Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 142 of 207
Found at i:43531503 original size:30 final size:32
Alignment explanation
Indices: 43531445--43531513 Score: 106
Period size: 30 Copynumber: 2.2 Consensus size: 32
43531435 TGACCAAACC
43531445 AAAAATATTGTAAAAATTATTAAAAATTGTAA
1 AAAAATATTGTAAAAATTATTAAAAATTGTAA
* *
43531477 GAAAATATT-TAAAAA-TATTTAAAATTGTAA
1 AAAAATATTGTAAAAATTATTAAAAATTGTAA
43531507 AAAAATA
1 AAAAATA
43531514 AACAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 20 0.59
31 6 0.18
32 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (32 bp):
AAAAATATTGTAAAAATTATTAAAAATTGTAA
Found at i:43531548 original size:17 final size:17
Alignment explanation
Indices: 43531497--43531548 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
43531487 AAAAATATTT
*
43531497 AAAATTGTAAAAAAATA
1 AAAATTGTAAAAGAATA
43531514 AACAATTG--AAAGTTAATA
1 AA-AATTGTAAAAG--AATA
43531532 AAAATTGTAAAAGAATA
1 AAAATTGTAAAAGAATA
43531549 TTAAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 11 0.38
19 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAATTGTAAAAGAATA
Found at i:43531599 original size:10 final size:10
Alignment explanation
Indices: 43531584--43531637 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
43531574 AATGTAAAAT
43531584 AAATTATTAA
1 AAATTATTAA
43531594 AAATTA-TAA
1 AAATTATTAA
43531603 AACATTATGT-A
1 AA-ATTAT-TAA
43531614 AAATT-TGTAA
1 AAATTAT-TAA
*
43531624 GAATTATTAA
1 AAATTATTAA
43531634 AAAT
1 AAAT
43531638 AGTAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 8 0.22
10 24 0.65
11 4 0.11
12 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:43537159 original size:5 final size:5
Alignment explanation
Indices: 43537149--43537187 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
43537139 GGCCGAATAT
43537149 AGAAA AGAAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGA
1 AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA AGA
43537188 GAACAACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:43540454 original size:43 final size:43
Alignment explanation
Indices: 43540395--43540496 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
43540385 GTTAGGATAT
* * * * *
43540395 TATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGA
1 TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
* *
43540438 TATTATAGGACATTATCTCTTAGTAATTTGATTCCTAATAAGA
1 TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
*
43540481 TATTATAAGATATTAT
1 TATTATAAGACATTAT
43540497 TATGATATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (43 bp):
TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
Found at i:43540498 original size:56 final size:56
Alignment explanation
Indices: 43540435--43540552 Score: 134
Period size: 56 Copynumber: 2.2 Consensus size: 56
43540425 ATTCCTAATG
*
43540435 AGATATTA-TA-G-GACATTATCTCTTAGTAATTTGATTCCTAATAAGATATTATA
1 AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
* * * * ** *
43540488 AGATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGGTATTATA
1 AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
*
43540544 GGATATTAT
1 AGATATTAT
43540553 CTCTTAGCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
53 8 0.15
54 2 0.04
55 1 0.02
56 42 0.79
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (56 bp):
AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
Found at i:43540560 original size:43 final size:43
Alignment explanation
Indices: 43540494--43540616 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
43540484 TATAAGATAT
* * * * *
43540494 TATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGG
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* * * *
43540537 TATTATAGGATATTATCTCTTAGCAATTTCATTTCTAATGAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
*
43540580 TATTATAAGATATTATCTTTTAACAATTTGATTCCTA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTA
43540617 TGTAACTACT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (43 bp):
TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
Found at i:43540565 original size:99 final size:99
Alignment explanation
Indices: 43540390--43540595 Score: 340
Period size: 99 Copynumber: 2.1 Consensus size: 99
43540380 GGGGTGTTAG
43540390 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
* *
43540455 TCTTAGTAATTTGATTCCTAATAAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
* * * *
43540489 GATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGGTATTATAGGATATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
* *
43540554 TCTTAGCAATTTCATTTCTAATGAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
43540588 GATATTAT
1 GATATTAT
43540596 CTTTTAACAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (99 bp):
GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
TCTTAGCAATTTCATTCCTAATAAGATATTATAA
Found at i:43540926 original size:9 final size:9
Alignment explanation
Indices: 43540914--43540998 Score: 66
Period size: 9 Copynumber: 8.8 Consensus size: 9
43540904 AATTTCAAAT
43540914 AATTTTTAA
1 AATTTTTAA
43540923 AATTTTTAAA
1 AATTTTT-AA
43540933 TAATGTTTTATA
1 -AAT-TTTTA-A
43540945 AA-TTTTAA
1 AATTTTTAA
43540953 TATATTTTTAA
1 -A-ATTTTTAA
43540964 AATTTTTAA
1 AATTTTTAA
*
43540973 ATATTTTTTAC
1 A-A-TTTTTAA
43540984 AA-TTTTAA
1 AATTTTTAA
*
43540992 TATTTTT
1 AATTTTT
43540999 CTATAATTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
8 7 0.11
9 26 0.41
10 6 0.10
11 19 0.30
12 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
AATTTTTAA
Found at i:43540929 original size:10 final size:10
Alignment explanation
Indices: 43540916--43540989 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 10
43540906 TTTCAAATAA
43540916 TTTTTAAAAT
1 TTTTTAAAAT
*
43540926 TTTTAAATAAT
1 TTTTTAA-AAT
*
43540937 GTTTTATAAA-
1 TTTTTA-AAAT
*
43540947 -TTTTAATAT
1 TTTTTAAAAT
43540956 ATTTTTAAAA-
1 -TTTTTAAAAT
43540966 TTTTTAAATAT
1 TTTTTAAA-AT
*
43540977 TTTTTACAAT
1 TTTTTAAAAT
43540987 TTT
1 TTT
43540990 AATATTTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 12 0.24
11 23 0.45
12 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:43540933 original size:20 final size:19
Alignment explanation
Indices: 43540911--43541106 Score: 130
Period size: 20 Copynumber: 9.9 Consensus size: 19
43540901 CGCAATTTCA
43540911 AATAATTTTTAAAATTTTT
1 AATAATTTTTAAAATTTTT
43540930 AAATAATGTTTTATAAA-TTTT
1 -AATAAT-TTTTA-AAATTTTT
43540951 AATATATTTTTAAAATTTTT
1 AATA-ATTTTTAAAATTTTT
* *
43540971 AAATATTTTTTACAA-TTTT
1 -AATAATTTTTAAAATTTTT
* * **
43540990 AATATTTTTCTATAATTAGT
1 AATAATTTT-TAAAATTTTT
* **
43541010 AAT-TTTTTTTCAA-TTTT
1 AATAATTTTTAAAATTTTT
* * **
43541027 ATTAATTTTTTAGTTATTTT
1 AATAATTTTTAAAAT-TTTT
* *
43541047 AATATTTTTTTAAAAATTTT
1 AATA-ATTTTTAAAATTTTT
43541067 AATAAATTTTTAATAATTTTT
1 AAT-AATTTTTAA-AATTTTT
43541088 AATAATTTTTAATAATTTT
1 AATAATTTTTAA-AATTTT
43541107 AAAAATATTT
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
17 4 0.03
18 18 0.13
19 16 0.11
20 69 0.49
21 31 0.22
22 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATAATTTTTAAAATTTTT
Found at i:43541019 original size:39 final size:36
Alignment explanation
Indices: 43540945--43541086 Score: 115
Period size: 38 Copynumber: 3.7 Consensus size: 36
43540935 ATGTTTTATA
* *
43540945 AATTTTAATATATTTTTAAAATTTTTAAATATTTTTTAC
1 AATTTTAATAT-TTTTTATAA-TTTT-AATTTTTTTTAC
*
43540984 AATTTTAATATTTTTCTATAATTAGTAATTTTTTTT-C
1 AATTTTAATATTTTT-TATAATT-TTAATTTTTTTTAC
* * *
43541021 AATTTTATTAATTTTTTAGTTATTTTAATATTTTTTTAAA
1 AATTTTAAT-ATTTTTTA-TAATTTTAAT-TTTTTTT-AC
*
43541061 AATTTTAATAAATTTTTAATAATTTT
1 AATTTTAAT--ATTTTTTATAATTTT
43541087 TAATAATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
37 15 0.18
38 32 0.38
39 16 0.19
40 14 0.16
41 8 0.09
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (36 bp):
AATTTTAATATTTTTTATAATTTTAATTTTTTTTAC
Found at i:43541036 original size:10 final size:10
Alignment explanation
Indices: 43541009--43541106 Score: 51
Period size: 10 Copynumber: 9.7 Consensus size: 10
43540999 CTATAATTAG
*
43541009 TAATTTTTTT
1 TAATTTTTAT
43541019 TCAA-TTTTAT
1 T-AATTTTTAT
43541029 TAATTTTTTAGT
1 TAA-TTTTTA-T
43541041 T-ATTTTAATAT
1 TAATTTT--TAT
*
43541052 T--TTTTTAA
1 TAATTTTTAT
* *
43541060 AAATTTTAAT
1 TAATTTTTAT
* *
43541070 AAATTTTTAA
1 TAATTTTTAT
*
43541080 TAATTTTTAA
1 TAATTTTTAT
*
43541090 TAATTTTTAA
1 TAATTTTTAT
43541100 TAATTTT
1 TAATTTT
43541107 AAAAATATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
8 2 0.03
9 2 0.03
10 54 0.75
11 10 0.14
12 4 0.06
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (10 bp):
TAATTTTTAT
Found at i:43541055 original size:37 final size:37
Alignment explanation
Indices: 43540945--43541108 Score: 111
Period size: 39 Copynumber: 4.2 Consensus size: 37
43540935 ATGTTTTATA
*
43540945 AATTTTAATATATTTT-TAAAATTTTTAAATATTTTTTAC
1 AATTTTAATAT-TTTTCTATAA-TTTT-AATATTTTTTAC
* *
43540984 AATTTTAATATTTTTCTATAATTAGTAAT-TTTTTTTC
1 AATTTTAATATTTTTCTATAATT-TTAATATTTTTTAC
* * *
43541021 AATTTTATTAATTTTT-TAGTTATTTTAATATTTTTTTAAA
1 AATTTTAAT-ATTTTTCTA-TAATTTTAATA-TTTTTT-AC
* * *
43541061 AATTTTAATAAATTTTT-AATAATTTTTAATAATTTTTAAT
1 AATTTTAAT--ATTTTTCTATAA-TTTTAAT-ATTTTTTAC
43541101 AATTTTAA
1 AATTTTAA
43541109 AAATATTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
37 21 0.21
38 19 0.19
39 22 0.22
40 19 0.19
41 20 0.20
42 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (37 bp):
AATTTTAATATTTTTCTATAATTTTAATATTTTTTAC
Found at i:43541065 original size:40 final size:40
Alignment explanation
Indices: 43541021--43541118 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
43541011 ATTTTTTTTC
* * * * *
43541021 AATTTTATTAATTTTTTAGTTA-TTTTAATATTTTTTTAAA
1 AATTTTAATAAATTTTTAATAATTTTTAATA-ATTTTTAAA
*
43541061 AATTTTAATAAATTTTTAATAATTTTTAATAATTTTTAAT
1 AATTTTAATAAATTTTTAATAATTTTTAATAATTTTTAAA
*
43541101 AATTTTAAAAATATTTTT
1 AATTTTAATAA-ATTTTT
43541119 TCAATTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 35 0.71
