Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 19 of 187
Found at i:5169718 original size:14 final size:14
Alignment explanation
Indices: 5169699--5169728 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5169689 TGAGAGATGA
5169699 GAGGGATGAGGGAT
1 GAGGGATGAGGGAT
5169713 GAGGGATGAGGGAT
1 GAGGGATGAGGGAT
5169727 GA
1 GA
5169729 AGTGAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.57, T:0.13
Consensus pattern (14 bp):
GAGGGATGAGGGAT
Found at i:5176689 original size:22 final size:23
Alignment explanation
Indices: 5176627--5176671 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5176617 ATGCAATCTT
* *
5176627 ATATATGA-TATGCAATATTAGA
1 ATATATGATTTTGTAATATTAGA
5176649 ATATATGATTTTGTAATATTAGA
1 ATATATGATTTTGTAATATTAGA
5176672 GATTTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (23 bp):
ATATATGATTTTGTAATATTAGA
Found at i:5177536 original size:28 final size:28
Alignment explanation
Indices: 5177473--5177542 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
5177463 TGATTCACTG
* * *
5177473 CAAAGGCATTTTCTTTCAGATTTAGCCA
1 CAAAGGCTTTTTTTTTCAGAGTTAGCCA
*
5177501 CAAAGGCTTTTTTTTTCATAGTTAGCCA
1 CAAAGGCTTTTTTTTTCAGAGTTAGCCA
*
5177529 CAAAGGCTTCTTTT
1 CAAAGGCTTTTTTT
5177543 CTTGACATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (28 bp):
CAAAGGCTTTTTTTTTCAGAGTTAGCCA
Found at i:5180041 original size:61 final size:61
Alignment explanation
Indices: 5179966--5180100 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 61
5179956 TAAAGGATAG
* * * **
5179966 CCTTTATGGCAAAACCCTGGATAGGAAAACCTTTGTGGCGAGTACT-GAAAGTAAATGGTAA
1 CCTTTGTGGCAAAACCCTGAACAGGAAAACCTTTGTGGCGAGTACTAG-AAGTAAATGACAA
** * *
5180027 CCTTTGTGGCAAAACTTTGAACAGGAAAGCCTTTGTGGCGAGTACTAGATGTAAATGACAA
1 CCTTTGTGGCAAAACCCTGAACAGGAAAACCTTTGTGGCGAGTACTAGAAGTAAATGACAA
5180088 CCTTTGTGGCAAA
1 CCTTTGTGGCAAA
5180101 TCTCAGGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 63 0.98
62 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (61 bp):
CCTTTGTGGCAAAACCCTGAACAGGAAAACCTTTGTGGCGAGTACTAGAAGTAAATGACAA
Found at i:5180118 original size:61 final size:61
Alignment explanation
Indices: 5179990--5180128 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 61
5179980 CCCTGGATAG
* ** ** *
5179990 GAAAACCTTTGTGGCGAGTACTGAAAGTAAATGGTAACCTTTGTGGCAAAACTTTGAACAG
1 GAAAGCCTTTGTGGCGAGTACTGAAAGTAAATGACAACCTTTGTGGCAAAACTAGGAACAC
* *
5180051 GAAAGCCTTTGTGGCGAGTACT-AGATGTAAATGACAACCTTTGTGGCAAATCTCAGGAA-AC
1 GAAAGCCTTTGTGGCGAGTACTGA-AAGTAAATGACAACCTTTGTGGCAAAACT-AGGAACAC
* **
5180112 GTAAGCCTAGGTGGCGA
1 GAAAGCCTTTGTGGCGA
5180129 ACCTCTACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 1 0.02
61 61 0.94
62 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (61 bp):
GAAAGCCTTTGTGGCGAGTACTGAAAGTAAATGACAACCTTTGTGGCAAAACTAGGAACAC
Found at i:5200281 original size:26 final size:27
Alignment explanation
Indices: 5200242--5200320 Score: 99
Period size: 26 Copynumber: 2.9 Consensus size: 27
5200232 CTATTTTACA
5200242 AATTTTACAGTTTTATCCCTATTTTTT
1 AATTTTACAGTTTTATCCCTATTTTTT
*
5200269 -ATTTTACAATTTTA-CTCCTATTTTTT
1 AATTTTACAGTTTTATC-CCTATTTTTT
* *
5200295 AGATTTTACAGTTTTGTTCCTATTTT
1 A-ATTTTACAGTTTTATCCCTATTTT
5200321 ACAAAAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.02
26 23 0.52
28 20 0.45
ACGTcount: A:0.22, C:0.14, G:0.05, T:0.59
Consensus pattern (27 bp):
AATTTTACAGTTTTATCCCTATTTTTT
Found at i:5206534 original size:23 final size:23
Alignment explanation
Indices: 5206503--5206553 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
5206493 ACCTACTTTC
* * *
5206503 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGCAATTTTCGGGATA
5206526 TTACAGTAGCAATTTTCGGGATA
1 TTACAGTAGCAATTTTCGGGATA
5206549 TTACA
1 TTACA
5206554 CTTTACCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (23 bp):
TTACAGTAGCAATTTTCGGGATA
Found at i:5213635 original size:23 final size:23
Alignment explanation
Indices: 5213608--5213654 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5213598 ACTATATTAG
* * *
5213608 TGAGAAATTCACTTATTGTGAAA
1 TGAGAAACTCACCTATTGAGAAA
*
5213631 TGAGATACTCACCTATTGAGAAA
1 TGAGAAACTCACCTATTGAGAAA
5213654 T
1 T
5213655 TATGTTGCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (23 bp):
TGAGAAACTCACCTATTGAGAAA
Found at i:5216838 original size:98 final size:97
Alignment explanation
Indices: 5216660--5217011 Score: 434
Period size: 98 Copynumber: 3.6 Consensus size: 97
5216650 AAGCTACCAG
* * * * * * * * *
5216660 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTCATTTCCCTGGCGTTGT
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAACCTTATCTCCCT-GCGTTGC
* *
5216725 ACTGGAACAGATTAAAGCTACAAATTATGGCGGA
64 AATGGAACAGATTAAAGCTATAAATTATGGCGGA
* * *
5216759 TCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTAAAGCCACCAACCTTATTTCCCTAGCGTTGCA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCT-GCGTTGCA
*
5216824 ATGGAATAGATTAAAGCTATAAATTATGGCGGA
65 ATGGAACAGATTAAAGCTATAAATTATGGCGGA
** * * *
5216857 TCTTATCTTCCTGAAGTTATAGTGGAGCAGATTTAAGCCACCAACATTATCTCCCTGTAGTTGCA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTG-CGTTGCA
* * * *
5216922 GTGGAACAAATTAAAGCTATAAATTATGGTGAA
65 ATGGAACAGATTAAAGCTATAAATTATGGCGGA
* *
5216955 TCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCATCCTTATCTCCCTG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTG
5217012 AAGATACAGC
Statistics
Matches: 222, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
97 1 0.00
98 187 0.84
99 34 0.15
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (97 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGCGTTGCAA
TGGAACAGATTAAAGCTATAAATTATGGCGGA
Found at i:5217077 original size:143 final size:143
Alignment explanation
Indices: 5216903--5217420 Score: 667
Period size: 143 Copynumber: 3.6 Consensus size: 143
5216893 GCCACCAACA
** * *
5216903 TTATCTCCCTGTAGTTGCAGTGGAACAAATTAAAGCTATAAATTATGGTGAATCTTATCTTCCTG
1 TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTG
* * * * *
5216968 AAGTTGTAGTGGAGCAGATTGAAGCCACCATCCTTATCTCCCTGAAGATACAGCGGAGCAGACTG
66 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTG
*
5217033 AAGAAAATGAATC
131 AAGACAATGAATC
* *
5217046 TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAGTTATGGCAAATCTTATCTTCCTG
1 TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTG
* * * * * *
5217111 AAGTTGCAGTGGAGCAGATTGAAGTCACCAGCCTTATCTCCTTAAAGTTGTATCAGAGTAGACTG
66 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTG
*
5217176 AAGACTATGAATC
131 AAGACAATGAATC
* * * * * * * *
5217189 TTATTTCTCTGGCATTGTAGTGGAACAGATTAAAGCTACAAGTTATGGCGGATCTTATCCTCCTG
1 TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTG
* * *
5217254 AAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAGCGGGGTAGACTG
66 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTG
**
5217319 AAGACAGCGAATC
131 AAGACAATGAATC
* * * * * * *
5217332 TTATTTCCCTGGCGTTGTAGTAGAACAAATTAAAACTACAAATCATGGAGGATCTTATCTTCCTG
1 TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTG
* *
5217397 AAGTTACAGTGGAGCAGATCGAAG
66 AAGTTGCAGTGGAGCAGATTGAAG
5217421 ACATAATTCT
Statistics
Matches: 324, Mismatches: 51, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
143 324 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (143 bp):
TTATCTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTG
AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTG
AAGACAATGAATC
Found at i:5220293 original size:86 final size:86
Alignment explanation
Indices: 5220177--5220501 Score: 325
Period size: 86 Copynumber: 3.8 Consensus size: 86
5220167 AACAAGTGGC
* * * * *
5220177 GGCTAGTCCACAAAACCCAGTAGCAATTTGTTTAATCTGCGAATATGTTATGCACCCACAATAAG
1 GGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTGTGAATATGTTGTGCACTCACAATAAG
* *
5220242 TGACAGTAACTGCAAACATGT
66 TGACAGTAACTACAAATATGT
* * * **
5220263 GGCTTGTCCACAAAACCTAGTGGCAGTTTGTTTAATCTGTGAATATAATGTGCACTCAC-ATCAA
1 GGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTGTGAATATGTTGTGCACTCACAAT-AA
5220327 GTGACAGTAACTACAAATATGT
65 GTGACAGTAACTACAAATATGT
* * * * * * *
5220349 GACTCATCTACAAAACCCAGTGGCTAATTTGTTTAATCTATAAATATGTTGTGCACTCAAAACAA
1 GGCTCGTCCACAAAACCCAGTGGC-AATTTGTTTAATCTGTGAATATGTTGTGCACTCACAATAA
**
5220414 GTGGTAGTAACTACAAATATGT
65 GTGACAGTAACTACAAATATGT
* * * ** * * *
5220436 GGCTCGTCC-CCAAACCTAGTGACTGTTTGTTTAAT-T-TACAACCATGTTGTGCACTCACAACA
1 GGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTGT-GAA-TATGTTGTGCACTCACAATA
5220498 AGTG
64 AGTG
5220502 GAAGTAATTG
Statistics
Matches: 198, Mismatches: 36, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
83 1 0.01
84 3 0.02
85 34 0.17
86 102 0.52
87 57 0.29
88 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (86 bp):
GGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTGTGAATATGTTGTGCACTCACAATAAG
TGACAGTAACTACAAATATGT
Found at i:5221909 original size:22 final size:26
Alignment explanation
Indices: 5221883--5221943 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 26
5221873 AGCTGAAGAA
5221883 CGGTAAGCTC-TAGAGAG-TGA-A-AT
1 CGGTAAGCTCATA-AGAGCTGATATAT
5221906 -GGTAAGCTCATAAGAGCTGATATAT
1 CGGTAAGCTCATAAGAGCTGATATAT
5221931 CGGTAAGCTCATA
1 CGGTAAGCTCATA
5221944 CGGGCTGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
22 13 0.39
23 5 0.15
24 1 0.03
25 2 0.06
26 12 0.36
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
CGGTAAGCTCATAAGAGCTGATATAT
Found at i:5223880 original size:25 final size:26
Alignment explanation
Indices: 5223833--5223882 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
5223823 AAGAATAAAT
5223833 AAATTAACTAAGTTTTCAAAAATAGA
1 AAATTAACTAAGTTTTCAAAAATAGA
5223859 AAATTAACTAAG-TTTCAAAAATAG
1 AAATTAACTAAGTTTTCAAAAATAG
5223883 TTATCATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATTAACTAAGTTTTCAAAAATAGA
Found at i:5231957 original size:16 final size:17
Alignment explanation
Indices: 5231925--5231958 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5231915 CAATTCAGTC
5231925 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
*
5231942 CAAAATT-ATGCTTTTG
1 CAAAATTCATACTTTTG
5231958 C
1 C
5231959 CTCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:5235947 original size:28 final size:28
Alignment explanation
Indices: 5235888--5235953 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
5235878 ATTAACTTGG
*
5235888 GAAAGAAAAAATTATTTAAATACCACTTAT
1 GAAA-AAAAAA-TATTTAAATACCACTCAT
*
5235918 GATAAAAAAAATATTTAAGTACCAC-CAT
1 GA-AAAAAAAATATTTAAATACCACTCAT
5235946 GAAAAAAA
1 GAAAAAAA
5235954 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 6 0.18
28 4 0.12
29 13 0.39
30 8 0.24
31 2 0.06
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (28 bp):
GAAAAAAAAATATTTAAATACCACTCAT
Found at i:5240778 original size:30 final size:30
Alignment explanation
Indices: 5240744--5240837 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
5240734 AAGTAGGATC
*
5240744 ACACGACCGTGTAACTCTCTGACTTGCCAT
1 ACACGGCCGTGTAACTCTCTGACTTGCCAT
* *
5240774 ACACGGCCGTATAACTCTCTGACTTACCAT
1 ACACGGCCGTGTAACTCTCTGACTTGCCAT
*
5240804 ACACGGCTGTGTAACTCTCTGACTTGCCAT
1 ACACGGCCGTGTAACTCTCTGACTTGCCAT
5240834 ACAC
1 ACAC
5240838 AGCCATGTCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (30 bp):
ACACGGCCGTGTAACTCTCTGACTTGCCAT
Found at i:5240871 original size:42 final size:42
Alignment explanation
Indices: 5240812--5240899 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
5240802 ATACACGGCT
* *
5240812 GTGTAACTCTCTGACTTGCCATACACAGCCATGTCGCAGGCC
1 GTGTAACTCTCTAACTTGCCACACACAGCCATGTCGCAGGCC
* * * *
5240854 GTGTAACTCTCTAACTTGCCACACACAGTCGTGTGGTAGGCC
1 GTGTAACTCTCTAACTTGCCACACACAGCCATGTCGCAGGCC
5240896 GTGT
1 GTGT
5240900 GCTAGGCCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (42 bp):
