTAATTCGATTAATTCGG
1 GTAATTCGGTTAATTCGG
*
56407607 GTAATTCAGG-TAATTCAG
1 GTAATTC-GGTTAATTCGG
56407625 GTAATT
1 GTAATT
56407631 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 35 0.97
19 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (18 bp):
GTAATTCGGTTAATTCGG
Found at i:56407623 original size:9 final size:9
Alignment explanation
Indices: 56407599--56407630 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
56407589 TTAATTCGAT
*
56407599 TAATTCGGG
1 TAATTCAGG
56407608 TAATTCAGG
1 TAATTCAGG
56407617 TAATTCAGG
1 TAATTCAGG
56407626 TAATT
1 TAATT
56407631 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (9 bp):
TAATTCAGG
Found at i:56407629 original size:27 final size:27
Alignment explanation
Indices: 56407545--56407630 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
56407535 AAAAATAAAA
* *
56407545 AATTCGGGTAATTCAGATATTTTTCA-GT
1 AATTCGGGTAATTCAGGTA--ATTCAGGT
* *
56407573 AATTCGGTTAATTC-GGTTAATTC-GATT
1 AATTCGGGTAATTCAGG-TAATTCAG-GT
56407600 AATTCGGGTAATTCAGGTAATTCAGGT
1 AATTCGGGTAATTCAGGTAATTCAGGT
56407627 AATT
1 AATT
56407631 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
26 3 0.06
27 26 0.55
28 18 0.38
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
AATTCGGGTAATTCAGGTAATTCAGGT
Found at i:56407832 original size:7 final size:7
Alignment explanation
Indices: 56407820--56407852 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
56407810 CACCCCTAGA
56407820 TGGGAGG
1 TGGGAGG
56407827 TGGGAGG
1 TGGGAGG
56407834 TGGGAGG
1 TGGGAGG
56407841 TGGGAGG
1 TGGGAGG
56407848 TGGGA
1 TGGGA
56407853 TAGGAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:56408071 original size:21 final size:21
Alignment explanation
Indices: 56408046--56408090 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
56408036 TGGGGAGAAA
* *
56408046 GAGGGAAGGAGTAAAAGT-TTT
1 GAGGGAA-AAGTAAAAATGTTT
56408067 GAGGGAAAAGTAAAAATGTTT
1 GAGGGAAAAGTAAAAATGTTT
56408088 GAG
1 GAG
56408091 AGTTTAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (21 bp):
GAGGGAAAAGTAAAAATGTTT
Found at i:56408223 original size:9 final size:9
Alignment explanation
Indices: 56408206--56408236 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56408196 TTGAGTTGAT
56408206 TCGAATAAC
1 TCGAATAAC
*
56408215 TCGATTAAC
1 TCGAATAAC
56408224 TCGAATAAC
1 TCGAATAAC
56408233 TCGA
1 TCGA
56408237 TTCCTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:56408524 original size:22 final size:22
Alignment explanation
Indices: 56408499--56408573 Score: 150
Period size: 22 Copynumber: 3.4 Consensus size: 22
56408489 CACCAAACTC
56408499 CCCATAATTAATATATGCATAA
1 CCCATAATTAATATATGCATAA
56408521 CCCATAATTAATATATGCATAA
1 CCCATAATTAATATATGCATAA
56408543 CCCATAATTAATATATGCATAA
1 CCCATAATTAATATATGCATAA
56408565 CCCATAATT
1 CCCATAATT
56408574 GTTCAAATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCATAATTAATATATGCATAA
Found at i:56408726 original size:13 final size:13
Alignment explanation
Indices: 56408708--56408792 Score: 84
Period size: 13 Copynumber: 6.6 Consensus size: 13
56408698 AAAGGGACTA
56408708 AATTTTTATTTTC
1 AATTTTTATTTTC
* * *
56408721 AATTTTTAATGTG
1 AATTTTTATTTTC
*
56408734 AATTTTTA--TTA
1 AATTTTTATTTTC
56408745 AATTTTTATTTTC
1 AATTTTTATTTTC
* * *
56408758 AATTTTTAATGTG
1 AATTTTTATTTTC
56408771 AATTTTTATTTTC
1 AATTTTTATTTTC
56408784 AACTTTTTA
1 AA-TTTTTA
56408793 AGTCTTTTGA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
11 9 0.16
13 42 0.74
14 6 0.11
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (13 bp):
AATTTTTATTTTC
Found at i:56408756 original size:37 final size:37
Alignment explanation
Indices: 56408706--56408780 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
56408696 GGAAAGGGAC
56408706 TAAATTTTTATTTTCAATTTTTAATGTGAATTTTTAT
1 TAAATTTTTATTTTCAATTTTTAATGTGAATTTTTAT
56408743 TAAATTTTTATTTTCAATTTTTAATGTGAATTTTTAT
1 TAAATTTTTATTTTCAATTTTTAATGTGAATTTTTAT
56408780 T
1 T
56408781 TTCAACTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (37 bp):
TAAATTTTTATTTTCAATTTTTAATGTGAATTTTTAT
Found at i:56412269 original size:49 final size:49
Alignment explanation
Indices: 56412212--56412306 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
56412202 GTGATTATCG
56412212 AGAAAGTTACTTTACAACGTTAGATATATATGTATTGATTAAAATCTCA
1 AGAAAGTTACTTTACAACGTTAGATATATATGTATTGATTAAAATCTCA
* * *
