Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 140 of 153
Found at i:43853562 original size:24 final size:24
Alignment explanation
Indices: 43853528--43853586 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
43853518 CACAACTTAC
* *
43853528 ATAACCAACATAATGACTTACATA
1 ATAACCTACATAATAACTTACATA
43853552 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAACTTACATA
43853576 ATAA--TACATAA
1 ATAACCTACATAA
43853587 CCTACATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 7 0.21
24 26 0.79
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:43855315 original size:87 final size:87
Alignment explanation
Indices: 43855182--43855358 Score: 273
Period size: 87 Copynumber: 2.0 Consensus size: 87
43855172 GACCACAGTT
* *
43855182 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGACAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGACGACAGCGAGAGAAGC
43855247 AAAGGCTGCAGCGAGAGAAGAA
66 AAAGGCTGCAGCGAGAGAAGAA
* * *
43855269 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGATACGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGACGACAGCGAGAGAAGC
* * * *
43855334 AGAGGCTGCAGTGAGGGAAGCA
66 AAAGGCTGCAGCGAGAGAAGAA
43855356 GAG
1 GAG
43855359 CAGAGCAGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.41, C:0.17, G:0.30, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGACGACAGCGAGAGAAGC
AAAGGCTGCAGCGAGAGAAGAA
Found at i:43855761 original size:43 final size:42
Alignment explanation
Indices: 43855707--43855889 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 42
43855697 ACCAAACAAA
* *
43855707 TAGCGGCGTTTGTGTAAAAATG-TCGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAA-GACCGCT-AAAGAACATGACCTT
* *
43855750 TAACGGTGTTTGTGGAAAAAGCACCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAG-ACCGCTAAAGAACATGACCTT
*
43855793 TAGCGACGTTTGTGGAAAAAGCACCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAG-ACCGCTAAAGAACATGACCTT
* *
43855836 TAGCGGCGTTTGTAGG-AAAAGTGCCACTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-GGAAAAAG-ACCGCTAAAGAACATGACCTT
43855879 TAGCGGCGTTT
1 TAGCGGCGTTT
43855890 ATAAAAATAA
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 119 0.94
44 6 0.05
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAAGACCGCTAAAGAACATGACCTT
Found at i:43861000 original size:16 final size:15
Alignment explanation
Indices: 43860979--43861021 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
43860969 ATTTTTTGAT
*
43860979 AAATATTTAATATATA
1 AAATATTAAATAT-TA
43860995 AAATATTAAATATTA
1 AAATATTAAATATTA
*
43861010 AATATATCAAAT
1 AA-ATATTAAAT
43861022 GAATTAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATTAAATATTA
Found at i:43861005 original size:23 final size:23
Alignment explanation
Indices: 43860978--43861021 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43860968 GATTTTTTGA
*
43860978 TAAATATTTAATATATAAAATAT
1 TAAATATTAAATATATAAAATAT
*
43861001 TAAATATTAAATATATCAAAT
1 TAAATATTAAATATATAAAAT
43861022 GAATTAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATATTAAATATATAAAATAT
Found at i:43862339 original size:20 final size:19
Alignment explanation
Indices: 43862313--43862364 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
43862303 AGCAAGGAAT
43862313 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
* *
43862333 TTGTTCA-AA-AAATACAA
1 CTGTTCACAAGAGATACAA
43862350 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
43862365 CAGAACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 13 0.52
18 2 0.08
19 2 0.08
20 8 0.32
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:43867515 original size:25 final size:26
Alignment explanation
Indices: 43867481--43867552 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
43867471 TCTTGTACAT
*
43867481 GTATGCTCACATGAGCTGTG-AATCG
1 GTATGCTCACATGAGCTGTGAAATAG
*
43867506 GTATGCTCACACGAGCTGTGAAAATAG
1 GTATGCTCACATGAGCTGTG-AAATAG
* *
43867533 GTCTGCTCACATGAGATGTG
1 GTATGCTCACATGAGCTGTG
43867553 GGTCGAAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.47
27 21 0.52
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (26 bp):
GTATGCTCACATGAGCTGTGAAATAG
Found at i:43868504 original size:16 final size:16
Alignment explanation
Indices: 43868483--43868516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43868473 AAGATGACGA
* *
43868483 TTTATTTTTATTTTAT
1 TTTATTTATAATTTAT
43868499 TTTATTTATAATTTAT
1 TTTATTTATAATTTAT
43868515 TT
1 TT
43868517 ACCCATTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATAATTTAT
Found at i:43878365 original size:16 final size:16
Alignment explanation
Indices: 43878341--43878394 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
43878331 TTTGGTTCGC
* *
43878341 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
43878357 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
43878373 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
43878389 TGTAAT
1 TGTAAT
43878395 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:43878439 original size:45 final size:44
Alignment explanation
Indices: 43878373--43878470 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
43878363 GGAATAGAGG
* *
43878373 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
43878418 TGTAATAGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
43878462 TGGAATAGA
1 TGTAATAGA
43878471 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.52
45 22 0.48
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:43878479 original size:39 final size:40
Alignment explanation
Indices: 43878376--43878482 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
43878366 ATAGAGGTGT
43878376 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * ***
43878416 AATGTAATAGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG-----GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
43878460 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
43878483 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 16 0.30
40 4 0.07
44 18 0.33
45 16 0.30
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:43878637 original size:25 final size:25
Alignment explanation
Indices: 43878605--43878659 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
43878595 TAATTTAATC
*
43878605 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
43878629 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
43878654 ATATAT
1 ATATAT
43878660 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:43878863 original size:26 final size:28
Alignment explanation
Indices: 43878834--43878894 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
43878824 TATGAATTTG
*
43878834 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
43878860 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
43878888 TAAAATT
1 TATAATT
43878895 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:43878896 original size:91 final size:89
Alignment explanation
Indices: 43878800--43879016 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
43878790 AATTTAAAAT
* * * *
43878800 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
43878865 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
43878891 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
43878956 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
43878982 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
43879017 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:43878897 original size:44 final size:42
Alignment explanation
Indices: 43878834--43878976 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
43878824 TATGAATTTG
43878834 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
43878878 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
43878925 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
43878969 TATAATTT
1 TATAATTT
43878977 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:43878991 original size:47 final size:47
Alignment explanation
Indices: 43878841--43878997 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
43878831 TTGTATAATT
* * * * *
43878841 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
43878888 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
43878932 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
43878979 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
43878998 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:43882853 original size:25 final size:25
Alignment explanation
Indices: 43882825--43882899 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
43882815 TTAATAAAAT
43882825 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
* *
43882850 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAAT-TATTG
43882873 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
43882898 AT
1 AT
43882900 GTAATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 18 0.43
24 4 0.10
25 20 0.48
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAATTATTG
Found at i:43882860 original size:23 final size:24
Alignment explanation
Indices: 43882829--43882899 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
43882819 TAAAATATTA