GTGTAACTCTCTAACTTGCCACACACAGCCATGTCGCAGGCC
Found at i:5243613 original size:37 final size:37
Alignment explanation
Indices: 5243555--5243625 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
5243545 ACTACATGTG
* *
5243555 AGCTGGGAACAGAAAGGTTGCGAACTGATGGAGTGCA
1 AGCTGCGAACAGAAAGCTTGCGAACTGATGGAGTGCA
* * *
5243592 AGCTGCGAACAGAGAGCTTGCGCACTGGTGGAGT
1 AGCTGCGAACAGAAAGCTTGCGAACTGATGGAGT
5243626 ACGAGTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.38, T:0.17
Consensus pattern (37 bp):
AGCTGCGAACAGAAAGCTTGCGAACTGATGGAGTGCA
Found at i:5245411 original size:18 final size:18
Alignment explanation
Indices: 5245368--5245411 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
5245358 ACCCAATCTA
* *
5245368 AACCCAAGTATTCAACCC
1 AACCCAATTACTCAACCC
5245386 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
5245404 AACCCAAT
1 AACCCAAT
5245412 CATAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:5245532 original size:9 final size:9
Alignment explanation
Indices: 5245518--5245584 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
5245508 GTAGTGATTC
*
5245518 AATTTGGTT
1 AATTCGGTT
*
5245527 AATTTGGTT
1 AATTCGGTT
*
5245536 AATTCGGGT
1 AATTCGGTT
5245545 AATTCGGTT
1 AATTCGGTT
*
5245554 AATTCGGGT
1 AATTCGGTT
*
5245563 AATTCGGGT
1 AATTCGGTT
5245572 AATTCGGTT
1 AATTCGGTT
5245581 AATT
1 AATT
5245585 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:5245553 original size:27 final size:27
Alignment explanation
Indices: 5245518--5245585 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
5245508 GTAGTGATTC
* *
5245518 AATTTGGTTAATTTGGTTAATTCGGGT
1 AATTCGGTTAATTTGGGTAATTCGGGT
*
5245545 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTTGGGTAATTCGGGT
5245572 AATTCGGTTAATTT
1 AATTCGGTTAATTT
5245586 TTAACCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (27 bp):
AATTCGGTTAATTTGGGTAATTCGGGT
Found at i:5253369 original size:297 final size:297
Alignment explanation
Indices: 5252835--5253431 Score: 1194
Period size: 297 Copynumber: 2.0 Consensus size: 297
5252825 TATTACTATC
5252835 ATTATGATTGTCGATAATATTGTTGATACTAATCTACACGTGTTTATTTACTTCTTTATATTTTT
1 ATTATGATTGTCGATAATATTGTTGATACTAATCTACACGTGTTTATTTACTTCTTTATATTTTT
5252900 CTTGTTATGTATTAACATTAAGTTTTACATTATCACATATTAGTATACTATTTCATTATATTTTT
66 CTTGTTATGTATTAACATTAAGTTTTACATTATCACATATTAGTATACTATTTCATTATATTTTT
5252965 ATTTATATTATAAATAACCATTTTAAATTTATTATACATTCGCCTTAAAATCTACTATATGCCAT
131 ATTTATATTATAAATAACCATTTTAAATTTATTATACATTCGCCTTAAAATCTACTATATGCCAT
5253030 CTTTTTAAAATTTATTTTGTATTATAAATTGTTATATATTCATTATTACTTAGATTAATCATTTT
196 CTTTTTAAAATTTATTTTGTATTATAAATTGTTATATATTCATTATTACTTAGATTAATCATTTT
5253095 CATGAAAATTTGTTATATCATATATACCTTCTTTAAT
261 CATGAAAATTTGTTATATCATATATACCTTCTTTAAT
5253132 ATTATGATTGTCGATAATATTGTTGATACTAATCTACACGTGTTTATTTACTTCTTTATATTTTT
1 ATTATGATTGTCGATAATATTGTTGATACTAATCTACACGTGTTTATTTACTTCTTTATATTTTT
5253197 CTTGTTATGTATTAACATTAAGTTTTACATTATCACATATTAGTATACTATTTCATTATATTTTT
66 CTTGTTATGTATTAACATTAAGTTTTACATTATCACATATTAGTATACTATTTCATTATATTTTT
5253262 ATTTATATTATAAATAACCATTTTAAATTTATTATACATTCGCCTTAAAATCTACTATATGCCAT
131 ATTTATATTATAAATAACCATTTTAAATTTATTATACATTCGCCTTAAAATCTACTATATGCCAT
5253327 CTTTTTAAAATTTATTTTGTATTATAAATTGTTATATATTCATTATTACTTAGATTAATCATTTT
196 CTTTTTAAAATTTATTTTGTATTATAAATTGTTATATATTCATTATTACTTAGATTAATCATTTT
5253392 CATGAAAATTTGTTATATCATATATACCTTCTTTAAT
261 CATGAAAATTTGTTATATCATATATACCTTCTTTAAT
5253429 ATT
1 ATT
5253432 TTATTCTATA
Statistics
Matches: 300, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 300 1.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (297 bp):
ATTATGATTGTCGATAATATTGTTGATACTAATCTACACGTGTTTATTTACTTCTTTATATTTTT
CTTGTTATGTATTAACATTAAGTTTTACATTATCACATATTAGTATACTATTTCATTATATTTTT
ATTTATATTATAAATAACCATTTTAAATTTATTATACATTCGCCTTAAAATCTACTATATGCCAT
CTTTTTAAAATTTATTTTGTATTATAAATTGTTATATATTCATTATTACTTAGATTAATCATTTT
CATGAAAATTTGTTATATCATATATACCTTCTTTAAT
Found at i:5255387 original size:53 final size:52
Alignment explanation
Indices: 5255319--5255421 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 52
5255309 TTCATATTCG
5255319 AAAAAGTGTCGATTCAAGTTCGATTG-CTAAATTAGGAAGTTTGTCATGGAGA
1 AAAAAGTGTCGATTCAAGTTCGA-TGACTAAATTAGGAAGTTTGTCATGGAGA
* * *
5255371 AAAAGAGTGTCGATTCAAGTTCGATGATTAAATTAGGATGTTTTTCATGGA
1 AAAA-AGTGTCGATTCAAGTTCGATGACTAAATTAGGAAGTTTGTCATGGA
5255422 AAACGACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 6 0.13
53 40 0.87
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (52 bp):
AAAAAGTGTCGATTCAAGTTCGATGACTAAATTAGGAAGTTTGTCATGGAGA
Found at i:5266230 original size:44 final size:44
Alignment explanation
Indices: 5266045--5266234 Score: 134
Period size: 44 Copynumber: 4.3 Consensus size: 44
5266035 CAGTAAGGAT
*
5266045 AGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * ** * *
5266089 GGTAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAGGCC
1 AGCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGAC
* * * * * * * * * **
5266133 ACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGGT
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
5266177 AGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* *
5266221 GGTAAATCTTATCT
1 AGCAAATCTTATCT
5266235 TTCCAGGATA
Statistics
Matches: 102, Mismatches: 38, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 84 0.82
45 6 0.06
46 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
AGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
Found at i:5266281 original size:132 final size:133
Alignment explanation
Indices: 5266039--5266290 Score: 452
Period size: 132 Copynumber: 1.9 Consensus size: 133
5266029 ACAGACCAGT
5266039 AAGGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTT
1 AAGGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTT
* *
5266104 TCCAAGATAGTGGGAAGCAGATTTAGGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCAGCGGAGTAGG
5266169 TTA
131 TTA
5266172 AAGG-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTT
1 AAGGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTT
* * *
5266236 TCCAGGATAGTGGGAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTAAGCAGCA
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCA
5266291 ATGGACTAGG
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
132 110 0.96
133 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (133 bp):
AAGGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCAGCGGAGTAGG
TTA
Found at i:5266319 original size:132 final size:132
Alignment explanation
Indices: 5266044--5266323 Score: 445
Period size: 132 Copynumber: 2.1 Consensus size: 132
5266034 CCAGTAAGGA
5266044 TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAA
1 TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAA
* * * *
5266109 GATAGTGGGAAGCAGATTTAGGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAA
66 GATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCAACGGACTAGGTTAAA
*
5266174 GG
131 AG
*
5266176 TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAG
1 TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAA
* * *
5266241 GATAGTGGGAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTAAGCAGCAATGGACTAGGTTGAA
66 GATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCAACGGACTAGGTT-AA
*
5266306 AAT
130 AAG
*
5266309 TA-CAGGTCTTATCTC
1 TAGCAGATCTTATCTC
5266324 TCTGAAGTTG
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
132 131 0.96
133 5 0.04
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAA
GATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTAAGCAGCAACGGACTAGGTTAAA
AG
Found at i:5266960 original size:15 final size:14
Alignment explanation
Indices: 5266940--5266972 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5266930 CAGAATCGGT
5266940 AAAAAAGAGAAAAAC
1 AAAAAA-AGAAAAAC
5266955 -AAAAAAGAAAAAC
1 AAAAAAAGAAAAAC
5266968 AAAAA
1 AAAAA
5266973 GAAATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAC
Found at i:5266971 original size:12 final size:13
Alignment explanation
Indices: 5266941--5266976 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
5266931 AGAATCGGTA
5266941 AAAAAGAGAAAAAC
1 AAAAA-AGAAAAAC
5266955 AAAAAAGAAAAAC
1 AAAAAAGAAAAAC
5266968 -AAAAAGAAA
1 AAAAAAGAAA
5266977 TAGAAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.41
13 8 0.36
14 5 0.23
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:5271193 original size:24 final size:25
Alignment explanation
Indices: 5271106--5271193 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
5271096 TTATCGATTC
* * * *
5271106 CAGCTCTTATGAGCTTACTGATACT
1 CAGCTCGTATGAGCTTACCGTTATT
* *
5271131 CAGCTCATATAAGCTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
* *
5271156 CAGCTCGGAGGAGCTTACCGTT-TAT
1 CAGCTCGTATGAGCTTACCGTTAT-T
5271181 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
5271194 ATAAATGTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 12 0.24
25 39 0.76
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:5271378 original size:31 final size:31
Alignment explanation
Indices: 5271343--5271402 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
5271333 TATACATGAA
5271343 ATATATGGAAAT-GATGATACATGATATATTG
1 ATATATGGAAATGGATGATACATG-TATATTG
* * *
5271374 ATATATTGTAATGGATGATATATGTATAT
1 ATATATGGAAATGGATGATACATGTATAT
5271403 GATGAAACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (31 bp):
ATATATGGAAATGGATGATACATGTATATTG
Found at i:5273953 original size:40 final size:40
Alignment explanation
Indices: 5273801--5273946 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
5273791 TTGAATGATG
* * * * *
5273801 TCCGGGCTAAGTCCCGAAGG-GTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
5273841 TCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
5273881 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
5273922 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5273947 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:5276833 original size:18 final size:18
Alignment explanation
Indices: 5276810--5276930 Score: 72
Period size: 20 Copynumber: 6.3 Consensus size: 18
5276800 ATCGCCATAG
5276810 ATAAAAATATATAATAAT
1 ATAAAAATATATAATAAT
*
5276828 AT-AAAATGACATAATAAT
1 ATAAAAAT-ATATAATAAT
*
5276846 ATAAAATAAATATAATATAT
1 ATAAAA-ATATATAATA-AT
5276866 AATAAAAA-AGTAT-AT-AT
1 -ATAAAAATA-TATAATAAT
*
5276883 GTGAAAATAATATATAATATAT
1 AT--AAA-AATATATAATA-AT
5276905 ATAAATAATATGAGTAAT-AT
1 ATAAA-AATAT-A-TAATAAT
5276925 ATAAAA
1 ATAAAA
5276931 TAATTATATA
Statistics
Matches: 83, Mismatches: 5, Indels: 29
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.01
17 7 0.08
18 16 0.19
19 19 0.23
20 26 0.31
21 7 0.08
22 7 0.08
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAAAAATATATAATAAT
Found at i:5276902 original size:22 final size:21
Alignment explanation
Indices: 5276877--5276947 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 21
5276867 ATAAAAAAGT
5276877 ATATATGTGAAAATAATATATA
1 ATATATGT-AAAATAATATATA
*
5276899 ATATATAT-AAATAATATGAGTA
1 ATATATGTAAAATAATAT-A-TA
5276921 ATATA--TAAAATAATTATATA
1 ATATATGTAAAATAA-TATATA
5276941 ATATATG
1 ATATATG
5276948 ATATAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
20 17 0.40
21 8 0.19
22 17 0.40
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATATATGTAAAATAATATATA
Found at i:5276944 original size:29 final size:28
Alignment explanation
Indices: 5276838--5276959 Score: 77
Period size: 26 Copynumber: 4.6 Consensus size: 28
5276828 ATAAAATGAC
5276838 ATAATAATATAAAATAA-AT--ATAATAT
1 ATAAT-ATATAAAATAATATAAATAATAT
**
5276864 ATAATA-A-AAAAGT-ATATATGTGAA-A-
1 ATAATATATAAAA-TAATATAAAT-AATAT
*
5276889 ATAATATATAATAT-ATATAAATAATAT
1 ATAATATATAAAATAATATAAATAATAT
*
5276916 GAGTAATATATAAAATAAT-TATATAATAT