56412261 AGAAAGTTATTTTACAACGTTTGGTATATATGTATTGATTAAAATC
1 AGAAAGTTACTTTACAACGTTAGATATATATGTATTGATTAAAATC
56412307 CTAGGAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (49 bp):
AGAAAGTTACTTTACAACGTTAGATATATATGTATTGATTAAAATCTCA
Found at i:56412331 original size:49 final size:49
Alignment explanation
Indices: 56412212--56412319 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 49
56412202 GTGATTATCG
* * * *
56412212 AGAAAGTTACTTTACAACGTTAGATATATATGTATTGATTAAAATCTCA
1 AGAAAATTATTTTACAACGTTTGGTATATATGTATTGATTAAAATCTCA
*
56412261 AGAAAGTTATTTTACAACGTTTGGTATATATGTATTGATTAAAATC-CTA
1 AGAAAATTATTTTACAACGTTTGGTATATATGTATTGATTAAAATCTC-A
*
56412310 GGAAAATTAT
1 AGAAAATTAT
56412320 ATTGTCGCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
48 1 0.02
49 52 0.98
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (49 bp):
AGAAAATTATTTTACAACGTTTGGTATATATGTATTGATTAAAATCTCA
Found at i:56412539 original size:22 final size:22
Alignment explanation
Indices: 56412492--56412533 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56412482 TAGCGAACAA
56412492 AAATATATAAATATAAATAAAC
1 AAATATATAAATATAAATAAAC
* *
56412514 AAATATTTATATAT-AATAAA
1 AAATATATAAATATAAATAAA
56412534 ATAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATATAAATATAAATAAAC
Found at i:56418340 original size:3 final size:3
Alignment explanation
Indices: 56418326--56418449 Score: 77
Period size: 3 Copynumber: 42.3 Consensus size: 3
56418316 AGCATTACAA
56418326 AAT AAT ACAT AAT AA- AAT AA- AAT AAT -AT AA- AAT AA- AAGT AAAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT
* * * *
56418369 AAAT AGAT -AT AA- ACT AAT -AT GAT AAT AAT ACCT -AT ACT AAT AAT
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* *
56418413 AGT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
56418450 GTATTATAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
2 16 0.17
3 67 0.70
4 11 0.11
5 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:56418349 original size:20 final size:21
Alignment explanation
Indices: 56418324--56418367 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
56418314 AAAGCATTAC
*
56418324 AAAATAATACATAATAAAA-T
1 AAAATAATACAAAATAAAAGT
*
56418344 AAAATAATATAAAATAAAAGT
1 AAAATAATACAAAATAAAAGT
56418365 AAA
1 AAA
56418368 TAAATAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATAATACAAAATAAAAGT
Found at i:56419287 original size:8 final size:8
Alignment explanation
Indices: 56419276--56419304 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56419266 AAAGATGTAT
56419276 TTTTTTTC
1 TTTTTTTC
56419284 TTTTTTTC
1 TTTTTTTC
56419292 -TTTTTTC
1 TTTTTTTC
56419299 TTTTTT
1 TTTTTT
56419305 GCTGCCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:56420812 original size:39 final size:39
Alignment explanation
Indices: 56420769--56420848 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
56420759 TAAGAAATAA
56420769 TCATTTTTATAATTTTAAGGGGGGGTCTTGCCAGCCCCC
1 TCATTTTTATAATTTTAAGGGGGGGTCTTGCCAGCCCCC
56420808 TCATTTTTATAATTTTAAGGGGGGGTCTTGCCAGCCCCC
1 TCATTTTTATAATTTTAAGGGGGGGTCTTGCCAGCCCCC
56420847 TC
1 TC
56420849 CAAATTTCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (39 bp):
TCATTTTTATAATTTTAAGGGGGGGTCTTGCCAGCCCCC
Found at i:56422383 original size:50 final size:50
Alignment explanation
Indices: 56422264--56422394 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
56422254 TTATTAAGAT
* * * * *
56422264 TATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATATCTTGGACATGGCATGGGCACCGA
* **
56422314 GATGAGAGGTCCCCCGTAAGACCATATCTTGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATATCTTGGACATGGCATGGGCACCGA
** *
56422364 TATGAGAACTCCCATGTAAGATCATAT-TTGG
1 TATGAGAGGTCCCATGTAAGACCATATCTTGG
56422395 GATATGACAT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 4 0.06
50 63 0.94
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATATCTTGGACATGGCATGGGCACCGA
Found at i:56430363 original size:32 final size:32
Alignment explanation
Indices: 56430320--56430503 Score: 233
Period size: 32 Copynumber: 5.8 Consensus size: 32
56430310 TAACCTCAGT
* *
56430320 GGAATGGACAAAACCAACATGTTGGCCTTAGC
1 GGAATGGACAAAACCAACATATTGACCTTAGC
* * * * *
56430352 GGAATGAACAAAATCGACATATTGACCTCAGT
1 GGAATGGACAAAACCAACATATTGACCTTAGC
**
56430384 GGAATGGACAAAACCAACATATTGACCTTAAT
1 GGAATGGACAAAACCAACATATTGACCTTAGC
* *
56430416 GGAATGGACAAAACCAACATATTGGCCTTAGA
