Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 149 of 205
Found at i:45243761 original size:19 final size:18
Alignment explanation
Indices: 45243729--45243765 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45243719 TATATTTATA
45243729 AAATTTATTATTTATTTT
1 AAATTTATTATTTATTTT
*
45243747 AAATTTGATTCTTTATTTT
1 AAATTT-ATTATTTATTTT
45243766 TATAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
AAATTTATTATTTATTTT
Found at i:45245340 original size:15 final size:16
Alignment explanation
Indices: 45245315--45245348 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
45245305 TAAATATAAT
45245315 TTTATTATTTTAATAG
1 TTTATTATTTTAATAG
45245331 TTTA-TATTTTAATAG
1 TTTATTATTTTAATAG
45245346 TTT
1 TTT
45245349 TGGATCGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTATTTTAATAG
Found at i:45245419 original size:15 final size:15
Alignment explanation
Indices: 45245394--45245430 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
45245384 ATAATACAAT
45245394 TTTATTATTTTAATAA
1 TTTA-TATTTTAATAA
*
45245410 TTTATATTTTTATAA
1 TTTATATTTTAATAA
45245425 TTTATA
1 TTTATA
45245431 AATAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATATTTTAATAA
Found at i:45245421 original size:80 final size:80
Alignment explanation
Indices: 45245264--45245419 Score: 253
Period size: 80 Copynumber: 2.0 Consensus size: 80
45245254 TATTTCTTTA
*
45245264 AGTTTTAGGTCGAAATTAAATTATATATTTTTACGATAATATAAATATAATTTTATTATTTTAAT
1 AGTTTTAGGTCGAAATTAAATTATATATTTTTACGATAATATAAATACAATTTTATTATTTTAAT
*
45245329 AGTTTATATTTTAAT
66 AATTTATATTTTAAT
* *
45245344 AGTTTT-GGATCGGAATTAAATTATATATTTTTAGGATAATAT-AATACAATTTTATTATTTTAA
1 AGTTTTAGG-TCGAAATTAAATTATATATTTTTACGATAATATAAATACAATTTTATTATTTTAA
45245407 TAATTTATATTTT
65 TAATTTATATTTT
45245420 TATAATTTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
79 34 0.48
80 37 0.52
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (80 bp):
AGTTTTAGGTCGAAATTAAATTATATATTTTTACGATAATATAAATACAATTTTATTATTTTAAT
AATTTATATTTTAAT
Found at i:45248735 original size:95 final size:95
Alignment explanation
Indices: 45248477--45248947 Score: 377
Period size: 95 Copynumber: 5.0 Consensus size: 95
45248467 AGGGATTAGT
** * * * * * * *
45248477 GCTTTAATCTACTCCACTGTAACTTCAGGGAGATTAGACTCGCATCTACAATTTACTCCACTGCA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCA
* * *
45248542 ACTTTC-GGGAGATAATATTTGTAATTTGTA
66 AC-TTCAAGGAGATAAGATTTGTAACTTGTA
* * * * * *
45248572 GCCTTAATCTGTTTCACTGCAACTTTAAGGAAATAATATTCGCATCTTCAATCTGCTCCACTACA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCA
* * *
45248637 ACTTCAAAGAGATTAGATTTGTAACTCGTA
66 ACTTCAAGGAGATAAGATTTGTAACTTGTA
* *
45248667 GCTTTGATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCA
* * * *
45248732 ACTTTAGGGAGGTAAGACTTGTAAC-T-T-
66 ACTTCAAGGAGATAAGATTTGTAACTTGTA
* * ** * * * * * *
45248759 -C---AACCCGCCCCACTGTAACTTCAGAGAGATAATATTTGCCATAATGACTTCAATCT-ATCC
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCG-C---AT--CTTCAATCTGCT-C
* * * *
45248819 CACTGCAACTTC-AGGGGTATAGGATTTGTGATTTGTA
59 CACTGCAACTTCAAGGAG-ATAAGATTTGTAACTTGTA
* * * * *
45248856 GCTTTAATCTATTCCACTACAACTTCAGGGAAATGAGATTCGCATATTCAATCTGCTCCACTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCA
45248921 ACTTCAAGGAGATAAGATTTGTAACTT
66 ACTTCAAGGAGATAAGATTTGTAACTT
45248948 CAAGGAGATA
Statistics
Matches: 283, Mismatches: 75, Indels: 36
0.72 0.19 0.09
Matches are distributed among these distances:
88 27 0.10
89 1 0.00
91 1 0.00
92 2 0.01
93 5 0.02
94 32 0.11
95 180 0.64
96 6 0.02
97 2 0.01
98 1 0.00
100 1 0.00
101 25 0.09
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (95 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCA
ACTTCAAGGAGATAAGATTTGTAACTTGTA
Found at i:45248748 original size:44 final size:44
Alignment explanation
Indices: 45248673--45248782 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
45248663 CGTAGCTTTG
* * *
45248673 ATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCATCTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAAATAAGACTT-GCAACTTCA
* ** *
45248717 ATCTGCTCCACTGTAACTTTAGGGAGGTAAGACTTGTAACTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAAATAAGACTTGCAACTTCA
* * *
45248761 ACCCGCCCCACTGTAACTTCAG
1 ATCTGCTCCACTGTAACTTCAG
45248783 AGAGATAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 52 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGGGAAATAAGACTTGCAACTTCA
Found at i:45248944 original size:23 final size:23
Alignment explanation
Indices: 45248917--45248973 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
45248907 TCTGCTCCAC
45248917 TGTAACTTCAAGGAGATAAGATT
1 TGTAACTTCAAGGAGATAAGATT
45248940 TGTAACTTCAAGGAGATAAGATT
1 TGTAACTTCAAGGAGATAAGATT
45248963 TGTAACTTCAA
1 TGTAACTTCAA
45248974 TCTGCCCCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (23 bp):
TGTAACTTCAAGGAGATAAGATT
Found at i:45249045 original size:162 final size:163
Alignment explanation
Indices: 45248805--45249099 Score: 434
Period size: 162 Copynumber: 1.8 Consensus size: 163
45248795 TGCCATAATG
* * * *
45248805 ACTTCAATCTATCCCACTGCAACTTCAGGGGTATAGGATTTGTGATTTGTAGCTTTAATCTATTC
1 ACTTCAATCTACCCCACTGCAACTTCAGGGGTATACGATTTGTAATTTGTAGCCTTAATCTATTC
* * *
45248870 CACTACAACTTCAGGGAAATGAGATTCGC-ATATTCAATCTGCTCCACTGTAACTTCAAGGAGAT
66 CACTACAACTTCAGGAAAATAAGATTCGCTATATTCAATCTGCTCCACTGCAACTTCAAGGAGAT
45248934 AAGATTTGTAACTTCAAGGAGATAAGATTTGTA
131 AAGATTTGTAACTTCAAGGAGATAAGATTTGTA
* * *
45248967 ACTTCAATCTGCCCCACTGCAACTTCAGGAGG-ATCCGATTTGTAATTTGTAGCCTTAATCTGTT
1 ACTTCAATCTACCCCACTGCAACTTCAGG-GGTATACGATTTGTAATTTGTAGCCTTAATCTATT
* * *
45249031 CCAC-AGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
65 CCACTA-CAACTTCAGGAAAATAAGATTCGCTATATTCAATCTGCTCCACTGCAACTTCAAGGAG
45249095 ATAAG
129 ATAAG
45249100 GTTTATAGCT
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
161 1 0.01
162 80 0.68
163 36 0.31
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (163 bp):
ACTTCAATCTACCCCACTGCAACTTCAGGGGTATACGATTTGTAATTTGTAGCCTTAATCTATTC
CACTACAACTTCAGGAAAATAAGATTCGCTATATTCAATCTGCTCCACTGCAACTTCAAGGAGAT
AAGATTTGTAACTTCAAGGAGATAAGATTTGTA
Found at i:45261621 original size:22 final size:22
Alignment explanation
Indices: 45261595--45261668 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
45261585 AAATAAATAT
45261595 TTAAATAAAGAAAATATAAACA
1 TTAAATAAAGAAAATATAAACA
* * *
45261617 TTAAATAATACGAACA-ACAAATA
1 TTAAATAA-A-GAAAATATAAACA
45261640 TTTAAATAAAGAAAATATAAACA
1 -TTAAATAAAGAAAATATAAACA
45261663 TTAAAT
1 TTAAAT
45261669 CTTTTAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 18 0.43
23 12 0.29
24 12 0.29
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.26
Consensus pattern (22 bp):
TTAAATAAAGAAAATATAAACA
Found at i:45264975 original size:41 final size:41
Alignment explanation
Indices: 45264921--45265004 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
45264911 ATTGGTTCCC
*
45264921 TTTGGGATTATTAGAGCCAGTTTAATAAAATAAGTAGACCT
1 TTTGGGATTATTAGAGCAAGTTTAATAAAATAAGTAGACCT
* *
45264962 TTTGGGATTATTAGAGTAAGTTTAATCAAATAAGTAGACCT
1 TTTGGGATTATTAGAGCAAGTTTAATAAAATAAGTAGACCT
45265003 TT
1 TT
45265005 CTGTTATTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (41 bp):
TTTGGGATTATTAGAGCAAGTTTAATAAAATAAGTAGACCT
Found at i:45266875 original size:6 final size:6
Alignment explanation
Indices: 45266864--45266894 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
45266854 GCTCAATCTC
45266864 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
45266895 CAATAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:45268358 original size:30 final size:30
Alignment explanation
Indices: 45268318--45268378 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45268308 AATCACCATC
* * *
45268318 ATTTTATTTTATTTTATTTTTTACATTTTT
1 ATTTGATTTTAGTTTATTTTATACATTTTT
* *
45268348 ATTTGATTTTAGTTTGTTTTATACTTTTTT
1 ATTTGATTTTAGTTTATTTTATACATTTTT
45268378 A
1 A
45268379 AATTATTGTT
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:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (30 bp):
ATTTGATTTTAGTTTATTTTATACATTTTT
Found at i:45271767 original size:8 final size:8
Alignment explanation
Indices: 45271744--45271805 Score: 74
Period size: 9 Copynumber: 7.6 Consensus size: 8
45271734 AGTGGAGGCA
*
45271744 AAAAAAAT
1 AAAAAAAC
45271752 AATAAAAAC
1 AA-AAAAAC
45271761 AATAAAAAC
1 AA-AAAAAC
45271770 AAAAAAAC
1 AAAAAAAC
45271778 --AAAAAC
1 AAAAAAAC
45271784 AATAAAAAC
1 AA-AAAAAC
45271793 AAAAAAAC
1 AAAAAAAC
45271801 AAAAA
1 AAAAA
45271806 CAAAAGAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
6 6 0.12
8 19 0.39
9 24 0.49
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:45271775 original size:17 final size:17
Alignment explanation
Indices: 45271744--45271802 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
45271734 AGTGGAGGCA
*
45271744 AAAAAAATAATAAAAAC
1 AAAAAAACAATAAAAAC
45271761 AATAAAAACAA-AAAAAC
1 AA-AAAAACAATAAAAAC
45271778 --AAAAACAATAAAAAC
1 AAAAAAACAATAAAAAC
45271793 AAAAAAACAA
1 AAAAAAACAA
45271803 AAACAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 8 0.22
15 6 0.16
17 16 0.43
18 7 0.19
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAAACAATAAAAAC
Found at i:45271781 original size:14 final size:15
Alignment explanation
Indices: 45271764--45271810 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
45271754 TAAAAACAAT
45271764 AAAAACAA-AAAAAC
1 AAAAACAACAAAAAC
*
45271778 AAAAACAATAAAAAC
1 AAAAACAACAAAAAC
45271793 AAAAA-AACAAAAAC
1 AAAAACAACAAAAAC
45271807 AAAA
1 AAAA
45271811 GAAAAAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAACAACAAAAAC
Found at i:45271781 original size:23 final size:23
Alignment explanation
Indices: 45271746--45271808 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
45271736 TGGAGGCAAA
*
45271746 AAAAATAATAAAAACAATAAAAAC
1 AAAAA-AACAAAAACAATAAAAAC
45271770 AAAAAAACAAAAACAATAAAAAC
1 AAAAAAACAAAAACAATAAAAAC
45271793 AAAAAAACAAAAACAA
1 AAAAAAACAAAAACAA
45271809 AAGAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 33 0.87
24 5 0.13
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAAACAAAAACAATAAAAAC
Found at i:45271788 original size:32 final size:31
Alignment explanation
Indices: 45271746--45271805 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
45271736 TGGAGGCAAA
*
45271746 AAAAATAATAAAAACAATAAAAACAAAAAAAC
1 AAAAACAATAAAAACAA-AAAAACAAAAAAAC
45271778 AAAAACAATAAAAACAAAAAAACAAAAA
1 AAAAACAATAAAAACAAAAAAACAAAAA
45271806 CAAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (31 bp):
AAAAACAATAAAAACAAAAAAACAAAAAAAC
Found at i:45272272 original size:13 final size:13
Alignment explanation
Indices: 45272256--45272305 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
45272246 TCACTTGAAA
*
45272256 AAAAAACAAAAAC
1 AAAAAAGAAAAAC
*
45272269 -AAAAAGAAAAAA
1 AAAAAAGAAAAAC
45272281 AGAAAAAGAAAAAC
1 A-AAAAAGAAAAAC
*
45272295 GAAAAAGAAAA
1 AAAAAAGAAAA
45272306 GAGAAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 10 0.32
13 10 0.32
14 11 0.35
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:45272280 original size:20 final size:21
Alignment explanation
Indices: 45272255--45272300 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
45272245 TTCACTTGAA
45272255 AAAAAAACAAAAACAAAAA-G
1 AAAAAAACAAAAACAAAAACG
* *
45272275 AAAAAAAGAAAAAGAAAAACG
1 AAAAAAACAAAAACAAAAACG
45272296 AAAAA
1 AAAAA
45272301 GAAAAGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.85, C:0.07, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAAACAAAAACG
Found at i:45272286 original size:6 final size:6
Alignment explanation
Indices: 45272253--45272316 Score: 67
Period size: 6 Copynumber: 10.2 Consensus size: 6
45272243 ACTTCACTTG
* *
45272253 AAAA-A AAAACA AAAACA AAAAGAAA AAAAGA AAAAGA AAAACGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG--A AAAAGA AAAAGA AAAA-GA AAAAGA
45272303 AAAGAGA AAAAGA A
1 AAA-AGA AAAAGA A
45272317 GAGGCCAAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
5 4 0.08
6 31 0.58
7 12 0.23
8 6 0.11
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:45272293 original size:26 final size:26
Alignment explanation
Indices: 45272253--45272316 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
45272243 ACTTCACTTG
*
45272253 AAAA-AAAAACAAAAAC-AAAAAGAAA
1 AAAAGAAAAAGAAAAACGAAAAAG-AA
45272278 AAAAGAAAAAGAAAAACGAAAAAGAA
1 AAAAGAAAAAGAAAAACGAAAAAGAA
*
45272304 AAGAGAAAAAGAA
1 AAAAGAAAAAGAA
45272317 GAGGCCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 4 0.11
26 25 0.71
27 6 0.17
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAGAAAAACGAAAAAGAA
Found at i:45272311 original size:13 final size:12
Alignment explanation
Indices: 45272253--45272316 Score: 67
Period size: 13 Copynumber: 5.1 Consensus size: 12
45272243 ACTTCACTTG
*
45272253 AAAA-AAAAACA
1 AAAAGAAAAAGA
*
45272264 AAAACAAAAAGAAA
1 AAAAGAAAAAG--A
45272278 AAAAGAAAAAGA
1 AAAAGAAAAAGA
45272290 AAAACGAAAAAGA
1 AAAA-GAAAAAGA
45272303 AAAGAGAAAAAGA
1 AAA-AGAAAAAGA
45272316 A
1 A
45272317 GAGGCCAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
11 4 0.09
12 10 0.22
13 20 0.43
14 12 0.26
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:45273459 original size:46 final size:46
Alignment explanation
Indices: 45273403--45273728 Score: 153
Period size: 46 Copynumber: 7.3 Consensus size: 46
45273393 GAGCTGGTTA
* * *
45273403 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCG
1 AAGATGGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATTG
* * * * * * *
45273449 AAGATGGCAGATTTTACC-TCC-GTGA-CT-ACAGTGGAGTACATTG
1 AAGATGGCAGATCTTGCCTTCCTGT-ATTTGGCAGCGAAGTAGATTG
** ** * *
45273492 AAGCCGATA-ACTCTAT--CTCCCTGTATTTGGCAGTGGAA-TAGATTG
1 AAGATGGCAGA-TCT-TGCCTTCCTGTATTTGGCAG-CGAAGTAGATTG
* * **
45273537 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCA
1 AAGATGGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATTG
* * * * * * * *
45273583 AAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTG
1 AAGATGGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATTG
** ** *
45273626 AAGCCGATA-ACTCTAT--C-TCTCTGTATTTGGCAGTGGAA-TAGATTG
1 AAGATGGCAGA-TCT-TGCCTTC-CTGTATTTGGCAG-CGAAGTAGATTG
* *
45273671 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCG
1 AAGATGGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATTG
45273717 AAGATGGCAGAT
1 AAGATGGCAGAT
45273729 TTTACCTCTC
Statistics
Matches: 194, Mismatches: 62, Indels: 48
0.64 0.20 0.16
Matches are distributed among these distances:
41 1 0.01
42 7 0.04
43 37 0.19
44 12 0.06
45 43 0.22
46 92 0.47
47 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
AAGATGGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATTG
Found at i:45273794 original size:134 final size:131
Alignment explanation
Indices: 45273403--45274068 Score: 706
Period size: 134 Copynumber: 5.0 Consensus size: 131
45273393 GAGCTGGTTA
45273403 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAG-AGATCGAAGATGGCAGATTTTACCT
* ** *****
45273468 CCGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAG
65 CCCTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTG--GGCAACAGTGGAATAG
45273533 ATTG
128 ATTG
*
45273537 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAG-AGATCGAAGATGGCAGATTTTACCT
** * *****
45273602 CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAG
65 CCCTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTG--GGCAACAGTGGAATAG
45273667 ATTG
128 ATTG
45273671 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAG-AGATCGAAGATGGCAGATTTTACCT
* *
45273736 CTCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTTCCTGGGCAACAGTGGAATAG
65 C-C-CTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAG
*
45273801 ATCG
128 ATTG
* ** * * * *
45273805 AAGATTACAGATCTTATCTCCCTAAGCAATAGTGG-AGC--AG-G-TCGAAGATGGCGGATTTTA
1 AAGATTGCAGATCTTGCCTTCCT--G-TAT-TTGGCAGCGAAGAGATCGAAGATGGCAGATTTTA
* * *
45273865 CCTCCCTGATTACGGTGGAGTACATTAAAGCC-AGTAGTTCTATCTCCCTGGGCAACAGTGGAAT
62 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGA-TAGTTCTATCTCCCTGGGCAACAGTGGAAT
*
45273929 AGAGTG
126 AGATTG
* ** * * * *
45273935 AAGATTACAGATCTTATCTCCCTAAGCAATAGTGG-AGC--AG-G-TCGAAGATGGCGGATTTTA
1 AAGATTGCAGATCTTGCCTTCCT--G-TAT-TTGGCAGCGAAGAGATCGAAGATGGCAGATTTTA
* * * *
45273995 CCTCCCTGATTACGGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATA
62 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATA
*
45274060 GAGTG
127 GATTG
45274065 AAGA
1 AAGA
45274069 GCACAGATCT
Statistics
Matches: 491, Mismatches: 33, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
129 1 0.00
130 186 0.38
131 1 0.00
132 22 0.04
133 1 0.00
134 228 0.46
135 3 0.01
136 41 0.08
137 5 0.01
138 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (131 bp):
AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGAGATCGAAGATGGCAGATTTTACCTC
CCTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAGATT
G
Found at i:45273850 original size:44 final size:44
Alignment explanation
Indices: 45273802--45273983 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
45273792 GTGGAATAGA
45273802 TCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
1 TCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
** * * * * * **
45273846 TCGAAGATGGCGGATTTTACCTCCCT--G-ATTACGGTGGAGTACA
1 TCGAAGATTACAGATCTTATCTCCCTAAGCAATA--GTGGAGCAGG
** * * ** * **
45273889 TTAAAGCCAGT--AGTTC-TATCTCCCTGGGCAACAGTGGAATAGAG
1 TCGAAG--ATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG-G
45273933 T-GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
1 TCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
45273976 TCGAAGAT
1 TCGAAGAT
45273984 GGCGGATTTT
Statistics
Matches: 96, Mismatches: 30, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
41 5 0.05
42 9 0.09
43 29 0.30
44 50 0.52
45 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
TCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
Found at i:45273909 original size:130 final size:129
Alignment explanation
Indices: 45273714--45274104 Score: 631
Period size: 130 Copynumber: 3.0 Consensus size: 129
45273704 GCGAAGTAGA
* * * *
45273714 TCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATC
1 TCGAAGATGGCGGATTTTACCTC-C-CTGATTACGGTGGAGTACATTGAAGCCG-TAGTTCTATC
*
45273779 TTCCTGGGCAACAGTGGAATAGA-TCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
63 TCCCTGGGCAACAGTGGAATAGAGT-GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
45273843 AGG
127 AGG
*
45273846 TCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTAAAGCCAGTAGTTCTATCTC
1 TCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCC-GTAGTTCTATCTC
45273911 CCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
65 CCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
*
45273976 TCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGC-CGTAGTTCTATCTC
** *
45274041 CCTGGGCAACAGTGGAATAGAGTGAAGAGCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
65 CCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
45274105 ATCACATCCA
Statistics
Matches: 245, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
130 220 0.90
131 3 0.01
132 22 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (129 bp):
TCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCCGTAGTTCTATCTCC
CTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
Found at i:45274067 original size:43 final size:43
Alignment explanation
Indices: 45273900--45274068 Score: 117
Period size: 43 Copynumber: 3.9 Consensus size: 43
45273890 TAAAGCCAGT
**
45273900 AGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTAC
1 AGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATGGC
* ** * **
45273943 AGATCTTATCTCCCTAAGCAATAGTGGAGCAG-GTCGAAGATGGC
1 AGTTC-TATCTCCCTGGGCAACAGTGGAATAGAGT-GAAGATGGC
* * * *** * * * * * *
45273987 GGATTTTACCTCCCT-GATTACGGTGGAGTACATTGAAGCTGGT
1 AG-TTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATGGC
45274030 AGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGA
1 AGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGA
45274069 GCACAGATCT
Statistics
Matches: 87, Mismatches: 34, Indels: 10
0.66 0.26 0.08
Matches are distributed among these distances:
42 10 0.11
43 38 0.44
44 38 0.44
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
AGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATGGC
Found at i:45276712 original size:16 final size:15
Alignment explanation
Indices: 45276678--45276725 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
45276668 TTAATAAATT
* *
45276678 AAAAAATTAAGTGTT
1 AAAAAATTAAATGTG
45276693 AAAAAATTAAATAGTG
1 AAAAAATTAAAT-GTG
45276709 -AAAAATTAAATGCTG
1 AAAAAATTAAATG-TG
45276724 AA
1 AA
45276726 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 24 0.86
16 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.27
Consensus pattern (15 bp):
AAAAAATTAAATGTG
Found at i:45280102 original size:15 final size:16
Alignment explanation
Indices: 45280076--45280110 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
45280066 AAAATATAAT
45280076 AATATAATAAGGAATA
1 AATATAATAAGGAATA
45280092 AATATAA-AAGGAATA
1 AATATAATAAGGAATA
45280107 AATA
1 AATA
45280111 CAAGCATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (16 bp):
AATATAATAAGGAATA
Found at i:45282190 original size:18 final size:20
Alignment explanation
Indices: 45282167--45282206 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
45282157 GAAAGAAATT
45282167 TTATTTATTT-TTCAAA-AA
1 TTATTTATTTGTTCAAATAA
*
45282185 TTATTTTTTTGTTCAAATAA
1 TTATTTATTTGTTCAAATAA
45282205 TT
1 TT
45282207 GTTGGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATTTATTTGTTCAAATAA
Found at i:45283638 original size:19 final size:19
Alignment explanation
Indices: 45283614--45283762 Score: 96
Period size: 18 Copynumber: 8.1 Consensus size: 19
45283604 CACGAGATTT
45283614 TTTTTTGAAAACACGAAAA
1 TTTTTTGAAAACACGAAAA
* *
45283633 TTTTTT-AGAAATACGAGAA
1 TTTTTTGA-AAACACGAAAA
* * *
45283652 -TCTTAG-AAATACGAAAA
1 TTTTTTGAAAACACGAAAA
*
45283669 -TTTTTGAAAACACGGAAA
1 TTTTTTGAAAACACGAAAA
* * *
45283687 -TCTTT-AAAATACGAGAAT
1 TTTTTTGAAAACACGA-AAA
* **
45283705 TTTTTTTAAAACACGGAATT
1 TTTTTTGAAAACAC-GAAAA
45283725 TTTTTTGAAAACACGAAAA
1 TTTTTTGAAAACACGAAAA
* *
45283744 -TTGTTGAAAACACAAAAA
1 TTTTTTGAAAACACGAAAA
45283762 T
1 T
45283763 ATTGATAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
17 21 0.21
18 35 0.35
19 22 0.22
20 21 0.21
21 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (19 bp):
TTTTTTGAAAACACGAAAA
Found at i:45283659 original size:17 final size:17
Alignment explanation
Indices: 45283637--45283704 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
45283627 CGAAAATTTT
45283637 TTAGAAATACGAGAATC
1 TTAGAAATACGAGAATC
* *
45283654 TTAGAAATACGAAAATT
1 TTAGAAATACGAGAATC
* *
45283671 TTTGAAAACACG-GAAATC
1 TTAG-AAATACGAG-AATC
45283689 TTTA-AAATACGAGAAT
1 -TTAGAAATACGAGAAT
45283705 TTTTTTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
17 27 0.69
18 10 0.26
19 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (17 bp):
TTAGAAATACGAGAATC
Found at i:45283689 original size:35 final size:35
Alignment explanation
Indices: 45283621--45283722 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 35
45283611 TTTTTTTTTG
* *
45283621 AAAACACGAAAATTTTTTAGAAATAC-GAGAATC-TT
1 AAAATACGAAAATTTTTTA-AAACACGGA-AATCTTT
*
45283656 AGAAATACGAAAATTTTTGAAAACACGGAAATCTTT
1 A-AAATACGAAAATTTTTTAAAACACGGAAATCTTT
*
45283692 AAAATACGAGAATTTTTTTTAAAACACGGAA
1 AAAATACGA-AA-ATTTTTTAAAACACGGAA
45283723 TTTTTTTTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
35 18 0.32
36 23 0.40
37 16 0.28
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (35 bp):
AAAATACGAAAATTTTTTAAAACACGGAAATCTTT
Found at i:45283767 original size:17 final size:18
Alignment explanation
Indices: 45283729--45283767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45283719 GGAATTTTTT
* *
45283729 TTGAAAACACGAAAATTG
1 TTGAAAACACGAAAAATA
45283747 TTGAAAACAC-AAAAATA
1 TTGAAAACACGAAAAATA
45283764 TTGA
1 TTGA
45283768 TAAATTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (18 bp):
TTGAAAACACGAAAAATA
Found at i:45284199 original size:1 final size:1
Alignment explanation
Indices: 45284195--45284259 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
45284185 TTTCCTTTCC
* * * * * * *
45284195 TTTTTTCTTTTTTTTCTTTTTTTTTTTCTTTTTTTTCTTTTTTTCTTTTTTTTCTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45284260 GGACTGGGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:45284199 original size:21 final size:19
Alignment explanation
Indices: 45284171--45284257 Score: 99
Period size: 18 Copynumber: 4.5 Consensus size: 19
45284161 CAACTCGGGC
45284171 TTCTTTTTTTCTTTTTTCCT
1 TTCTTTTTTTCTTTTTT-CT
*
45284191 TTCCTTTTTTCTTTTTTTTCT
1 TT-CTTTTTT-TCTTTTTTCT
*
45284212 TTTTTTTTTTC-TTTTT-T
1 TTCTTTTTTTCTTTTTTCT
45284229 TTCTTTTTTTCTTTTTT-T
1 TTCTTTTTTTCTTTTTTCT
45284247 TCTCTTTTTTT
1 T-TCTTTTTTT
45284258 TTGGACTGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.19
18 12 0.20
19 10 0.17
20 8 0.14
21 11 0.19
22 7 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTCTTTTTTTCTTTTTTCT
Found at i:45284209 original size:9 final size:9
Alignment explanation
Indices: 45284195--45284257 Score: 83
Period size: 9 Copynumber: 6.7 Consensus size: 9
45284185 TTTCCTTTCC
45284195 TTTTTTCTT
1 TTTTTTCTT
45284204 TTTTTTCTTTTT
1 TTTTTTC---TT
45284216 TTTTTTCTT
1 TTTTTTCTT
45284225 TTTTTTC-T
1 TTTTTTCTT
45284233 TTTTTTCTT
1 TTTTTTCTT
45284242 TTTTTTCTCT
1 TTTTTTCT-T
45284252 TTTTTT
1 TTTTTT
45284258 TTGGACTGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.16
9 25 0.51
10 7 0.14
12 9 0.18
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:45284237 original size:38 final size:40
Alignment explanation
Indices: 45284174--45284259 Score: 131
Period size: 38 Copynumber: 2.2 Consensus size: 40
45284164 CTCGGGCTTC
*
45284174 TTTTTTTCTTTTTTCCTTTCCTTTTTTCTTTTTTTTCTTTT
1 TTTTTTTCTTTTTT-CTTTCCTTTTTTCTTTTTTTTCTCTT
*
45284215 TTTTTTTC-TTTTT-TTTCTTTTTTTCTTTTTTTTCTCTT
1 TTTTTTTCTTTTTTCTTTCCTTTTTTCTTTTTTTTCTCTT
45284253 TTTTTTT
1 TTTTTTT
45284260 GGACTGGGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 30 0.70
40 5 0.12
41 8 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (40 bp):
TTTTTTTCTTTTTTCTTTCCTTTTTTCTTTTTTTTCTCTT
Found at i:45284246 original size:29 final size:29
Alignment explanation
Indices: 45284171--45284258 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
45284161 CAACTCGGGC
** *
45284171 TTCTTTTTTTCTTTTTTCCTTTC-CTTTT
1 TTCTTTTTTTCTTTTTTTTTTTCTTTTTT
45284199 TTCTTTTTTTTCTTTTTTTTTTTCTTTTTT
1 TTC-TTTTTTTCTTTTTTTTTTTCTTTTTT
*
45284229 TTCTTTTTTTC-TTTTTTTTCTCTTTTTT
1 TTCTTTTTTTCTTTTTTTTTTTCTTTTTT
45284257 TT
1 TT
45284259 TGGACTGGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
28 21 0.39
29 26 0.48
30 7 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (29 bp):
TTCTTTTTTTCTTTTTTTTTTTCTTTTTT
Found at i:45284258 original size:21 final size:20
Alignment explanation
Indices: 45284174--45284259 Score: 99
Period size: 19 Copynumber: 4.3 Consensus size: 20
45284164 CTCGGGCTTC
45284174 TTTTTTTC-TTTTTTC-CTT
1 TTTTTTTCTTTTTTTCTCTT
*
45284192 TCCTTTTTTCTTTTTTTTCTTTT
1 T--TTTTTTC-TTTTTTTCTCTT
45284215 TTTTTTTCTTTTTTT-TCTT
1 TTTTTTTCTTTTTTTCTCTT
*
45284234 TTTTTCT-TTTTTTTCTCTT
1 TTTTTTTCTTTTTTTCTCTT
45284253 TTTTTTT
1 TTTTTTT
45284260 GGACTGGGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
18 8 0.14
19 19 0.33
20 14 0.24
21 7 0.12
22 7 0.12
23 3 0.05
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTCTCTT
Found at i:45284259 original size:29 final size:28
Alignment explanation
Indices: 45284175--45284258 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 28
45284165 TCGGGCTTCT
* *
45284175 TTTTTTCTTTTTTCCTTTCCTTTTTTCT-T
1 TTTTTTCTTTTTT--TTTTCTTTTTTTTCT
45284204 TTTTTTCTTTTTTTTTTTCTTTTTTTTCT
1 TTTTTTC-TTTTTTTTTTCTTTTTTTTCT
*
45284233 TTTTTTCTTTTTTTTCTCTTTTTTTT
1 TTTTTTCTTTTTTTTTTCTTTTTTTT
45284259 TGGACTGGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 29 0.58
29 15 0.30
30 6 0.12
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (28 bp):
TTTTTTCTTTTTTTTTTCTTTTTTTTCT
Found at i:45284556 original size:17 final size:18
Alignment explanation
Indices: 45284536--45284574 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
45284526 TTTAAAATAA
45284536 TTTTATTTTTTTCTCTT-
1 TTTTATTTTTTTCTCTTC
* *
45284553 TTTTCTTTTTTTTTCTTC
1 TTTTATTTTTTTCTCTTC
45284571 TTTT
1 TTTT
45284575 TCTTCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTTTTTTCTCTTC
Found at i:45284561 original size:15 final size:14
Alignment explanation
Indices: 45284543--45284593 Score: 68
Period size: 15 Copynumber: 3.6 Consensus size: 14
45284533 TAATTTTATT
*
45284543 TTTTTCTCTTTTTTC