1 -A-TAATATATAAAATAATATAAATAATAT
*
5276945 ATGATATA-AAAATAA
1 ATAATATATAAAATAA
5276960 AAATAAAACA
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
23 5 0.06
24 4 0.05
25 9 0.12
26 23 0.30
27 11 0.14
28 2 0.03
29 21 0.27
30 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (28 bp):
ATAATATATAAAATAATATAAATAATAT
Found at i:5279437 original size:15 final size:15
Alignment explanation
Indices: 5279417--5279463 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
5279407 CCACCAGCTT
5279417 CATCATCATCATCAC
1 CATCATCATCATCAC
*
5279432 CATCATCAGCATCAC
1 CATCATCATCATCAC
* *
5279447 CATCACCATCACCAC
1 CATCATCATCATCAC
5279462 CA
1 CA
5279464 CCACCATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.19
Consensus pattern (15 bp):
CATCATCATCATCAC
Found at i:5286128 original size:21 final size:22
Alignment explanation
Indices: 5286104--5286149 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5286094 AATTGAGTTG
* *
5286104 GTTGATGGTT-GTATAATGATT
1 GTTGATAGTTGGTATAATGAAT
*
5286125 GTTGATAGTTGGTATTATGAAT
1 GTTGATAGTTGGTATAATGAAT
5286147 GTT
1 GTT
5286150 AAATTGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (22 bp):
GTTGATAGTTGGTATAATGAAT
Found at i:5288037 original size:42 final size:43
Alignment explanation
Indices: 5287978--5288068 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
5287968 TAAGGTTATT
** *
5287978 TGAGATTACGTGTAAGACCATATTTGGGATA-TGGCATCGATA
1 TGAGATTACGTGTAAGACCATAGCTGGGATATTAGCATCGATA
*
5288020 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTAGCATCGATA
1 TGAGA-TTACGTGTAAGACCATAGCTGGGATATTAGCATCGATA
5288063 TGAGAT
1 TGAGAT
5288069 CCCATGTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (43 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATTAGCATCGATA
Found at i:5288077 original size:43 final size:42
Alignment explanation
Indices: 5287988--5288080 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
5287978 TGAGATTACG
** * * *
5287988 TGTAAGACCATATTTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATAGCTGGGATATAGCATCGATATGAGACTCCA
*
5288030 TGTAAGACCATAGCTGGGCTATTAGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGCTGGGATA-TAGCATCGATATGAGACT-CCA
5288073 TGTAAGAC
1 TGTAAGAC
5288081 TAAAACAACC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 19 0.44
43 24 0.56
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATAGCATCGATATGAGACTCCA
Found at i:5291323 original size:31 final size:32
Alignment explanation
Indices: 5291275--5291346 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
5291265 GATATTTTGA
*
5291275 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATAAGATATAATAT
**
5291305 TATTTTATTAA-TACTTTAATAAGATATTTTAT
1 TATTTTATTAATTA-TTTAATAAGATATAATAT
5291337 TATTTTATTA
1 TATTTTATTA
5291347 GTATATAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.25
31 14 0.39
32 13 0.36
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATAAGATATAATAT
Found at i:5293633 original size:38 final size:38
Alignment explanation
Indices: 5293580--5294390 Score: 1415
Period size: 38 Copynumber: 20.9 Consensus size: 38
5293570 TGATATGAGA
* *
5293580 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
**
5293618 ACTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293656 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293694 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293732 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293770 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293808 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293846 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293884 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293922 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293960 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5293998 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294036 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294074 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294112 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294150 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294188 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
5294226 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
*
5294264 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 TGTGTAAGACCATGGTTGAAAGATACCATGACAACC-----T--G
*
5294309 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 -TGTGTAAGACCATGGTTGAAAGATACCATGACAACC-----T--G
*
5294355 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 -TGTGTAAGACCATGGTTGAAAGATACCATGACAAC
5294391 GTGACATGAA
Statistics
Matches: 758, Mismatches: 7, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
38 675 0.89
43 1 0.00
45 1 0.00
46 81 0.11
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
Found at i:5294372 original size:92 final size:92
Alignment explanation
Indices: 5294264--5294480 Score: 292
Period size: 92 Copynumber: 2.4 Consensus size: 92
5294254 TGACAACCTG
* * * ***
5294264 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAAAAAGACCATGGTTGA
* *
5294329 AAGATACCATGGCAACCTGATATG-AGA
66 AAGATACCATGGCAACCTGACA-GAAAA
*
5294356 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAAAAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAAAAAGACCATGGTTGA
*
5294421 AAGATACCATGGCAACGTGACAGAAAA
66 AAGATACCATGGCAACCTGACAGAAAA
* * * *
5294448 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
5294481 TCACGTCAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 1 0.01
92 109 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (92 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAAAAAGACCATGGTTGA
AAGATACCATGGCAACCTGACAGAAAA
Found at i:5294786 original size:23 final size:25
Alignment explanation
Indices: 5294741--5294787 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5294731 AAGAAATATA
*
5294741 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
5294766 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
5294788 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:5311849 original size:31 final size:31
Alignment explanation
Indices: 5311813--5311874 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
5311803 AGCTTAGACT
5311813 ATAAACAAGAGCTTCTCGGGCCGAGTACTAA
1 ATAAACAAGAGCTTCTCGGGCCGAGTACTAA
*
5311844 ATAAACAAGTGCTTCTCGGGCCGAGTACTAA
1 ATAAACAAGAGCTTCTCGGGCCGAGTACTAA
5311875 CGGTTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (31 bp):
ATAAACAAGAGCTTCTCGGGCCGAGTACTAA
Found at i:5316192 original size:43 final size:43
Alignment explanation
Indices: 5316113--5316194 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
5316103 GCTGGTATTA
* * * *
5316113 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAACAGGCGTAATACCGGTGATGTG
*
5316156 TATTCGGGCCTTCGTGCCTAACAGGCGTAATACCGGTGA
1 TATTCGGGCCTTCATGCCTAACAGGCGTAATACCGGTGA
5316195 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAACAGGCGTAATACCGGTGATGTG
Found at i:5327210 original size:16 final size:17
Alignment explanation
Indices: 5327180--5327211 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5327170 CTTCGCACAT
5327180 AATCATGCATCAAAAAA
1 AATCATGCATCAAAAAA
5327197 AATCATGC-TCAAAAA
1 AATCATGCATCAAAAA
5327212 TACTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (17 bp):
AATCATGCATCAAAAAA
Found at i:5330609 original size:40 final size:40
Alignment explanation
Indices: 5330372--5330595 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
5330362 TGAATGATGT
* * * *
5330372 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
5330412 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
5330452 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
5330490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
5330531 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
5330571 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
5330596 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:5330617 original size:119 final size:119
Alignment explanation
Indices: 5330371--5330628 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
5330361 TTGAATGATG
*
5330371 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
* ** *
5330436 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
5330490 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
* * *
5330553 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
5330610 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
5330629 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:5336042 original size:111 final size:111
Alignment explanation
Indices: 5335848--5336069 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
5335838 ACGGGGTACC
* *
5335848 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCATGGTTTTGGAAGAAATTGCAAGAAG
1 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTGCAAGAAG
5335913 CTTTAGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAAT
66 CTTTAGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAAT
* *
5335959 TATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAG
1 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTGCAAGAAG
*
5336024 CTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAAT
66 CTTTAGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAAT
5336070 CGATGGTCAA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (111 bp):
TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTGCAAGAAG
CTTTAGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAAT
Found at i:5343749 original size:32 final size:32
Alignment explanation
Indices: 5343698--5343758 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
5343688 CATGCTCAAC
*
5343698 CTTTACTTTTCAGACTTTGAGCAAA-CTTTGCT
1 CTTTACTTTTCAGAATTTGAG-AAATCTTTGCT
* *
5343730 CTTTATTTTTGAGAATTTGAGAAATCTTT
1 CTTTACTTTTCAGAATTTGAGAAATCTTT
5343759 TCTTTGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.48
Consensus pattern (32 bp):
CTTTACTTTTCAGAATTTGAGAAATCTTTGCT
Found at i:5347876 original size:22 final size:20
Alignment explanation
Indices: 5347837--5347877 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
5347827 TATAACATCC
*
5347837 AATTAATTCACATAAATATA
1 AATTAATTCACACAAATATA
5347857 AATTACATTCTACACAAATAT
1 AATTA-ATTC-ACACAAATAT
5347878 GACATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTAATTCACACAAATATA
Found at i:5354494 original size:7 final size:7
Alignment explanation
Indices: 5354477--5354509 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
5354467 CTTGTTCTAA
5354477 AAAAAAT
1 AAAAAAT
5354484 -AAAAAT
1 AAAAAAT
5354490 AAAAAAT
1 AAAAAAT
5354497 AAAAAAT
1 AAAAAAT
5354504 AAAAAA
1 AAAAAA
5354510 ACTATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:5354495 original size:14 final size:15
Alignment explanation
Indices: 5354476--5354510 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
5354466 GCTTGTTCTA
5354476 AAAAAAAT-AAAAAT
1 AAAAAAATAAAAAAT
5354490 -AAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
5354504 AAAAAAA
1 AAAAAAA
5354511 CTATGTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:5357029 original size:11 final size:12
Alignment explanation
Indices: 5356990--5357032 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
5356980 AAAGGCAAAG
5356990 ATAAAAATGAAA
1 ATAAAAATGAAA
5357002 A-AAAAATGAAA
1 ATAAAAATGAAA
* * *
5357013 CTTAAAATAAAA
1 ATAAAAATGAAA
5357025 ATAAAAAT
1 ATAAAAAT
5357033 TTTAAAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (12 bp):
ATAAAAATGAAA
Found at i:5370099 original size:25 final size:25
Alignment explanation
Indices: 5370071--5370847 Score: 1554
Period size: 25 Copynumber: 31.1 Consensus size: 25
5370061 TAGGTGAGGA