1 GGAATGGACAAAACCAACATATTGACCTTAGC
* *
56430448 GGAATGGAGAAAATCAACATATTGACCTTAGC
1 GGAATGGACAAAACCAACATATTGACCTTAGC
* *
56430480 GGAATGAACAAAATCAACATATTG
1 GGAATGGACAAAACCAACATATTG
56430504 GCCTCAACTA
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 131 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (32 bp):
GGAATGGACAAAACCAACATATTGACCTTAGC
Found at i:56430413 original size:64 final size:64
Alignment explanation
Indices: 56430312--56430509 Score: 279
Period size: 64 Copynumber: 3.1 Consensus size: 64
56430302 AATTGTTCTA
* * *
56430312 ACCTCAGTGGAATGGACAAAACCAACATGTTGGCCTTAGCGGAATGAACAAAATCGACATATTG
1 ACCTCAGTGGAATGGACAAAACCAACATATTGACCTTAGCGGAATGAACAAAATCAACATATTG
** * *
56430376 ACCTCAGTGGAATGGACAAAACCAACATATTGACCTTAATGGAATGGACAAAACCAACATATTG
1 ACCTCAGTGGAATGGACAAAACCAACATATTGACCTTAGCGGAATGAACAAAATCAACATATTG
* * * * *
56430440 GCCTTAGAGGAATGGAGAAAATCAACATATTGACCTTAGCGGAATGAACAAAATCAACATATTG
1 ACCTCAGTGGAATGGACAAAACCAACATATTGACCTTAGCGGAATGAACAAAATCAACATATTG
*
56430504 GCCTCA
1 ACCTCA
56430510 ACTAACTCAT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 117 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (64 bp):
ACCTCAGTGGAATGGACAAAACCAACATATTGACCTTAGCGGAATGAACAAAATCAACATATTG
Found at i:56430484 original size:96 final size:96
Alignment explanation
Indices: 56430319--56430503 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 96
56430309 CTAACCTCAG
* * * *
56430319 TGGAATGGACAAAACCAACATGTTGGCCTTAGCGGAATGAACAAAATCGACATATTGACCTCAGT
1 TGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCAACATATTGACCTCAGC
*
56430384 GGAATGGACAAAACCAACATATTGACCTTAA
66 GGAATGAACAAAACCAACATATTGACCTTAA
* * *
56430415 TGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGGAGAAAATCAACATATTGACCTTAGC
1 TGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCAACATATTGACCTCAGC
*
56430480 GGAATGAACAAAATCAACATATTG
66 GGAATGAACAAAACCAACATATTG
56430504 GCCTCAACTA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (96 bp):
TGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCAACATATTGACCTCAGC
GGAATGAACAAAACCAACATATTGACCTTAA
Found at i:56436730 original size:21 final size:21
Alignment explanation
Indices: 56436698--56436738 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
56436688 AGGCTCGAGG
56436698 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
56436719 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
56436739 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:56447522 original size:11 final size:11
Alignment explanation
Indices: 56447506--56447531 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56447496 CCTTATAGGG
56447506 TTTTTTTAAAT
1 TTTTTTTAAAT
56447517 TTTTTTTAAAT
1 TTTTTTTAAAT
56447528 TTTT
1 TTTT
56447532 ATGAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:56448881 original size:17 final size:18
Alignment explanation
Indices: 56448859--56448892 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56448849 AATTCAATAC
56448859 ATATATA-TTAAATATAT
1 ATATATATTTAAATATAT
56448876 ATATATATTTAAATATA
1 ATATATATTTAAATATA
56448893 ATAAGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATATTTAAATATAT
Found at i:56454979 original size:15 final size:14
Alignment explanation
Indices: 56454961--56454990 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56454951 AATTCAATAC
56454961 ATATATA-TTAAAT
1 ATATATATTTAAAT
56454974 ATATATATTTAAAT
1 ATATATATTTAAAT
56454988 ATA
1 ATA
56454991 ATAAGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:56456189 original size:41 final size:41
Alignment explanation
Indices: 56456133--56456235 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
56456123 TGATTCGATA
* * * * *
56456133 CACCGGCTTTTAGCCTGCTAGACCTATATTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
56456174 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
56456215 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
56456236 GCACATAGCC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:56456249 original size:41 final size:41
Alignment explanation
Indices: 56456173--56456250 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
56456163 CCGAAATGTA
** *
56456173 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
* *
56456214 TCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
56456251 AACTCAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
