Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 419 of 433
Found at i:128463902 original size:95 final size:96
Alignment explanation
Indices: 128463738--128463920 Score: 287
Period size: 95 Copynumber: 1.9 Consensus size: 96
128463728 ATTTAATTTA
* ** *
128463738 TTTATTTTAACTTAAGAATATATTGAACCTTTTGACGCGAAGAGATATGACAGCCAAGCACCCCA
1 TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
128463803 CCCCGGTTACTCAACCCAACATACTCCTAAT
66 CCCCGGTTACTCAACCCAACATACTCCTAAT
* * *
128463834 TTTATTTT-TCTTAAGAACATATCAAACCTTTTGACGCGAAGGGAGATGACAGCCAAGCACCTCA
1 TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
128463898 CCCCGGTTACTCAGCCCAACATA
66 CCCCGGTTACTCAACCCAACATA
128463921 TTCTTAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 71 0.90
96 8 0.10
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (96 bp):
TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAACCCAACATACTCCTAAT
Found at i:128465084 original size:8 final size:7
Alignment explanation
Indices: 128465071--128465170 Score: 53
Period size: 8 Copynumber: 13.0 Consensus size: 7
128465061 ACCCAAACAA
128465071 AATAAAGT
1 AATAAA-T
128465079 AATAAAT
1 AATAAAT
128465086 AATATAAT
1 AATA-AAT
128465094 AAAGTAAAGT
1 -AA-TAAA-T
*
128465104 AATGAAT
1 AATAAAT
128465111 AAATAAAT
1 -AATAAAT
128465119 AATAAAAT
1 AAT-AAAT
128465127 AAATAAAAT
1 -AAT-AAAT
128465136 AATAAAAT
1 AAT-AAAT
128465144 AAAATAAA-
1 --AATAAAT
*
128465152 AATAAAG
1 AATAAAT
128465159 AA-AAAT
1 AATAAAT
128465165 AA-AAAT
1 AATAAAT
128465171 TGGGTTGCCT
Statistics
Matches: 79, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
6 15 0.19
7 11 0.14
8 30 0.38
9 17 0.22
10 6 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:128465096 original size:20 final size:19
Alignment explanation
Indices: 128465070--128465141 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
128465060 CACCCAAACA
128465070 AAATAAAGTAATAAATAAT
1 AAATAAAGTAATAAATAAT
128465089 ATAATAAAGTAA-AGTAATGAAT
1 A-AATAAAGTAATA--AAT-AAT
128465111 AAATAAA-TAAT-AA-AAT
1 AAATAAAGTAATAAATAAT
*
128465127 AAATAAAATAATAAA
1 AAATAAAGTAATAAA
128465142 ATAAAATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
16 10 0.22
17 4 0.09
18 4 0.09
19 2 0.04
20 13 0.28
21 9 0.20
22 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (19 bp):
AAATAAAGTAATAAATAAT
Found at i:128465120 original size:33 final size:34
Alignment explanation
Indices: 128465079--128465168 Score: 105
Period size: 33 Copynumber: 2.7 Consensus size: 34
128465069 AAAATAAAGT
* * *
128465079 AATAAATAATATAATAAAGTAAAGTAAT-GAAT-A
1 AATAAATAATAAAATAAA-TAAAATAATAAAATAA
128465112 AATAAATAATAAAATAAATAAAATAATAAAATAA
1 AATAAATAATAAAATAAATAAAATAATAAAATAA
*
128465146 AATAAA-AATAAAGAAAAATAAAA
1 AATAAATAATAAA-ATAAATAAAA
128465169 ATTGGGTTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 8 0.16
33 26 0.52
34 16 0.32
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (34 bp):
AATAAATAATAAAATAAATAAAATAATAAAATAA
Found at i:128465129 original size:5 final size:5
Alignment explanation
Indices: 128465119--128465168 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
128465109 ATAAATAAAT
128465119 AATAA AAT-A AATAA AAT-- AATAA AATAA AATAAA AATAA AGA-AA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA A-ATAA AATAA
128465167 AA
1 AA
128465169 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.08
4 5 0.13
5 25 0.64
6 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:128465130 original size:45 final size:43
Alignment explanation
Indices: 128465079--128465168 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 43
128465069 AAAATAAAGT
* * * * *
128465079 AATAAATAATATAATAAAGTAAAGTAATGAATAAATAAATAATAA
1 AATAAATAAAATAATAAAATAAAATAA-AAATAAAGAAA-AATAA
128465124 AATAAATAAAATAATAAAATAAAATAAAAATAAAGAAAAATAA
1 AATAAATAAAATAATAAAATAAAATAAAAATAAAGAAAAATAA
128465167 AA
1 AA
128465169 ATTGGGTTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 7 0.17
44 9 0.22
45 24 0.60
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (43 bp):
AATAAATAAAATAATAAAATAAAATAAAAATAAAGAAAAATAA
Found at i:128465170 original size:16 final size:16
Alignment explanation
Indices: 128465079--128465167 Score: 74
Period size: 16 Copynumber: 5.4 Consensus size: 16
128465069 AAAATAAAGT
*
128465079 AATAAATAATATAATAA
1 AATAAATAATA-AAAAA
* * *
128465096 AGTAAAGTAAT-GAATA
1 AATAAA-TAATAAAAAA
*
128465112 AATAAATAATAAAATA
1 AATAAATAATAAAAAA
128465128 AATAAAATAATAAAATAA
1 AAT-AAATAATAAAA-AA
128465146 AATAAA-AATAAAGAAA
1 AATAAATAATAAA-AAA
128465162 AATAAA
1 AATAAA
128465168 AATTGGGTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.07
16 28 0.47
17 20 0.33
18 8 0.13
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
AATAAATAATAAAAAA
Found at i:128468912 original size:10 final size:10
Alignment explanation
Indices: 128468893--128468942 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
128468883 TTAAAATTTA
128468893 AAAGATAAAT
1 AAAGATAAAT
128468903 ACAA-ATAAAT
1 A-AAGATAAAT
*
128468913 AAAGATAATT
1 AAAGATAAAT
128468923 AAAGATAAAT
1 AAAGATAAAT
*
128468933 AAAAATAAAT
1 AAAGATAAAT
128468943 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:128472961 original size:25 final size:24
Alignment explanation
Indices: 128472933--128472987 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
128472923 GATTCTGCAT
128472933 ATCTGAAACTGAGTCTGTTATCTGA
1 ATCTGAAACTGAGTCTG-TATCTGA
* *
128472958 ATCTGAAACTGAGTTTGTATCTGT
1 ATCTGAAACTGAGTCTGTATCTGA
128472982 ATCTGA
1 ATCTGA
128472988 CTATACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (24 bp):
ATCTGAAACTGAGTCTGTATCTGA
Found at i:128473679 original size:20 final size:21
Alignment explanation
Indices: 128473654--128473696 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
128473644 TTGGTTGCAC
128473654 AAAAATAAAAAAAATAT-TAA
1 AAAAATAAAAAAAATATGTAA
* *
128473674 AAAAATTATAAAAATATGTAA
1 AAAAATAAAAAAAATATGTAA
128473695 AA
1 AA
128473697 GTAGATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATAAAAAAAATATGTAA
Found at i:128475983 original size:131 final size:131
Alignment explanation
Indices: 128475743--128476065 Score: 330
Period size: 131 Copynumber: 2.5 Consensus size: 131
128475733 GTGAAATTCC
* * * * * *
128475743 GAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCT
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
* * * *
128475808 TAAATCGCCAAACATCAAACATCGCCTTCGTTTTGAAAGGTTTTTA-ATAAACATGAGTGAAAAC
66 CAAATCGCCAAACACCAAACATCGCCTTCGTTTTCAAAGATTTTTAGA-AAACATGAGTG-AAAC
128475872 CTA
129 CTA
* * *
128475875 GAA-GAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCTAGCACGATAGGGCATGATTCT
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
* * * ** * * * **
128475939 CAAATTGTCAAACACCGAGTATTGCCTTCGTTTTC-AAGAATTTTTAGAAGACATGGGTGAAATT
66 CAAATCGCCAAACACCAAACATCGCCTTCGTTTTCAAAG-ATTTTTAGAAAACATGAGTGAAACC
*
128476003 TT
130 TA
* * * *
128476005 GAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCAC-ATTAGGGCACGA
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGA-TAGGGCACGA
128476066 CTCCGCGAAT
Statistics
Matches: 156, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
130 11 0.07
131 141 0.90
132 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (131 bp):
GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
CAAATCGCCAAACACCAAACATCGCCTTCGTTTTCAAAGATTTTTAGAAAACATGAGTGAAACCT
A
Found at i:128476924 original size:23 final size:23
Alignment explanation
Indices: 128476881--128476924 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
128476871 AAAAAAATTT
*
128476881 AAAAATAATAATTTTATAATTAC
1 AAAAATAATAATTTTAAAATTAC
*
128476904 AAAAATAA-AGTTTCTAAAATT
1 AAAAATAATAATTT-TAAAATT
128476925 GCTTCACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAATAATAATTTTAAAATTAC
Found at i:128478796 original size:22 final size:24
Alignment explanation
Indices: 128478768--128478812 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
128478758 ATTATTGGGT
*
128478768 TTTTTTTGT-TTTTTTTG-GTTTA
1 TTTTTTTGTCTTGTTTTGTGTTTA
128478790 TTTTTTTGTCTTGTTTTGTGTTT
1 TTTTTTTGTCTTGTTTTGTGTTT
128478813 GCATAGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (24 bp):
TTTTTTTGTCTTGTTTTGTGTTTA
Found at i:128479313 original size:45 final size:45
Alignment explanation
Indices: 128479225--128479313 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
128479215 GATGGTTTAA
* * **
128479225 ATCTGCTTCACTGCAACTTCAGGAAGACATGATTCGCCGTTTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGCAATTTTCG
128479270 ATCTGCTCCACTGCAACTTCAGAGAA-ACAAGATCTC-CAATTTTC
1 ATCTGCTCCACTGCAACTTCAG-GAAGACAAGAT-TCGCAATTTTC
128479314 AGCCTACTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 33 0.87
46 5 0.13
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGCAATTTTCG
Found at i:128479416 original size:133 final size:133
Alignment explanation
Indices: 128479173--128479437 Score: 363
Period size: 133 Copynumber: 2.0 Consensus size: 133
128479163 ACGAGACCTG
* *
128479173 CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGATGGTTTAAATCTGCTTCACTG
1 CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGATAGCTTAAATCTGCTTCACTG
* * * **
128479238 CAACTTCAGGAAGACATGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTC-AGAGAAACAAGA
