Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 148 of 373
Found at i:49075051 original size:53 final size:54
Alignment explanation
Indices: 49074922--49075175 Score: 283
Period size: 53 Copynumber: 4.8 Consensus size: 54
49074912 ACACGTGTAC
* * * * *
49074922 CTTACCATTGCTATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
49074971 CTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
49075024 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* *
49075079 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
49075132 CCTTACCAATTGCCATG-CTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
49075176 AAACCCTAAT
Statistics
Matches: 174, Mismatches: 20, Indels: 17
0.82 0.09 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 49 0.28
54 35 0.20
55 49 0.28
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:49083083 original size:27 final size:27
Alignment explanation
Indices: 49083053--49083207 Score: 199
Period size: 27 Copynumber: 5.7 Consensus size: 27
49083043 TATTAAAATG
*
49083053 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTGTTTTA
* *
49083080 CCCTCAATTTACAAAATTA-TCGTTTTA
1 CCCTCGATTTACAGAATTACT-GTTTTA
*
49083107 CCCTCGATTT-CTAGAATTACTATTTTA
1 CCCTCGATTTAC-AGAATTACTGTTTTA
*
49083134 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTGTTTTA
*
49083161 CCCTTGATTTACAGAATTA-TCGTTTTA
1 CCCTCGATTTACAGAATTACT-GTTTTA
*
49083188 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
49083208 CAAAATACCC
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
26 3 0.03
27 106 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACTGTTTTA
Found at i:49083206 original size:81 final size:81
Alignment explanation
Indices: 49083053--49083207 Score: 258
Period size: 81 Copynumber: 1.9 Consensus size: 81
49083043 TATTAAAATG
49083053 CCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTTC
1 CCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTTC
*
49083118 TAGAATTACTATTTTA
66 TAAAATTACTATTTTA
** *
49083134 CCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTT-
49083199 C-AAAATTAC
65 CTAAAATTAC
49083208 CAAAATACCC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 68 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTTC
TAAAATTACTATTTTA
Found at i:49083216 original size:27 final size:27
Alignment explanation
Indices: 49083186--49083369 Score: 187
Period size: 27 Copynumber: 6.8 Consensus size: 27
49083176 ATTATCGTTT
**
49083186 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
49083213 TACCCTCGATTAGGAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
49083240 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* *
49083267 TACCC-CTATTTTGTAAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
49083294 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
49083321 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
49083348 TACCC-CTGATTTACAAAATTAC
1 TACCCTC-GATTTGTAAAATTAC
49083370 AGAAGTACCC
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.03
27 128 0.96
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:49083217 original size:54 final size:54
Alignment explanation
Indices: 49083047--49083223 Score: 169
Period size: 54 Copynumber: 3.3 Consensus size: 54
49083037 ACCAATTATT
* * * *
49083047 AAAATGCCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATC
1 AAAATACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACC
**** * * * *
49083101 GTTTTACCCTCGATTT-CTAGAATTACTATTTTACCCTCGATTTATAGAATTACT
1 AAAATACCCTCGATTTAC-AGAATTACTGTTTTACCCTCGATTTACAAAATTACC
**** *
49083155 GTTTTACCCTTGATTTACAGAATTA-TCGTTTTACCCTCGATTTACAAAATTACC
1 AAAATACCCTCGATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACC
49083209 AAAATACCCTCGATT
1 AAAATACCCTCGATT
49083224 AGGAAAATTA
Statistics
Matches: 98, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 96 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
AAAATACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACC
Found at i:49083217 original size:81 final size:81
Alignment explanation
Indices: 49083047--49083223 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 81
49083037 ACCAATTATT
*
49083047 AAAATGCCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTC
1 AAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTC
* *
49083112 GATTTCTAGAATTACT
66 GATTTCTAAAATTACC
*** ** *
49083128 ATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTC
1 AAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTC
49083193 GATTTAC-AAAATTACC
66 GATTT-CTAAAATTACC
49083209 AAAATACCCTCGATT
1 AAAATACCCTCGATT
49083224 AGGAAAATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
AAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTC
GATTTCTAAAATTACC
Found at i:49083244 original size:54 final size:53
Alignment explanation
Indices: 49083186--49083462 Score: 200
Period size: 54 Copynumber: 5.1 Consensus size: 53
49083176 ATTATCGTTT
* * *
49083186 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTAGGAAAATTACCAAAA
1 TACCCT-GATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* ** * *
49083240 TACCCTTAGTTTGTAAAATTACCAAAATACCC-CTATTTTGTAAAATTACCGAAA
1 TACCCTGA-TTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
* *** *
49083294 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * *
49083348 TACCCCTGATTTACAAAATTA-CAGAAGTACCCTTACTTTCTAAAAATTA-TAGAAA
1 TA-CCCTGATTTACAAAATTACCA-AAATACCCTCAATTTGT-AAAATTACCA-AAA
* * ** *** * *
49083403 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACC-CTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
*
49083457 CACCCT
1 TACCCT
49083463 TGCAGGATGA
Statistics
Matches: 175, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
53 4 0.02
54 126 0.72
55 45 0.26
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:49083271 original size:81 final size:80
Alignment explanation
Indices: 49083186--49083369 Score: 228
Period size: 81 Copynumber: 2.3 Consensus size: 80
49083176 ATTATCGTTT
* *
49083186 TACCCTCGATTTACAAAATTACCAAAATACC-CTCGATTAG-GAAAATTACCAAAATACCCTTAG
1 TACCC-CGATTTACAAAATTACCAAAATACCACT-GATTAGTG-AAATTACCAAAATACCCTCAA
49083249 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* ** * * * *
49083267 TACCCCTATTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACCAAAATACCACTGATTAGTGAAATTACCAAAATACCCTCAATT
49083332 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
49083348 TACCCCTGATTTACAAAATTAC
1 TACCCC-GATTTACAAAATTAC
49083370 AGAAGTACCC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 2 0.02
81 81 0.93
82 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACCAAAATACCACTGATTAGTGAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:49083429 original size:27 final size:27
Alignment explanation
Indices: 49083390--49083441 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49083380 TTACTTTCTA
49083390 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
49083417 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
49083442 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:49083534 original size:27 final size:27
Alignment explanation
Indices: 49083495--49083559 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49083485 AGCCCTAATA
**
49083495 GGTAAAAAAACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCCTGTAG
* * *
49083522 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
49083549 GGTAAAATGAC
1 GGTAAAATGAC
49083560 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:49084406 original size:25 final size:24
Alignment explanation
Indices: 49084368--49084434 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
49084358 AGGAAGTGCT
*
49084368 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
49084392 GAAAAGGGCTTTGCCGCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
49084417 AGAAAGGGCTTTGCCCCA
1 A-AAAGGGCTTTGCCCCA
49084435 ATTATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:49084450 original size:24 final size:24
Alignment explanation
Indices: 49084368--49084450 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
49084358 AGGAAGTGCT
* * *
49084368 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGATTATC
* *
49084392 GAAAAGGGCTTTGCCGCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
49084417 AGAAAGGGCTTTGCCCCA-ATTATT
1 A-AAAGGGCTTTGCCCCAGATTATC
49084441 AAAAGAGGCT
1 AAAAG-GGCT
49084451 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 36 0.72
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:49084632 original size:42 final size:42
Alignment explanation
Indices: 49084585--49084676 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
49084575 TAGTCTCCCC
*
49084585 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCACTGACATTACATGTGATATTG
49084627 AAATGGGCTTGCATACATTCACTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCACTGACATTACATGTGATATTG
49084669 AAATGGGC
1 AAATGGGC
49084677 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCACTGACATTACATGTGATATTG
Found at i:49084735 original size:31 final size:31
Alignment explanation
Indices: 49084700--49084783 Score: 161
Period size: 31 Copynumber: 2.7 Consensus size: 31
49084690 CGTTTACAGT
49084700 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49084731 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49084762 AAAGGCTTCGGCCCAGTG-TATG