41 14 0.29
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (40 bp):
AATTTTAATAAATTTTTAATAATTTTTAATAATTTTTAAA
Found at i:43541078 original size:31 final size:30
Alignment explanation
Indices: 43541043--43541106 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
43541033 TTTTTAGTTA
*
43541043 TTTTAATATTTTTTTAA-AAATTTTAATAAAT
1 TTTTAATA-ATTTTTAATAAATTTTAAT-AAT
*
43541074 TTTTAATAATTTTTAATAATTTTTAATAAT
1 TTTTAATAATTTTTAATAAATTTTAATAAT
43541104 TTT
1 TTT
43541107 AAAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAATAATTTTTAATAAATTTTAATAAT
Found at i:43548523 original size:185 final size:186
Alignment explanation
Indices: 43548211--43548585 Score: 671
Period size: 185 Copynumber: 2.0 Consensus size: 186
43548201 TCTAAGATTC
*
43548211 CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGGTATACATATCATAGAC
1 CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
43548276 ACCACCTTTAGGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
66 ACCACCTTTAGGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
* *
43548341 AC-AAACAAAATACTTTTATTTTGCCATTTATGTTGGTGCAGTCAAGCTTCTTTGT
131 ACAAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
* * *
43548396 CCTTCATTGTGACGTAGGTGTCACGCCTTGCTTTGAGACTATAACTTGATATACATATCATAGAC
1 CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
*
43548461 ACCACCTTTATGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
66 ACCACCTTTAGGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
*
43548526 ACAAAAAAAAATACTTTTATTTTTCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
131 ACAAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
43548582 CCTT
1 CCTT
43548586 ACTTTGATAC
Statistics
Matches: 181, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
185 127 0.70
186 54 0.30
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (186 bp):
CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
ACCACCTTTAGGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
ACAAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
Found at i:43548941 original size:32 final size:32
Alignment explanation
Indices: 43548868--43548929 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
43548858 CTGAGTTTTT
*
43548868 CCACAAAGGCGTTCCTTAACATTTAGTACTCA
1 CCACAAAGGCGTTCCTTAACATTCAGTACTCA
*
43548900 CTACAAAGGCGTTCCTTAACATTCAGTACT
1 CCACAAAGGCGTTCCTTAACATTCAGTACT
43548930 TGCCATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (32 bp):
CCACAAAGGCGTTCCTTAACATTCAGTACTCA
Found at i:43549209 original size:53 final size:53
Alignment explanation
Indices: 43549146--43549251 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
43549136 TCCTTAACTT
* * *
43549146 TTTCCATATGATGTCATAACCCACCAGTTACAATCTTACACGATATGGTCTTC
1 TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATACGGTCTTC
***
43549199 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACAATACGGTCTTC
1 TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATACGGTCTTC
43549252 AGTGCCATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (53 bp):
TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATACGGTCTTC
Found at i:43549617 original size:202 final size:202
Alignment explanation
Indices: 43549271--43549644 Score: 703
Period size: 202 Copynumber: 1.9 Consensus size: 202
43549261 GCCATGGACC
* *
43549271 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACGACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
* *
43549336 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTTATGCCTACTAGGCACACATGCACTT
66 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
*
43549401 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
131 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
43549466 TCAGACT
196 TCAGACT
43549473 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
43549538 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
66 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
43549603 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATA
131 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATA
43549645 TTCATTCAAA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 167 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (202 bp):
TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
TCAGACT
Found at i:43554247 original size:51 final size:51
Alignment explanation
Indices: 43554187--43554425 Score: 248
Period size: 51 Copynumber: 4.7 Consensus size: 51
43554177 TAGGTCGTAT
* * *
43554187 ATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAGTTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * * * * * * *
43554238 ATATAACTTTACATAATCT-GTACGCACACACTTTACATTAATAGTTGACAT
1 ATAGAACTTTACATAAT-TAGTACGCATATACTTTGCATTCACAGTTCACAC
* * *
43554289 ATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * * * * *
43554340 ATAAAAATTTACATAATTAGTACACATATGCTTTACATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * *
43554391 ATAGAAATTTATATAA-TAGTAAGCATATACTTTGC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGC
43554426 TTTGGAAGAT
Statistics
Matches: 151, Mismatches: 35, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
50 16 0.11
51 134 0.89
52 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (51 bp):
ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
Found at i:43561257 original size:30 final size:30
Alignment explanation
Indices: 43561223--43561285 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
43561213 ACTTAACAAG
43561223 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
43561253 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
43561283 CAA
1 CAA
43561286 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:43576842 original size:12 final size:12
Alignment explanation
Indices: 43576825--43576849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43576815 TGAACGTTTT
43576825 GCTGTTGTATCG
1 GCTGTTGTATCG
43576837 GCTGTTGTATCG
1 GCTGTTGTATCG
43576849 G
1 G
43576850 GGTATGGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (12 bp):
GCTGTTGTATCG
Found at i:43577653 original size:31 final size:31
Alignment explanation
Indices: 43577615--43577676 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43577605 AGGCAAATTA
43577615 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
43577646 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
43577677 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:43579218 original size:296 final size:296
Alignment explanation
Indices: 43578658--43579218 Score: 775
Period size: 296 Copynumber: 1.9 Consensus size: 296
43578648 TGTATTAGTC
* * * * *
43578658 TTCACGTTGGTTCACCCGAGGGAAGCTAAATCTGCCATAGTCGTAAGCTTCAAAACAGGGTAAGA
1 TTCACGTTGGCTCACCCAAGGGAAACTAAATCTGCCAGAGTCGCAAGCTTCAAAACAGGGTAAGA
* * ** * **
43578723 TAATCGAGGTCCACCAATAATTCCTCCTCCTTCTTCCTTCTTCTCACGTTATGCTTTTATGTTTT
66 GAATCGAGGTCCACCAAAAATTCCTCCTCCCCCTTCATTCTTCTCACGTTACCCTTTTATGTTTT
* *
43578788 CTTGAACAATACAGGTGTCCTTCTCTTAGGATTCTTTTGTCCTTATTCATACAGGGTAGTTACAC
131 CTTGAACAATACAGGTGTCCTTCTCTCAGGATTCTTCTGTCCTTATTCATACAGGGTAGTTACAC
* * * * *
43578853 TAGACTAGATAGCTCACTCATGGTTGGCTCTTATCAGACCGCTATCGACTGCGGCGACAATTCTG
196 CAGACTAGAGAGCTCACTCATGGTTGGCTCTTATCAGACAGCTATCAACTGCAGCGACAATTCTG
43578918 AATGCTATCTGAAATTAACTCAAGTTTACATCAGTT
261 AATGCTATCTGAAATTAACTCAAGTTTACATCAGTT
* * *
43578954 TTCACGTTGGCTCACCCAAGGGAAACTCAAGT-TGCCAGAGTCGCAGGCTTCAAAATAGGGTAAG
1 TTCACGTTGGCTCACCCAAGGGAAACT-AAATCTGCCAGAGTCGCAAGCTTCAAAACAGGGTAAG
* *
43579018 AGAATTGAGGTCCACCAAAAATTCCTCCTCCCCCTTTATTCTTCTCACGTTACCCTTTTATGTTT
65 AGAATCGAGGTCCACCAAAAATTCCTCCTCCCCCTTCATTCTTCTCACGTTACCCTTTTATGTTT
* * * * *
43579083 TCCTT-AACAGTATAGGTGTCCTTCTCTCAGGATTCTTCTGTCCTTGTTCGTATAGGGTAGTTAC
130 T-CTTGAACAATACAGGTGTCCTTCTCTCAGGATTCTTCTGTCCTTATTCATACAGGGTAGTTAC
* * * * * *
43579147 ACCAGACTGGAGAGCTCACTCATGTTTGGCTCTTATTAGACAGCTATCAACTGCAGTGGCAATTT
194 ACCAGACTAGAGAGCTCACTCATGGTTGGCTCTTATCAGACAGCTATCAACTGCAGCGACAATTC
43579212 TGAATGC
259 TGAATGC
43579219 CATAAAAAAT
Statistics
Matches: 228, Mismatches: 35, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
296 222 0.97
297 6 0.03
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (296 bp):
TTCACGTTGGCTCACCCAAGGGAAACTAAATCTGCCAGAGTCGCAAGCTTCAAAACAGGGTAAGA
GAATCGAGGTCCACCAAAAATTCCTCCTCCCCCTTCATTCTTCTCACGTTACCCTTTTATGTTTT
CTTGAACAATACAGGTGTCCTTCTCTCAGGATTCTTCTGTCCTTATTCATACAGGGTAGTTACAC
CAGACTAGAGAGCTCACTCATGGTTGGCTCTTATCAGACAGCTATCAACTGCAGCGACAATTCTG
AATGCTATCTGAAATTAACTCAAGTTTACATCAGTT
Found at i:43585871 original size:101 final size:99
Alignment explanation
Indices: 43585756--43586002 Score: 278
Period size: 101 Copynumber: 2.5 Consensus size: 99
43585746 AAAGTGATGG
* *
43585756 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TGGAATGAAAGGTCACATGTGTAGTAC
* * * *
43585821 TATGCGAAGGCTACTATGCGTACCGGAAAGCTTCGA
65 TATGCGAAGGATACTACGCGAACCGAAAAG-TTCGA
* * * * *
43585857 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTATTGGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TGGA-ATGAAAGGTCACATGTGTAGTA
* * * *
43585922 CTATGTGCAGGATACTACGTGAACCGAAAAGTTTGA
64 CTATGCGAAGGATACTACGCGAACCGAAAAGTTCGA
* * * * *
43585958 GCACGTGTGTAATACTATGAGAAGGCTACTACATGTATTGAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGA
43586003 TAATAGTTAA
Statistics
Matches: 122, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 74 0.61
102 42 0.34
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGAAAGGTCACATGTGTAGTACT
ATGCGAAGGATACTACGCGAACCGAAAAGTTCGA
Found at i:43585912 original size:51 final size:50
Alignment explanation
Indices: 43585752--43585942 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 50
43585742 AGTGAAAGTG
* *
43585752 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATGA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATTA
* * * * * * * * ***
43585802 AAGGTCGCATGTGTAGTACTATGCGAAGGCTACTATGCGTACCGGAAAGC
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATTA
* * * *
43585852 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTATTGGATATTA
1 AT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGA-ATTA
*
43585904 ATGGTCACGTGTGTAGTACTATGTGCAGGATACTACGTG
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTG
43585943 AACCGAAAAG
Statistics
Matches: 110, Mismatches: 29, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
50 40 0.36
51 68 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATTA
Found at i:43589680 original size:40 final size:40
Alignment explanation
Indices: 43589591--43589725 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
43589581 CGATCAACCG
* * *
43589591 AACACACCAGACAGAAGCTCATAAGAGTTGGTCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* * *
43589631 AATATGCCAAACAAAAGCTCATAAGAGCTGGTCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* ** *
43589671 AACACGCC-AATAGAAGCTCATAATTGCTGATCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* *
43589710 AACAAGCCAAAAAGAA
1 AACACGCCAAACAGAA
43589726 AGTATAACGC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 33 0.42
40 46 0.58
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.13
Consensus pattern (40 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
Found at i:43589705 original size:39 final size:39
Alignment explanation
Indices: 43589601--43589719 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 39
43589591 AACACACCAG
* * *
43589601 ACAGAAGCTCATAAGAGTTGGTCCACCCGAAATATGCCAA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCC-A
* *
43589641 ACAAAAGCTCATAAGAGCTGGTCCACCCGAAACACGCCA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
* ** *
43589680 ATAGAAGCTCATAATTGCTGATCCACCCGAAACAAGCCA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
43589719 A
1 A
43589720 AAAGAAAGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 35 0.51
40 34 0.49
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.15
Consensus pattern (39 bp):
ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
Found at i:43590672 original size:10 final size:10
Alignment explanation
Indices: 43590657--43590681 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43590647 TTCTTCATTC
43590657 TTTAATTTTG
1 TTTAATTTTG
43590667 TTTAATTTTG
1 TTTAATTTTG
43590677 TTTAA
1 TTTAA
43590682 ACTTTCATTA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:43609016 original size:30 final size:30
Alignment explanation
Indices: 43608982--43609038 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
43608972 TTTTATGTAA
43608982 AATTTGACACATTTATGTACATGAGTCATG
1 AATTTGACACATTTATGTACATGAGTCATG
43609012 AATTTGACACATTTATGTACATGAGTC
1 AATTTGACACATTTATGTACATGAGTC
43609039 GTGTTCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (30 bp):
AATTTGACACATTTATGTACATGAGTCATG
Found at i:43614058 original size:26 final size:27
Alignment explanation
Indices: 43614003--43614058 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
43613993 AATAAAGGAC
*
43614003 ATTCTTTATTACTTTAATATTCTCTTT
1 ATTCTTTATTACTCTAATATTCTCTTT
43614030 ATTCTTTATT-CTCT-ATATCTCTCTTT
1 ATTCTTTATTACTCTAATAT-TCTCTTT
43614056 ATT
1 ATT
43614059 TTATAACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 13 0.48
27 10 0.37
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTCTTTATTACTCTAATATTCTCTTT
Found at i:43614804 original size:14 final size:15
Alignment explanation
Indices: 43614781--43614809 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43614771 CTTTATTTTG
43614781 CTTTTAACTTTTTCA
1 CTTTTAACTTTTTCA
43614796 CTTTT-ACTTTTTCA
1 CTTTTAACTTTTTCA
43614810 TCTCAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTTTAACTTTTTCA
Found at i:43616101 original size:12 final size:12
Alignment explanation
Indices: 43616067--43616103 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
43616057 GTAAAGGAAA
43616067 TAAA-AATA-TT
1 TAAATAATATTT
43616077 TAAATAATGATTT
1 TAAATAAT-ATTT
43616090 TAAATAATATTT
1 TAAATAATATTT
43616102 TA
1 TA
43616104 TTAAGAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 3 0.12
12 7 0.29
13 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:43620527 original size:16 final size:16
Alignment explanation
Indices: 43620502--43620532 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43620492 TCAAAAGAGT
43620502 TTTCAAATATATATAG
1 TTTCAAATATATATAG
*
43620518 TTTCACATATATATA
1 TTTCAAATATATATA
43620533 CGTATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTCAAATATATATAG
Found at i:43621516 original size:22 final size:20
Alignment explanation
Indices: 43621487--43621528 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
43621477 TTCTTTAAAT
43621487 AAATTAAAAATATAGAAAAAA
1 AAATTAAAAATATA-AAAAAA
*
43621508 AAATGTAAAATTATAAAAAAA
1 AAAT-TAAAAATATAAAAAAA
43621529 TCCTAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATTAAAAATATAAAAAAA
Found at i:43621750 original size:19 final size:20
Alignment explanation
Indices: 43621725--43621769 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
43621715 GAACAAAAAT
43621725 GAAAAAAGAAAA-AAAATCA
1 GAAAAAAGAAAAGAAAATCA
*
43621744 TAAAAAAGAAAAGAAAATCA
1 GAAAAAAGAAAAGAAAATCA
43621764 GAAAAA
1 GAAAAA
43621770 TAGTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
GAAAAAAGAAAAGAAAATCA
Found at i:43631344 original size:19 final size:19
Alignment explanation
Indices: 43631320--43631356 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43631310 CTTACATGCC
*
43631320 AAAGTGAAAAATTGATTTG
1 AAAGTGAAAAAGTGATTTG
43631339 AAAGTGAAAAAGTGATTT
1 AAAGTGAAAAAGTGATTT
43631357 TTGTGGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
AAAGTGAAAAAGTGATTTG
Found at i:43632506 original size:15 final size:15
Alignment explanation
Indices: 43632486--43632518 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43632476 TATTTATACT
*
43632486 TGAAACTTTAGATTA
1 TGAAACCTTAGATTA
43632501 TGAAACCTTAGATTA
1 TGAAACCTTAGATTA
43632516 TGA
1 TGA
43632519 GATGATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (15 bp):
TGAAACCTTAGATTA
Found at i:43633935 original size:19 final size:19
Alignment explanation
Indices: 43633911--43633947 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43633901 CTCACATGTC
*
43633911 AAAGTGAAAAATTGATTTG
1 AAAGTGAAAAAATGATTTG
43633930 AAAGTGAAAAAATGATTT
1 AAAGTGAAAAAATGATTT
43633948 TTGTGGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (19 bp):
AAAGTGAAAAAATGATTTG
Found at i:43642324 original size:10 final size:10
Alignment explanation
Indices: 43642291--43642316 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43642281 GACCATCAAT
43642291 CAAACACAAC
1 CAAACACAAC
43642301 CAAACACAAC
1 CAAACACAAC
43642311 CAAACA
1 CAAACA
43642317 TAATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAACACAAC
Found at i:43646809 original size:42 final size:42
Alignment explanation
Indices: 43646757--43646856 Score: 166
Period size: 42 Copynumber: 2.4 Consensus size: 42
43646747 ATTAAAATCC
* *
43646757 AAAAGTTAGAACTCAAGTTGTCGTAAATATTAAAGTAAAAAT
1 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
43646799 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
1 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
43646841 AAAAATTTAGAA-TCAA
1 AAAAA-TTAGAACTCAA
43646857 AACTAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 49 0.89
43 6 0.11
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (42 bp):
AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
Found at i:43646868 original size:43 final size:42
Alignment explanation
Indices: 43646780--43646870 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
43646770 CAAGTTGTCG
** ***
43646780 TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAGTTGTCA
1 TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAACTAAAA
43646822 TAAATATTAAAGTAAAAATAAAAATTTAGAA-TCAAAACTAAAA
1 TAAATATTAAAGTAAAAATAAAAA-TTAGAACTC-AAACTAAAA
43646865 TAAATA
1 TAAATA
43646871 ATACATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 26 0.62
43 16 0.38
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.27
Consensus pattern (42 bp):
TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAACTAAAA
Found at i:43646933 original size:113 final size:113
Alignment explanation
Indices: 43646808--43647035 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
43646798 TAAAAATTAG
43646808 AACTCAAGTTGTCATAAATATTAAAGTAAAAATAAAAATTTAGAATCAAAACTAAAATAAATAAT
1 AACTCAAGTTGTCATAAATATTAAAGTAAAAATAAAAATTTAGAATCAAAACTAAAATAAATAAT
43646873 ACATATGAAAAACATGCCTATGACTATACACATTACAAGGTAATAAAA
66 ACATATGAAAAACATGCCTATGACTATACACATTACAAGGTAATAAAA
43646921 AACTCAAGTTGTCATAAATATTAAAGTAAAAATAAAAATTTAGAATCAAAACTAAAATAAATAAT
1 AACTCAAGTTGTCATAAATATTAAAGTAAAAATAAAAATTTAGAATCAAAACTAAAATAAATAAT
43646986 ACATATGAAAAACATGCCTATGACTATACACATTACAAGGTAATAAAA
66 ACATATGAAAAACATGCCTATGACTATACACATTACAAGGTAATAAAA
43647034 AA
1 AA
43647036 TACAATGCAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.25
Consensus pattern (113 bp):
AACTCAAGTTGTCATAAATATTAAAGTAAAAATAAAAATTTAGAATCAAAACTAAAATAAATAAT
ACATATGAAAAACATGCCTATGACTATACACATTACAAGGTAATAAAA
Found at i:43651646 original size:120 final size:121
Alignment explanation
Indices: 43651497--43651723 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 121
43651487 ATGAACTTAA
* * *
43651497 TTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGAC-CCTGAATCT
1 TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATC-GAATCT
* * *
43651561 CTAAACCCTAAGTCAC-TCACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
65 ATAAACCCTAAATC-CTTAACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
* ** *
43651618 TTAATATATAAATT-AAAAACACTAATTAATCTAAACCCTAAACTCTAACTTGATATCGAATCTA
1 TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATCGAATCTA
* *
43651682 TAAACCCTAAATCCTTAACTCTTAATCTCTAACCCCTAACCC
66 TAAACCCTAAATCCTTAACTCTTAACCTCTAACCCCAAACCC
43651724 TTAAACCAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 1 0.01
120 76 0.83
121 15 0.16
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.29
Consensus pattern (121 bp):
TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATCGAATCTA
TAAACCCTAAATCCTTAACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
Found at i:43652220 original size:41 final size:41
Alignment explanation
Indices: 43652152--43652260 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
43652142 AAATGTTTTT
*
43652152 GCGGCGCTTTAT-AAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
43652192 GCGGCGCTTTTTCAAAAATGCCGTTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
43652233 GCGGCGCTTTTTCAAAAACGCCGCTAAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAA
43652261 GCCCCAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 11 0.17
41 52 0.83
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:43657737 original size:21 final size:21
Alignment explanation
Indices: 43657711--43657765 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
43657701 AACAATGGCG
* *
43657711 GTGGTGTGATTAATTACTATA
1 GTGGTGAGATTAAGTACTATA
* *
43657732 GTGGTGAGATTAGGTATTATA
1 GTGGTGAGATTAAGTACTATA
*
43657753 GTGGTGAGCTTAA
1 GTGGTGAGATTAA
43657766 AATTAGTGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (21 bp):
GTGGTGAGATTAAGTACTATA
Found at i:43659890 original size:35 final size:35
Alignment explanation
Indices: 43659851--43659919 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
43659841 AGTTTATTAA
43659851 TTTGAATACATTTGA-TTCCGAAGGAAGTTTATATG
1 TTTGAATACATTTGATTTCC-AAGGAAGTTTATATG
* *
43659886 TTTGAATAGATTTGATTTCCAATGAAGTTTATAT
1 TTTGAATACATTTGATTTCCAAGGAAGTTTATAT
43659920 CGATAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (35 bp):
TTTGAATACATTTGATTTCCAAGGAAGTTTATATG
Found at i:43661778 original size:10 final size:10
Alignment explanation
Indices: 43661749--43661796 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
43661739 AAATAAAACC
*
43661749 CTAAAAAAAA
1 CTAAAGAAAA
43661759 CTACAAAGAAAA
1 CT--AAAGAAAA
43661771 CTAAAGAAAA
1 CTAAAGAAAA
*
43661781 CCTAGAGAAAA
1 -CTAAAGAAAA
43661792 CTAAA
1 CTAAA
43661797 CCTAAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 14 0.44
11 9 0.28
12 9 0.28
ACGTcount: A:0.67, C:0.15, G:0.08, T:0.10
Consensus pattern (10 bp):
CTAAAGAAAA
Found at i:43665798 original size:18 final size:18
Alignment explanation
Indices: 43665775--43665812 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43665765 GCTTTTATGG
43665775 TGAAAGGTATCACCTACA
1 TGAAAGGTATCACCTACA
43665793 TGAAAGGTATCACCTACA
1 TGAAAGGTATCACCTACA
43665811 TG
1 TG
43665813 GCAAACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (18 bp):
TGAAAGGTATCACCTACA
Found at i:43669023 original size:39 final size:40
Alignment explanation
Indices: 43668978--43669162 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
43668968 GCTCCTCGTT
* * * *
43668978 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
43669018 C-AATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
43669057 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * * *
43669097 CAAAGGCCTTC-GGATCTTAGTCTGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43669138 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43669163 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 36 0.30
40 73 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43676924 original size:40 final size:39
Alignment explanation
Indices: 43676833--43677015 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
43676823 TCCTCGTTCA
* * *
43676833 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
43676872 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
43676911 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
43676951 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
43676992 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43677016 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 37 0.30
40 77 0.63
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:43677024 original size:41 final size:41
Alignment explanation
Indices: 43676947--43677024 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43676937 TTAGTATCTC
* * *
43676947 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43676988 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43677025 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43679633 original size:13 final size:13
Alignment explanation
Indices: 43679615--43679640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43679605 CCCCTTTTTA
43679615 GTTACAAACCATT
1 GTTACAAACCATT
43679628 GTTACAAACCATT
1 GTTACAAACCATT
43679641 CTTCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTTACAAACCATT
Found at i:43687112 original size:45 final size:44
Alignment explanation
Indices: 43687059--43687154 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
43687049 TTTGGTTCGC
43687059 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
* *
43687104 TGTAATGGAATAGATGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
*
43687148 TGGAATG
1 TGTAATG
43687155 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:43687431 original size:120 final size:120
Alignment explanation
Indices: 43687296--43687930 Score: 1019
Period size: 120 Copynumber: 5.3 Consensus size: 120
43687286 TTAATCATAT
*
43687296 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
43687361 AAATATTCTTATATGACTTTTCTAAAATTATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
43687416 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
43687481 AAATATTCTTATATGAATTTTCTAAAATCAAAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
43687536 TTTAACATAATTATTATTGAATATAATTTAATACAAATATATAATTTAATAAAATTATTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
43687601 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
43687656 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * *
43687721 AAATATTCTTAAATGCATTTACTAAAATCATAATATATAATACTACAACATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
43687776 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAACATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
*
43687841 TTAAAGATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
43687895 TTTAA-ATTAATTATT-TTCAAATATAATTTAATAAAA
1 TTTAACA-TAATTATTATT-AAATATAATTTAATAAAA
43687931 TTCTTAATAT
Statistics
Matches: 481, Mismatches: 31, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
117 17 0.04
118 3 0.01
119 50 0.10
120 357 0.74
121 1 0.00
122 53 0.11
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:43687579 original size:18 final size:17
Alignment explanation
Indices: 43687556--43687710 Score: 83
Period size: 18 Copynumber: 9.0 Consensus size: 17
43687546 TTATTATTGA
43687556 ATATAATTTAATACAAAT
1 ATATAATTTAATA-AAAT
43687574 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
***
43687591 -TATTAATATTAAATATTCTT
1 ATA-TAAT-TT-AATA-AAAT
43687611 ATATGAATTTAATAAAAT
1 ATAT-AATTTAATAAAAT
* * *
43687629 -CATAATAT-ATAATACT
1 ATATAATTTAATAA-AAT
*
43687645 ATATAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
43687664 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
43687676 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
43687694 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43687711 TCTTAATATT
Statistics
Matches: 104, Mismatches: 16, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 3 0.03
15 6 0.06
16 9 0.09
17 25 0.24
18 32 0.31
19 11 0.11
20 7 0.07
21 5 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43687800 original size:16 final size:16
Alignment explanation
Indices: 43687779--43687823 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
43687769 CATATAATTT
*
43687779 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
43687795 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
43687811 AAAATATATAATT
1 AAAATA-ATAATT
43687824 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:43687819 original size:18 final size:17
Alignment explanation
Indices: 43687794--43687831 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
43687784 AATAATTATT
*
43687794 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
43687811 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
43687829 AAA
1 AAA
43687832 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:43687928 original size:99 final size:102
Alignment explanation
Indices: 43687816--43687997 Score: 298
Period size: 102 Copynumber: 1.8 Consensus size: 102
43687806 TAGTAAAAAT
*
43687816 ATATAATTTAATAAAATTCTTAATATTAAAGA-TTCT-TA-GAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
43687878 AATACTATAAAATATAATTTAAATTAATTATTTTCAA
66 AATACTATAAAATATAATTTAAATTAATTATTTTCAA
* * *
43687915 ATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAAAATCAGGATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
*
43687980 AATACTATAATATATAAT
66 AATACTATAAAATATAAT
43687998 ACTAGAAAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
99 31 0.41
100 3 0.04
101 2 0.03
102 39 0.52
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
AATACTATAAAATATAATTTAAATTAATTATTTTCAA
Found at i:43692792 original size:47 final size:47
Alignment explanation
Indices: 43692700--43693161 Score: 664
Period size: 47 Copynumber: 9.7 Consensus size: 47
43692690 TCTGTACATG
* *
43692700 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCA
*
43692749 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCA
43692796 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCA
* *
43692845 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
43692892 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
43692939 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
43692986 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
43693033 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
43693080 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCA
* * *
43693127 ATGTGATGGATGTGGAA-GTGTATAAATGTGATAAG
1 ATGTGATGAATGT-GAACATGTATATATGTGATAAG
43693162 TCCCGAAGGG
Statistics
Matches: 385, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 316 0.82
48 3 0.01
