Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 42 of 325
Found at i:10362972 original size:21 final size:22
Alignment explanation
Indices: 10362933--10362975 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10362923 AAAAACATTG
10362933 AAAAGTATTAAAATATTAATAT
1 AAAAGTATTAAAATATTAATAT
* *
10362955 AAAA-TATTATAATTTTAATAT
1 AAAAGTATTAAAATATTAATAT
10362976 TATTAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAGTATTAAAATATTAATAT
Found at i:10363072 original size:34 final size:29
Alignment explanation
Indices: 10363016--10363090 Score: 73
Period size: 34 Copynumber: 2.4 Consensus size: 29
10363006 TTAATCATAA
*
10363016 AATAAATTATTAATATAATTTATTATT-TT
1 AATAAATTATTAATATAATTTATT-TTAAT
10363045 AATAAATTATTTAATATTTCAATTTTATTTTAAT
1 AATAAATTA-TTAATA--T-AA-TTTATTTTAAT
10363079 AATAAATT-TTAA
1 AATAAATTATTAA
10363091 AAATGATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 9 0.23
30 6 0.15
32 5 0.13
33 4 0.10
34 15 0.38
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
AATAAATTATTAATATAATTTATTTTAAT
Found at i:10363087 original size:13 final size:14
Alignment explanation
Indices: 10363071--10363112 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
10363061 TTTCAATTTT
10363071 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
10363084 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
10363099 ATTTTAAATAATAT
1 ATTTT-AATAATAT
10363113 TTTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:10365900 original size:30 final size:30
Alignment explanation
Indices: 10365866--10365923 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10365856 TAAAACTAGC
10365866 AAATTCGAATTTAGTCCCTATACTATGCAT
1 AAATTCGAATTTAGTCCCTATACTATGCAT
*
10365896 AAATTCGAATTTAGTTCCTATACTATGC
1 AAATTCGAATTTAGTCCCTATACTATGC
10365924 GTCAATTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTCGAATTTAGTCCCTATACTATGCAT
Found at i:10368051 original size:46 final size:46
Alignment explanation
Indices: 10368000--10368144 Score: 174
Period size: 39 Copynumber: 3.5 Consensus size: 46
10367990 CGAAATCTAG
10368000 CTGAAGCACATAAGTGCTAAAAGGAAGCCCGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAAAGGAAGCCCGAAGCCCGGAGGCTAA
*
10368046 CTGAAGCACATAAGTGCT---A--AA--CAGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAAAGGAAGCCCGAAGCCCGGAGGCTAA
*
10368085 CTGAAGCACATAAGTGCTAAATGGAAGCCCG-A------AGGCTAA
1 CTGAAGCACATAAGTGCTAAAAGGAAGCCCGAAGCCCGGAGGCTAA
10368124 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCACATAAGTGCTAAA
10368145 CTGAAACCCC
Statistics
Matches: 89, Mismatches: 3, Indels: 21
0.79 0.03 0.19
Matches are distributed among these distances:
39 63 0.71
41 2 0.02
43 1 0.01
44 2 0.02
45 1 0.01
46 20 0.22
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.14
Consensus pattern (46 bp):
CTGAAGCACATAAGTGCTAAAAGGAAGCCCGAAGCCCGGAGGCTAA
Found at i:10368084 original size:39 final size:39
Alignment explanation
Indices: 10368030--10368145 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
10368020 AAGGAAGCCC
10368030 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACA
**
10368069 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACA
*
10368108 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
1 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAAC
10368146 TGAAACCCCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:10369773 original size:3 final size:3
Alignment explanation
Indices: 10369765--10369853 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
10369755 CCTAGGCAGT
* * * *
10369765 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGAA ACA CAGA AAA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA -AGA AGA
* * * * *
10369810 AGA AGA AGA ATA AGA AAA AGA AG- AGG AGG AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
10369854 GAAAATGGAA
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 6 0.09
3 56 0.85
4 4 0.06
ACGTcount: A:0.66, C:0.02, G:0.28, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:10371017 original size:21 final size:21
Alignment explanation
Indices: 10370993--10371033 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10370983 CAACATGGCA
10370993 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
* *
10371014 AGTTAACTTGCCACGTCAGC
1 AGTTAACTGGCCACATCAGC
10371034 ACTCTCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:10371131 original size:29 final size:30
Alignment explanation
Indices: 10371077--10371135 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
10371067 CGGTGACTAT
* *
10371077 TTTGTCACTTTTTCATAACGTTAGTGACTG
1 TTTGTAACTTTTTCATAAAGTTAGTGACTG
10371107 TTTGTAAC-TTTTCA-AAAGTTGAGTGACTG
1 TTTGTAACTTTTTCATAAAGTT-AGTGACTG
10371136 AAATGAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 14 0.54
30 7 0.27
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (30 bp):
TTTGTAACTTTTTCATAAAGTTAGTGACTG
Found at i:10371926 original size:15 final size:15
Alignment explanation
Indices: 10371906--10371936 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10371896 GAAAAGGGAG
10371906 TGGAATTCTCCTTAC
1 TGGAATTCTCCTTAC
10371921 TGGAATTCTCCTTAC
1 TGGAATTCTCCTTAC
10371936 T
1 T
10371937 CTAAGTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (15 bp):
TGGAATTCTCCTTAC
Found at i:10375459 original size:29 final size:29
Alignment explanation
Indices: 10375417--10375480 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
10375407 ACAATCCAAT
*
10375417 GGATGTGATGTAATTTAAGTTTTATGAAC
1 GGATGTGATATAATTTAAGTTTTATGAAC
*
10375446 GGATGTGATATAATTTAAGTTTTATGAAT
1 GGATGTGATATAATTTAAGTTTTATGAAC
10375475 GGATGT
1 GGATGT
10375481 TATAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (29 bp):
GGATGTGATATAATTTAAGTTTTATGAAC
Found at i:10375492 original size:29 final size:29
Alignment explanation
Indices: 10375417--10375492 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
10375407 ACAATCCAAT
** *
10375417 GGATGTGATGTAATTTAAGTTTTATGAAC
1 GGATGTGATAAAAATTAAGTTTTATGAAC
* * *
10375446 GGATGTGATATAATTTAAGTTTTATGAAT
1 GGATGTGATAAAAATTAAGTTTTATGAAC
*
10375475 GGATGTTATAAAAATTAA
1 GGATGTGATAAAAATTAA
10375493 TCGCTAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (29 bp):
GGATGTGATAAAAATTAAGTTTTATGAAC
Found at i:10380166 original size:30 final size:30
Alignment explanation
Indices: 10380120--10380180 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10380110 TTCCCGAGCC
*
10380120 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGAGCAAAAGTGTAAATATGTAAAAGTT
* * * *
10380150 TAGGAGCAAAATTGTAATTTTGTCAAAGTT
1 TAGGAGCAAAAGTGTAAATATGTAAAAGTT
10380180 T
1 T
10380181 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:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGAGCAAAAGTGTAAATATGTAAAAGTT
Found at i:10381332 original size:49 final size:51
Alignment explanation
Indices: 10381209--10381332 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 51
10381199 TTGTGATGAA
* * ** *
10381209 TAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTATGCGTACCGGATAACTTCGATCACATGTGTAATAC
* * * *
10381260 TAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAATAC
1 TAAGTGCAGGCTACTATGCGTACCGGATAACTTCGATCACATGTGTAATAC
10381309 TAAGTGCAGGCTACTATGCGTACC
1 TAAGTGCAGGCTACTATGCGTACC
10381333 AAATAGCTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
49 34 0.55
50 2 0.03
51 26 0.42
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (51 bp):
TAAGTGCAGGCTACTATGCGTACCGGATAACTTCGATCACATGTGTAATAC
Found at i:10385008 original size:18 final size:18
Alignment explanation
Indices: 10384985--10385020 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10384975 GCCGAGCTTG
*
10384985 AGCTTAGATTTTTTAATT
1 AGCTTAGATTTTTAAATT
10385003 AGCTTAGATTTTTAAATT
1 AGCTTAGATTTTTAAATT
10385021 CTGATTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (18 bp):
AGCTTAGATTTTTAAATT
Found at i:10385655 original size:20 final size:21
Alignment explanation
Indices: 10385617--10385686 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
10385607 TGATCAATCA
10385617 AAAAATTATTTAAAAAAATTAC
1 AAAAATTA-TTAAAAAAATTAC
* *
10385639 AAAAATTA-TAAATAAATTAT
1 AAAAATTATTAAAAAAATTAC
* **
10385659 AAAAATTAGTAAAAAAATTTT
1 AAAAATTATTAAAAAAATTAC
10385680 AAAAATT
1 AAAAATT
10385687 TGTTTTGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.42
21 17 0.40
22 8 0.19
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (21 bp):
AAAAATTATTAAAAAAATTAC
Found at i:10386192 original size:10 final size:10
Alignment explanation
Indices: 10386177--10386221 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
10386167 TTTAAAGAAA
*
10386177 TTAATAATTC
1 TTAATAATTT
10386187 TTAATAATTT
1 TTAATAATTT
*
10386197 TTAACAATTT
1 TTAATAATTT
*
10386207 TTAAAGAATTT
1 TT-AATAATTT
10386218 TTAA
1 TTAA
10386222 ATTTTTCCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (10 bp):
TTAATAATTT
Found at i:10386200 original size:20 final size:21