1 AAAGGCTTCGGCCCAGTGATATG
49084784 TCAAGACTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 4 0.08
31 49 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49085746 original size:16 final size:16
Alignment explanation
Indices: 49085727--49085757 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49085717 CTTCTTCACT
49085727 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49085743 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49085758 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49085763 original size:20 final size:20
Alignment explanation
Indices: 49085724--49085763 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49085714 AAACTTCTTC
* *
49085724 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49085744 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49085764 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49086140 original size:55 final size:55
Alignment explanation
Indices: 49085950--49086204 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 55
49085940 ACACGGGTAC
* * * *
49085950 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * **
49085999 CTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
49086052 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* ** *
49086107 CTTATCAATGCCATGTATTGACATGGTCTTACATGATATCCTTGCC-T-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* *
49086160 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49086205 AAATCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 50 0.29
54 11 0.06
55 68 0.40
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (55 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:49086141 original size:108 final size:110
Alignment explanation
Indices: 49085995--49086197 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
49085985 GTATCCTTTT
* * *
49085995 GAAACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTATCAACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
49086058 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* ** *
49086103 GAAACTTATCAATGCCATGTATTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTATCAACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
*
49086168 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
49086198 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTATCAACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:49093236 original size:12 final size:12
Alignment explanation
Indices: 49093219--49093248 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
49093209 CTGAAGTCAA
49093219 AATATTTATTTT
1 AATATTTATTTT
49093231 AATA-TTATTTT
1 AATATTTATTTT
49093242 AATATTT
1 AATATTT
49093249 TGAGCATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:49098627 original size:31 final size:32
Alignment explanation
Indices: 49098589--49098653 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
49098579 CAGTATAATA
* *
49098589 GGCCCACATGCCC-ATGGGGCCTACCCGTGTG
1 GGCCCACACGCCCAATGGGCCCTACCCGTGTG
*
49098620 GGCCCACACGCCCAGATTGGCCCTACCCGTGTG
1 GGCCCACACGCCCA-ATGGGCCCTACCCGTGTG
49098653 G
1 G
49098654 ATTACACAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 12 0.41
33 17 0.59
ACGTcount: A:0.14, C:0.40, G:0.31, T:0.15
Consensus pattern (32 bp):
GGCCCACACGCCCAATGGGCCCTACCCGTGTG
Found at i:49105826 original size:18 final size:17
Alignment explanation
Indices: 49105789--49105827 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49105779 TGCCCGTGTG
*
49105789 GGCCCACACGCCCATGT
1 GGCCCACACGCCAATGT
*
49105806 GGCCCACACGTCCAATTT
1 GGCCCACACG-CCAATGT
49105824 GGCC
1 GGCC
49105828 AAGCCGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
GGCCCACACGCCAATGT
Found at i:49109905 original size:35 final size:35
Alignment explanation
Indices: 49109866--49109969 Score: 136
Period size: 35 Copynumber: 2.9 Consensus size: 35
49109856 TGGCTACATG
*
49109866 TGATGTTTTATTGAACTTGTATATTCGGCCATATA
1 TGATGATTTATTGAACTTGTATATTCGGCCATATA
* *
49109901 TGATGATTTATTGAACTTGTATATTCGGCAATATG
1 TGATGATTTATTGAACTTGTATATTCGGCCATATA
* * * *
49109936 TGATGATATAATGAACCTTGTGTATTTGGCCATA
1 TGATGATTTATTGAA-CTTGTATATTCGGCCATA
49109970 CAAGTAAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 45 0.75
36 15 0.25
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (35 bp):
TGATGATTTATTGAACTTGTATATTCGGCCATATA
Found at i:49115574 original size:21 final size:20
Alignment explanation
Indices: 49115550--49115589 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49115540 TATGAGCTTT
49115550 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
* *
49115571 AATGTTTGATTATAGTTAT
1 AATGATTGATGATAGTTAT
49115590 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:49119635 original size:34 final size:35
Alignment explanation
Indices: 49119586--49119673 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 35
49119576 AATATGCACA
*
49119586 TTCAAAATAACTTCACATAAAACCGAATATAT-AAG
1 TTCAATATAACTTCACATAAAACCGAATA-ATCAAG
** *
49119621 TTCAATATAA-TTCACATGTAATCGAATAATCAAG
1 TTCAATATAACTTCACATAAAACCGAATAATCAAG
49119655 TTCAATATAAGCTT-ACATA
1 TTCAATATAA-CTTCACATA
49119674 TACTTACCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 2 0.04
34 28 0.62
35 13 0.29
36 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCGAATAATCAAG
Found at i:49124120 original size:40 final size:40
Alignment explanation
Indices: 49124076--49124196 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 40
49124066 TAAATTCCAA
* *
49124076 ATATAGCCAAAGCTATTCTAATTCACACACTAAGTGCTTT
1 ATATAGCCGAAGCTATACTAATTCACACACTAAGTGCTTT
** * * *
49124116 ATATAATCGAAGCTATACTGATTCGCACACTAAGTGTTTT
1 ATATAGCCGAAGCTATACTAATTCACACACTAAGTGCTTT
** *
49124156 ATATAGCCGAAGCTATACCGATT-AGCACACTAAGTGTTTT
1 ATATAGCCGAAGCTATACTAATTCA-CACACTAAGTGCTTT
49124196 A
1 A
49124197 CATAATCGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (40 bp):
ATATAGCCGAAGCTATACTAATTCACACACTAAGTGCTTT
Found at i:49125396 original size:19 final size:19
Alignment explanation
Indices: 49125374--49125410 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49125364 TTGTAGGAGA
49125374 TTTGCACTTCGATGCCCTG
1 TTTGCACTTCGATGCCCTG
*
49125393 TTTGCACTTCGGTGCCCT
1 TTTGCACTTCGATGCCCT
49125411 TGTATACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.32, G:0.22, T:0.38
Consensus pattern (19 bp):
TTTGCACTTCGATGCCCTG
Found at i:49125422 original size:20 final size:19
Alignment explanation
Indices: 49125378--49125422 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
49125368 AGGAGATTTG
* *
49125378 CACTTCGATGCCCTGTTTG
1 CACTTCGATGCCCTGTATA
*
49125397 CACTTCGGTGCCCTTGTATA
1 CACTTCGATGCCC-TGTATA
49125417 CACTTC
1 CACTTC
49125423 CGTGTCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (19 bp):
CACTTCGATGCCCTGTATA
Found at i:49140280 original size:30 final size:30
Alignment explanation
Indices: 49140246--49140306 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49140236 TTCTCGAGCC
49140246 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
49140276 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
49140306 T
1 T
49140307 GAGTTAAGGA
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:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:49141100 original size:64 final size:63
Alignment explanation
Indices: 49141020--49141203 Score: 181
Period size: 67 Copynumber: 2.8 Consensus size: 63
49141010 AGACATTATG
* * *
49141020 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTAAACCATGTAAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTAAACCATGTAAACAAGAGAGCTACGAGATAA
* * * * *
49141084 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTA--A-ACCATGTAAACAAGAGAGCTACGAGAT
49141149 AA
62 AA
* * ** **
49141151 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGTGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTAAACCATGTAAACAAGAGAGC
49141204 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
63 17 0.18
64 28 0.29
66 23 0.24
67 29 0.30
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTAAACCATGTAAACAAGAGAGCTACGAGATAA
Found at i:49144619 original size:29 final size:28
Alignment explanation
Indices: 49144578--49144664 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
49144568 GAATATGAAT
* *
49144578 GTGACTGGGCCTAACGGGCCATATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
*
49144606 GTGATTTGGGCCTAATGGGCCATAT-CAAT
1 GTGA-TTGGGCCTAATGGGCCATATAC-AG
* * *
49144635 ATGATTGGGCTTAATGGGCCAGATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
49144663 GT
1 GT
49144665 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATACAG
Found at i:49148407 original size:47 final size:47
Alignment explanation
Indices: 49148350--49148700 Score: 477
Period size: 47 Copynumber: 7.4 Consensus size: 47
49148340 ATTGATGTAC
*
49148350 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
49148397 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
49148446 AAGTATATATATATGTGATAGGGCCTAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
49148495 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
49148542 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * * * * *
49148589 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTAATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