66 CAACTTCAGGAAAACAAGATTCACCGTCGTCGATCTGCTCCACTGCAACTTCAAG-GAAACAAGA
128479302 TCTC
130 TCTC
* * * * * *
128479306 CAATTTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTAGCTTAAATTTGCTTTACTG
1 CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGATAGCTTAAATCTGCTTCACTG
* *
128479371 CAACTTCAGGAAAACAAGATTCACCGTCGT-GTATCTGCTCCACTGCAATTTCAAGGAGACAAGA
66 CAACTTCAGGAAAACAAGATTCACCGTCGTCG-ATCTGCTCCACTGCAACTTCAAGGAAACAAGA
128479435 TCT
130 TCT
128479438 GTAGGATTCG
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 1 0.01
133 112 0.97
134 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (133 bp):
CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGATAGCTTAAATCTGCTTCACTG
CAACTTCAGGAAAACAAGATTCACCGTCGTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGAT
CTC
Found at i:128491242 original size:131 final size:131
Alignment explanation
Indices: 128491019--128491392 Score: 335
Period size: 131 Copynumber: 2.8 Consensus size: 131
128491009 GTGAAATTCC
* * * * * *
128491019 GAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCT
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
* * *
128491084 TAAATCGCCAAACATCGAACATCGCCTTCGTTTTGAAAG-GTTTTTA-ATAAACATGAGTGAAAA
66 CAAATCGCCAAACACCGAACATCGCCTTCGTTTT-AAAGAATTTTTAGA-AAACATGAGTG-AAA
128491147 CCTA
128 CCTA
* * *
128491151 GAA-GAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCATGATAGGGCATGATTCT
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
* * ** * * * * * **
128491215 CAAATTGTCAAACACCGAGTATTGCCTTTGTTTTCAAGAATTTTTAGAAGACATGGGTGAAATTT
66 CAAATCGCCAAACACCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAAACATGAGTGAAACCT
*
128491280 T
131 A
* * * * *
128491281 GAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCAC-ATTAGGGCACGACTC
1 GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGA-TAGGGCACGA-TT
* * * * * * *
128491345 CGCGAATTGCCAAATATCAAATC-TCGTCTTCGTTTTAAAGAATTTTTA
64 CTCAAATCGCCAAACACCGAA-CATCGCCTTCGTTTTAAAGAATTTTTA
128491393 AGTGAATAAT
Statistics
Matches: 192, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
130 11 0.06
131 141 0.73
132 40 0.21
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
GAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCT
CAAATCGCCAAACACCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAAACATGAGTGAAACCT
A
Found at i:128495578 original size:62 final size:62
Alignment explanation
Indices: 128495503--128495632 Score: 188
Period size: 62 Copynumber: 2.1 Consensus size: 62
128495493 TTGCCTTGGT
* * *
128495503 CGTGTGGTTTTTAAGCACAAACAATGAGTTACACGGCTTGGGCACACACTCGTGTCCCTAGC
1 CGTGTGGTTTTTAAGCACAAACAATGAGTTACACAGCCTGGGCACACACCCGTGTCCCTAGC
* * * *
128495565 CGTGTGGTTTTTAAGTACAAACAGTGAGTTACACAGCCTGGGCACACGCCCGTGTCCCTGGC
1 CGTGTGGTTTTTAAGCACAAACAATGAGTTACACAGCCTGGGCACACACCCGTGTCCCTAGC
*
128495627 TGTGTG
1 CGTGTG
128495633 AACCCTACAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (62 bp):
CGTGTGGTTTTTAAGCACAAACAATGAGTTACACAGCCTGGGCACACACCCGTGTCCCTAGC
Found at i:128498849 original size:13 final size:13
Alignment explanation
Indices: 128498811--128498849 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
128498801 AAATTAAATT
128498811 AGAAAAGAAA-ATA
1 AGAAAA-AAACATA
*
128498824 AGAAAAAATCATA
1 AGAAAAAAACATA
128498837 AGAAAAAAACATA
1 AGAAAAAAACATA
128498850 TTAATAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (13 bp):
AGAAAAAAACATA
Found at i:128499015 original size:2 final size:2
Alignment explanation
Indices: 128499008--128499035 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
128498998 TGAAGTAGCA
128499008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128499036 GAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128501771 original size:25 final size:28
Alignment explanation
Indices: 128501736--128501788 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
128501726 GATACTTAAG
128501736 TTTGATA-TTTTTTCT-TTAATATGGTA
1 TTTGATATTTTTTTCTATTAATATGGTA
128501762 TTTG-TATTTTTTTCTATTAATATGGTA
1 TTTGATATTTTTTTCTATTAATATGGTA
128501789 CATGCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.08
26 12 0.48
27 11 0.44
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.62
Consensus pattern (28 bp):
TTTGATATTTTTTTCTATTAATATGGTA
Found at i:128501797 original size:27 final size:26
Alignment explanation
Indices: 128501743--128501797 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
128501733 AAGTTTGATA
** *
128501743 TTTTTTCTTTAATATGGTATTTGTAT
1 TTTTTTCTTTAATATGGTACATGCAT
128501769 TTTTTTCTATTAATATGGTACATGCAT
1 TTTTTTCT-TTAATATGGTACATGCAT
128501796 TT
1 TT
128501798 GATAAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (26 bp):
TTTTTTCTTTAATATGGTACATGCAT
Found at i:128502598 original size:22 final size:25
Alignment explanation
Indices: 128502573--128502621 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 25
128502563 TATTGTATTT
128502573 AACAAATT-AA-AACAC-AAAATTA
1 AACAAATTCAAGAACACTAAAATTA
128502595 AACAAATTCAATGAACACTAAAATTA
1 AACAAATTCAA-GAACACTAAAATTA
128502621 A
1 A
128502622 TCTATTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
25 5 0.22
26 8 0.35
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.20
Consensus pattern (25 bp):
AACAAATTCAAGAACACTAAAATTA
Found at i:128506516 original size:44 final size:44
Alignment explanation
Indices: 128506468--128506552 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
128506458 ATTATGCTAC
128506468 AAAAATTAAATTTTTACAGACATTAGGAACATGTAAAACATCTT
1 AAAAATTAAATTTTTACAGACATTAGGAACATGTAAAACATCTT
128506512 AAAAATTAAATTTTTACAGACATTAGGAACATGTAAAACAT
1 AAAAATTAAATTTTTACAGACATTAGGAACATGTAAAACAT
128506553 TTTTAAGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (44 bp):
AAAAATTAAATTTTTACAGACATTAGGAACATGTAAAACATCTT
Found at i:128508042 original size:16 final size:16
Alignment explanation
Indices: 128507990--128508057 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
128507980 TGGACTACTT
*
128507990 CAAC-AACTTCTTTAA
1 CAACTAACTACTTTAA
**
128508005 CAAAAAACTACTTTAA
1 CAACTAACTACTTTAA
*
128508021 CAACTAACTGCTTTAA
1 CAACTAACTACTTTAA
* *
128508037 CTACTAACAAC-TTAA
1 CAACTAACTACTTTAA
128508052 CAACTA
1 CAACTA
128508058 TTTGTTTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
15 12 0.28
16 31 0.72
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (16 bp):
CAACTAACTACTTTAA
Found at i:128513210 original size:23 final size:23
Alignment explanation
Indices: 128513167--128513212 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
128513157 TTTCTTTGAA
*
128513167 ATTTTTATGAACTTATTTTTTTT
1 ATTTTTATGAACTTATATTTTTT
* *
128513190 ATTTTTTTGAA-TTATAATTTTT
1 ATTTTTATGAACTTATATTTTTT
128513212 A
1 A
128513213 AATTATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTTATGAACTTATATTTTTT
Found at i:128516469 original size:38 final size:38
Alignment explanation
Indices: 128516410--128516503 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
128516400 TCAATCATGC
*
128516410 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
* *
128516449 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
128516487 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
128516504 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:128516773 original size:23 final size:23
Alignment explanation
Indices: 128516693--128516812 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 23
128516683 TGCTTTATCA
*
128516693 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
128516717 TAATAATTGGGGCCA-AAGCCCTTT
1 T-ATAACTGGGG-CATAAGCCCTTT
*
128516741 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
128516765 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
128516788 CGATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
128516812 T
1 T
128516813 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
23 24 0.29
24 47 0.57
25 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:128516783 original size:47 final size:48
Alignment explanation
Indices: 128516694--128516812 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
128516684 GCTTTATCAT
* *
128516694 ATAACTGGAGGCCT-AGCCTCTTTTAATAATTGGGGCCAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCCAAAGCCCTTTCA
*
128516743 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGG-CATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
128516790 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
128516813 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 2 0.03
47 42 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCCAAAGCCCTTTCA
Found at i:128516888 original size:20 final size:20
Alignment explanation
Indices: 128516863--128516922 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
128516853 TATGATTACC
128516863 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
128516883 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
128516903 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
128516923 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:128516893 original size:11 final size:11
Alignment explanation
Indices: 128516863--128516917 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
128516853 TATGATTACC
128516863 TCATGTGCATA
1 TCATGTGCATA
*
128516874 TCA--TACATA