Alignment explanation
Indices: 10386177--10386221 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10386167 TTTAAAGAAA
* *
10386177 TTAATAATTCTT-AATAATTT
1 TTAACAATTCTTAAAGAATTT
*
10386197 TTAACAATTTTTAAAGAATTT
1 TTAACAATTCTTAAAGAATTT
10386218 TTAA
1 TTAA
10386222 ATTTTTCCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAACAATTCTTAAAGAATTT
Found at i:10386317 original size:29 final size:30
Alignment explanation
Indices: 10386257--10386317 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
10386247 TTTAATAGTT
* * *
10386257 TTAAATAATTTTTACATGTTTTTTATATAA
1 TTAAATAAATTTTACATGTTTTCTAAATAA
10386287 TTAAATAAATTTTA-A-GATTTTCTAAATAA
1 TTAAATAAATTTTACATG-TTTTCTAAATAA
10386316 TT
1 TT
10386318 TTTACTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.04
29 13 0.48
30 13 0.48
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (30 bp):
TTAAATAAATTTTACATGTTTTCTAAATAA
Found at i:10386370 original size:27 final size:29
Alignment explanation
Indices: 10386304--10386370 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
10386294 AATTTTAAGA
*
10386304 TTTTCTAAATAATTTTTACTAAGTTCTAT
1 TTTTTTAAATAATTTTTACTAAGTTCTAT
* *
10386333 TTTTTT-TATAATTTTTGC-AAGTT-T-T
1 TTTTTTAAATAATTTTTACTAAGTTCTAT
10386358 TTATTTTAAATAA
1 TT-TTTTAAATAA
10386371 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 3 0.09
26 5 0.16
27 9 0.28
28 10 0.31
29 5 0.16
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTTTAAATAATTTTTACTAAGTTCTAT
Found at i:10388774 original size:46 final size:44
Alignment explanation
Indices: 10388721--10388806 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 44
10388711 AGAACAGAAA
*
10388721 TGAGCCATGTAAGTCCACATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCACATT--AAATATGGCATTGGAGACAGGAT
* *
10388767 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCACATTAAATATGGCATTGGAGACA
10388807 TGAATAATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 17 0.46
46 20 0.54
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCACATTAAATATGGCATTGGAGACAGGAT
Found at i:10388820 original size:44 final size:45
Alignment explanation
Indices: 10388714--10388847 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
10388704 ACAGGACAGA
* * * *
10388714 ACAGAAATGAGCCATGTAAGTCCACATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
10388760 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
10388804 ACATGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10388848 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:10391398 original size:44 final size:45
Alignment explanation
Indices: 10391345--10391447 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
10391335 TGTCTTTGAC
* * *
10391345 ATGGACTTACATGAATTATTCATGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
** * *
10391389 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATA-TTATAAT
*
10391435 GTGGACTTACATG
1 ATGGACTTACATG
10391448 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 32 0.65
46 17 0.35
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
Found at i:10391451 original size:46 final size:44
Alignment explanation
Indices: 10391367--10391452 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 44
10391357 GAATTATTCA
*
10391367 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
* *
10391411 TGTCTCCAAAGCCATATTTCTAATGTGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
10391453 TTTCTGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 15 0.41
46 22 0.59
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:10394623 original size:21 final size:19
Alignment explanation
Indices: 10394599--10394640 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
10394589 TCGAATTCCA
10394599 TTCTTCATTTGAATGTATATT
1 TTCTTCA-TT-AATGTATATT
*
10394620 TTCTTGATTAATGTATATT
1 TTCTTCATTAATGTATATT
10394639 TT
1 TT
10394641 TCATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (19 bp):
TTCTTCATTAATGTATATT
Found at i:10398370 original size:7 final size:7
Alignment explanation
Indices: 10398310--10398357 Score: 78
Period size: 7 Copynumber: 6.7 Consensus size: 7
10398300 TTTTATATTT
10398310 TTTTTAA
1 TTTTTAA
10398317 TTTTTAA
1 TTTTTAA
10398324 TTTTTAA
1 TTTTTAA
10398331 TTTTTAA
1 TTTTTAA
*
10398338 TTTTGAA
1 TTTTTAA
10398345 TTTTTAAA
1 TTTTT-AA
10398353 TTTTT
1 TTTTT
10398358 TTAATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:10398420 original size:21 final size:19
Alignment explanation
Indices: 10398381--10398420 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
10398371 ATTATTAACA
*
10398381 TGACATATAAGATAAATAG
1 TGACATATAACATAAATAG
10398400 TGACATATCAACATGAAATAG
1 TGACATAT-AACAT-AAATAG
10398421 ATGTAGAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (19 bp):
TGACATATAACATAAATAG
Found at i:10405715 original size:2 final size:2
Alignment explanation
Indices: 10405705--10405745 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
10405695 TCTCTTCCTA
10405705 GT GT AGT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT -GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
10405746 TTTGGCTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:10406596 original size:32 final size:32
Alignment explanation
Indices: 10406550--10406612 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
10406540 ATTAATCGGT
* *
10406550 ATGAATTATCAAATTAAATTAATTAATTTATC
1 ATGAATTATCAAATTAAAGTAATCAATTTATC
* * *
10406582 ATGAGTTATTAAATTCAAGTAATCAATTTAT
1 ATGAATTATCAAATTAAAGTAATCAATTTAT
10406613 AAATTTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATGAATTATCAAATTAAAGTAATCAATTTATC
Found at i:10407107 original size:16 final size:17
Alignment explanation
Indices: 10407075--10407108 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10407065 TCTCGTAGAT
10407075 ATTAATATTTATTTTAA
1 ATTAATATTTATTTTAA
*
10407092 ATTAATGTTT-TTTTAA
1 ATTAATATTTATTTTAA
10407108 A
1 A
10407109 GATATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTAATATTTATTTTAA
Found at i:10408509 original size:23 final size:22
Alignment explanation
Indices: 10408464--10408510 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10408454 AATGGAAAAC
* *
10408464 AAAGAACAAAAAAGGAAAGTTA
1 AAAGAACAAAAAAGAAAAATTA
*
10408486 AAAGAACATAAAAGAAAAAATTA
1 AAAGAACAAAAAAG-AAAAATTA
10408509 AA
1 AA
10408511 TTGCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (22 bp):
AAAGAACAAAAAAGAAAAATTA
Found at i:10411611 original size:16 final size:16
Alignment explanation
Indices: 10411590--10411624 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10411580 TATGATTTGA
*
10411590 AAAAAAAATTAAAAGT
1 AAAAAAAATAAAAAGT
*
10411606 AAAAAAAATAAAAATT
1 AAAAAAAATAAAAAGT
10411622 AAA
1 AAA
10411625 TGAAGAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAAAAATAAAAAGT
Found at i:10412955 original size:18 final size:17
Alignment explanation
Indices: 10412932--10412965 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
10412922 AAATAACTTA
10412932 AACAAAAAAATTTATTTG
1 AACAAAAAAA-TTATTTG
10412950 AACAAAAAAATTATTT
1 AACAAAAAAATTATTT
10412966 TCCAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
AACAAAAAAATTATTTG
Found at i:10413237 original size:45 final size:44
Alignment explanation
Indices: 10413188--10413274 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
10413178 CACTGTAATT
**
10413188 GAATAGAGCTGTAATCAGTAATCAACTATTTGGTTGAATGGAATG
1 GAATAGAAATGTAAT-AGTAATCAACTATTTGGTTGAATGGAATG
* *** *
10413233 GAATAGAAATGTAATAGTATTCTTGTGTTTGGTTGAATGGAA
1 GAATAGAAATGTAATAGTAATCAACTATTTGGTTGAATGGAA
10413275 CGACGTTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
44 22 0.63
45 13 0.37
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (44 bp):
GAATAGAAATGTAATAGTAATCAACTATTTGGTTGAATGGAATG
Found at i:10413474 original size:17 final size:17
Alignment explanation
Indices: 10413454--10413486 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10413444 ATTTATTATT
*
10413454 AAATATAATTTAATAAA
1 AAATATAAATTAATAAA
10413471 AAATATAAATTAATAA
1 AAATATAAATTAATAA
10413487 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATTAATAAA
Found at i:10417271 original size:18 final size:19
Alignment explanation
Indices: 10417248--10417285 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10417238 AAGATAGAAA
10417248 TTTTTTCATTTT-GTTTTT
1 TTTTTTCATTTTGGTTTTT
**
10417266 TTTTTTTTTTTTGGTTTTT
1 TTTTTTCATTTTGGTTTTT
10417285 T
1 T
10417286 AATTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (19 bp):
TTTTTTCATTTTGGTTTTT
Found at i:10420420 original size:29 final size:30
Alignment explanation
Indices: 10420388--10420460 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
10420378 CACAAAAAAA
*
10420388 TTTAAAAATTTTAATTAGACATCT-ATTTT
1 TTTAAAAATTTTAATTAAACATCTAATTTT
* * * *
10420417 TTTAAAAA-TCTCATTAAACTTTTAATTTT
1 TTTAAAAATTTTAATTAAACATCTAATTTT
10420446 TTTAAAAATTTTAAT
1 TTTAAAAATTTTAAT