49148636 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
*
49148683 AAGTGTATAAATGTGATA
1 AAGTGTATATATGTGATA
49148701 AGTCCCGAAG
Statistics
Matches: 281, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 187 0.67
49 94 0.33
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
Found at i:49155379 original size:14 final size:14
Alignment explanation
Indices: 49155360--49155387 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49155350 TAGGCTTAGA
49155360 GTTGGCCATCGTCT
1 GTTGGCCATCGTCT
49155374 GTTGGCCATCGTCT
1 GTTGGCCATCGTCT
49155388 ATTGACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.29, T:0.36
Consensus pattern (14 bp):
GTTGGCCATCGTCT
Found at i:49158329 original size:23 final size:25
Alignment explanation
Indices: 49158284--49158332 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
49158274 ATTTTATTAA
49158284 TTTATTATTTTGGCTTTATTTTCATT
1 TTTATTATTTTGGC-TTATTTTCATT
*
49158310 TTTATTATTTTTG-TTA-TTTCATT
1 TTTATTATTTTGGCTTATTTTCATT
49158333 AATTTCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
26 12 0.55
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (25 bp):
TTTATTATTTTGGCTTATTTTCATT
Found at i:49167811 original size:20 final size:20
Alignment explanation
Indices: 49167788--49167845 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
49167778 TAGCTTGTCC
*
49167788 AGCTCACAACCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
** *
49167808 AGCTCAGTTCTAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
49167828 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
49167846 TTCTAGCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:49177450 original size:10 final size:10
Alignment explanation
Indices: 49177435--49177465 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
49177425 ACATGAAAAT
49177435 ATTCAGTATG
1 ATTCAGTATG
49177445 ATTCAGTATG
1 ATTCAGTATG
49177455 ATTCAGTATG
1 ATTCAGTATG
49177465 A
1 A
49177466 ATAGTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (10 bp):
ATTCAGTATG
Found at i:49180890 original size:15 final size:14
Alignment explanation
Indices: 49180868--49180913 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
49180858 ATATTAAATG
*
49180868 TTAATTTTTAATTT
1 TTAAATTTTAATTT
49180882 TTAAATTTTAATTT
1 TTAAATTTTAATTT
*
49180896 TT---TTATAATTT
1 TTAAATTTTAATTT
49180907 TTAAATT
1 TTAAATT
49180914 ATCATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 10 0.37
14 17 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAAATTTTAATTT
Found at i:49180907 original size:8 final size:7
Alignment explanation
Indices: 49180868--49180897 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
49180858 ATATTAAATG
49180868 TTAATTT
1 TTAATTT
49180875 TTAATTT
1 TTAATTT
*
49180882 TTAAATT
1 TTAATTT
49180889 TTAATTT
1 TTAATTT
49180896 TT
1 TT
49180898 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:49182525 original size:41 final size:40
Alignment explanation
Indices: 49182444--49182576 Score: 124
Period size: 39 Copynumber: 3.3 Consensus size: 40
49182434 GGTGTACTTA
* * *** **
49182444 TAGCGGCGTTTTTAAAAAAGCGCCGCTAAAAATCAATCTT
1 TAGCGGCTTTTTTCAAAAAGCGCCGCTAATGCTCGTTCTT
** *
49182484 TAGCGGCATTTTTTTGAAAAGCGCCGCTGATGCTCGTTCTT
1 TAGCGGC-TTTTTTCAAAAAGCGCCGCTAATGCTCGTTCTT
* * *
49182525 TAGCGGC-GTTTTCAAAAAGTGTCGCTAATGCTCGTTCTT
1 TAGCGGCTTTTTTCAAAAAGCGCCGCTAATGCTCGTTCTT
*
49182564 TAGCGGCGTTTTT
1 TAGCGGCTTTTTT
49182577 ATTAAAAAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 33 0.44
40 11 0.15
41 31 0.41
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (40 bp):
TAGCGGCTTTTTTCAAAAAGCGCCGCTAATGCTCGTTCTT
Found at i:49184412 original size:23 final size:23
Alignment explanation
Indices: 49184386--49184462 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
49184376 TTAAATAATA
*
49184386 TATTTTGAATAAATTTCTACATT
1 TATTTTGAATAAATTTATACATT
* *
49184409 TATTTATTAGCAAAAAAATTATACATT
1 TA-TT-TT-G-AATAAATTTATACATT
* * *
49184436 TATTTTAAATAAATTTATTCTTT
1 TATTTTGAATAAATTTATACATT
49184459 TATT
1 TATT
49184463 AAATAGTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
23 18 0.43
24 2 0.05
25 4 0.10
26 3 0.07
27 15 0.36
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (23 bp):
TATTTTGAATAAATTTATACATT
Found at i:49186979 original size:32 final size:32
Alignment explanation
Indices: 49186943--49187006 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
49186933 GCCCATGCCT
*
49186943 AAATTTTAGAATTTGTTGATGATTTTGTGATA
1 AAATTTCAGAATTTGTTGATGATTTTGTGATA
49186975 AAATTTCAGAATTTGTTGATGATTTTGTGATA
1 AAATTTCAGAATTTGTTGATGATTTTGTGATA
49187007 TTCCATTGTT
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:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (32 bp):
AAATTTCAGAATTTGTTGATGATTTTGTGATA
Found at i:49187742 original size:42 final size:43
Alignment explanation
Indices: 49187678--49187776 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
49187668 AATTTGAGAT
* *
49187678 TTACGTGTAAGACCAC-GTCTGGGACA-TCGGCATCG-TAATTGA
1 TTACATGTAAGACC-CTATCTGGGACAGT-GGCATCGATAATTGA
* * *
49187720 TTTCATGTAAGACCCTATCTGGGACAGTGGCATTGATATTTGA
1 TTACATGTAAGACCCTATCTGGGACAGTGGCATCGATAATTGA
49187763 TTACATGTAAGACC
1 TTACATGTAAGACC
49187777 ACATATGGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.56
43 20 0.42
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCCTATCTGGGACAGTGGCATCGATAATTGA
Found at i:49187786 original size:43 final size:43
Alignment explanation
Indices: 49187641--49187797 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
49187631 GAATTCCGTA
* *
49187641 TAAGACCACATCTGGGACATTGGCA-TCA-ATTTGAGATTTACGTG
1 TAAGACCACATCTGGGACATTGGCATTGATATTT--GA-TTACATG
* * * * *
49187685 TAAGACCACGTCTGGGACATCGGCATCG-TAATTGATTTCATG
1 TAAGACCACATCTGGGACATTGGCATTGATATTTGATTACATG
*
49187727 TAAGACC-CTATCTGGGACAGTGGCATTGATATTTGATTACATG
1 TAAGACCAC-ATCTGGGACATTGGCATTGATATTTGATTACATG
* *
49187770 TAAGACCACATATGGGACTTTGGCATTG
1 TAAGACCACATCTGGGACATTGGCATTG
49187798 TACGAGCTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 37 0.40
44 24 0.26
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TAAGACCACATCTGGGACATTGGCATTGATATTTGATTACATG
Found at i:49189023 original size:41 final size:41
Alignment explanation
Indices: 49188946--49189024 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
49188936 CTAGAAACAA
**
49188946 GGGCATGTCTAATGCCATGTGGGCACACGGTTTATTCATAC
1 GGGCATGTCTAATGCCATGTGGGCACACGGCCTATTCATAC
* * *
49188987 GGGCGTGTCTAATGCCGTGTGGGCACATGGCCTATTCA
1 GGGCATGTCTAATGCCATGTGGGCACACGGCCTATTCA
49189025 CCCAGGCGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGCATGTCTAATGCCATGTGGGCACACGGCCTATTCATAC
Found at i:49189033 original size:41 final size:41
Alignment explanation
Indices: 49188951--49189035 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
49188941 AACAAGGGCA
** * *
49188951 TGTCTAATGCCATGTGGGCACACGGTTTATTCATACGGGCG
1 TGTCTAATGCCATGTGGGCACACGGCCTATTCACACAGGCG
* * *
49188992 TGTCTAATGCCGTGTGGGCACATGGCCTATTCACCCAGGCG
1 TGTCTAATGCCATGTGGGCACACGGCCTATTCACACAGGCG
49189033 TGT
1 TGT
49189036 GACCTTTGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (41 bp):
TGTCTAATGCCATGTGGGCACACGGCCTATTCACACAGGCG
Found at i:49192013 original size:12 final size:12
Alignment explanation
Indices: 49191996--49192020 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49191986 ATTTTATAAC
49191996 ATAAATATTGTT
1 ATAAATATTGTT
49192008 ATAAATATTGTT
1 ATAAATATTGTT
49192020 A
1 A
49192021 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:49193992 original size:11 final size:11
Alignment explanation
Indices: 49193976--49194027 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
49193966 ATTTTTATTT
49193976 ATTTATTTTAA
1 ATTTATTTTAA
49193987 ATTTATTTTTTATGA
1 ATTTA--TTTTA--A
*
49194002 TTTTATTTTAA
1 ATTTATTTTAA
*
49194013 ATTGATTTTAA
1 ATTTATTTTAA
49194024 ATTT
1 ATTT
49194028 TAATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 18 0.55
13 10 0.30
15 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (11 bp):
ATTTATTTTAA
Found at i:49197606 original size:31 final size:31
Alignment explanation
Indices: 49197532--49197607 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
49197522 ACCTCAGGCT
* *
49197532 ACATTTTAGTTAATTACGTTATCGCATTGTA
1 ACATTTTAGTCACTTACGTTATCGCATTGTA
* * * *
49197563 ATATTTTAGTCACTTGCGTTATCGTATTTTA
1 ACATTTTAGTCACTTACGTTATCGCATTGTA
49197594 ACATTTTAGTCACT
1 ACATTTTAGTCACT
49197608 GAATTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (31 bp):
ACATTTTAGTCACTTACGTTATCGCATTGTA
Found at i:49201374 original size:43 final size:43
Alignment explanation
Indices: 49201326--49201411 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
49201316 TAAGCCGAAA
49201326 TACATTGAGCATCTTAGTCATAGGAGACCTTCACTCCTAATGG
1 TACATTGAGCATCTTAGTCATAGGAGACCTTCACTCCTAATGG
*
49201369 TACATTGAGCATCTTGGTCATAGGAGACCTTCACTCCTAATGG
1 TACATTGAGCATCTTAGTCATAGGAGACCTTCACTCCTAATGG
49201412 CAACGTTGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
TACATTGAGCATCTTAGTCATAGGAGACCTTCACTCCTAATGG
Found at i:49203049 original size:6 final size:6
Alignment explanation
Indices: 49203038--49203090 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
49203028 CACACACAGT
* * * *
49203038 CAGATA CAGATA CAGATA CAGATT CAGATT CAGATT CAGATT CAGATAA