1 TTTTTCT-TTTCTTC
45284558 TTTTT-TTTTCTTC
1 TTTTTCTTTTCTTC
45284571 TTTTTCTTCTTCTTC
1 TTTTTCTT-TTCTTC
45284586 TTTTTCTT
1 TTTTTCTT
45284594 CTTCCCTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 11 0.33
14 3 0.09
15 19 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:45284566 original size:12 final size:12
Alignment explanation
Indices: 45284541--45284596 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
45284531 AATAATTTTA
*
45284541 TTTTT-TTCTCT
1 TTTTTCTTCTTT
45284552 TTTTTC-T-TTT
1 TTTTTCTTCTTT
45284562 TTTTTCTTCTTT
1 TTTTTCTTCTTT
* *
45284574 TTCTTCTTCTTC
1 TTTTTCTTCTTT
45284586 TTTTTCTTCTT
1 TTTTTCTTCTT
45284597 CCCTCTTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
10 8 0.21
11 7 0.18
12 23 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:45284579 original size:9 final size:9
Alignment explanation
Indices: 45284543--45284596 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
45284533 TAATTTTATT
45284543 TTTTTC-TC
1 TTTTTCTTC
45284551 TTTTTTCTT-
1 -TTTTTCTTC
45284560 TTTTT-TTC
1 TTTTTCTTC
45284568 TTCTTT-TTC
1 TT-TTTCTTC
*
45284577 TTCTTCTTC
1 TTTTTCTTC
45284586 TTTTTCTTC
1 TTTTTCTTC
45284595 TT
1 TT
45284597 CCCTCTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 2 0.05
8 9 0.23
9 27 0.69
10 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:45284594 original size:15 final size:15
Alignment explanation
Indices: 45284555--45284597 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
45284545 TTTCTCTTTT
45284555 TTCTTTTT-TT-TTC
1 TTCTTTTTCTTCTTC
45284568 TTCTTTTTCTTCTTC
1 TTCTTTTTCTTCTTC
45284583 TTCTTTTTCTTCTTC
1 TTCTTTTTCTTCTTC
45284598 CCTCTTTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 18 0.64
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTTTCTTCTTC
Found at i:45284995 original size:29 final size:29
Alignment explanation
Indices: 45284961--45285099 Score: 167
Period size: 29 Copynumber: 4.8 Consensus size: 29
45284951 AAATGTTGGG
45284961 AAAATTTAGGGGTCAAAATGTAATTTCAA
1 AAAATTTAGGGGTCAAAATGTAATTTCAA
*
45284990 AAAATTTATGGG-CTAAAATGTAATTTCAA
1 AAAATTTAGGGGTC-AAAATGTAATTTCAA
* *
45285019 AAAATTTTAGGGGTCAAAATATAAATTT-AGG
1 AAAA-TTTAGGGGTCAAAATGT-AATTTCA-A
* * *
45285050 AAAATTTAGGAGTTAAAATGCAATTTCAA
1 AAAATTTAGGGGTCAAAATGTAATTTCAA
45285079 AAAATTTAGGGGTC-AAATGTA
1 AAAATTTAGGGGTCAAAATGTA
45285100 TTTTTTTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
28 7 0.08
29 47 0.51
30 28 0.30
31 10 0.11
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (29 bp):
AAAATTTAGGGGTCAAAATGTAATTTCAA
Found at i:45285030 original size:59 final size:58
Alignment explanation
Indices: 45284961--45285099 Score: 185
Period size: 60 Copynumber: 2.4 Consensus size: 58
45284951 AAATGTTGGG
*
45284961 AAAATTTAGGGGTCAAAATGTAATTTCA-AAAAATTTATGG-GCTAAAATGTAATTTCAA
1 AAAATTTAGGGGTCAAAATGTAATTT-AGAAAAATTTA-GGAGCTAAAATGCAATTTCAA
* * *
45285019 AAAATTTTAGGGGTCAAAATATAAATTTAGGAAAATTTAGGAGTTAAAATGCAATTTCAA
1 AAAA-TTTAGGGGTCAAAATGT-AATTTAGAAAAATTTAGGAGCTAAAATGCAATTTCAA
45285079 AAAATTTAGGGGTC-AAATGTA
1 AAAATTTAGGGGTCAAAATGTA
45285100 TTTTTTTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
57 1 0.01
58 9 0.12
59 29 0.40
60 33 0.46
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (58 bp):
AAAATTTAGGGGTCAAAATGTAATTTAGAAAAATTTAGGAGCTAAAATGCAATTTCAA
Found at i:45288277 original size:46 final size:45
Alignment explanation
Indices: 45288210--45288453 Score: 312
Period size: 46 Copynumber: 5.6 Consensus size: 45
45288200 TTTGAGTACT
* *
45288210 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
45288256 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
45288292 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
45288338 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
45288384 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
45288429 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
45288454 ATCATACGTA
Statistics
Matches: 179, Mismatches: 9, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 2 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.08
44 3 0.02
45 20 0.11
46 102 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:45288292 original size:36 final size:36
Alignment explanation
Indices: 45288246--45288318 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
45288236 GGTAGCTTTA
45288246 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
45288282 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
45288318 G
1 G
45288319 GTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:45288313 original size:82 final size:85
Alignment explanation
Indices: 45288210--45288453 Score: 320
Period size: 82 Copynumber: 2.8 Consensus size: 85
45288200 TTTGAGTACT
* *
45288210 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
45288275 GATAAGTG-C-TA-T-ACTTA
65 GATAAGTGCCTTACTAACTTA
*
45288292 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
45288357 GATAAGTGGTAGCCTTAGCTACACTTA
65 GATAA---GT-GCCTTA-CTA-ACTTA
* * *
45288384 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
45288447 ATAAGTG
66 ATAAGTG
45288454 ATCATACGTA
Statistics
Matches: 144, Mismatches: 7, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
82 65 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 3 0.02
91 20 0.14
92 36 0.25
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTAACTTA
Found at i:45290464 original size:59 final size:60
Alignment explanation
Indices: 45290399--45290516 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 60
45290389 ATATAAAAAA
* *
45290399 TATAAATTACATTTTGACCCCCT-AACTTTCTTA-AAATTATATTTTGA-CCCTTAACTTTT
1 TATAAATTACATTTT-ACCCCCTAAACTTT-TTAGAAATTACATTTTGACCCCCTAACTTTT
* * *
45290458 TATAAATTACATTTTAGCCCTTAAACTTTTTAGAAGTTACATTTTGACCCCCTAACTTT
1 TATAAATTACATTTTACCCCCTAAACTTTTTAGAAATTACATTTTGACCCCCTAACTTT
45290517 CCTAAGATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
58 8 0.16
59 33 0.65
60 10 0.20
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (60 bp):
TATAAATTACATTTTACCCCCTAAACTTTTTAGAAATTACATTTTGACCCCCTAACTTTT
Found at i:45290528 original size:30 final size:29
Alignment explanation
Indices: 45290402--45290531 Score: 138
Period size: 30 Copynumber: 4.4 Consensus size: 29
45290392 TAAAAAATAT
45290402 AAATTACATTTTGACCCCCTAACTTTCTTA
1 AAATTACATTTTGACCCCCTAACTTT-TTA
* *
45290432 AAATTATATTTTGA-CCCTTAACTTTTTA
1 AAATTACATTTTGACCCCCTAACTTTTTA
* *
45290460 TAAATTACATTTT-AGCCCTTAAACTTTTTA
1 -AAATTACATTTTGACCCCCT-AACTTTTTA
* *
45290490 GAAGTTACATTTTGACCCCCTAACTTTCCTA
1 -AAATTACATTTTGACCCCCTAACTTT-TTA
*
45290521 AGATTACATTT
1 AAATTACATTT
45290532 CAATCCCAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
28 4 0.05
29 26 0.31
30 48 0.56
31 7 0.08
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (29 bp):
AAATTACATTTTGACCCCCTAACTTTTTA
Found at i:45292997 original size:16 final size:16
Alignment explanation
Indices: 45292976--45293059 Score: 132
Period size: 16 Copynumber: 5.2 Consensus size: 16
45292966 TTTGGTTCGC
45292976 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
45292992 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
45293008 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
45293024 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
45293040 TGTATTGGTTTAGAGG
1 TGTATTGGATTAGAGG
45293056 TGTA
1 TGTA
45293060 ATAGCTAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45293316 original size:18 final size:17
Alignment explanation
Indices: 45293295--45293329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45293285 TTATTATTAA
*
45293295 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45293313 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45293330 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45293416 original size:120 final size:120
Alignment explanation
Indices: 45293278--45293496 Score: 402
Period size: 120 Copynumber: 1.8 Consensus size: 120
45293268 ATCATATTTA
45293278 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
45293343 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
45293398 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTCA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
45293463 TTTTCTTATATGAATTTACTCAAATCATAATATA
66 TATTCTTATATGAATTTACTCAAATCATAATATA
45293497 ATGAAGATTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:45293436 original size:18 final size:17
Alignment explanation
Indices: 45293415--45293449 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45293405 TTATTATTAA
*
45293415 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45293433 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45293450 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45293496 original size:61 final size:61
Alignment explanation
Indices: 45293310--45293496 Score: 159
Period size: 61 Copynumber: 3.1 Consensus size: 61
45293300 TTTTAATTAA
* * *
45293310 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTCATATTCTTATATAAATTTACTCAAATCAT
* * * * * * * * ** * *
45293371 AATATATGATACT-GTAAAA-TATAAATTAA--CATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATTCAT-ATTCTTATATAAATTTACTCAAATCAT
* *
45293430 AATATATAATTTAATAAAATTCTTAATAATTCATTTTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTCATATTCTTATATAAATTTACTCAAATCAT
45293491 AATATA
1 AATATA
45293497 ATGAAGATTT
Statistics
Matches: 90, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
58 1 0.01
59 30 0.33
60 21 0.23
61 37 0.41
62 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTCATATTCTTATATAAATTTACTCAAATCAT
Found at i:45295576 original size:86 final size:86
