Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 110 of 135
Found at i:37512462 original size:15 final size:16
Alignment explanation
Indices: 37512442--37512481 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37512432 ATTTTATAAT
37512442 TTTATTTAATA-TTTA
1 TTTATTTAATATTTTA
37512457 TTTA-TTAATATTTTA
1 TTTATTTAATATTTTA
37512472 TTTACTTTAA
1 TTTA-TTTAA
37512482 ATTGATCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
17 4 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTTAATATTTTA
Found at i:37537810 original size:12 final size:12
Alignment explanation
Indices: 37537790--37537820 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37537780 AAACGAAATT
37537790 AAAGAAAAATAA
1 AAAGAAAAATAA
*
37537802 AATGAAAAATAA
1 AAAGAAAAATAA
37537814 AAAGAAA
1 AAAGAAA
37537821 CATCAGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAGAAAAATAA
Found at i:37551611 original size:18 final size:18
Alignment explanation
Indices: 37551590--37551651 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
37551580 AGTACTTTAT
37551590 GAAGAAAATGATGATGTA
1 GAAGAAAATGATGATGTA
* * *
37551608 GAAGAAGATGAAGTACTTTA
1 GAAGAAAATGATG-A-TGTA
*
37551628 TGAAGAAAATGATGTTGTA
1 -GAAGAAAATGATGATGTA
37551647 GAAGA
1 GAAGA
37551652 TGAATTAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 16 0.47
19 4 0.12
20 3 0.09
21 11 0.32
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (18 bp):
GAAGAAAATGATGATGTA
Found at i:37551613 original size:39 final size:38
Alignment explanation
Indices: 37551569--37551676 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 38
37551559 AGAGGTAGGC
37551569 GAAGAAGGTGAAGTACTTTATGAAGAAAATGATGATGTA
1 GAAGAA-GTGAAGTACTTTATGAAGAAAATGATGATGTA
*
37551608 GAAGAAGATGAAGTACTTTATGAAGAAAATGATGTTGTA
1 GAAGAAG-TGAAGTACTTTATGAAGAAAATGATGATGTA
* * *
37551647 GAAG-A-TGAATTAGTTTGTGAAGAAAATGAT
1 GAAGAAGTGAAGTACTTTATGAAGAAAATGAT
37551677 ATTTTAGAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
36 22 0.34
38 2 0.03
39 40 0.62
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.28
Consensus pattern (38 bp):
GAAGAAGTGAAGTACTTTATGAAGAAAATGATGATGTA
Found at i:37551685 original size:36 final size:36
Alignment explanation
Indices: 37551571--37551725 Score: 156
Period size: 36 Copynumber: 4.3 Consensus size: 36
37551561 AGGTAGGCGA
* *
37551571 AGAAGGTGAAGTACTTTATGAAGAAAATGATGATGTAGA
1 AGAAGATGAAGTACTTTATGAAGAAAATGAT-AT-T-GT
*
37551610 AGAAGATGAAGTACTTTATGAAGAAAATGATGTTGT
1 AGAAGATGAAGTACTTTATGAAGAAAATGATATTGT
* * * *
37551646 AGAAGATGAATTAGTTTGTGAAGAAAATGATATTTT
1 AGAAGATGAAGTACTTTATGAAGAAAATGATATTGT
***
37551682 AGAAGAT-ATAG-A--TTATGAAGAAAATGGGGTTGT
1 AGAAGATGA-AGTACTTTATGAAGAAAATGATATTGT
37551715 AGAAGATGAAG
1 AGAAGATGAAG
37551726 AGGAAAAGTG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
33 25 0.25
34 1 0.01
35 2 0.02
36 40 0.40
37 1 0.01
38 1 0.01
39 30 0.30
ACGTcount: A:0.43, C:0.01, G:0.27, T:0.28
Consensus pattern (36 bp):
AGAAGATGAAGTACTTTATGAAGAAAATGATATTGT
