Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 176 of 335
Found at i:52859285 original size:42 final size:43
Alignment explanation
Indices: 52859194--52859291 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
52859184 TTAAAATCTA
* * *
52859194 CTAAAATCCTAAACCCTAACTTATTCTAACAAAAACTTAAAAC
1 CTAAAAACCTAAACCCTAAATTATTCTAACAAAAACCTAAAAC
* * * *
52859237 CT-AAAACCTAAACCCTAAATTATTTTAGCAAAACCCT-AACC
1 CTAAAAACCTAAACCCTAAATTATTCTAACAAAAACCTAAAAC
52859278 CTAAAAACCCTAAA
1 CTAAAAA-CCTAAA
52859292 AAACCCTAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.11
42 33 0.72
43 8 0.17
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (43 bp):
CTAAAAACCTAAACCCTAAATTATTCTAACAAAAACCTAAAAC
Found at i:52861670 original size:36 final size:36
Alignment explanation
Indices: 52861623--52861692 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
52861613 TGAGTGAGAG
*
52861623 TCAAATTGGAAAGCGGAAAATTGAACAGGTACTGAA
1 TCAAATTGGAAAGCGGAAAATTGAAAAGGTACTGAA
52861659 TCAAATTGGAAAGCGGAAAATTGAAAAGGTACTG
1 TCAAATTGGAAAGCGGAAAATTGAAAAGGTACTG
52861693 GATCTTGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (36 bp):
TCAAATTGGAAAGCGGAAAATTGAAAAGGTACTGAA
Found at i:52866319 original size:24 final size:23
Alignment explanation
Indices: 52866292--52866373 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
52866282 AAAATTTTTG
52866292 ATAATTATATATTTAAAAGTATTT
1 ATAATTATA-ATTTAAAAGTATTT
* *
52866316 ATAATT-TAA--TAAATGT-TGTG
1 ATAATTATAATTTAAAAGTAT-TT
* *
52866336 ATAATTATAATTTTAAAAATAATT
1 ATAATTATAA-TTTAAAAGTATTT
52866360 ATAATTATAATTTA
1 ATAATTATAATTTA
52866374 CAATTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 13 0.28
21 3 0.07
22 1 0.02
23 6 0.13
24 22 0.48
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATAATTATAATTTAAAAGTATTT
Found at i:52869742 original size:51 final size:49
Alignment explanation
Indices: 52869618--52869763 Score: 202
Period size: 51 Copynumber: 2.9 Consensus size: 49
52869608 TAGACAAGGC
* * *
52869618 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
52869667 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
*
52869718 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
52869764 TCACAATAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 38 0.46
50 4 0.05
51 41 0.49
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:52870040 original size:27 final size:27
Alignment explanation
Indices: 52870010--52870063 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52870000 TCATACAACC
* *
52870010 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
52870037 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
52870064 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:52872517 original size:51 final size:47
Alignment explanation
Indices: 52872442--52872627 Score: 282
Period size: 47 Copynumber: 3.9 Consensus size: 47
52872432 CTTCGGGACG
* *
52872442 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCT
* *
52872489 TATCACATATATACATACACCTTCACATCCATCACATCGGCCATTAGGCCT
1 TATCAC--ATAT--ATACACTTTCACATCCATCACATCGGCCATTCGGCCT
52872540 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCT
* *
52872587 TATCACATATATACACTTTCACATTCATCACATTGGCCATT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATT
52872628 AGGTATACAC
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 80 0.63
49 7 0.06
51 40 0.31
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCT
Found at i:52872636 original size:35 final size:35
Alignment explanation
Indices: 52872596--52872666 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
52872586 TTATCACATA
*
52872596 TATACACTTTCACATTCATCACATTGGCCATTAGG
1 TATACACTTTCACATTCATCACATTGGCCAATAGG
52872631 TATACACTTTCACATTCATCACATTGGCCAATAGG
1 TATACACTTTCACATTCATCACATTGGCCAATAGG
52872666 T
1 T
52872667 CTTATCTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (35 bp):
TATACACTTTCACATTCATCACATTGGCCAATAGG
Found at i:52872645 original size:98 final size:96
Alignment explanation
Indices: 52872442--52872630 Score: 301
Period size: 98 Copynumber: 2.0 Consensus size: 96
52872432 CTTCGGGACG
* *
52872442 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACATAC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCTTATCACA-ATATA-ATAC
52872507 ACCTTCACATCCATCACATCGGCCATTAGGCCT
64 ACCTTCACATCCATCACATCGGCCATTAGGCCT
52872540 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCTTATCAC-ATAT-ATACAC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCTTATCACAATATAATACAC
* * *
52872603 TTTCACATTCATCACATTGGCCATTAGG
66 CTTCACATCCATCACATCGGCCATTAGG
52872631 TATACACTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 31 0.36
96 4 0.05
98 51 0.59
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (96 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCATTCGGCCTTATCACAATATAATACAC
CTTCACATCCATCACATCGGCCATTAGGCCT
Found at i:52872660 original size:129 final size:129
Alignment explanation
Indices: 52872503--52872756 Score: 409
Period size: 129 Copynumber: 2.0 Consensus size: 129
52872493 ACATATATAC
*
52872503 ATACACCTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCAT
1 ATACACCTTCACATCCATCACATCGGCCAATAGGCCTTATCACATATATACACTTTCACATCCAT
*
52872568 CACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
* * * * * *
52872632 ATACACTTTCACATTCATCACATTGGCCAATAGGTCTTATCTCATATATACACTTTCACATTCAT
1 ATACACCTTCACATCCATCACATCGGCCAATAGGCCTTATCACATATATACACTTTCACATCCAT
* * *
52872697 CACATTGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCATT
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATT
52872757 CGGCCTTATC
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (129 bp):
ATACACCTTCACATCCATCACATCGGCCAATAGGCCTTATCACATATATACACTTTCACATCCAT
CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
Found at i:52872684 original size:47 final size:47
Alignment explanation
Indices: 52872631--52872792 Score: 297
Period size: 47 Copynumber: 3.4 Consensus size: 47
52872621 GGCCATTAGG
*
52872631 TATACACTTTCACATTCATCACATTGGCCAATAGGTCTTATCTCATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATA
52872678 TATACACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATA
* *
52872725 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATA
52872772 TATACACTTTCACATTCATCA
1 TATACACTTTCACATTCATCA
52872793 ATTTCATCAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.37
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATA
Found at i:52872686 original size:82 final size:83
Alignment explanation
Indices: 52872549--52872792 Score: 328
Period size: 82 Copynumber: 2.8 Consensus size: 83
52872539 TTATCACATA
* * *
52872549 TATACACTTTCACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTCACATTCA
52872614 TCACATTGGCCATTAGG-
66 TCACATTGGCCATTAGGT
* * *
52872631 TATACACTTTCACATTCATCACATTGGCCAATAGGTCTTATCTCATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTCACATTCA
52872696 TCACATTGGCCATTAGGTCTTATCTCAT
66 TCACATTGGCCATTAGG----------T
52872724 ATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTCACATTC
1 -TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTCACATTC
52872789 ATCA
65 ATCA
52872793 ATTTCATCAT
Statistics
Matches: 141, Mismatches: 9, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
82 76 0.54
94 65 0.46
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (83 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTCACATTCA
TCACATTGGCCATTAGGT
Found at i:52872756 original size:176 final size:178
Alignment explanation
Indices: 52872451--52872792 Score: 535
Period size: 176 Copynumber: 1.9 Consensus size: 178
52872441 GTATCACATT
* *
52872451 TATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACATACACCTTCACA
1 TATACACTTTCACATCCATCACATTGGCCAATAGGCCTTATCACA-ATATA-ATACACCTTCACA
52872516 TCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCATT
64 TCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCATT
52872581 CGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGG
129 CGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGG
* * * * *
52872631 TATACACTTTCACATTCATCACATTGGCCAATAGGTCTTATCTC-ATAT-ATACACTTTCACATT
1 TATACACTTTCACATCCATCACATTGGCCAATAGGCCTTATCACAATATAATACACCTTCACATC
* * * * *
52872694 CATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCATTCG
*
52872759 GCCTTATCTCATATATACACTTTCACATTCATCA
131 GCCTTATCACATATATACACTTTCACATTCATCA
52872793 ATTTCATCAT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
176 106 0.71
178 4 0.03
180 39 0.26
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (178 bp):
TATACACTTTCACATCCATCACATTGGCCAATAGGCCTTATCACAATATAATACACCTTCACATC
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCATTCG
GCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGG
Found at i:52879839 original size:56 final size:56
Alignment explanation
Indices: 52879777--52879896 Score: 224
Period size: 56 Copynumber: 2.2 Consensus size: 56
52879767 AAGCAAAATT
52879777 TTCCATCTTCTTCTTACTTATGCTAAAAATCTAAGGGTCACCATAACTAGGGTTTG
1 TTCCATCTTCTTCTTACTTATGCTAAAAATCTAAGGGTCACCATAACTAGGGTTTG
*
52879833 TTCCATCTTCTTCTTACTTATGCTAAAAATCTAAGGGTCACCATAGCTAGGGTTTG
1 TTCCATCTTCTTCTTACTTATGCTAAAAATCTAAGGGTCACCATAACTAGGGTTTG
52879889 TT-CATCTT
1 TTCCATCTT
52879897 TTCAAGCTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 6 0.10
56 57 0.90
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (56 bp):
TTCCATCTTCTTCTTACTTATGCTAAAAATCTAAGGGTCACCATAACTAGGGTTTG
Found at i:52880687 original size:22 final size:22
Alignment explanation
Indices: 52880662--52880711 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