1 CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGAT-A
49203087 CAGA
1 CAGA
49203091 AATAGATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 40 0.91
7 4 0.09
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (6 bp):
CAGATA
Found at i:49203059 original size:18 final size:18
Alignment explanation
Indices: 49203038--49203090 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
49203028 CACACACAGT
*
49203038 CAGATACAGATACAGATA
1 CAGATTCAGATACAGATA
* *
49203056 CAGATTCAGATTCAGATT
1 CAGATTCAGATACAGATA
49203074 CAGATTCAGATAACAGA
1 CAGATTCAGAT-ACAGA
49203091 AATAGATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (18 bp):
CAGATTCAGATACAGATA
Found at i:49211147 original size:16 final size:16
Alignment explanation
Indices: 49211128--49211167 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49211118 ATACAAAGGA
49211128 ATATATATATGTATAT
1 ATATATATATGTATAT
* *
49211144 ATATATGTGTGTATAT
1 ATATATATATGTATAT
49211160 ATATATAT
1 ATATATAT
49211168 GAATAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
ATATATATATGTATAT
Found at i:49212207 original size:6 final size:6
Alignment explanation
Indices: 49212198--49212250 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
49212188 TATATATATA
* *
49212198 AAAATC AAAATC AAAAT- AAAA-G AAAATC AAAAT- AAAA-G AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
49212242 AAAAT- AAAA
1 AAAATC AAAA
49212251 GAAACTAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 20 0.49
6 21 0.51
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:49212225 original size:16 final size:16
Alignment explanation
Indices: 49212204--49212254 Score: 102
Period size: 16 Copynumber: 3.2 Consensus size: 16
49212194 TATAAAAATC
49212204 AAAATCAAAATAAAAG
1 AAAATCAAAATAAAAG
49212220 AAAATCAAAATAAAAG
1 AAAATCAAAATAAAAG
49212236 AAAATCAAAATAAAAG
1 AAAATCAAAATAAAAG
49212252 AAA
1 AAA
49212255 CTAGATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATCAAAATAAAAG
Found at i:49212246 original size:22 final size:21
Alignment explanation
Indices: 49212198--49212239 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
49212188 TATATATATA
*
49212198 AAAATCAAAATCAAAATAAAAG
1 AAAATCAAAAT-AAAAGAAAAG
49212220 AAAATCAAAATAAAAGAAAA
1 AAAATCAAAATAAAAGAAAA
49212240 TCAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAATCAAAATAAAAGAAAAG
Found at i:49215047 original size:28 final size:26
Alignment explanation
Indices: 49215009--49215060 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 26
49214999 ATAAAAAATA
49215009 AAAATCATAAAATATTAATAAATTATTTT
1 AAAATCATAAAA-A-TAA-AAATTATTTT
49215038 AAAAT-ATAAAAATAAAAATTATT
1 AAAATCATAAAAATAAAAATTATT
49215061 AATAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 1 0.04
28 6 0.26
29 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATCATAAAAATAAAAATTATTTT
Found at i:49215049 original size:8 final size:8
Alignment explanation
Indices: 49215037--49215091 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
49215027 TAAATTATTT
49215037 TAAAA-TA
1 TAAAATTA
*
49215044 TAAAAATA
1 TAAAATTA
49215052 -AAAATTA
1 TAAAATTA
49215059 TTAATAATTTA
1 -TAA-AA-TTA
49215070 TAAAATTA
1 TAAAATTA
49215078 TAAAATTAA
1 TAAAATT-A
49215087 TAAAA
1 TAAAA
49215092 ATGCACCTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
7 11 0.27
8 12 0.29
9 10 0.24
10 5 0.12
11 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAATTA
Found at i:49215074 original size:19 final size:17
Alignment explanation
Indices: 49215052--49215091 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
49215042 TATAAAAATA
*
49215052 AAAATTATTAATAATTTAT
1 AAAATTA-TAA-AATTAAT
49215071 AAAATTATAAAATTAAT
1 AAAATTATAAAATTAAT
49215088 AAAA
1 AAAA
49215092 ATGCACCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATAAAATTAAT
Found at i:49215083 original size:33 final size:34
Alignment explanation
Indices: 49215015--49215082 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
49215005 AATAAAAATC
*
49215015 ATAAAATATTAATAAATTATTTTAAAATATAAAA
1 ATAAAATATTAATAAATAATTTTAAAATATAAAA
*
49215049 ATAAAA-ATT-ATTAATAATTTATAAAATTATAAAA
1 ATAAAATATTAATAAATAATTT-TAAAA-TATAAAA
49215083 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 9 0.30
33 8 0.27
34 13 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
ATAAAATATTAATAAATAATTTTAAAATATAAAA
Found at i:49215208 original size:18 final size:18
Alignment explanation
Indices: 49215187--49215261 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 18
49215177 AGTGCAAAAC
*
49215187 TATAAAAATTTTATAAAT
1 TATAAAAAATTTATAAAT
***
49215205 TATAAAAAAACAAT-AAT
1 TATAAAAAATTTATAAAT
* *
49215222 T-TAAAAAATATATACA-
1 TATAAAAAATTTATAAAT
49215238 TAT-AAAAATCTTATAAAT
1 TATAAAAAAT-TTATAAAT
49215256 TATAAA
1 TATAAA
49215262 CTCATTTCAC
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
16 16 0.38
17 11 0.26
18 13 0.31
19 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
TATAAAAAATTTATAAAT
Found at i:49215404 original size:20 final size:21
Alignment explanation
Indices: 49215379--49215428 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49215369 TTATTTTTTA
*
49215379 AATTTTTTGTGTC-ATATTTG
1 AATTTTTTATGTCAATATTTG
*
49215399 AATTTTTTATGTCAATATTTT
1 AATTTTTTATGTCAATATTTG
*
49215420 TATTTTTTA
1 AATTTTTTA
49215429 AAAAAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (21 bp):
AATTTTTTATGTCAATATTTG
Found at i:49216503 original size:4 final size:4
Alignment explanation
Indices: 49216494--49216520 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49216484 TTAGATTTCA
49216494 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
49216521 ATCTCACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:49222931 original size:26 final size:26
Alignment explanation
Indices: 49222900--49223007 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
49222890 TGAAATGCCC
*
49222900 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49222926 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
49222952 ATCATGGAATATTTTCCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49222978 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49223004 ATCA
1 ATCA
49223008 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49229964 original size:26 final size:26
Alignment explanation
Indices: 49229935--49230090 Score: 231
Period size: 26 Copynumber: 6.0 Consensus size: 26
49229925 ATGCCCATCG
*
49229935 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
49229961 TGGAACATTTATCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* * *
49229987 TGGAATATTTTCCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
49230013 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
** * *
49230039 TTTAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
49230065 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
49230091 ATTTGTACCA
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 113 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:49230008 original size:52 final size:52
Alignment explanation
Indices: 49229935--49230090 Score: 258
Period size: 52 Copynumber: 3.0 Consensus size: 52
49229925 ATGCCCATCG
* * *
49229935 TGGAACATTTACCTAAACCATTATCATGGAACATTTATCTAACCCATTATCA
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
*
49229987 TGGAATATTTTCCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
**
49230039 TTTAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
49230091 ATTTGTACCA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 97 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (52 bp):
TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
Found at i:49232578 original size:46 final size:46
Alignment explanation
Indices: 49232226--49232586 Score: 227
Period size: 45 Copynumber: 7.9 Consensus size: 46
49232216 TTGGCTTGAA
* * * *
49232226 GGAAATGATTAAGACCATAGTTGAAAAACACTATAGC-ACTAT-ACC
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-ATGACG
* * *
49232271 GGAAATAAATAAGACCATAGGTGAAAGACACTATAGC-ACTAT-ACCG
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-ATGA-CG
* * * *
49232317 GAAAATGAATAAAACCATAGTTGAAGGACACTATGGCAACATAAC-
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
* * * * * * *
49232362 AGAAACGAGTAAGACCATAGCTAAAAGACATTAT-G--ACATTACG
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
** * * * * * * * ** * *
49232405 ATTCAAACGAGTAAGACTATAGCTAAAAGACGCTATGACGTCACGA-T
1 --GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
** * ** *
49232452 TCAGATGTGTAAGACCATAGTTGAAAGATACTATGGCAACATGACG
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
* * * * *
49232498 TGAAATGAATAAGACCATGGTCGAAAGACACTATGGGAAGATGACG
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
*
49232544 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATG
49232587 CCTAAAATAA
Statistics
Matches: 247, Mismatches: 59, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
42 6 0.02
44 1 0.00
45 125 0.51
46 109 0.44
47 3 0.01
48 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (46 bp):
GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGACG
Found at i:49237112 original size:44 final size:44
Alignment explanation
Indices: 49237064--49237491 Score: 153
Period size: 44 Copynumber: 9.7 Consensus size: 44
49237054 ATAAAATCCA