5370071 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370096 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370121 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370146 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370171 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370196 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370221 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370246 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370271 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370296 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370321 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370346 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370371 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370396 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370421 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370446 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370471 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370496 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370521 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370546 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370571 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370596 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370621 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370646 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370671 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370696 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370721 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370746 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370771 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370796 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370821 GAAGGGGATAGTTTACTAAAAATAG
1 GAAGGGGATAGTTTACTAAAAATAG
5370846 GA
1 GA
5370848 GTTTTCATCT
Statistics
Matches: 752, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 752 1.00
ACGTcount: A:0.44, C:0.04, G:0.28, T:0.24
Consensus pattern (25 bp):
GAAGGGGATAGTTTACTAAAAATAG
Found at i:5393928 original size:6 final size:6
Alignment explanation
Indices: 5393919--5393944 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5393909 AAGAGACCGT
5393919 GACAGG GACAGG GACAGG GACAGG GA
1 GACAGG GACAGG GACAGG GACAGG GA
5393945 TTATGATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.50, T:0.00
Consensus pattern (6 bp):
GACAGG
Found at i:5394235 original size:6 final size:6
Alignment explanation
Indices: 5394228--5394260 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
5394218 ATATTCTGAC
*
5394228 CGTGAC CGTGAT CGTGAT CGTGAT CGTGAT CGT
1 CGTGAT CGTGAT CGTGAT CGTGAT CGTGAT CGT
5394261 TATGATGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (6 bp):
CGTGAT
Found at i:5397980 original size:28 final size:28
Alignment explanation
Indices: 5397940--5397994 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
5397930 GAGCACAATC
5397940 GAGTAACATTAGTAACATTTGTGAGTGT
1 GAGTAACATTAGTAACATTTGTGAGTGT
5397968 GAGTAACATTAGTAACATTTGTGAGTG
1 GAGTAACATTAGTAACATTTGTGAGTG
5397995 ATTTTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
GAGTAACATTAGTAACATTTGTGAGTGT
Found at i:5405690 original size:20 final size:18
Alignment explanation
Indices: 5405657--5405695 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
5405647 GATGATATTT
*
5405657 TAAAATTATTTAATTAGA
1 TAAAATTATTTAATGAGA
5405675 TAAATATTATTTTAATGAGA
1 TAAA-ATTA-TTTAATGAGA
5405695 T
1 T
5405696 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (18 bp):
TAAAATTATTTAATGAGA
Found at i:5405710 original size:8 final size:8
Alignment explanation
Indices: 5405697--5405728 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
5405687 TAATGAGATT
5405697 TTTTATTA
1 TTTTATTA
5405705 TTTTA-T-
1 TTTTATTA
5405711 TTTTATTA
1 TTTTATTA
5405719 TTTTATTA
1 TTTTATTA
5405727 TT
1 TT
5405729 ATTTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.23
7 2 0.09
8 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:5405715 original size:14 final size:14
Alignment explanation
Indices: 5405696--5405736 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
5405686 TTAATGAGAT
5405696 TTTTTATTATTTTA
1 TTTTTATTATTTTA
5405710 TTTTTATTATTTTA
1 TTTTTATTATTTTA
*
5405724 TTATTATTTATTT
1 TTTTTA-TTATTT
5405737 AGTATAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTATTTTA
Found at i:5406166 original size:13 final size:13
Alignment explanation
Indices: 5406123--5406169 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
5406113 CTTGATATGT
5406123 TAGTGAAGAGAAA
1 TAGTGAAGAGAAA
5406136 -A-T-AAGAG-AA
1 TAGTGAAGAGAAA
5406145 -AGTGAAGAGAAA
1 TAGTGAAGAGAAA
*
5406157 TAGTGTAGAGAAA
1 TAGTGAAGAGAAA
5406170 GAAAATAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 3 0.10
10 6 0.21
11 6 0.21
12 3 0.10
13 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (13 bp):
TAGTGAAGAGAAA
Found at i:5407605 original size:46 final size:46
Alignment explanation
Indices: 5407553--5407872 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
5407543 GTTTTTTGAA
* *
5407553 ATGAAAT-ATGTAAGACCATGGTTGAAAGATATCATGGCAACATGAT
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
5407599 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
5407645 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
5407691 ATGAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** ** *
5407737 GGGAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5407783 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
5407829 ATGAAATGAGTAAGACTATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
5407873 TCAAAGATAA
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 250 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:5416511 original size:20 final size:20
Alignment explanation
Indices: 5416486--5416526 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5416476 GTCGAAGAGA
5416486 AAGTAAACATATTTTGCAAG
1 AAGTAAACATATTTTGCAAG
5416506 AAGTAAACATATTTTGCAAG
1 AAGTAAACATATTTTGCAAG
5416526 A
1 A
5416527 TATATGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (20 bp):
AAGTAAACATATTTTGCAAG
Found at i:5421911 original size:32 final size:32
Alignment explanation
Indices: 5421865--5421928 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
5421855 ACAACCAAGA
*
5421865 GGAATGCCGTGGTTCGAGACTGGTCTCTAAAG
1 GGAATGCCGCGGTTCGAGACTGGTCTCTAAAG
5421897 GGAATGCCGCGGTTCGAGACTGGTCTCTAAAG
1 GGAATGCCGCGGTTCGAGACTGGTCTCTAAAG
5421929 ACTCAGAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (32 bp):
GGAATGCCGCGGTTCGAGACTGGTCTCTAAAG
Found at i:5426926 original size:33 final size:33
Alignment explanation
Indices: 5426878--5426944 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
5426868 GGCTCGGCAC
* *
5426878 TCAATGTCATGCCTTTGGCCACGCTTTCCAAAA
1 TCAATGTCATCCCTTTGGCCACGCTTTCAAAAA
*
5426911 TCAATGTTATCCCTTTGGCCACGCTTTCAAAAA
1 TCAATGTCATCCCTTTGGCCACGCTTTCAAAAA
5426944 T
1 T
5426945 TCTGATAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (33 bp):
TCAATGTCATCCCTTTGGCCACGCTTTCAAAAA
Found at i:5432713 original size:76 final size:75
Alignment explanation
Indices: 5432523--5433051 Score: 656
Period size: 76 Copynumber: 7.1 Consensus size: 75
5432513 ATTTCTACGG
* * * * * *
5432523 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTTGACTGACATGTTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC-CTCA-AGACACGTTGAGGTATTTT
* **
5432588 CAATTTCTACCT
64 TAATTTCTGTCT
* *
5432600 TTC--AAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
5432663 ATTTCTGTCT
66 ATTTCTGTCT
* * *
5432673 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTCAAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
5432738 AATTTCTGTCT
65 AATTTCTGTCT
* *
5432749 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
1 TTCAAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
5432814 AATTTCTGTCT
65 AATTTCTGTCT
* * * *
5432825 TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
5432889 ATTTCTGTCT
66 ATTTCTGTCT
* * * * * *
5432899 TTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTG
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
*
5432964 ATTTATG-CTT
66 ATTTCTGTC-T
* * ** * **
5432974 TTC--AAAAATCAACTCATATTGCTAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
*
5433037 ATTTCTGTTT
66 ATTTCTGTCT
5433047 TTCAA
1 TTCAA
5433052 TTTCTGCTTT
Statistics
Matches: 410, Mismatches: 34, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
73 91 0.22
74 65 0.16
75 109 0.27
76 142 0.35
77 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
ATTTCTGTCT
Found at i:5433075 original size:13 final size:13
Alignment explanation
Indices: 5433031--5433075 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
5433021 CGCCGAGGTA
5433031 TTTTTAATTTCTG
1 TTTTTAATTTCTG
5433044 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
5433058 CTTTTAATTTCTG
1 TTTTTAATTTCTG
5433071 TTTTT
1 TTTTT
5433076 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:5433103 original size:100 final size:101
Alignment explanation
Indices: 5432969--5433247 Score: 402
Period size: 100 Copynumber: 2.8 Consensus size: 101
5432959 TTTTGATTTA
* * * *
5432969 TGCTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* ** *
5433034 TTAATTTCTGTTTTTCAATTTCTG-CTTTTAATTTC
66 TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
* *
5433069 TGTTTTTCAAAAATCAACTCATATTGCAATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
*
5433134 TCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
66 TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
** *
5433170 TGCTTTTC--AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
*
5433233 TCAATTTTTGTTTTT
66 TCAATTTCTGTTTTT
5433248 TTTAATTTAT
Statistics
Matches: 161, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 65 0.40
100 81 0.50
101 15 0.09
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (101 bp):
TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
Found at i:5433410 original size:73 final size:72
Alignment explanation
Indices: 5433247--5433478 Score: 297
Period size: 73 Copynumber: 3.2 Consensus size: 72
5433237 TTTTTGTTTT
** * * *
5433247 TTTTAATTTATGTTTAAAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTCA--AGACGCT
1 TTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
5433310 GAGGTAA
66 GAGGTAA
* *
5433317 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
5433382 TGAGGTAA
65 TGAGGTAA
* * * * *
5433390 TTTTGATTTATGCTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTTAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
5433455 CGAGGTAT
65 TGAGGTAA
*
5433463 TTTTAATTTCTGTTTT
1 TTTTAATTTATGTTTT
5433479 TCAATTTCTG
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
70 13 0.09
71 37 0.26
72 4 0.03
73 83 0.59
74 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (72 bp):
TTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAA
Found at i:5433506 original size:13 final size:13
Alignment explanation
Indices: 5433462--5433506 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
5433452 CGCCGAGGTA
5433462 TTTTTAATTTCTG
1 TTTTTAATTTCTG
5433475 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
5433489 CTTTTAATTTCTG
1 TTTTTAATTTCTG
5433502 TTTTT
1 TTTTT
5433507 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:5433534 original size:100 final size:101
Alignment explanation
Indices: 5433400--5433670 Score: 395
Period size: 100 Copynumber: 2.7 Consensus size: 101
5433390 TTTTGATTTA
* * * *
5433400 TGCTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* ** *
5433465 TTAATTTCTGTTTTTCAATTTCTG-CTTTTAATTTC
66 TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
* *
5433500 TGTTTTTCAAAAATCAACTCATATTGCAATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