49 64 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:43695714 original size:6 final size:6
Alignment explanation
Indices: 43695700--43695741 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
43695690 TCCAGATTTG
* * *
43695700 AGCACA AGCAAA AGCAAA AGCAAA A-CAAA ATCAAA ATCAAA A
1 AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA A
43695742 TTGATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.67, C:0.19, G:0.10, T:0.05
Consensus pattern (6 bp):
AGCAAA
Found at i:43695734 original size:17 final size:17
Alignment explanation
Indices: 43695708--43695741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43695698 TGAGCACAAG
43695708 CAAAAGCAAAAGCAAAA
1 CAAAAGCAAAAGCAAAA
* *
43695725 CAAAATCAAAATCAAAA
1 CAAAAGCAAAAGCAAAA
43695742 TTGATTTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.18, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAGCAAAAGCAAAA
Found at i:43695821 original size:14 final size:14
Alignment explanation
Indices: 43695802--43695829 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43695792 AGCAGAAATC
43695802 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
43695816 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
43695830 GAAATGTGAG
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:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:43704427 original size:16 final size:17
Alignment explanation
Indices: 43704400--43704434 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43704390 TAGACTTGGG
*
43704400 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
43704417 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
43704433 TT
1 TT
43704435 TAAATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:43705847 original size:50 final size:50
Alignment explanation
Indices: 43705783--43705877 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
43705773 TAAATGATAC
* *
43705783 CCGGTTCACATAGTAGCCTGCACATAGTACTACACAAGCGACCTATCATT
1 CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTATCATT
* * *
43705833 CCGGTACACGTAGTAGCCTGCACATAATACTACACATGTGACCTA
1 CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTA
43705878 GCAACTTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTATCATT
Found at i:43707573 original size:50 final size:50
Alignment explanation
Indices: 43707471--43707861 Score: 452
Period size: 50 Copynumber: 7.8 Consensus size: 50
43707461 TAATAACATC
* * ** *
43707471 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACAGGAGA-CCTCTCATCTCGGTG
* * * * *
43707522 CCCATGCCAAGTCCTAGACATGGTCTTACGGGAGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTG
43707572 CCAACGCCATGTCCCAGACATGGTCTTACACGG-GACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACA-GGAGACCTCTCATCTCGGTG
* ** * *
43707622 CCAACGCCATGTCCCAAACATGGTCTTTTATGG-GAACTCTCATTTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACA-GGAGACCTCTCATCTCGGTG
* * *
43707672 CCAACGCCATGTCCCAGACTTTGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTG
* * *
43707722 CCAATGTCATGTCCCAGACATGGTCTTACA-TAGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACAGGA-GACCTCTCATCTCGGTG
* * *
43707772 CCAACGCCATGTCCCAAACTTGGTCCTT-CATGG-GACCTCTCAACTCGGTG
1 CCAACGCCATGTCCCAGACATGGT-CTTACA-GGAGACCTCTCATCTCGGTG
*
43707822 CCAACGCCATGTCTCAGACATGGTCTTACATGG-GACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACA-GGAGACCTCT
43707862 TTACCCAAAT
Statistics
Matches: 291, Mismatches: 42, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
49 5 0.02
50 252 0.87
51 34 0.12
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTG
Found at i:43707715 original size:150 final size:150
Alignment explanation
Indices: 43707471--43707861 Score: 532
Period size: 150 Copynumber: 2.6 Consensus size: 150
43707461 TAATAACATC
* * * * ** * * *
43707471 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGGTGCCCATGCCAAGTCC
1 CCAACGCCATGTCCCAAACATGGTCTTTCATGGGA-ACTCTCATATCGGTGCCAACGCCATGTCC
* **
43707536 TAGACATGGTCTTACGGGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
65 CAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
*
43707601 ACGGGACCTCTCATCTCGGTG
130 ACAGGACCTCTCATCTCGGTG
* *
43707622 CCAACGCCATGTCCCAAACATGGTCTTTTATGGGAACTCTCATTTCGGTGCCAACGCCATGTCCC
1 CCAACGCCATGTCCCAAACATGGTCTTTCATGGGAACTCTCATATCGGTGCCAACGCCATGTCCC
* * * *
43707687 AGACTTTGTCTTACATGAGACCTCTCATCTCGGTGCCAATGTCATGTCCCAGACATGGTCTTACA
66 AGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
*
43707752 TAGGACCTCTCATCTCGGTG
131 CAGGACCTCTCATCTCGGTG
* * * *
43707772 CCAACGCCATGTCCCAAACTTGGTCCTTCATGGGACCTCTCA-ACTCGGTGCCAACGCCATGTCT
1 CCAACGCCATGTCCCAAACATGGTCTTTCATGGGAACTCTCATA-TCGGTGCCAACGCCATGTCC
*
43707836 CAGACATGGTCTTACATGGGACCTCT
65 CAGACATGGTCTTACATGAGACCTCT
43707862 TTACCCAAAT
Statistics
Matches: 210, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
150 180 0.86
151 30 0.14
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (150 bp):
CCAACGCCATGTCCCAAACATGGTCTTTCATGGGAACTCTCATATCGGTGCCAACGCCATGTCCC
AGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
CAGGACCTCTCATCTCGGTG
Found at i:43707849 original size:100 final size:100
Alignment explanation
Indices: 43707471--43707861 Score: 507
Period size: 100 Copynumber: 3.9 Consensus size: 100
43707461 TAATAACATC
* * * ** * * * *
43707471 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGGTGCCCATGCCAAGTCC
1 CCAACGCCATGTCCCAGACTTGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACGCCATGTCC
* *
43707536 TAGACATGGTCTTAC-GGGAGACCTCTCATCTCGGTG
65 CAGACATGGTCTTACATGG-GACCTCTCATCTCGGTG
* *
43707572 CCAACGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
1 CCAACGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
* ** * *
43707637 AAACATGGTCTTTTATGGGAACTCTCATTTCGGTG
66 AGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * *
43707672 CCAACGCCATGTCCCAGACTTTGTCTTACATGAGACCTCTCATCTCGGTGCCAATGTCATGTCCC
1 CCAACGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
*
43707737 AGACATGGTCTTACATAGGACCTCTCATCTCGGTG
66 AGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
43707772 CCAACGCCATGTCCCAAACTTGGTCCTT-CATGGGACCTCTCAACTCGGTGCCAACGCCATGTCT
1 CCAACGCCATGTCCCAGACTTGGT-CTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
43707836 CAGACATGGTCTTACATGGGACCTCT
65 CAGACATGGTCTTACATGGGACCTCT
43707862 TTACCCAAAT
Statistics
Matches: 252, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 215 0.85
101 37 0.15
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (100 bp):
CCAACGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
AGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:43711222 original size:50 final size:50
Alignment explanation
Indices: 43711097--43711290 Score: 271
Period size: 50 Copynumber: 3.9 Consensus size: 50
43711087 TGATAATAAC
* ** * *
43711097 ATGCCAAGGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATAG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * * * *
43711148 GTGCCCATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
43711198 ATGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
43711248 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43711291 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 92 0.74
51 33 0.26
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:43711662 original size:30 final size:30
Alignment explanation
Indices: 43711628--43711685 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
43711618 CCTTGACTCT
43711628 AACTT-TAGAAAAATTATGATTTTGCCCCTA
1 AACTTCTA-AAAAATTATGATTTTGCCCCTA
* * *
43711658 AACTTCTACATAATTATGCTTTTGCCCC
1 AACTTCTAAAAAATTATGATTTTGCCCC
43711686 AAAGTTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (30 bp):
AACTTCTAAAAAATTATGATTTTGCCCCTA
Found at i:43713195 original size:738 final size:734
Alignment explanation
Indices: 43711798--43713207 Score: 1851
Period size: 738 Copynumber: 1.9 Consensus size: 734
43711788 TACATTAGGG
* * *
43711798 ATTTTTACCGATTATGTCAACTTACTCGTTTACGCTTAAAATCGGCTAGCAAAAGTTGTTTAACA
1 ATTTTTACCGATTATGTCAACTTACTCGTTTACACTGAAAATCGGCTAGCAAAAATTGTTTAACA
* ** * *
43711863 TAATTTTTGACTTCATATTCTATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTTT
66 CAATTTAAGACTTCATATTCCATCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTT
* * * * *
43711928 TCCAAATATAAATCCTAGGTTAAATTATTGCTAGAATAAGCTAAATTAAGCTATCGGGATTTCAA
131 TCCAAATATAAACCCTAGGTTAAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACTTCAA
** * *
43711993 AAACATAAAGAGAATTAAAAACGGGGCTTGGGACCACTTACTATGGAGCTTGGAAGCTTGAAAAC
196 AAACATAAAGAGAATTAAAAACAAGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTGAAAAC
* * *
43712058 CCTAACTATGGCTTCTCCCCTTGCTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGCTTT
261 CCTAACCATGGCATCTCCCCTTACTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGC--T
* ** **
43712123 TAATTTTGTTTTTAATTCATTTTAATAACTAAATGACTAAAATGCCCTTAATGAAAAACTTTGGA
324 TAATTTTGTTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCCCAATGAAAAACTTCCGA
**
43712188 AACATGCCTAACCATGTCCATTTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAAG
389 AACA-GCCTAACCATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAATTACCATATAAAG
* * *
43712253 ACCTCCAATTTAAAATTTCATAAAAATTGGACACCTCTAACATATAGACTCAACTTTTGCACTTT
453 ACCACCAATTTAAAATTTCATAAAAACTAGACACCTCTAACATATAGACTCAACTTTTGCACTTT
43712318 TTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCA
518 TTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCA
* * * *
43712383 CAAAATCTTTCCGTGAAATTGTAGGCCATAGAAATATAGTAAAAATAAATTTTTCCTCATCGGAT
583 CAAAATCTTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAATTTTTCCTCATCGAAT
*
43712448 TTATGGTCCCGAAACCATTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAA
648 TTATGGTCCCGAAACCACTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAA
43712513 CATACACTTATGAACAGTAATA
713 CATACACTTATGAACAGTAATA
** * *
43712535 ATTTTTACCGATTATGTC-GTTTCACTTGTTTTCACTGAAAATC-GCTTAGCAAAAATTGTTTAA
1 ATTTTTACCGATTATGTCAACTT-ACTCGTTTACACTGAAAATCGGC-TAGCAAAAATTGTTTAA