Found at i:37551686 original size:18 final size:18
Alignment explanation
Indices: 37551585--37551687 Score: 52
Period size: 18 Copynumber: 5.5 Consensus size: 18
37551575 GGTGAAGTAC
37551585 TTTATGAAGAAAATGATGA-
1 TTTA-GAAGAAAATGAT-AT
* * *
37551604 TGTAGAAGAAGATGAAGTAC
1 TTTAGAAGAAAATG-A-TAT
*
37551624 TTTATGAAGAAAATGATGT
1 TTTA-GAAGAAAATGATAT
* *
37551643 TGTAGAAGATGAAT--TAGT
1 TTTAGAAGA-AAATGATA-T
37551661 TTGT-GAAGAAAATGATAT
1 TT-TAGAAGAAAATGATAT
37551679 TTTAGAAGA
1 TTTAGAAGA
37551688 TATAGATTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
17 5 0.08
18 29 0.46
19 15 0.24
20 5 0.08
21 9 0.14
ACGTcount: A:0.44, C:0.01, G:0.24, T:0.31
Consensus pattern (18 bp):
TTTAGAAGAAAATGATAT
Found at i:37553565 original size:16 final size:16
Alignment explanation
Indices: 37553526--37553567 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37553516 TTTTCATTAT
37553526 AATAATATTATTTTGAA
1 AATAA-ATTATTTTGAA
*
37553543 AGA-AAATTATTTTTAA
1 A-ATAAATTATTTTGAA
37553559 AATAAATTA
1 AATAAATTA
37553568 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 1 0.05
16 17 0.77
17 3 0.14
18 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
AATAAATTATTTTGAA
Found at i:37558238 original size:24 final size:27
Alignment explanation
Indices: 37558173--37558240 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 27
37558163 GGTAAAAAAA
37558173 TTTTGGACCCCTTAAAAGTTGGTAATTTT
1 TTTTGGACCCCTTAAAAGTT-GTAA-TTT
*
37558202 TTTTGG--CCTTTAAAAG-T-TAA-TT
1 TTTTGGACCCCTTAAAAGTTGTAATTT
37558224 TTTTGGACCCCTTAAAA
1 TTTTGGACCCCTTAAAA
37558241 ACTGAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 8 0.23
24 11 0.31
26 1 0.03
27 9 0.26
29 6 0.17
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (27 bp):
TTTTGGACCCCTTAAAAGTTGTAATTT
Found at i:37560265 original size:21 final size:21
Alignment explanation
Indices: 37560226--37560271 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
37560216 TGTTCTACCA
* *
37560226 GTAGAAGTCATGGTTGTATCT
1 GTAGAAGTCATGGTAGTATCG
37560247 GTAGAAGTCA-GGTAAGTATCG
1 GTAGAAGTCATGGT-AGTATCG
37560268 GTAG
1 GTAG
37560272 TTTGTCCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (21 bp):
GTAGAAGTCATGGTAGTATCG
Found at i:37572240 original size:39 final size:39
Alignment explanation
Indices: 37572186--37572265 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
37572176 TTATTCATCA
37572186 AAGCATTATAGTAACATGAATAAAACATGACATTCTTTT
1 AAGCATTATAGTAACATGAATAAAACATGACATTCTTTT
37572225 AAGCATTATAGTAACATGAATAAAACATGACATTCTTTT
1 AAGCATTATAGTAACATGAATAAAACATGACATTCTTTT
37572264 AA
1 AA
37572266 AGAAAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (39 bp):
AAGCATTATAGTAACATGAATAAAACATGACATTCTTTT
Found at i:37573302 original size:5 final size:5
Alignment explanation
Indices: 37573292--37573325 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
37573282 TGGATAATTA
37573292 TTGGT TTGGT TTGGT TTGGT TTGAGTT TTGGT TT