*
49237064 CATCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTAC
1 CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGATAAGACTAC
* * * * * *
49237108 CATCTTTAGCCTGCCCCCTTGCTACCTCAAGG-AGATAAGGCTAG
1 CATCTTCAGTCTGCTCCCTTACTACCTC-AGGAAGATAAGACTAC
*** ** * * * ** *
49237152 TGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGTTTCGC
1 CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGATAAGACT-AC
* * * *
49237197 CATCTT-TGATCTGCTCCAC-TACTA-CTTAGGGAGATAAAATCTAC
1 CATCTTCAG-TCTGCTCC-CTTACTACCTCAGGAAGATAAGA-CTAC
* * * * * *
49237241 AATCTTTAGTTTGCTTCCTTACTACCTTAGGAAGATAAGGCTAC
1 CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGATAAGACTAC
* * * * *
49237285 AATCTTCAGCCTACTCCCTTGCTACCTCA--AAGAGTTAAGGCT--
1 CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGA--TAAGACTAC
* * * * *
49237327 CGTGGC-TAAGATCTGCTCCCCTGCTACCTC-GAGAAGATAAGATTCAC
1 CAT--CTTCAG-TCTGCTCCCTTACTACCTCAG-GAAGATAAGACT-AC
* * * * *
49237374 CATATT-TGATCTGCTCCAC-TACTATCTCAGGGAGATAAGATCTAT
1 CATCTTCAG-TCTGCTCC-CTTACTACCTCAGGAAGATAAGA-CTAC
* * * * *
49237419 AATCTTCAGTCTACTCTCTTGCTACCTCAAGAAGATAAGACTA-
1 CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGATAAGACTAC
* * * *
49237462 CACTCTTTAGCCTGCTTCCTTGCTACCTCA
1 CA-TCTTCAGTCTGCTCCCTTACTACCTCA
49237492 AAGAGATAAG
Statistics
Matches: 278, Mismatches: 79, Indels: 54
0.68 0.19 0.13
Matches are distributed among these distances:
42 5 0.02
43 7 0.03
44 169 0.61
45 85 0.31
46 10 0.04
47 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
CATCTTCAGTCTGCTCCCTTACTACCTCAGGAAGATAAGACTAC
Found at i:49237334 original size:177 final size:177
Alignment explanation
Indices: 49237033--49237551 Score: 718
Period size: 177 Copynumber: 2.9 Consensus size: 177
49237023 CTTCAGTTCA
* *
49237033 CTCCACTGCTACATTAGGGAGATAAAATCCAC-ATCTTCAGTCTGCTTCCTTACTACCTCAGGAA
1 CTCCACTACTAC-TTAGGGAGATAAAATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGGAA
* * *
49237097 GATAAGACTACCATCTTTAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGGCTAGTGGCTAAAAT
65 GATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACCTCAAAGAGATAAGGCTAGTGGCTAAAAT
* * * * *
49237162 CTGCTCCCTTGCTACCTCGGGAAGATAAGTTTCGCCATCTTTGATCTG
130 CTGCTCCCCTGCTACCTCGAGAAGATAAGATTCACCATATTTGATCTG
* * *
49237210 CTCCACTACTACTTAGGGAGATAAAATCTACAATCTTTAGTTTGCTTCCTTACTACCTTAGGAAG
1 CTCCACTACTACTTAGGGAGATAAAATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGGAAG
* * * * * *
49237275 ATAAGGCTACAATCTTCAGCCTACTCCCTTGCTACCTCAAAGAGTTAAGGCTCGTGGCTAAGATC
66 ATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACCTCAAAGAGATAAGGCTAGTGGCTAAAATC
49237340 TGCTCCCCTGCTACCTCGAGAAGATAAGATTCACCATATTTGATCTG
131 TGCTCCCCTGCTACCTCGAGAAGATAAGATTCACCATATTTGATCTG
* * * * * *
49237387 CTCCACTACTATCTCAGGGAGATAAGATCTATAATCTTCAGTCTAC-TCTCTTGCTACCTCAAGA
1 CTCCACTACTA-CTTAGGGAGATAAAATCTACAATCTTCAGTCTGCTTC-CTTACTACCTCAGGA
* * *
49237451 AGATAAGACTACACTCTTTAGCCTGCTTCCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAA
64 AGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACCTCAAAGAGATAAGGCTAGTGGCT-AAA
* *
49237516 ATCTGCTCCCCTGCTACCTTGCGAAGATAAGATTCA
128 ATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCA
49237552 TCGTCTGCAA
Statistics
Matches: 300, Mismatches: 38, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
176 18 0.06
177 152 0.51
178 94 0.31
179 36 0.12
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (177 bp):
CTCCACTACTACTTAGGGAGATAAAATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGGAAG
ATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACCTCAAAGAGATAAGGCTAGTGGCTAAAATC
TGCTCCCCTGCTACCTCGAGAAGATAAGATTCACCATATTTGATCTG
Found at i:49237455 original size:45 final size:44
Alignment explanation
Indices: 49237405--49237501 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
49237395 CTATCTCAGG
* *
49237405 GAGATAAGATCTATAATCTTCAGTCTAC-TCTCTTGCTACCTC-AA
1 GAGATAAGA-CTACAATCTTCAGCCTACTTC-CTTGCTACCTCAAA
* * *
49237449 GAAGATAAGACTACACTCTTTAGCCTGCTTCCTTGCTACCTCAAA
1 G-AGATAAGACTACAATCTTCAGCCTACTTCCTTGCTACCTCAAA
49237494 GAGATAAG
1 GAGATAAG
49237502 GCTGGTGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 32 0.71
45 13 0.29
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (44 bp):
GAGATAAGACTACAATCTTCAGCCTACTTCCTTGCTACCTCAAA
Found at i:49251940 original size:40 final size:40
Alignment explanation
Indices: 49251880--49252063 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
49251870 TATTCGAATG
*
49251880 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
49251920 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * * *
49251960 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
49252000 ATATCCGGGCTAAG-TCCCGAAGGAATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
49252040 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
49252064 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 116 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:49252013 original size:80 final size:80
Alignment explanation
Indices: 49251880--49252099 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 80
49251870 TATTCGAATG
* * * * *
49251880 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGA
* *
49251944 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
*
49251960 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGA
49252024 ATTTATGCTAGTGACC
65 ATTTATGCTAGTGACC
* * *
49252040 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
49252100 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 88 0.72
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGAA
TTTATGCTAGTGACC
Found at i:49268432 original size:22 final size:22
Alignment explanation
Indices: 49268404--49268448 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49268394 TAGTGTCTCA
49268404 TTCAATTGTTCCAATTATGTTC
1 TTCAATTGTTCCAATTATGTTC
49268426 TTCAATTGTTCCAATTATGTTC
1 TTCAATTGTTCCAATTATGTTC
49268448 T
1 T
49268449 AATAGTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (22 bp):
TTCAATTGTTCCAATTATGTTC
Found at i:49270110 original size:26 final size:26
Alignment explanation
Indices: 49270053--49270114 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
49270043 GAGGTTGTAG
*
49270053 ACTGAGCTCGCATGATGAGATCACAG
1 ACTGAGCTCGCATGATGAGATCACAA
* * * *
49270079 ATTGAGCTCTCATGATGGGATCGCAA
1 ACTGAGCTCGCATGATGAGATCACAA
49270105 ACTGAGCTCG
1 ACTGAGCTCG
49270115 TGGCTCGCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (26 bp):
ACTGAGCTCGCATGATGAGATCACAA
Found at i:49272361 original size:11 final size:11
Alignment explanation
Indices: 49272345--49272373 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
49272335 TGAGGTTAAA
49272345 TAAATTTAACC
1 TAAATTTAACC
49272356 TAAATTTAACC
1 TAAATTTAACC
49272367 TAAATTT
1 TAAATTT
49272374 CGACAGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTTAACC
Found at i:49273613 original size:38 final size:38
Alignment explanation
Indices: 49273562--49273639 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
49273552 AAAGCATATG
49273562 AGATAGGTACACAAAGCATATGGATGCACGTGTTGAAT
1 AGATAGGTACACAAAGCATATGGATGCACGTGTTGAAT
*
49273600 AGATAGGTACACAAGGCATATGGATGCACGTGTTGAAT
1 AGATAGGTACACAAAGCATATGGATGCACGTGTTGAAT
49273638 AG
1 AG
49273640 GATTGTAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (38 bp):
AGATAGGTACACAAAGCATATGGATGCACGTGTTGAAT
Found at i:49275971 original size:46 final size:45
Alignment explanation
Indices: 49275841--49275989 Score: 133
Period size: 46 Copynumber: 3.2 Consensus size: 45
49275831 ATGAGAGCCT
* *
49275841 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAGAC-GAGTGCTA
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGACATAG-GC-A
* * *
49275889 GTGTAAGACATGTCCAGGACATGTATTGGCCT-CGAGACATAAGGCA
1 GTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGACAT-AGGCA
* * *
49275935 GTGTAAGACATGTCTAGGACATGCATCAGCTACGAGATGATAGTCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA-CATAGGCA
49275981 GTGTAAGAC
1 GTGTAAGAC
49275990 CATATTGAGA
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
45 2 0.02
46 55 0.65
47 17 0.20
48 10 0.12
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACATAGGCA
Found at i:49277083 original size:21 final size:22
Alignment explanation
Indices: 49277043--49277084 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49277033 GCCAAATTGG
49277043 TCACACGGACATGTTGCCCCTC
1 TCACACGGACATGTTGCCCCTC
*
49277065 TCACACGGGCATG-TGCCCCT
1 TCACACGGACATGTTGCCCCT
49277085 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.17, C:0.40, G:0.21, T:0.21
Consensus pattern (22 bp):
TCACACGGACATGTTGCCCCTC
Found at i:49279954 original size:25 final size:26
Alignment explanation
Indices: 49279924--49279973 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
49279914 AGCTCTTACG
49279924 AGCTTTCTGAT-ATAGGCTCTTTGTA
1 AGCTTTCTGATAATAGGCTCTTTGTA
*
49279949 AGCTTTCTGATAATTGGCTCTTTGT
1 AGCTTTCTGATAATAGGCTCTTTGT
49279974 GAGTTTCCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (26 bp):
AGCTTTCTGATAATAGGCTCTTTGTA
Found at i:49280068 original size:24 final size:25
Alignment explanation
Indices: 49280022--49280070 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
49280012 TGGCTATCCA
*
49280022 GAGCTTCCCGTTACATGGCTCTTTGT