10420461 AAATCTCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 10 0.29
29 21 0.60
30 4 0.11
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (30 bp):
TTTAAAAATTTTAATTAAACATCTAATTTT
Found at i:10422032 original size:2 final size:2
Alignment explanation
Indices: 10422027--10422072 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
10422017 GTACACACAC
10422027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10422069 AT AT
1 AT AT
10422073 CCACCATAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10424499 original size:21 final size:21
Alignment explanation
Indices: 10424470--10424510 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10424460 AAATTTAAAA
10424470 ATTCAAAAAATTTAA-AAATAT
1 ATTCAAAAAA-TTAATAAATAT
*
10424491 ATTCTAAAAATTAATAAATA
1 ATTCAAAAAATTAATAAATA
10424511 ATGTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAAAAAATTAATAAATAT
Found at i:10424639 original size:41 final size:41
Alignment explanation
Indices: 10424594--10424675 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
10424584 CTAATATGAT
10424594 TTGATAAATAATACAAATTTAAAAACTAAAAGAGATAACAC
1 TTGATAAATAATACAAATTTAAAAACTAAAAGAGATAACAC
* *
10424635 TTGATAGATAATACAAATTTAAAAGCTAAAAGAGATAACAC
1 TTGATAAATAATACAAATTTAAAAACTAAAAGAGATAACAC
10424676 GAGTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (41 bp):
TTGATAAATAATACAAATTTAAAAACTAAAAGAGATAACAC
Found at i:10425085 original size:35 final size:35
Alignment explanation
Indices: 10425032--10425141 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 35
10425022 TTTTAGGGTT
*
10425032 TTTAGGG-TTAGGGTTTTGTTAAAATAAGTTAAGA
1 TTTAGGGTTTAGGGTTTTGTTAAAATAAATTAAGA
* *
10425066 TTTAGGGTTTAGGTTTTTGTTAAAATAAATTAAGG
1 TTTAGGGTTTAGGGTTTTGTTAAAATAAATTAAGA
* * * *
10425101 TTTTGGGTTATAGTAGATTT-TAAAAATAAATTAAGA
1 TTTAGGGTT-TAG-GGTTTTGTTAAAATAAATTAAGA
10425137 TTTAG
1 TTTAG
10425142 TGTTATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
34 7 0.11
35 32 0.51
36 21 0.33
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.44
Consensus pattern (35 bp):
TTTAGGGTTTAGGGTTTTGTTAAAATAAATTAAGA
Found at i:10425327 original size:125 final size:126
Alignment explanation
Indices: 10425180--10425447 Score: 396
Period size: 125 Copynumber: 2.1 Consensus size: 126
10425170 GGATTTATGG
* * *
10425180 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTATCAAAA
* * * * * *
10425245 ACGCTTTAAGCA-GATGCAATGTCAGCTAAATTTTTGAAAAAAGCT-CTCATGTGGATGCTC
66 ACGCTTCAAGCAGGATACAATGTCAACAAAATTTCTGAAAAAAGCTCCT-ATGTGAATGCTC
* * *
10425305 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTAAATAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTATCAAAA
*
10425370 ATGCTTCAAGCAGGATACAATGTCAACAAAATTTCTGAAAAAAGCTCCTATGTGAATGCTC
66 ACGCTTCAAGCAGGATACAATGTCAACAAAATTTCTGAAAAAAGCTCCTATGTGAATGCTC
10425431 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
10425448 ATGCTTGGCA
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
125 69 0.54
126 57 0.45
127 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTATCAAAA
ACGCTTCAAGCAGGATACAATGTCAACAAAATTTCTGAAAAAAGCTCCTATGTGAATGCTC
Found at i:10428373 original size:44 final size:44
Alignment explanation
Indices: 10428325--10428558 Score: 129
Period size: 44 Copynumber: 5.3 Consensus size: 44
10428315 TATCTCTTTG
*
10428325 AGGTAGCAAGAGAACAGGTTGAAGATTGTAGTCTTATCTTCCTA
1 AGGTAGCAAGAGAACAGATTGAAGATTGTAGTCTTATCTTCCTA
* * * *
10428369 AGGTAGCAAG-GAAGCAGACTAAAGATTATAGATCTTATCTCCCTA
1 AGGTAGCAAGAGAA-CAGATTGAAGATTGTAG-TCTTATCTTCCTA
* * * * * * *
10428414 A-GCAG-TAGTGAAGTAGATCGAAGATGGTGAATCTTATCTTCCTGA
1 AGGTAGCAAGAGAA-CAGATTGAAGATTGT-AGTCTTATCTTCCT-A
* * * ** ***** * *
10428459 A-GTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATC-TCTCTG
1 AGGTAGCAAGAGAACAGATTGAAGATTGTAGTCTTATCTTC-CTA
* * *
10428502 AGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTG
1 AGGTAGCAAGAGAACAGATTGAAGATTGTAGTCTTATCTTCCTA
10428546 AGGTAGCAA-AGAA
1 AGGTAGCAAGAGAA
10428559 GAAAACTGAA
Statistics
Matches: 137, Mismatches: 44, Indels: 19
0.69 0.22 0.09
Matches are distributed among these distances:
43 11 0.08
44 96 0.70
45 27 0.20
46 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (44 bp):
AGGTAGCAAGAGAACAGATTGAAGATTGTAGTCTTATCTTCCTA
Found at i:10428552 original size:177 final size:177
Alignment explanation
Indices: 10428245--10428921 Score: 912
Period size: 177 Copynumber: 3.8 Consensus size: 177
10428235 GAGGTAGCAA
* * **
10428245 TGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCGAGGTAGCAGGGGAATAGATTTTAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCGAAGTAGCAGGGGAGCAGATTTTAGCCACC
* * *
10428310 AGCCTTATCTCTTTGAGGTAGCAAGAGAACAGGTTGAAGATTGTAGTCTTATCTTCCTAAGGTAG
66 AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAG
10428375 CAAGGAAGCAGACTAAAGATTATAGATCTTATCTCCCTAAGCAGTAG
131 CAAGGAAGCAGACTAAAGATTATAGATCTTATCTCCCTAAGCAGTAG
* * *
10428422 TGAAGTAGATCGAAGATGGTGAATCTTATC-TTCCTGAAGTAGCAGGGGAGCAGATTTTAGCCAC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTTCC-GAAGTAGCAGGGGAGCAGATTTTAGCCAC
10428486 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
65 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
* * * * * *
10428551 GCAAAGAAGAAAACTGAAGATCATAGATCTTATCTCCTTAAGCAGTAG
130 GCAAGGAAGCAGACTAAAGATTATAGATCTTATCTCCCTAAGCAGTAG
*
10428599 TGGAGCAGATCGAAGATGGCGAATCTTATC-TTCTC-AAGGTAGCAGGGGAGCAGATTTTAGTCA
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTTC-CGAA-GTAGCAGGGGAGCAGATTTTAGCCA
* * * *
10428662 TCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTATAGTTTTATCTTCCTGTGGT
64 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGT
** * * * ** *
10428727 ATTAAGGAAGTAGATTAAAGATTGTAGATCTTATCTCCCTAAAATAGCAG
129 AGCAAGGAAGCAGACTAAAGATTATAGATCTTATCTCCCT-AAGCAGTAG
* * * *
10428777 TGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCGAGGCAGCAGGGGAGCAGATTTTAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCGAAGTAGCAGGGGAGCAGATTTTAGCCACC
* * * * ** *
10428842 AGCCTTATCT-TCCTAAGGTAGTAAGGGAGTAGGCCGAAAATTGTAGTCTTATCTTCCTGAGGTA
66 AGCCTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
*
10428906 GCAAGGGAGCAGACTA
130 GCAAGGAAGCAGACTA
10428922 GACCTTATCT
Statistics
Matches: 437, Mismatches: 56, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
176 6 0.01
177 304 0.70
178 123 0.28
179 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
TGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCGAAGTAGCAGGGGAGCAGATTTTAGCCACC
AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAG
CAAGGAAGCAGACTAAAGATTATAGATCTTATCTCCCTAAGCAGTAG
Found at i:10429509 original size:16 final size:16
Alignment explanation
Indices: 10429471--10429503 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10429461 AAATCACAGT
*
10429471 GGCCCAGTAACGAAAA
1 GGCCCAATAACGAAAA
10429487 GGCCCAATAACGAAAA
1 GGCCCAATAACGAAAA
10429503 G
1 G
10429504 TTCCAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.06
Consensus pattern (16 bp):
GGCCCAATAACGAAAA
Found at i:10441047 original size:53 final size:54
Alignment explanation
Indices: 10440942--10441054 Score: 210
Period size: 53 Copynumber: 2.1 Consensus size: 54
10440932 GATAAAATAC
10440942 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
*
10440996 AAATTAATTAAGATTACATAAATG-AAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
10441049 AAATTA
1 AAATTA
10441055 GCCCTTAACT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 35 0.60
54 23 0.40
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:10442470 original size:14 final size:14
Alignment explanation
Indices: 10442451--10442477 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10442441 AAGGTGATTT
10442451 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
10442465 TTTTTATTTTTTT
1 TTTTTATTTTTTT
10442478 CGAATCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:10443136 original size:10 final size:10
Alignment explanation
Indices: 10443119--10443158 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
10443109 ATATTTTTAT
10443119 TATATATGTA
1 TATATATGTA
*
10443129 TGTATATGTA
1 TATATATGTA
*
10443139 TATATATTTA
1 TATATATGTA
10443149 TATATA-GTA
1 TATATATGTA
10443158 T
1 T
10443159 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:10443545 original size:3 final size:3
Alignment explanation
Indices: 10443043--10443528 Score: 93
Period size: 3 Copynumber: 163.7 Consensus size: 3
10443033 CTTTATTAAA
* * * * * *
10443043 TAT TAT TAT TAT T-T CTAA AAT TAT TAA TAT TAT CAC TAT TAT CAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10443088 TAT TAT TAT TAA TAT TAGT GTA- TAT TTT TAT TAT ATAT GTAT GTA-
1 TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT -TAT -TAT
* * *
10443133 TAT GTA- TAT ATAT T-T ATAT ATAG TAT T-T TTT TAT TAC T-T TAT T-T
1 TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
10443177 TAA TAT TAT TAC TAT TAT CAT TAT TAT TAT TAA TAA TAT TAGT GTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT
* * * *
10443223 TAT TTT TAT TAT ATAT GTAT ATAT ATAT T-T ATAT ACAG TAT TAT TTT
1 TAT TAT TAT TAT -TAT -TAT -TAT -TAT TAT -TAT -TAT TAT TAT TAT
* * * * *
10443270 TAAT TAC T-T TAT T-T TAA TAT TAT TAT GA- TAG TA- TAT T-T TCT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
10443311 T-T T-T GTAT T-T CAA TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
10443354 TAT TAC TAC TAC TAA TAT TAG TA- TAT T-T TTT TAT TAT ATAT GTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT
* * *
10443398 TAT GTAT T-T ATAT T-T ATACA TAG TAT TAT T-T T-T TAAT TAC T-T
1 TAT -TAT TAT -TAT TAT -TA-T TAT TAT TAT TAT TAT T-AT TAT TAT
* * * **
10443440 TAT T-T TAA TAT TTT TAT TA- TAT TA- CAT T-T GCT T-T T-T GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
10443480 T-T CAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10443527 TA
1 TA
10443529 GTGTATATTT
Statistics
Matches: 358, Mismatches: 75, Indels: 100
0.67 0.14 0.19
Matches are distributed among these distances:
2 51 0.14
3 250 0.70
4 53 0.15
5 4 0.01
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10443707 original size:147 final size:149
Alignment explanation
Indices: 10443407--10443691 Score: 315
Period size: 147 Copynumber: 1.9 Consensus size: 149
10443397 ATATGTATTT
* * * *
10443407 ATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTACATTTGCT
1 ATATTTATACATAATACTATTTTTTAATTACTTTATTTTAACATTATTATTATATTACATTTGCT
* * * * * ** * * *
10443472 TTTTGTATTTCAATATTATTATTATTATTATTATTATTATTATTATTATTATTATTAGTGTATAT
66 TTTTGTATTTCAATATTATTACTAGTATTATTATCATTATCATCATTATTAACATTAATATACAT
* * * *
10443537 TTTTATTATATACGTATAT
131 GTGTATTATATACATATAC
* * *
10443556 ATATTTATATATAATACTA-TTTTTAATTACTTTATTTTAACATTATTATTATATTTGC-TTT-T
1 ATATTTATACATAATACTATTTTTTAATTACTTTATTTTAACATTATTATTATA-TTACATTTGC
* *
10443618 TTTTTGTATTTCATTATTATTGCTAGTATTATTATCATTATCATCATTATTAACATATACATATA
65 TTTTTGTATTTCAATATTATTACTAGTATTATTATCATTATCATCATTATTAACAT-TA-ATATA
10443683 CATGTGTAT
128 CATGTGTAT
10443692 CTTTCATGTA
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
147 47 0.42
148 37 0.33
149 28 0.25
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (149 bp):
ATATTTATACATAATACTATTTTTTAATTACTTTATTTTAACATTATTATTATATTACATTTGCT
TTTTGTATTTCAATATTATTACTAGTATTATTATCATTATCATCATTATTAACATTAATATACAT
GTGTATTATATACATATAC
Found at i:10455735 original size:90 final size:88
Alignment explanation
Indices: 10455602--10455781 Score: 252
Period size: 90 Copynumber: 2.0 Consensus size: 88
10455592 TATCCTGATA
* * *
10455602 TTTTTATTTCTATTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGCCACAT
1 TTTTTATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGACCCTCGGGCCACAC
* *
10455667 GCCGAGATATTTTCAATTTTTGT
66 GCCGAGATATCTTCAATTTATGT
* * *
10455690 TTTTTAATTTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTTGGGTCAC
1 TTTTT-ATTTCTACTTTTC-AAAAATCAACTCATATTGAGAGAGGTGAGTTGACCCTCGGGCCAC
* *
10455755 ACGCTGAGGTATCTTCAATTTATGT
64 ACGCCGAGATATCTTCAATTTATGT
10455780 TT
1 TT
10455782 CACAAAATCA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 5 0.06
89 12 0.15
90 63 0.79
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (88 bp):
TTTTTATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGACCCTCGGGCCACAC
GCCGAGATATCTTCAATTTATGT
Found at i:10455890 original size:77 final size:74
Alignment explanation
Indices: 10455708--10455897 Score: 220
Period size: 74 Copynumber: 2.5 Consensus size: 74
10455698 TTCTACTTTT
* * *
10455708 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTTGGGTCACACGCTGAGGTATCTTCAA
1 CAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATCTTCAA
* *
10455773 TTTATGTTT
66 TTTATATTC
* ** *
10455782 CACAAAATCAACTCATATTATGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-CTTTTA
1 CAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATC-TTCA
* *
10455846 GTTTCTATTCGC
65 ATTTATATT--C
**
10455858 CAAAAAAATTGACTCATATTGCGAGAAGTGAGTTGAGCCT
1 C-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
10455898 TTTAGTTTCT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
73 1 0.01
74 61 0.64
76 1 0.01
77 33 0.34
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
CAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATCTTCAA
TTTATATTC
Found at i:10455929 original size:56 final size:56
Alignment explanation
Indices: 10455840--10455953 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
10455830 CGCTGAGGTA
** *
10455840 CTTTTAGTTTCTATTCGCCAAAAAAATTGACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTTAGTTTCTATTCGCCAAAAAAATCAACTCATATTGCGAGAAGTGAGTGGAGC
* *** * *
10455896 CTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTGGAGC
1 CTTTTAGTTTCTATTCGCCAAAAAAATCAACTCATATTGCGAGAAGTGAGTGGAGC
10455952 CT
1 CT
10455954 CAGGTCACAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (56 bp):
CTTTTAGTTTCTATTCGCCAAAAAAATCAACTCATATTGCGAGAAGTGAGTGGAGC
Found at i:10457061 original size:20 final size:20
Alignment explanation
Indices: 10457036--10457077 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10457026 ATATATATAT
*
10457036 ATTAT-AAATACATATAAAAA
1 ATTATAAAATA-AAATAAAAA
10457056 ATTATAAAATAAAATAAAAA
1 ATTATAAAATAAAATAAAAA
10457076 AT
1 AT
10457078 ACCTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTATAAAATAAAATAAAAA
Found at i:10457703 original size:9 final size:9
Alignment explanation
Indices: 10457631--10457697 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
10457621 TTTCATTTCT
10457631 TTATTAAATA
1 TTATT-AATA
*
10457641 TTATTATTA
1 TTATTAATA
10457650 TT-TCTAATA
1 TTAT-TAATA
10457659 TTATTAATA
1 TTATTAATA
* *
10457668 TTATCACTA
1 TTATTAATA
* *
10457677 TTATCACTA
1 TTATTAATA
*
10457686 TTATTATTA
1 TTATTAATA
10457695 TTA
1 TTA
10457698 ATATTAGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
8 1 0.02
9 42 0.86
10 6 0.12
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTAATA
Found at i:10457905 original size:37 final size:38
Alignment explanation
Indices: 10457864--10457945 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
10457854 TTATATACAG
10457864 TATTATTTTTAATTACTTTAT-TTT-AATATTATTATGA-
1 TATTATTTTTAATT--TTTATATTTCAATATTATTATGAT
* ** *
10457901 TATTATATTTGCTTTTTATATTTCAATATTATTATTAT
1 TATTATTTTTAATTTTTATATTTCAATATTATTATGAT
10457939 TATTATT
1 TATTATT
10457946 ATTATTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
35 5 0.14
36 3 0.08
37 23 0.62
38 6 0.16
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (38 bp):
TATTATTTTTAATTTTTATATTTCAATATTATTATGAT
Found at i:10457996 original size:164 final size:164
Alignment explanation
Indices: 10457811--10458292 Score: 586
Period size: 167 Copynumber: 2.9 Consensus size: 164
10457801 CTATTATCAT
*
10457811 TATTATTAGTGTATATTTTTATTATATATGTACATATATATATTTATATACAGTATTATTTTTAA
1 TATTATTAGTGTATTTTTTTATTATATATGTA-ATATATATATTTATATA-AGTATTATTTTTAA
* *
10457876 TTACTTTATTTTAATATTATTATGATATTATATTTGCTTTTTATATTTCAATATTATTATTATTA
64 TTACTTTATTTTAATATTATTATTATATTATATTTGCTTTTTGTATTTCAATATTATTATTATTA
10457941 TTATTATTATTATTATTATTATTACTACTACTACTA
129 TTATTATTATTATTATTATTATTACTACTACTACTA
* * *
10457977 -A-TATTAGTATATTTTTTTATTATATATGTATATGTATTTATATTTATACATAGTATTATTTTT
1 TATTATTAGTGTATTTTTTTATTATATATGTA-A--TATATATATTTATATA-AGTATTA-TTTT
* *
10458040 TAATTACTTTATTTTAATATTTTTATTATATTACATTTGCTTTTTGTATTTCAATATTATTATTA
61 TAATTACTTTATTTTAATATTATTATTATATTATATTTGCTTTTTGTATTTCAATATTATTATTA
* * * *
10458105 TTATTATTATTATTATTATTATTATTTATTATTATTATTA
126 TTATTATTATTATTATTATTATTA-TTACTACTACTACTA
* * *
10458145 TTATTATTAGTGTA-TATTTTATTATATACGT-ATATATAT-TTATATATAA-TACTATTTTTAA
1 -TATTATTAGTGTATTTTTTTATTATATATGTAATATATATATT-TATATAAGTATTATTTTTAA
* * * ** *
10458206 TTACTTTATTTTAACATTATTATTATATT-TGCTTT--TTTTTGTATTTCATTATTATTGCTAGT
64 TTACTTTATTTTAATATTATTATTATATTAT-ATTTGCTTTTTGTATTTCAATATTATTATTATT
* * *
10458268 ATTATTATCATTATCATCATTATTA
128 ATTATTATTATTATTATTATTATTA
10458293 ACATATACAT
Statistics
Matches: 276, Mismatches: 31, Indels: 24
0.83 0.09 0.07
Matches are distributed among these distances:
160 3 0.01
161 42 0.15
163 37 0.13
164 32 0.12
165 4 0.01
166 32 0.12
167 89 0.32
168 12 0.04
170 16 0.06
171 9 0.03
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (164 bp):
TATTATTAGTGTATTTTTTTATTATATATGTAATATATATATTTATATAAGTATTATTTTTAATT
ACTTTATTTTAATATTATTATTATATTATATTTGCTTTTTGTATTTCAATATTATTATTATTATT
ATTATTATTATTATTATTATTACTACTACTACTA
Found at i:10458169 original size:3 final size:3
Alignment explanation
Indices: 10457639--10458153 Score: 119
Period size: 3 Copynumber: 174.7 Consensus size: 3
10457629 CTTTATTAAA
* * * * * *
10457639 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAC TAT TAT CAC
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10457684 TAT TAT TAT TAT TAA TAT TAGT GTA- TAT TTT TAT TAT ATAT GTAT ATAT
1 TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT -TAT -TAT