43712598 CACAATTTCAAG-CTTCATATTCCATCATAAAACATCAAAAATAAACACATTTCACCTATGGGTA
64 CACAATTT-AAGACTTCATATTCCATCATAAAACATC-AAAATAAACACATTTCACCTATGGGTA
*
43712662 TTTTTCCAAATATAAACCCTAGTTTAAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACT
127 TTTTTCCAAATATAAACCCTAGGTTAAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACT
* *
43712727 TCAAAAACGTAAAGA-ACATTAAAAACAAGGCTTAGAATCACTTACTATGGAGCTTGGAAGCTTG
192 TCAAAAACATAAAGAGA-ATTAAAAACAAGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTG
* ** * * *
43712791 AAAACCCTAACCATGGCATC-CCCCTTACT-ATTTTCGTTCATCATGGAGAAGATGGA-CAAATT
256 AAAACCCTAACCATGGCATCTCCCCTTACTAAATTT-GGCCA-AATGAAGAAGAT-GATCAAA-A
* * *
43712853 TTTGGC-T-ATTTTGACCTTTTTAATTC-TTTTAATTACTAAATGACCAAAATGCCCCCAACTTA
317 ATTGGCTTAATTTTG---TTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCCCAA-TGA
* ** * * * * *
43712915 AAAA-TATCCTATTCCA-CTTATCTCTTGTCCA-TTTTTGTCTAAAAAGTTAACCAATGGTCTAA
378 AAAACT-TCCGA-AACAGCCTAAC-CATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAA
* * * ** * *
43712977 TTACCATTTAAGGACCACCAATTTAAAATTTCATAACAACTAGACAGTTCTAACATGTAGAACTT
440 TTACCATATAAAGACCACCAATTTAAAATTTCATAAAAACTAGACACCTCTAACATATAG-ACTC
* *
43713042 AACTTTTTCACTTTTTACAATTTAGTCCTTTT-AGCTAAATTGAGTGCCCAAACGTCGAAATTTT
504 AACTTTTGCACTTTTTACAATTTAGTCCTTTTGA-CTAAATTGAGTGCCCAAACGTCAAAATTTT
* * **
43713106 TGAACTAAATTTTTATGAAATCATTT-CGTGAAATTGTAGACCATAAAAATATAATAAAAATAAA
568 TGAACGAAATTTTCACAAAATC-TTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAA
* *
43713170 TTTTTCCTCGTCGAATTTGTGGTCCCGAAACCACTGTT
632 TTTTTCCTCATCGAATTTATGGTCCCGAAACCACTGTT
43713208 CCGACTAGGC
Statistics
Matches: 580, Mismatches: 74, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
735 6 0.01
736 9 0.02
737 204 0.35
738 349 0.60
739 12 0.02
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (734 bp):
ATTTTTACCGATTATGTCAACTTACTCGTTTACACTGAAAATCGGCTAGCAAAAATTGTTTAACA
CAATTTAAGACTTCATATTCCATCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTT
TCCAAATATAAACCCTAGGTTAAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACTTCAA
AAACATAAAGAGAATTAAAAACAAGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTGAAAAC
CCTAACCATGGCATCTCCCCTTACTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGCTTA
ATTTTGTTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCCCAATGAAAAACTTCCGAAA
CAGCCTAACCATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAATTACCATATAAAGACC
ACCAATTTAAAATTTCATAAAAACTAGACACCTCTAACATATAGACTCAACTTTTGCACTTTTTA
CAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCACAA
AATCTTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAATTTTTCCTCATCGAATTTA
TGGTCCCGAAACCACTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAACAT
ACACTTATGAACAGTAATA
Found at i:43715787 original size:48 final size:48
Alignment explanation
Indices: 43715728--43715925 Score: 261
Period size: 48 Copynumber: 4.1 Consensus size: 48
43715718 ACTAGATTTC
* * * * * *
43715728 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAATAATAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
43715776 TCGGTGGCCTGCACATAGTCTGTGCCACCCTTGTATCTTAACAGTTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* *
43715824 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
43715872 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
43715920 TCGGTG
1 TCGGTG
43715926 CGCATAGTAG
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:43718999 original size:42 final size:42
Alignment explanation
Indices: 43718919--43719000 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
43718909 CGTTTTCTCT
* **
43718919 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTC
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTC
* *
43718961 ATGCCATAGCCCAGCTATGGTCTTACATAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
43719001 CACACCAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTC
Found at i:43721340 original size:48 final size:48
Alignment explanation
Indices: 43721281--43721478 Score: 252
Period size: 48 Copynumber: 4.1 Consensus size: 48
43721271 AATAGATTTC
* * * * *
43721281 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
43721329 TCGGTGGCCTGCACATAGTTCGTGCCACCCTTGTATCTTAACAGTTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
43721377 TTGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
43721425 TTGGTGGCTTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
43721473 TCGGTG
1 TCGGTG
43721479 CGCATAGTAG
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 130 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:43722750 original size:41 final size:41
Alignment explanation
Indices: 43722698--43722870 Score: 179
Period size: 41 Copynumber: 4.2 Consensus size: 41
43722688 ACAACGTATA
*
43722698 TGCAATTCAGGGGTACTAAAGTAGAAATAGGGGCACATATG
1 TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
* * ****
43722739 TGCAATTCAGGGGTAAC-GAAGTACAAAGAGGGGCATGCGTG
1 TGCAATTCAGGGGT-ACTAAAGTACAAATAGGGGCACATATG
* * * * **
43722780 TGCAATTTAAGGGTA-TCGAAGTACAAATAGGGGCACGTAAA
1 TGCAATTCAGGGGTACT-AAAGTACAAATAGGGGCACATATG
* *
43722821 TGCAATTCAGTGGTACTAAAGTACAAATAGGGGCACATTTG
1 TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
43722862 TGCAATTCA
1 TGCAATTCA
43722871 ACAATATTCT
Statistics
Matches: 105, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.01
41 101 0.96
42 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
Found at i:43731514 original size:41 final size:41
Alignment explanation
Indices: 43731457--43731644 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
43731447 AACCCCTCGA
* * *
43731457 GGAATTTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
* * *
43731498 GGAATCTGCACTTAGCAACCCCTTTTTTATTAGAGTTTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
* * * * *
43731539 GGAATCTGCACTTGGAAACCCCTTTTTGATTAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
*
43731580 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
*
43731621 GGAATCTGCACTAAGCAACCCCTT
1 GGAATCTGCACTTAGCAACCCCTT
43731645 ACATTCAATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
Found at i:43739144 original size:41 final size:41
Alignment explanation
Indices: 43739099--43739249 Score: 232
Period size: 41 Copynumber: 3.7 Consensus size: 41
43739089 TAGCAACCCC
*
43739099 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
*
43739140 TCGGGGAATCTGCACTTGGCAACCCCTTTTTGATCA-ATGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGA-GAT
* *
43739181 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* *
43739222 TCAGGGAATCTGCACTAAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
43739250 ACATTTAATG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 100 0.99
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
Found at i:43739341 original size:19 final size:20
Alignment explanation
Indices: 43739291--43739341 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 20
43739281 TTCAATCGGG
* *
43739291 AACCTTATTTTCCAACATTT
1 AACCATATTTTTCAACATTT
* * *
43739311 TACCAAAATTTTC-ACATTT
1 AACCATATTTTTCAACATTT
43739330 AACCATATTTTT
1 AACCATATTTTT
43739342 GTAATCTACA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (20 bp):
AACCATATTTTTCAACATTT
Found at i:43748073 original size:10 final size:11
Alignment explanation
Indices: 43748048--43748086 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
43748038 GAGGCTGGTT
*
43748048 GTGGTCAGATA
1 GTGGTCAGAAA
43748059 GTGGTC-GAAA
1 GTGGTCAGAAA
*
43748069 GTGGTCTGAAA
1 GTGGTCAGAAA
43748080 GTGGTCA
1 GTGGTCA
43748087 ATGGTGACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.26, C:0.10, G:0.38, T:0.26
Consensus pattern (11 bp):
GTGGTCAGAAA
Found at i:43762441 original size:20 final size:19
Alignment explanation
Indices: 43762413--43762471 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
43762403 ATAGTATTTT
43762413 ATTAACTTAATATTAAAGTA
1 ATTAACTTAATATTAAA-TA
*
43762433 ATTATCTTAATATTAAATTAA
1 ATTAACTTAATATTAAA-T-A
*
43762454 ATTAAATTAA-ATTAAATA
1 ATTAACTTAATATTAAATA
43762472 TTTATCTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 23 0.68
21 9 0.26
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAACTTAATATTAAATA
Found at i:43762454 original size:5 final size:5
Alignment explanation
Indices: 43762439--43762470 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
43762429 AGTAATTATC
43762439 TTAATA TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAA-A TTAAA TTAAA TTAAA TTAAA TTAAA T
43762471 ATTTATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:43762535 original size:61 final size:57
Alignment explanation
Indices: 43762450--43762564 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 57
43762440 TAATATTAAA
* * *
43762450 TTAAATTAAATTAAATTAAATATTTATCTTATAGATCATTATTCTATTAATTTAATAGAT
1 TTAAATTAAATTAAATTAAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAGAT
* * *
43762510 TTAATATTAAATTTAATTTATTATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAA-ATTAAATTAAATTAAATATTTATCTTGATAAGTATTATATTAATTTAATA
43762565 TGAAAGTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 21 0.44
59 1 0.02
60 5 0.10
61 21 0.44
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (57 bp):
TTAAATTAAATTAAATTAAATATTTATCTTGATAAGTATTATATTAATTTAATAGAT
Found at i:43775610 original size:18 final size:18
Alignment explanation
Indices: 43775587--43775623 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43775577 TGCAAATGGA
*
43775587 TCATTTCCATTTTAATTT
1 TCATTTCCATTTCAATTT
43775605 TCATTTCCATTTCAATTT
1 TCATTTCCATTTCAATTT
43775623 T
1 T
43775624 TGGAAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTCCATTTCAATTT
Found at i:43775733 original size:10 final size:10
Alignment explanation
Indices: 43775706--43775738 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43775696 TTCTCATTTC
43775706 TCATTTCTTAT
1 TCATTTC-TAT
43775717 TCA-TTCTAT
1 TCATTTCTAT
43775726 TCATTTCTAT
1 TCATTTCTAT
43775736 TCA
1 TCA
43775739 AATACACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 12 0.57