52880652 TTAAGATACA
*
52880662 ATGTGACATTTCACTAGGAACT
1 ATGTGACATGTCACTAGGAACT
52880684 ATGTGACATGTCACTAGGAACT
1 ATGTGACATGTCACTAGGAACT
52880706 ATGTGA
1 ATGTGA
52880712 ATATGAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (22 bp):
ATGTGACATGTCACTAGGAACT
Found at i:52885101 original size:49 final size:49
Alignment explanation
Indices: 52885036--52885215 Score: 193
Period size: 49 Copynumber: 3.7 Consensus size: 49
52885026 TTGCGTGTCT
*
52885036 GTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCA
1 GTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCCA
* * * * * * **
52885085 GTGTAAGACCTGTCTGGAACACGGCATCAACCTTGATATATGAAAGTTA
1 GTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCCA
* * **
52885134 GTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCCA
1 GTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCCA
* **
52885181 GTGTAAGACCATGTCTAGGACATGGTGTCGACATC
1 GTGTAAGACC-TGTCTGGGACATGGCATCGACATC
52885216 TTATCCCATG
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
47 15 0.14
48 19 0.18
49 73 0.68
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCCA
Found at i:52891744 original size:30 final size:30
Alignment explanation
Indices: 52891710--52891770 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52891700 TCCTTAACTC
52891710 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52891740 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52891770 A
1 A
52891771 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52892660 original size:45 final size:46
Alignment explanation
Indices: 52892609--52892777 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 46
52892599 TACGAGAGCT
52892609 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTC
* * *
52892654 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTGATAGATGAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT--ATGTG-T-C
* *** * * *
52892704 AATGTAAGACCATGTCTGGGACACAACATCGGCTTTGATGTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGT--GTC
52892752 AGTGTAAGACCATGT-TCGGGACATGG
1 AGTGTAAGACCATGTCT-GGGACATGG
52892778 TGTCGGCACT
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 32 0.32
46 4 0.04
47 1 0.01
48 27 0.27
49 1 0.01
50 34 0.34
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTC
Found at i:52894221 original size:20 final size:20
Alignment explanation
Indices: 52894196--52894235 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52894186 CTCATATGGA
52894196 TTATTGTTTCGAACCTATCT
1 TTATTGTTTCGAACCTATCT
* *
52894216 TTATTGTTTTGAATCTATCT
1 TTATTGTTTCGAACCTATCT
52894236 ATCTATGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (20 bp):
TTATTGTTTCGAACCTATCT
Found at i:52894929 original size:77 final size:78
Alignment explanation
Indices: 52894802--52894957 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
52894792 GCGTGTTACA
*
52894802 AAAATATCATCGATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTGTTCACTAA
1 AAAATATCATCGATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTATTCACTAA
52894867 ATCCATAAA-ACC
66 ATCCATAAATACC
* * *
52894879 AAAATATCATCGATGAAAACAACCACGAATCTGTCTAGGTTTGGTCTGAAAATTCTATTCACTAA
1 AAAATATCATCGATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTATTCACTAA
52894944 ATCCATAAATACC
66 ATCCATAAATACC
52894957 A
1 A
52894958 TCGGGGCATT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 70 0.95
78 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (78 bp):
AAAATATCATCGATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTATTCACTAA
ATCCATAAATACC
Found at i:52896370 original size:34 final size:34
Alignment explanation
Indices: 52896327--52896394 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
52896317 TTTTCATAAG
52896327 TAAATACTTATCATATACCAATTAACCAAATGAT
1 TAAATACTTATCATATACCAATTAACCAAATGAT
52896361 TAAATACTTATCATATACCAATTAACCAAATGAT
1 TAAATACTTATCATATACCAATTAACCAAATGAT
52896395 CATCGTGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (34 bp):
TAAATACTTATCATATACCAATTAACCAAATGAT
Found at i:52897372 original size:43 final size:43
Alignment explanation
Indices: 52897325--52897449 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
52897315 ATCACATATT
* * * *
52897325 GATGCCATTATCCCAGACAAGGTCTTACACGAAATCATAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAC
* * *
52897368 GATGCCAATGTCCCAGACATGGTCTTTCATGTAATCACAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAC
* * * *
52897411 AATGCCAATGTCCCAAACATGGTCTTACATGTAATCACA
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
52897450 TCTTGATAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATAC
Found at i:52901233 original size:40 final size:40
Alignment explanation
Indices: 52901176--52901401 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
52901166 TCGAATGATG
* * * *
52901176 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
52901216 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52901256 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
52901296 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52901336 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
52901377 -CCGGGCCATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
52901402 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52904686 original size:42 final size:42
Alignment explanation
Indices: 52904627--52904709 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
52904617 CAGAAATATG
52904627 TAAGAAAGGGGTGCGAAGCATACCTTGCGTATGTACTTGATA
1 TAAGAAAGGGGTGCGAAGCATACCTTGCGTATGTACTTGATA
52904669 TAAGAAAGGGGTGCGAAGCATACCTTGCGTATGTACTTGAT
1 TAAGAAAGGGGTGCGAAGCATACCTTGCGTATGTACTTGAT
52904710 GACAAGGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (42 bp):
TAAGAAAGGGGTGCGAAGCATACCTTGCGTATGTACTTGATA
Found at i:52906615 original size:46 final size:46
Alignment explanation
Indices: 52906493--52906622 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 46
52906483 TGTAACCCGC
52906493 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG-ATTCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAATTCCTAG-T
* *
52906539 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-T
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-ATTC-CTAGT
*
52906586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
52906623 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
45 2 0.03
46 31 0.42
47 32 0.44
48 2 0.03
49 5 0.07
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAATTCCTAGT
Found at i:52906641 original size:46 final size:44
Alignment explanation
Indices: 52906501--52906641 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 44
52906491 GCCCATAAGC
*
52906501 GAACTCGGACTCAACTCAACGAGTTCGGATTCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATTCC-A---ACCATCT-AGT
* *
52906548 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATTC-CAACCATCTAGT
*
52906594 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATTC-CAACCAT-CTAGT
52906640 GA
1 GA
52906642 CATGTCACTT
Statistics
Matches: 80, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
49 5 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATTCCAACCATCTAGT
Found at i:52912110 original size:40 final size:41
Alignment explanation
Indices: 52912053--52912198 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
52912043 TCAAATGATG
* * *
52912053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGAGTTACTATA
*
52912093 TCCGGAG-TAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
1 TCCGG-GTTAAG-TCCCGAAGGCATTTGTGCTGAGTTACTATA
52912133 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGAGTTACTATA
* ** *
52912173 ACCGGGCCATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
52912199 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
39 2 0.02
40 81 0.88
41 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGAGTTACTATA
Found at i:52912205 original size:80 final size:80
Alignment explanation
Indices: 52912053--52912221 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 80
52912043 TCAAATGATG
* * *
52912053 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGAGTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGAGCAAGATCCGAAGGCATTT
**
52912118 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * *
52912133 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAACCGG-GCCATG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGAG-CAAGAT-CCGAAGGCA
*
52912195 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
52912213 TCC-GGTTAA
1 TCCGGGTTAA
52912222 ACTCCGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
79 10 0.13
80 60 0.79
81 6 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGAGCAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:52916263 original size:57 final size:57
Alignment explanation
Indices: 52916168--52916306 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 57
52916158 GCTATATTAT
* * * * *
52916168 AGGATTACCAGTCTAGGCTAAATCCTTTTCATATCATATACTCTGAAG-AGCTTA-AT-
1 AGGATTACCCGTCTGGGCTAAATCCCTCTCATAGCATATACTC--AAGCAGCTTACATC
*
52916224 ATGGATTACCCGTCTGGGCTAAATCCACTCT-ATAGCATATACTCAAGCGGCTTACATC
1 A-GGATTACCCGTCTGGGCTAAATCC-CTCTCATAGCATATACTCAAGCAGCTTACATC
*
52916282 AGGATTACCCGTCTGAGCTAAATCC
1 AGGATTACCCGTCTGGGCTAAATCC
52916307 TTTATACAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
55 3 0.04
56 6 0.08
57 59 0.83
58 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (57 bp):
AGGATTACCCGTCTGGGCTAAATCCCTCTCATAGCATATACTCAAGCAGCTTACATC
Found at i:52921316 original size:23 final size:22
Alignment explanation