* * * *
10457733 ATAA TAT T-T T-T TAT TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
10457774 T-T TCT T-T TTT GTAT T-T CAA TAT TAT TAC TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10457817 TAGT GTA- TAT TTT TAT TAT ATAT GTA- CAT ATAT ATAT T-T ATAT ACAG
1 TA-T -TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT -TAT TAT -TAT -TAT
* * * *
10457864 TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TAT GA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * *
10457906 TAT T-T GCT TTT TA- TAT T-T CAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
10457951 TAT TAT TAT TAT TAC TAC TAC TAC TAA TAT TAG TA- TAT T-T TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10457997 TAT ATAT GTA- TAT GTAT T-T ATAT T-T ATACA TAG TAT TAT T-T T-T
1 TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TA-T TAT TAT TAT TAT TAT
* * * * **
10458040 TAAT TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT TA- CAT T-T GCT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10458081 T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10458124 TAT TATT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
10458154 GTGTATATTT
Statistics
Matches: 378, Mismatches: 83, Indels: 102
0.67 0.15 0.18
Matches are distributed among these distances:
2 54 0.14
3 271 0.72
4 49 0.13
5 4 0.01
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10459366 original size:2 final size:2
Alignment explanation
Indices: 10459359--10459397 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10459349 TTGGGACTTA
10459359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10459398 AATTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10463746 original size:28 final size:29
Alignment explanation
Indices: 10463698--10463756 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
10463688 TCTCTCAATA
*
10463698 AATTTCCACTTTTAATGCTATTCTTT-TT
1 AATTTCCACTTTTAATGCTATTATTTATT
* *
10463726 AATTT-CATCTTTTATTTCTATTATTTATT
1 AATTTCCA-CTTTTAATGCTATTATTTATT
10463755 AA
1 AA
10463757 GTTTTTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.08
28 20 0.77
29 4 0.15
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (29 bp):
AATTTCCACTTTTAATGCTATTATTTATT
Found at i:10467162 original size:2 final size:2
Alignment explanation
Indices: 10467155--10467204 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
10467145 TCCCAATCCC
10467155 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10467197 GA GA GA GA
1 GA GA GA GA
10467205 AAAGAAACAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10473036 original size:19 final size:20
Alignment explanation
Indices: 10473002--10473076 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
10472992 ATTTTTTAAA
*
10473002 ATTTAAAAATTCAAAAAATT
1 ATTTAAAAATTAAAAAAATT
10473022 ATTTAAAAA-TAAAAAAA-T
1 ATTTAAAAATTAAAAAAATT
* *
10473040 A-TT-AAAATTATTAAAAAGT
1 ATTTAAAAATTA-AAAAAATT
10473059 A--TAAAAATTATAAAAAAT
1 ATTTAAAAATTA-AAAAAAT
10473077 ATTGTTTAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.09
17 4 0.09
18 8 0.17
19 22 0.47
20 9 0.19
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
ATTTAAAAATTAAAAAAATT
Found at i:10473036 original size:27 final size:26
Alignment explanation
Indices: 10472991--10473079 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
10472981 ATCAGTAATT
* * *
10472991 AATTTTTTAAAATTTAAAAATTCAAAA
1 AATTATTTAAAAATAAAAAATT-AAAA
* *
10473018 AATTATTTAAAAATAAAAAAATATTAA
1 AATTATTTAAAAATAAAAAATTA-AAA
10473045 AATTA-TTAAAAAGTATAAAAATTATAAA
1 AATTATTTAAAAA-TA-AAAAATTA-AAA
*
10473073 AAATATT
1 AATTATT
10473080 GTTTAAGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
26 8 0.16
27 27 0.54
28 14 0.28
29 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AATTATTTAAAAATAAAAAATTAAAA
Found at i:10473037 original size:20 final size:21
Alignment explanation
Indices: 10473002--10473043 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
10472992 ATTTTTTAAA
**
10473002 ATTTAAAAATTCAAAAA-ATT
1 ATTTAAAAATAAAAAAATATT
10473022 ATTTAAAAATAAAAAAATATT
1 ATTTAAAAATAAAAAAATATT
10473043 A
1 A
10473044 AAATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTAAAAATAAAAAAATATT
Found at i:10473046 original size:9 final size:9
Alignment explanation
Indices: 10473024--10473079 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
10473014 AAAAAATTAT
10473024 TTAAAAATA
1 TTAAAAATA
*
10473033 -AAAAAATA
1 TTAAAAATA
*
10473041 TTAAAATTA
1 TTAAAAATA
10473050 TTAAAAAGTA
1 TTAAAAA-TA
10473060 -TAAAAATTA
1 TTAAAAA-TA
*
10473069 TAAAAAATA
1 TTAAAAATA
10473078 TT
1 TT
10473080 GTTTAAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.19
9 23 0.62
10 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
TTAAAAATA
Found at i:10473055 original size:18 final size:18
Alignment explanation
Indices: 10473014--10473079 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
10473004 TTAAAAATTC
*
10473014 AAAAAATTATTTAAAAATA-
1 AAAAAA-TA-TTAAAATTAT
10473033 AAAAAATATTAAAATTATT
1 AAAAAATATTAAAATTA-T
* *
10473052 AAAAAGTATAAAAATTAT
1 AAAAAATATTAAAATTAT
10473070 AAAAAATATT
1 AAAAAATATT
10473080 GTTTAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.20
18 11 0.28
19 21 0.52
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAAATATTAAAATTAT
Found at i:10483771 original size:23 final size:22
Alignment explanation
Indices: 10483745--10483815 Score: 54
Period size: 25 Copynumber: 3.0 Consensus size: 22
10483735 AATATCATAT
10483745 ATAATATATATAAATTTAAAAAA
1 ATAAT-TATATAAATTTAAAAAA
* *
10483768 ATAAATTTTTATAAAATTCTAAAATAT
1 AT-AA-TTATAT-AAATT-TAAAA-AA
*
10483795 ATAATTATA-AATTTTAAAAAA
1 ATAATTATATAAATTTAAAAAA
10483816 TTAAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 6 0.16
24 6 0.16
25 10 0.26
26 7 0.18
27 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAATTATATAAATTTAAAAAA
Found at i:10483805 original size:33 final size:33
Alignment explanation
Indices: 10483768--10483831 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
10483758 ATTTAAAAAA
* **
10483768 ATAAATTTTTATAAAATTCTAA-AATATATAATT
1 ATAAA-TTTTAAAAAATTAAAATAATATATAATT
10483801 ATAAATTTTAAAAAATTAAAATAATATATAA
1 ATAAATTTTAAAAAATTAAAATAATATATAA
10483832 AAATTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (33 bp):
ATAAATTTTAAAAAATTAAAATAATATATAATT
Found at i:10484932 original size:18 final size:18
Alignment explanation
Indices: 10484901--10484960 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
10484891 GGTTTCAAAT
*
10484901 ATTATAAAACTATTAAAAA
1 ATTA-AAAATTATTAAAAA
10484920 ATTAAAAATTATTAAAAA
1 ATTAAAAATTATTAAAAA
*
10484938 TTTAAAAAATCT-TTAAAAA
1 ATT-AAAAAT-TATTAAAAA
10484957 ATTA
1 ATTA
10484961 CTGAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 16 0.44
19 19 0.53
20 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAAATTATTAAAAA
Found at i:10484933 original size:10 final size:10
Alignment explanation
Indices: 10484900--10484956 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
10484890 TGGTTTCAAA
*
10484900 TATTATAAAAC
1 TATTA-AAAAT
10484911 TATTAAAAA-
1 TATTAAAAAT
10484920 -ATTAAAAAT
1 TATTAAAAAT
10484929 TATTAAAAAT
1 TATTAAAAAT
*
10484939 T-TAAAAAAT
1 TATTAAAAAT
10484948 CT-TTAAAAA
1 -TATTAAAAA
10484957 ATTACTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 8 0.20
9 7 0.17
10 21 0.51
11 5 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:10484937 original size:19 final size:18
Alignment explanation
Indices: 10484901--10484960 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
10484891 GGTTTCAAAT
*
10484901 ATTATAAAACTATTAAAAA
1 ATTA-AAAAATATTAAAAA
*
10484920 ATTAAAAATTATTAAAAA
1 ATTAAAAAATATTAAAAA
* *
10484938 TTTAAAAAATCTTTAAAAA
1 ATTAAAAAAT-ATTAAAAA
10484957 ATTA
1 ATTA
10484961 CTGAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAAAATATTAAAAA
Found at i:10485731 original size:2 final size:2
Alignment explanation
Indices: 10485724--10485748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10485714 AAGCAGTCAA
10485724 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10485749 AAAAATCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10488208 original size:18 final size:18
Alignment explanation
Indices: 10488185--10488219 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10488175 TTACATATAA
10488185 AAATAATAATTATATTTG
1 AAATAATAATTATATTTG
* *
10488203 AAATAATTATTTTATTT
1 AAATAATAATTATATTT
10488220 TATAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATAATAATTATATTTG
Found at i:10491523 original size:31 final size:31
Alignment explanation
Indices: 10491461--10491541 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
10491451 ATTTCAAATT
* *
10491461 TTGAAAAGTACAAGGATTAACATTAACCAAA
1 TTGAAAAGTACAAGGACTAAAATTAACCAAA
* * *
10491492 TTGAAAACTACAAGGACTAAAATTGATCAAA
1 TTGAAAAGTACAAGGACTAAAATTAACCAAA
*
10491523 TT--AAAGTATAAGGACTAAA
1 TTGAAAAGTACAAGGACTAAA