43882829 AAGTCCTTATTTTAATTATTGATT
1 AAGTCCTTATTTTAATTATTGATT
* *
43882853 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
43882876 AAAGTCCTTATTTTAATTATTGAT
1 -AAGTCCTTATTTTAATTATTGAT
43882900 GTAATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.46
24 4 0.10
25 17 0.44
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
AAGTCCTTATTTTAATTATTGATT
Found at i:43884115 original size:23 final size:23
Alignment explanation
Indices: 43884089--43884138 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
43884079 TAAACAAATT
43884089 CAATTTCCAGCAGAC-AATCAA-AA
1 CAATTTCCAG-A-ACAAATCAAGAA
43884112 CAATTTCCAGAACAAATCAAGAA
1 CAATTTCCAGAACAAATCAAGAA
43884135 CAAT
1 CAAT
43884139 ATCAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.08
22 7 0.28
23 16 0.64
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (23 bp):
CAATTTCCAGAACAAATCAAGAA
Found at i:43884147 original size:22 final size:22
Alignment explanation
Indices: 43884104--43884150 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43884094 TCCAGCAGAC
* *
43884104 AATCAAAACAATTTCCAGAACA
1 AATCAAAACAATATCCAAAACA
43884126 AATCAAGAACAATAT-CAAAACA
1 AATCAA-AACAATATCCAAAACA
43884148 AAT
1 AAT
43884151 GCAACAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (22 bp):
AATCAAAACAATATCCAAAACA
Found at i:43884912 original size:17 final size:17
Alignment explanation
Indices: 43884890--43884927 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
43884880 TGACTCAAAG
43884890 GAAAATAAACAGCAATA
1 GAAAATAAACAGCAATA
43884907 GAAAATAAACAGCAATA
1 GAAAATAAACAGCAATA
43884924 GAAA
1 GAAA
43884928 CATGCAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.11, G:0.13, T:0.11
Consensus pattern (17 bp):
GAAAATAAACAGCAATA
Found at i:43886715 original size:69 final size:71
Alignment explanation
Indices: 43886589--43886719 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 71
43886579 GTTCTGGACA
* * *
43886589 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTATTTTGTTAGTGAGTAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGATTTTGTTAGTCAGTAGAAGATGAAACTGTTG
43886654 TGGCAT
66 TGGCAT
* ** *
43886660 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGATTTTGTTAGTCAGTAGAAGATGAAACTG
43886720 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
69 25 0.47
70 3 0.06
71 25 0.47
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGATTTTGTTAGTCAGTAGAAGATGAAACTGTTG
TGGCAT
Found at i:43887878 original size:37 final size:37
Alignment explanation
Indices: 43887835--43887923 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
43887825 ATCATAAATA
43887835 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAACTTTGAACATGCTTT
* * *
43887872 ATTAAACTAATCAATGTGAGGACTTTGAACATGCTTT
1 AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
*
43887909 AATGAACTAATCAAT
1 AATAAACTAATCAAT
43887924 ATATTTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 44 0.96
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
Found at i:43888089 original size:33 final size:33
Alignment explanation
Indices: 43887981--43888096 Score: 171
Period size: 33 Copynumber: 3.5 Consensus size: 33
43887971 CAATGTATAC
*
43887981 TTAGATCAATTATACATACACCAACAATTAATT
1 TTAGGTCAATTATACATACACCAACAATTAATT
* * * *
43888014 TTAGGGT-AAATAAAAATAAACCAACAATTAATT
1 TTA-GGTCAATTATACATACACCAACAATTAATT
43888047 TTAGGTCAATTATACATACACCAACAATTAATT
1 TTAGGTCAATTATACATACACCAACAATTAATT
43888080 TTAGGTCAATTATACAT
1 TTAGGTCAATTATACAT
43888097 GCTTTATAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
32 3 0.04
33 67 0.93
34 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (33 bp):
TTAGGTCAATTATACATACACCAACAATTAATT
Found at i:43901305 original size:16 final size:16
Alignment explanation
Indices: 43901284--43901321 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
43901274 TGAATTACTG
*
43901284 ATTACAACTTTATTCT
1 ATTACAACTTTATTCC
43901300 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
43901316 ATTACA
1 ATTACA
43901322 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:43902871 original size:100 final size:106
Alignment explanation
Indices: 43902695--43902923 Score: 292
Period size: 100 Copynumber: 2.2 Consensus size: 106
43902685 CTCATATTTT
* * * * *
43902695 CCATGGAGTAAAGATGGGTTTCCGGTTTTAGCTTTGTTCGCCATTTTTAAATTGTAAAAGCTTAA
1 CCATGGAGTAAAGATGGGTTTCCAGTTTTAGCTTTGTCCACCATTTTTAAACTGTAAAAGCTCAA
*
43902760 GAAATTTAAAAAAG-A-AA-AAG-A-AAA-GAAACTGATAC
66 GAAATTAAAAAAAGAAGAAGAAGAAGAAATGAAACTGATAC
* * *
43902795 CTATGGAGTAAAGATGGG-TTCTCAGTTTTAGCTTTGTCCACCATTTTTGAACTGTAAAAGCTCG
1 CCATGGAGTAAAGATGGGTTTC-CAGTTTTAGCTTTGTCCACCATTTTTAAACTGTAAAAGCTCA
43902859 AGAAATTAAAAAAAGAAGAAGAAGAAATGAAATGAAACTGATAC
65 AGAAATTAAAAAAAGAAGAAGAAG-AA-GAAATGAAACTGATAC
*
43902903 CCATGGAGTAAAGATGAGTTT
1 CCATGGAGTAAAGATGGGTTT
43902924 TTGATTTAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
99 3 0.03
100 66 0.61
101 1 0.01
102 2 0.02
103 3 0.03
105 1 0.01
107 3 0.03
108 27 0.25
109 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (106 bp):
CCATGGAGTAAAGATGGGTTTCCAGTTTTAGCTTTGTCCACCATTTTTAAACTGTAAAAGCTCAA
GAAATTAAAAAAAGAAGAAGAAGAAGAAATGAAACTGATAC
Found at i:43905315 original size:37 final size:37
Alignment explanation
Indices: 43905265--43905343 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43905255 TTATTACGAA
* * *
43905265 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43905302 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43905339 GTCTT
1 GTCTT
43905344 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43905612 original size:47 final size:47
Alignment explanation
Indices: 43905462--43905981 Score: 749
Period size: 47 Copynumber: 11.1 Consensus size: 47
43905452 CCCTTCGGGA
* * * * * * *
43905462 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43905509 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43905555 CTTATCACATATATACACTTTCACATTTATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43905602 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43905649 CTTATCACATATATACACTCTCACATTCATAACA-CCGCCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
* *
43905696 CTTATCACATATATACACTTTCACATTCATCCCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43905743 CTTATCACATATATACACTCTCACATTCATAACA-CCGCCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
* *
43905790 CTTATCACATATATACACTTTCACATTCATCCCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43905837 CTTATCACATATATACACTTTCACACTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43905884 CTTATCACATTTATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43905931 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43905978 CTTA
1 CTTA
43905982 CTATCATTTC
Statistics
Matches: 424, Mismatches: 44, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
46 45 0.11
47 373 0.88
48 6 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43911093 original size:46 final size:46
Alignment explanation
Indices: 43911038--43911160 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
43911028 GTGTTAGGAG
*
43911038 ATTATTATTAGATATTATCTTTTAGTAATTTGATTTCTAATAAGAT
1 ATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAATAAGAT
* * *
43911084 ATTTTTATTAGATATTATCTTTTAGAAATTTGATTTTTAATAGGAT
1 ATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAATAAGAT
* *
43911130 ATTATTATTAGATATGATCTTTTAGCAATTT
1 ATTATTATTAGATATTATCTTTTAGAAATTT
43911161 TATTCCTACA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (46 bp):
ATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAATAAGAT
Found at i:43912184 original size:16 final size:16
Alignment explanation
Indices: 43912152--43912186 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43912142 GGTTGGGGTG
* *
43912152 AATGGAATAGGGTTGT
1 AATGGAATAGAGATGT
43912168 AATGGAATAGAGATGT
1 AATGGAATAGAGATGT
43912184 AAT
1 AAT
43912187 AGATATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:43912288 original size:44 final size:46
Alignment explanation
Indices: 43912199--43912294 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
43912189 ATATAACTAT
* *
43912199 AATGAAATAGAGTTGTAATCAGTAATTCAATTGTTTGGTTCAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTCAATGG
* *
43912245 AATGGAATAGAGCTGTAAT-AGT-ATTC-TTATGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTCAATGG
43912289 AATGGA
1 AATGGA
43912295 TGTTGTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.53
45 3 0.07
46 17 0.38
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTCAATGG
Found at i:43915426 original size:26 final size:26
Alignment explanation
Indices: 43915396--43915478 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
43915386 TATAAACACG
43915396 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
*
43915422 TGTGTA-T-C-AA-TAGATAATGGCCAC-A
1 TGTGTAGTACTAAGT-G-T-A-GGCTACTA
* *
43915447 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
43915473 TGTGTA
1 TGTGTA
43915479 ACGGAAGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 1 0.02
23 3 0.07
24 2 0.05
25 14 0.32
26 20 0.45
27 1 0.02
28 2 0.05
29 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGTAGGCTACTA
Found at i:43915504 original size:51 final size:51
Alignment explanation
Indices: 43915392--43915579 Score: 186
Period size: 51 Copynumber: 3.7 Consensus size: 51
43915382 TGCCTATAAA
* * * * * *
43915392 CACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATC--AATAGATAATGGC
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAACGGAA-AGAT-TTGGT
* * *
43915443 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTAACGGAAGGATTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAACGGAAAGATTTGGT
* * *
43915494 CACGTATGTAGTACTATGTGCAAGCTACTACGTG-AACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAA-CGGAAAGATTTGGT
* * *
43915544 CACGTGTGTAGTGCTATGTGAAGGTTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
43915580 TCGAATGATA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
50 36 0.31
51 74 0.64
52 3 0.03
53 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAACGGAAAGATTTGGT
Found at i:43930337 original size:3 final size:3
Alignment explanation
Indices: 43930329--43930356 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43930319 ATGTGCATCT
43930329 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
43930357 CTCACTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43931594 original size:6 final size:6
Alignment explanation
Indices: 43931583--43931628 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
43931573 AATAAAGGTA
43931583 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA
43931629 CATACACAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:43950655 original size:14 final size:13
Alignment explanation
Indices: 43950621--43950668 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
43950611 TATGTGAGCC
43950621 TATGTTTT-AAAG
1 TATGTTTTAAAAG
*
43950633 CATGTTTTAAAAG
1 TATGTTTTAAAAG
*
43950646 TATGGTTTTATAAG
1 TAT-GTTTTAAAAG
43950660 CTATGTTTT
1 -TATGTTTT
43950669 TGGGAGCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 7 0.23
13 6 0.20
14 14 0.47
15 3 0.10
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (13 bp):
TATGTTTTAAAAG
Found at i:43960237 original size:20 final size:20
Alignment explanation
Indices: 43960212--43960250 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43960202 TGAGTTATTT
43960212 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
43960232 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
43960251 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:43964975 original size:7 final size:7
Alignment explanation
Indices: 43964963--43965037 Score: 105
Period size: 7 Copynumber: 10.1 Consensus size: 7
43964953 GCCACACGGA
43964963 TTGCATT
1 TTGCATT
43964970 TTGCATT
1 TTGCATT
43964977 TTGCATT
1 TTGCATT
43964984 TTGCATT
1 TTGCATT
43964991 TCATGCATT
1 T--TGCATT
43965000 TTGCATT
1 TTGCATT
*
43965007 TTTCATT
1 TTGCATT
43965014 TTGCATT
1 TTGCATT
43965021 TCATGCATT
1 T--TGCATT
43965030 TTGCATT
1 TTGCATT
43965037 T
1 T
43965038 CATTTTTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
7 48 0.77
9 14 0.23
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (7 bp):
TTGCATT
Found at i:43965000 original size:30 final size:30
Alignment explanation
Indices: 43964964--43965037 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
43964954 CCACACGGAT
43964964 TGCATTTTGCATTTTGCATTTTGCATTTCA
1 TGCATTTTGCATTTTGCATTTTGCATTTCA
*
43964994 TGCATTTTGCATTTTTCATTTTGCATTTCA
1 TGCATTTTGCATTTTGCATTTTGCATTTCA
43965024 TGCATTTTGCATTT
1 TGCATTTTGCATTT
43965038 CATTTTTTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.55
Consensus pattern (30 bp):
TGCATTTTGCATTTTGCATTTTGCATTTCA
Found at i:43965001 original size:23 final size:21
Alignment explanation
Indices: 43964963--43965037 Score: 105
Period size: 23 Copynumber: 3.4 Consensus size: 21
43964953 GCCACACGGA
43964963 TTGCATTTTGCATTTTGCATT
1 TTGCATTTTGCATTTTGCATT
43964984 TTGCATTTCATGCATTTTGCATT
1 TTGCATTT--TGCATTTTGCATT
*
43965007 TTTCATTTTGCATTTCATGCATT
1 TTGCATTTTGCATTT--TGCATT
43965030 TTGCATTT
1 TTGCATTT
43965038 CATTTTTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
21 15 0.31
23 33 0.69
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (21 bp):
TTGCATTTTGCATTTTGCATT
Found at i:43965046 original size:30 final size:30
Alignment explanation
Indices: 43964964--43965046 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
43964954 CCACACGGAT
43964964 TGCATTTTGCATTTTGCA--TTTTGCATTTCA
1 TGCATTTTGCA-TTT-CATTTTTTGCATTTCA
43964994 TGCATTTTGCATTT--TTCATTTTGCATTTCA
1 TGCATTTTGCATTTCATT--TTTTGCATTTCA
43965024 TGCATTTTGCATTTCATTTTTTG
1 TGCATTTTGCATTTCATTTTTTG
43965047 TTTGTCATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
29 3 0.06
30 42 0.89
32 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.57
Consensus pattern (30 bp):
TGCATTTTGCATTTCATTTTTTGCATTTCA
Found at i:43967686 original size:40 final size:40
Alignment explanation
Indices: 43967642--43967720 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
43967632 AATTAATGTA
* *
43967642 TGAATGCACATTCGTGCCCCTATTTATACTTCGGTACCCT
1 TGAATGCACATACGTGCCCCTATTTATACTTCGGCACCCT
*
43967682 TGAATGCACATACGTGCCCCTATTTTTACTTCGGCACCC
1 TGAATGCACATACGTGCCCCTATTTATACTTCGGCACCC
43967721 CTATTTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTATACTTCGGCACCCT
Found at i:43972545 original size:28 final size:28
Alignment explanation
Indices: 43972513--43972569 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
43972503 AGGTTTATGC
*
43972513 TGTCACACCCCAGATCTGGCGGATCTGA
1 TGTCACACCCCAGATCTGGCGAATCTGA
43972541 TGTCACACCCCAGATCTGGCGAATCTGA
1 TGTCACACCCCAGATCTGGCGAATCTGA
43972569 T
1 T
43972570 TTAAAGGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (28 bp):
TGTCACACCCCAGATCTGGCGAATCTGA
Found at i:43972863 original size:101 final size:101
Alignment explanation
Indices: 43972688--43972874 Score: 374
Period size: 101 Copynumber: 1.9 Consensus size: 101
43972678 AAGTTATTCT
43972688 ATTAGTTAAGAAAGTATATTATAAGCAAAGATTAAGTCTGGTAAGGGATATCGCCAAATGTGTAG
1 ATTAGTTAAGAAAGTATATTATAAGCAAAGATTAAGTCTGGTAAGGGATATCGCCAAATGTGTAG
43972753 TACACCTAGTTTTTCTAAGCAAAGATTAACAAAAAG
66 TACACCTAGTTTTTCTAAGCAAAGATTAACAAAAAG
43972789 ATTAGTTAAGAAAGTATATTATAAGCAAAGATTAAGTCTGGTAAGGGATATCGCCAAATGTGTAG
1 ATTAGTTAAGAAAGTATATTATAAGCAAAGATTAAGTCTGGTAAGGGATATCGCCAAATGTGTAG
43972854 TACACCTAGTTTTTCTAAGCA
66 TACACCTAGTTTTTCTAAGCA
43972875 CTGTGCTAGT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (101 bp):
ATTAGTTAAGAAAGTATATTATAAGCAAAGATTAAGTCTGGTAAGGGATATCGCCAAATGTGTAG
TACACCTAGTTTTTCTAAGCAAAGATTAACAAAAAG
Found at i:43974988 original size:45 final size:45
Alignment explanation
Indices: 43974830--43975023 Score: 166
Period size: 44 Copynumber: 4.4 Consensus size: 45
43974820 AGGAGGAAGA
* * * * *
43974830 ATTGGTGGCTTCGTCCACTACCT-CATGGCAGCTTGTTTGC-AAA
1 ATTGGTGGCTTCATCCACAACCTACATGGCAACTTGTCTGCGAAT
* * * * *
43974873 ATTGGTGG-TTTATCCGCAACCTACATGGTAGA-TTGTCTTCAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCA-ACTTGTCTGCGAAT
* *
43974917 ATTGGTGG-TTTATCCACAACTTACATGGCAACTTGTCTGCGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCAACTTGTCTGCGAAT
* * * * * *
43974961 ATTTGTGGCTTCGTCCACAGCCTACATGGTAGCTTGTCTACGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCAACTTGTCTGCGAAT
*
43975006 -TTGGTGGCTTCAACCACA
1 ATTGGTGGCTTCATCCACA
43975024 TATACTGGTG
Statistics
Matches: 121, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
42 10 0.08
43 21 0.17
44 61 0.50
45 29 0.24
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (45 bp):
ATTGGTGGCTTCATCCACAACCTACATGGCAACTTGTCTGCGAAT
Found at i:43982875 original size:27 final size:26
Alignment explanation
Indices: 43982837--43982889 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
43982827 TGATCTAGAG
*
43982837 GGAAAGGGAAACAACGAGGGGAAACA
1 GGAAAGAGAAACAACGAGGGGAAACA
*
43982863 NGGAAAGAGAAACAACGAGGGTAAACA
1 -GGAAAGAGAAACAACGAGGGGAAACA
43982890 TATCAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.34, T:0.02
Consensus pattern (26 bp):
GGAAAGAGAAACAACGAGGGGAAACA
Found at i:43994203 original size:12 final size:11
Alignment explanation
Indices: 43994180--43994212 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
43994170 CACATAACTT
43994180 TTAAAA-AAAA
1 TTAAAATAAAA
43994190 TTAAAACTAAAA
1 TTAAAA-TAAAA
43994202 TTAAAATAAAA
1 TTAAAATAAAA
43994213 CTGAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 5 0.24
12 10 0.48
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
TTAAAATAAAA
Found at i:43998270 original size:13 final size:13
Alignment explanation
Indices: 43998244--43998289 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
43998234 TGGCTAAAAG
*
43998244 ATAACATTCCATA
1 ATAATATTCCATA
43998257 ATAATA-TCCTATA
1 ATAATATTCC-ATA
43998270 ATAATATTCCATCA
1 ATAATATTCCAT-A
43998284 ATAATA
1 ATAATA
43998290 AAATTACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.10
13 16 0.55
14 10 0.34
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATATTCCATA
Found at i:44001387 original size:29 final size:28
Alignment explanation
Indices: 44001350--44001406 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
44001340 ATAATTTTGT
* *