1 TTGGT TTGGT TTGGT TTGGT TTG-G-T TTGGT TT
37573326 AAACTTACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.03, C:0.00, G:0.35, T:0.62
Consensus pattern (5 bp):
TTGGT
Found at i:37574312 original size:3 final size:3
Alignment explanation
Indices: 37574304--37574349 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
37574294 TCATGTTATG
37574304 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37574350 GTGTCGTAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37594007 original size:57 final size:58
Alignment explanation
Indices: 37593943--37594051 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
37593933 CTTGACATTT
* **
37593943 TTTAATTTGATACTTAAACTT-AATATTTTTTTTAAGTTGATACTTAATTTTGAGAGG
1 TTTAATTTGATACCTAAACTTGAATATTTTTCCTAAGTTGATACTTAATTTTGAGAGG
* * *
37594000 TTTAATTTGATACCTAAACTTGACTATTTTTCCTAATTTGGTACTTAATTTT
1 TTTAATTTGATACCTAAACTTGAATATTTTTCCTAAGTTGATACTTAATTTT
37594052 TTTTGTTCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.51
Consensus pattern (58 bp):
TTTAATTTGATACCTAAACTTGAATATTTTTCCTAAGTTGATACTTAATTTTGAGAGG
Found at i:37594498 original size:15 final size:15
Alignment explanation
Indices: 37594433--37594500 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 15
37594423 TAAAAAACTT
*
37594433 AAATACTAAATTAAA
1 AAATATTAAATTAAA
*
37594448 AAATATCAAATTAAA
1 AAATATTAAATTAAA
37594463 AAATA-T---TT---
1 AAATATTAAATTAAA
37594471 AAATATT-AATTAAA
1 AAATATTAAATTAAA
37594485 AAATATTAAATTAAA
1 AAATATTAAATTAAA
37594500 A
1 A
37594501 TATCAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
11 4 0.09
14 7 0.16
15 26 0.60
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATTAAATTAAA
Found at i:37597165 original size:9 final size:9
Alignment explanation
Indices: 37597151--37597184 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
37597141 ATAATTAAGA
37597151 AAAAAAATT
1 AAAAAAATT
37597160 AAAAAAATT
1 AAAAAAATT
37597169 -AAAAAATT
1 AAAAAAATT
37597177 GAAAAAAA
1 -AAAAAAA
37597185 AAATGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 9 0.39
10 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAAAAATT
Found at i:37599619 original size:23 final size:23
Alignment explanation
Indices: 37599582--37599628 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
37599572 TTGGCTAGCG
*
37599582 AGAAAAAAATAAGAACG-AGAAA
1 AGAAAAAAAAAAGAACGAAGAAA
*
37599604 AGAAAAAAAAAGAGAATGAAGAAA
1 AGAAAAAAAAA-AGAACGAAGAAA
37599628 A
1 A
37599629 CGTAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 5 0.24
24 6 0.29
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.04
Consensus pattern (23 bp):
AGAAAAAAAAAAGAACGAAGAAA
Found at i:37601386 original size:87 final size:88
Alignment explanation
Indices: 37601295--37601633 Score: 372
Period size: 87 Copynumber: 3.9 Consensus size: 88
37601285 TCGAAGGGGG
* * * *
37601295 AAAATGGTAATTTTTGGACGTTCG-GAGGTAAAACGGTAATTTTTTGACA-CTCAGGGGT-AAAA
1 AAAATGGTAATTTTTGGACGTTCGAG-GGTAAAATGGTAATTTTTTGAAAGTTTA-GGGTCAAAA
*