10491542 TCTACAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 15 0.35
31 28 0.65
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (31 bp):
TTGAAAAGTACAAGGACTAAAATTAACCAAA
Found at i:10494664 original size:10 final size:9
Alignment explanation
Indices: 10494650--10494684 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
10494640 TTTTTAAATT
10494650 TTTTTTGAA
1 TTTTTTGAA
10494659 TGTTTTTGAA
1 T-TTTTTGAA
10494669 TTTTTTTGAA
1 -TTTTTTGAA
10494679 TTTTTT
1 TTTTTT
10494685 AAAATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.29
10 16 0.67
11 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:10499455 original size:259 final size:259
Alignment explanation
Indices: 10498996--10499511 Score: 942
Period size: 259 Copynumber: 2.0 Consensus size: 259
10498986 CTGAAATATT
*
10498996 AAAGCAAGAATTAAGAACACATAATTAAGAGTAAGAACAAGTATTTATCATATAATTCAAATAAT
1 AAAGCAAGAATTAAGAACACATAATTAAGAGTAAGAACAAGTACTTATCATATAATTCAAATAAT
* *
10499061 AATAAGATCTGTCTTAGGTTTCATCTCCTTTAGGTACTTAGGGAGTTTAGTTCATAACGATGGGG
66 AATAAGATCTGTCTTAAGTTTCATCTCCCTTAGGTACTTAGGGAGTTTAGTTCATAACGATGGGG
*
10499126 GACAACATCTCAAAATTAGGAAAACAACGAAACATAAAGAAACTCAAAGAACTTCTAATGAAATT
131 GACAACATCTCAAAATTAGGAAAACAACGAAACATAAAGAAACCCAAAGAACTTCTAATGAAATT
** *
10499191 GAATGGAGGTTTTTAGTCTTGAAGTAGAGCCTGCTTCCGAGCTGATTCCGATGGCTGTCTTCGA
196 GAATGGAGGTTTCCAGTCTTGAAGTAGAGCCTGCTTCCGAGCTGATTCCGATGGCCGTCTTCGA
10499255 AAAGCAAGAATTAAGAACACATAATTAAGAGTAAGAACAAGTACTTATCATATAATTCAAATAAT
1 AAAGCAAGAATTAAGAACACATAATTAAGAGTAAGAACAAGTACTTATCATATAATTCAAATAAT
10499320 AATAAGATCTGTCTTAAGTTTCATCTCCCTTAGGTACTTAGGGAGTTTAGTTCATAACGATGGGG
66 AATAAGATCTGTCTTAAGTTTCATCTCCCTTAGGTACTTAGGGAGTTTAGTTCATAACGATGGGG
*
10499385 GACAACATCTCAAAATTGGGAAAACAACGAAACATAAAGAAACCCAAAGAACTTCTAATGAAATT
131 GACAACATCTCAAAATTAGGAAAACAACGAAACATAAAGAAACCCAAAGAACTTCTAATGAAATT
* *
10499450 GAATGGAGGTTTCCAGTCTTGAAGTAGATCCTGCTTCCGAGCTGATTCTGATGGCCGTCTTC
196 GAATGGAGGTTTCCAGTCTTGAAGTAGAGCCTGCTTCCGAGCTGATTCCGATGGCCGTCTTC
10499512 AAGTATTTTC
Statistics
Matches: 247, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
259 247 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (259 bp):
AAAGCAAGAATTAAGAACACATAATTAAGAGTAAGAACAAGTACTTATCATATAATTCAAATAAT
AATAAGATCTGTCTTAAGTTTCATCTCCCTTAGGTACTTAGGGAGTTTAGTTCATAACGATGGGG
GACAACATCTCAAAATTAGGAAAACAACGAAACATAAAGAAACCCAAAGAACTTCTAATGAAATT
GAATGGAGGTTTCCAGTCTTGAAGTAGAGCCTGCTTCCGAGCTGATTCCGATGGCCGTCTTCGA
Found at i:10509751 original size:27 final size:28
Alignment explanation
Indices: 10509695--10509764 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
10509685 AAACTTGTAC
10509695 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
10509723 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
10509750 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
10509765 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:10509775 original size:27 final size:27
Alignment explanation
Indices: 10509695--10509776 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
10509685 AAACTTGTAC
* *
10509695 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
10509723 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
10509750 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
10509777 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:10516985 original size:27 final size:28
Alignment explanation
Indices: 10516929--10516998 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
10516919 AAACTTGTAC
10516929 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
10516957 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
10516984 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
10516999 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:10517009 original size:27 final size:27
Alignment explanation
Indices: 10516929--10517010 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
10516919 AAACTTGTAC
* *
10516929 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
10516957 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
10516984 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
10517011 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:10518553 original size:19 final size:19
Alignment explanation
Indices: 10518531--10518567 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10518521 TAAGTTTAAG
* *
10518531 TCCATTTAAAATATTTATT
1 TCCATTGAAAACATTTATT
10518550 TCCATTGAAAACATTTAT
1 TCCATTGAAAACATTTAT
10518568 GTTGCGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.46
Consensus pattern (19 bp):
TCCATTGAAAACATTTATT
Found at i:10519758 original size:8 final size:8
Alignment explanation
Indices: 10519725--10519764 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
10519715 TTACAAATGC
10519725 CGGCTTTT
1 CGGCTTTT
*
10519733 CAGCTTTT
1 CGGCTTTT
*
10519741 CAGCTTTT
1 CGGCTTTT
10519749 CGGCTTTT
1 CGGCTTTT
*
10519757 CGACTTTT
1 CGGCTTTT
10519765 GCCGATCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.07, C:0.25, G:0.17, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:10522639 original size:46 final size:46
Alignment explanation
Indices: 10522457--10522725 Score: 347
Period size: 46 Copynumber: 6.0 Consensus size: 46
10522447 GGTTGTTACA
* *
10522457 ATGGCAACATGATATGAAATG--TAAGATCATGGTTG-AAGATACC
1 ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACC
* * **
10522500 ATGGCATCATGATATG-AATGTGTAAGACCATGGTTGAAAGATA-C
1 ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACC
*
10522544 ATGGCAACATGATA-GAAAATGAATAAGA-CATGGTTGAAAGATACC
1 ATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAGATACC
*
10522589 ATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACC
* *
10522635 ATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACC
* * *
10522681 ATGGCAACATGACA-GAAAATGAGTAAGACTATAGTTGAAAGATAC
1 ATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAGATAC
10522726 TATGACATCA
Statistics
Matches: 204, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
42 4 0.02
43 16 0.08
44 42 0.21
45 41 0.20
46 101 0.50
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACC
Found at i:10522698 original size:137 final size:133
Alignment explanation
Indices: 10522457--10522725 Score: 378
Period size: 137 Copynumber: 2.0 Consensus size: 133
10522447 GGTTGTTACA
* * * * **
10522457 ATGGCAACATGATATGAAATGTAAGATCATGGTTGAAGATACCATGGCATCATGATATGAATGTG
1 ATGGCAACATGACATGAAATGTAAGACCATGGTTGAAGATACCATGGCAACATGACATGAATGAA
* * *
10522522 TAAGACCATGGTTGAAAGATACATGGCAACATGATAGAAAATGAATAAGAC-ATGGTTGAAAGAT
66 CAAGACCATGGTTGAAAGATACATGGCAACATGACAGAAAATGAATAAGACTATAGTTGAAAGAT
10522586 ACC
131 ACC
* *
10522589 ATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 ATGGCAACATGACATGAAATG--TAAGACCATGGTTG-AAGATACCATGGCAACATGACATG-AA
*
10522654 TGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACTATAGTTGA
62 TGAACAAGACCATGGTTGAAAGATA-CATGGCAACATGACAGAAAATGAATAAGACTATAGTTGA
10522719 AAGATAC
126 AAGATAC
10522726 TATGACATCA
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
132 19 0.16
134 13 0.11
135 21 0.18
136 24 0.20
137 28 0.24
138 14 0.12
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (133 bp):
ATGGCAACATGACATGAAATGTAAGACCATGGTTGAAGATACCATGGCAACATGACATGAATGAA
CAAGACCATGGTTGAAAGATACATGGCAACATGACAGAAAATGAATAAGACTATAGTTGAAAGAT
ACC
Found at i:10529361 original size:28 final size:26
Alignment explanation
Indices: 10529330--10529396 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
10529320 TGTTGATGAT
10529330 AAAATAAAATATTTTAATCCTTGTACTA
1 AAAATAAAATATTTT--TCCTTGTACTA
* ** *
10529358 AAAATATAAT-TGCTTGCTTGTACTA
1 AAAATAAAATATTTTTCCTTGTACTA
10529383 AAAATAAAATATTT
1 AAAATAAAATATTT
10529397 GCATGCTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
25 19 0.61
26 1 0.03
27 2 0.06
28 9 0.29
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (26 bp):
AAAATAAAATATTTTTCCTTGTACTA
Found at i:10529765 original size:12 final size:12
Alignment explanation
Indices: 10529748--10529774 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10529738 ACAATAATTA
10529748 TTGGGTATTGTT
1 TTGGGTATTGTT
10529760 TTGGGTATTGTT
1 TTGGGTATTGTT
10529772 TTG
1 TTG
10529775 CATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (12 bp):
TTGGGTATTGTT
Found at i:10530017 original size:32 final size:32
Alignment explanation
Indices: 10529976--10530040 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10529966 CAAGATGACG
10529976 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
* *
10530008 AGATAGATGTAAAGGCTAAGGGCAAATATAAA
1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
10530040 A
1 A
10530041 CAAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (32 bp):
AGATAGATGTAAAAGCCAAGGGCAAATATAAA
Found at i:10534175 original size:17 final size:17
Alignment explanation
Indices: 10534155--10534187 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10534145 ATTAAGAATG