44001350 ATTTATATTCTTATAATGTTATTAATTA
1 ATTTATATTCTTATAATATAATTAATTA
*
44001378 ATTTAATATTTTTATAATATAATTAATTA
1 ATTT-ATATTCTTATAATATAATTAATTA
44001407 GTTCAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATTCTTATAATATAATTAATTA
Found at i:44001907 original size:19 final size:19
Alignment explanation
Indices: 44001883--44001919 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44001873 TTTAAGTTAT
44001883 TTTATTTAAATAATAAAAA
1 TTTATTTAAATAATAAAAA
**
44001902 TTTATTTATTTAATAAAA
1 TTTATTTAAATAATAAAA
44001920 TAATAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATTTAAATAATAAAAA
Found at i:44004308 original size:25 final size:24
Alignment explanation
Indices: 44004274--44004320 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
44004264 CTTAGAATTT
44004274 ATAAAAAAAAAAAAAATCCCTTTGA
1 ATAAAAAAAAAAAAAA-CCCTTTGA
* *
44004299 ATAAGAAAAAAAAAGACCCTTT
1 ATAAAAAAAAAAAAAACCCTTT
44004321 AGTCTCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.19
Consensus pattern (24 bp):
ATAAAAAAAAAAAAAACCCTTTGA
Found at i:44006989 original size:20 final size:20
Alignment explanation
Indices: 44006964--44007009 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
44006954 CGAAAAATGA
44006964 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
44006984 TTTCT-GAAAATGATTTATT
1 TTTCTGGAAAATGATTTACT
44007003 TTTCTGG
1 TTTCTGG
44007010 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44014749 original size:28 final size:28
Alignment explanation
Indices: 44014684--44014782 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
44014674 CATGAGATTG
* * *
44014684 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
44014713 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
44014741 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
44014769 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44014783 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:44018977 original size:24 final size:24
Alignment explanation
Indices: 44018945--44018991 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44018935 GTTCTTGTTA
44018945 ATTTCTCTGTTATTTTTGCTCCTC
1 ATTTCTCTGTTATTTTTGCTCCTC
*
44018969 ATTTCTCTGTTGTTTTTGCTCCT
1 ATTTCTCTGTTATTTTTGCTCCT
44018992 GTATGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.23, G:0.11, T:0.60
Consensus pattern (24 bp):
ATTTCTCTGTTATTTTTGCTCCTC
Found at i:44021318 original size:20 final size:20
Alignment explanation
Indices: 44021277--44021343 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
44021267 CATCCAAACA
*
44021277 CCAGAAAAGTAAATC-GTTT
1 CCAGAAAAGTAAATCATTTT
44021296 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
44021316 CCAAAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
44021336 CCAGAAAA
1 CCAGAAAA
44021344 CATTTTACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.25
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:44021793 original size:40 final size:40
Alignment explanation
Indices: 44021735--44021935 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
44021725 ATATTATCTA
44021735 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
* *
44021775 TTTGGCGTGTTTCTGTTGGATCAACTCTTATGAGCTTCTA
1 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
* *
44021815 TTTGGCGTGTTTCGATTGGATCAAATCTTATGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
* * *
44021855 CTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTTTG
1 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
* * * *
44021895 TCTGGTGTGTTTCGGTTGGA-CTAGCTTTTATGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATC-AACTCTTATGAGCTTCTG
44021935 T
1 T
44021936 CTAGTGTGTT
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.13, C:0.16, G:0.27, T:0.44
Consensus pattern (40 bp):
TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
Found at i:44023773 original size:21 final size:21
Alignment explanation
Indices: 44023734--44023773 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44023724 CCCTGCAATG
*
44023734 TAAACTTTTCTAACTTTTTCT
1 TAAACTTTTCTAAATTTTTCT
44023755 TAAAC-TTTCTAAATGTTTT
1 TAAACTTTTCTAAAT-TTTT
44023774 TGATTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (21 bp):
TAAACTTTTCTAAATTTTTCT
Found at i:44027745 original size:42 final size:43
Alignment explanation
Indices: 44027637--44027800 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
44027627 AGCTCTTACA
* * * *
44027637 ATGCCAACGTCCCAGACATGGTCTTACA-TATAATC-AAATATCG
1 ATGCCAATGTCCCAGACACGGTCTTACACGA-AATCTCAA-ATCG
* * * *
44027680 ATACCACTGTCCCAGACAGGGTCTTACACGAAATCGT-ATA-CG
1 ATGCCAATGTCCCAGACACGGTCTTACACGAAATC-TCAAATCG
*
44027722 ATGCCGATGTCCCAGACACGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACACGGTCTTACACG-AAATCTCAAATCG
* **
44027766 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
1 ATGCCAATGTCCCAGACACGGTCTTACACGAAATC
44027801 ACATATCAGA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 30 0.30
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACACGGTCTTACACGAAATCTCAAATCG
Found at i:44028823 original size:13 final size:13
Alignment explanation
Indices: 44028805--44028829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44028795 ACAAACGATA
44028805 AAATTTTCACACG
1 AAATTTTCACACG
44028818 AAATTTTCACAC
1 AAATTTTCACAC
44028830 ATATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:44034059 original size:22 final size:22
Alignment explanation
Indices: 44034009--44034072 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
44033999 CACGTTAGCG
* *
44034009 AACAAATATATAAATATAAATA
1 AACAAATATTTATATATAAATA
44034031 AACAAATATTTATATA-AAATAA
1 AACAAATATTTATATATAAAT-A
* *
44034053 AATAAATATTTATATTTAAA
1 AACAAATATTTATATATAAA
44034073 ATATTAGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 4 0.11
22 29 0.81
23 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (22 bp):
AACAAATATTTATATATAAATA
Found at i:44034435 original size:23 final size:23
Alignment explanation
Indices: 44034409--44034452 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
44034399 TTTTATAGGC
44034409 ATTCAATATGGTGGAATTTTGGA
1 ATTCAATATGGTGGAATTTTGGA
44034432 ATTCAATATGGTGGAATTTTG
1 ATTCAATATGGTGGAATTTTG
44034453 AAAATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (23 bp):
ATTCAATATGGTGGAATTTTGGA
Found at i:44034963 original size:13 final size:13
Alignment explanation
Indices: 44034945--44034971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44034935 AAAGAAAAAA
44034945 AAACACTGATTTG
1 AAACACTGATTTG
44034958 AAACACTGATTTG
1 AAACACTGATTTG
44034971 A
1 A
44034972 TACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AAACACTGATTTG
Found at i:44035660 original size:3 final size:3
Alignment explanation
Indices: 44035654--44035693 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
44035644 AAAAATTAAT
* *
44035654 TTA TTA TCA TTA TTA TTA TTA TTA TTG TCTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
44035694 GCGTAAGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44040756 original size:51 final size:51
Alignment explanation
Indices: 44040593--44040777 Score: 205
Period size: 51 Copynumber: 3.6 Consensus size: 51
44040583 GAAGTTGTTA
* *
44040593 GGTCACATGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGAAAAT
* * * * * ***
44040643 GGTCTCATGTGTAGTACTATGTCCAGGCAACTATGCGTACCGAAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
* * * *
44040693 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
44040745 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
44040778 TTTGAACTGG
Statistics
Matches: 108, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 67 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
Found at i:44043519 original size:48 final size:47
Alignment explanation
Indices: 44043460--44043556 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
44043450 CCATGTCAAC
* * * *
44043460 ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCA
1 ATGTGATATGTG-CTACCGTATAAGACCATAGCAGGGATATGGCATCA
* * *
44043508 ATGTGATATGTGCTACTGTGTAAGACCATAGCAGGGCTATGGCATCA
1 ATGTGATATGTGCTACCGTATAAGACCATAGCAGGGATATGGCATCA
44043555 AT
1 AT
44043557 ATGTAAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 30 0.71
48 12 0.29
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
ATGTGATATGTGCTACCGTATAAGACCATAGCAGGGATATGGCATCA
Found at i:44046434 original size:51 final size:50
Alignment explanation
Indices: 44046295--44046473 Score: 153
Period size: 51 Copynumber: 3.5 Consensus size: 50
44046285 GCTAGGTCAT
* * * * *
44046295 GTGTGTAGTACTATGTGCAGGCTACTACGTGTGCCGGAAAGATAGGTCGC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAGATAGATCAC
* * * * ** * *
44046345 ATGTGTAGTACTATGTCCAGACTACTATGCATACCGGATAGCTTCGATCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAG-ATAGATCAC
* * *
44046396 GTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGAT-GAAAATGGTCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAG-ATA-GATCAC
* * *
44046447 ATGTGCAGTACTATGTGCAGGCTACTA
1 GTGTGTAGTACTATGTACAGGCTACTA
44046474 TGTGAACTGG
Statistics
Matches: 100, Mismatches: 27, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