1 TCATGTGCATA
128516883 TCATGTGCATA
1 TCATGTGCATA
* *
128516894 TCA--TACATT
1 TCATGTGCATA
128516903 TCATGTGCATA
1 TCATGTGCATA
128516914 TCAT
1 TCAT
128516918 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:128516997 original size:25 final size:25
Alignment explanation
Indices: 128516965--128517012 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
128516955 ATACATAAAC
* * *
128516965 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
128516990 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
128517013 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:128524568 original size:37 final size:38
Alignment explanation
Indices: 128524500--128524592 Score: 152
Period size: 37 Copynumber: 2.4 Consensus size: 38
128524490 TCAATCATGC
*
128524500 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
128524539 ACTGGGCCGAAGCCTTTTCAT-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
128524576 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
128524593 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
37 32 0.62
38 9 0.17
39 11 0.21
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:128524842 original size:24 final size:23
Alignment explanation
Indices: 128524805--128524899 Score: 147
Period size: 23 Copynumber: 4.1 Consensus size: 23
128524795 CCTAGCCTCT
*
128524805 TTTAATAACT-GGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
128524827 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
*
128524851 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
128524874 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
128524897 TTT
1 TTT
128524900 TTCACTTCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
22 3 0.04
23 51 0.75
24 14 0.21
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:128524862 original size:46 final size:47
Alignment explanation
Indices: 128524784--128524900 Score: 159
Period size: 46 Copynumber: 2.5 Consensus size: 47
128524774 GCTTTATCAT
*
128524784 ATAACTGGAGGCCT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTT-A
* *
128524832 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTA
128524878 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
128524901 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 29 0.45
47 23 0.36
48 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTA
Found at i:128524981 original size:11 final size:11
Alignment explanation
Indices: 128524951--128525004 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
128524941 TATGATTACC
128524951 TCATGTGCATA
1 TCATGTGCATA
*
128524962 TCA--TACATA
1 TCATGTGCATA
128524971 TCATGTGCATA
1 TCATGTGCATA
*
128524982 TCA--TACAT-
1 TCATGTGCATA
128524990 TCATGTGCATA
1 TCATGTGCATA
128525001 TCAT
1 TCAT
128525005 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:128524995 original size:19 final size:20
Alignment explanation
Indices: 128524951--128525009 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
128524941 TATGATTACC
128524951 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
128524971 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
128524990 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
128525010 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:128540082 original size:43 final size:42
Alignment explanation
Indices: 128540035--128540146 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
128540025 AGATGATGGG
* *
128540035 CTTAACCCTCTAAGCAATAGGGTAGCAAGCCAAATTTACAGAC
1 CTTAACCC-CTAAGCAATAGGGTAACAAGCCAAATTCACAGAC
* *** *
128540078 CTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCACAGAT
1 CTT-AACCCCTAAGCAATAGGGTAACAAGCCAAATTCACAGAC
* * *
128540121 CTAAACCCCTAAGCGATAGGGAAACA
1 CTTAACCCCTAAGCAATAGGGTAACA
128540147 GAACGATGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
42 20 0.35
43 32 0.56
44 5 0.09
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
CTTAACCCCTAAGCAATAGGGTAACAAGCCAAATTCACAGAC
Found at i:128540588 original size:24 final size:23
Alignment explanation
Indices: 128540557--128540613 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
128540547 AATTTTAGGC
* *
128540557 CCAAAACCTCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
* *
128540580 CCAATAACCCCAAAACCTACTAAAC
1 CCAA-AACCCCAAAACCCACT-AAG
128540605 CCAAAACCC
1 CCAAAACCC
128540614 AACAACAGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
25 6 0.21
ACGTcount: A:0.46, C:0.42, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:128540607 original size:16 final size:16
Alignment explanation
Indices: 128540556--128540612 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
128540546 CAATTTTAGG
128540556 CCCAAAACCT-CTAAA
1 CCCAAAACCTACTAAA
* * *
128540571 CCCACTAAGCC-AATAAC
1 CCCA--AAACCTACTAAA
128540588 CCCAAAACCTACTAAA
1 CCCAAAACCTACTAAA
128540604 CCCAAAACC
1 CCCAAAACC
128540613 CAACAACAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.25
16 13 0.41
17 11 0.34
ACGTcount: A:0.46, C:0.42, G:0.02, T:0.11
Consensus pattern (16 bp):
CCCAAAACCTACTAAA
Found at i:128550768 original size:2 final size:2
Alignment explanation
Indices: 128550761--128550794 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
128550751 TAACAATCAC
128550761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128550795 TCAAAATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:128554494 original size:26 final size:26
Alignment explanation
Indices: 128554458--128554593 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
128554448 CATGAAATTC
*
128554458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
128554484 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
128554510 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
128554536 TTATCATGGAACATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128554562 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128554588 TTATCA
1 TTATCA
128554594 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:128554934 original size:2 final size:2
Alignment explanation
Indices: 128554927--128554951 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
128554917 GGCGTTACAA
128554927 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
128554952 AGAATTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128556954 original size:20 final size:19
Alignment explanation
Indices: 128556915--128556955 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
128556905 ATTTAAAAAG
*
128556915 TAAAAATGTAAAAAATATA
1 TAAAAATGTAAAAAAAATA
*
128556934 TAAAAATTTAAAATAAAATA
1 TAAAAATGTAAAA-AAAATA
128556954 TA
1 TA
128556956 TTTTAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATGTAAAAAAAATA
Found at i:128559184 original size:17 final size:17
Alignment explanation
Indices: 128559148--128559180 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
128559138 AAACTCCGTG
*
128559148 ATTTAAATATTTTAAAT
1 ATTTAAATATTATAAAT
128559165 ATTTAAAT-TTATAAAT
1 ATTTAAATATTATAAAT
128559181 TATTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAATATTATAAAT
Found at i:128559757 original size:2 final size:2
Alignment explanation
Indices: 128559750--128559797 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
128559740 TCAACAAGAC
128559750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128559792 AT AT AT
1 AT AT AT
128559798 TTAAAGAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128560752 original size:23 final size:24
Alignment explanation
Indices: 128560707--128560752 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
128560697 TGAGTTATGA
* *
128560707 AATAAATAATAAAGAGAATAAAAT
1 AATAAAAAATAAAGAGAACAAAAT
128560731 AATAAAAAAT-AAGAGAACAAAA
1 AATAAAAAATAAAGAGAACAAAA
128560753 GAGAATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (24 bp):
AATAAAAAATAAAGAGAACAAAAT
Found at i:128566063 original size:11 final size:11
Alignment explanation
Indices: 128566047--128566097 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
128566037 TGTATAATAC
*
128566047 TATATTATGTA
1 TATATTATATA
*
128566058 TATATTTTATA
1 TATATTATATA
128566069 TATATTATATA
1 TATATTATATA
*
128566080 TTTTATTAT-TA
1 -TATATTATATA
128566091 T-TATTAT
1 TATATTAT
128566098 GTTTTTATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 6 0.17
10 1 0.03
11 21 0.60
12 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TATATTATATA
Found at i:128566068 original size:9 final size:9
Alignment explanation
Indices: 128566056--128566094 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
128566046 CTATATTATG
128566056 TATATATTT
1 TATATATTT
*
128566065 TATATATAT
1 TATATATTT
128566074 TATATATTT
1 TATATATTT
128566083 TAT-TATTAT
1 TATATATT-T
128566092 TAT
1 TAT
128566095 TATGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATATTT
Found at i:128566077 original size:18 final size:18
Alignment explanation
Indices: 128566047--128566122 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
128566037 TGTATAATAC
128566047 TATAT-TATGTATATATTT
1 TATATATAT-TATATATTT
128566065 TATATATATTATATATTT
1 TATATATATTATATATTT
128566083 TAT-TATTATTAT-TATGTT
1 TATATA-TATTATATAT-TT
* *
128566101 TTTATCTA-TATAT-TTT
1 TATATATATTATATATTT
128566117 TA-ATAT
1 TATATAT
128566123 CACATTATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 9 0.18