Found at i:56458016 original size:39 final size:39
Alignment explanation
Indices: 56457973--56458266 Score: 313
Period size: 39 Copynumber: 7.5 Consensus size: 39
56457963 TAGAAATCCA
* *
56457973 ATGATTATTCGGGCTATGTACCTAGTAGGCTTTGTGCCG
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * *
56458012 ATGATTATTCGGGCTATGTGCCTAGTAGGCTTTTTACCG
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * *
56458051 GTGATTATTCGGGTTATGTGCCTAGCAGGCTTTGTACCG
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * * * * *
56458090 GTGATTATTCTGGTTATGTGTCTAGCAGGCTGTGTGTCG
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * * *
56458129 ATGATTATTTGAGCTATGTGTCTAGTAGGCTTTGTGCC-
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * * *
56458167 AGTAATTATTCGAGCTATGTGCCTAACAAGCTTTGTGCCG
1 A-TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * * *
56458207 ATGATTATTTGGGCTATGTGCCTAGCAGACTGTGTG-CT
1 ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
*
56458245 AGTGATTATTCGGGCTTTGTGC
1 A-TGATTATTCGGGCTATGTGC
56458267 TTACCAGGTT
Statistics
Matches: 216, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
38 3 0.01
39 212 0.98
40 1 0.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (39 bp):
ATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
Found at i:56469792 original size:13 final size:13
Alignment explanation
Indices: 56469769--56469804 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
56469759 TGCCTACTTT
56469769 TTTTATT-TTTTA
1 TTTTATTATTTTA
56469781 TTTTATTATTTTA
1 TTTTATTATTTTA
56469794 TTTTATTATTT
1 TTTTATTATTT
56469805 CAAGCACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:56474527 original size:44 final size:44
Alignment explanation
Indices: 56474477--56474727 Score: 179
Period size: 44 Copynumber: 5.5 Consensus size: 44
56474467 CCATAAATTT
*
56474477 TATACCCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
1 TATACCCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
* * ** **
56474521 TATACCCCTGAAGTTGCAGT-GGGTCAGATTGAATTTACTATAATGAA
1 TATACCCCTGAAGTTACAGTAGAG-CAGATTGAAGCTAC-A-AAT-CC
* *
56474568 TATTATCTCCCTGAAGTTATAGTAGAGCAGATTGAAGCTACAAATCT
1 TA-TA-C-CCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
* ** * *
56474615 TATACCCCTAAAGTTGTAGT-GGGTC-GAATTGAATCTACCATAGTGAATCC
1 TATACCCCTGAAGTTACAGTAGAG-CAG-ATTGAAGCTA-C--A---AATCC
* *
56474665 TAT-CTCCCTGAAGTTGCA-TAGAGCAAATTGAAGCTACAAATCC
1 TATAC-CCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
56474708 TATACCCCTGAAGTTACAGT
1 TATACCCCTGAAGTTACAGT
56474728 GGATCGGATT
Statistics
Matches: 161, Mismatches: 25, Indels: 42
0.71 0.11 0.18
Matches are distributed among these distances:
43 25 0.16
44 55 0.34
45 3 0.02
46 6 0.04
47 5 0.03
48 6 0.04
49 14 0.09
50 45 0.28
51 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (44 bp):
TATACCCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
Found at i:56474729 original size:93 final size:94
Alignment explanation
Indices: 56474482--56474790 Score: 397
Period size: 94 Copynumber: 3.3 Consensus size: 94
56474472 AATTTTATAC
56474482 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTC-
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
* *
56474546 AGATTGAATTTACTATAATGAATATTATCT
66 A-ATTGAATTTACCATAATGAATCTTATCT
* * * * *
56474576 CCCTGAAGTTATAGTAGAGCAGATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCG
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
* * *
56474641 AATTGAATCTACCATAGTGAATCCTATCT
66 AATTGAATTTACCATAATGAATCTTATCT
* * * * *
56474670 CCCTGAAGTTGCA-TAGAGCAAATTGAAGCTACAAATCCTATACCCCTGAAGTTACAGTGGATCG
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
* * *
56474734 GATTAAATTTACCATAACGAATCTTATCT
66 AATTGAATTTACCATAATGAATCTTATCT
* * * *
56474763 CTCTAAAGTTGCAATAGAACAGATTGAA
1 CCCTAAAGTTACAGTAGAGCAGATTGAA
56474791 ATAGTTATAG
Statistics
Matches: 185, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
93 79 0.43
94 105 0.57
95 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (94 bp):
CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
AATTGAATTTACCATAATGAATCTTATCT
Found at i:56475035 original size:261 final size:261
Alignment explanation
Indices: 56474538--56475036 Score: 597
Period size: 261 Copynumber: 1.9 Consensus size: 261
56474528 CTGAAGTTGC
* * * ** * * * *
56474538 AGTGGGTCAGATTGAATTTACTATAATGAATATTATCTCCCTGAAGTTATAGTAGAGCAGATTGA