50 34 0.34
51 66 0.66
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAGATAGATCAC
Found at i:44052579 original size:26 final size:27
Alignment explanation
Indices: 44052550--44052600 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
44052540 AACCGTAATG
* *
44052550 CCCCTGGAGGGTAAATGACT-ATTTTT
1 CCCCTCGAGGGTAAATCACTGATTTTT
44052576 CCCCTCGAGGGTAAATCACTGATTT
1 CCCCTCGAGGGTAAATCACTGATTT
44052601 GTGCTATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (27 bp):
CCCCTCGAGGGTAAATCACTGATTTTT
Found at i:44054459 original size:29 final size:29
Alignment explanation
Indices: 44054404--44054598 Score: 151
Period size: 29 Copynumber: 6.7 Consensus size: 29
44054394 GTTGTAATCG
*
44054404 TCCCTTTTCATTAATTGATGGTCGTCACCA
1 TCCCTTTTCA-TAATTGATAGTCGTCACCA
* * * *
44054434 TCCCTTTTCATAGTTGATGGTTGTCACAA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* * * ** *
44054463 TCCCTTTTCAAAATCGATAGCCGAAACTA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* * * *
44054492 TCCCTTTTCATAATCGATAGTTG-AAGCTA
1 TCCCTTTTCATAATTGATAGTCGTCA-CCA
* * * *
44054521 TCCTTTTTCAT-ATTCGATGGTTGTTACCA
1 TCCCTTTTCATAATT-GATAGTCGTCACCA
*
44054550 TCCCTTTTCATAGTTGATAGTCGTCACCA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* *
44054579 TCCTTTTTCATGATTGATAG
1 TCCCTTTTCATAATTGATAG
44054599 CCGAAGCTTT
Statistics
Matches: 133, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
28 4 0.03
29 116 0.87
30 13 0.10
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (29 bp):
TCCCTTTTCATAATTGATAGTCGTCACCA
Found at i:44054538 original size:58 final size:58
Alignment explanation
Indices: 44054433--44054618 Score: 142
Period size: 58 Copynumber: 3.2 Consensus size: 58
44054423 GGTCGTCACC
* * * * * * * * *
44054433 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACT
1 ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCATATTCGATAGCCGAAACT
* * * ** ** *
44054491 ATCCCTTTTCATAATCGATAGTTG-AAGCTATCCTTTTTCATATTCGATGGTTGTTACC
1 ATCCCTTTTCATAATCGATAGTCGTAA-CCATCCTTTTTCATATTCGATAGCCGAAACT
* * * *
44054549 ATCCCTTTTCATAGTTGATAGTCGTCACCATCCTTTTTCATGATT-GATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCAT-ATTCGATAGCCGAAACT
*
44054607 TTCCCTTTTCAT
1 ATCCCTTTTCAT
44054619 TGGTCGATGA
Statistics
Matches: 98, Mismatches: 27, Indels: 6
0.75 0.21 0.05
Matches are distributed among these distances:
57 1 0.01
58 93 0.95
59 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (58 bp):
ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCATATTCGATAGCCGAAACT
Found at i:44054587 original size:87 final size:87
Alignment explanation
Indices: 44054433--44054618 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 87
44054423 GGTCGTCACC
*
44054433 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACTATCCCTT
1 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCTT
**
44054498 TTCATAATCGATAGTTGAAGCT
66 TTCATAATCGATAGCCGAAGCT
* * * * * * * ** *
44054520 ATCCTTTTTCATA-TTCGATGGTTGTTACCATCCCTTTTCATAGTTGATAGTCGTCACCATCCTT
1 ATCCCTTTTCATAGTT-GATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCT
* *
44054584 TTTCATGATTGATAGCCGAAGCT
65 TTTCATAATCGATAGCCGAAGCT
*
44054607 TTCCCTTTTCAT
1 ATCCCTTTTCAT
44054619 TGGTCGATGA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
86 2 0.02
87 79 0.98
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCTT
TTCATAATCGATAGCCGAAGCT
Found at i:44055157 original size:169 final size:169
Alignment explanation
Indices: 44054875--44055216 Score: 657
Period size: 169 Copynumber: 2.0 Consensus size: 169
44054865 AATTTCGTTC
44054875 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
1 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
* *
44054940 AAAATTGCCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCTAAGCCTAAAACATGCAATTTAAC
66 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
44055005 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
131 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
*
44055044 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTTAA
1 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
44055109 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
66 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
44055174 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
131 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
44055213 AATC
1 AATC
44055217 AAGTAAAACC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 170 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (169 bp):
AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
Found at i:44064696 original size:24 final size:26
Alignment explanation
Indices: 44064657--44064706 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
44064647 TAATATTATT
44064657 TAATGTTTATACTTATTT-TATATTTA
1 TAATGTTTATACTTATTTGTA-ATTTA
44064683 TAATGTTT-TA-TTATTTGTAATTTA
1 TAATGTTTATACTTATTTGTAATTTA
44064707 CCAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (26 bp):
TAATGTTTATACTTATTTGTAATTTA
Found at i:44064786 original size:24 final size:23
Alignment explanation
Indices: 44064691--44064798 Score: 98
Period size: 23 Copynumber: 4.7 Consensus size: 23
44064681 TATAATGTTT
* * *
44064691 TATTATTTGT-AATTTACCAATAT
1 TATTATTT-TAAATTTATCATTAA
* *
44064714 TATTATTTTAAATTCATCGTTAA
1 TATTATTTTAAATTTATCATTAA
*
44064737 CATTATTTTAAATTTATCATCT-A
1 TATTATTTTAAATTTATCAT-TAA
*
44064760 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
44064784 TA-T-TTTTAAATTTAT
1 TATTATTTTAAATTTAT
44064799 TATATACTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
21 11 0.16
22 2 0.03
23 37 0.53
24 20 0.29
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:44064915 original size:24 final size:23
Alignment explanation
Indices: 44064857--44064915 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
44064847 CATCAAAATT
44064857 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
44064880 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
44064905 TTGTAAATTAT
1 TT-TAAATTAT
44064916 CCAATTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:44068539 original size:15 final size:15
Alignment explanation
Indices: 44068519--44068563 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
44068509 ATTCAATCAC
44068519 AAAAAAAATCAAAAT
1 AAAAAAAATCAAAAT
*
44068534 AAAAAAAATCGAAAT
1 AAAAAAAATCAAAAT
* *
44068549 CAAAAAAATGAAAAT
1 AAAAAAAATCAAAAT
44068564 GATGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAAAATCAAAAT
Found at i:44070864 original size:45 final size:45
Alignment explanation
Indices: 44070815--44071033 Score: 123
Period size: 45 Copynumber: 4.9 Consensus size: 45
44070805 CCTGAGTTTA
*
44070815 CAGTGGAGCATACTAAAGATTGCAGATCTTGCCTTCCTGTACTGG
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
* * * * *
44070860 CAGTGAAGCATA-TCAAAGACA-CTAG-CCTTGCC-TCTCTG-AGTTTG
1 CAGTGGAGCATACT-AAAGATAGC-AGATCTTGCCTTC-CTGTA-CTGG
* * *
44070904 CAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
* * * * * * * *
44070949 CAGCGAAGCAGATCGAAA-ACA-CTAG-CCTTGCCTTCCTG-AGTTTG
1 CAGTGGAGCATA-CTAAAGATAGC-AGATCTTGCCTTCCTGTA-CTGG
* * * *
44070993 CGGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTA
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTA
44071034 TTAGCAGCGA
Statistics
Matches: 128, Mismatches: 30, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
43 7 0.05
44 56 0.44
45 57 0.45
46 8 0.06
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (45 bp):
CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
Found at i:44070945 original size:89 final size:89
Alignment explanation
Indices: 44070794--44071170 Score: 486
Period size: 89 Copynumber: 4.2 Consensus size: 89
44070784 TGAAACTATA
* * * *
44070794 AGCCTTGCCTCCCTGAGTTTACAGTGGAGCATACTAAAGATTGCAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* * *
44070859 GCAGTGAAGCATATC-AAAGACACT
66 GCAGCGAAGCAGATCGAAA-ACACC
* * * * *
44070883 AGCCTTGCCTCTCTGAGTTTGCAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
*
44070948 GCAGCGAAGCAGATCGAAAACACT
66 GCAGCGAAGCAGATCGAAAACACC
* * * * *
44070972 AGCCTTGCCTTCCTGAGTTTGCGGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTATTA
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* *
44071037 GCAGCGAAGTAGATCGAAGACACC
66 GCAGCGAAGCAGATCGAAAACACC
* * * * *
44071061 AGCCTTGCCTCCCTGAGTTCGCAGTGGAGCAAACTAAAAATAGCAAATATTGTCTTCCTGTACTA
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* *
44071126 GCAGTGAAGTAGATCGAAAACACC
66 GCAGCGAAGCAGATCGAAAACACC
*
44071150 AGCCTTGCCTCACTGAGTTTG
1 AGCCTTGCCTCCCTGAGTTTG
44071171 TAATGAAGTA
Statistics
Matches: 254, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 251 0.99
90 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
GCAGCGAAGCAGATCGAAAACACC
Found at i:44070982 original size:44 final size:44
Alignment explanation
Indices: 44070842--44070986 Score: 129
Period size: 44 Copynumber: 3.3 Consensus size: 44
44070832 GATTGCAGAT
* *
44070842 CTTGCCTTCCTGTACTGGCAGTGAAGCATATCAAAGACACTAGC
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACTAGC
* * * * * *
44070886 CTTGCC-TCTCTG-AGTTTGCAGCGGAGTAGA-CTAAAGATAGC-AGAT