37601357 TGGTAATTTTTGGACA-CCCAGGGGT
64 TGGTAATTTTTGGACATCCGA-GGGT
* * * **
37601382 AAAATGATAATTTTTGGACACTT-GAGGGTAAAGTAATAA-TTTTTGAAAAGTTTAGGGTCAAAA
1 AAAATGGTAATTTTTGGAC-GTTCGAGGGTAAAATGGTAATTTTTTG-AAAGTTTAGGGTC-AAA
* *
37601445 AT-GTAATTTTTGGACGTTCGAGGGT
63 ATGGTAATTTTTGGACATCCGAGGGT
* * * * *
37601470 AAAATGGTAATTTTTAGATGTTCGAGGGTAAAATTGTAATTTTTGGAAAGTTTAGGGTCAAAA-C
1 AAAATGGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTTGAAAGTTTAGGGTCAAAATG
37601534 GTAATTTTTGGACATCCGAGGGT
66 GTAATTTTTGGACATCCGAGGGT
** *
37601557 AAAATGGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTAGGGGT-AAAAT
1 AAAATGGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTTGAAAGTTTA-GGGTCAAAAT
37601621 GGTAATTTTTGGA
65 GGTAATTTTTGGA
37601634 AAGTTTAGGG
Statistics
Matches: 212, Mismatches: 28, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
86 6 0.03
87 114 0.54
88 80 0.38
89 12 0.06
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (88 bp):
AAAATGGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTTGAAAGTTTAGGGTCAAAATG
GTAATTTTTGGACATCCGAGGGT
Found at i:37601481 original size:88 final size:87
Alignment explanation
Indices: 37601266--37601662 Score: 332
Period size: 87 Copynumber: 4.5 Consensus size: 87
37601256 AATGGAGTTA
* * * ** *
37601266 AAAATGTAATTTTTAGATG-TCGAAGGGGGAAAATGGTAATTTTTGGACGTTCG-GAGGTAAAAC
1 AAAATGTAATTTTTGGACGTTCG-A-GGGTAAAATGGTAATTTTTGGAAATTCGAG-GGTAAAAT
* * * *
37601329 GGTAATTTTTTG-ACA-CTCAGGGGT-
63 AGTAA-TTTTTGAAAAGTTTA-GGGTC
** * * * *
37601353 AAAATGGTAATTTTTGGAC-ACCCAGGGGTAAAATGATAATTTTTGGACACTT-GAGGGTAAAGT
1 AAAAT-GTAATTTTTGGACGTTCGA-GGGTAAAATGGTAATTTTTGGA-AATTCGAGGGTAAAAT
*
37601416 AATAATTTTTGAAAAGTTTAGGGTC
63 AGTAATTTTTGAAAAGTTTAGGGTC
* ** *
37601441 AAAAATGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTAGATGTTCGAGGGTAAAATTG
1 -AAAATGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTGGAAATTCGAGGGTAAAATAG
*
37601506 TAATTTTTGGAAAGTTTAGGGTC
65 TAATTTTTGAAAAGTTTAGGGTC
* * * *
37601529 AAAACGTAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGGAAATTCGAGGGTAAAATGGT
1 AAAATGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTGGAAATTCGAGGGTAAAATAGT
37601594 AATTTTT-AGAAAGTTTAGGGGT-
66 AATTTTTGA-AAAGTTTA-GGGTC
* *
37601616 AAAATGGTAATTTTTGGAAAGTT-TAGGGTAAAAAT-GTAA-TTTTGGAA
1 AAAAT-GTAATTTTTGG-ACGTTCGAGGGT-AAAATGGTAATTTTTGGAA
37601663 GTTTAGGGGT
Statistics
Matches: 256, Mismatches: 39, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
86 6 0.02
87 130 0.51
88 106 0.41
89 14 0.05
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (87 bp):
AAAATGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTGGAAATTCGAGGGTAAAATAGT
AATTTTTGAAAAGTTTAGGGTC
Found at i:37601539 original size:146 final size:144
Alignment explanation
Indices: 37601295--37601676 Score: 370
Period size: 146 Copynumber: 2.6 Consensus size: 144
37601285 TCGAAGGGGG
* * *
37601295 AAAATGGTAATTTTTGGACGTTCG-GAGGTAAAACGGTAATTTTTTGACA-CTCAGGGGTAAAAT