Indices: 52921290--52921339 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
52921280 CTTCCTTTTG
* *
52921290 TTTTCTTTTTCTTC-CTTTCGCT
1 TTTTCCTTTGCTTCTCTTTC-CT
52921312 CTTTTCCTTTGCTTCTCTTTCCT
1 -TTTTCCTTTGCTTCTCTTTCCT
52921335 TTTTC
1 TTTTC
52921340 GCTTGGTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTCCTTTGCTTCTCTTTCCT
Found at i:52929411 original size:50 final size:50
Alignment explanation
Indices: 52929294--52929569 Score: 266
Period size: 50 Copynumber: 5.5 Consensus size: 50
52929284 CTGGTACGCA
** * **
52929294 TAGTAGCCTGCACTTAGTACTACACATATGACC-AACAATCCAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52929343 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *** * * * *
52929393 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
* * * * * * **
52929444 TAGGAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *
52929494 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
* *
52929546 TAGTAGCCTGTACATAGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
52929570 TATGTGTTCT
Statistics
Matches: 185, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 31 0.17
50 85 0.46
51 38 0.21
52 31 0.17
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:52931999 original size:28 final size:29
Alignment explanation
Indices: 52931959--52932070 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
52931949 TGGGAAGTAG
52931959 TTGGGCCTGATGGGCCATATGAATGTGA-
1 TTGGGCCTGATGGGCCATATGAATGTGAT
52931987 TTGGGCCTGATGGGCCATATGAATGTGAT
1 TTGGGCCTGATGGGCCATATGAATGTGAT
* **
52932016 TTGGGCCTAATGGGCCATACAAATGTGAT
1 TTGGGCCTGATGGGCCATATGAATGTGAT
*
52932045 TTGGGCCT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
52932071 ATGTATACTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
28 29 0.38
29 47 0.62
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.29
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGTGAT
Found at i:52932022 original size:57 final size:58
Alignment explanation
Indices: 52931959--52932070 Score: 165
Period size: 57 Copynumber: 1.9 Consensus size: 58
52931949 TGGGAAGTAG
* **
52931959 TTGGGCCTGATGGGCCATATGAATGTGA-TTGGGCCT-GATGGGCCATATGAATGTGAT
1 TTGGGCCTAATGGGCCATACAAATGTGATTTGGGCCTAG-TGGGCCATATGAATGTGAT
*
52932016 TTGGGCCTAATGGGCCATACAAATGTGATTTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATACAAATGTGATTTGGGCCTAGTGGGCCATATGAATGT
52932071 ATGTATACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 25 0.51
58 23 0.47
59 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.29
Consensus pattern (58 bp):
TTGGGCCTAATGGGCCATACAAATGTGATTTGGGCCTAGTGGGCCATATGAATGTGAT
Found at i:52932528 original size:15 final size:15
Alignment explanation
Indices: 52932510--52932538 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52932500 ATATTTATAA
52932510 AATTATTATTATTAT
1 AATTATTATTATTAT
52932525 AATTATTATTATTA
1 AATTATTATTATTA
52932539 GATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:52935307 original size:37 final size:37
Alignment explanation
Indices: 52935201--52935309 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
52935191 AGCTCAGATG
* * *
52935201 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52935238 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52935275 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52935310 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52935511 original size:48 final size:49
Alignment explanation
Indices: 52935456--52935899 Score: 619
Period size: 48 Copynumber: 8.9 Consensus size: 49
52935446 ACACATCGCC
*
52935456 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
* *
52935504 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* *
52935554 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
52935602 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* * *
52935654 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* * * **
52935706 TATATATTTCGCATTAGCCATTCAGCTTTAAAACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
52935754 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* *
52935806 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
52935854 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
52935900 TATGCATCAA
Statistics
Matches: 361, Mismatches: 23, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
48 178 0.49
49 2 0.01
50 42 0.12
52 139 0.39
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:52935760 original size:152 final size:149
Alignment explanation
Indices: 52935456--52935899 Score: 686
Period size: 152 Copynumber: 3.0 Consensus size: 149
52935446 ACACATCGCC
* *
52935456 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
*
52935517 CTAGCCATTCGACTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCT
66 TTAGCCATTCG-CTTTACCACATATACATATCTCATATATATATTTCACATTAG-CCATTCGGCT
*
52935581 TTACCACATATGCATATCTCA
129 TTACCACATATACATATCTCA
52935602 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
* * *
52935667 TTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTAGCCATTCAGC
66 TTAGCCATTC-GCTTTACCACATATACATATCTC--ATATATATATTTCACATTAGCCATTCGGC
**
52935732 TTTAAAACATATACATATCTCA
128 TTTACCACATATACATATCTCA
*
52935754 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
*
52935819 TTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTT
66 TTAGCCATTC-GCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTT
52935882 TACCACATATACATATCT
130 TACCACATATACATATCT
52935900 TATGCATCAA
Statistics
Matches: 273, Mismatches: 17, Indels: 14
0.90 0.06 0.05
Matches are distributed among these distances:
146 46 0.17
148 42 0.15
150 43 0.16
151 1 0.00
152 140 0.51
153 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (149 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
TTAGCCATTCGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTT
ACCACATATACATATCTCA
Found at i:52935761 original size:100 final size:97
Alignment explanation
Indices: 52935456--52935899 Score: 615
Period size: 100 Copynumber: 4.5 Consensus size: 97
52935446 ACACATCGCC
* *
52935456 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
52935521 CCATTCGACTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTCA-A
* *
52935554 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
52935618 GCCATTCGGCTTTACCACATATACATATCTCATATA
65 GCCATTCGGCTTTACCACATATACATATCTC--A-A
* * * * *
52935654 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
* **
52935719 TTAGCCATTCAGCTTTAAAACATATACATATCTC-A
62 TTAGCCATTCGGCTTTACCACATATACATATCTCAA
* *
52935754 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
52935819 TTAGCCATTCGGCTTTACCACATATACATATCTC-A
62 TTAGCCATTCGGCTTTACCACATATACATATCTCAA
52935854 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
52935900 TATGCATCAA
Statistics
Matches: 319, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
97 1 0.00
98 88 0.28
100 187 0.59
104 43 0.13
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (97 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCAA
Found at i:52940349 original size:2 final size:2
Alignment explanation
Indices: 52940342--52940374 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
52940332 ACCATTGACG
*
52940342 TA TA TA TA TA TA TG TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52940375 CAAACCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:52949940 original size:16 final size:17
Alignment explanation
Indices: 52949908--52949940 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52949898 CATCAAGAAG
52949908 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
52949926 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
52949941 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:52950209 original size:27 final size:27
Alignment explanation
Indices: 52950179--52950463 Score: 285
Period size: 27 Copynumber: 10.7 Consensus size: 27
52950169 TAATAAAGAG
* *
52950179 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
52950206 AAATTACCGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
52950233 AAATTACCGAAACACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
52950259 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
52950286 AAATTATTGAAATACCCCCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
52950313 AAATTACCGAAACA-CCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
52950339 AAATTA-TCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* **
52950365 AAATTA-TCAAAATACCCTTAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
52950392 AAATTACTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
52950419 AAATTA-TCAAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
52950446 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
52950464 TGTAGTGTAA
Statistics
Matches: 214, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
25 4 0.02
26 58 0.27
27 150 0.70
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:52950317 original size:80 final size:81
Alignment explanation
Indices: 52950179--52950463 Score: 317
Period size: 80 Copynumber: 3.6 Consensus size: 81
52950169 TAATAAAGAG
* * *
52950179 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGACTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
*
52950244 ACACCCTCGA-TTGTG
66 ACACCCTCGATTTGTA
* * ** * *
52950259 AAATTACCGAAATACCCTTGATTTGTAAAATTATTGAAATACCCCCGATTTGTGAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
*
52950324 ACA-CCTTGATTTGTA
66 ACACCCTCGATTTGTA
* * * * ** *
52950339 AAATTATC-AAATATCCTCGATTTGTAAAATTATCAAAATACCCTTAATTTGTAAAATTACTGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
* *
52950403 ATACCCCCGATTTGTA