1 CTTGCCTTC-CTGTA-CTGGCAGCGAAGCAGATC-AAAGACA-CTAG-C
44070931 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAA-ACACTAGC
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATC-AAAGACACTAGC
44070975 CTTGCCTTCCTG
1 CTTGCCTTCCTG
44070987 AGTTTGCGGT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 4 0.05
44 40 0.52
45 26 0.34
46 7 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACTAGC
Found at i:44071486 original size:174 final size:171
Alignment explanation
Indices: 44071280--44071798 Score: 639
Period size: 174 Copynumber: 3.0 Consensus size: 171
44071270 GATTTAAGCC
* * * *
44071280 ACCAGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATTGAATCTAATAATTCTATCTCCCTGAAG
1 ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTGAAG
* *
44071345 TTACAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCACAT
66 TTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT
* * *
44071410 CCAATCTTACCTCCCTGAAGTTCCAGTGGGGCAGACTAAAG
131 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * *
44071451 ACGGCGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTG
1 AC--C-AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTG
* * * * * *
44071516 AAGTTGTAGTGGAGCGGATTAAAATGCTAGATTTTATCTCTCTAAAGTTGCAGTAGAGCAAATTG
63 AAGTTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCG
* * *
44071581 CATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAA
128 CATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AG
* ** * * *
44071627 ACCAATCTTATCTCCGTGAAGTTGCAATGGAGCAGATTAAAACCAATAA-TCTTATCTCTCTAAA
1 ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTC-TATCTCCCTGAA
* * * *
44071691 GTTGCAGT-GAATCGGATTAGAATGATGGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGC
65 GTTGCAGTGGAGT-GGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGC
* * *
44071755 -TACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG
129 ATCCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
44071798 A
1 A
44071799 TAGCAAATTT
Statistics
Matches: 295, Mismatches: 45, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
171 4 0.01
172 7 0.02
173 133 0.45
174 146 0.49
175 2 0.01
176 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (171 bp):
ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTGAAG
TTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT
CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
Found at i:44071487 original size:86 final size:86
Alignment explanation
Indices: 44071289--44071663 Score: 217
Period size: 85 Copynumber: 4.3 Consensus size: 86
44071279 CACCAGTCTC
* * * *
44071289 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAATCTAATAATTCTATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-TCAATCCAAT-ACTCTACCTCCCTGAAGTTACAGTGG
** * * *
44071354 AGTGGATTAAAATGCTAGATCTT
64 AGCAGACTAAAAGGCGAGATCTT
* * * ** * *
44071377 ATCTCTCTAAAGTTGTAGTAGAGCAGATCACATCCAAT-CT-TACCTCCCTGAAGTTCCAGTGGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCA-ATCCAATACTCTACCTCCCTGAAGTTACAGTGGA
44071440 GCAGACTAAAGACGGCGA-ATCTT
65 GCAGACTAAA-A-GGCGAGATCTT
* * * ** **
44071463 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-TCAATCCAATACT-CTACCTCCCTGAAGTTACAGTGG
* * * * *
44071528 AGCGGATTAAAATGCTAGATTTT
64 AGCAGACTAAAAGGCGAGATCTT
* * ** * * * * *
44071551 ATCTCTCTAAAGTTGCAGTAGAGCAAATTGC-ATCCAGT-CT-TATCTCCCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-T-CAATCCAATACTCTACCTCCCTGAAGTTACAGTGG
* *
44071613 AGCAGACTGAATAA-ACCA-ATCTT
64 AGCAGACT-AA-AAGGCGAGATCTT
* **
44071636 ATCTCCGTGAAGTTGCAATGGAGCAGAT
1 ATCTCCCTGAAGTTGCAGCGGAGCAGAT
44071664 TAAAACCAAT
Statistics
Matches: 219, Mismatches: 57, Indels: 26
0.73 0.19 0.09
Matches are distributed among these distances:
84 1 0.00
85 77 0.35
86 39 0.18
87 14 0.06
88 62 0.28
89 26 0.12
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATCAATCCAATACTCTACCTCCCTGAAGTTACAGTGGAG
CAGACTAAAAGGCGAGATCTT
Found at i:44071678 original size:44 final size:42
Alignment explanation
Indices: 44071289--44071699 Score: 254
Period size: 44 Copynumber: 9.5 Consensus size: 42
44071279 CACCAGTCTC
* * * *
44071289 ATCTCCCTGAAGTTGCAGCGGAGCAGATT-GAATCTAATAATTCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAAT--CT-T
* ** *
44071333 ATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATGCTAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCTA-ATCTT
* * * * * * *
44071377 ATCTCTCTAAAGTTGTAGTAGAGCAGATCACATCC-AATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
* * * * *
44071418 ACCTCCCTGAAGTTCCAGTGGGGCAGACTAAAGACGGCGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AC--CTAATCTT
* * * *
44071463 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TAATCTT
* * * * *
44071507 ATATCCCTGAAGTTGTAGTGGAGCGGATTAAAATGCTAGATTTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCTA-ATCTT
* * * * ** * *
44071551 ATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCC-AGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
* *
44071592 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAAACC-AATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAACCTAATCTT
* *
44071636 ATCTCCGTGAAGTTGCAATGGAGCAGATTAAAACCAATAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TAATCTT
* *
44071680 ATCTCTCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTG
44071700 AATCGGATTA
Statistics
Matches: 274, Mismatches: 76, Indels: 34
0.71 0.20 0.09
Matches are distributed among these distances:
41 59 0.22
42 6 0.02
43 5 0.02
44 163 0.59
45 36 0.13
46 3 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
Found at i:44071689 original size:129 final size:129
Alignment explanation
Indices: 44071459--44071698 Score: 306
Period size: 129 Copynumber: 1.9 Consensus size: 129
44071449 AGACGGCGAA
* * * * *
44071459 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATATCCCTGAAGTTGCA
* * * *
44071524 GTGGAGCGGATTAAAATGCTAGATTTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
66 ATGGAGCAGATTAAAATCCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
* * * * *
44071588 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA-TAAACCAATCTTATCTCCGTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAA-CAATCCTATATCCCTGAAGTTGC
44071652 AATGGAGCAGATTAAAA-CCAATA-ATCTTATCTCTCTAAAGTTGCAGT
65 AATGGAGCAGATTAAAATCC--TAGATCTTATCTCTCTAAAGTTGCAGT
44071699 GAATCGGATT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
128 3 0.03
129 89 0.95
130 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATATCCCTGAAGTTGCA
ATGGAGCAGATTAAAATCCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
Found at i:44071709 original size:44 final size:44
Alignment explanation
Indices: 44071630--44071738 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
44071620 TGAATAAACC
* *
44071630 AATCTTATCTC-CGTGAAGTTGCAATGGAGCAGATTAAAACCAAT-
1 AATCTTATCTCTC-TAAAGTTGCAATGAAGCAGATTAAAA-CAATG
* * * * **
44071674 AATCTTATCTCTCTAAAGTTGCAGTGAATCGGATTAGAATGATG
1 AATCTTATCTCTCTAAAGTTGCAATGAAGCAGATTAAAACAATG
*
44071718 GATCTTATCTCTCTAAAGTTG
1 AATCTTATCTCTCTAAAGTTG
44071739 TAGTAGAGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.04
44 51 0.94
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTTATCTCTCTAAAGTTGCAATGAAGCAGATTAAAACAATG
Found at i:44073208 original size:24 final size:24
Alignment explanation
Indices: 44073179--44073293 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 24
44073169 GTATTGTATA
*
44073179 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* *
44073203 TTATTATTTGT-AATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
44073226 TTATTATTTTAAATTCATC--GTT
1 TTATTATTTTAAATTTATCATGTT
**
44073248 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
44073272 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
44073294 TAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 36 0.49
24 34 0.46
25 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:44073266 original size:46 final size:46
Alignment explanation
Indices: 44073176--44073327 Score: 123
Period size: 47 Copynumber: 3.3 Consensus size: 46
44073166 AGTGTATTGT
* * ***
44073176 ATATTATTATTTTAGATTTATCATGTTTTATTATTTGT-AATTTATCA
1 ATATTATTATTTTAAATTCATCAT-TAACATTATTT-TAAATTTATCA
*
44073223 ATATTATTATTTTAAATTCATCGTTAACATTATTTTAAATTTATC-
1 ATATTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
* * * * *
44073268 ATGTATATCTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATTA
1 ATAT-TAT-TATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
*
44073314 TATACTATTATTTT
1 -ATATTATTATTTT
44073328 GGATTTATCA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
45 21 0.25
46 23 0.27
47 41 0.48
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.57
Consensus pattern (46 bp):
ATATTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
Found at i:44073281 original size:47 final size:46
Alignment explanation
Indices: 44073205--44073326 Score: 117
Period size: 46 Copynumber: 2.7 Consensus size: 46
44073195 ATCATGTTTT
* *
44073205 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTT-TAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
* * *