11 3 0.14
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:43776428 original size:26 final size:25
Alignment explanation
Indices: 43776399--43776457 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
43776389 TAACCCCAAC
*
43776399 AAAATTTTAACGATTTTACCCCTTGT
1 AAAATTTTAACGATTTT-CCCCTGGT
*
43776425 AAAATTTTGACGATTTTCCCCTGGT
1 AAAATTTTAACGATTTTCCCCTGGT
43776450 AAAATTTT
1 AAAATTTT
43776458 GAGAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (25 bp):
AAAATTTTAACGATTTTCCCCTGGT
Found at i:43776451 original size:25 final size:26
Alignment explanation
Indices: 43776399--43776459 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
43776389 TAACCCCAAC
* *
43776399 AAAATTTTAACGATTTTACCCCTTGT
1 AAAATTTTGACGATTTTACCCCTGGT
43776425 AAAATTTTGACGATTTT-CCCCTGGT
1 AAAATTTTGACGATTTTACCCCTGGT
43776450 AAAATTTTGA
1 AAAATTTTGA
43776460 GAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 17 0.52
26 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
AAAATTTTGACGATTTTACCCCTGGT
Found at i:43788031 original size:22 final size:22
Alignment explanation
Indices: 43788003--43788051 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
43787993 ACTGGTGTTG
*
43788003 TGACACCCTAGTGTTTATGTAA
1 TGACACCCTAGTGTCTATGTAA
* *
43788025 TGACACCCTATTGTCTATGTCA
1 TGACACCCTAGTGTCTATGTAA
43788047 TGACA
1 TGACA
43788052 TTGAAGGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (22 bp):
TGACACCCTAGTGTCTATGTAA
Found at i:43791227 original size:119 final size:119
Alignment explanation
Indices: 43791016--43791250 Score: 425
Period size: 119 Copynumber: 2.0 Consensus size: 119
43791006 CAAGTCTCTT
*
43791016 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAT
1 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
* *
43791081 TAATCATGAGATGATTGTAATCACATACTTGTTTTACCCTATTTGCTAATATAA
66 TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATATAA
43791135 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
1 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
* *
43791200 TAATCATGAGATTATTGTAATCACATACTCGTTTTACCCTGTTTGCGAATA
66 TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATA
43791251 AAGTCCTAAG
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 111 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (119 bp):
GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATATAA
Found at i:43793477 original size:59 final size:58
Alignment explanation
Indices: 43793398--43793581 Score: 208
Period size: 59 Copynumber: 3.1 Consensus size: 58
43793388 TAAGTGTGGG
* * ** *
43793398 AAACGGTTGTGATTTTAAATCAGCAAACTATAAGATTCTAAAAATCTTGTAACCAGAGT
1 AAAC-GTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
* * * *
43793457 AAACAGTTGTGATTGTAAATCAACGAATTGCAAGATTCTGAAAATCTTGTATGC-GAAGT
1 AAAC-GTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAG-AGT
* * * *
43793516 AAACGATTGTGATTGTAAATCAGTGAACCGCAAGATTCTAAAAATATTGTAAGCAAAGT
1 AAACG-TTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
43793575 AAACGTT
1 AAACGTT
43793582 TATGATCATA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
58 4 0.04
59 100 0.96
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (58 bp):
AAACGTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
Found at i:43793594 original size:59 final size:58
Alignment explanation
Indices: 43793429--43793601 Score: 202
Period size: 59 Copynumber: 2.9 Consensus size: 58
43793419 AGCAAACTAT
* * ** **
43793429 AAGATTCTAAAAATCTTGTAACCAGAGTAAACAGTTGTGATTGTAAATCAACGAATTGC
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAAC-GTTGTGATTGTAAATCAGTGAACCGC
* * *
43793488 AAGATTCTGAAAATCTTGTATGCGAAGTAAACGATTGTGATTGTAAATCAGTGAACCGC
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAACG-TTGTGATTGTAAATCAGTGAACCGC
* * **
43793547 AAGATTCTAAAAATATTGTAAGCAAAGTAAACGTTTATGATCATAAATCAGTGAA
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAACG-TTGTGATTGTAAATCAGTGAA
43793602 ACTTAAGTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 1 0.01
59 95 0.99
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (58 bp):
AAGATTCTAAAAATCTTGTAAGCAAAGTAAACGTTGTGATTGTAAATCAGTGAACCGC
Found at i:43798449 original size:20 final size:19
Alignment explanation
Indices: 43798395--43798449 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
43798385 TACTTTCAAA
*
43798395 TTATATATATATGTAATAT
1 TTATATATATATATAATAT
* *
43798414 TTATAATTTATTTATAATATT
1 TTAT-ATATATATATAATA-T
*
43798435 TTATATATACATATA
1 TTATATATATATATA
43798450 TAAGAATGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATATATATATATAATAT
Found at i:43799184 original size:30 final size:30
Alignment explanation
Indices: 43799150--43799212 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
43799140 ACTTATTTTA
43799150 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
43799180 TTGTTATTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
43799210 TTG
1 TTG
43799213 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:43813440 original size:21 final size:22
Alignment explanation
Indices: 43813409--43813459 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
43813399 TTAGTTTTAG
43813409 ATGTTATTTAGTCC-TTAAAAC-C
1 ATGTT-TTTAG-CCATTAAAACAC
*
43813431 ATGTTTTTAGCCATTAAATCAC
1 ATGTTTTTAGCCATTAAAACAC
43813453 ATGTTTT
1 ATGTTTT
43813460 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (22 bp):
ATGTTTTTAGCCATTAAAACAC
Found at i:43814185 original size:190 final size:190
Alignment explanation
Indices: 43813849--43814230 Score: 629
Period size: 190 Copynumber: 2.0 Consensus size: 190
43813839 TAATGAATCC
* * *
43813849 TTGGCTAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCTAGATTCGATAGAAT
1 TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
* *
43813914 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCGGCTTTTAAGCAAAAGCG
66 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
* *
43813979 TAATTGGTGACTGTATGGAATAATTGCTTGTGGACATGCTTCAATGCATTATTTGGGAAT
131 TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
* *
43814039 TTGGATAATTTTTGGATGTATTGTTGTGTGAATTTATTGTGTTGAAGTTCCAGATTCGATAGAAC
1 TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
* * * *
43814104 CTTTTATGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCTTTCAGCTTTTAGGCAAAAGCA
66 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
* *
43814169 TAATTAGTGGCTGTATGGAATAATTACTTGTGGACATGCTTCAATGCGTTATTTGGGAAT
131 TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
43814229 TT
1 TT
43814231 AGTAGTAGCC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 177 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (190 bp):
TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
Found at i:43824352 original size:23 final size:22
Alignment explanation
Indices: 43824324--43824375 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
43824314 CCTTTGTGGC
*
43824324 GCATTCTAAATTTGGCGTTTATG
1 GCATTCT-AATTTGGCCTTTATG
** *
43824347 GCATTCTGGTTTGGCCTTTGTG
1 GCATTCTAATTTGGCCTTTATG
43824369 GCATTCT
1 GCATTCT
43824376 GTTAGACCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (22 bp):
GCATTCTAATTTGGCCTTTATG
Found at i:43824370 original size:22 final size:22
Alignment explanation
Indices: 43824334--43824396 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
43824324 GCATTCTAAA
* *
43824334 TTTGGCGTTTATGGCATTCTGG
1 TTTGGCCTTTGTGGCATTCTGG
43824356 TTTGGCCTTTGTGGCATTCT-G
1 TTTGGCCTTTGTGGCATTCTGG
* *
43824377 TTAGACC-TTGTGGCATTCTG
1 TTTGGCCTTTGTGGCATTCTG
43824397 TTAACCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.33
21 6 0.17
22 18 0.50
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.44
Consensus pattern (22 bp):
TTTGGCCTTTGTGGCATTCTGG
Found at i:43824389 original size:20 final size:21
Alignment explanation
Indices: 43824345--43824410 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 21
43824335 TTGGCGTTTA
* *
43824345 TGGCATTCTGGTTTGGCCTTTG
1 TGGCATTCT-GTTAGACCTTTG
43824367 TGGCATTCTGTTAGACC-TTG
1 TGGCATTCTGTTAGACCTTTG
43824387 TGGCATTCTGTTA-ACCTTTG
1 TGGCATTCTGTTAGACCTTTG
43824407 TGGC
1 TGGC
43824411 GTATTCTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 6 0.15
22 9 0.22
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.42
Consensus pattern (21 bp):
TGGCATTCTGTTAGACCTTTG
Found at i:43824436 original size:25 final size:25
Alignment explanation
Indices: 43824407--43824473 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
43824397 TTAACCTTTG
*
43824407 TGGCGTATTCTATATGTAGCATTTA
1 TGGCGTATTCTATATGTAGCACTTA
* * * *
43824432 TGGCGTATTTTGTATGTTGCCCTTA
1 TGGCGTATTCTATATGTAGCACTTA
* *
43824457 TAGCGTATACTATATGT
1 TGGCGTATTCTATATGT
43824474 TACATGTGTG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (25 bp):
TGGCGTATTCTATATGTAGCACTTA
Found at i:43842757 original size:9 final size:10
Alignment explanation
Indices: 43842737--43842797 Score: 67
Period size: 9 Copynumber: 6.5 Consensus size: 10
43842727 CACTAAGATT
* *
43842737 TTATTTCTTT
1 TTATTTATTA
*
43842747 TTATTTATTT
1 TTATTTATTA
43842757 TTA-TTATTA
1 TTATTTATTA
43842766 TTA-TTATTA
1 TTATTTATTA
43842775 TTA-TTATTA
1 TTATTTATTA
43842784 TTA-TTATTA
1 TTATTTATTA
43842793 TTATT
1 TTATT
43842798 ATCACATACG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
9 35 0.73
10 13 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTATTA
Found at i:43842765 original size:3 final size:3
Alignment explanation
Indices: 43842751--43842799 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
43842741 TTCTTTTTAT
*
43842751 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43842799 T
1 T
43842800 CACATACGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:43843229 original size:21 final size:20
Alignment explanation
Indices: 43843197--43843244 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
43843187 TTTGATGTCG
43843197 ATATTAGATTTTAGGTTTTTT
1 ATATTAGATTTT-GGTTTTTT
43843218 ATATTA-AGTTTT-GTTTTTT
1 ATATTAGA-TTTTGGTTTTTT
43843237 -T-TTAGATT