1 GAGCTTCCCGGTA-ATGGCTCTTTGT
*
49280048 GAGCTTCCCGGT-ATGGTTCTTTG
1 GAGCTTCCCGGTAATGGCTCTTTG
49280071 AGAACTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.10, C:0.24, G:0.27, T:0.39
Consensus pattern (25 bp):
GAGCTTCCCGGTAATGGCTCTTTGT
Found at i:49283747 original size:29 final size:28
Alignment explanation
Indices: 49283715--49283938 Score: 161
Period size: 29 Copynumber: 7.9 Consensus size: 28
49283705 GGGTATCGAT
49283715 TATGAAAAGGGATGGTGACGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
*
49283743 CTATGAAAAGGGATGGTGATGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* * * * * *
49283773 TATGAAAAGAGATAGCT-TCGGCTATCGA
1 TATGAAAAGGGAT-GGTGACGACCATCAA
* ** * *
49283801 TATG-AAAGGGATAGTTTC-AGCTATCGA
1 TATGAAAAGGGATGGTGACGA-CCATCAA
49283828 TCATGAAAAGGGATGGTGACGACCATCAA
1 T-ATGAAAAGGGATGGTGACGACCATCAA
* **
49283857 CTATGAAAAGGGATGGTGACAACCATCGGT
1 -TATGAAAAGGGATGGTGACGACCATC-AA
** *
49283887 TAATG-AAAGGGATGGT-TTGACCACCAA
1 T-ATGAAAAGGGATGGTGACGACCATCAA
* *
49283914 TATGAAAAGGGATGATTACGACCAT
1 TATGAAAAGGGATGGTGACGACCAT
49283939 TGTTTAGCAC
Statistics
Matches: 153, Mismatches: 30, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
26 4 0.03
27 28 0.18
28 18 0.12
29 94 0.61
30 9 0.06
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:49283813 original size:27 final size:28
Alignment explanation
Indices: 49283767--49283841 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
49283757 GGTGATGACC
* *
49283767 ATCGAATATGAAAAGAGATAGCTTCGGCT
1 ATCG-ATATGAAAAGGGATAGCTTCAGCT
*
49283796 ATCGATATG-AAAGGGATAGTTTCAGCT
1 ATCGATATGAAAAGGGATAGCTTCAGCT
49283823 ATCGATCATGAAAAGGGAT
1 ATCGAT-ATGAAAAGGGAT
49283842 GGTGACGACC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 21 0.51
28 8 0.20
29 12 0.29
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (28 bp):
ATCGATATGAAAAGGGATAGCTTCAGCT
Found at i:49283923 original size:114 final size:114
Alignment explanation
Indices: 49283708--49283926 Score: 298
Period size: 114 Copynumber: 1.9 Consensus size: 114
49283698 TAACTTTGGG
* **
49283708 TATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
1 TATCGATCATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
* * * *
49283773 TATGAAAAGAGATAGCTTCGGCTATCGATATGAAAGGGATAGTTTCAGC
66 TATGAAAAGAGATAGCTTCGACCACCAATATGAAAGGGATAGTTTCAGC
**
49283822 TATCGATCATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGGT
1 TATCGATCATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
* * *
49283887 TAATG-AAAGGGAT-GGTTTGACCACCAATATGAAAAGGGAT
66 T-ATGAAAAGAGATAGCTTCGACCACCAATATG-AAAGGGAT
49283927 GATTACGACC
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
113 12 0.13
114 76 0.84
115 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (114 bp):
TATCGATCATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
TATGAAAAGAGATAGCTTCGACCACCAATATGAAAGGGATAGTTTCAGC
Found at i:49314150 original size:11 final size:11
Alignment explanation
Indices: 49314134--49314158 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49314124 CCACATTCAA
49314134 ATTATCCAAAT
1 ATTATCCAAAT
49314145 ATTATCCAAAT
1 ATTATCCAAAT
49314156 ATT
1 ATT
49314159 CCACATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTATCCAAAT
Found at i:49330917 original size:15 final size:15
Alignment explanation
Indices: 49330894--49330953 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
49330884 GTATCGTATC
*
49330894 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
49330909 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * ** **
49330924 CTGGGTTTCTCAACC
1 TTGGATTTCTTTATT
49330939 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
49330954 CGGTTTTCTT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.12, C:0.13, G:0.17, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:49330931 original size:30 final size:30
Alignment explanation
Indices: 49330895--49330963 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
49330885 TATCGTATCT
* **
49330895 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTTAACCTTGGATTTCTTTATTC
*
49330925 TGGGTTTCTCAACCTTGGATTTCTTTATTC
1 TGGGTTTCTTAACCTTGGATTTCTTTATTC
*
49330955 -GGTTTTCTT
1 TGGGTTTCTT
49330964 GTTATCATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTAACCTTGGATTTCTTTATTC
Found at i:49342513 original size:20 final size:20
Alignment explanation
Indices: 49342488--49342526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49342478 TGTATCCATA
*
49342488 AAATTTTAGAATTTTTCATC
1 AAATTTTAGAACTTTTCATC
*
49342508 AAATTTTATAACTTTTCAT
1 AAATTTTAGAACTTTTCAT
49342527 TTTAGTCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTAGAACTTTTCATC
Found at i:49345100 original size:29 final size:29
Alignment explanation
Indices: 49345000--49345228 Score: 160
Period size: 29 Copynumber: 7.9 Consensus size: 29
49344990 GTGCTAAACA
* *
49345000 ATGGTCGTAATCATCCCTTTTCATATTTG
1 ATGGTCGTAACCATCCCTTTTCATAGTTG
* ** * ***
49345029 GTGGTCAAAACCATCCCTCTTCATTAACCG
1 ATGGTCGTAACCATCCCTTTTCA-TAGTTG
* *
49345059 ATGGTTGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTAACCATCCCTTTTCATAGTTG
* *
49345088 ATGGTCGTCACCATCCCTTTTCAT-GATCG
1 ATGGTCGTAACCATCCCTTTTCATAG-TTG
* * * * *
49345117 ATAG-CTGAAACTATCCCTGTTCATAGTCG
1 ATGGTC-GTAACCATCCCTTTTCATAGTTG
* * * *
49345146 ATAGCCG-AAGCTATCTCTTTTCATA-TTCG
1 ATGGTCGTAA-CCATCCCTTTTCATAGTT-G
* *
49345175 ATGGTCATCACCATCCCTTTTCATAGTTG
1 ATGGTCGTAACCATCCCTTTTCATAGTTG
*
49345204 ATGGTCGTCACCATCCCTTTTCATA
1 ATGGTCGTAACCATCCCTTTTCATA
49345229 ATCGATACCC
Statistics
Matches: 157, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
28 5 0.03
29 127 0.81
30 25 0.16
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (29 bp):
ATGGTCGTAACCATCCCTTTTCATAGTTG
Found at i:49345220 original size:87 final size:87
Alignment explanation
Indices: 49345071--49345265 Score: 216
Period size: 87 Copynumber: 2.2 Consensus size: 87
49345061 GGTTGTCACC
* *
49345071 ATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATGATCGATAGCTGAAACTATCCCT
1 ATCCCTTTTCATA-TTCGATGGTCATCACCATCCCTTTTCATGATCGATAGCTGAAACCATCCCT
* * *
49345135 GTTCATAGTCGATAGCCGAAGCT
65 GTTCATAATCGATACCCAAAGCT
* * * **
49345158 ATCTCTTTTCATATTCGATGGTCATCACCATCCCTTTTCAT-AGTTGAT-GGTCGTCACCATCCC
1 ATCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATGA-TCGATAGCT-GAAACCATCCC
* *
49345221 TTTTCATAATCGATACCCAAAGTT
64 TGTTCATAATCGATACCCAAAGCT
*
49345245 ATCCCTTTTCATTAATCGATG
1 ATCCCTTTTCA-TATTCGATG
49345266 ATCACCGATA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 5 0.06
87 77 0.86
88 8 0.09
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATGATCGATAGCTGAAACCATCCCTG
TTCATAATCGATACCCAAAGCT
Found at i:49345224 original size:58 final size:58
Alignment explanation
Indices: 49345011--49345234 Score: 209
Period size: 58 Copynumber: 3.8 Consensus size: 58
49345001 TGGTCGTAAT
* * ** * * **
49345011 CATCCCTTTTCATATTTGGTGGTCAAAACCATCCCTCTTCATTAACCGATGGTTGTCAC
1 CATCCCTTTTCATAGTTGATGGTCGTAACCATCCCTTTTCA-TAATCGATGGTCATCAC
* * * * *
49345070 CATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATGATCGATAGCTGA-AAC
1 CATCCCTTTTCATAGTTGATGGTCGTAACCATCCCTTTTCATAATCGAT-GGTCATCAC
* * * * * * * *
49345128 TATCCCTGTTCATAGTCGATAGCCG-AAGCTATCTCTTTTCATATTCGATGGTCATCAC
1 CATCCCTTTTCATAGTTGATGGTCGTAA-CCATCCCTTTTCATAATCGATGGTCATCAC
*
49345186 CATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGAT
1 CATCCCTTTTCATAGTTGATGGTCGTAACCATCCCTTTTCATAATCGAT
49345235 ACCCAAAGTT
Statistics
Matches: 127, Mismatches: 34, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
57 4 0.03
58 85 0.67
59 38 0.30
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (58 bp):
CATCCCTTTTCATAGTTGATGGTCGTAACCATCCCTTTTCATAATCGATGGTCATCAC
Found at i:49345249 original size:58 final size:57
Alignment explanation
Indices: 49345071--49345256 Score: 185
Period size: 58 Copynumber: 3.2 Consensus size: 57
49345061 GGTTGTCACC
* *
49345071 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATGATCGATAGCTGAAACT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATA-CTCAAACT
* * * * * * * * ** * *
49345129 ATCCCTGTTCATAGTCGATAGCCG-AAGCTATCTCTTTTCATATTCGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCGTCA-CCATCCCTTTTCATAATCGATACTCA-AACT
* *
49345187 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATACCCAAAGTT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATACTCAAA-CT
49345245 ATCCCTTTTCAT
1 ATCCCTTTTCAT
49345257 TAATCGATGA
Statistics
Matches: 96, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
57 4 0.04
58 91 0.95
59 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (57 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATACTCAAACT
Found at i:49349018 original size:25 final size:26
Alignment explanation
Indices: 49348977--49349026 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
49348967 CGGGAAACTC
49348977 ACAAAGAGCCAATTATCAGAAAGCTT
1 ACAAAGAGCCAATTATCAGAAAGCTT
*
49349003 ACAAAGAGCCTA-TATCAGAAAGCT
1 ACAAAGAGCCAATTATCAGAAAGCT
49349027 CGTAAGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (26 bp):
ACAAAGAGCCAATTATCAGAAAGCTT
Found at i:49351899 original size:21 final size:22
Alignment explanation
Indices: 49351873--49351914 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49351863 CACTTGACAC