18 30 0.61
19 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TATATATATTATATATTT
Found at i:128566303 original size:2 final size:2
Alignment explanation
Indices: 128566251--128566287 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
128566241 ATGTTCTTGG
* *
128566251 TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128566288 TTCTTTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:128566315 original size:20 final size:20
Alignment explanation
Indices: 128566277--128566316 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
128566267 TATATATACA
*
128566277 CATATATATATTTCTTTATT
1 CATATATATATTTCATTATT
128566297 CATATAT-TATTATCATTATT
1 CATATATATATT-TCATTATT
128566317 TTCCACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (20 bp):
CATATATATATTTCATTATT
Found at i:128566494 original size:27 final size:27
Alignment explanation
Indices: 128566463--128566515 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
128566453 AGTATGTATA
* *
128566463 TATTTTTAATGCTACGTATATATTTTT
1 TATTTCTAATACTACGTATATATTTTT
* *
128566490 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
128566516 AATACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (27 bp):
TATTTCTAATACTACGTATATATTTTT
Found at i:128566635 original size:3 final size:3
Alignment explanation
Indices: 128566627--128566685 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
128566617 ATACCATATG
**
128566627 TAT TAT TAT CGT T-T TAT -AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
128566673 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
128566686 TTCGTTATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:128568658 original size:47 final size:47
Alignment explanation
Indices: 128568600--128568776 Score: 178
Period size: 47 Copynumber: 3.6 Consensus size: 47
128568590 GCATTAGCAC
128568600 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
* * * *** *
128568647 TAAGATAAGGATATCATGTAAGACCATGCCAAGG--CATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAAACCATG-TTTGGAACATGGCATT--T--G----G
*
128568701 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
*
128568748 TAAGATAAGGATACCATGTAAAACCATGT
1 TAAGACAAGGATACCATGTAAAACCATGT
128568777 CAAGACATGG
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
46 9 0.09
47 52 0.50
48 3 0.03
50 1 0.01
51 1 0.01
53 3 0.03
54 26 0.25
55 9 0.09
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
Found at i:128568727 original size:101 final size:102
Alignment explanation
Indices: 128568600--128568830 Score: 376
Period size: 101 Copynumber: 2.3 Consensus size: 102
128568590 GCATTAGCAC
* *
128568600 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATACCATG
* *
128568665 TAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
66 TAAAACCATGCCAAGACATGGCATTGATAAGTTACTA
128568701 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATACCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATACCATG
*
128568766 TAAAACCATGTCAAGACATGGCATTGATAAGTTACTA
66 TAAAACCATGCCAAGACATGGCATTGATAAGTTACTA
* *
128568803 TAAGGCAAAGG-TCCCATGTAAGACCATG
1 TAAGAC-AAGGATACCATGTAAGACCATG
128568831 CCAAGGCATG
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
101 93 0.77
102 24 0.20
103 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (102 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATACCATG
TAAAACCATGCCAAGACATGGCATTGATAAGTTACTA
Found at i:128568822 original size:55 final size:53
Alignment explanation
Indices: 128568761--128568863 Score: 143
Period size: 55 Copynumber: 1.9 Consensus size: 53
128568751 GATAAGGATA
*
128568761 CCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
1 CCATGTAAAACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGCAAAGGTC
* * * *
128568816 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAA
1 CCATGTAAAACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAA
128568864 TGATACCACG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 9 0.21
54 1 0.02
55 33 0.77
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (53 bp):
CCATGTAAAACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAAGGTC
Found at i:128568907 original size:53 final size:53
Alignment explanation
Indices: 128568656--128568908 Score: 207
Period size: 53 Copynumber: 4.8 Consensus size: 53
128568646 GTAAGATAAG
* * * * * *
128568656 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTC-ATAAGGCAAA
***
128568710 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG---ATAA-G----
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGTTCATAAGGCAAA
* *
128568757 GATACCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * * * * *
128568812 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* * * * *
128568865 GATACCACGTAAGACTATGTTAAGACATAGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCA
128568909 AAAAGGAAAA
Statistics
Matches: 156, Mismatches: 31, Indels: 25
0.74 0.15 0.12
Matches are distributed among these distances:
45 7 0.04
46 8 0.05
47 20 0.13
50 4 0.03
51 1 0.01
52 4 0.03
53 43 0.28
54 20 0.13
55 42 0.27
56 7 0.04
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:128578317 original size:3 final size:3
Alignment explanation
Indices: 128578309--128578356 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
128578299 TATTCAACTA
128578309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
128578357 TCATAACAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:128581381 original size:3 final size:3
Alignment explanation
Indices: 128581373--128581434 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
128581363 AAAATCTCAA
*
128581373 TAT TAT TAT TAT TATT TAT TA- TAGT T-T TA- TAT T-T AAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* *
128581416 TGT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
128581435 TAAATTGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
2 7 0.15
3 36 0.77
4 4 0.09
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:128581619 original size:15 final size:15
Alignment explanation
Indices: 128581593--128581631 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
128581583 AAATAAAAAG
128581593 GAAATA-AA-GGAAA
1 GAAATAGAATGGAAA
128581606 GAAATAGAATGGAAA
1 GAAATAGAATGGAAA
*
128581621 GAAACAGAATG
1 GAAATAGAATG
128581632 TGGAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 2 0.09
15 15 0.65
ACGTcount: A:0.62, C:0.03, G:0.26, T:0.10
Consensus pattern (15 bp):
GAAATAGAATGGAAA
Found at i:128581619 original size:24 final size:25
Alignment explanation
Indices: 128581573--128581620 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
128581563 ATTATTATTA
*
128581573 AAAGTAAAGTAAATAAAAAGGAAAT
1 AAAGGAAAGTAAATAAAAAGGAAAT
* *
128581598 AAAGGAAAG-AAATAGAATGGAAA
1 AAAGGAAAGTAAATAAAAAGGAAA
128581621 GAAACAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (25 bp):
AAAGGAAAGTAAATAAAAAGGAAAT
Found at i:128581675 original size:18 final size:20
Alignment explanation
Indices: 128581652--128581688 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
128581642 CAGGGGAAGG
128581652 AAGAAAG-A-AAAAGAGAAC
1 AAGAAAGAAGAAAAGAGAAC
128581670 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
128581689 AATTAAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGAAAAGAGAAC
Found at i:128590602 original size:25 final size:27
Alignment explanation
Indices: 128590565--128590618 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
128590555 TCAAACATGC
128590565 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
128590591 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
128590617 AT
1 AT
128590619 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:128592132 original size:26 final size:26
Alignment explanation
Indices: 128592096--128592230 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
128592086 CATGATATTC
128592096 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
128592122 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
128592148 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
128592174 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
128592199 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
128592225 TTATCA
1 TTATCA
128592231 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:128596424 original size:25 final size:26
Alignment explanation
Indices: 128596387--128596438 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
128596377 TCAAACATGC
128596387 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
128596413 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
128596438 A
1 A
128596439 AACTGTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:128597946 original size:26 final size:26
Alignment explanation
Indices: 128597910--128598123 Score: 365
Period size: 26 Copynumber: 8.2 Consensus size: 26
128597900 CATGATATTC
128597910 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
128597936 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
128597962 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
128597988 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
*
128598014 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
128598040 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