66 ACACCCTCGATTTGTA
* * * *
52950419 AAATTATCAAAATACCCTTG-TAGTGTAAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
52950464 TGTAGTGTAA
Statistics
Matches: 171, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
79 54 0.32
80 89 0.52
81 28 0.16
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
ACACCCTCGATTTGTA
Found at i:52950417 original size:54 final size:54
Alignment explanation
Indices: 52950179--52950489 Score: 353
Period size: 54 Copynumber: 5.8 Consensus size: 54
52950169 TAATAAAGAG
* * * *
52950179 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
* * *
52950233 AAATTACCGAAACACCCTCGA-TTGTGAAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
* * * *
52950286 AAATTATTGAAATACCCCCGATTTGTGAAATTACCGAAACA-CCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
* * * * *
52950339 AAATTA-TCAAATATCCTCGATTTGTAAAATTATCAAAATACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
* * * *
52950392 AAATTACTGAAATACCCCCGATTTGTAAAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGAT-TTGTA
* * * *
52950446 AAATTACTGAAATACCCTTG-TAGTGTAAAATGACCGACATACCC
1 AAATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCC
52950490 CTGTAGGGTA
Statistics
Matches: 220, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
52 27 0.12
53 83 0.38
54 110 0.50
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
Found at i:52950487 original size:27 final size:27
Alignment explanation
Indices: 52950428--52950502 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
52950418 AAAATTATCA
* *
52950428 AAATACCCTTGTAGTGTAAAATTACTG
1 AAATACCCTTGTAGTGTAAAATGACCG
52950455 AAATACCCTTGTAGTGTAAAATGACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
* * *
52950482 ACATACCCCTGTAGGGTAAAA
1 AAATACCCTTGTAGTGTAAAA
52950503 GGATTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:52952087 original size:21 final size:21
Alignment explanation
Indices: 52952061--52952112 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
52952051 GGGGTTACAT
52952061 GCCCGTGTGGCTTTGGAACAC
1 GCCCGTGTGGCTTTGGAACAC
*
52952082 GCCCGTGTGGCTTTGGGACAC
1 GCCCGTGTGGCTTTGGAACAC
*
52952103 GCCTGTGTGG
1 GCCCGTGTGG
52952113 GTAGGCTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.27, G:0.38, T:0.25
Consensus pattern (21 bp):
GCCCGTGTGGCTTTGGAACAC
Found at i:52959773 original size:67 final size:68
Alignment explanation
Indices: 52959691--52959841 Score: 193
Period size: 67 Copynumber: 2.2 Consensus size: 68
52959681 GCCAGTTTAT
* * * *
52959691 CTCGTAGCTCTCTTGTCTACATGGTGTCCTTTACCTAGAACCACGCATGCGACCTAGCTACAT-A
1 CTCGTAGCTCTCTTGTCTACATGGTGTAC---ACATAGAACCACCCATGCAACCTAGCTACATCA
52959755 T-AT-C
63 TAATGC
* *
52959759 CT-GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACATCATAA
1 CTCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCAACCTAGCTACATCATAA
52959823 TGC
66 TGC
52959826 CTCGTAGCTCTCTTGT
1 CTCGTAGCTCTCTTGT
52959842 ACACATGATG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 26 0.36
65 2 0.03
66 2 0.03
67 28 0.38
68 15 0.21
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (68 bp):
CTCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCAACCTAGCTACATCATAA
TGC
Found at i:52967440 original size:28 final size:27
Alignment explanation
Indices: 52967409--52967471 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
52967399 AGTTACTAGA
*
52967409 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* * *
52967437 ATACCCCT-AGGTGTAAAATGATCATT
1 ATACCCCTAAGATGGAAAATGACCATT
52967463 ATACCCCTA
1 ATACCCCTA
52967472 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:52967636 original size:27 final size:26
Alignment explanation
Indices: 52967579--52967689 Score: 105
Period size: 27 Copynumber: 4.2 Consensus size: 26
52967569 AGGAAGCATC
* *
52967579 CTGGTGGCTATGCCAAATTATCTGTT
1 CTGGTGGCTCTGCCAAAATATCTGTT
*
52967605 CTGGTGGTTCTGCCAGAAATATCTGTT
1 CTGGTGGCTCTGCCA-AAATATCTGTT
*
52967632 TTGGTGGCTCTGCCATAAATATCTGTGT
1 CTGGTGGCTCTGCCA-AAATATCTGT-T
* * * * * *
52967660 CTAGTGACTATGTCACATTATCTGTT
1 CTGGTGGCTCTGCCAAAATATCTGTT
52967686 CTGG
1 CTGG
52967690 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 17 0.25
27 41 0.59
28 11 0.16
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAAATATCTGTT
Found at i:52969728 original size:40 final size:40
Alignment explanation
Indices: 52969660--52969883 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
52969650 AACCAAGTAT
* * * *
52969660 CTTCGGGATTTAG-TCGGATATCGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
52969699 CTTCGGGACTTAACCCGGATATAGTAACTCGCACACATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * *
52969739 CTTTGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
52969779 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATGC
*
52969822 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
52969862 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52969884 CATCCGAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 11 0.07
40 110 0.70
42 1 0.01
43 36 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:52969846 original size:83 final size:80
Alignment explanation
Indices: 52969684--52969883 Score: 283
Period size: 83 Copynumber: 2.5 Consensus size: 80
52969674 CGGATATCGC
* * * * * *
52969684 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATGCCTTTGGGTCT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
52969749 TAGCCCGGAAATAGT
66 TAGCCCGGAAATAGT
* *
52969764 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGG
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGG
*
52969829 ACTTAGCCCGGATATAGT
63 ACTTAGCCCGGAAATAGT
*
52969847 AACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
52969884 CATCCGAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 35 0.33
81 1 0.01
83 69 0.66
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
TAGCCCGGAAATAGT
Found at i:52974735 original size:28 final size:28
Alignment explanation
Indices: 52974689--52974757 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
52974679 TTTAAAACCC
*
52974689 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52974716 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52974744 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52974758 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52975423 original size:27 final size:27
Alignment explanation
Indices: 52975392--52975552 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
52975382 TTCTACCCTA
*
52975392 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
52975419 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
52975446 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
52975473 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
52975500 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
52975527 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
52975553 TTGAAGGTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:52975462 original size:54 final size:54
Alignment explanation
Indices: 52975395--52975545 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
52975385 TACCCTACAA
* *
52975395 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
52975449 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
52975503 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
52975546 CTATAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:52975569 original size:27 final size:27
Alignment explanation
Indices: 52975538--52975788 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 27
52975528 AAGGGTATTT
* *
52975538 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
52975565 CGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* * *
52975592 CGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
52975619 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
52975646 TGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
52975673 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
52975700 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
** * * *
52975727 CAGTAATTTTGTAAACTGACGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
*
52975754 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
52975781 TGGTAATT
1 TGGTAATT
52975789 TTACAAGTCG
Statistics
Matches: 189, Mismatches: 35, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATTGAGGGTAAAA
Found at i:52975571 original size:81 final size:81
Alignment explanation
Indices: 52975403--52975572 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
52975393 AAGGGTATTT
* * * *
52975403 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
***
52975468 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
52975484 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
**
52975549 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
52975565 CGGTAATT
1 CGGTAATT
52975573 CTGTAAACTG
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
TAAACCAAGGGTAAAA
Found at i:52975790 original size:54 final size:54
Alignment explanation
Indices: 52975538--52975788 Score: 385
Period size: 54 Copynumber: 4.6 Consensus size: 54
52975528 AAGGGTATTT
* * * **
52975538 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
52975592 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
52975646 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* * * *
52975700 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTGACGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
52975754 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