49351873 AGGGGC-ACATGCCCGTGTGAG
1 AGGGGCAACATGCCCGTGTGAG
*
49351894 AGGGGCAACATGTCCGTGTGA
1 AGGGGCAACATGCCCGTGTGA
49351915 CCAATTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.17
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGAG
Found at i:49353023 original size:46 final size:46
Alignment explanation
Indices: 49352970--49353163 Score: 121
Period size: 46 Copynumber: 4.2 Consensus size: 46
49352960 CTCAAATATG
* * *
49352970 GTCTTACACTGACTATCATCTCGTA-GCTGATGCATGTCCTAGACAT
1 GTCTTACACTGACTATCATCTCG-AGGCCGATACATGTCCCAGACAT
* * * **
49353016 GTCTTACACTGCCTTAT-GTCTCGAGGCCAATACATGTCCTGGACAT
1 GTCTTACACTGAC-TATCATCTCGAGGCCGATACATGTCCCAGACAT
* * *
49353062 GTCTTACACT-AGC-ACTCGTCTCGATGCCGATGCCATGTCCCAGACAT
1 GTCTTACACTGA-CTA-TCATCTCGAGGCCGAT-ACATGTCCCAGACAT
* * * * * *
49353109 GGTCTTACACAGGCTCTCATAAT-GTA-GCTGATACATGTCCCAGACAC
1 -GTCTTACACTGACTATCAT-CTCG-AGGCCGATACATGTCCCAGACAT
49353156 GTCTTACA
1 GTCTTACA
49353164 GTAGCCCACA
Statistics
Matches: 117, Mismatches: 20, Indels: 22
0.74 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 65 0.56
47 28 0.24
48 19 0.16
49 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTTACACTGACTATCATCTCGAGGCCGATACATGTCCCAGACAT
Found at i:49355337 original size:38 final size:38
Alignment explanation
Indices: 49355291--49355368 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
49355281 ACTTACAATC
49355291 CTATTCAACACGTGCATCCATATGCCTTGTGTACCTAT
1 CTATTCAACACGTGCATCCATATGCCTTGTGTACCTAT
*
49355329 CTATTCAACACGTGCATCCATATGCTTTGTGTACCTAT
1 CTATTCAACACGTGCATCCATATGCCTTGTGTACCTAT
49355367 CT
1 CT
49355369 CATATGCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (38 bp):
CTATTCAACACGTGCATCCATATGCCTTGTGTACCTAT
Found at i:49367042 original size:37 final size:37
Alignment explanation
Indices: 49366992--49367094 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
49366982 GGAAATATAT
49366992 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49367029 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
49367066 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
49367095 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49369872 original size:27 final size:26
Alignment explanation
Indices: 49369833--49369889 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
49369823 AATACCTTTA
*
49369833 TAGGTGGACAATTTAC-AGATTTACCCC
1 TAGGTGGACAA-TTACTA-ATATACCCC
49369860 TAGGTGTGA-AATTACTAATATACCCC
1 TAGGTG-GACAATTACTAATATACCCC
49369886 TAGG
1 TAGG
49369890 GTTAAGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 16 0.59
27 9 0.33
28 2 0.07
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (26 bp):
TAGGTGGACAATTACTAATATACCCC
Found at i:49381097 original size:48 final size:47
Alignment explanation
Indices: 49381021--49381187 Score: 262
Period size: 48 Copynumber: 3.5 Consensus size: 47
49381011 ATGCCATACA
* *
49381021 ACCATGTCTGGGACATGGCATCGGCATTGCTATGTGAGCCTGTGTAAG
1 ACCATGTCTGGGACATGGCATC-GCATTGTTATGTGAGCCAGTGTAAG
*
49381069 ACCATGTCTGGGACATGGCATCGTCATTGTTATGTGAGCCGGTGTAAG
1 ACCATGTCTGGGACATGGCATCG-CATTGTTATGTGAGCCAGTGTAAG
*
49381117 ACCATGTCTGGGACATGGCATCAGCATTGTTATGTAAGCCAGTGTAAG
1 ACCATGTCTGGGACATGGCATC-GCATTGTTATGTGAGCCAGTGTAAG
*
49381165 ACCATGTATGGGACATGGCATCG
1 ACCATGTCTGGGACATGGCATCG
49381188 ACATGAGGCA
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.02
48 109 0.97
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (47 bp):
ACCATGTCTGGGACATGGCATCGCATTGTTATGTGAGCCAGTGTAAG
Found at i:49387371 original size:27 final size:26
Alignment explanation
Indices: 49387336--49387394 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
49387326 TTTACTAAAA
* * *
49387336 ATACTCTTAATTATGAAAATTACCATT
1 ATACCCTTAAGTAT-AAAATGACCATT
* *
49387363 ATACCCTTACGTGTAAAATGACCATT
1 ATACCCTTAAGTATAAAATGACCATT
49387389 ATACCC
1 ATACCC
49387395 CTAGGGTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATACCCTTAAGTATAAAATGACCATT
Found at i:49387546 original size:28 final size:27
Alignment explanation
Indices: 49387502--49387615 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 27
49387492 GGAGGAAGCG
*
49387502 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
49387530 TTCTGGTGGCTAC-GCCACAAATATCTGT
1 TTCTGGTGGCT-CTGCCAC-AATATCTGT
*
49387558 TT-TAGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
49387584 ATCTGGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
49387610 TTCTGG
1 TTCTGG
49387616 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 16 0.21
27 32 0.42
28 28 0.37
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:49392073 original size:47 final size:47
Alignment explanation
Indices: 49392007--49392531 Score: 818
Period size: 47 Copynumber: 11.1 Consensus size: 47
49391997 GAAATGATAG
49392007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49392054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
49392103 TAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49392150 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49392197 TAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
49392246 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49392293 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49392340 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49392387 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49392434 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
49392481 -AGGGGCCGAGTGGCCAACGCGATGGATGTGAAAGTGCATAAATGTGA
1 TA-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49392528 TAAG
1 TAAG
49392532 TCCCGAAGGG
Statistics
Matches: 446, Mismatches: 26, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 353 0.79
48 1 0.00
49 91 0.20
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:49392265 original size:143 final size:143
Alignment explanation
Indices: 49392007--49392480 Score: 853
Period size: 143 Copynumber: 3.3 Consensus size: 143
49391997 GAAATGATAG
* *
49392007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
49392072 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
49392137 TGTATATGTGTGA
131 TGTATATGTGTGA
*
49392150 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
49392215 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
49392280 TGTATATGTGTGA
131 TGTATATGTGTGA
*
49392293 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* *
49392358 GTGATGAATGTGAAAGTG--TATATATGTAATAAGGCCAAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
49392421 TGTATATATGTGA
131 TGTATATGTGTGA
*
49392434 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49392481 AGGGGCCGAG
Statistics
Matches: 320, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
141 100 0.31
143 220 0.69
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATGTGTGA
Found at i:49392706 original size:37 final size:37
Alignment explanation
Indices: 49392650--49392728 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49392640 CCGAGCTCTA
* *
49392650 AAGACCCGATGACTACGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
49392687 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49392724 AAGAC
1 AAGAC
49392729 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49393702 original size:30 final size:30
Alignment explanation
Indices: 49393668--49393727 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49393658 CTCCCGAGCC
49393668 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* * *
49393698 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
49393728 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:49395721 original size:16 final size:15
Alignment explanation
Indices: 49395683--49395721 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
49395673 TGGATTTTCG
*
49395683 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
49395698 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
49395713 TATTCTTGG
1 TA-TCTTGG
49395722 CTTCTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:49399124 original size:40 final size:40
Alignment explanation
Indices: 49399080--49399303 Score: 371
Period size: 40 Copynumber: 5.6 Consensus size: 40
49399070 GCTACTAGCT
* *
49399080 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
49399120 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
49399160 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
49399200 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49399240 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
49399279 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49399304 GTATCAATCC
Statistics
Matches: 176, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 1 0.01
39 35 0.20
40 140 0.80
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49401861 original size:18 final size:19
Alignment explanation
Indices: 49401821--49401864 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
49401811 CCCAGTACAG
* *
49401821 TAACAATAATCAGTGTAGA
1 TAACAGTAATCAGTGCAGA
49401840 -AACAGTAATCAGTGCA-A
1 TAACAGTAATCAGTGCAGA
49401857 TAACAGTA
1 TAACAGTA
49401865 TACAAGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (19 bp):
TAACAGTAATCAGTGCAGA
Found at i:49402222 original size:27 final size:27
Alignment explanation
Indices: 49402192--49402445 Score: 321
Period size: 27 Copynumber: 9.4 Consensus size: 27