128598066 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
128598092 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
128598118 TTATCA
1 TTATCA
128598124 ATTTGTATCA
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 179 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:128599323 original size:25 final size:25
Alignment explanation
Indices: 128599281--128599328 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
128599271 TTTGAAAATT
* *
128599281 TTAATTATACCTTTAATTTTTTTAA
1 TTAATTAAACCTTCAATTTTTTTAA
*
128599306 TTAATTAAATCTTCAATTTTTTT
1 TTAATTAAACCTTCAATTTTTTT
128599329 TTAAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAATTAAACCTTCAATTTTTTTAA
Found at i:128599438 original size:18 final size:18
Alignment explanation
Indices: 128599387--128599438 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
128599377 TTTTTTTTTG
**
128599387 TAAATTTTCATAAATCTC
1 TAAATTTTCATAAAAATC
* *
128599405 TAAAATTTTAAAAAAAATC
1 T-AAATTTTCATAAAAATC
128599424 TAAATTTTCATAAAA
1 TAAATTTTCATAAAA
128599439 TTAGTATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATTTTCATAAAAATC
Found at i:128603055 original size:43 final size:44
Alignment explanation
Indices: 128602923--128603079 Score: 160
Period size: 43 Copynumber: 3.6 Consensus size: 44
128602913 ATCGAGTTGA
* * * **
128602923 GATTACATGTAAGACCATGCCTGGGACATTGGCATTG-TAGTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATAC
* * *
128602966 GATTATGTATAAGACCATGTCTGGGACATTGGCATTATT-ATAC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATAC
* * *
128603009 GATTACGTGTAAGACCATGTATGAGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATAC
* *
128603052 GATTTCGTGTAAAACTC-TGTCTGGGACA
1 GATTACGTGTAAGAC-CATGTCTGGGACA
128603080 GTAGCATCGA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
43 89 0.96
44 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATAC
Found at i:128603728 original size:26 final size:26
Alignment explanation
Indices: 128603692--128603775 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
128603682 TGATACAAAT
*
128603692 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
128603718 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
128603744 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
128603770 TGATAA
1 TGATAA
128603776 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:128604528 original size:23 final size:23
Alignment explanation
Indices: 128604455--128604517 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 23
128604445 AGCCCTCCCC
128604455 AAAAAAAAACCTAA-CCAAAAAA
1 AAAAAAAAACCTAACCCAAAAAA
128604477 AAAAGAAAAACCTAACCCAAAAAA
1 AAAA-AAAAACCTAACCCAAAAAA
128604501 AAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
128604518 CCCAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 4 0.10
23 23 0.59
24 12 0.31
ACGTcount: A:0.71, C:0.22, G:0.02, T:0.05
Consensus pattern (23 bp):
AAAAAAAAACCTAACCCAAAAAA
Found at i:128605118 original size:32 final size:32
Alignment explanation
Indices: 128605055--128605126 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 32
128605045 ATTTCTTATG
128605055 TATATATTCTTAAATACTATTATATACATATAT
1 TATATATTCTTAAATACTATTATATA-ATATAT
* *
128605088 ATATATATT-TTAAATACATATTGTGT-ATATAT
1 -TATATATTCTTAAATAC-TATTATATAATATAT
128605120 TAT-TATT
1 TATATATT
128605127 ACAAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 4 0.11
31 3 0.09
32 6 0.17
33 8 0.23
34 14 0.40
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (32 bp):
TATATATTCTTAAATACTATTATATAATATAT
Found at i:128607075 original size:12 final size:12
Alignment explanation
Indices: 128607058--128607092 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
128607048 ACATTTTGAT
128607058 ATTCATGCATTC
1 ATTCATGCATTC
128607070 ATTCATGCATTC
1 ATTCATGCATTC
*
128607082 ATTCATACATT
1 ATTCATGCATT
128607093 GCATATCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (12 bp):
ATTCATGCATTC
Found at i:128615703 original size:72 final size:71
Alignment explanation
Indices: 128615537--128615726 Score: 238
Period size: 72 Copynumber: 2.6 Consensus size: 71
128615527 TAAGCCTTTT
* * * *
128615537 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 AATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
* *
128615602 TATTTTC
65 TAATCTC
* **
128615609 AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTG-GCCTCAGGACACGATGAGG
1 AATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
128615673 TAATCTC
65 TAATCTC
* *
128615680 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
128615727 ACCTTTTAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
70 2 0.02
71 33 0.33
72 65 0.65
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (71 bp):
AATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
AATCTC
Found at i:128615773 original size:197 final size:187
Alignment explanation
Indices: 128615364--128615819 Score: 513
Period size: 197 Copynumber: 2.4 Consensus size: 187
128615354 CTTTTCAAGG
* * ** * *
128615364 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAATTGTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* * *
128615429 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTA
66 GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTA
** **
128615494 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTC
* * *
128615551 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* ** *
128615616 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTG-GCCTCAGGACACGATGAGGTAATCTC
66 GT-TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGT-AT-T-
* *
128615680 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACT
127 --TTT-AGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACT
128615744 TTTTC
183 TTTTC
* * * ** *
128615749 AAAATTAGCTCATATTGC-AGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
*
128615813 GTCTTCA
66 GTTTTCA
128615820 TTATTATGTT
Statistics
Matches: 225, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
187 75 0.33
188 33 0.15
189 1 0.00
192 3 0.01
193 4 0.02
194 1 0.00
196 4 0.02
197 79 0.35
198 25 0.11
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (187 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTA
GTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTC
Found at i:128615908 original size:88 final size:88
Alignment explanation
Indices: 128615757--128616083 Score: 435
Period size: 88 Copynumber: 3.7 Consensus size: 88
128615747 TCAAAATTAG
* * *
128615757 CTCATATTGC-AGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGTCTTCAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTTTCAT
*
128615821 TATTATGTTTTTGAAAGAATCAG
66 TATTATGTTTTTGAAAGAATCAA
128615844 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTTTCAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTTTCAT
128615909 TATTATGTTTTTGAAAGAATCAA
66 TATTATGTTTTTGAAAGAATCAA
* *
128615932 CTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAC-C-GAGGTATTTTCAATTTCTG-TTTT
* * ** *
128615997 CAAT-TTCTGTCTTTCAAAAAAAAATCAA
63 CATTATTATGT-TTT--TGAAAGAATCAA
* * * * *
128616025 CTCATATTGTGA-AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTT
128616084 GTCAAAAAAT
Statistics
Matches: 215, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
87 10 0.05
88 109 0.51
89 3 0.01
90 42 0.20
91 10 0.05
92 22 0.10
93 19 0.09
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (88 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTTTCAT
TATTATGTTTTTGAAAGAATCAA
Found at i:128615998 original size:14 final size:14
Alignment explanation
Indices: 128615979--128616013 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
128615969 CGCTGAGGTA
128615979 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
128615993 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
128616007 CTTTCAA
1 TTTTCAA
128616014 AAAAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:128616126 original size:73 final size:73
Alignment explanation
Indices: 128616015--128616157 Score: 216
Period size: 74 Copynumber: 2.0 Consensus size: 73
128616005 GTCTTTCAAA
* * * *
128616015 AAAAAATCAACTCATATTGTGAAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAAGGCGAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAATTT
128616079 CTGTTGTC
66 CTGTTGTC
* *
128616087 AAAAAATCAACTCATATTGCGAGTGGCGAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATT
1 AAAAAATCAACTCATATTGCGA-AGGCGAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAATT
128616152 TCTGTT
65 TCTGTT
128616158 TTTCAATTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 21 0.33
73 16 0.25
74 26 0.41
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAAGGCGAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAATTT
CTGTTGTC
Found at i:128616162 original size:14 final size:14
Alignment explanation
Indices: 128616143--128616169 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
128616133 CGCCGAGGTA
128616143 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
128616157 TTTTCAATTTCTG
1 TTTTCAATTTCTG
128616170 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:128616175 original size:14 final size:14
Alignment explanation
Indices: 128616144--128616177 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
128616134 GCCGAGGTAT