1 AGTGGATCAGATTAAATTTACCATAACAAATATTATCTCCCTAAAGTTACAGTAGAACAGATTAA
** *
56474603 AGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCGAATTGAATCTACCATAGTGAATCCTAT
66 AGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTCGAATTGAATCTACCATAGCGAATCCTAT
* * *
56474668 CTCCCTGAAGTTGCATAGAGCAAATTGAAGCTACAAATCCTATACCCCTGAAGTTACAGTGGATC
131 CTCCCTAAAGTTGAATAGAGCAAATTGAAACTACAAATCCTATACCCCTGAAGTTACAGTGGATC
** *
56474733 GGATTAAATTTACCATAACGAATCTTATCTCTCTAAAGTTGCAATAGAACAGATTGAAATAGTTA
196 AAATTAAAGTTACCATAACGAATCTTATCTCTCTAAAGTTGCAATAGAACAGATTGAAATAGTTA
56474798 T
261 T
* *
56474799 AGTGGATCAGATTAAATTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGGAACA-ATTAA
1 AGTGGATCAGATTAAATTTACCATAACAAATATTATCTCCCTAAAGTTACAGTAGAACAGATTAA
* * * * *
56474863 AGCTACAAATCTTATACCCCTAAAGTTACAGTGGTTTGGATT-AAGTTTACCATAGCGAATCTTA
66 AGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTCGAATTGAA-TCTACCATAGCGAATCCTA
* * ** * * ** * *
56474927 TCTCCCTAAAGTTGAAGTGGAGCAGATTGAAACTATGAATCTTATAGCTTTGAAGTTGCAGTGGG
130 TCTCCCTAAAGTTGAA-TAGAGCAAATTGAAACTACAAATCCTATACCCCTGAAGTTACAGTGGA
* * * * * *
56474992 TCAAATTGAAGTTATCATAGCTAATCTTATCTCTTTGAAGTTGCA
194 TCAAATTAAAGTTACCATAACGAATCTTATCTCTCTAAAGTTGCA
56475037 GTGGAGTATA
Statistics
Matches: 195, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
259 2 0.01
260 71 0.36
261 122 0.63
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (261 bp):
AGTGGATCAGATTAAATTTACCATAACAAATATTATCTCCCTAAAGTTACAGTAGAACAGATTAA
AGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTCGAATTGAATCTACCATAGCGAATCCTAT
CTCCCTAAAGTTGAATAGAGCAAATTGAAACTACAAATCCTATACCCCTGAAGTTACAGTGGATC
AAATTAAAGTTACCATAACGAATCTTATCTCTCTAAAGTTGCAATAGAACAGATTGAAATAGTTA
T
Found at i:56475321 original size:50 final size:48
Alignment explanation
Indices: 56475267--56475413 Score: 115
Period size: 50 Copynumber: 3.1 Consensus size: 48
56475257 TTAAAGTTGC
56475267 AGTGGATCGGATTGAATCTACTATAGCGAATCTTATCTCCCTGAAGTTAT
1 AGTGGATCGGATTGAATCTAC-ATA-CGAATCTTATCTCCCTGAAGTTAT
* * * * * * **
56475317 AGTGGAGCAGATTAAAGCTAC--A--AATCCTATAC-CTCTGAAGTTGC
1 AGTGGATCGGATTGAATCTACATACGAATCTTAT-CTCCCTGAAGTTAT
* * *
56475361 AGTGGGTTGGATTGAATCTAGCATAACGAATCTTATCTCCCTAAAGTTAT
1 AGTGGATCGGATTGAATCTA-CAT-ACGAATCTTATCTCCCTGAAGTTAT
56475411 AGT
1 AGT
56475414 AGAGCAGATT
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
44 30 0.43
45 2 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 35 0.50
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (48 bp):
AGTGGATCGGATTGAATCTACATACGAATCTTATCTCCCTGAAGTTAT
Found at i:56475523 original size:375 final size:375
Alignment explanation
Indices: 56474808--56475530 Score: 893
Period size: 375 Copynumber: 1.9 Consensus size: 375
56474798 TAGTGGATCA
* *
56474808 GATTAAATTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGGAACAATTAAAGCTACAAAT
1 GATTAAAGTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGAAACAATTAAAGCTACAAAT
* * *
56474873 CTTATACCCCTAAAGTTACAGTGGTTTGGATTAAGTTTACCATAGCGAATCTTATCTCCCTAAAG
66 CTTATACCCCTAAAGTTACAGTGGATCGGATTAAGTCTACCATAGCGAATCTTATCTCCCTAAAG
** * * *
56474938 TTGAAGTGGAGCAGATTGAAACTATGAATCTTATAGCTTTGAAGTTGCAGTGGGTCAAATTGAAG
131 TTGAAGTGGAGCAGATTGAAACTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAG
* * * ** * * * * * * * *
56475003 TTATCATAGCTAATCTTATCTCTTTGAAGTTGCAGTGGAGTATATTAATGATACAAATCCTGTAC
196 TTAGCATAACGAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGACACAAATCCTATAC
* * * *
56475068 CCCTAAAGATGCAGTGGGTCAGATTAAATCTATCATAGCGAACCTTATCTATCTGAAATTATAGT
261 CCCTAAAGATGCAGTGGGTCAAATTAAATCTACCATAGCGAACCTTATCTATCTGAAATTACAAT
56475133 AGAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTG
326 AGAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTG
*** * *
56475183 GATTAAAGTTACCATAGTGAATCTTATCTCCCTAAAGTTGCAGTGAAACAGA-TGAAGCTACAAA
1 GATTAAAGTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGAAACA-ATTAAAGCTACAAA
* * * *
56475247 TCTTATACCCTTAAAGTTGCAGTGGATCGGATTGAA-TCTACTATAGCGAATCTTATCTCCCTGA
65 TCTTATACCCCTAAAGTTACAGTGGATCGGATT-AAGTCTACCATAGCGAATCTTATCTCCCTAA
***
56475311 AGTT-ATAGTGGAGCAGATT-AAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTTGGATT
129 AGTTGA-AGTGGAGCAGATTGAAA-CTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAATT
* *
56475374 GAA-TCTAGCATAACGAATCTTATCTCCCTAAAGTTATAGTAGAGCAGATTAAAGCCACAAATCC