52975789 TTACAAGTCG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 181 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:52977140 original size:15 final size:15
Alignment explanation
Indices: 52977120--52977149 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52977110 GTCTACTCAT
52977120 TACTTCTAGGCCCAA
1 TACTTCTAGGCCCAA
52977135 TACTTCTAGGCCCAA
1 TACTTCTAGGCCCAA
52977150 ATTCGGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (15 bp):
TACTTCTAGGCCCAA
Found at i:52980917 original size:46 final size:46
Alignment explanation
Indices: 52980862--52981042 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
52980852 TAGGATGGTT
52980862 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52980908 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
52980954 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
52981001 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52981043 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:52981023 original size:93 final size:93
Alignment explanation
Indices: 52980864--52981034 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52980854 GGATGGTTGA
* *
52980864 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52980929 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52980957 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52981022 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52981035 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52984029 original size:15 final size:15
Alignment explanation
Indices: 52983990--52984068 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
52983980 GTATCTTGGG
*
52983990 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
52984005 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
52984020 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
52984034 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
52984049 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
52984063 TTTCTT
1 TTTCTT
52984069 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52984053 original size:29 final size:29
Alignment explanation
Indices: 52983981--52984067 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
52983971 CATAGTATCG
* * * *
52983981 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
52984011 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
52984040 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
52984068 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:52986497 original size:46 final size:46
Alignment explanation
Indices: 52986442--52986622 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
52986432 TAGGATGGTT
52986442 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52986488 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
52986534 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
52986581 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52986623 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:52986603 original size:93 final size:93
Alignment explanation
Indices: 52986444--52986614 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
52986434 GGATGGTTGA
* * *
52986444 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
52986509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52986537 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
52986602 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52986615 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52993206 original size:27 final size:27
Alignment explanation
Indices: 52993171--52993430 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
52993161 TTAGTATACC
*
52993171 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52993198 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52993225 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
52993252 AAATTACTAAAATACCATTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52993279 AAATTACCAAAATACCCAT-GTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52993305 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
52993332 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
52993359 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* **
52993386 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
52993413 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
52993431 AATTTATAGA
Statistics
Matches: 202, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 27 0.13
27 172 0.85
28 3 0.01
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52993395 original size:134 final size:134
Alignment explanation
Indices: 52993171--52993429 Score: 349
Period size: 134 Copynumber: 1.9 Consensus size: 134
52993161 TTAGTATACC
* * **
52993171 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
* ** * *
52993236 ATACCCTTAGTTTGTAAAATTACTAAAATACCATTGATTTATAAAATTACCAAAATACCCATGTT
66 ATACCCTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTT
52993301 TGTA
131 TGTA
* *** *
52993305 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAA
1 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
* * *
52993370 ATACCCTCGA-CCTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
66 ATACCCT-GAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCC
52993430 CAATTTATAG
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 106 0.99
135 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (134 bp):
AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
ATACCCTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTT
TGTA
Found at i:52993444 original size:107 final size:106
Alignment explanation
Indices: 52993171--52993444 Score: 316
Period size: 107 Copynumber: 2.5 Consensus size: 106
52993161 TTAGTATACC
* * * ** *
52993171 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCAT-GCTTGTAAAATTACCAAAATACCC-CAGTTTATAAAATTACCAAA
* * * **
52993236 ATACCCTTAGTTTGTAAAATTACTAAAATACCATTGATTTATA
64 ATACCCCTAATTTGTAAAATTACTAAAATACCATCGACCTATA
* *
52993279 AAATTACCAAAATACCCATGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 AAATTACCAAAATACCCATGCTTGTAAAATTACCAAAATACCCC-AGTTTATAAAATTACCAAAA
* * *
52993344 TACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTA
65 TACCCCTAATTTGTAAAATTACTAAAATACCATCGACCTATA
* * * *
52993386 AAATTACTAAAATACCC-TCGACTTGTAAAATTACCAAAGTACCCCAATTTATAGAATTA
1 AAATTACCAAAATACCCAT-G-CTTGTAAAATTACCAAAATACCCCAGTTTATAAAATTA
52993445 TCGTTTTACC
Statistics
Matches: 143, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 103 0.72
108 39 0.27
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (106 bp):
AAATTACCAAAATACCCATGCTTGTAAAATTACCAAAATACCCCAGTTTATAAAATTACCAAAAT
ACCCCTAATTTGTAAAATTACTAAAATACCATCGACCTATA
Found at i:52993497 original size:27 final size:27
Alignment explanation
Indices: 52993467--52993607 Score: 167
Period size: 27 Copynumber: 5.3 Consensus size: 27
52993457 CGATTTACAA
*
52993467 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
52993494 AATTATCAAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
52993521 AATTACCTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52993548 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
52993575 AATTACTGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
52993601 AATTACC
1 AATTACC
52993608 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 16 0.16
27 81 0.84
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:52994027 original size:22 final size:22
Alignment explanation
Indices: 52993997--52994058 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
52993987 AATTATTCTG
* *
52993997 ATTATGGCTTTGCGCCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
52994019 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
52994041 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
52994059 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:52994318 original size:27 final size:26
Alignment explanation
Indices: 52994217--52994320 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
52994207 ATTCTGTTAA
* * *
52994217 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
52994244 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
52994271 GCGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
52994298 GTGACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCACAATATCTGTT
52994321 TTGGCAGCCA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
26 9 0.14
27 51 0.78
28 5 0.08
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:52994503 original size:6 final size:6
Alignment explanation
Indices: 52994492--52994560 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
52994482 TTGTCACCTA
* * *
52994492 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
52994541 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
52994561 AATGTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52994503 original size:25 final size:25
Alignment explanation
Indices: 52994447--52994506 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
52994437 TTCACATTTC
* * *
52994447 GATTCTAATTTTGTTACCTGATACT
1 GATTCTGATTTTGTCACCTAATACT
*
52994472 GATTCTGATTTTGTCACCTAATTCT
1 GATTCTGATTTTGTCACCTAATACT
52994497 GATTCTGATT
1 GATTCTGATT
52994507 CTGATTCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (25 bp):
GATTCTGATTTTGTCACCTAATACT
Found at i:52994505 original size:31 final size:31
Alignment explanation
Indices: 52994464--52994546 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
52994454 ATTTTGTTAC
*
52994464 CTGATACTGATTCTGATTTTGTCACCTAATT
1 CTGATTCTGATTCTGATTTTGTCACCTAATT
* *
52994495 CTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTTTGTCACCTAATT
* *