**
128616144 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
128616158 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
128616172 TTTCAA
1 TTTCAA
128616178 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:128616283 original size:74 final size:76
Alignment explanation
Indices: 128616158--128616319 Score: 213
Period size: 74 Copynumber: 2.1 Consensus size: 76
128616148 AATTTCTGTT
* *
128616158 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-AC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
128616222 ACGCTGAGGTAA
65 ACGCCGAGGTAA
* * *
128616234 TTTCAATTTCTG-TTGTC-AAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
128616297 CACGCCGAGGTAT
64 CACGCCGAGGTAA
128616310 TTTCAATTTC
1 TTTCAATTTC
128616320 CATTTTTCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
74 40 0.53
75 2 0.03
76 34 0.45
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (76 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
CGCCGAGGTAA
Found at i:128616446 original size:76 final size:77
Alignment explanation
Indices: 128616323--128616499 Score: 230
Period size: 76 Copynumber: 2.3 Consensus size: 77
128616313 CAATTTCCAT
* * * ** *
128616323 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAG-GTTGGC
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
* *
128616387 TCACGCGCTGAGCTA
63 TCACACGCCGAGCTA
128616402 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
128616467 CACGCCGAGGTA
66 CACGCCGAGCTA
*
128616479 TTTTCAATTTCTGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
128616500 TTTCTGTCTT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
76 35 0.40
77 34 0.39
79 18 0.21
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTA
Found at i:128616480 original size:170 final size:167
Alignment explanation
Indices: 128615926--128617119 Score: 1226
Period size: 170 Copynumber: 7.2 Consensus size: 167
128615916 TTTTTGAAAG
* * *
128615926 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
* *
128615991 GTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGTGA-AGGTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CT-TG
* *
128616055 G---ACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAA
128 GCTCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* *
128616091 AATCAACTCATATTGCGAGTGGCGAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
*
128616155 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG
66 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTT-GG
* *
128616220 ---ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
129 CTCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * * *
128616256 AGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
* * * *
128616321 ATTTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGGTTGG
66 GTTTTTCAATTTCTGTCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGG
* *
128616386 CTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAA
129 CTCACACGCTGAGGTATTTTCAATTTCTGT-TTTCAAAAA
*
128616426 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
* * *
128616491 GTTTTTCAATTTCTGTCTTTC-AAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCTTCAGA
66 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-GGC
* * *
128616555 TCACACACTGAGGTATTTTTTTTTACTTCAATTTATATTTTTC--AAA
130 TCACACGCTGAGGTA-------TT--TTCAATTTCT-GTTTTCAAAAA
* * *
128616601 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
* * ** *
128616666 ATTTTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT--CA
66 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGGC-
** *
128616725 AGACACGTTGAGGTATTTTCAATTT-TGTTTTC-AAAA
130 TCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * ** * *
128616761 AATCAACTTATATTACGAGAGGTGAGTTGAGCCT-TGGCTCATGCGCTGAGCTATTTTCAA----
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAATTTC
*
128616821 ------T---TTT-TGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
65 TGTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-GG
* * * * *
128616876 ATCACACACTGAGGTATTTTTTCAATTTATATTTTTTAAAAA
129 CTCACACGCTGAGGTA--TTTTCAATTTCT-GTTTTCAAAAA
* * * * **
128616918 AATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
* *
128616983 GTTTTTCAAATTCTGT-TTTC---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
66 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGC
** *
128617044 TCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAA
130 TCACACGCTGAGGTATTTTCAATTTCTG------TTTTCAAAAA
128617088 AATTCAACTCATATTG-GAGAGGTGAGTTGAGC
1 AA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
128617120 TTTTTAATTT
Statistics
Matches: 879, Mismatches: 91, Indels: 113
0.81 0.08 0.10
Matches are distributed among these distances:
146 3 0.00
147 7 0.01
150 34 0.04
152 11 0.01
154 10 0.01
155 1 0.00
156 4 0.00
157 51 0.06
158 2 0.00
159 6 0.01
160 53 0.06
161 8 0.01
163 25 0.03
164 95 0.11
165 82 0.09
166 49 0.06
167 84 0.10
168 52 0.06
169 24 0.03
170 129 0.15
171 16 0.02
172 32 0.04
174 4 0.00
175 83 0.09
177 13 0.01
178 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (167 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGGCT
CACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
Found at i:128616498 original size:14 final size:14
Alignment explanation
Indices: 128616479--128616513 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
128616469 CGCCGAGGTA
128616479 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
128616493 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
128616507 CTTTCAA
1 TTTTCAA
128616514 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:128616557 original size:91 final size:88
Alignment explanation
Indices: 128616402--128616755 Score: 443
Period size: 91 Copynumber: 4.0 Consensus size: 88
128616392 CGCTGAGCTA
128616402 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
128616467 CACGCCGAGGTATTTTCAATTTCTGT
64 CACGCCGAGGTATTTTCAATTT-TGT
* *
128616493 TTTTCAATTTCTGTCTTTCAAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
128616558 CACACTGAGGTATTTT---TTTT-T
64 CACGCCGAGGTATTTTCAATTTTGT
** * * * *
128616579 ACTTCAATTTATATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
**
128616644 CGCCGAGGTATTTTCAATTTCCAT
66 CGCCGAGGTATTTTCAATTT-TGT
* ** *
128616668 TTTTCAATTTCTGT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
**
128616730 CGTTGAGGTATTTTCAATTTTGT
66 CGCCGAGGTATTTTCAATTTTGT
128616753 TTT
1 TTT
128616756 CAAAAAATCA
Statistics
Matches: 230, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
84 55 0.24
85 4 0.02
86 36 0.16
87 5 0.02
88 42 0.18
89 11 0.05
91 77 0.33
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGCCGAGGTATTTTCAATTTTGT
Found at i:128616638 original size:84 final size:84
Alignment explanation
Indices: 128616402--128617397 Score: 447
Period size: 88 Copynumber: 11.8 Consensus size: 84
128616392 CGCTGAGCTA
*
128616402 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCT-TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
128616467 CACGCCGAGGTATTTTCAATTTCTGT
63 CACGCCGAGGTATTTT--ATTTC--T
* * *
128616493 TTTTCAATTTCTGTCTTTCAAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCT-TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
128616558 CACACTGAGGTATTTT-TTT-T
63 CACGCCGAGGTATTTTATTTCT
* * *
128616578 TACTTCAATTTATATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCAC
1 T-TTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
128616643 ACGCCGAGGTATTTTCAATTTCCAT
64 ACGCCGAGGTATTTT--ATTT-C-T
* * ** *
128616668 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACAC
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
**
128616731 GTTGAGG-----TA-----
66 GCCGAGGTATTTTATTTCT
** ** * * ** * **
128616740 TTTTCAATTTTGTTTTCAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTTGGCTCATGC
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* * *
128616805 GCTGAGCTATTTTCAATT-T
66 GCCGAGGTATTTT-ATTTCT
* *** *
128616824 TTGTC--TTTC----AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* * *
128616883 ACTGAGGTA-TTT-TTTCA
66 GCCGAGGTATTTTATTTCT
* * ** * * * *
128616900 ATTT--ATAT-TTTTTAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCACAT
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* * *
128616962 GTCGAGGTATTTTCAAAATCTGT
66 GCCGAGGTATTTT----ATTTCT
* * * ** * **
128616985 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* *
128617050 GCTGAGCTATTTTCAATTTCT
66 GCCGAGGTATTTT--ATTTCT
* *** * * **
128617071 GTTT---TTT-TTTTCAAAAAAATTCAACTCATATTG-GAGAGGTGAGTTGAGCTTTTTA-ATTT
1 TTTTCAATTTCTTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGATCA
* * * *
128617130 C-TG-CGAGAGTTGAGTTGA-GTC-
63 CACGCCGAG-G-T-ATTTTATTTCT
* * *
128617151 TTTT-AATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCCA-TTCAC
1 TTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCAC
*** **
128617214 ATATCGAGGTATTTTCAAAATCT
64 ACGCCGAGGTATTTT--ATTTCT
* * ** *
128617237 GCTTTTCAAGTTAC--GTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 --TTTTCAA-TTTCTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * *
128617300 ACGCGCTGAGCTATTTTCAATTTCT
62 ACACGCCGAGGTATTTT--ATTTCT
* * * * * * **
128617325 GTTTTTAATGTCTGTTTTT-AGAGAGTCAATTCATATTGCGAAAAATGAGTTGAG-CTCAGGATC