44073251 ATTATTTTAAATTTATC-ATGTATATCTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCAATAT-TAT-TATTTCAAATTCATCATTAAC
* *
44073298 A-T-TTTTAAATTTATTATATACTATTATTT
1 ATTATTTTAAATTTATCA-ATATTATTATTT
44073327 TGGATTTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
45 21 0.33
46 22 0.35
47 20 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
Found at i:44073299 original size:24 final size:23
Alignment explanation
Indices: 44073135--44073337 Score: 128
Period size: 24 Copynumber: 8.7 Consensus size: 23
44073125 ATATTTATAC
*
44073135 TTATTATTAAATTAATCATTAATA
1 TTATT-TTAAATTTATCATTAATA
* * * ** *
44073159 TTA-TCTAAGTGTATTGTATATTA
1 TTATTTTAAATTTATCAT-TAATA
* **
44073182 TTATTTTAGATTTATCATGTTTTA
1 TTATTTTAAATTTATCAT-TAATA
* *
44073206 TTATTTGT-AATTTATCAATATTA
1 TTATTT-TAAATTTATCATTAATA
* * *
44073229 TTATTTTAAATTCATCGTTAACA
1 TTATTTTAAATTTATCATTAATA
44073252 TTATTTTAAATTTATCATGT-ATA
1 TTATTTTAAATTTATCAT-TAATA
*
44073275 TCTATTTCAAATTTATCATTAATA
1 T-TATTTTAAATTTATCATTAATA
* *
44073299 -T-TTTTAAATTTATTATATACTA
1 TTATTTTAAATTTATCAT-TAATA
**
44073321 TTATTTTGGATTTATCA
1 TTATTTTAAATTTATCA
44073338 CGTATGATTA
Statistics
Matches: 136, Mismatches: 33, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
21 13 0.10
22 13 0.10
23 49 0.36
24 60 0.44
25 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATTTTAAATTTATCATTAATA
Found at i:44073403 original size:69 final size:69
Alignment explanation
Indices: 44073251--44073404 Score: 165
Period size: 69 Copynumber: 2.2 Consensus size: 69
44073241 CATCGTTAAC
* * *
44073251 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTATA
1 ATTATTTTAAATTTATCACGTATATCTATTTCAAATTCATCATTAAAATTTTTAAATTTATTATA
44073316 TACT
66 TACT
**
44073320 ATTATTTTGGATTTATCACGTATGAT-TA-TTCTAGAA-TCATCATTAAAATTTTTAAA-TT-TT
1 ATTATTTTAAATTTATCACGTAT-ATCTATTTC-A-AATTCATCATTAAAATTTTTAAATTTATT
*
44073380 ATAAGTATT
63 AT-A-TACT
*
44073389 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
44073405 TATATATTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
67 4 0.06
68 6 0.08
69 57 0.80
70 4 0.06
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATATCTATTTCAAATTCATCATTAAAATTTTTAAATTTATTATA
TACT
Found at i:44075735 original size:26 final size:26
Alignment explanation
Indices: 44075688--44075738 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
44075678 TCCTGTACAT
** *
44075688 ATATGCTCACATGAGCTATGAAATGA
1 ATATGCTCACAAAAACTATGAAATGA
*
44075714 ATATGCTCACAAAAACTGTGAAATG
1 ATATGCTCACAAAAACTATGAAATG
44075739 GGCTTGCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (26 bp):
ATATGCTCACAAAAACTATGAAATGA
Found at i:44079475 original size:17 final size:17
Alignment explanation
Indices: 44079453--44079485 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44079443 GATAAAACTA
44079453 AACCCTGAAAAACAAAG
1 AACCCTGAAAAACAAAG
44079470 AACCCTGAAAAACAAA
1 AACCCTGAAAAACAAA
44079486 ATTCTCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (17 bp):
AACCCTGAAAAACAAAG
Found at i:44079600 original size:24 final size:24
Alignment explanation
Indices: 44079573--44079624 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44079563 TTAGTAAGTC
*
44079573 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44079597 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44079621 AAAT
1 AAAT
44079625 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44079847 original size:7 final size:7
Alignment explanation
Indices: 44079835--44079865 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
44079825 TATCGAATAA
44079835 AATTTAC
1 AATTTAC
44079842 AATTTAC
1 AATTTAC
44079849 AATTTAC
1 AATTTAC
44079856 AATTTAC
1 AATTTAC
44079863 AAT
1 AAT
44079866 AAAATAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTTAC
Found at i:44112790 original size:16 final size:16
Alignment explanation
Indices: 44112766--44112796 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44112756 TTAACATCAA
*
44112766 TTAACCTAAAAATTAT
1 TTAAACTAAAAATTAT
44112782 TTAAACTAAAAATTA
1 TTAAACTAAAAATTA
44112797 ACCAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAACTAAAAATTAT
Found at i:44116583 original size:43 final size:43
Alignment explanation
Indices: 44116521--44116715 Score: 187
Period size: 43 Copynumber: 4.5 Consensus size: 43
44116511 CATGTAAGTC
* * * * *
44116521 CATCATTAGATATAACTGAAGCAAATATACTGACAAACGTAGTG
1 CATCATCAGATAT-ACCGAAGCAACTATACTGACACACATAGTG
* * * * *
44116565 CATCATCAGATATACTGAAACAACTATACTAACACACATAATA
1 CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
* * * *
44116608 CATCATTAGATTTACCGAA-CTAACTATACTGGCACACAAAGTG
1 CATCATCAGATATACCGAAGC-AACTATACTGACACACATAGTG
* * * *
44116651 CATCATCAGATATACCGAAGTAATTATACTGGCACACACAGTG
1 CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
44116694 CATCATC-GAATATACCGAAGCA
1 CATCATCAG-ATATACCGAAGCA
44116716 TAATCAGATC
Statistics
Matches: 126, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 112 0.89
44 12 0.10
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (43 bp):
CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
Found at i:44124281 original size:4 final size:4
Alignment explanation
Indices: 44124272--44124310 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
44124262 TGCTTCTTCT
* * *
44124272 TTAC TTAC TTTC TTAC TTGC TTAC TTAC TTGC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
44124311 GATAACTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (4 bp):
TTAC
Found at i:44124634 original size:50 final size:50
Alignment explanation
Indices: 44124564--44124697 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 50
44124554 ACTGCCAATG
* * ** * *
44124564 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
** * *
44124614 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
* * * *
44124664 CCATGTCCCTGACATGGTTTTACTTGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
44124698 TTACCCAAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
Found at i:44128610 original size:14 final size:14
Alignment explanation
Indices: 44128591--44128621 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44128581 AACTCAATCG
44128591 ATAACTACCATCAT
1 ATAACTACCATCAT
44128605 ATAACTACCATCAT
1 ATAACTACCATCAT
44128619 ATA
1 ATA
44128622 CAAACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAACTACCATCAT
Found at i:44136938 original size:27 final size:27
Alignment explanation
Indices: 44136898--44136965 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
44136888 TCTGACCCAC
**
44136898 AGCTCGTGTGAGCAGGCCCATTTTCAT
1 AGCTCGTGTGAGCAAACCCATTTTCAT
* *
44136925 AGCTTGTGTAAGCAAACCCATTTTCAT
1 AGCTCGTGTGAGCAAACCCATTTTCAT
44136952 AGCTCGTGTGAGCA
1 AGCTCGTGTGAGCA
44136966 TACATGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (27 bp):
AGCTCGTGTGAGCAAACCCATTTTCAT
Found at i:44140392 original size:17 final size:17
Alignment explanation
Indices: 44140372--44140429 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
44140362 ATTTTAATAG
*
44140372 ATTTAATATTTATTTTA
1 ATTTAATATTTATATTA
* *
44140389 ATTTAATACTTATCTTA
1 ATTTAATATTTATATTA
*
44140406 A--TAGTATTT-TATTA
1 ATTTAATATTTATATTA
44140420 ATTTAATATT
1 ATTTAATATT
44140430 AAAGCGATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 6 0.18
17 16 0.48
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:44140513 original size:62 final size:59
Alignment explanation
Indices: 44140441--44140556 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 59
44140431 AAGCGATTAT
* * * *
44140441 TTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATTTTCTATTAATTTAATAAGA
1 TTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGA
*
44140503 TTTAATATTAACTTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
1 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
44140557 AATTAGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.41
60 1 0.02
61 1 0.02
62 27 0.55
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGA
Found at i:44141219 original size:14 final size:14
Alignment explanation
Indices: 44141200--44141226 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44141190 TTCGGGTTAA
44141200 TATTGTTGATAAGG
1 TATTGTTGATAAGG
44141214 TATTGTTGATAAG
1 TATTGTTGATAAG
44141227 AACTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TATTGTTGATAAGG
Found at i:44142333 original size:22 final size:22
Alignment explanation
Indices: 44142307--44142362 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
44142297 AATATGTAAA
* *
44142307 ATATCAGAGCATATCATATAAC
1 ATATCAGAGCATAACACATAAC
* * *
44142329 TTATCAAAACATAACACATAAC
1 ATATCAGAGCATAACACATAAC
*
44142351 ATAACAGAGCAT
1 ATATCAGAGCAT
44142363 GTCCTACCCC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (22 bp):
ATATCAGAGCATAACACATAAC
Found at i:44143077 original size:34 final size:36
Alignment explanation
Indices: 44143016--44143087 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 36
44143006 ACTCAATGAA
* * *
44143016 GAAAGTAAAAGACAAGAAGTAGGAACGTG-ACAAAG
1 GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
* *
44143051 GAAAGGAAAA-ACAAAAAGTATAAACGTGTAGAAAG
1 GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