Alignment explanation
Indices: 45295473--45295739 Score: 527
Period size: 86 Copynumber: 3.1 Consensus size: 86
45295463 TTCTCTCCAC
45295473 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45295537 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45295558 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45295623 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45295644 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45295709 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45295730 ATAATAATTA
1 ATAATAATTA
45295740 CAATTATATT
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.02
86 177 0.98
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:45298485 original size:43 final size:43
Alignment explanation
Indices: 45298420--45298538 Score: 184
Period size: 43 Copynumber: 2.8 Consensus size: 43
45298410 TATTGGCTTA
* * *
45298420 GCCAATACCCCAACTATAGTCTTACACGAAATCTCAAATCGAT
1 GCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGAT
* *
45298463 GCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAAATTGAT
1 GCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGAT
*
45298506 GCAAATAGCCCAGCTATGGTCTTACACGAAATC
1 GCCAATAGCCCAGCTATGGTCTTACACGAAATC
45298539 ACACCTCGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (43 bp):
GCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGAT
Found at i:45298715 original size:31 final size:31
Alignment explanation
Indices: 45298656--45298801 Score: 186
Period size: 31 Copynumber: 4.7 Consensus size: 31
45298646 ATCCAATGCT
* *
45298656 CAAATC-AATTTGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
45298686 CGAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
** *
45298717 CAAATCAAATTCGGCAATGTATATTTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
45298748 CAATTCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
45298779 CAAATCAAATTCTGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
45298802 AAACATATAC
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 5 0.05
31 94 0.95
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:45298820 original size:62 final size:62
Alignment explanation
Indices: 45298656--45298821 Score: 167
Period size: 62 Copynumber: 2.7 Consensus size: 62
45298646 ATCCAATGCT
* * ** *
45298656 CAAATC-AATTTGGCAATATATATCCATATACGAA-TCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAAACATAAAC-AATTCAAATTCGACAATGTATAACCATATA
*** * * *
45298717 CAAATCAAATTCGGCAATGTATATTTATAAACAATTCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATAAACATAAACAATTCAAATTCGACAATGTATAACCATATA
* * *
45298779 CAAATCAAATTCTGCAATGTATAAAACATATAC-ATTTAAATTC
1 CAAATCAAATTCGGCAATGTAT-AAACATAAACAATTCAAATTC
45298822 AAAAACATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
61 8 0.09
62 74 0.84
63 6 0.07
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (62 bp):
CAAATCAAATTCGGCAATGTATAAACATAAACAATTCAAATTCGACAATGTATAACCATATA
Found at i:45298835 original size:93 final size:93
Alignment explanation
Indices: 45298662--45298836 Score: 201
Period size: 93 Copynumber: 1.9 Consensus size: 93
45298652 TGCTCAAATC
* * *
45298662 AATTTGGCAATATATATCCATATACGAATCAAATTCGACAATGTATAACCATATACAAATCAAAT
1 AATTCGGCAATATATATCCATATACAAATCAAATTCGACAATGTATAAACATATACAAATCAAAT
*** **
45298727 TCGGCAATGTATATTTATAAACAATTCA
66 TCAAAAACATATATTTATAAACAATTCA
* * * *
45298755 AATTCGGCAATGTATATCTATATACAAATCAAATTCTG-CAATGTATAAAACATATAC-ATTTAA
1 AATTCGGCAATATATATCCATATACAAATCAAATTC-GACAATGTAT-AAACATATACAAATCAA
*
45298818 ATTCAAAAACATTTATTTA
64 ATTCAAAAACATATATTTA
45298837 CTTATGAACT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
93 57 0.85
94 10 0.15
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (93 bp):
AATTCGGCAATATATATCCATATACAAATCAAATTCGACAATGTATAAACATATACAAATCAAAT
TCAAAAACATATATTTATAAACAATTCA
Found at i:45309367 original size:16 final size:16
Alignment explanation
Indices: 45309343--45309377 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45309333 CATTAAACAC
*
45309343 AACATCTACATTCGTT
1 AACACCTACATTCGTT
*
45309359 AACACCTACCTTCGTT
1 AACACCTACATTCGTT
45309375 AAC
1 AAC
45309378 GAAAATGAAA
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:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
AACACCTACATTCGTT
Found at i:45312876 original size:24 final size:24
Alignment explanation
Indices: 45312831--45312876 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45312821 CTCATTGTGG
**
45312831 TTTATTTTTATTTTATTTAATCCA
1 TTTATTTTTATTTTATAAAATCCA
45312855 TTTATTTTT-TTTTATGAAAATC
1 TTTATTTTTATTTTAT-AAAATC
45312877 AATATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATTTTTATTTTATAAAATCCA
Found at i:45313384 original size:9 final size:9
Alignment explanation
Indices: 45313370--45313448 Score: 61
Period size: 10 Copynumber: 8.2 Consensus size: 9
45313360 AATTCATTAT
45313370 AAATTATAA
1 AAATTATAA
45313379 AAATTATAA
1 AAATTATAA
*
45313388 AAATCATTAA
1 AAATTA-TAA
45313398 AAATATATAA
1 AAAT-TATAA
*
45313408 AAATTTGTAAAA
1 AAA--T-TATAA
45313420 AAATT-TAA
1 AAATTATAA
*
45313428 AAATCATAA
1 AAATTATAA
*
45313437 AATTTTATAA
1 AA-ATTATAA
45313447 AA
1 AA
45313449 TTTTATAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
8 6 0.11
9 20 0.36
10 21 0.38
11 1 0.02
12 8 0.14
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:45313419 original size:29 final size:27
Alignment explanation
Indices: 45313283--45313449 Score: 81
Period size: 28 Copynumber: 6.0 Consensus size: 27
45313273 CCTTGCTTTT
**
45313283 ATTAAAAATTATAAAAAAAATTAAAATC
1 ATTAAAAATTAT-AAAAATTTTAAAATC
* * *
45313311 AAT-AAAATCTATAAATAATATT-ATAT-
1 ATTAAAAAT-TATAAA-AATTTTAAAATC
* * * *
45313337 TTTAATAAA-AATAAAATATTATAAATTC
1 ATTAA-AAATTATAAAA-ATTTTAAAATC
* *
45313365 ATTATAAATTATAAAAATTATAAAAATC
1 ATTAAAAATTATAAAAATT-TTAAAATC
**
45313393 ATTAAAAATATATAAAAATTTGTAAAAAA
1 ATTAAAAAT-TATAAAAATTT-TAAAATC
* *
45313422 ATTTAAAAATCATAAAATTTTATAAAAT
1 A-TTAAAAATTATAAAAATTT-TAAAAT
45313450 TTTATAAAGT
Statistics
Matches: 103, Mismatches: 24, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
25 1 0.01
26 9 0.09
27 20 0.19
28 36 0.35
29 29 0.28
30 8 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (27 bp):
ATTAAAAATTATAAAAATTTTAAAATC
Found at i:45313446 original size:10 final size:10
Alignment explanation
Indices: 45313433--45313457 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45313423 TTTAAAAATC
45313433 ATAAAATTTT
1 ATAAAATTTT
45313443 ATAAAATTTT
1 ATAAAATTTT
45313453 ATAAA
1 ATAAA
45313458 GTCGTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:45313695 original size:37 final size:37
Alignment explanation
Indices: 45313651--45313770 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 37
45313641 ACTAGGGGTC
45313651 ATTTTTTATGATTTTTATAAAATTTTATAATTTTTTT
1 ATTTTTTATGATTTTTATAAAATTTTATAATTTTTTT
* ** *
45313688 ATTTTTTACGATTTTTATAAAGAAATTATAA-TTTTTA
1 ATTTTTTATGATTTTTATAAA-ATTTTATAATTTTTTT
*** * *
45313725 ATAAATTATAATTTTTAT-AATTTTTATAATTTTTTTT
1 ATTTTTTATGATTTTTATAAAATTTTATAA-TTTTTTT
45313762 ATTTTTTAT
1 ATTTTTTAT
45313771 AATGTTTAAT
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
35 6 0.09
36 2 0.03
37 49 0.77
38 7 0.11
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (37 bp):
ATTTTTTATGATTTTTATAAAATTTTATAATTTTTTT
Found at i:45313757 original size:8 final size:9
Alignment explanation
Indices: 45313653--45313778 Score: 76
Period size: 9 Copynumber: 13.7 Consensus size: 9
45313643 TAGGGGTCAT
*
45313653 TTTTTATGA
1 TTTTTATAA
45313662 TTTTTATAAA
1 TTTTTAT-AA
*
45313672 ATTTTATAA
1 TTTTTATAA
* *
45313681 TTTTTTTAT
1 TTTTTATAA
**
45313690 TTTTTACGA
1 TTTTTATAA
45313699 TTTTTATAAA
1 TTTTTAT-AA
***
45313709 GAAATTATAA
1 -TTTTTATAA
45313719 TTTTTAATAA
1 TTTTT-ATAA
*
45313729 --ATTATAA
1 TTTTTATAA
45313736 TTTTTATAA
1 TTTTTATAA
45313745 TTTTTATAA
1 TTTTTATAA
* *
45313754 TTTTTTTTAT
1 -TTTTTATAA
45313764 TTTTTATAA
1 TTTTTATAA
*
45313773 TGTTTA
1 TTTTTA
45313779 ATAAGAGCAT
Statistics
Matches: 86, Mismatches: 24, Indels: 14
0.69 0.19 0.11
Matches are distributed among these distances:
7 4 0.05
8 2 0.02
9 55 0.64
10 21 0.24
11 4 0.05
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45314479 original size:22 final size:21
Alignment explanation
Indices: 45314454--45314497 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45314444 ACTAAAGCAT
*
45314454 ATTGACGATAAAGTTAAAAAAA
1 ATTGA-GAGAAAGTTAAAAAAA
*
45314476 ATTGAGAGAAATTTAAAAAAA
1 ATTGAGAGAAAGTTAAAAAAA
45314497 A
1 A
45314498 AAATTAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.23
Consensus pattern (21 bp):
ATTGAGAGAAAGTTAAAAAAA
Found at i:45315033 original size:23 final size:23
Alignment explanation
Indices: 45315005--45315058 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
45314995 GTTTTGGTGC
*
45315005 TGTTATTTTT-CTGTTGTTTTTGT
1 TGTTATTTTTGCTATTGTTTTT-T
45315028 TGTTATTTTTGCTATTGTTTTTT
1 TGTTATTTTTGCTATTGTTTTTT
45315051 TGTTATTT
1 TGTTATTT
45315059 GTACTGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (23 bp):
TGTTATTTTTGCTATTGTTTTTT
Found at i:45317219 original size:17 final size:18
Alignment explanation
Indices: 45317187--45317220 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45317177 CAAGAAGCAA
*
45317187 AAAAAATGGGCCGAATTG
1 AAAAAATGGGCAGAATTG
45317205 AAAAAAT-GGCAGAATT
1 AAAAAATGGGCAGAATT
45317221 AGTGGCTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.18
Consensus pattern (18 bp):
AAAAAATGGGCAGAATTG
Found at i:45318714 original size:9 final size:9
Alignment explanation
Indices: 45318699--45318731 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