1 -TTTTCAATTTCT-TTTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATC
*
128617388 ACATGCCGAG
62 ACACGCCGAG
128617398 TAGAGAATAA
Statistics
Matches: 690, Mismatches: 152, Indels: 129
0.71 0.16 0.13
Matches are distributed among these distances:
72 45 0.07
74 7 0.01
75 2 0.00
76 4 0.01
77 3 0.00
78 47 0.07
79 52 0.08
80 7 0.01
81 6 0.01
82 36 0.05
83 35 0.05
84 90 0.13
85 13 0.02
86 33 0.05
87 19 0.03
88 195 0.28
89 14 0.02
90 5 0.01
91 77 0.11
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (84 bp):
TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
GCCGAGGTATTTTATTTCT
Found at i:128616787 original size:72 final size:74
Alignment explanation
Indices: 128616668--128616952 Score: 276
Period size: 72 Copynumber: 3.8 Consensus size: 74
128616658 CAATTTCCAT
* * **
128616668 TTTTCAA-TTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
128616731 GTTGAGGTA
66 GCTGAGGTA
* * ** *
128616740 TTTTCAA-TTT-TGTTTTCAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCT-TGGCTCA
1 TTTTCAATTTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACA
*
128616802 TGCGCTGAGCTA
65 --CGCTGAGGTA
*
128616814 TTTTCAATTTT-TGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
1 TTTTCAATTTTATGT-TTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-
* *
128616878 CACACACTGAGGTA
61 GACACGCTGAGGTA
* * *
128616892 TTTTTTCAATTTATATTTTTTAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTC
1 --TTTTCAATTT-TATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
128616953 GGGTCACATG
Statistics
Matches: 175, Mismatches: 23, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
71 8 0.05
72 44 0.25
74 15 0.09
75 6 0.03
76 4 0.02
78 43 0.25
79 37 0.21
80 12 0.07
81 4 0.02
82 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (74 bp):
TTTTCAATTTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTA
Found at i:128616990 original size:14 final size:13
Alignment explanation
Indices: 128616971--128617006 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
128616961 TGTCGAGGTA
128616971 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
128616984 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
128616998 TTTTCAAAA
1 TTTTCAAAA
128617007 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:128616990 original size:157 final size:150
Alignment explanation
Indices: 128616686--128616992 Score: 339
Period size: 157 Copynumber: 2.0 Consensus size: 150
128616676 TTCTGTTTTC
* * **
128616686 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTT
* * * *
128616751 GTTTTCAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATT
66 GTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTGGGCACATGCGCTGAGCTATT
** *
128616816 TTCAATTTTTGTCTTTCAAA
131 TTCAAAATCTGTCTTTCAAA
** *
128616836 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTGAGGTA--TTTTCAA
* * * *
128616901 TTTATATTTTTTAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TC
62 -TT-T-TGTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT-GGG-CACATGCGC
* *
128616965 -GAGGTATTTTCAAAATCTGTTTTTCAAA
122 TGAGCTATTTTCAAAATCTGTCTTTCAAA
128616993 TTCTGTTTTC
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
150 35 0.27
151 1 0.01
152 11 0.09
154 7 0.05
155 2 0.02
156 1 0.01
157 63 0.49
158 3 0.02
159 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (150 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTT
GTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTGGGCACATGCGCTGAGCTATT
TTCAAAATCTGTCTTTCAAA
Found at i:128617144 original size:30 final size:30
Alignment explanation
Indices: 128617104--128617162 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
128617094 ACTCATATTG
128617104 GAGAGGTGAGTTGAG-CTTTTTAATTTCTGC
1 GAGAGGTGAGTTGAGTC-TTTTAATTTCTGC
*
128617134 GAGAGTTGAGTTGAGTCTTTTAATTTCTG
1 GAGAGGTGAGTTGAGTCTTTTAATTTCTG
128617163 TTTTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.42
Consensus pattern (30 bp):
GAGAGGTGAGTTGAGTCTTTTAATTTCTGC
Found at i:128617236 original size:254 final size:251
Alignment explanation
Indices: 128616740--128617330 Score: 751
Period size: 254 Copynumber: 2.4 Consensus size: 251
128616730 CGTTGAGGTA
* * * *
128616740 TTTTC-AATTTTGTTTTCAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTTGGCTCATG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
128616804 CGCTGAGCTATTTTCAA----T-TTTTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
* *
128616864 GTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTTAAAAAAATCAACTCAT
131 GTTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATAGTTTTTAAAAAAATCAACTCAT
* * ** * *
128616929 ATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
196 ATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
128616985 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* * *
128617049 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTG-GAGAGGTGA
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
* * * * * * *
128617113 GTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCT-GTTTTT-CAAAAA
131 GTTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATAGTTTTTAAAAAAA
* *
128617174 TCAACTTATATTGCGAGAGGTGAGTTGAACCTCCATTCACATATCGAGGTATTTTCAAAATCTGC
187 TCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
128617239 TTTTCAAGTTAC-G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAAATT-CTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
128617302 GCGCTGAGCTATTTTCAATTTCTGTTTTT
65 GCGCTGAGCTATTTTCAATTTCTGTTTTT
128617331 AATGTCTGTT
Statistics
Matches: 300, Mismatches: 29, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
245 63 0.21
246 11 0.04
249 17 0.06
250 30 0.10
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.49
255 11 0.04
256 7 0.02
257 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (251 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATAGTTTTTAAAAAAATCAACTCAT
ATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:128618058 original size:26 final size:25
Alignment explanation
Indices: 128617986--128618063 Score: 115
Period size: 25 Copynumber: 3.2 Consensus size: 25
128617976 AGCCCTCCCC
128617986 AAAA-AAAAACCTAA-CCAAAAAAA
1 AAAAGAAAAACCTAACCCAAAAAAA
128618009 AAAAGAAAAAACCTAACCCAAAAAAA
1 AAAAG-AAAAACCTAACCCAAAAAAA
**
128618035 AAAAGAAAAACCTAACCCCCAAAAA
1 AAAAGAAAAACCTAACCCAAAAAAA
128618060 AAAA
1 AAAA
128618064 CCACGAAACC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.08
25 32 0.64
26 14 0.28
ACGTcount: A:0.73, C:0.21, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAACCTAACCCAAAAAAA
Found at i:128618878 original size:37 final size:37
Alignment explanation
Indices: 128618836--128618935 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
128618826 CTAATATTTT
128618836 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
128618873 CTTTTATTATATGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
128618914 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
128618936 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:128624937 original size:26 final size:26
Alignment explanation
Indices: 128624908--128625015 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
128624898 TGATACAAAT
128624908 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
128624934 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
128624960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
128624986 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
128625012 TGAT
1 TGAT
128625016 GGAAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:128638255 original size:17 final size:18
Alignment explanation
Indices: 128638233--128638269 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
128638223 TAAAAAGTTG
128638233 AAATAAA-ATCTAAT-TTA
1 AAATAAATA-CTAATATTA
128638250 AAATAAATACTAATATTA
1 AAATAAATACTAATATTA
128638268 AA
1 AA
128638270 TGTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATACTAATATTA
Found at i:128638710 original size:25 final size:25
Alignment explanation
Indices: 128638676--128638724 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
128638666 GAGTCCATTA
*
128638676 TTAAATTATAA-AAATATTCATTATT
1 TTAAACTATAATAAATATT-ATTATT
*
128638701 TTAAACTATAATTAATATTATTAT
1 TTAAACTATAATAAATATTATTAT
128638725 GACAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAAACTATAATAAATATTATTATT
Found at i:128653340 original size:16 final size:15
Alignment explanation
Indices: 128653317--128653346 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
128653307 TGGTATAGTA
128653317 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
128653332 AAATAATTAAAAAAA
1 AAAT-ATTAAAAAAA
128653347 AACACATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:128656135 original size:2 final size:2
Alignment explanation
Indices: 128656126--128656158 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
128656116 AAATATTTTT
128656126 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
128656159 GTTTTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:128656455 original size:20 final size:20
Alignment explanation
Indices: 128656427--128656464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
128656417 AAAAATTGAT
*
128656427 ATATATTTTTTTTATTTTAA
1 ATATATTTTTTATATTTTAA
*
128656447 ATATTTTTTTTATATTTT