192 GAAGT-TAGCATAACGAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGACACAAATCC
* * * ** * *
56475438 TATACCCCTAAAGTTGTAGTGGGTCAAATTTAAGT-TACCATAGCGAATTTTATCTCTCTGAAGT
256 TATACCCCTAAAGATGCAGTGGGTCAAA-TTAAATCTACCATAGCGAACCTTATCTATCTGAAAT
*
56475502 TACAATGGAGCAAGA-TGAAGCTACAAATC
320 TACAATAGAGC-AGATTGAAGCTACAAATC
56475531 TTATCTCTTT
Statistics
Matches: 292, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
374 5 0.02
375 276 0.95
376 11 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (375 bp):
GATTAAAGTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGAAACAATTAAAGCTACAAAT
CTTATACCCCTAAAGTTACAGTGGATCGGATTAAGTCTACCATAGCGAATCTTATCTCCCTAAAG
TTGAAGTGGAGCAGATTGAAACTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAG
TTAGCATAACGAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGACACAAATCCTATAC
CCCTAAAGATGCAGTGGGTCAAATTAAATCTACCATAGCGAACCTTATCTATCTGAAATTACAAT
AGAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTG
Found at i:56475544 original size:94 final size:94
Alignment explanation
Indices: 56474799--56475549 Score: 660
Period size: 94 Copynumber: 8.0 Consensus size: 94
56474789 AAATAGTTAT
* * * * * * * *
56474799 AGTGGATCAGATTAAATTTACCATAACAAATCTTATCTCCCTAAAGTTACAGTGGAACA-ATTAA
1 AGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
* *
56474863 AGCTACAAATCTTATACCCCTAAAGTTAC
66 AGCTACAAATCTTATACCCTTAAAGTTGC
* ** *
56474892 AGTGGTTTGGATT-AAGTTTACCATAGCGAATCTTATCTCCCTAAAGTTGA-AGTGGAGCAGATT
1 AGTGGGTCAGATTGAAG-TTACCATAGCGAATCTTATCTCCCTGAAGTT-ACAGTGGAGCAGATT
* ** * * *
56474955 GAAACTATGAATCTTATAGCTTTGAAGTTGC
64 GAAGCTACAAATCTTATACCCTTAAAGTTGC
* * * ** * * *
56474986 AGTGGGTCAAATTGAAGTTATCATAGCTAATCTTATCTCTTTGAAGTTGCAGTGGAGTATATT-A
1 AGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
* * * * *
56475050 ATGATACAAATCCTGTACCCCTAAAGATGC
66 A-GCTACAAATCTTATACCCTTAAAGTTGC
* * * ** * * *
56475080 AGTGGGTCAGATT-AAATCTATCATAGCGAACCTTATCTATCTGAAATTATAGTAGAGCAGATTG
1 AGTGGGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
* *
56475144 AAGCTACAAATCCTATACCCTTGAAGTTGC
65 AAGCTACAAATCTTATACCCTTAAAGTTGC
** * * * * * *
56475174 AGTGGGTTGGATTAAAGTTACCATAGTGAATCTTATCTCCCTAAAGTTGCAGTGAAACAGA-TGA
1 AGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
56475238 AGCTACAAATCTTATACCCTTAAAGTTGC
66 AGCTACAAATCTTATACCCTTAAAGTTGC
* * * * *
56475267 AGTGGATCGGATTGAA-TCTACTATAGCGAATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTA
1 AGTGGGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
* *
56475331 AAGCTACAAATCCTATA-CCTCTGAAGTTGC
65 AAGCTACAAATCTTATACCCT-TAAAGTTGC
** * * * * * *
56475361 AGTGGGTTGGATTGAA-TCTAGCATAACGAATCTTATCTCCCTAAAGTTATAGTAGAGCAGATTA
1 AGTGGGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
* * * *
56475425 AAGCCACAAATCCTATACCCCTAAAGTTGT
65 AAGCTACAAATCTTATACCCTTAAAGTTGC
* * * * *
56475455 AGTGGGTCAAATTTAAGTTACCATAGCGAATTTTATCTCTCTGAAGTTACAATGGAGCAAGA-TG
1 AGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGC-AGATTG
*
56475519 AAGCTACAAATCTTAT-CTCTTTAAAGTTGC
65 AAGCTACAAATCTTATAC-CCTTAAAGTTGC
56475549 A
1 A
56475550 ATGGAGTAAG
Statistics
Matches: 527, Mismatches: 115, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
92 3 0.01
93 135 0.26
94 375 0.71
95 14 0.03
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (94 bp):
AGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
AGCTACAAATCTTATACCCTTAAAGTTGC
Found at i:56477608 original size:42 final size:42
Alignment explanation
Indices: 56477547--56477644 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
56477537 CTATATGAAC
* * *
56477547 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
*
56477589 GGCACTAAGTGTGCAAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
56477631 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
56477645 GATACCGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
Found at i:56481056 original size:13 final size:13
Alignment explanation
Indices: 56481040--56481085 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
56481030 AGTATTCAAT
*
56481040 CCAACCTAATTAC
1 CCAACCCAATTAC
56481053 CCAACCCAATTAC
1 CCAACCCAATTAC
56481066 CCAACCC-A--AC
1 CCAACCCAATTAC
56481076 CCAACCCAAT
1 CCAACCCAAT
56481086 CATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.30
11 1 0.03
12 1 0.03
13 19 0.63
ACGTcount: A:0.39, C:0.48, G:0.00, T:0.13