52994526 CTGATTCTAATTCTCATTTTG
1 CTGATTCTGATTCTGATTTTG
52994547 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTTTGTCACCTAATT
Found at i:52996486 original size:27 final size:27
Alignment explanation
Indices: 52996456--52996716 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
52996446 TTAGTTTACC
* *
52996456 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
52996483 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
**
52996510 AAATTACCAAAATACCTTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
52996537 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
52996564 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
52996591 AAATTACCAACATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
52996618 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
** * **
52996645 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
** **
52996672 AAATTACTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
52996699 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
52996717 CGATTTATAG
Statistics
Matches: 197, Mismatches: 34, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 190 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:52996756 original size:81 final size:81
Alignment explanation
Indices: 52996613--52996768 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
52996603 TACCCCTAGT
* * * **
52996613 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCCAATTTATGAAATTACCGAAATACCCTCGACCTACAAAATTA
52996678 -CTGAAATACCCTCAAC
66 TC-GAAATACCCTCAAC
* * *** *
52996694 TTGTAAAATTACCAAAGTACCCCCGATTTAT-AGAATTACCGTTTTACCCTCGACTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCCAATTTATGA-AATTACCGAAATACCCTCGACCTACAAAATT
52996758 ATCGAAATACC
65 ATCGAAATACC
52996769 TTTGTAGGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.97
82 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCCAATTTATGAAATTACCGAAATACCCTCGACCTACAAAATTA
TCGAAATACCCTCAAC
Found at i:52996768 original size:27 final size:26
Alignment explanation
Indices: 52996645--52996768 Score: 95
Period size: 27 Copynumber: 4.6 Consensus size: 26
52996635 CTAATTTGTG
* *
52996645 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTAC-GAAATACCCTCGACTTATA
* *
52996672 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTAC-GAAATACCCTCGACTTATA
* * *
52996699 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACGAAA-TACCCTCGACTTATA
* *** *
52996726 GAATTACCGTTTTACCCTCGACTTACA
1 AAATTA-CGAAATACCCTCGACTTATA
52996753 AAATTATCGAAATACC
1 AAATTA-CGAAATACC
52996769 TTTGTAGGGT
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 3 0.04
27 71 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGACTTATA
Found at i:52996784 original size:27 final size:27
Alignment explanation
Indices: 52996754--52996895 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
52996744 CGACTTACAA
* *
52996754 AATTATCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52996781 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
52996808 AATTACCTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52996835 AAATACCGAATTACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52996862 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
52996889 AATTACC
1 AATTACC
52996896 ATTTTGCCCC
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:52997220 original size:22 final size:22
Alignment explanation
Indices: 52997190--52997251 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
52997180 AATTATTCTA
* *
52997190 ATTATGGCTTTGCGCCAACCT-
1 ATTATGGCTGTGTGCCAACCTG
52997211 ATATATGGCTGTGTGCCAACCTG
1 AT-TATGGCTGTGTGCCAACCTG
52997234 ATTATGGCTGTGTGCCAA
1 ATTATGGCTGTGTGCCAA
52997252 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (22 bp):
ATTATGGCTGTGTGCCAACCTG
Found at i:52997513 original size:27 final size:27
Alignment explanation
Indices: 52997410--52997518 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
52997400 ATTCTGTTAA
* * *
52997410 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
52997437 GTGGCTATGCCACAAATATCTGT-TCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
*
52997464 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
52997491 GTGACTCTGTCACAATATCTGTA-CTG
1 GTGGCTCTGCCACAATATCTGTATCTG
52997517 GT
1 GT
52997519 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 51 0.70
28 8 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:52997666 original size:25 final size:25
Alignment explanation
Indices: 52997638--52997693 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
52997628 CATTCACATT
* *
52997638 CTGATTCTAATTATGTTACCTGATA
1 CTGATTCTAATTATGTCACCTAATA
* *
52997663 CTGATTCTAATTTTGTCACCTAATT
1 CTGATTCTAATTATGTCACCTAATA
52997688 CTGATT
1 CTGATT
52997694 TTGATTCTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (25 bp):
CTGATTCTAATTATGTCACCTAATA
Found at i:52997692 original size:31 final size:31
Alignment explanation
Indices: 52997657--52997739 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
52997647 ATTATGTTAC
*
52997657 CTGATACTGATTCTAATTTTGTCACCTAATT
1 CTGATTCTGATTCTAATTTTGTCACCTAATT
* * * *
52997688 CTGATTTTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTAATTTTGTCACCTAATT
* *
52997719 TTGATTCTGATTCTCATTTTG
1 CTGATTCTGATTCTAATTTTG
52997740 ATTCGAGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
CTGATTCTGATTCTAATTTTGTCACCTAATT
Found at i:52997704 original size:6 final size:6
Alignment explanation
Indices: 52997685--52997753 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
52997675 TTGTCACCTA
* * * *
52997685 ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG ATTTTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
52997734 ATTTTG ATTC-G AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
52997754 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
5 3 0.06
6 39 0.81
7 5 0.10
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:53007976 original size:46 final size:44
Alignment explanation
Indices: 53007925--53008098 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 44
53007915 GGTTGAGCAT
*
53007925 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGA
* * *
53007971 TCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATGTAACTAGGCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--G-A
* * *
53008017 CCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGC
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGA
* *
53008064 CCGAGCTCGCTGAGTTGAGTCCGAGTTCACTTAGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
53008099 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATGA
Found at i:53010949 original size:63 final size:63
Alignment explanation
Indices: 53010844--53011014 Score: 193
Period size: 63 Copynumber: 2.7 Consensus size: 63
53010834 GTCTAGGCCG
* * * * *
53010844 TGTGACTCACTATTTTACCTTTAGAGACCACACGGGCTAGAGACACGGGCATGTCTCCAGG-C-
1 TGTGACTCACTGTTTT-CCATTAAAGAGCACACGGGCTAGAGACACGGGCATATCTCCAGGTCA
* * * * *
53010906 TGTGTAACTCATTGTTTTCCATTAAGGATCACACGGGCCAGAGACACGGGCATATGTCCAGGTCA
1 TGTG--ACTCACTGTTTTCCATTAAAGAGCACACGGGCTAGAGACACGGGCATATCTCCAGGTCA
* *
53010971 TGTGACTCACTGTTTTCTATTAAAGAGCACACGAGCTAGAGACA
1 TGTGACTCACTGTTTTCCATTAAAGAGCACACGGGCTAGAGACA
53011015 TGTGTCTAGG
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
62 4 0.04
63 71 0.79
64 11 0.12
65 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (63 bp):
TGTGACTCACTGTTTTCCATTAAAGAGCACACGGGCTAGAGACACGGGCATATCTCCAGGTCA
Found at i:53019176 original size:29 final size:28
Alignment explanation
Indices: 53019144--53019246 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53019134 GTGACGAGAT
* *
53019144 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53019173 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53019202 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53019231 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53019247 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53026975 original size:29 final size:28
Alignment explanation
Indices: 53026943--53027045 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53026933 GTGACGAGAT
* *
53026943 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53026972 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53027001 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53027030 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53027046 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53033107 original size:40 final size:40
Alignment explanation
Indices: 53033062--53033191 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
53033052 CGGAATATAA
53033062 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
53033102 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
53033142 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
53033182 CCGGATATAA
1 CCGGATATAA
53033192 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53033206 original size:40 final size:40
Alignment explanation
Indices: 53033078--53033229 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
53033068 ATAAGCATGT
* * *
53033078 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
53033118 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
53033158 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
53033198 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53033230 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:53033212 original size:80 final size:80
Alignment explanation
Indices: 53033078--53033229 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
53033068 ATAAGCATGT
* *