1 AAAATGGTAATTTTTGGACGTTCGAG-GGTAAAATGGTAATTTTTAGA-AGTTCA-GGGTAAAAT
* * *** * * *
37601358 GGTAATTTTTGGACA-CCCAGGGGTAAAATGATAATTTTTGGACA-CTTGAGGGTAAAGTAATAA
63 TGTAATTTTTGGAAAGTTTA-GGGTAAAACGATAATTTTTGGACATC-CGAGGGTAAAATAATAA
*
37601421 TTTTTGAAAAGTT-TAGGGT
126 TTTTTGAAAA-TTCGAGGGT
*
37601440 CAAAAAT-GTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTAGATGTTCGAGGGTAAAAT
1 --AAAATGGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTAGAAGTTC-AGGGTAAAAT
**
37601504 TGTAATTTTTGGAAAGTTTAGGGTCAAAACG-TAATTTTTGGACATCCGAGGGTAAAATGGTAAT
63 TGTAATTTTTGGAAAGTTTAGGGT-AAAACGATAATTTTTGGACATCCGAGGGTAAAATAATAAT
*
37601568 TTTTGGAAATTCGAGGGT
127 TTTTGAAAATTCGAGGGT
* * * * * *
37601586 AAAATGGTAATTTTTAGAAAGTT-TAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTAAAAA
1 AAAATGGTAATTTTT-GGACGTTCGA-GGGTAAAATGGTAATTTTTAG-AAGTTCAGGGTAAAAT
37601650 TGTAA-TTTTGG-AAGTTTAGGGGTAAAA
63 TGTAATTTTTGGAAAGTTTA-GGGTAAAA
37601677 ATGTAAATTT
Statistics
Matches: 200, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
144 16 0.08
145 22 0.11
146 144 0.72
147 18 0.09
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (144 bp):
AAAATGGTAATTTTTGGACGTTCGAGGGTAAAATGGTAATTTTTAGAAGTTCAGGGTAAAATTGT
AATTTTTGGAAAGTTTAGGGTAAAACGATAATTTTTGGACATCCGAGGGTAAAATAATAATTTTT
GAAAATTCGAGGGT
Found at i:37601645 original size:29 final size:29
Alignment explanation
Indices: 37601295--37601676 Score: 277
Period size: 29 Copynumber: 13.1 Consensus size: 29
37601285 TCGAAGGGGG
*
37601295 AAAATGGTAATTTTTGG-ACGTTCG-GAGGT
1 AAAATGGTAATTTTTGGAAAGTT-GAG-GGT
* * * * *
37601324 AAAACGGTAATTTTTTGACA-CTCAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTGA-GGGT
* ***
37601353 AAAATGGTAATTTTTGGACA-CCCAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTGA-GGGT
* * *
37601382 AAAATGATAATTTTTGGACACTTGAGGGT
1 AAAATGGTAATTTTTGGAAAGTTGAGGGT
* ** * *
37601411 AAAGTAATAATTTTTGAAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGAAAGTTGAGGGT
*
37601440 CAAAAAT-GTAATTTTTGG-ACGTTCGAGGGT
1 --AAAATGGTAATTTTTGGAAAGTT-GAGGGT
* *
37601470 AAAATGGTAATTTTTAG-ATGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAGTT-GAGGGT
* *
37601499 AAAATTGTAATTTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGAAAGTTGAGGGT
* * *
37601528 CAAAA-CGTAATTTTTGGACA-TCCGAGGGT
1 -AAAATGGTAATTTTTGGAAAGT-TGAGGGT
37601557 AAAATGGTAATTTTTGGAAA-TTCGAGGGT
1 AAAATGGTAATTTTTGGAAAGTT-GAGGGT
* *
37601586 AAAATGGTAATTTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTGA-GGGT
*
37601616 AAAATGGTAATTTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGAAAGTTGAGGGT
*
37601645 AAAAAT-GTAA-TTTTGG-AAGTTTAGGGGT
1 -AAAATGGTAATTTTTGGAAAGTTGA-GGGT
37601673 AAAA
1 AAAA
37601677 ATGTAAATTT
Statistics
Matches: 296, Mismatches: 40, Indels: 36
0.80 0.11 0.10
Matches are distributed among these distances:
27 11 0.04
28 20 0.07
29 202 0.68
30 59 0.20
31 4 0.01
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAAGTTGAGGGT
Found at i:37601677 original size:29 final size:28