Consensus pattern (13 bp):
CCAACCCAATTAC
Found at i:56481201 original size:9 final size:9
Alignment explanation
Indices: 56481181--56481247 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
56481171 TGTATGATTC
*
56481181 AATTAGGTT
1 AATTCGGTT
*
56481190 AATTCGGGT
1 AATTCGGTT
56481199 AATTCGGTT
1 AATTCGGTT
*
56481208 AATTCGGGT
1 AATTCGGTT
*
56481217 AATTCAGTT
1 AATTCGGTT
*
56481226 AATTTGGTT
1 AATTCGGTT
*
56481235 AATTCGGCT
1 AATTCGGTT
56481244 AATT
1 AATT
56481248 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56481207 original size:18 final size:18
Alignment explanation
Indices: 56481181--56481247 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
56481171 TGTATGATTC
*
56481181 AATTAGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
56481199 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* * *
56481217 AATTCAGTTAATTTGGTT
1 AATTCGGTTAATTCGGGT
*
56481235 AATTCGGCTAATT
1 AATTCGGTTAATT
56481248 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:56482772 original size:19 final size:20
Alignment explanation
Indices: 56482734--56482783 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
56482724 ATGCATGAAA
* *
56482734 TTTAAAAAATAACTCTTAAT
1 TTTAAAAAATAAATCGTAAT
56482754 TTTAAAAAATAAAT-GTAAT
1 TTTAAAAAATAAATCGTAAT
56482773 TATCTAAAAAA
1 T-T-TAAAAAA
56482784 AACTTAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 14 0.54
21 7 0.27
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATAAATCGTAAT
Found at i:56482914 original size:20 final size:19
Alignment explanation
Indices: 56482889--56482929 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
56482879 AAATTAAGAG
56482889 TTATTT-TTTAATTTTATGTA
1 TTATTTGTTT-ATTTTAT-TA
56482909 TTATTTGTTTATTTTATTA
1 TTATTTGTTTATTTTATTA
56482928 TT
1 TT
56482930 TTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTATTTGTTTATTTTATTA
Found at i:56484811 original size:21 final size:21
Alignment explanation
Indices: 56484787--56484842 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
56484777 AAAAATCAAT
*
56484787 AAAAAGTTAT-AAAAATTGTA
1 AAAAAATTATAAAAAATTGTA
56484807 AAAAAATTATAAAAAATTGT-
1 AAAAAATTATAAAAAATTGTA
*
56484827 AAAAATTTATAAAAAA
1 AAAAAATTATAAAAAA
56484843 AAATTGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAAATTATAAAAAATTGTA
Found at i:56484847 original size:23 final size:22
Alignment explanation
Indices: 56484797--56484861 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
56484787 AAAAAGTTAT
*
56484797 AAAAATTGTAAAAAAATTAT--A
1 AAAAATTGT-AAAAATTTATAAA
56484818 AAAAATTGTAAAAATTTATAAAA
1 AAAAATTGTAAAAATTTAT-AAA
56484841 AAAAATTGT-AAAATCTTATAA
1 AAAAATTGTAAAAAT-TTATAA
56484862 TTTTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 9 0.23
21 9 0.23
22 7 0.18
23 14 0.36
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (22 bp):
AAAAATTGTAAAAATTTATAAA
Found at i:56484853 original size:9 final size:9
Alignment explanation
Indices: 56484775--56484841 Score: 53
Period size: 10 Copynumber: 6.8 Consensus size: 9
56484765 AAATATAAAA
*
56484775 ATAAAAATCA
1 ATAAAAAT-T
56484785 ATAAAAAGTT
1 ATAAAAA-TT
56484795 ATAAAAATTGT
1 ATAAAAA-T-T
*
56484806 AAAAAAATT
1 ATAAAAATT
56484815 ATAAAAAATT
1 AT-AAAAATT
*
56484825 GTAAAAATTT
1 ATAAAAA-TT
56484835 ATAAAAA
1 ATAAAAA
56484842 AAAATTGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 7 0.15
10 32 0.68
11 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:56484853 original size:10 final size:10
Alignment explanation
Indices: 56484785--56484842 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
56484775 ATAAAAATCA
*
56484785 ATAAAAAGTT
1 ATAAAAAATT
56484795 AT-AAAAATT
1 ATAAAAAATT
*
56484804 GTAAAAAAATT
1 AT-AAAAAATT
56484815 ATAAAAAATT
1 ATAAAAAATT
* *
56484825 GTAAAAATTT
1 ATAAAAAATT
56484835 ATAAAAAA
1 ATAAAAAA
56484843 AAATTGTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 7 0.18
10 24 0.62
11 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:56484943 original size:20 final size:20
Alignment explanation
Indices: 56484918--56484972 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
56484908 ATAAAGTCAT
56484918 AAGAAAATTATAAAAAT-GTA
1 AAGAAAA-TATAAAAATCGTA
*
56484938 AAG-AAATATAAAATTCGTA
1 AAGAAAATATAAAAATCGTA
*
56484957 AAAAAAATATAAAAAT
1 AAGAAAATATAAAAAT
56484973 TATCATACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.27