53033078 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
53033143 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
53033158 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
53033221 CCCGGATAT
64 CCCGGATAT
53033230 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:53039400 original size:21 final size:21
Alignment explanation
Indices: 53039356--53039400 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
53039346 CCTTAAACTT
**
53039356 TTAAGAAAACTAAATATTCTC
1 TTAAGAAAACTAAATATTAAC
* *
53039377 TTAAGGAAACTACATATTAAC
1 TTAAGAAAACTAAATATTAAC
53039398 TTA
1 TTA
53039401 CCATTTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAAGAAAACTAAATATTAAC
Found at i:53043287 original size:17 final size:17
Alignment explanation
Indices: 53043261--53043322 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
53043251 TTTAGGATAA
53043261 ATTTTAATTGATTTATG
1 ATTTTAATTGATTTATG
* * *
53043278 ATTTTGATTGATATA-A
1 ATTTTAATTGATTTATG
53043294 ATTTTAATTGATTTATG
1 ATTTTAATTGATTTATG
*
53043311 ATTTTGATTGAT
1 ATTTTAATTGAT
53043323 AGATTTTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
16 13 0.35
17 24 0.65
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (17 bp):
ATTTTAATTGATTTATG
Found at i:53043299 original size:33 final size:33
Alignment explanation
Indices: 53043257--53043323 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
53043247 CATATTTAGG
53043257 ATAAATTTTAATTGATTTATGATTTTGATTGAT
1 ATAAATTTTAATTGATTTATGATTTTGATTGAT
53043290 ATAAATTTTAATTGATTTATGATTTTGATTGAT
1 ATAAATTTTAATTGATTTATGATTTTGATTGAT
53043323 A
1 A
53043324 GATTTTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (33 bp):
ATAAATTTTAATTGATTTATGATTTTGATTGAT
Found at i:53043303 original size:16 final size:16
Alignment explanation
Indices: 53043257--53043305 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
53043247 CATATTTAGG
53043257 ATAAATTTTAATTGAT
1 ATAAATTTTAATTGAT
* * *
53043273 TTATGATTTTGATTGAT
1 ATA-AATTTTAATTGAT
53043290 ATAAATTTTAATTGAT
1 ATAAATTTTAATTGAT
53043306 TTATGATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
ATAAATTTTAATTGAT
Found at i:53057710 original size:29 final size:29
Alignment explanation
Indices: 53057677--53057750 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
53057667 TAGTGTTCAA
*
53057677 GGGTTCTGAAAAAATAATTTTGACTAGAT
1 GGGTTCTGAAAAAATAATTTTGACGAGAT
*
53057706 GGGTTTTGAAAAAATAATTTTGACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACGAGAT
* *
53057735 GAGTTCTGAGAAAATA
1 GGGTTCTGAAAAAATA
53057751 TCTCGGGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.32
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACGAGAT
Found at i:53060176 original size:25 final size:25
Alignment explanation
Indices: 53060147--53060194 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53060137 CTATAACATG
* * *
53060147 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53060172 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53060195 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53060261 original size:20 final size:20
Alignment explanation
Indices: 53060238--53060276 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53060228 TAAACATGGT
*
53060238 ATGTATGATATGCTCATGAC
1 ATGTATGATATGCACATGAC
53060258 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
53060277 TGTAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:53060357 original size:23 final size:23
Alignment explanation
Indices: 53060327--53060493 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
53060317 AGGAAGTGAA
53060327 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
53060350 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
53060374 AAAGGGCTTATGCCCTAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
53060398 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
53060421 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
53060444 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
53060467 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
53060491 AAA
1 AAA
53060494 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 70 0.52
24 65 0.48
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:53060382 original size:24 final size:23
Alignment explanation
Indices: 53060326--53060500 Score: 251
Period size: 24 Copynumber: 7.4 Consensus size: 23
53060316 GAGGAAGTGA
53060326 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
53060349 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
53060372 CAAAAGGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
53060396 CAAAAGGGCTTATACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
53060420 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
53060443 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
53060467 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
53060491 AAAAGAGGCT
1 AAAAG-GGCT
53060501 AGGCCTCCAG
Statistics
Matches: 140, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
23 65 0.46
24 71 0.51
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:53060395 original size:47 final size:46
Alignment explanation
Indices: 53060326--53060493 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 46
53060316 GAGGAAGTGA
53060326 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
53060372 CAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
53060420 TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-T
*
53060467 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
53060494 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
46 20 0.18
47 69 0.63
48 21 0.19
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:53060742 original size:31 final size:31
Alignment explanation
Indices: 53060707--53060770 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53060697 CGTTTACAGT
*
53060707 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
** *
53060738 AAAGGCTTCGGCCCAATGTTATGAATTATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
53060769 AA
1 AA
53060771 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:53066286 original size:19 final size:17
Alignment explanation
Indices: 53066258--53066347 Score: 85
Period size: 18 Copynumber: 5.0 Consensus size: 17
53066248 TATAAGTAAT
53066258 AAAAAGAAAGATAGAAACG
1 AAAAAGAAAGA-AGAAA-G
*
53066277 AAACAGAAAGAAGAAAG
1 AAAAAGAAAGAAGAAAG
*
53066294 AAAAAGAAA-AAGAAAA
1 AAAAAGAAAGAAGAAAG
53066310 AAGGAAAGAAAGAA-AAAG
1 AA--AAAGAAAGAAGAAAG
53066328 AAAAAAGGAAAGAAAGAAAG
1 -AAAAA-GAAAG-AAGAAAG
53066348 GAGAAAGACA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.13
17 12 0.20
18 20 0.33
19 16 0.27
20 4 0.07
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.01
Consensus pattern (17 bp):
AAAAAGAAAGAAGAAAG
Found at i:53066293 original size:7 final size:7
Alignment explanation
Indices: 53066281--53066355 Score: 61
Period size: 6 Copynumber: 11.0 Consensus size: 7
53066271 GAAACGAAAC
53066281 AGAAAGA
1 AGAAAGA
53066288 AGAAAGA
1 AGAAAGA
53066295 A-AAAGA
1 AGAAAGA
53066301 A-AAAGA
1 AGAAAGA
*
53066307 AAAAAGGAA
1 AGAAA-G-A
53066316 AGAAAGA
1 AGAAAGA
53066323 A-AAAGA
1 AGAAAGA
53066329 A-AAA-A
1 AGAAAGA
*
53066334 GGAAAGAA
1 AGAAAG-A
*
53066342 AGAAAGG
1 AGAAAGA
53066349 AGAAAGA
1 AGAAAGA
53066356 CAGGGCTAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
5 1 0.02
6 24 0.42
7 19 0.33
8 8 0.14
9 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:53066294 original size:4 final size:4
Alignment explanation
Indices: 53066260--53066347 Score: 62
Period size: 4 Copynumber: 22.0 Consensus size: 4
53066250 TAAGTAATAA
* *
53066260 AAAG AAAG ATAG AAACG AAACAG AAAG -AAG AAAG AAA- AAGAA AAAG
1 AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AA-AG AAAG
53066306 AAA- AAAGG AAAG AAAG -AA- AAAG AAA- AAAGG AAAG AAAG AAAG
1 AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAA-G AAAG AAAG AAAG
53066348 GAGAAAGACA
Statistics
Matches: 69, Mismatches: 3, Indels: 24
0.72 0.03 0.25
Matches are distributed among these distances:
3 15 0.22
4 39 0.57
5 11 0.16
6 3 0.04
7 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:53066295 original size:22 final size:22
Alignment explanation
Indices: 53066260--53066355 Score: 95
Period size: 22 Copynumber: 4.2 Consensus size: 22
53066250 TAAGTAATAA
* * *
53066260 AAAGAAAGATAGAAACGAAACAG
1 AAAGAAGGAAAGAAA-GAAAAAG
53066283 AAAGAA-GAAAGAAAAAGAAAAAG
1 AAAGAAGGAAAG--AAAGAAAAAG
*
53066306 AAAAAAGGAAAGAAAGAAAAAG
1 AAAGAAGGAAAGAAAGAAAAAG
* *
53066328 AAAAAAGGAAAGAAAGAAAGGAG
1 AAAGAAGGAAAGAAAGAAA-AAG
53066351 AAAGA
1 AAAGA
53066356 CAGGGCTAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
22 33 0.52
23 23 0.36
24 8 0.12
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.01
Consensus pattern (22 bp):
AAAGAAGGAAAGAAAGAAAAAG
Found at i:53066302 original size:23 final size:24
Alignment explanation
Indices: 53066258--53066342 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 24
53066248 TATAAGTAAT
*
53066258 AAAAA-GAAAGATAGAAACGAAACAGA
1 AAAAAGGAAAGA-A-AAA-GAAAAAGA
*
53066284 AAGAA-GAAAGAAAAAGAAAAAGA
1 AAAAAGGAAAGAAAAAGAAAAAGA
53066307 AAAAAGGAAAG--AAAGAAAAAGA
1 AAAAAGGAAAGAAAAAGAAAAAGA
53066329 AAAAAGGAAAGAAA
1 AAAAAGGAAAGAAA
53066343 GAAAGGAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
22 22 0.42
23 11 0.21
24 9 0.17
25 1 0.02
26 10 0.19
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.01
Consensus pattern (24 bp):
AAAAAGGAAAGAAAAAGAAAAAGA
Found at i:53066316 original size:8 final size:7
Alignment explanation
Indices: 53066283--53066346 Score: 62