*
5433565 TCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
66 TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
** *
5433601 TGCTTTTC--AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
5433664 TCAATTT
66 TCAATTT
5433671 TTTCTTTTCA
Statistics
Matches: 154, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 58 0.38
100 81 0.53
101 15 0.10
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (101 bp):
TGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
TCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTC
Found at i:5433994 original size:77 final size:76
Alignment explanation
Indices: 5433850--5434066 Score: 273
Period size: 75 Copynumber: 2.9 Consensus size: 76
5433840 TTTCTATTTC
* * * *
5433850 TATTTTCAATTTCTGTTTTAATTC-AAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCA
1 TATTTTCAAATTCT-TTTTTA-TCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCG
5433913 GGACACGCTGAGA
64 GGACACGCTGAGA
*
5433926 TATTTTCAAATTCTATTTTTATCAAAAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTCGG
1 TATTTTCAAATTCT-TTTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGG
*
5433991 GACACGCTGAGG
65 GACACGCTGAGA
* * *
5434003 TATTTTC-AATT-TTTTCTTTTCAAAAGAATCAACTCATATTGCGAGAGGT-AAGTTGAGTCTCG
1 TATTTTCAAATTCTTTT-TTATCAAAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTCG
5434065 GG
64 GG
5434067 CCACACGTCG
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
74 5 0.04
75 44 0.35
76 43 0.34
77 34 0.27
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (76 bp):
TATTTTCAAATTCTTTTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGG
ACACGCTGAGA
Found at i:5434033 original size:344 final size:342
Alignment explanation
Indices: 5433609--5434763 Score: 1372
Period size: 344 Copynumber: 3.4 Consensus size: 342
5433599 TCTGCTTTTC
* * *
5433609 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTT
1 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTT
* *
5433674 CTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGGCCACACG-TCGAGGTC
66 -TTGTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACACGCT-GAGGTC
5433738 CTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATAT
129 CTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATAT
5433803 TGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTT
194 TGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTT
*
5433868 TAATTCAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTC
259 TAATTCAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
5433933 AAATTCTATTTTTATCAAAA
324 AATTTCT-TTTTTATCAAAA
*
5433953 AAATCAACTCATATTGCGAAAGGTGAATTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTT
1 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTT
* *
5434018 CTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGGCCACACG-TCGAGGTC
66 -TTGTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACACGCT-GAGGTC
5434082 CTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATAT
129 CTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATAT
5434147 TGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTT
194 TGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTT
5434212 TAATTCAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
259 TAATTCAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* *
5434277 AATTTTTGTTTTTTTTAATTTATGTTTAAAA
324 AA-------TTTCTTT--TTTA---TCAAAA
* * * *
5434308 AAATCAACTCATTTTGCGAGAA-GTGAGTTGAGCCTC--AAGACGCTGAGGTAATTTCAATTTTT
1 AAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTT
* * *
5434370 GTTTGTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA
65 -TTTGTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACACGCTGAGGTC
* * * *
5434431 TTTTC-AA--------TT--TTT-GTTTTTTTTAATTTA--TGTTT-AAAAAAATCAACTCATTT
129 CTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATAT
* * *
5434481 TGCGAGAAGTGAGTTGAGCCTCAAGACGCTGA-G-G-----TA-----A-TTTCAATTTATG-TT
194 TGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTT
* * * * *
5434532 T--TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-TTGAGCCTCACATGCTGAGGTGT
259 TAATTCAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCAG---GACACGCTGAGGTAT
*
5434593 TTTCAATTTCTGTTTT-TC-AAA
320 TTTCAATTTCTTTTTTATCAAAA
* * *
5434614 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATTTTTCAATTT
1 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTA-TTTTCAATTT
* * * *
5434679 CTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
63 -TTTTTGTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACACGCTGAGG
** * *
5434744 TGTTTTCAACTTCTATTTTT
127 TCCTTTCAAATTCTGTTTTT
5434764 CAAAAAAATC
Statistics
Matches: 729, Mismatches: 43, Indels: 98
0.84 0.05 0.11
Matches are distributed among these distances:
305 1 0.00
306 34 0.05
307 1 0.00
310 12 0.02
311 18 0.02
312 4 0.01
313 42 0.06
315 17 0.02
316 1 0.00
317 23 0.03
318 16 0.02
320 21 0.03
321 11 0.02
322 1 0.00
324 2 0.00
327 2 0.00
332 1 0.00
333 1 0.00
334 46 0.06
335 5 0.01
337 14 0.02
338 3 0.00
340 2 0.00
344 321 0.44
348 2 0.00
349 14 0.02
350 3 0.00
351 38 0.05
352 7 0.01
353 27 0.04
354 1 0.00
355 36 0.05
356 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (342 bp):
AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTT
TTGTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACACGCTGAGGTCCT
TTCAAATTCTGTTTTTAATTTCTTTTTTTTTAATTTACGTGTTTCAAAAAAATCAGCTCATATTG
CGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCTATTTCTATTTTCAATTTCTGTTTTA
ATTCAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
TTTCTTTTTTATCAAAA
Found at i:5434065 original size:75 final size:76
Alignment explanation
Indices: 5433850--5434066 Score: 273
Period size: 76 Copynumber: 2.9 Consensus size: 76
5433840 TTTCTATTTC
* * * * *
5433850 TATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCAG
1 TATTTTCAAATTCTATTTT-TTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGG
5433914 GACACGCTGAGA
65 GACACGCTGAGA
* *
5433926 TATTTTCAAATTCTATTTTTATCAAAAAAATCAACTCATATTGCGAAAGGTGAA-TTGAGCCTCG
1 TATTTTCAAATTCTATTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCG
*
5433990 GGACACGCTGAGG
64 GGACACGCTGAGA
*
5434003 TATTTTC-AATT-T-TTTCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCG
1 TATTTTCAAATTCTATTT-TTTTCAAAA-AATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCG
5434065 GG
64 GG
5434067 CCACACGTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
74 9 0.07
75 40 0.32
76 42 0.34
77 32 0.26
78 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (76 bp):
TATTTTCAAATTCTATTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGG
ACACGCTGAGA
Found at i:5434408 original size:71 final size:72
Alignment explanation
Indices: 5434306--5434446 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 72
5434296 TTATGTTTAA
* *
5434306 AAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAGGTAATTTCAATTTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTTT
5434370 GTTTGTC
66 GTTTGTC
* *
5434377 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATTTT
5434442 TGTTT
65 TGTTT
5434447 TTTTTAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 37 0.58
73 27 0.42
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTTT
GTTTGTC
Found at i:5434505 original size:159 final size:159
Alignment explanation
Indices: 5434197--5434966 Score: 770
Period size: 159 Copynumber: 4.9 Consensus size: 159
5434187 CTATTTCTAT
*
5434197 TTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTCTG-TTT--GTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
5434261 ACGCTGAGGTATTTTCAATTTTTGTTTTTTTTAATTTATGTTTAAAAAAATCAACTCATTTTGCG
63 ACGCTGAGGTATTTTCAATTTTTG-TTTTTTTAATTTATGTTTAAAAAAATCAACTCATATTGCG
5434326 AGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAA
127 AGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAA
*
5434359 TTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
5434423 CTGAGGTATTTTCAATTTTTGTTTTTTTTAATTTATGTTTAAAAAAATCAACTCATTTTGCGAGA
66 CTGAGGTATTTTCAATTTTTG-TTTTTTTAATTTATGTTTAAAAAAATCAACTCATATTGCGAGA
5434488 AGTGAGTTGAGCCTCAAGACGCTGAGGTAA
130 AGTGAGTTGAGCCTCAAGACGCTGAGGTAA
* * * * *
5434518 TTTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-TTGAGCCTCAC
1 TTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---GAC
* * * *
5434581 ATGCTGAGGTGTTTTCAATTTCTG-----------T-T-TTTCAAAAAATCAACTCATATTGCGA
63 ACGCTGAGGTATTTTCAATTTTTGTTTTTTTAATTTATGTTTAAAAAAATCAACTCATATTGCGA
* * * *
5434633 GAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATT
128 GAAGTGAGTTGAGCC-T--C-AAGACGCTGAGGTA-A
*
5434670 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* * * * * *
5434735 ACGCTGAGGTGTTTTCAA--------CTTCT-A-TT-T-TTCAAAAAAATCAACTCATGTTGCAA
63 ACGCTGAGGTATTTTCAATTTTTGTTTTTTTAATTTATGTTTAAAAAAATCAACTCATATTGCGA
* * * *
5434788 GAGGTGAGTTGAGCCTCATGACACATTGAGGTAG
128 GAAGTGAGTTGAGCCTCAAGACGC--TGAGGTAA
* ** * ** * *
5434822 TTTTAATTTCTGTTCATCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
** * ** * *
5434887 CTGAGGTATTTTCAATTAATGTTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAGA
66 CTGAGGTATTTTCAATTTTTGTTTTTTTAATTTATG-TTTAAAAAAATCAACTCATATTGCGAGA
*
5434952 AATGAGTTGAGCCTC
130 AGTGAGTTGAGCCTC
5434967 GGGTCACATA
Statistics
Matches: 520, Mismatches: 52, Indels: 72
0.81 0.08 0.11
Matches are distributed among these distances:
147 38 0.07
148 2 0.00
149 19 0.04
150 1 0.00
151 54 0.10
152 32 0.06
153 7 0.01
154 54 0.10
155 41 0.08
157 2 0.00
158 24 0.05
159 174 0.33
160 1 0.00
161 26 0.05
162 45 0.09
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (159 bp):
TTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTTTGTTTTTTTAATTTATGTTTAAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCAAGACGCTGAGGTAA
Found at i:5434750 original size:77 final size:76
Alignment explanation
Indices: 5434464--5434912 Score: 472
Period size: 77 Copynumber: 6.0 Consensus size: 76
5434454 TTTATGTTTA
* * * * **
5434464 AAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCT---C-AAGACGCTGAGGTAATTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTGTTTTCAAT
*
5434525 TTATGTTTTTC
66 TTCTGTTTTTC
* *
5434536 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG--TTGAGCCTCACATGCTGAGGTGTTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-G-CTCACACGCTGAGGTGTTTTCA
5434598 ATTTCTGTTTTTC
64 ATTTCTGTTTTTC
* * *
5434611 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATTTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGT-GTTTTCAA
*
5434676 TTTCTGTTTGTC
65 TTTCTGTTTTTC
*
5434688 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTGTTTTCAA
* *
5434753 CTTCTATTTTTC
65 TTTCTGTTTTTC
* * * * **
5434765 AAAAAAATCAACTCATGTTGCAAGAGGTGAGTTGAGCCTC--ATGACACATTGAGGTAGTTTT-A
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGT-GTTTTCA
**
5434827 ATTTCTGTTCATC
64 ATTTCTGTTTTTC
* ** ** *
5434840 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTGTTTTCAAT
**
5434903 TAATGTTTTT
66 TTCTGTTTTT
5434913 TCAATTTATG
Statistics
Matches: 320, Mismatches: 42, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
69 1 0.00
71 32 0.10
73 4 0.01
74 54 0.17
75 48 0.15
76 52 0.16
77 73 0.23
78 56 0.17
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTGTTTTCAAT
TTCTGTTTTTC
Found at i:5434844 original size:229 final size:220
Alignment explanation
Indices: 5434463--5434903 Score: 537
Period size: 229 Copynumber: 2.0 Consensus size: 220
5434453 ATTTATGTTT
* * *
5434463 AAAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCAACTTA
* * * * *
5434528 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTTGAGCCTCACATGCTGAGGTGT
66 TATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTCAG-CACACAT-CTGAGGTGT