19 8 0.27
20 14 0.47
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (20 bp):
AAGAAAATATAAAAATCGTA
Found at i:56485169 original size:21 final size:20
Alignment explanation
Indices: 56485144--56485188 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
56485134 TTACATGGCC
56485144 TTTTTGATACATTTTACAAAT
1 TTTTTGATACATTTTAC-AAT
* **
56485165 TTTTTTATATGTTTTACAAT
1 TTTTTGATACATTTTACAAT
56485185 TTTT
1 TTTT
56485189 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTGATACATTTTACAAT
Found at i:56485189 original size:30 final size:30
Alignment explanation
Indices: 56485155--56485256 Score: 77
Period size: 30 Copynumber: 3.4 Consensus size: 30
56485145 TTTTGATACA
*
56485155 TTTTACAAATTTTTTTAT-ATGTTTTACAAT
1 TTTTACAAATTTTTTTATAAT-TTTTAAAAT
* * *
56485185 TTTTATAATTTTTTTTCTAATTTTTAAAATT
1 TTTTACAAATTTTTTTATAATTTTTAAAA-T
* * *
56485216 TTTTA-AATATTTTATTA-AA-ATTTAACAT
1 TTTTACAA-ATTTTTTTATAATTTTTAAAAT
*
56485244 TTTTATAAATTTT
1 TTTTACAAATTTT
56485257 ATTGATTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
28 11 0.19
29 8 0.14
30 26 0.44
31 14 0.24
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTACAAATTTTTTTATAATTTTTAAAAT
Found at i:56486466 original size:73 final size:73
Alignment explanation
Indices: 56486384--56486522 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 73
56486374 GGAATAACTT
* * *
56486384 TTTATTGGTTGGTGTAAACCATGACAGGTGTTAGACTATTGAGA-CTTACTTGAAAATATAAATT
1 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATC-TACTTGAAAATATAAATT
56486448 AGATTCCTC
65 AGATTCCTC
**
56486457 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGGTTATCGAGATCTACTTGAAAATATAAATTA
1 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATCTACTTGAAAATATAAATTA
56486522 G
66 G
56486523 TAGATAGCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 59 0.98
74 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (73 bp):
TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATCTACTTGAAAATATAAATTA
GATTCCTC
Found at i:56489610 original size:8 final size:8
Alignment explanation
Indices: 56489597--56489643 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
56489587 TTAATTAATT
56489597 TTTAAAAA
1 TTTAAAAA
56489605 TTTAAAAA
1 TTTAAAAA
56489613 TTATAAAAA
1 TT-TAAAAA
* **
56489622 TTT-TATT
1 TTTAAAAA
56489629 TTTAAAAA
1 TTTAAAAA
56489637 TTTAAAA
1 TTTAAAA
56489644 TTATTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 4 0.13
8 19 0.61
9 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTTAAAAA
Found at i:56489647 original size:31 final size:32
Alignment explanation
Indices: 56489594--56489654 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
56489584 TATTTAATTA
56489594 ATTTTTAAAAATTTAAAAATTATAAAAATTTT
1 ATTTTTAAAAATTTAAAAATTATAAAAATTTT
*
56489626 ATTTTTAAAAATTT-AAAATTATTAAAATT
1 ATTTTTAAAAATTTAAAAATTATAAAAATT
56489655 ATTGAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTTTAAAAATTTAAAAATTATAAAAATTTT
Found at i:56489671 original size:19 final size:19
Alignment explanation
Indices: 56489649--56489685 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56489639 TAAAATTATT
**
56489649 AAAATTATTGAAAAGTATA
1 AAAATTATACAAAAGTATA
56489668 AAAATTATACAAAAGTAT
1 AAAATTATACAAAAGTAT
56489686 TTTTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
AAAATTATACAAAAGTATA
Found at i:56489681 original size:10 final size:9
Alignment explanation
Indices: 56489599--56489681 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
56489589 AATTAATTTT
56489599 TAAAAATT-
1 TAAAAATTA
56489607 TAAAAATTA
1 TAAAAATTA
56489616 TAAAAATT-
1 TAAAAATTA
* * *
56489624 T--TATTTT
1 TAAAAATTA
56489631 TAAAAATT-
1 TAAAAATTA
56489639 T-AAAATTA
1 TAAAAATTA
*
56489647 TTAAAATTA
1 TAAAAATTA
* *
56489656 TTGAAAAGTA
1 -TAAAAATTA
56489666 TAAAAATTA
1 TAAAAATTA
56489675 TACAAAA
1 TA-AAAA
56489682 GTATTTTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 3 0.05
7 7 0.12
8 11 0.19
9 27 0.46
10 11 0.19
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:56490145 original size:16 final size:16
Alignment explanation
Indices: 56490124--56490155 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56490114 TAGGGTGTGT
56490124 GTTTAAAAATAACATA
1 GTTTAAAAATAACATA
56490140 GTTTAAAAATAACATA
1 GTTTAAAAATAACATA
56490156 CAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
GTTTAAAAATAACATA
Done.