10534155 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
10534172 TTATTAAATTATATTT
1 TTATTAAATTATATTT
10534188 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:10534453 original size:46 final size:44
Alignment explanation
Indices: 10534360--10534453 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
10534350 ATTACAACAT
*
10534360 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
***
10534404 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
10534450 CATT
1 CATT
10534454 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.50
45 3 0.07
46 19 0.43
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:10534456 original size:16 final size:16
Alignment explanation
Indices: 10534435--10534490 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
10534425 TGAATTACTT
10534435 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
10534451 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
10534467 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
10534483 ATTACAGC
1 ATTACAGC
10534491 CAACCAAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:10535181 original size:2 final size:2
Alignment explanation
Indices: 10535169--10535198 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10535159 ATGTATCATG
*
10535169 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10535199 GACTAGTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10537266 original size:14 final size:14
Alignment explanation
Indices: 10537247--10537273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10537237 AGAACCAAAC
10537247 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
10537261 AAAAGAAAAATTA
1 AAAAGAAAAATTA
10537274 AACTAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:10543862 original size:26 final size:26
Alignment explanation
Indices: 10543832--10543977 Score: 247
Period size: 26 Copynumber: 5.6 Consensus size: 26
10543822 AATGTAGACA
* *
10543832 AAATGTTACATGATAATGTGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
*
10543858 AAATGTTCCATGATAATGGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
*
10543884 AAATGTTTCATGATAATAGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
*
10543910 AAATGTTCCATGATAATGGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
10543936 AAATGTTTCATGATAATGGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
10543962 AAATGTTTCATGATAA
1 AAATGTTTCATGATAA
10543978 GAATATCATG
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 113 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
AAATGTTTCATGATAATGGGTTAGGT
Found at i:10546005 original size:136 final size:136
Alignment explanation
Indices: 10545761--10546181 Score: 788
Period size: 136 Copynumber: 3.1 Consensus size: 136
10545751 GAGTAGTCTC
10545761 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
10545826 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10545891 CTGTTA
131 CTGTTA
10545897 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
10545962 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10546027 CTGTTA
131 CTGTTA
10546033 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
10546098 GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTTGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10546163 CTGTTA
131 CTGTTA
**
10546169 CCTGAATGGGCTT
1 CCCAAATGGGCTT
10546182 AGGCCCAATA
Statistics
Matches: 278, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 278 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
CTGTTA
Found at i:10550013 original size:26 final size:26
Alignment explanation
Indices: 10549945--10550104 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
10549935 TGATACAAAT
*
10549945 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
10549970 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10549995 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
10550021 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10550047 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10550073 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10550099 TGATAA
1 TGATAA
10550105 GAATTCATGT
Statistics
Matches: 127, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
24 13 0.10
25 17 0.13
26 97 0.76
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:10551618 original size:25 final size:26
Alignment explanation
Indices: 10551577--10551628 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10551567 AATTACTGTT
10551577 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
10551602 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
10551628 T
1 T
10551629 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:10552120 original size:136 final size:136
Alignment explanation
Indices: 10551876--10552294 Score: 779
Period size: 136 Copynumber: 3.1 Consensus size: 136
10551866 GAGTAGTCTC
10551876 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
10551941 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10552006 CTGTTA
131 CTGTTA
10552012 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
10552077 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCC-AGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10552141 CTGTTA
131 CTGTTA
10552147 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
10552212 GTTATCTAAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTTGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
10552276 CTGTTA
131 CTGTTA
**
10552282 CCTGAATGGGCTT
1 CCCAAATGGGCTT
10552295 AGGCCCAATA
Statistics
Matches: 277, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
134 42 0.15
135 113 0.41
136 122 0.44
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
CTGTTA
Found at i:10552274 original size:135 final size:136
Alignment explanation
Indices: 10551876--10552294 Score: 770
Period size: 135 Copynumber: 3.1 Consensus size: 136
10551866 GAGTAGTCTC
10551876 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
10551941 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACCA
10552006 CTGTTA
131 CTGTTA
10552012 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
10552077 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACCA
10552141 CTGTTA
131 CTGTTA
10552147 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
10552212 GTTATCTAAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTTGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACCA
10552276 CTGTTA
131 CTGTTA
**
10552282 CCTGAATGGGCTT
1 CCCAAATGGGCTT
10552295 AGGCCCAATA
Statistics
Matches: 275, Mismatches: 7, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
134 39 0.14
135 118 0.43
136 118 0.43
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACCA
CTGTTA
Found at i:10554986 original size:24 final size:25
Alignment explanation
Indices: 10554930--10555033 Score: 192
Period size: 25 Copynumber: 4.2 Consensus size: 25
10554920 TGATACAAAT
10554930 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
10554956 TGATAATGGTTAGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
10554980 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
10555005 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
10555030 TGAT
1 TGAT
10555034 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
24 24 0.31
25 46 0.60
26 7 0.09
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:10554995 original size:49 final size:51
Alignment explanation
Indices: 10554930--10555033 Score: 194
Period size: 49 Copynumber: 2.1 Consensus size: 51
10554920 TGATACAAAT
10554930 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
10554980 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
10555030 TGAT
1 TGAT
10555034 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 40 0.75
50 13 0.25
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
Found at i:10558893 original size:2 final size:2
Alignment explanation
Indices: 10558886--10558922 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10558876 TCGAATTGCT
*
10558886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10558923 TTCTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10559588 original size:3 final size:3
Alignment explanation
Indices: 10559576--10559762 Score: 168
Period size: 3 Copynumber: 62.3 Consensus size: 3
10559566 TTATTTTGGC
* * *
10559576 TAT T-T TAT TAT TA- AAT CTAT TAT TAT TAC TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
10559620 TAG TAG TAG TAT TAT TAT TAT CAT TCT TAT TAT TAT TGT CT-T TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * *
10559665 TAC TAT TAT TAT TAT TAT TAAT GTAT TAT TAT TCTT TAT T-C TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT T-AT TAT TAT TAT TAT
*
10559712 TAT T-G TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10559759 TAT T
1 TAT T
10559763 TCTTTTTAGA
Statistics
Matches: 153, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
2 6 0.04
3 137 0.90
4 9 0.06