** ** * *
5434593 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACA
129 TTTCAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG--GACA
5434658 CGCTGAGGTATTTTTCAATTTCTGTTTGTC
192 CGCTGAGGTA-TTTTCAATTTCTGTTTGTC
* * **
5434688 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC----AACACGCTGAGGTAATTTCAA
* *
5434753 CTTCTATTTTTCAAAAAAATCAACTCATGTTGCAAGAGGTGAGTTGAGCCTCATG-ACACAT-TG
62 CTTATATTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAG-CTCA-GCACACATCTG
*
5434816 AGGTAGTTTT-AATTTCTGTTCATCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCG
123 AGGT-GTTTTCAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCG
*
5434880 GGGCACGCTGAGGTATTTTCAATT
187 GGACACGCTGAGGTATTTTCAATT
5434904 AATGTTTTTT
Statistics
Matches: 185, Mismatches: 22, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
225 38 0.21
226 9 0.05
227 12 0.06
229 81 0.44
230 5 0.03
231 37 0.20
232 2 0.01
233 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (220 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCAACTTA
TATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTCAGCACACATCTGAGGTGTTT
TCAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCT
GAGGTATTTTCAATTTCTGTTTGTC
Found at i:5435050 original size:87 final size:88
Alignment explanation
Indices: 5434841--5435138 Score: 294
Period size: 88 Copynumber: 3.4 Consensus size: 88
5434831 CTGTTCATCA
* *
5434841 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCGGGGCAC-GCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACTGCTGAGGTATTTTCAA-TA
* *
5434905 ATGTTTTTTCAATTTATGCTTTTC
65 ATCTTTTTACAATTTATGCTTTTC
* * *
5434929 AAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCACATACTGAGGTATTTTCAA-A
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC-TGCTGAGGTATTTTCAATA
5434993 ATCTGTTTTACAAATTT-TG-TTTT-
65 ATCT-TTTTAC-AATTTATGCTTTTC
* * * * *
5435016 AAAAATCAACTCATATTGCGAGAAGTGAATTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT-
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC-TGCTGAGGTATTTTCAATA
*
5435080 TTCGGTTTTT--AATGTCTA-G-TTTT-
65 ATC--TTTTTACAAT-T-TATGCTTTTC
* *
5435103 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAAATGAGTTGAGC
5435139 TCAGGATCAC
Statistics
Matches: 178, Mismatches: 21, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 65 0.37
88 81 0.46
89 8 0.04
90 20 0.11
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACTGCTGAGGTATTTTCAATAA
TCTTTTTACAATTTATGCTTTTC
Found at i:5435830 original size:30 final size:30
Alignment explanation
Indices: 5435796--5435853 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
5435786 CCTTTGCCAC
5435796 CACCAACTCCACTAGCCACACTTGCTCCAT
1 CACCAACTCCACTAGCCACACTTGCTCCAT
5435826 CACCAACTCCACTAGCCACACTTGCTCC
1 CACCAACTCCACTAGCCACACTTGCTCC
5435854 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.48, G:0.07, T:0.19
Consensus pattern (30 bp):
CACCAACTCCACTAGCCACACTTGCTCCAT
Found at i:5442801 original size:30 final size:30
Alignment explanation
Indices: 5442767--5442827 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5442757 TCCTTAACTC
5442767 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
5442797 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
5442827 A
1 A
5442828 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:5445138 original size:37 final size:37
Alignment explanation
Indices: 5445088--5445166 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
5445078 TTATTACGAA
* * *
5445088 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
5445125 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
5445162 GTCTT
1 GTCTT
5445167 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:5445363 original size:47 final size:47
Alignment explanation
Indices: 5445285--5445874 Score: 1090
Period size: 47 Copynumber: 12.6 Consensus size: 47
5445275 CCCTTCGGGA
* * * * * *
5445285 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5445332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445379 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445473 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445567 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445614 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445708 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5445802 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5445849 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
5445875 CACAATTATC
Statistics
Matches: 531, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 531 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5450977 original size:49 final size:49
Alignment explanation
Indices: 5450919--5451111 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
5450909 GTAGCCAAAC
*
5450919 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * * *
5450968 TATCCGGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * * *
5451018 TATCTGATACTCGTAGTAGCCTGCACTTAGTAC-ACAC--CTGATCGTAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * *
5451066 TATCAGGTGCGCATAGTAGCTTGCACTTAGTACTACACATGTGACC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
5451112 TAGCTACATA
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
47 3 0.03
48 29 0.25
49 48 0.42
50 32 0.28
51 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:5451953 original size:30 final size:30
Alignment explanation
Indices: 5451919--5451979 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
5451909 TCCTTAACTC
5451919 AAAC-TTTGACAAATTTACAATTTTGCCCCT
1 AAACTTTTG-CAAATTTACAATTTTGCCCCT
* * *
5451949 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
5451979 A
1 A
5451980 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAATTTACAATTTTGCCCCT
Found at i:5459697 original size:25 final size:25
Alignment explanation
Indices: 5459659--5459713 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
5459649 TTTATTAATA
*
5459659 TAAAATATTAATAATTCAAT-AAAT
1 TAAAAAATTAATAATTCAATAAAAT
*
5459683 TAAAAAATTAGATAATTGAATAAAAT
1 TAAAAAATTA-ATAATTCAATAAAAT
5459709 TAAAA
1 TAAAA
5459714 TTTAGGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 9 0.33
25 9 0.33
26 9 0.33
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAAAATTAATAATTCAATAAAAT
Found at i:5459718 original size:25 final size:24
Alignment explanation
Indices: 5459659--5459718 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
5459649 TTTATTAATA
5459659 TAAAATATTA-ATAATTCAATAAAT
1 TAAAAT-TTAGATAATTCAATAAAT
* *
5459683 TAAAAAATTAGATAATTGAATAAAAT
1 T-AAAATTTAGATAATTCAAT-AAAT
5459709 TAAAATTTAG
1 TAAAATTTAG
5459719 GAGAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 21 0.70
26 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (24 bp):
TAAAATTTAGATAATTCAATAAAT
Found at i:5467333 original size:22 final size:22
Alignment explanation
Indices: 5467293--5467334 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5467283 GAATGTGCAT
*
5467293 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
5467315 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
5467335 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:5473931 original size:45 final size:45
Alignment explanation
Indices: 5473875--5474045 Score: 170
Period size: 45 Copynumber: 3.9 Consensus size: 45
5473865 TTGATATGTA
* **
5473875 TTTTCGAGTAAGACCACATCTGGGACATTGGCATCGATATATGCG
1 TTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGCG
* * *
5473920 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGTG
1 TTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGCG
* * * * *
5473965 GTTACATGTAAGACCATGTCTGGGACATTGACATCG-TAT-T-AG
1 TTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGCG
* * * * *
5474007 -ATTCGAGCAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
5474046 GAGATAGCAT
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 27 0.26
42 4 0.04
43 1 0.01
44 3 0.03
45 70 0.67
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (45 bp):
TTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGCG
Found at i:5492792 original size:68 final size:69
Alignment explanation
Indices: 5492682--5492822 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 69
5492672 ACTAAATTAG
*
5492682 CTATCATGCAATCAACTCAATAATGATATAACAAACATTTCTTTATTACTTACCAGAATGCATGA
1 CTATCATGCAATCAACTCAATAATGATATAACAAACAATTCTTTATTACTTACCAGAATGCATGA
5492747 AAT-
66 AATA
* *
5492750 CTATCATGCAATCAACTCAATAATGCTATATCAAACAATTCTTTATTACTTACCAGAATGCATGA
1 CTATCATGCAATCAACTCAATAATGATATAACAAACAATTCTTTATTACTTACCAGAATGCATGA
5492815 AATA
66 AATA
5492819 CTAT
1 CTAT
5492823 GAAAATTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
68 65 0.94
69 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (69 bp):
CTATCATGCAATCAACTCAATAATGATATAACAAACAATTCTTTATTACTTACCAGAATGCATGA
AATA
Found at i:5494563 original size:22 final size:22
Alignment explanation
Indices: 5494524--5494565 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5494514 AGTTTATAGT
*
5494524 TTAAGAAAGGATGCAAGGGAGG
1 TTAAGAAAGGATGAAAGGGAGG
5494546 TTAAGAAA-GATGAAAAGGGA
1 TTAAGAAAGGATG-AAAGGGA
5494566 AATGTTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.48, C:0.02, G:0.36, T:0.14
Consensus pattern (22 bp):
TTAAGAAAGGATGAAAGGGAGG
Found at i:5496547 original size:889 final size:889
Alignment explanation
Indices: 5494829--5496606 Score: 3556
Period size: 889 Copynumber: 2.0 Consensus size: 889
5494819 TTTTCAACCC
5494829 ATTTTTTCTCTCACTTCAATGTCCACTTACCCACTTATTATGGCATAATTTACTTCTGGATTGCA
1 ATTTTTTCTCTCACTTCAATGTCCACTTACCCACTTATTATGGCATAATTTACTTCTGGATTGCA
5494894 GGGGCAAACTGTAATATCCCGAATTAAGGCCTAACCGGAATAGTGGTTTCGTGACCACAAATTCG
66 GGGGCAAACTGTAATATCCCGAATTAAGGCCTAACCGGAATAGTGGTTTCGTGACCACAAATTCG
5494959 AGATAGAAATAATTATTTTATAATTATTTTGAGGTTTATGATATGATTGCATAATTGTGTGAAAA
131 AGATAGAAATAATTATTTTATAATTATTTTGAGGTTTATGATATGATTGCATAATTGTGTGAAAA
5495024 TTTCGTGAAGAAATTTTTGGCATAACAAGTTTAATTTAAAGTTAGGGACTAAATCGAATAAGTTG
196 TTTCGTGAAGAAATTTTTGGCATAACAAGTTTAATTTAAAGTTAGGGACTAAATCGAATAAGTTG
5495089 CAAAACTTGCATCAAACAAATCATCAATTTGGGGCATGGGATACTTATTCTTGATAGTCACTTTG
261 CAAAACTTGCATCAAACAAATCATCAATTTGGGGCATGGGATACTTATTCTTGATAGTCACTTTG
5495154 TTCAACTGACGATAATCTATACACATTCTCATTATACCATCTTTCTCTTTCACGAATAGAACCGG
326 TTCAACTGACGATAATCTATACACATTCTCATTATACCATCTTTCTCTTTCACGAATAGAACCGG
5495219 AGCACCCCAAAGTGAGAAACTCGAACTAGCAAACCCTCTATCTGTTAATTCTTGCAACTAAGACT
391 AGCACCCCAAAGTGAGAAACTCGAACTAGCAAACCCTCTATCTGTTAATTCTTGCAACTAAGACT
5495284 TTAATTCTTTCAGTTCGGTCAGAGCCATTCTATACGGACCTATCGAAATCAGAGTAGTACCAGGT
456 TTAATTCTTTCAGTTCGGTCAGAGCCATTCTATACGGACCTATCGAAATCAGAGTAGTACCAGGT
5495349 ACCAATTCAATGCCAAATTCAACTTCTCTAACTAGAGGTAATCCCAGAAGTTCTTTAGGAAGCAC
521 ACCAATTCAATGCCAAATTCAACTTCTCTAACTAGAGGTAATCCCAGAAGTTCTTTAGGAAGCAC
5495414 ATCAGGAAACTCATAGACAACAAGTACAGATTCAACTTTCTTTTCTGACACTCTCAAATAAATCA
586 ATCAGGAAACTCATAGACAACAAGTACAGATTCAACTTTCTTTTCTGACACTCTCAAATAAATCA
5495479 CATAAGAAAAATAGGCTTCACAACCCTTTCTCACAATACTCAAAGCTTTCATCGAAGATATCACA
651 CATAAGAAAAATAGGCTTCACAACCCTTTCTCACAATACTCAAAGCTTTCATCGAAGATATCACA
5495544 GCAGACAATCCATTCAAATCACTAGATACAATTTTGACTATTTCATCATTTTTGCATCTCAAATC
716 GCAGACAATCCATTCAAATCACTAGATACAATTTTGACTATTTCATCATTTTTGCATCTCAAATC
5495609 AATAGTTTTTCATTTGCAGTTCAAAACAGCATCATGCAAAGTTAACCAATCCATACCCATAATTA
781 AATAGTTTTTCATTTGCAGTTCAAAACAGCATCATGCAAAGTTAACCAATCCATACCCATAATTA
5495674 TATCAAATTCATCAAAAGGTAACAGCATCAGATCAACCAGAAAA
846 TATCAAATTCATCAAAAGGTAACAGCATCAGATCAACCAGAAAA
5495718 ATTTTTTCTCTCACTTCAATGTCCACTTACCCACTTATTATGGCATAATTTACTTCTGGATTGCA
1 ATTTTTTCTCTCACTTCAATGTCCACTTACCCACTTATTATGGCATAATTTACTTCTGGATTGCA
5495783 GGGGCAAACTGTAATATCCCGAATTAAGGCCTAACCGGAATAGTGGTTTCGTGACCACAAATTCG
66 GGGGCAAACTGTAATATCCCGAATTAAGGCCTAACCGGAATAGTGGTTTCGTGACCACAAATTCG
5495848 AGATAGAAATAATTATTTTATAATTATTTTGAGGTTTATGATATGATTGCATAATTGTGTGAAAA