49402182 TCACATAGCC
* *
49402192 CAAAACAGTCATCTTACCATATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
*
49402219 CAAAACAATCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
*
49402246 CAAAACAGTCATTTTACCACATAAGAG
1 CAAAACAGTCATTTTACCACATAAGGG
*
49402273 TAAAACAGTCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * *
49402300 AAAAAAAGTCATTTTACCACATAAGGA
1 CAAAACAGTCATTTTACCACATAAGGG
* *
49402327 TAAAGCAGTCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * * *
49402354 TAAAATAATCATTTTACCATATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * *
49402381 AAAAATAGTCATTTTACCACATTAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
49402408 CAAAACA-TGCATTTTACCACATAAGGG
1 CAAAACAGT-CATTTTACCACATAAGGG
* *
49402435 AAAAACGGTCA
1 CAAAACAGTCA
49402446 CTTATCAATT
Statistics
Matches: 198, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 196 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (27 bp):
CAAAACAGTCATTTTACCACATAAGGG
Found at i:49406189 original size:39 final size:39
Alignment explanation
Indices: 49406146--49406272 Score: 159
Period size: 39 Copynumber: 3.2 Consensus size: 39
49406136 TTAAACCCGA
*
49406146 ATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
1 ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
* *
49406185 ATATAATTCCAGCATATAGCCTGCGGGTA-TTTAA-ACTCGG
1 ATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGTC-CGG
* * *
49406225 ATATAATTCCAACACATAGCCTTCGGACCTTAAGTCCGG
1 ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
49406264 ATATAATTC
1 ATATAATTC
49406273 TAGATATCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
38 1 0.01
39 42 0.56
40 31 0.41
41 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (39 bp):
ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
Found at i:49408162 original size:29 final size:29
Alignment explanation
Indices: 49408129--49408203 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
49408119 GGGCTGTCAC
*
49408129 ATGGCCCATTAGGCCCAAATCACCTGTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
* *
49408158 ATGGCCCATTAGGCCAAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
*
49408187 ATGGCCCGTTAGGCCCA
1 ATGGCCCATTAGGCCCA
49408204 GTCACATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATGTAT
Found at i:49413701 original size:46 final size:46
Alignment explanation
Indices: 49413651--49413822 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
49413641 TGGTTGAGCA
49413651 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
49413697 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49413742 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49413790 CCCGAGCCCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
49413823 TTGGGCGGGT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49413807 original size:93 final size:93
Alignment explanation
Indices: 49413648--49413818 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
49413638 GGATGGTTGA
* * *
49413648 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACCCGTTGAGT
49413713 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
49413741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCCCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACCCGTTGAGT
49413806 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49413819 ACTTTTGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACCCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:49417454 original size:39 final size:40
Alignment explanation
Indices: 49417409--49417580 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
49417399 GCTCCTCGTT
* * *
49417409 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
49417449 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
49417488 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
49417528 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
49417568 CAAATGCCTTCGG
1 CAAATGCCTTCGG
49417581 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:49417509 original size:40 final size:39
Alignment explanation
Indices: 49417411--49417633 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
49417401 TCCTCGTTCA
* * * *
49417411 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
49417450 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
49417489 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
49417529 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
49417569 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
49417610 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
49417634 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:49417593 original size:80 final size:79
Alignment explanation
Indices: 49417409--49417633 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
49417399 GCTCCTCGTT
* * * * *
49417409 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
49417473 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
49417488 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
49417553 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
49417568 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
49417632 GA
63 GA
49417634 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:49417642 original size:41 final size:41
Alignment explanation
Indices: 49417565--49417642 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49417555 TTTGTATCTC
* * *
49417565 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
49417606 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
49417643 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:49425396 original size:39 final size:40
Alignment explanation
Indices: 49425351--49425522 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
49425341 GCTCCTCGTT
* * *
49425351 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
49425391 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
49425430 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
49425470 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
49425510 CAAATGCCTTCGG
1 CAAATGCCTTCGG
49425523 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:49425451 original size:40 final size:39
Alignment explanation
Indices: 49425353--49425575 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
49425343 TCCTCGTTCA
* * * *
49425353 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
49425392 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
49425431 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
49425471 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
49425511 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
49425552 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
49425576 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:49425535 original size:80 final size:79
Alignment explanation
Indices: 49425351--49425575 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
49425341 GCTCCTCGTT
* * * * *
49425351 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
49425415 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
49425430 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
49425495 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
49425510 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
49425574 GA
63 GA
49425576 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:49425584 original size:41 final size:41
Alignment explanation
Indices: 49425507--49425584 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49425497 TTTGTATCTC
* * *
49425507 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
49425548 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
49425585 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:49427826 original size:39 final size:39
Alignment explanation
Indices: 49427742--49427829 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
49427732 GTAATTAGCA
* * *
49427742 TGCTAGGTATAAACCTGAACTTATCATTGGCACGAGGCG
1 TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
* **
49427781 TACTAGGTATAAACCTGAACTTATTGCTGGCACGAGCCC
1 TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
49427820 TGCTAGGTAT
1 TGCTAGGTAT
49427830 TAAGTCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (39 bp):
TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
Found at i:49432414 original size:47 final size:47
Alignment explanation
Indices: 49432363--49432820 Score: 774
Period size: 47 Copynumber: 9.7 Consensus size: 47
49432353 TTAGGATTCT
* * *
49432363 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
49432410 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49432457 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49432504 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49432551 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49432598 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49432645 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49432692 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
49432739 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
49432786 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49432821 TCCCGAAGGG
Statistics
Matches: 393, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 1 0.00
47 392 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Done.