45318689 ATGTAGTGAT
45318699 TTAATTCGG
1 TTAATTCGG
*
45318708 GTAATTCGG
1 TTAATTCGG
45318717 TTAATTCGG
1 TTAATTCGG
45318726 TTAATT
1 TTAATT
45318732 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:45327066 original size:14 final size:14
Alignment explanation
Indices: 45327046--45327087 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
45327036 AGAAATTGAA
45327046 AAAAATAAGTGTTG
1 AAAAATAAGTGTTG
* *
45327060 GAAAATAAGTATTG
1 AAAAATAAGTGTTG
45327074 AAAAATTAAGTGTT
1 AAAAA-TAAGTGTT
45327088 AAATTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (14 bp):
AAAAATAAGTGTTG
Found at i:45351777 original size:12 final size:11
Alignment explanation
Indices: 45351760--45351785 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45351750 CCAGACACCC
45351760 AAAAAAAAAAG
1 AAAAAAAAAAG
45351771 AAAAAAAAAAG
1 AAAAAAAAAAG
45351782 AAAA
1 AAAA
45351786 CTAATCAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:45357030 original size:18 final size:18
Alignment explanation
Indices: 45356992--45357027 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45356982 TTATTATTTT
*
45356992 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
45357010 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
45357028 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:45357039 original size:31 final size:29
Alignment explanation
Indices: 45357002--45357067 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
45356992 TAAAATTTAC
*
45357002 TATTAAAATAA-AATTTAAATATTAAATAATT
1 TATTAAAATAATAAATT--ATATT-AATAATT
45357033 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
45357063 TATTA
1 TATTA
45357068 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 9 0.28
32 7 0.22
33 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:45367218 original size:16 final size:16
Alignment explanation
Indices: 45367199--45367243 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
45367189 AAAATATGTA
45367199 TAAAATTATTAAATAT
1 TAAAATTATTAAATAT
*
45367215 TAAAA-TAATATAATAT
1 TAAAATTATTA-AATAT
*
45367231 AAAAATTATTAAA
1 TAAAATTATTAAA
45367244 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATTATTAAATAT
Found at i:45367924 original size:19 final size:20
Alignment explanation
Indices: 45367894--45367937 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
45367884 CAAACACCAT
45367894 AAAATATAATTT-TATTTTA
1 AAAATATAATTTATATTTTA
45367913 GAAAAT-TAATTTATATTTTA
1 -AAAATATAATTTATATTTTA
45367933 AAAAT
1 AAAAT
45367938 CATTTTCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAATATAATTTATATTTTA
Found at i:45367935 original size:18 final size:18
Alignment explanation
Indices: 45367893--45367935 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
45367883 CCAAACACCA
45367893 TAAAATATAATTTTATTT
1 TAAAATATAATTTTATTT
45367911 TAGAAA-ATTAATTTATATTT
1 TA-AAATA-TAATTT-TATTT
45367931 TAAAA
1 TAAAA
45367936 ATCATTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 12 0.55
20 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TAAAATATAATTTTATTT
Found at i:45368460 original size:30 final size:32
Alignment explanation
Indices: 45368424--45368483 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
45368414 TTTGAGAAAG
45368424 TTATTTTAAATATAAA-GAAA-A-TATTTATAT
1 TTATTTTAAAT-TAAATGAAATATTATTTATAT
45368454 TTATTTTAAATTAAATGAAATATTATTTAT
1 TTATTTTAAATTAAATGAAATATTATTTAT
45368484 TGATTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 15 0.56
31 1 0.04
32 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
TTATTTTAAATTAAATGAAATATTATTTATAT
Found at i:45380350 original size:29 final size:29
Alignment explanation
Indices: 45380304--45380360 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
45380294 ATTTTTGTAT
45380304 TATTTATATATTTGAAATGTAGT-TTTCA
1 TATTTATATATTTGAAATGTAGTCTTTCA
* * *
45380332 TATTTTTATTTTTAGAAATTTAGTCTTTC
1 TATTTATATATTT-GAAATGTAGTCTTTC
45380361 CACTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 9 0.38
30 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (29 bp):
TATTTATATATTTGAAATGTAGTCTTTCA
Found at i:45383506 original size:20 final size:20
Alignment explanation
Indices: 45383466--45383506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45383456 TTATTAACAC
*
45383466 TTTTTATATTTTTAAACTTA
1 TTTTTATATTTTAAAACTTA
* *
45383486 TTTTTTTATTTTAAAATTTA
1 TTTTTATATTTTAAAACTTA
45383506 T
1 T
45383507 AAATTAGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTAAAACTTA
Found at i:45384277 original size:14 final size:14
Alignment explanation
Indices: 45384260--45384287 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45384250 TCTTTTCTTC
45384260 ATTTTTTTCTCTAT
1 ATTTTTTTCTCTAT
45384274 ATTTTTTTCTCTAT
1 ATTTTTTTCTCTAT
45384288 TGCATATTAA
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:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTTTCTCTAT
Found at i:45384887 original size:3 final size:3
Alignment explanation
Indices: 45384881--45384934 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
45384871 ATTGAATTGC
* *
45384881 ATT ATT ATT A-T ATT ATCT ATT ATTT ATT ATAT ATT ATT ATT AGT AGT
1 ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
45384928 ATT ATT A
1 ATT ATT A
45384935 CTTCCATACG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:45385077 original size:27 final size:25
Alignment explanation
Indices: 45385007--45385079 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 25
45384997 ATTGTACATG
* *
45385007 TATATATTTTATATATTTTATTATTA
1 TATATATCTTATA-ATTTTTTTATTA
*
45385033 T-TTTATCTTCATAA-TTTTTTATTA
1 TATATATCTT-ATAATTTTTTTATTA
45385057 TATATATACTTATACATTTTTTT
1 TATATAT-CTTATA-ATTTTTTT
45385080 CTATTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
24 10 0.26
25 14 0.37
26 8 0.21
27 6 0.16
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (25 bp):
TATATATCTTATAATTTTTTTATTA
Found at i:45391036 original size:44 final size:44
Alignment explanation
Indices: 45390985--45391438 Score: 345
Period size: 44 Copynumber: 10.3 Consensus size: 44
45390975 TACTGGTGGC
* *
45390985 GAAGTAGATCCAAGAAAGCAGATTTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * *** * * *
45391029 GAAGTAGATCGAAGATACCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
*
45391074 GAAGTAGATCCAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * * * * * *
45391118 GAAGTAGATTC-AAGATACCAGATCTTATCTCCCCATACTAGTGGTG-
1 GAAGTAGA-TCGAAGAAAGCAGATCTTGTCT--TCAT-GTATTGGCGT
*
45391164 GAA-TAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * * *** * *
45391207 GAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
* *
45391252 GGAGTAGATCGAAGAAAACAGATC---T-TT-ATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * * * *
45391291 AAAGTAGATTGAATAAAACAGATATTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * * ***
45391335 GAAGTAGATTGGAGAAGGCAGATCTTGTCTTCCCATACTGTGGC--
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-T-TGGCGT
* * * *
45391379 GAAGTACATC-AGAGATAGCAGATCTTGTCTTCCTGTAGTGGCAGT
1 GAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATGTATTGGC-GT
45391424 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
45391439 TACGAGTCTT
Statistics
Matches: 316, Mismatches: 73, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
39 21 0.07
40 5 0.02
41 1 0.00
42 12 0.04
43 8 0.03
44 159 0.50
45 93 0.29
46 11 0.03
47 6 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
Found at i:45391110 original size:89 final size:89
Alignment explanation
Indices: 45390959--45391322 Score: 499
Period size: 89 Copynumber: 4.1 Consensus size: 89
45390949 TGAATACAAA
* *
45390959 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAGATTTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGTATT
45391024 GGCGTGAAGTAGATCGAAGATACC
66 GGCGTGAAGTAGATCGAAGATACC
*
45391048 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGTATT
45391113 GGCGTGAAGTAGATTC-AAGATACC
66 GGCGTGAAGTAGA-TCGAAGATACC
* * * * *
45391137 AGATCTTATCTCCCCATACTAGTGGTGGAA-TAGATCGAAGAAAACAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCCATACTGGTGG-CGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGTAT
45391201 TGGCGTGAAGTAGATCGAAGATACC
65 TGGCGTGAAGTAGATCGAAGATACC
* * * *
45391226 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATC---T-TT-ATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGTATT
* * * * *
45391286 GGCGTAAAGTAGATTGAATAAAAC
66 GGCGTGAAGTAGATCGAAGATACC
*
45391310 AGATATTGTCTTC
1 AGATCTTGTCTTC
45391323 ATGTATTGGC
Statistics
Matches: 253, Mismatches: 18, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
84 37 0.15
85 2 0.01
86 1 0.00
88 4 0.02
89 204 0.81
90 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCGAAGATACC
Found at i:45393075 original size:3 final size:3
Alignment explanation
Indices: 45393069--45393119 Score: 59
Period size: 3 Copynumber: 16.3 Consensus size: 3
45393059 ATTGAATTGC
*
45393069 ATT ATT ATT A-T ATT ATCT ATT ATTT ATT ATAT ATT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
45393116 ATT A
1 ATT A
45393120 CTTCCATACG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.74
4 9 0.21
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:45399668 original size:12 final size:12
Alignment explanation
Indices: 45399642--45399675 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
45399632 AAGATACATA
45399642 AATAAATAGTAAT
1 AATAAATA-TAAT
45399655 AATAAATATAAT
1 AATAAATATAAT
45399667 AATAAATAT
1 AATAAATAT
45399676 GGTACAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:45401370 original size:44 final size:44