131 AGATAGAAATAATTATTTTATAATTATTTTGAGGTTTATGATATGATTGCATAATTGTGTGAAAA
5495913 TTTCGTGAAGAAATTTTTGGCATAACAAGTTTAATTTAAAGTTAGGGACTAAATCGAATAAGTTG
196 TTTCGTGAAGAAATTTTTGGCATAACAAGTTTAATTTAAAGTTAGGGACTAAATCGAATAAGTTG
5495978 CAAAACTTGCATCAAACAAATCATCAATTTGGGGCATGGGATACTTATTCTTGATAGTCACTTTG
261 CAAAACTTGCATCAAACAAATCATCAATTTGGGGCATGGGATACTTATTCTTGATAGTCACTTTG
5496043 TTCAACTGACGATAATCTATACACATTCTCATTATACCATCTTTCTCTTTCACGAATAGAACCGG
326 TTCAACTGACGATAATCTATACACATTCTCATTATACCATCTTTCTCTTTCACGAATAGAACCGG
5496108 AGCACCCCAAAGTGAGAAACTCGAACTAGCAAACCCTCTATCTGTTAATTCTTGCAACTAAGACT
391 AGCACCCCAAAGTGAGAAACTCGAACTAGCAAACCCTCTATCTGTTAATTCTTGCAACTAAGACT
5496173 TTAATTCTTTCAGTTCGGTCAGAGCCATTCTATACGGACCTATCGAAATCAGAGTAGTACCAGGT
456 TTAATTCTTTCAGTTCGGTCAGAGCCATTCTATACGGACCTATCGAAATCAGAGTAGTACCAGGT
5496238 ACCAATTCAATGCCAAATTCAACTTCTCTAACTAGAGGTAATCCCAGAAGTTCTTTAGGAAGCAC
521 ACCAATTCAATGCCAAATTCAACTTCTCTAACTAGAGGTAATCCCAGAAGTTCTTTAGGAAGCAC
5496303 ATCAGGAAACTCATAGACAACAAGTACAGATTCAACTTTCTTTTCTGACACTCTCAAATAAATCA
586 ATCAGGAAACTCATAGACAACAAGTACAGATTCAACTTTCTTTTCTGACACTCTCAAATAAATCA
5496368 CATAAGAAAAATAGGCTTCACAACCCTTTCTCACAATACTCAAAGCTTTCATCGAAGATATCACA
651 CATAAGAAAAATAGGCTTCACAACCCTTTCTCACAATACTCAAAGCTTTCATCGAAGATATCACA
5496433 GCAGACAATCCATTCAAATCACTAGATACAATTTTGACTATTTCATCATTTTTGCATCTCAAATC
716 GCAGACAATCCATTCAAATCACTAGATACAATTTTGACTATTTCATCATTTTTGCATCTCAAATC
5496498 AATAGTTTTTCATTTGCAGTTCAAAACAGCATCATGCAAAGTTAACCAATCCATACCCATAATTA
781 AATAGTTTTTCATTTGCAGTTCAAAACAGCATCATGCAAAGTTAACCAATCCATACCCATAATTA
5496563 TATCAAATTCATCAAAAGGTAACAGCATCAGATCAACCAGAAAA
846 TATCAAATTCATCAAAAGGTAACAGCATCAGATCAACCAGAAAA
5496607 CAAATGTCTC
Statistics
Matches: 889, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
889 889 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (889 bp):
ATTTTTTCTCTCACTTCAATGTCCACTTACCCACTTATTATGGCATAATTTACTTCTGGATTGCA
GGGGCAAACTGTAATATCCCGAATTAAGGCCTAACCGGAATAGTGGTTTCGTGACCACAAATTCG
AGATAGAAATAATTATTTTATAATTATTTTGAGGTTTATGATATGATTGCATAATTGTGTGAAAA
TTTCGTGAAGAAATTTTTGGCATAACAAGTTTAATTTAAAGTTAGGGACTAAATCGAATAAGTTG
CAAAACTTGCATCAAACAAATCATCAATTTGGGGCATGGGATACTTATTCTTGATAGTCACTTTG
TTCAACTGACGATAATCTATACACATTCTCATTATACCATCTTTCTCTTTCACGAATAGAACCGG
AGCACCCCAAAGTGAGAAACTCGAACTAGCAAACCCTCTATCTGTTAATTCTTGCAACTAAGACT
TTAATTCTTTCAGTTCGGTCAGAGCCATTCTATACGGACCTATCGAAATCAGAGTAGTACCAGGT
ACCAATTCAATGCCAAATTCAACTTCTCTAACTAGAGGTAATCCCAGAAGTTCTTTAGGAAGCAC
ATCAGGAAACTCATAGACAACAAGTACAGATTCAACTTTCTTTTCTGACACTCTCAAATAAATCA
CATAAGAAAAATAGGCTTCACAACCCTTTCTCACAATACTCAAAGCTTTCATCGAAGATATCACA
GCAGACAATCCATTCAAATCACTAGATACAATTTTGACTATTTCATCATTTTTGCATCTCAAATC
AATAGTTTTTCATTTGCAGTTCAAAACAGCATCATGCAAAGTTAACCAATCCATACCCATAATTA
TATCAAATTCATCAAAAGGTAACAGCATCAGATCAACCAGAAAA
Found at i:5498633 original size:40 final size:34
Alignment explanation
Indices: 5498561--5498629 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
5498551 ATTACTTATA
5498561 CCTTAGAACCAAATACCAACACAAACTTCATATT
1 CCTTAGAACCAAATACCAACACAAACTTCATATT
*
5498595 CCTTAGAACCAAATACCAATACAAACTTCATATT
1 CCTTAGAACCAAATACCAACACAAACTTCATATT
5498629 C
1 C
5498630 ATATACTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.25
Consensus pattern (34 bp):
CCTTAGAACCAAATACCAACACAAACTTCATATT
Found at i:5499992 original size:7 final size:8
Alignment explanation
Indices: 5499969--5500008 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
5499959 ATAGCAGGCA
5499969 ACTTTTAC
1 ACTTTTAC
5499977 ACTTTTAC
1 ACTTTTAC
5499985 AC-TTTAC
1 ACTTTTAC
5499992 ACTTTTAC
1 ACTTTTAC
5500000 ACTTTTAC
1 ACTTTTAC
5500008 A
1 A
5500009 ATAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (8 bp):
ACTTTTAC
Found at i:5499992 original size:15 final size:15
Alignment explanation
Indices: 5499972--5500004 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5499962 GCAGGCAACT
5499972 TTTACACTTTTACAC
1 TTTACACTTTTACAC
5499987 TTTACACTTTTACAC
1 TTTACACTTTTACAC
5500002 TTT
1 TTT
5500005 TACAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTACACTTTTACAC
Found at i:5501618 original size:20 final size:20
Alignment explanation
Indices: 5501585--5501628 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5501575 GGGATGAAAC
* *
5501585 TGAAAAGTTGTAAAGTTTGA
1 TGAAAAATTCTAAAGTTTGA
* *
5501605 TGAAAAATTCTAAATTTTTA
1 TGAAAAATTCTAAAGTTTGA
5501625 TGAA
1 TGAA
5501629 TACGTGTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (20 bp):
TGAAAAATTCTAAAGTTTGA
Found at i:5505431 original size:14 final size:14
Alignment explanation
Indices: 5505412--5505441 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5505402 TATTTGATTG
5505412 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
5505426 TTAGTCCATTATTT
1 TTAGTCCATCATTT
5505440 TT
1 TT
5505442 GTGTCGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:5506021 original size:132 final size:134
Alignment explanation
Indices: 5505784--5506300 Score: 520
Period size: 132 Copynumber: 3.9 Consensus size: 134
5505774 TATTCATTTC
* * * **
5505784 AAAATTCTTTAAAACGAAGGCAAGAT-TT-GATATTTGGCAATTCGCGGAATTGTGCCCTAACGT
1 AAAATCCTTTAAAACGAAGGTAAGATGTTCGATATTTGGCAATTCACGGAATCATGCCCTAACGT
* * * *
5505847 GTTGGGTTGCAATTTCTCGTTT-TCTCAAAATGATCGAATATCCCTTCAAAATTTCACCCATGTC
66 GCTGGGTTGCAATTTCTCATTTGT-TCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTC
5505911 TTTTA
130 TTTTA
* **
5505916 AAAATTCTTTAAGGCGAAGGTAAGAT-TT-GATATTTGGCAATTCACGGAATCATGCCCTAACGT
1 AAAATCCTTTAAAACGAAGGTAAGATGTTCGATATTTGGCAATTCACGGAATCATGCCCTAACGT
* * *
5505979 GCTAGGTTGCAATTTCTCGTTTGTTCAAGATAATCGAATATCCCTTCAAAATTTCACTCATGTCT
66 GCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTCT
*
5506044 TCTA
131 TTTA
* * * ** *
5506048 AAAATCCTTTAAAACAAAGGT--GATGTTCGATGTTTGGCAA-T-ACGAGAATCGTATCCTATCG
1 AAAATCCTTTAAAACGAAGGTAAGATGTTCGATATTTGGCAATTCACG-GAATCATGCCCTAACG
* * * * * ** *
5506109 TGCGGGGTTGCACTTTTTCATTTGTTCAAAATAATCGAAGATTCCTTCGGAATTTCACTCACGT-
65 TGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTC
5506173 TTTCTA
130 TTT-TA
* * * * * ** *
5506179 AAAACCCTTTAAAACGAAAG-AA-ATGTTCGGTGTTCGGCAATTCGGGGAAT-AGTGCCCTATCG
1 AAAATCCTTTAAAACGAAGGTAAGATGTTCGATATTTGGCAATTCACGGAATCA-TGCCCTAACG
* * * **
5506241 TGCTGGGTTGCAATCTCCCATTTGTTCAAAATAATCGAATATCTCTTCGGAATTTCACTC
65 TGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
5506301 GTGTTTTCTA
Statistics
Matches: 324, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
130 8 0.02
131 103 0.32
132 211 0.65
133 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (134 bp):
AAAATCCTTTAAAACGAAGGTAAGATGTTCGATATTTGGCAATTCACGGAATCATGCCCTAACGT
GCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTCT
TTTA
Found at i:5509405 original size:38 final size:38
Alignment explanation
Indices: 5509354--5509429 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
5509344 TTCATCCTTT
*
5509354 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
5509392 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
5509430 GTAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:5510781 original size:40 final size:40
Alignment explanation
Indices: 5510726--5510982 Score: 387
Period size: 40 Copynumber: 6.5 Consensus size: 40
5510716 TGGATGATAA
* * *
5510726 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
5510766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
5510806 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
5510846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
5510886 CCGGGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
5510926 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
5510965 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
5510983 TACTTGGCTT
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
38 15 0.07
39 16 0.08
40 174 0.85
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:5524839 original size:21 final size:21
Alignment explanation
Indices: 5524813--5524864 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
5524803 GGCCTCTAGA
5524813 ACGGGCGTGTCCCAAGGTCAC
1 ACGGGCGTGTCCCAAGGTCAC
* *
5524834 ACGGGCGTGTCCCAAGTTTAC
1 ACGGGCGTGTCCCAAGGTCAC
5524855 ACGGGCGTGT
1 ACGGGCGTGT
5524865 GAGCCCTGCA
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:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (21 bp):
ACGGGCGTGTCCCAAGGTCAC
Found at i:5534322 original size:47 final size:47
Alignment explanation
Indices: 5534244--5534552 Score: 510
Period size: 47 Copynumber: 6.6 Consensus size: 47
5534234 CCCTTCGGGA
* * * * * *
5534244 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5534291 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5534338 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5534385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5534432 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5534479 CTTATCACATATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5534526 CTTATCAAACATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
5534553 GGCCATTCAG
Statistics
Matches: 247, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5534503 original size:141 final size:141
Alignment explanation
Indices: 5534244--5534664 Score: 513
Period size: 141 Copynumber: 2.9 Consensus size: 141
5534234 CCCTTCGGGA
* * * * * *
5534244 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
5534309 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
5534374 GGCCATTAGGC
131 GGCCATTAGGC
* *
5534385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
5534450 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
*
5534515 GGCTATTAGGC
131 GGCCATTAGGC
* * * *** * *
5534526 CTTATCAAACATATACACTTTCACATTGGCCATTCAGCCTTATCACACATATTCGGCCTTATCAT
1 CTTATCACATATATACACTTTCACATT---CA-TCA-CATCGGC-CAC-TA---GGCCCTATCAC
* * * * *
5534591 ACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA-TGCTCAC
56 ATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-CTCAC
5534654 ATTCATCACAT
119 ATTCATCACAT
5534665 TAAAATCCTA
Statistics
Matches: 245, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
141 156 0.64
144 2 0.01
145 3 0.01
146 3 0.01
147 2 0.01
148 2 0.01
150 2 0.01
151 75 0.31
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GGCCATTAGGC
Found at i:5534584 original size:19 final size:19
Alignment explanation
Indices: 5534557--5534596 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5534547 CACATTGGCC
5534557 ATTCAGCCTTATCACACAT
1 ATTCAGCCTTATCACACAT
* *
5534576 ATTCGGCCTTATCATACAT
1 ATTCAGCCTTATCACACAT
5534595 AT
1 AT
5534597 GCATGTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (19 bp):
ATTCAGCCTTATCACACAT
Found at i:5534628 original size:47 final size:47
Alignment explanation
Indices: 5534576--5534665 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
5534566 TATCACACAT
* *
5534576 ATTCGGCCTTATCATACATATGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
*
5534623 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
5534666 AAAATCCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
Found at i:5546153 original size:345 final size:345
Alignment explanation
Indices: 5545522--5546211 Score: 1380
Period size: 345 Copynumber: 2.0 Consensus size: 345
5545512 CTTTATCAAT
5545522 ACAAGGTTTAAGACGAGTATTGTTTTCCTTAAAAGTTTCGAATTTGGGGTGAATTACCTCGATTG
1 ACAAGGTTTAAGACGAGTATTGTTTTCCTTAAAAGTTTCGAATTTGGGGTGAATTACCTCGATTG
5545587 TACCATATGGGAAAATACTGAGTACCGTGAAAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATG
66 TACCATATGGGAAAATACTGAGTACCGTGAAAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATG
5545652 CGAGGATCTGCTATATCTAATAATACTTTGTCTCCAACCTTAAGTTGATTTGGTGATGTATTGAG
131 CGAGGATCTGCTATATCTAATAATACTTTGTCTCCAACCTTAAGTTGATTTGGTGATGTATTGAG
5545717 CTCGTCCTGGCTCGGTTTCGATTTATCAGGTGTTCTCAATTTCTGTGTTCTCCATTCATCTAGTT