1 ATATTAGATT
43843245 ATATTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.20
18 2 0.08
19 7 0.28
20 1 0.04
21 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (20 bp):
ATATTAGATTTTGGTTTTTT
Found at i:43843251 original size:22 final size:22
Alignment explanation
Indices: 43843212--43843257 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43843202 AGATTTTAGG
* *
43843212 TTTTTTATATTAAGTTTTGTTT
1 TTTTTTAGATTAAGTTTTGATT
43843234 TTTTTTAGATTATA-TTTTGATT
1 TTTTTTAGATTA-AGTTTTGATT
43843256 TT
1 TT
43843258 GATTCTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTTAGATTAAGTTTTGATT
Found at i:43850888 original size:17 final size:18
Alignment explanation
Indices: 43850854--43850891 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
43850844 TCTAAGAAGA
43850854 ACTTTTAGGACAAAAAGC
1 ACTTTTAGGACAAAAAGC
*
43850872 ACTTTTGGGAC-AAAAGC
1 ACTTTTAGGACAAAAAGC
43850889 ACT
1 ACT
43850892 CTTAAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
ACTTTTAGGACAAAAAGC
Found at i:43853581 original size:50 final size:50
Alignment explanation
Indices: 43853517--43853803 Score: 334
Period size: 50 Copynumber: 5.8 Consensus size: 50
43853507 GGTAGTGAGT
* * *
43853517 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* *
43853567 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGACAGAGGAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-GA-A
* * *
43853619 GT-C-AGTGTAAGACCATGTTTGGGACATGACATCGGCTC-G--AGATG-A
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-GAA
* * * *
43853664 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGTA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* * *
43853714 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* * * *
43853764 GAGTTATTGTAAGACCATGTTTGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43853804 CGATATGCGA
Statistics
Matches: 203, Mismatches: 26, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 35 0.17
48 1 0.00
49 2 0.01
50 155 0.76
51 3 0.01
52 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
Found at i:43853695 original size:97 final size:98
Alignment explanation
Indices: 43853521--43853799 Score: 312
Period size: 97 Copynumber: 2.8 Consensus size: 98
43853511 GTGAGTGTGC
* *
43853521 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGAAGTGCCAGTGTAAGACCATG
* *
43853586 TCTGGGACATGGCATCGACACGGACAGAGGAGAG
65 TCTGGGAAATGGCATCGACACAGACAGAGGAGAG
* * *
43853620 TCAGTGTAAGACCATGTTTGGGACATGACATCGGCTC-GA-GATG-AGTGCCAGTGTAAGACCAT
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGA-GAAGTGCCAGTGTAAGACCAT
* * * *
43853682 GTCTGGGAAATGGCATCGGCACAGACCGAGTAGTG
64 GTCTGGGAAATGGCATCGACACAGACAGAGGAGAG
* * * * ** *
43853717 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGACAGAGGAGAGTTATTGTAAGACCAT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGAAGTGCCAGTGTAAGACCAT
* *
43853782 GTTTGGGACATGGCATCG
64 GTCTGGGAAATGGCATCG
43853800 GCACCGATAT
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
96 1 0.01
97 80 0.53
98 3 0.02
99 3 0.02
100 65 0.43
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.20
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGAAGTGCCAGTGTAAGACCATGT
CTGGGAAATGGCATCGACACAGACAGAGGAGAG
Found at i:43853784 original size:147 final size:148
Alignment explanation
Indices: 43853517--43853845 Score: 500
Period size: 147 Copynumber: 2.2 Consensus size: 148
43853507 GGTAGTGAGT
* *
43853517 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
*
43853582 CATGTCTGGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
66 CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
*
43853647 ACATCGGC-TCGAGATGA
131 ACATCGGCACCGAGATGA
*
43853664 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGTAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
* * *
43853729 CATGTCTAGGACATGGCATCGGCACGGACAGAGGAGAGTTATTGTAAGACCATGTTTGGGACATG
66 CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
* * *
43853794 GCATCGGCACCGATATGC
131 ACATCGGCACCGAGATGA
* * * *
43853812 GATCCCA-TGTAAGACCATATCTAGGATATGGCAT
1 G-TGCCAGTGTAAGACCATGTCTGGGAAATGGCAT
43853846 TGGCGTCCTA
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
147 130 0.79
148 31 0.19
149 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (148 bp):
GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
ACATCGGCACCGAGATGA
Found at i:43859086 original size:8 final size:8
Alignment explanation
Indices: 43859073--43859097 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43859063 GAGGATCCAT
43859073 TTGTTAAA
1 TTGTTAAA
43859081 TTGTTAAA
1 TTGTTAAA
43859089 TTGTTAAA
1 TTGTTAAA
43859097 T
1 T
43859098 GTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TTGTTAAA
Found at i:43860586 original size:22 final size:23
Alignment explanation
Indices: 43860561--43860606 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
43860551 AGATGTAGTG
*
43860561 AATAGAAAATGAAAGTTA-GCTT
1 AATAGAAAATGAAAATTATGCTT
* *
43860583 AATATATAATGAAAATTATGCTT
1 AATAGAAAATGAAAATTATGCTT
43860606 A
1 A
43860607 GTTATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (23 bp):
AATAGAAAATGAAAATTATGCTT
Found at i:43860808 original size:20 final size:20
Alignment explanation
Indices: 43860768--43860809 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43860758 ATAATGGTAT
* * *
43860768 GTATAGGATGTTTTGTTATG
1 GTATAGGATGATATGTAATG
43860788 GTATAGGATGATATGTAATG
1 GTATAGGATGATATGTAATG
43860808 GT
1 GT
43860810 GGTTTGGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (20 bp):
GTATAGGATGATATGTAATG
Found at i:43865787 original size:13 final size:13
Alignment explanation
Indices: 43865769--43865793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43865759 TCGTAACATT
43865769 CTTGTTTTATTTA
1 CTTGTTTTATTTA
43865782 CTTGTTTTATTT
1 CTTGTTTTATTT
43865794 GCACATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (13 bp):
CTTGTTTTATTTA
Found at i:43869969 original size:24 final size:24
Alignment explanation
Indices: 43869942--43869993 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43869932 TTAGTAAGTC
*
43869942 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43869966 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43869990 AAAT
1 AAAT
43869994 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43870166 original size:18 final size:18
Alignment explanation
Indices: 43870143--43870180 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43870133 GTATGTGTAA
*
43870143 GGTTTGGAAAGCTATGTT
1 GGTTTGAAAAGCTATGTT
*
43870161 GGTTTGAAAAGCTTTGTT
1 GGTTTGAAAAGCTATGTT
43870179 GG
1 GG
43870181 AAAGCTATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.34, T:0.39
Consensus pattern (18 bp):
GGTTTGAAAAGCTATGTT
Found at i:43875214 original size:8 final size:8
Alignment explanation
Indices: 43875201--43875225 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43875191 TTTTAAATAA
43875201 TATTTTAT
1 TATTTTAT
43875209 TATTTTAT
1 TATTTTAT
43875217 TATTTTAT
1 TATTTTAT
43875225 T
1 T
43875226 GTTTAGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43875661 original size:11 final size:11
Alignment explanation
Indices: 43875631--43875663 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
43875621 TTGATATGTT
43875631 AGTGAAGAGAA
1 AGTGAAGAGAA
*
43875642 AAT-AAGAGAA
1 AGTGAAGAGAA
43875652 AGTGAAGAGAA
1 AGTGAAGAGAA
43875663 A
1 A
43875664 TAGTGTCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:43877947 original size:101 final size:102
Alignment explanation
Indices: 43877822--43878006 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
43877812 AAAGTGATGG
*
43877822 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
43877885 ACTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
43877923 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
43877988 CTATGTGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
43878007 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:43877949 original size:51 final size:49
Alignment explanation
Indices: 43877819--43878004 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
43877809 GTGAAAGTGA
* *
43877819 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATA-G-T
* * *
43877869 AGGTCACATGTGTAGTACTAT-ATGCAGGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGA-GCAGGCTACTACGTGTACCAGATAG-T
* * * *
43877919 TCGATCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGT
*
43877969 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGAGCAGGCTACTA
43878005 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
50 42 0.37
51 70 0.61
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGT
Found at i:43878937 original size:49 final size:49
Alignment explanation
Indices: 43878856--43878956 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 49
43878846 ATGAGTACTT
* * * *
43878856 TCGGTAAGTGATATGTGATTCCGTATAGGACCATAGTTGGACTATGGCA
1 TCGGTAAGTGATATGTGATTACATATAAGACCAGAGTTGGACTATGGCA
* * *
43878905 TCGGTATA-TGATATGTGATTACATGTAAGACCAGCGTTGGACTGTGGCA
1 TCGGTA-AGTGATATGTGATTACATATAAGACCAGAGTTGGACTATGGCA
43878954 TCG
1 TCG
43878957 AGAAAACGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 43 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (49 bp):
TCGGTAAGTGATATGTGATTACATATAAGACCAGAGTTGGACTATGGCA
Found at i:43880386 original size:8 final size:8
Alignment explanation
Indices: 43880373--43880397 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43880363 TTTTAAATAA
43880373 TATTTTAT
1 TATTTTAT
43880381 TATTTTAT
1 TATTTTAT
43880389 TATTTTAT
1 TATTTTAT
43880397 T
1 T
43880398 GTTTAGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43881485 original size:18 final size:19
Alignment explanation
Indices: 43881446--43881485 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43881436 GTGGACAGCT
43881446 TGTTATATACATATAAGCA
1 TGTTATATACATATAAGCA
*
43881465 TGTTATATACAT-TAAGGA
1 TGTTATATACATATAAGCA
43881483 TGT
1 TGT
43881486 GGAATGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTTATATACATATAAGCA
Done.