1 ATATATTTTTTATATTTT
128656465 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATATATTTTTTATATTTTAA
Found at i:128656470 original size:27 final size:28
Alignment explanation
Indices: 128656434--128656486 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
128656424 GATATATATT
128656434 TTTTTTATTTTAAATATTTT-TTTTATA
1 TTTTTTATTTTAAATATTTTATTTTATA
128656461 TTTTTTATTTTAAATATTTTATTTTA
1 TTTTTTATTTTAAATATTTTATTTTA
128656487 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTTATTTTAAATATTTTATTTTATA
Found at i:128656471 original size:14 final size:14
Alignment explanation
Indices: 128656436--128656488 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
128656426 TATATATTTT
128656436 TTTTATTTTAAATA
1 TTTTATTTTAAATA
* *
128656450 TTTT-TTTTATATT
1 TTTTATTTTAAATA
128656463 TTTTATTTTAAATA
1 TTTTATTTTAAATA
128656477 TTTTATTTTAAA
1 TTTTATTTTAAA
128656489 AATTGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.32
14 23 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTTAAATA
Found at i:128657523 original size:19 final size:19
Alignment explanation
Indices: 128657496--128657536 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
128657486 AGAAATATTA
*
128657496 TAAAGAACCCTAAAAAAGG
1 TAAAGAACCCCAAAAAAGG
*
128657515 TAAATAACCCCAAAAAAGG
1 TAAAGAACCCCAAAAAAGG
128657534 TAA
1 TAA
128657537 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (19 bp):
TAAAGAACCCCAAAAAAGG
Found at i:128658605 original size:17 final size:17
Alignment explanation
Indices: 128658584--128658615 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
128658574 ATTTAAAAGT
128658584 TTTTTTTAAA-AAATAA
1 TTTTTTTAAAGAAATAA
128658600 TTTTTTTAAAGAAATA
1 TTTTTTTAAAGAAATA
128658616 TTTATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTTTTAAAGAAATAA
Found at i:128661878 original size:5 final size:6
Alignment explanation
Indices: 128661861--128661886 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
128661851 TTTTAAACGA
128661861 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
128661887 CATAAATAGA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:128662768 original size:2 final size:2
Alignment explanation
Indices: 128662761--128662798 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
128662751 TGATCAGAAC
128662761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128662799 GCACATATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128666121 original size:17 final size:17
Alignment explanation
Indices: 128666091--128666124 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
128666081 TTGGGTTATT
128666091 ATATAATAAAATATAAA
1 ATATAATAAAATATAAA
128666108 ATAT-ATAAATATATAAA
1 ATATAATAAA-ATATAAA
128666125 TTATTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAATAAAATATAAA
Found at i:128687790 original size:14 final size:13
Alignment explanation
Indices: 128687769--128687831 Score: 58
Period size: 14 Copynumber: 4.7 Consensus size: 13
128687759 AAATGATAAC
128687769 AATAAATAATTAA
1 AATAAATAATTAA
*
128687782 AATATAATATTTTAA
1 AATA-AATA-ATTAA
128687797 ACATAAATAATTAA
1 A-ATAAATAATTAA
128687811 AAT--ATAATCTAA
1 AATAAATAAT-TAA
*
128687823 AACAAATAA
1 AATAAATAA
128687832 AAGTAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 6 0.15
14 13 0.32
15 9 0.22
16 3 0.07
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATAATTAA
Found at i:128687796 original size:15 final size:14
Alignment explanation
Indices: 128687769--128687818 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
128687759 AAATGATAAC
128687769 AATA-AATAATTAA
1 AATATAATAATTAA
*
128687782 AATATAATATTTTAA
1 AATATAATA-ATTAA
128687797 ACATA-AATAATTAA
1 A-ATATAATAATTAA
128687811 AATATAAT
1 AATATAAT
128687819 CTAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 12 0.39
15 9 0.29
16 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAATAATTAA
Found at i:128687831 original size:29 final size:30
Alignment explanation
Indices: 128687766--128687832 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
128687756 ATAAAATGAT
* *
128687766 AACAATAAATAATTAAAATATAATATTTTA
1 AACAATAAATAATTAAAATATAATATCTAA
128687796 AAC-ATAAATAATTAAAATAT-A-ATCTAA
1 AACAATAAATAATTAAAATATAATATCTAA
128687823 AACAAATAAA
1 AAC-AATAAA
128687833 AGTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 22 0.67
30 3 0.09
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (30 bp):
AACAATAAATAATTAAAATATAATATCTAA
Found at i:128693120 original size:18 final size:19
Alignment explanation
Indices: 128693097--128693139 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
128693087 AAGAAAAAAC
128693097 TTTTTTAACTTTTA-AATA
1 TTTTTTAACTTTTAGAATA
* *
128693115 TTTTTTTATTTTTAGAATA
1 TTTTTTAACTTTTAGAATA
128693134 TATTTT
1 T-TTTT
128693140 GATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 5 0.24
20 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTAACTTTTAGAATA
Found at i:128693133 original size:19 final size:18
Alignment explanation
Indices: 128693106--128693144 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
128693096 CTTTTTTAAC
* *
128693106 TTTTAAATATTTTTTTAT
1 TTTTAAATATATTTTGAT
128693124 TTTTAGAATATATTTTGAT
1 TTTTA-AATATATTTTGAT
128693143 TT
1 TT
128693145 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTAAATATATTTTGAT
Found at i:128694833 original size:23 final size:22
Alignment explanation
Indices: 128694798--128694844 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
128694788 CATCGAAAAA
128694798 TTCACCCTATAATCTTACATGTT
1 TTCACCCTATAATCTTACAT-TT
* *
128694821 TTCACTCTGTAATCTTACATTT
1 TTCACCCTATAATCTTACATTT
128694843 TT
1 TT
128694845 ATAATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.49
Consensus pattern (22 bp):
TTCACCCTATAATCTTACATTT
Found at i:128695171 original size:23 final size:23
Alignment explanation
Indices: 128695132--128695179 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
128695122 TTATTTTTTA
128695132 TTTATTTTTAAGATATA-ATTATT
1 TTTATTTTTAAGATATATA-TATT
*
128695155 TTTATTTATTAA-TTATATATATT
1 TTTATTT-TTAAGATATATATATT
128695178 TT
1 TT
128695180 ACTACCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTAAGATATATATATT
Found at i:128696091 original size:24 final size:22
Alignment explanation
Indices: 128696038--128696092 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
128696028 AACTACTCAT
*
128696038 AATTAGAAGAATAATAAAAGAA
1 AATTAAAAGAATAATAAAAGAA
**
128696060 AAAGAAAAGAAATAACTAAAAGAA
1 AATTAAAAG-AATAA-TAAAAGAA
128696084 AATTAAAAG
1 AATTAAAAG
128696093 TAAAGGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 6 0.23
23 5 0.19
24 15 0.58
ACGTcount: A:0.71, C:0.02, G:0.13, T:0.15
Consensus pattern (22 bp):
AATTAAAAGAATAATAAAAGAA
Found at i:128696429 original size:11 final size:11
Alignment explanation
Indices: 128696400--128696467 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
128696390 ATTTTGATTT
*
128696400 TTTTAAAAATTT
1 TTTTAAAAA-TA
*
128696412 TTCTTAATAATA
1 TT-TTAAAAATA
128696424 TTTTAAAAATA
1 TTTTAAAAATA
* *
128696435 TTTTAGAATTA
1 TTTTAAAAATA
*
128696446 TTATTAAAAAAA
1 TT-TTAAAAATA
128696458 TTTTTAAAAA
1 -TTTTAAAAA
128696468 AATCAAAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 19 0.42
12 18 0.40
13 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:128701447 original size:23 final size:24
Alignment explanation
Indices: 128701403--128701447 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
128701393 CAAACCCAAA
* **
128701403 TTTCACCACATGACAATGCAACTC
1 TTTCACCACATGAAAACCCAACTC
128701427 TTTC-CCACATGAAAACCCAAC
1 TTTCACCACATGAAAACCCAAC
128701448 ATTTCTGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.22
Consensus pattern (24 bp):
TTTCACCACATGAAAACCCAACTC
Found at i:128701905 original size:1 final size:1
Alignment explanation
Indices: 128701899--128701923 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
128701889 TACTAAACAT
128701899 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
128701924 GAGAGAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:128704467 original size:5 final size:6
Alignment explanation
Indices: 128704456--128704480 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
128704446 AGAAATAAAA
128704456 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
128704481 TTCATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:128708431 original size:12 final size:12
Alignment explanation
Indices: 128708416--128708444 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
128708406 ATATATTTAA
128708416 AAATATTAAAAT
1 AAATATTAAAAT
128708428 AAATATTAAAAT
1 AAATATTAAAAT
128708440 AAATA
1 AAATA
128708445 AAAATAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:128708431 original size:24 final size:24
Alignment explanation
Indices: 128708370--128708433 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
128708360 TTTCTTATTT
* *
128708370 TATT-AAATAAAAAAATTTAAAAA
1 TATTAAAATAAATATATTTAAAAA
*
128708393 TATAATAAATCAAATATATTTAAAAA
1 TATTA-AAAT-AAATATATTTAAAAA
128708419 TATTAAAATAAATAT
1 TATTAAAATAAATAT
128708434 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.09
24 6 0.18
25 8 0.24
26 17 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TATTAAAATAAATATATTTAAAAA
Done.