Alignment explanation
Indices: 45401322--45401441 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
45401312 TCATCGTTTT
* *
45401322 AATCTGCTCTACTGCAACTTCAGGGAAATAAGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *
45401366 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
45401410 AACCTGCTCCACTGCAACTTTAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
45401442 GTTTGCCATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:45401576 original size:143 final size:143
Alignment explanation
Indices: 45401319--45402015 Score: 862
Period size: 143 Copynumber: 4.9 Consensus size: 143
45401309 GATTCATCGT
* * ** * * *
45401319 TTTAATCTGCTCTACTGCAACTTCAGGGAAATAAGATTAG-TAG-CTTCAATCTGCTCCACTGCA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT-GTCTTCAGTCTGCTCCGCTGCA
* ** * * * * *
45401382 ACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTG
65 ACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCG
45401447 CCATAATTTGTAGC
130 CCATAATTTGTAGC
* * *
45401461 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAAATTCGCCGTCTTCAGTTTGCTCCGCTGCAA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAA
* * * * *
45401526 CTTCAATGAGATAAGGCTGGTGGCTTCAATATACTCCACTGCAACTTTAGGAAGATAAGATTCGC
66 CTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGC
45401591 CATAATTTGTAGC
131 CATAATTTGTAGC
* * * * *
45401604 TTTAATCTGTTCCGA-TACAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACA
1 TTTAATCTGTTCC-ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCA
* * * * * **
45401668 ACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCACTGTAACTTCAAAAAGATAAGATTCG
65 ACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCG
45401733 CCATAATTTGTAGC
130 CCATAATTTGTAGC
* * * *
45401747 TTTAATCTGTTCCACTGCAGCACCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCTGCTGTAA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAA
* * * * * * *
45401812 CTTTAGGGAGATATGGTTGATGGCTTCAATCTGCTTCATTGCAACTTCAGGAAGATAAGATTCCC
66 CTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGC
45401877 CATAATTTGTAGC
131 CATAATTTGTAGC
* * * * * *
45401890 TTTAATCTGTTGCACTTCAATGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCTA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAA
*
45401955 CTTC-AGAGAGATAAGGTTGGTGGCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGAT
66 CTTCAAG-GAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
45402016 CTGCCACAAC
Statistics
Matches: 475, Mismatches: 75, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
142 37 0.08
143 437 0.92
144 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAA
CTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGC
CATAATTTGTAGC
Found at i:45406102 original size:19 final size:19
Alignment explanation
Indices: 45406080--45406119 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45406070 TATGAAATTT
*
45406080 AATGCATATG-ATGAAATGC
1 AATGCAGATGCATG-AATGC
45406099 AATGCAGATGCATGAATGC
1 AATGCAGATGCATGAATGC
45406118 AA
1 AA
45406120 AAAGAGGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (19 bp):
AATGCAGATGCATGAATGC
Found at i:45408172 original size:4 final size:4
Alignment explanation
Indices: 45408141--45408185 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
45408131 AAACAAAAAG
* *
45408141 TAAA AAAA TAAA -AAA TGAA TAAA T--A TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45408186 AAGAAAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
2 2 0.06
3 3 0.09
4 29 0.85
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:45408179 original size:18 final size:17
Alignment explanation
Indices: 45408135--45408187 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
45408125 CAAGAAAAAC
*
45408135 AAAAAGTAAA-AAA-AT
1 AAAAAATAAATAAATAT
*
45408150 AAAAAATGAATAAATAT
1 AAAAAATAAATAAATAT
45408167 AAATAAATAAATAAATA-
1 AAA-AAATAAATAAATAT
45408184 AAAA
1 AAAA
45408188 GAAAAGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 8 0.25
18 12 0.38
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAAAATAAATAAATAT
Found at i:45410258 original size:29 final size:30
Alignment explanation
Indices: 45410202--45410276 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
45410192 ATCTCAAAAT
* * *
45410202 TATACATGAACTTTGATTTAATATGCAATTG
1 TATACATGAACTTTAATTT-AGATGCAATTA
*
45410233 TATACATGAACTTTAATTT-GGTGCAATTA
1 TATACATGAACTTTAATTTAGATGCAATTA
*
45410262 TATACAAGAAACTTT
1 TATACATG-AACTTT
45410277 CAAATGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 14 0.37
30 6 0.16
31 18 0.47
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGATGCAATTA
Found at i:45414507 original size:16 final size:16
Alignment explanation
Indices: 45414474--45414508 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45414464 TTACTATGTG
*
45414474 TATAAAATATTTGAAA
1 TATAAAATATTAGAAA
*
45414490 TATAAAATATTAGTAA
1 TATAAAATATTAGAAA
45414506 TAT
1 TAT
45414509 TTTCAATATA
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:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
TATAAAATATTAGAAA
Found at i:45419230 original size:22 final size:22
Alignment explanation
Indices: 45419205--45419274 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
45419195 AATTTCTAAT
45419205 TTATATTTATATTTTACAAATA
1 TTATATTTATATTTTACAAATA
* * *
45419227 TTATCTATTGTTTGTATTT-CAATTA
1 TTA--TATT-TATAT-TTTACAAATA
* *
45419252 TTCTATTTATTTTTTACAAATA
1 TTATATTTATATTTTACAAATA
45419274 T
1 T
45419275 ATTTATGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 4 0.11
24 4 0.11
25 10 0.28
26 3 0.08
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (22 bp):
TTATATTTATATTTTACAAATA
Found at i:45428102 original size:5 final size:5
Alignment explanation
Indices: 45428092--45428127 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
45428082 AAGAGGAAAG
*
45428092 AAAAT AAAAT AAAAT AAAAAT AAGAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
45428128 TTGAAATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45428113 original size:16 final size:16
Alignment explanation
Indices: 45428092--45428126 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45428082 AAGAGGAAAG
45428092 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
45428108 AAAATAAGATAAAATA
1 AAAATAAAATAAAATA
45428124 AAA
1 AAA
45428127 TTTGAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:45437389 original size:5 final size:5
Alignment explanation
Indices: 45437379--45437414 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
45437369 AAGAGGAAAG
*
45437379 AAAAT AAAAT AAAAT AAAAAT AAGAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
45437415 TTGAAATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45437400 original size:16 final size:16
Alignment explanation
Indices: 45437379--45437413 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45437369 AAGAGGAAAG
45437379 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
45437395 AAAATAAGATAAAATA
1 AAAATAAAATAAAATA
45437411 AAA
1 AAA
45437414 TTTGAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:45443698 original size:9 final size:9
Alignment explanation
Indices: 45443686--45443733 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
45443676 TTTAAATATT
45443686 TTTTTATAA
1 TTTTTATAA
*
45443695 TTTTCA-ATA
1 TTTTTATA-A
*
45443704 TTTTT-GAA
1 TTTTTATAA
45443712 TTTTTATAA
1 TTTTTATAA
45443721 TTTTTATAA
1 TTTTTATAA
45443730 TTTT
1 TTTT
45443734 CAATTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45443713 original size:17 final size:19
Alignment explanation
Indices: 45443686--45443737 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 19
45443676 TTTAAATATT
*
45443686 TTTTTATAATTTTCAAT-A
1 TTTTTAGAATTTTCAATAA
*
45443704 TTTTT-GAATTTT-TATAA
1 TTTTTAGAATTTTCAATAA
*
45443721 TTTTTATAATTTTCAAT
1 TTTTTAGAATTTTCAAT
45443738 TTTAATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.44
18 11 0.41
19 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTAGAATTTTCAATAA
Found at i:45443897 original size:19 final size:17
Alignment explanation
Indices: 45443873--45443910 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
45443863 TTTTACTAAA
45443873 TATATATTTTCTAAATTTT
1 TATATATTTT-T-AATTTT
45443892 TATATATTTTTAATTTT
1 TATATATTTTTAATTTT
45443909 TA
1 TA
45443911 ATTAATTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 10 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATATTTTTAATTTT
Found at i:45444831 original size:20 final size:20
Alignment explanation
Indices: 45444806--45444845 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45444796 GATTGAATCC
45444806 CATGATTAATTTACATTTGA
1 CATGATTAATTTACATTTGA
45444826 CATGATTAATTTACATTTGA
1 CATGATTAATTTACATTTGA
45444846 AGCTTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
CATGATTAATTTACATTTGA
Found at i:45445177 original size:42 final size:42
Alignment explanation
Indices: 45445039--45445178 Score: 210
Period size: 42 Copynumber: 3.3 Consensus size: 42
45445029 TAAACAAAAA
* * *
45445039 CGCCGCTAAAGATCATGTTCTTTAGTGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
45445081 CGCCGCTAAAGAATATGATCTTTAGCGGC-TTTTGTTTCTAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCTAAG
*
45445123 CGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
45445165 CGCCGCTAAAGAAC
1 CGCCGCTAAAGAAC
45445179 GTCGTTAAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 4 0.05
42 80 0.91
43 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:45445243 original size:42 final size:41
Alignment explanation
Indices: 45445184--45445388 Score: 173
Period size: 42 Copynumber: 4.8 Consensus size: 41