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:10559860 original size:3 final size:3
Alignment explanation
Indices: 10559846--10559890 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
10559836 TTTATGTTAA
*
10559846 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10559891 ATTTTTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:10566753 original size:18 final size:18
Alignment explanation
Indices: 10566730--10566765 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10566720 GAGTCCAACA
*
10566730 ATGAAGAGTAGTTCGACC
1 ATGAAGAGTAGTCCGACC
10566748 ATGAAGAGTAGTCCGACC
1 ATGAAGAGTAGTCCGACC
10566766 GAGATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (18 bp):
ATGAAGAGTAGTCCGACC
Found at i:10568471 original size:31 final size:31
Alignment explanation
Indices: 10568433--10568495 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
10568423 GAAAGGGAGT
10568433 AAGCTTCAAAGCTTAGTAAGTTCATATGCAA
1 AAGCTTCAAAGCTTAGTAAGTTCATATGCAA
10568464 AAGCTTCAAAGCTTAGTAAGTTCATATGCAA
1 AAGCTTCAAAGCTTAGTAAGTTCATATGCAA
10568495 A
1 A
10568496 TAAATAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGCTTCAAAGCTTAGTAAGTTCATATGCAA
Found at i:10569315 original size:48 final size:48
Alignment explanation
Indices: 10569244--10569383 Score: 235
Period size: 48 Copynumber: 2.9 Consensus size: 48
10569234 CACATAGTAA
*
10569244 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACTTATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
10569292 GATGCTAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
10569340 AATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
10569384 CATAACCCTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:10575615 original size:48 final size:48
Alignment explanation
Indices: 10575559--10575797 Score: 352
Period size: 48 Copynumber: 5.0 Consensus size: 48
10575549 CATTAGAGTT
* * * *
10575559 ATATGTGATCTCATGTAAGACCATGTCTGGAACATGACATTGGCATTG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
10575607 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGAATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
10575655 ATACGTGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATCT
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
10575703 ATATGTGATCCCATTTAAGACCATGTCTGGGACATGGCATTGGCATCA
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
10575751 ATATGTGATCCTATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
10575798 TTACTATGTG
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:10580927 original size:27 final size:28
Alignment explanation
Indices: 10580890--10581029 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
10580880 AGCATGGCTG
* *
10580890 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
10580916 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
10580944 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
10580971 CCAGAT-CAGATATTTGTGGCAGAGCGA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
10580998 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
10581025 CCAGA
1 CCAGA
10581030 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:10581466 original size:16 final size:15
Alignment explanation
Indices: 10581445--10581474 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10581435 AAAATACTGA
10581445 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
10581461 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
10581475 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:10582708 original size:26 final size:26
Alignment explanation
Indices: 10582639--10582721 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
10582629 CATGAAATTC
* *
10582639 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
10582665 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10582690 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10582716 TTATCA
1 TTATCA
10582722 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.43
26 31 0.57
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:10582732 original size:10 final size:10
Alignment explanation
Indices: 10582717--10582748 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
10582707 CCTAACCTAT
10582717 TATCAATTTG
1 TATCAATTTG
10582727 TATCAATTTG
1 TATCAATTTG
10582737 TATCAATTTG
1 TATCAATTTG
10582747 TA
1 TA
10582749 CCATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:10586738 original size:27 final size:28
Alignment explanation
Indices: 10586701--10586840 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
10586691 AGCATGGCTG
* *
10586701 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
10586727 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
10586755 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
10586782 CCAGAT-CAGATATTTGTGGCAGAGCGA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
10586809 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
10586836 CCAGA
1 CCAGA
10586841 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:10588491 original size:26 final size:26
Alignment explanation
Indices: 10588455--10588564 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
10588445 CATGAAATTC
10588455 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10588481 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10588507 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
10588533 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10588559 TTATCA
1 TTATCA
10588565 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10588575 original size:10 final size:10
Alignment explanation
Indices: 10588560--10588591 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
10588550 CCTAACCTAT
10588560 TATCAATTTG
1 TATCAATTTG
10588570 TATCAATTTG
1 TATCAATTTG
10588580 TATCAATTTG
1 TATCAATTTG
10588590 TA
1 TA
10588592 CCATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:10589143 original size:20 final size:22
Alignment explanation
Indices: 10589077--10589148 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
10589067 CAGTTATCTT
* *
10589077 ACCATCGCAAATTCCACCACCG
1 ACCATCGTAAGTTCCACCACCG
* **
10589099 ACCATCGCAAGTTCCACTGCCG
1 ACCATCGTAAGTTCCACCACCG
10589121 ACCATCGTAAG-T-CACCACCG
1 ACCATCGTAAGTTCCACCACCG
10589141 ACCATCGT
1 ACCATCGT
10589149 CAACCACCGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.32
21 1 0.02
22 29 0.66
ACGTcount: A:0.28, C:0.42, G:0.14, T:0.17
Consensus pattern (22 bp):
ACCATCGTAAGTTCCACCACCG
Found at i:10589156 original size:20 final size:21
Alignment explanation
Indices: 10589090--10589156 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
10589080 ATCGCAAATT
10589090 CCACCACCGACCATCG-CAAG
1 CCACCACCGACCATCGTCAAG
**
10589110 TTCCACTGCCGACCATCGT-AAG
1 --CCACCACCGACCATCGTCAAG
*
10589132 TCACCACCGACCATCGTCAA-
1 CCACCACCGACCATCGTCAAG
10589152 CCACC
1 CCACC
10589157 GCTAGTCACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 18 0.49
21 2 0.05
22 17 0.46
ACGTcount: A:0.27, C:0.46, G:0.13, T:0.13
Consensus pattern (21 bp):
CCACCACCGACCATCGTCAAG
Found at i:10591486 original size:23 final size:23
Alignment explanation
Indices: 10591460--10591504 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10591450 AACATTCTAC
10591460 AAAACTAATATACAAAAATATAT
1 AAAACTAATATACAAAAATATAT
* * **
10591483 AAAATTTATATAGGAAAATATA
1 AAAACTAATATACAAAAATATA
10591505 AAATTTGACC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAACTAATATACAAAAATATAT
Found at i:10591492 original size:21 final size:21
Alignment explanation
Indices: 10591468--10591510 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10591458 ACAAAACTAA
10591468 TATACA-AAAATATATAAAATT
1 TATACAGAAAA-ATATAAAATT
* *
10591489 TATATAGGAAAATATAAAATT
1 TATACAGAAAAATATAAAATT
10591510 T
1 T
10591511 GACCAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
TATACAGAAAAATATAAAATT
Found at i:10592253 original size:53 final size:52
Alignment explanation
Indices: 10592148--10592254 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 52
10592138 CCCAGCATCT
* * * * *
10592148 AATTTTTTTTAATTCTGGTACAAGGATGCTGGCTATCAGTGTCCTAATACCA
1 AATTTTTTTTAAATCTGGTACAAGGATGCTGACCATCAGCGTCCTAACACCA
*
10592200 AATTTTTTTTAAAATCTGGTACAA-GAGTGCTGACCATTAGCGTGCC-AACACCA
1 AATTTTTTTT-AAATCTGGTACAAGGA-TGCTGACCATCAGCGT-CCTAACACCA
10592253 AA
1 AA
10592255 AAAAATTCGG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
52 12 0.26
53 32 0.70
54 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AATTTTTTTTAAATCTGGTACAAGGATGCTGACCATCAGCGTCCTAACACCA
Found at i:10595570 original size:23 final size:21
Alignment explanation
Indices: 10595544--10595585 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
10595534 AACGAAGTAC
*
10595544 AATATTATTTAACTACATAAACA
1 AATATAATTT-ACTAC-TAAACA
10595567 AATATAATTTACTACTAAA
1 AATATAATTTACTACTAAA
10595586 TAATTACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATAATTTACTACTAAACA
Done.