196 CTCGTCCTGGCTCGGTTTCGATTTATCAGGTGTTCTCAATTTCTGTGTTCTCCATTCATCTAGTT
5545782 CCTTGATTTGTAGCCTTTGTTCTTCATAGGGAGGTCCTTTGTTGTTGCTTGAACATGGCTCGTGT
261 CCTTGATTTGTAGCCTTTGTTCTTCATAGGGAGGTCCTTTGTTGTTGCTTGAACATGGCTCGTGT
5545847 AGGTTCTTCGAACTTATTTC
326 AGGTTCTTCGAACTTATTTC
5545867 ACAAGGTTTAAGACGAGTATTGTTTTCCTTAAAAGTTTCGAATTTGGGGTGAATTACCTCGATTG
1 ACAAGGTTTAAGACGAGTATTGTTTTCCTTAAAAGTTTCGAATTTGGGGTGAATTACCTCGATTG
5545932 TACCATATGGGAAAATACTGAGTACCGTGAAAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATG
66 TACCATATGGGAAAATACTGAGTACCGTGAAAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATG
5545997 CGAGGATCTGCTATATCTAATAATACTTTGTCTCCAACCTTAAGTTGATTTGGTGATGTATTGAG
131 CGAGGATCTGCTATATCTAATAATACTTTGTCTCCAACCTTAAGTTGATTTGGTGATGTATTGAG
5546062 CTCGTCCTGGCTCGGTTTCGATTTATCAGGTGTTCTCAATTTCTGTGTTCTCCATTCATCTAGTT
196 CTCGTCCTGGCTCGGTTTCGATTTATCAGGTGTTCTCAATTTCTGTGTTCTCCATTCATCTAGTT
5546127 CCTTGATTTGTAGCCTTTGTTCTTCATAGGGAGGTCCTTTGTTGTTGCTTGAACATGGCTCGTGT
261 CCTTGATTTGTAGCCTTTGTTCTTCATAGGGAGGTCCTTTGTTGTTGCTTGAACATGGCTCGTGT
5546192 AGGTTCTTCGAACTTATTTC
326 AGGTTCTTCGAACTTATTTC
5546212 CTATAAAGTA
Statistics
Matches: 345, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 345 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (345 bp):
ACAAGGTTTAAGACGAGTATTGTTTTCCTTAAAAGTTTCGAATTTGGGGTGAATTACCTCGATTG
TACCATATGGGAAAATACTGAGTACCGTGAAAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATG
CGAGGATCTGCTATATCTAATAATACTTTGTCTCCAACCTTAAGTTGATTTGGTGATGTATTGAG
CTCGTCCTGGCTCGGTTTCGATTTATCAGGTGTTCTCAATTTCTGTGTTCTCCATTCATCTAGTT
CCTTGATTTGTAGCCTTTGTTCTTCATAGGGAGGTCCTTTGTTGTTGCTTGAACATGGCTCGTGT
AGGTTCTTCGAACTTATTTC
Found at i:5567718 original size:46 final size:46
Alignment explanation
Indices: 5567658--5567885 Score: 287
Period size: 46 Copynumber: 5.0 Consensus size: 46
5567648 TTTGACATGA
* * * * * * *
5567658 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** * **
5567704 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGTCACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
5567750 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
5567796 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
5567842 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5567886 AGAGCACACT
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 157 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:5570393 original size:74 final size:74
Alignment explanation
Indices: 5570272--5570420 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
5570262 TATATATATT
*
5570272 AATTAAAATCTAAGTAAAAATCTTAGATTTTTATTTTATATGCTGCCTCACTTATGCTAAATGGC
1 AATTAAAATATAAGTAAAAATCTTAGATTTTTATTTTATATGCTGCCTCACTTATGCTAAATGGC
5570337 ATAATTGCC
66 ATAATTGCC
5570346 AATTAAAATATAAGTAAAAATCTTAGATTTTTATTTTATATGCTGCCTCACTTATGCTAAATGGC
1 AATTAAAATATAAGTAAAAATCTTAGATTTTTATTTTATATGCTGCCTCACTTATGCTAAATGGC
5570411 ATAATTGCC
66 ATAATTGCC
5570420 A
1 A
5570421 TTTTGGTCCT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (74 bp):
AATTAAAATATAAGTAAAAATCTTAGATTTTTATTTTATATGCTGCCTCACTTATGCTAAATGGC
ATAATTGCC
Found at i:5572681 original size:46 final size:46
Alignment explanation
Indices: 5572621--5572848 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
5572611 TTTGACATGA
* * * * * * *
5572621 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
5572667 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
5572713 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
5572759 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
5572805 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5572849 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:5581851 original size:47 final size:47
Alignment explanation
Indices: 5581774--5582413 Score: 1136
Period size: 47 Copynumber: 13.6 Consensus size: 47
5581764 TGAAAGTGTA
* *
5581774 TATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACATGTA
1 TATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
5581822 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
5581869 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* *
5581916 TATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
5581963 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
5582010 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
5582057 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
5582104 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
5582151 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
5582198 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
5582245 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* *
5582292 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* *
5582339 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* *
5582386 TATATGTGATAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
5582414 CGAAATGTGT
Statistics
Matches: 580, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
47 572 0.99
48 8 0.01
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
Found at i:5582523 original size:46 final size:46
Alignment explanation
Indices: 5582387--5582523 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
5582377 GAACATGTAT
* * *
5582387 ATATGTGATAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
5582433 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
5582479 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
5582524 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:5582718 original size:37 final size:37
Alignment explanation
Indices: 5582668--5582782 Score: 203
Period size: 37 Copynumber: 3.1 Consensus size: 37
5582658 GGAAATATAT
*
5582668 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
5582705 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
5582742 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
5582779 TCCG
1 TCCG
5582783 AGCTAAAGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:5592499 original size:42 final size:42
Alignment explanation
Indices: 5592398--5592502 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
5592388 GCACATGGGC
** *
5592398 AGAGACACGTGCGTGTGTCCTAGCCGTGTGTGCTACACAGGT
1 AGAGACACAAGCGTGTGTCTTAGCCGTGTGTGCTACACAGGT
*** *
5592440 AGAGACATGGGCATGTGTCTTAGCCGTGTGTGCTACAC-GGCTT
1 AGAGACACAAGCGTGTGTCTTAGCCGTGTGTGCTACACAGG--T
5592483 AGA-ACACAAGCGTGTGTCTT
1 AGAGACACAAGCGTGTGTCTT
5592503 GGTCGAGTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 47 0.89
43 4 0.08
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (42 bp):
AGAGACACAAGCGTGTGTCTTAGCCGTGTGTGCTACACAGGT
Found at i:5594411 original size:21 final size:21
Alignment explanation
Indices: 5594387--5594446 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
5594377 TCTATAGTTG
*
5594387 TAAATCATAAACTATAAACCT
1 TAAATCCTAAACTATAAACCT
*
5594408 TAAACCCTAAA-TATTAAACCT
1 TAAATCCTAAACTA-TAAACCT
* *
5594429 TGAATCCTAAACCATAAA
1 TAAATCCTAAACTATAAA
5594447 ACCCTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAATCCTAAACTATAAACCT
Found at i:5594582 original size:21 final size:21
Alignment explanation
Indices: 5594548--5594604 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
5594538 TTATAAAACG
*
5594548 TCTTAAAACTATAAACCCTAAA
1 TCTT-AAACCATAAACCCTAAA
5594570 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
5594591 TCCAAAACCATAAA
1 TCTTAAACCATAAA
5594605 ACCTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:5596891 original size:145 final size:145
Alignment explanation
Indices: 5596628--5596919 Score: 566
Period size: 145 Copynumber: 2.0 Consensus size: 145
5596618 CTTTGTGATC
5596628 CATTTCATATATTTCGTGCTCCAGATACTAGAATGACTATCCGACGGGATAAAACTATCTCGATC
1 CATTTCATATATTTCGTGCTCCAGATACTAGAATGACTATCCGACGGGATAAAACTATCTCGATC
*
5596693 AAGATGACAGACCCATTTTCTGTACTATTAATAGGATCAATTATAACAAGTCACACACTCATATT
66 AAGATGACAGACCCATTTTCTGTACTATCAATAGGATCAATTATAACAAGTCACACACTCATATT
5596758 CCGAAAATACAGAAA
131 CCGAAAATACAGAAA
*
5596773 CATTTCATATATTTCGTGCTCCAGATACTAGAATGACTATCTGACGGGATAAAACTATCTCGATC
1 CATTTCATATATTTCGTGCTCCAGATACTAGAATGACTATCCGACGGGATAAAACTATCTCGATC
5596838 AAGATGACAGACCCATTTTCTGTACTATCAATAGGATCAATTATAACAAGTCACACACTCATATT
66 AAGATGACAGACCCATTTTCTGTACTATCAATAGGATCAATTATAACAAGTCACACACTCATATT
5596903 CCGAAAATACAGAAA
131 CCGAAAATACAGAAA
5596918 CA
1 CA
5596920 AATAAATTTC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (145 bp):
CATTTCATATATTTCGTGCTCCAGATACTAGAATGACTATCCGACGGGATAAAACTATCTCGATC
AAGATGACAGACCCATTTTCTGTACTATCAATAGGATCAATTATAACAAGTCACACACTCATATT
CCGAAAATACAGAAA
Found at i:5597194 original size:106 final size:106
Alignment explanation
Indices: 5597009--5597220 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 106
5596999 AAACGCGAGG
5597009 CTTCGTGATTCTTGTGAATCTAATTCATTGAAATTCCATCCAGTAAAACGGAAGAATTATAAATC
1 CTTCGTGATTCTTGTGAATCTAATTCATTGAAATTCCATCCAGTAAAACGGAAGAATTATAAATC
5597074 TCCAAAATAATAGATAAGAATATCGCAAATAAAGCCATTGT
66 TCCAAAATAATAGATAAGAATATCGCAAATAAAGCCATTGT
*
5597115 CTTCGTGATTCTTGTGAATCTAATTCATTGAAATTCCATCTAGTAAAACGGAAGAATTATAAATC
1 CTTCGTGATTCTTGTGAATCTAATTCATTGAAATTCCATCCAGTAAAACGGAAGAATTATAAATC
5597180 TCCAAAATAATAGATAAGAATATCGCAAATAAAGCCATTGT
66 TCCAAAATAATAGATAAGAATATCGCAAATAAAGCCATTGT
5597221 GACACCCATC
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (106 bp):
CTTCGTGATTCTTGTGAATCTAATTCATTGAAATTCCATCCAGTAAAACGGAAGAATTATAAATC
TCCAAAATAATAGATAAGAATATCGCAAATAAAGCCATTGT
Found at i:5597543 original size:153 final size:153
Alignment explanation
Indices: 5597265--5597569 Score: 601
Period size: 153 Copynumber: 2.0 Consensus size: 153
5597255 GCTACCTTAC
5597265 CATATTCCAAATTCAATGGTTTCAAAAAATCCCCTACAACAGTTCGTCTTGGACCAGATCTAGAA
1 CATATTCCAAATTCAATGGTTTCAAAAAATCCCCTACAACAGTTCGTCTTGGACCAGATCTAGAA
5597330 CTACCCTCAACGGTTTGTGTAGCCATAAATCTTATTTTGTATTCAGTGAGATCTGTTGACTTTGT
66 CTACCCTCAACGGTTTGTGTAGCCATAAATCTTATTTTGTATTCAGTGAGATCTGTTGACTTTGT
5597395 ATATCATTCCGCTGTAAATAAAT
131 ATATCATTCCGCTGTAAATAAAT
5597418 CATATTCCAAATTCAATGGTTTCAAAAAATCCCCTACAACAGTTCGTCTTGGACCAGATCTAGAA
1 CATATTCCAAATTCAATGGTTTCAAAAAATCCCCTACAACAGTTCGTCTTGGACCAGATCTAGAA
*
5597483 CTACCCTCAACGGTTTGTGTAGCCATAAATCTTATTTTGTATTCATTGAGATCTGTTGACTTTGT
66 CTACCCTCAACGGTTTGTGTAGCCATAAATCTTATTTTGTATTCAGTGAGATCTGTTGACTTTGT
5597548 ATATCATTCCGCTGTAAATAAA
131 ATATCATTCCGCTGTAAATAAA
5597570 CAATCTTATC
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 151 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (153 bp):
CATATTCCAAATTCAATGGTTTCAAAAAATCCCCTACAACAGTTCGTCTTGGACCAGATCTAGAA
CTACCCTCAACGGTTTGTGTAGCCATAAATCTTATTTTGTATTCAGTGAGATCTGTTGACTTTGT
ATATCATTCCGCTGTAAATAAAT
Found at i:5612433 original size:29 final size:28
Alignment explanation
Indices: 5612398--5612473 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
5612388 ATGAGATTGG
5612398 CACTAAGTGTGCGGGTTTAAATTGTACA-A
1 CACTAAGTGTGCGGGTTTAAA--GTACAGA
* *
5612427 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGGGTTTAAAGTACA-GA
5612456 CACTAAGTGTGCGTGGTT
1 CACTAAGTGTGCG-GGTT
5612474 GATTATTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGGGTTTAAAGTACAGA
Found at i:5612691 original size:174 final size:174
Alignment explanation
Indices: 5612427--5612753 Score: 618
Period size: 174 Copynumber: 1.9 Consensus size: 174
5612417 AATTGTACAA
*
5612427 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
*
5612492 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
5612557 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
*
5612601 CACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
*
5612666 GTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
5612731 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
5612754 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
Done.