44143086 GA
1 GA
44143088 GAAAAAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.57, C:0.07, G:0.26, T:0.10
Consensus pattern (36 bp):
GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
Found at i:44147348 original size:39 final size:40
Alignment explanation
Indices: 44147253--44147514 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
44147243 TTGAATGATG
*
44147253 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44147291 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44147332 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
44147371 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44147410 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
44147449 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
44147488 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44147515 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44158833 original size:20 final size:20
Alignment explanation
Indices: 44158804--44158848 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
44158794 TCGACACCTC
44158804 GTTG-CATAAATAAACGCTA
1 GTTGTCATAAATAAACGCTA
44158823 GTTGTCATAAATAAACGCTA
1 GTTGTCATAAATAAACGCTA
44158843 GTTGTC
1 GTTGTC
44158849 TACCTCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
GTTGTCATAAATAAACGCTA
Found at i:44169163 original size:23 final size:23
Alignment explanation
Indices: 44169137--44169185 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
44169127 TATACAAATT
44169137 TGTGCTTTATTATGTTAATTTTG
1 TGTGCTTTATTATGTTAATTTTG
44169160 TGTGCTTTATTATGTTAATTTTG
1 TGTGCTTTATTATGTTAATTTTG
44169183 TGT
1 TGT
44169186 ATAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.18, T:0.61
Consensus pattern (23 bp):
TGTGCTTTATTATGTTAATTTTG
Found at i:44192433 original size:29 final size:29
Alignment explanation
Indices: 44192400--44192467 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
44192390 TTTATTTATA
44192400 AAATATTTTA-ACTTAATTTTCAATAATTT
1 AAATATTTTATA-TTAATTTTCAATAATTT
* * * *
44192429 AAATAATTTATATTTATTTTTAATATTTT
1 AAATATTTTATATTAATTTTCAATAATTT
*
44192458 AAATTTTTTA
1 AAATATTTTA
44192468 GAATTATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATATTTTATATTAATTTTCAATAATTT
Found at i:44192474 original size:29 final size:29
Alignment explanation
Indices: 44192415--44192480 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
44192405 TTTTAACTTA
* * *
44192415 ATTTTCAATAATTTAAATAATTTATATTT
1 ATTTTTAATAATTTAAATAATTTAGAATT
* **
44192444 ATTTTTAATATTTTAAATTTTTTAGAATT
1 ATTTTTAATAATTTAAATAATTTAGAATT
*
44192473 ATTGTTAA
1 ATTTTTAA
44192481 GAAAAATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTTTAATAATTTAAATAATTTAGAATT
Found at i:44192919 original size:26 final size:26
Alignment explanation
Indices: 44192883--44192934 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44192873 ATGGAAATGT
44192883 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
44192909 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
44192935 GCACCCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TAGCGTCTATTCAATTTGCTAACGTG
Found at i:44194980 original size:29 final size:29
Alignment explanation
Indices: 44194871--44194981 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
44194861 ATAATTGAAA
* *
44194871 AATAGAGGGACTAATTTGATCCATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
* *
44194900 AATAGAGGGACTAATTTTATTCT-TTTCAAT
1 AATAGAAGGACTAATTTGA-TCTATTT-AAT
* * * *
44194930 AGTATAAGGACTAAATTAATCTATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
*
44194959 AATAGAAAGACTAATTTGATCTA
1 AATAGAAGGACTAATTTGATCTA
44194982 GTCCCTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 45 0.67
30 22 0.33
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (29 bp):
AATAGAAGGACTAATTTGATCTATTTAAT
Found at i:44202904 original size:9 final size:9
Alignment explanation
Indices: 44202886--44202932 Score: 87
Period size: 9 Copynumber: 5.3 Consensus size: 9
44202876 TATATATATC
44202886 TTTTAT-AT
1 TTTTATAAT
44202894 TTTTATAAT
1 TTTTATAAT
44202903 TTTTATAAT
1 TTTTATAAT
44202912 TTTTATAAT
1 TTTTATAAT
44202921 TTTTATAAT
1 TTTTATAAT
44202930 TTT
1 TTT
44202933 ATTCATTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:44202940 original size:18 final size:18
Alignment explanation
Indices: 44202886--44202941 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
44202876 TATATATATC
*
44202886 TTTTATATTTTTA-TAAT
1 TTTTATAATTTTATTAAT
44202903 TTTTATAATTTT-TATAAT
1 TTTTATAATTTTAT-TAAT
*
44202921 TTTTATAATTTTATTCAT
1 TTTTATAATTTTATTAAT
44202939 TTT
1 TTT
44202942 CTTTGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 11 0.32
18 22 0.65
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTATTAAT
Found at i:44211238 original size:22 final size:22
Alignment explanation
Indices: 44211213--44211257 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
44211203 TTGAGAAGTG
44211213 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
44211235 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
44211257 T
1 T
44211258 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:44223431 original size:43 final size:43
Alignment explanation
Indices: 44223376--44223477 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
44223366 CGTTTATGTG
* *
44223376 AAAAAACGCCGCTATAGAACATGACCTTTAACGTCACTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
* * *
44223419 AAAAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
* *
44223462 CACAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
44223478 AGTACCGTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
Found at i:44230542 original size:7 final size:7
Alignment explanation
Indices: 44230532--44230564 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
44230522 CCCCTAACCG
44230532 CTAAATC
1 CTAAATC
44230539 CTAAATC
1 CTAAATC
44230546 CTAAATC
1 CTAAATC
44230553 CTAAATC
1 CTAAATC
*
44230560 ATAAA
1 CTAAA
44230565 ACATAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAATC
Found at i:44230571 original size:21 final size:21
Alignment explanation
Indices: 44230532--44230571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44230522 CCCCTAACCG
* * *
44230532 CTAAATCCTAAATCCTAAATC
1 CTAAATCATAAAACATAAATC
44230553 CTAAATCATAAAACATAAA
1 CTAAATCATAAAACATAAA
44230572 CCATAAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAAATCATAAAACATAAATC
Found at i:44230627 original size:64 final size:64
Alignment explanation
Indices: 44230554--44230674 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
44230544 TCCTAAATCC
* *
44230554 TAAATCATAAAACATAAACCATAAACCCTTAACCCCTAACTCC-TAAACCTTAAACCCCAACCTT
1 TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAA-TCCATAAACCTTAAACCCCAACCTT
* * * * *
44230618 TAAACCATAAACCATAAACCATAATCCCTAAACTCGTAATCCATAAATCTTAAACCC
1 TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAATCCATAAACCTTAAACCC
44230675 TAAACCATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 3 0.06
64 46 0.94
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (64 bp):
TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAATCCATAAACCTTAAACCCCAACCTT
Found at i:44230628 original size:7 final size:7
Alignment explanation
Indices: 44230618--44230712 Score: 82
Period size: 7 Copynumber: 13.4 Consensus size: 7
44230608 CCCCAACCTT
44230618 TAAACCA
1 TAAACCA
44230625 TAAACCA
1 TAAACCA
44230632 TAAACCA
1 TAAACCA
* *
44230639 TAATCCC
1 TAAACCA
*
44230646 TAAACTCG
1 TAAAC-CA
*
44230654 TAATCCA
1 TAAACCA
* *
44230661 TAAATCT
1 TAAACCA
*
44230668 TAAACCC
1 TAAACCA
44230675 TAAACCA
1 TAAACCA
* *
44230682 TATACCT
1 TAAACCA
44230689 TAAACCA
1 TAAACCA
*
44230696 TAAACCC
1 TAAACCA
*
44230703 TAAACTA
1 TAAACCA
44230710 TAA
1 TAA
44230713 TGATAATTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
7 63 0.93
8 5 0.07
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:44230635 original size:14 final size:14
Alignment explanation
Indices: 44230618--44230712 Score: 91
Period size: 14 Copynumber: 6.7 Consensus size: 14
44230608 CCCCAACCTT
*
44230618 TAAACCATAAACCA
1 TAAACCATAAACCC
*
44230632 TAAACCATAATCCC
1 TAAACCATAAACCC
* * *
44230646 TAAACTCGTAATCCA
1 TAAAC-CATAAACCC
* *
44230661 TAAATCTTAAACCC
1 TAAACCATAAACCC
* *
44230675 TAAACCATATACCT
1 TAAACCATAAACCC
44230689 TAAACCATAAACCC
1 TAAACCATAAACCC
*
44230703 TAAACTATAA
1 TAAACCATAA
44230713 TGATAATTAA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
14 54 0.83
15 11 0.17
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:44231189 original size:40 final size:40
Alignment explanation
Indices: 44231136--44231238 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
44231126 TTTGCGGCGA
* *
44231136 TTTTCAAAAAGTGCCGCTCATGGTCGACCTATAGCGACAT
1 TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
* * * *
44231176 TTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCGTCGT
1 TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
*
44231216 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAAGTGCCGCTAATGC
44231239 CACTAAAGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
Done.