Period size: 7 Copynumber: 9.0 Consensus size: 7
53066273 AACGAAACAG
*
53066283 AAAGAAG
1 AAAGAAA
53066290 AAAG-AA
1 AAAGAAA
53066296 AAAG-AA
1 AAAGAAA
53066302 AAAGAAA
1 AAAGAAA
53066309 AAAGGAAA
1 AAA-GAAA
53066317 GAAAG-AA
1 -AAAGAAA
53066324 AAAGAAA
1 AAAGAAA
53066331 AAAGGAAA
1 AAA-GAAA
53066339 GAAAGAAA
1 -AAAGAAA
53066347 GGAGAAAGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
6 15 0.30
7 16 0.32
8 13 0.26
9 6 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:53066333 original size:35 final size:35
Alignment explanation
Indices: 53066258--53066349 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 35
53066248 TATAAGTAAT
* *
53066258 AAAAAG-AAAGATAGAAACGAAACAGAAAGAAGAAAG
1 AAAAAGAAAAGAAAGAAA-GGAA-AGAAAGAAGAAAG
53066294 AAAAAGAAAAAGAAA-AAAGGAAAGAAAGAA-AAAG
1 AAAAAG-AAAAGAAAGAAAGGAAAGAAAGAAGAAAG
*
53066328 AAAAAAGGAAAGAAAGAAAGGA
1 -AAAAAGAAAAGAAAGAAAGGA
53066350 GAAAGACAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
34 11 0.22
35 20 0.41
36 9 0.18
37 3 0.06
38 6 0.12
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.01
Consensus pattern (35 bp):
AAAAAGAAAAGAAAGAAAGGAAAGAAAGAAGAAAG
Found at i:53067242 original size:41 final size:40
Alignment explanation
Indices: 53067196--53067309 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 40
53067186 ACTTTGAGTT
**
53067196 GATGAGACATTGGGTGTCAATTTATTACTTCGAATTTATTC
1 GATGAGACATTGGGTGTCAA-TTATTACTTCGAATTTAGCC
* * * *
53067237 GATGAGGCATTGGGTG-CCAGT-TTACTTCG-GTTTAGCC
1 GATGAGACATTGGGTGTCAATTATTACTTCGAATTTAGCC
* * *
53067274 GATAAGACATTAGGTGTCAAATTATTACTTCAAATT
1 GATGAGACATTGGGTGTC-AATTATTACTTCGAATT
53067310 ATCCAATGAA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
37 18 0.32
38 9 0.16
39 3 0.05
40 9 0.16
41 17 0.30
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (40 bp):
GATGAGACATTGGGTGTCAATTATTACTTCGAATTTAGCC
Found at i:53070710 original size:18 final size:17
Alignment explanation
Indices: 53070666--53070700 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53070656 ATTAATAAAA
53070666 AAATAAAAATAGAATTT
1 AAATAAAAATAGAATTT
53070683 AAATAAAAATAGAATTT
1 AAATAAAAATAGAATTT
53070700 A
1 A
53070701 GTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAAAAATAGAATTT
Found at i:53071452 original size:16 final size:16
Alignment explanation
Indices: 53071383--53071459 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 16
53071373 ACATAAAAGT
*
53071383 AAAA-AAAAAATTAGA
1 AAAATAAAAAATTATA
**
53071398 AAAATCTAAAATTATGAA
1 AAAATAAAAAATTAT--A
53071416 AAAATAATAAAACTCCT-TA
1 AAAATAA-AAAA-T--TATA
53071435 AAAATAAAAAATTATA
1 AAAATAAAAAATTATA
53071451 AAACATAAA
1 AAA-ATAAA
53071460 TCTTTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.10
16 12 0.25
17 6 0.12
18 10 0.21
19 12 0.25
20 1 0.02
21 1 0.02
22 1 0.02
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATAAAAAATTATA
Found at i:53072258 original size:26 final size:26
Alignment explanation
Indices: 53072229--53072281 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
53072219 GGCCGATCTG
*
53072229 GGTTTGGGCCTAGCAAACAAGCCTAA
1 GGTTTGGACCTAGCAAACAAGCCTAA
** *
53072255 GGTTTGGATTTAGCAAATAAGCCTAA
1 GGTTTGGACCTAGCAAACAAGCCTAA
53072281 G
1 G
53072282 TTTTTGGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (26 bp):
GGTTTGGACCTAGCAAACAAGCCTAA
Found at i:53082012 original size:46 final size:46
Alignment explanation
Indices: 53081953--53082153 Score: 137
Period size: 46 Copynumber: 4.3 Consensus size: 46
53081943 CATATCCCAA
53081953 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTTCCAG
1 ACAT-GTCTTACACTGACTATCATATCGTAGCCGATGCATGTTCCAG
* * *
53082000 ACATGTCTTACACTGACT-TACATCTCG-AGGCAGATGCATG-TCTCGG
1 ACATGTCTTACACTGACTAT-CATATCGTA-GCCGATGCATGTTC-CAG
* * * * *
53082046 ACATGTCTTACACT-AGC-ACCGGTCTCAATA-CCGATGCCATGTACCAG
1 ACATGTCTTACACTGA-CTATC-ATATC-GTAGCCGATG-CATGTTCCAG
* * * * *
53082093 ACATGGTCTTACACAGGCTCTCATAAT-GTGGCCGATGCATGTCCCAG
1 ACAT-GTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTTCCAG
*
53082140 ACATGTTTTACACT
1 ACATGTCTTACACT
53082154 AGCCTACAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
45 6 0.05
46 64 0.54
47 28 0.24
48 19 0.16
49 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
ACATGTCTTACACTGACTATCATATCGTAGCCGATGCATGTTCCAG
Found at i:53091861 original size:26 final size:29
Alignment explanation
Indices: 53091817--53091869 Score: 85
Period size: 26 Copynumber: 1.9 Consensus size: 29
53091807 AAAAAAAATA
53091817 TTTATATTATTTAATAATTTTATATATTT
1 TTTATATTATTTAATAATTTTATATATTT
53091846 TTTAT-TTA-TTAA-AATTTTATATAT
1 TTTATATTATTTAATAATTTTATATAT
53091870 AAACAACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 12 0.50
27 4 0.17
28 3 0.12
29 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTATATTATTTAATAATTTTATATATTT
Found at i:53093491 original size:66 final size:68
Alignment explanation
Indices: 53093415--53093601 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
53093405 TAGTACCACT
*
53093415 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
53093477 CACG
65 CACG
53093481 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
53093546 ATCACG
63 ATCACG
53093552 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
53093602 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:53093526 original size:71 final size:71
Alignment explanation
Indices: 53093438--53093601 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53093428 CGATTTGTCT
53093438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53093503 CTTTCA
66 CTTTCA
53093509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53093574 CTTTCA
66 CTTTCA
53093580 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53093602 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53093639 original size:71 final size:70
Alignment explanation
Indices: 53093438--53093635 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
53093428 CGATTTGTCT
* * *
53093438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
53093503 CTTTCA
65 CTTTCA
* * *
53093509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
53093574 CTTTCA
65 CTTTCA
* *
53093580 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
53093636 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53096680 original size:43 final size:45
Alignment explanation
Indices: 53096632--53096765 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 45
53096622 GAGATATGTG
*
53096632 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCG-A-
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGTAT
* * * *
53096675 GCATCCGAGCTCGTTGAGTGGTCCAAGTTAATAATGGATGCGATTCAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCG--T-AT
53096723 GTAACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
53096766 TGTTACATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
43 37 0.50
47 1 0.01
48 1 0.01
51 35 0.47
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGTAT
Found at i:53097648 original size:24 final size:24
Alignment explanation
Indices: 53097621--53097678 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
53097611 AGGACGTTAA
*
53097621 ATTAAAAT-GTATATATAATTAAAT
1 ATTAAAATATTATATA-AATTAAAT
*
53097645 ATTAAAATATTTTATAAATTAAAT
1 ATTAAAATATTATATAAATTAAAT
**
53097669 AACAAAATAT
1 ATTAAAATAT
53097679 ATTTTATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAAAATATTATATAAATTAAAT
Found at i:53097730 original size:17 final size:17
Alignment explanation
Indices: 53097708--53097740 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53097698 ATAAAAATTA
*
53097708 TAAAAATTTATTTATAC
1 TAAAAAATTATTTATAC
53097725 TAAAAAATTATTTATA
1 TAAAAAATTATTTATA
53097741 TTATATTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAAATTATTTATAC
Found at i:53100373 original size:65 final size:65
Alignment explanation
Indices: 53100269--53100398 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
53100259 TAACGTATTC
53100269 AAGTTCAAGTAAATTAAGTTTTAATTTAGTTGTGTTGAGTAATTTTGTCTCTGTGTCTTATTAAT
1 AAGTTCAAGTAAATTAAGTTTTAATTTAGTTGTGTTGAGTAATTTTGTCTCTGTGTCTTATTAAT
53100334 AAGTTCAAGTAAATTAAGTTTTAATTTAGTTGTGTTGAGTAATTTTGTCTCTGTGTCTTATTAAT
1 AAGTTCAAGTAAATTAAGTTTTAATTTAGTTGTGTTGAGTAATTTTGTCTCTGTGTCTTATTAAT
53100399 GGGAGTATTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (65 bp):
AAGTTCAAGTAAATTAAGTTTTAATTTAGTTGTGTTGAGTAATTTTGTCTCTGTGTCTTATTAAT
Found at i:53106645 original size:15 final size:15
Alignment explanation
Indices: 53106612--53106645 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53106602 TAATTTCATT
*
53106612 ATATGTTTTTATTAT
1 ATATGTTTTTATTAG
*
53106627 ATATGTTTTTTTTAG
1 ATATGTTTTTATTAG
53106642 ATAT
1 ATAT
53106646 AATGCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (15 bp):
ATATGTTTTTATTAG
Found at i:53111188 original size:46 final size:46
Alignment explanation
Indices: 53111044--53111214 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
53111034 ATTGTGGGCT
* * * * * *
53111044 AGTGTAAGACATGA-CTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACAT-ATCTGGGACATGAATCGGCCTCGTGACGAGAGCC
* * * * * *
53111090 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATATCTGGGACAT-GAATCGGCCTCGTGACGAGAGCC
*
53111138 AGTGTAAGACATATCTGGGACATGCATCGGCCTCGTGACGTA-AGCC
1 AGTGTAAGACATATCTGGGACATGAATCGGCCTCGTGACG-AGAGCC
* *
53111184 AGTGTAAGACATGTCTAGGACATGAATCGGC
1 AGTGTAAGACATATCTGGGACATGAATCGGC
53111215 TACAAAACAT
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 52 0.53
47 26 0.26
48 21 0.21
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATATCTGGGACATGAATCGGCCTCGTGACGAGAGCC
Done.