45445174 AGAACGTCGT
*
45445184 TAAAGAACATGATCTTTAGCGGCGATTTCTACAAAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCG-TTTGTACAAAGCGCCGC
* * *
45445226 TAAAGGACATGATCTTTAGTGGCGTTTGTGA-ATATGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCGTTTGT-ACA-AAGCGCCGC
* ** * *
45445268 TAAAGAACATGTTCTTTAATGGCGCTTTGTAGAAAACGCCGC
1 TAAAGAACATGATCTTTAGCGGCG-TTTGTACAAAGCGCCGC
* * * * *
45445310 TAAAGACCATGTTCTTTAGCCGCGCTTTTTTTACAAA-TGCCGC
1 TAAAGAACATGATCTTTAG-CG-GC-GTTTGTACAAAGCGCCGC
45445353 TAAAGAACAT-ATTCTTTAGCGGCGTTTTTGTACAAA
1 TAAAGAACATGA-TCTTTAGCGGCG--TTTGTACAAA
45445389 AACGCCACTA
Statistics
Matches: 133, Mismatches: 20, Indels: 20
0.77 0.12 0.12
Matches are distributed among these distances:
41 7 0.05
42 88 0.66
43 28 0.21
44 10 0.08
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (41 bp):
TAAAGAACATGATCTTTAGCGGCGTTTGTACAAAGCGCCGC
Found at i:45445265 original size:97 final size:97
Alignment explanation
Indices: 45445087--45445275 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 97
45445077 TAAGCGCCGC
* * * *
45445087 TAAAGAATATGATCTTTAGCGGCTTTTGTTTCTAAACGCCGCTAAAGAACATGATCTTTAGCAGC
1 TAAAGAACATGATCTTTAGCGGCATTTGCTACTAAACGCCGCTAAAGAACATGATCTTTAGCAGC
* ***
45445152 GTTTTTTTCTAAGCGCCGCTAAAGAACGTCGT
66 GTTTGTGAATAAGCGCCGCTAAAGAACGTCGT
* **
45445184 TAAAGAACATGATCTTTAGCGGCGATTT-CTAC-AAAGCGCCGCTAAAGGACATGATCTTTAGTG
1 TAAAGAACATGATCTTTAGCGGC-ATTTGCTACTAAA-CGCCGCTAAAGAACATGATCTTTAGCA
*
45445247 GCGTTTGTGAATATGCGCCGCTAAAGAAC
64 GCGTTTGTGAATAAGCGCCGCTAAAGAAC
45445276 ATGTTCTTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
96 3 0.04
97 72 0.92
98 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (97 bp):
TAAAGAACATGATCTTTAGCGGCATTTGCTACTAAACGCCGCTAAAGAACATGATCTTTAGCAGC
GTTTGTGAATAAGCGCCGCTAAAGAACGTCGT
Found at i:45445308 original size:139 final size:139
Alignment explanation
Indices: 45445045--45445315 Score: 308
Period size: 139 Copynumber: 1.9 Consensus size: 139
45445035 AAAACGCCGC
* * * * * * * *
45445045 TAAAGATCATGTTCTTTAGTGGCGTTTTTTTCTAAGCGCCGCTAAAGAATATGATCTTTAGCGGC
1 TAAAGAACATGATCTTTAGCGGCGATTTCTACAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC
* *** * * * * * *
45445110 TTTTGTTTCTAAACGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAA
66 GTTTGTGAATAAACGCCGCTAAAGAACATGATCTTTAACAGCGCTTTGTACAAAACGCCGCTAAA
45445175 GAACGTCGT
131 GAACGTCGT
* *
45445184 TAAAGAACATGATCTTTAGCGGCGATTTCTACAAAGCGCCGCTAAAGGACATGATCTTTAGTGGC
1 TAAAGAACATGATCTTTAGCGGCGATTTCTACAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC
** * ** *
45445249 GTTTGTGAATATGCGCCGCTAAAGAACATGTTCTTTAATGGCGCTTTGTAGAAAACGCCGCTAAA
66 GTTTGTGAATAAACGCCGCTAAAGAACATGATCTTTAACAGCGCTTTGTACAAAACGCCGCTAAA
45445314 GA
131 GA
45445316 CCATGTTCTT
Statistics
Matches: 106, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
139 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (139 bp):
TAAAGAACATGATCTTTAGCGGCGATTTCTACAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC
GTTTGTGAATAAACGCCGCTAAAGAACATGATCTTTAACAGCGCTTTGTACAAAACGCCGCTAAA
GAACGTCGT
Found at i:45445787 original size:21 final size:21
Alignment explanation
Indices: 45445763--45445802 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45445753 TTCTTTTGAA
* *
45445763 CCTCTGCTTCTCTCGCTGCAG
1 CCTCCGCTTCCCTCGCTGCAG
45445784 CCTCCGCTTCCCTCGCTGC
1 CCTCCGCTTCCCTCGCTGC
45445803 TCATTTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.50, G:0.17, T:0.30
Consensus pattern (21 bp):
CCTCCGCTTCCCTCGCTGCAG
Found at i:45448087 original size:127 final size:125
Alignment explanation
Indices: 45447698--45448107 Score: 327
Period size: 127 Copynumber: 3.3 Consensus size: 125
45447688 AGTTTGCGGC
* *
45447698 GTTTTAAATAAACACGCCACTAAAGAGTTCAAATCATTTAAGAAAATGACGCCGTTTTCGTACAC
1 GTTTTACATAAAAACGCCACTAAA-A-TTCAAATCATTTAAGAAAATGACGCCGTTTTCGTACAC
* * * * * *
45447763 ACAAACATTTATGGATTTGCGGCGTTTCTATAAAAAACACCACGATTGCATACCTTCTGTGGC
64 ACAAAAAATTATAGATTTGCGGCGTTTCTAT-AAAAACGCCACTATTGCATACCTTCTGTGGT
* * * * * *
45447826 GTTTTCCA-AAAAACGCCACTAAAATTCAAATTCCTGTAATGAAACA-G-CGACATTCT-G-A-A
1 GTTTTACATAAAAACGCCACTAAAATTCAAA-TCATTTAA-GAAA-ATGACGCCGTTTTCGTACA
***** * * * * * ** * * *
45447885 CATTTTGTAA-TACATATTTGTGGCGTTT-TCATACTAAACGCCGCTAAAGCTTACAGTT-TG-C
63 CA-CAAAAAATTATAGATTTGCGGCGTTTCT-ATA-AAAACGCCACTATTGCATAC-CTTCTGTG
45447946 GT
124 GT
* *
45447948 CGTTTTAAATAAAAACGCCACTAAATAGTTCAAATCGTTTAAGAAAATGACGCCGTTTTCGTACA
1 -GTTTTACATAAAAACGCCACTAAA-A-TTCAAATCATTTAAGAAAATGACGCCGTTTTCGTACA
45448013 CACAAAAAATTATAGATTTGCGGCGTTTCTATAAAAACGCCACTATTGCATACCTTCTGTGGT
63 CACAAAAAATTATAGATTTGCGGCGTTTCTATAAAAACGCCACTATTGCATACCTTCTGTGGT
* * *
45448076 GTTTTTCATAAAAAAGTCACTAAAATTCAAAT
1 GTTTTACATAAAAACGCCACTAAAATTCAAAT
45448108 TCCTGTGGCC
Statistics
Matches: 208, Mismatches: 54, Indels: 43
0.68 0.18 0.14
Matches are distributed among these distances:
122 3 0.01
123 41 0.20
124 24 0.12
125 27 0.13
126 23 0.11
127 59 0.28
128 30 0.14
129 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (125 bp):
GTTTTACATAAAAACGCCACTAAAATTCAAATCATTTAAGAAAATGACGCCGTTTTCGTACACAC
AAAAAATTATAGATTTGCGGCGTTTCTATAAAAACGCCACTATTGCATACCTTCTGTGGT
Found at i:45448099 original size:251 final size:251
Alignment explanation
Indices: 45447615--45448113 Score: 829
Period size: 251 Copynumber: 2.0 Consensus size: 251
45447605 TTCCTCAAAC
* *
45447615 GAAACGGCGACGTTCTGAACATTTTGTAATACACATTTGTGGCATTTTCATACTAAACGCCGCTA
1 GAAACAGCGACATTCTGAACATTTTGTAATACACATTTGTGGCATTTTCATACTAAACGCCGCTA
*
45447680 AAGCTTACAGTTTGCGGCGTTTTAAATAAACACGCCACTAAAGAGTTCAAATCATTTAAGAAAAT
66 AAGCTTACAGTTTGCGGCGTTTTAAATAAAAACGCCACTAAAGAGTTCAAATCATTTAAGAAAAT
* * *
45447745 GACGCCGTTTTCGTACACACAAACATTTATGGATTTGCGGCGTTTCTATAAAAAACACCACGATT
131 GACGCCGTTTTCGTACACACAAAAAATTATAGATTTGCGGCGTTTCTATAAAAAACACCACGATT
*
45447810 GCATACCTTCTGTGGCGTTTTCCAAAAAACGCCACTAAAATTCAAATTCCTGTAAT
196 GCATACCTTCTGTGGCGTTTTCCAAAAAAAGCCACTAAAATTCAAATTCCTGTAAT
* *
45447866 GAAACAGCGACATTCTGAACATTTTGTAATACATATTTGTGGCGTTTTCATACTAAACGCCGCTA
1 GAAACAGCGACATTCTGAACATTTTGTAATACACATTTGTGGCATTTTCATACTAAACGCCGCTA
* * *
45447931 AAGCTTACAGTTTGCGTCGTTTTAAATAAAAACGCCACTAAATAGTTCAAATCGTTTAAGAAAAT
66 AAGCTTACAGTTTGCGGCGTTTTAAATAAAAACGCCACTAAAGAGTTCAAATCATTTAAGAAAAT
* *
45447996 GACGCCGTTTTCGTACACACAAAAAATTATAGATTTGCGGCGTTTCTAT-AAAAACGCCACTATT
131 GACGCCGTTTTCGTACACACAAAAAATTATAGATTTGCGGCGTTTCTATAAAAAACACCACGATT
* * *
45448060 GCATACCTTCTGTGGTGTTTTTCATAAAAAAGTCACTAAAATTCAAATTCCTGT
196 GCATACCTTCTGTGGCGTTTTCCA-AAAAAAGCCACTAAAATTCAAATTCCTGT
45448114 GGCCAAACAG
Statistics
Matches: 230, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
250 35 0.15
251 195 0.85
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (251 bp):
GAAACAGCGACATTCTGAACATTTTGTAATACACATTTGTGGCATTTTCATACTAAACGCCGCTA
AAGCTTACAGTTTGCGGCGTTTTAAATAAAAACGCCACTAAAGAGTTCAAATCATTTAAGAAAAT
GACGCCGTTTTCGTACACACAAAAAATTATAGATTTGCGGCGTTTCTATAAAAAACACCACGATT
GCATACCTTCTGTGGCGTTTTCCAAAAAAAGCCACTAAAATTCAAATTCCTGTAAT
Found at i:45448495 original size:7 final size:7
Alignment explanation
Indices: 45448483--45448514 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45448473 CCTTAGACAT
45448483 TAAACCC
1 TAAACCC
45448490 TAAACCC
1 TAAACCC
45448497 TAAACCC
1 TAAACCC
*
45448504 TTAACCC
1 TAAACCC
45448511 TAAA
1 TAAA
45448515 TTGACCTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:45448871 original size:39 final size:39
Alignment explanation
Indices: 45448789--45448877 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
45448779 CCATATTCCT
* * *
45448789 TAAACCTTGAATCATAGAACATATATAAACCTTAAATCC
1 TAAACCTTAAATCATAAAACATATATAAACCTTAAATCA
*
45448828 TAAACCCTAAATCATAAAACATATATAAA-CTATAAA-CTA
1 TAAACCTTAAATCATAAAACATATATAAACCT-TAAATC-A
45448867 TAAACCTTAAA
1 TAAACCTTAAA
45448878 CCTCAACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (39 bp):
TAAACCTTAAATCATAAAACATATATAAACCTTAAATCA
Found at i:45451559 original size:16 final size:17
Alignment explanation
Indices: 45451540--45451573 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45451530 TATATAATGT
45451540 ACTACTATTATA-TATA
1 ACTACTATTATATTATA
*
45451556 ACTAGTATTATATTATA
1 ACTACTATTATATTATA
45451573 A
1 A
45451574 ATTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (17 bp):
ACTACTATTATATTATA
Found at i:45453175 original size:7 final size:7
Alignment explanation
Indices: 45453163--45453194 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45453153 CCTTAGACAT
45453163 TAAACCC
1 TAAACCC
45453170 TAAACCC
1 TAAACCC
45453177 TAAACCC
1 TAAACCC
*
45453184 TTAACCC
1 TAAACCC
45453191 TAAA
1 TAAA
45453195 TTGACCTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:45453551 original size:39 final size:39
Alignment explanation
Indices: 45453469--45453557 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
45453459 CCATATTCCT
* * *
45453469 TAAACCTTGAATCATAGAACATATATAAACCTTAAATCC
1 TAAACCTTAAATCATAAAACATATATAAACCTTAAATCA
*
45453508 TAAACCCTAAATCATAAAACATATATAAA-CTATAAA-CTA
1 TAAACCTTAAATCATAAAACATATATAAACCT-TAAATC-A
45453547 TAAACCTTAAA
1 TAAACCTTAAA
45453558 CCTCAACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (39 bp):
TAAACCTTAAATCATAAAACATATATAAACCTTAAATCA
Found at i:45456239 original size:16 final size:17
Alignment explanation
Indices: 45456220--45456253 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45456210 TATATAATGT
45456220 ACTACTATTATA-TATA
1 ACTACTATTATATTATA
*
45456236 ACTAGTATTATATTATA
1 ACTACTATTATATTATA
45456253 A
1 A
45456254 ATTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (17 bp):
ACTACTATTATATTATA
Done.