Alignment explanation
Indices: 37601429--37601760 Score: 143
Period size: 29 Copynumber: 11.4 Consensus size: 28
37601419 AATTTTTGAA
37601429 AAGTTTA-GGGTCAAAAATGTAATTTTTGG
1 AAGTTTAGGGGT-AAAAATGTAA-TTTTGG
* * *
37601458 ACG-TTCGAGGGT-AAAATGGTAATTTTTAG
1 AAGTTTAG-GGGTAAAAAT-GTAA-TTTTGG
* * *
37601487 ATG-TTCGAGGGTAAAATTGTAATTTTTGG
1 AAGTTTAG-GGGTAAAAATGTAA-TTTTGG
* *
37601516 AAAGTTTA-GGGTCAAAACGTAATTTTTGG
1 -AAGTTTAGGGGTAAAAATGTAA-TTTTGG
**
37601545 ACA--TCCGAGGGT-AAAATGGTAATTTTTGG
1 A-AGTTTAG-GGGTAAAAAT-GTAA-TTTTGG
* * *
37601574 AA-ATTCGAGGGT-AAAATGGTAATTTTTAGA
1 AAGTTTAG-GGGTAAAAAT-GTAA-TTTT-GG
37601604 AAGTTTAGGGGT-AAAATGGTAATTTTTGG
1 AAGTTTAGGGGTAAAAAT-GTAA-TTTTGG
37601633 AAAGTTTA-GGGTAAAAATGTAATTTTGG
1 -AAGTTTAGGGGTAAAAATGTAATTTTGG
*
37601661 AAGTTTAGGGGTAAAAATGTAAATTTTAAG
1 AAGTTTAGGGGTAAAAATGT-AATTTT-GG
** * *
37601691 AAGTTT-GAGGCCAAAAATATAATTTTAG
1 AAGTTTAG-GGGTAAAAATGTAATTTTGG
*
37601719 ACCAGTTTAGGGGTCAAAATATG-ATTTTTGG
1 A--AGTTTAGGGGT-AAAA-ATGTAATTTTGG
37601750 ATAGTTTAGGG
1 A-AGTTTAGGG
37601761 ACCTTCTGGC
Statistics
Matches: 250, Mismatches: 29, Indels: 47
0.77 0.09 0.14
Matches are distributed among these distances:
27 8 0.03
28 34 0.14
29 113 0.45
30 76 0.30
31 17 0.07
32 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAGTTTAGGGGTAAAAATGTAATTTTGG
Found at i:37601714 original size:117 final size:116
Alignment explanation
Indices: 37601349--37601760 Score: 364
Period size: 117 Copynumber: 3.5 Consensus size: 116
37601339 TGACACTCAG
* * *** * * *
37601349 GGGTAAAATGGTAATTTTTGGACA-CCCAGGGGTAAAATGATAATTTTTGGACACTTGAGGGTAA
1 GGGTAAAATGGTAATTTTTAGAAAGTTTAGGGGTAAAATGATAATTTTTGGAAAGTTTAGGGTAA
* *
37601413 AGTAA-TAATTTTTGAAAAGTTTA-GGGTCAAAAATGTAATTTTTGGACGTTCGA
66 A--AAGTAATTTTTG-GAAGTTTAGGGGT-AAAAATGTAATTTTTGGAAGTTCGA
* *
37601466 GGGTAAAATGGTAATTTTTAG-ATG-TTCGAGGGTAAAATTG-TAATTTTTGGAAAGTTTAGGGT
1 GGGTAAAATGGTAATTTTTAGAAAGTTTAG-GGGTAAAA-TGATAATTTTTGGAAAGTTTAGGGT
* ** *
37601528 CAAAACGTAATTTTTGGACA--TCCGAGGGT-AAAATGGTAATTTTTGGAAATTCGA
64 -AAAAAGTAATTTTTGGA-AGTTTAG-GGGTAAAAAT-GTAATTTTTGGAAGTTCGA
*
37601582 GGGTAAAATGGTAATTTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTAA
1 GGGTAAAATGGTAATTTTTAGAAAGTTTAGGGGTAAAATGATAATTTTTGGAAAGTTTAGGGTAA
** *
37601647 AAATGTAA-TTTTGGAAGTTTAGGGGTAAAAATGTAAATTTTAAGAAGTTTGA
66 AAA-GTAATTTTTGGAAGTTTAGGGGTAAAAATGT-AATTTTTGGAAGTTCGA
** * * * *
37601699 GGCCAAAAAT-ATAA-TTTTAGACCAGTTTAGGGGTCAAAAT-ATGATTTTTGGATAGTTTAGGG
1 GG-GTAAAATGGTAATTTTTAGA-AAGTTTAGGGGT-AAAATGATAATTTTTGGAAAGTTTAGGG
37601761 ACCTTCTGGC
Statistics
Matches: 244, Mismatches: 31, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
115 7 0.03
116 67 0.27
117 152 0.62
118 18 0.07
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (116 bp):
GGGTAAAATGGTAATTTTTAGAAAGTTTAGGGGTAAAATGATAATTTTTGGAAAGTTTAGGGTAA
AAAGTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTCGA
Found at i:37603374 original size:10 final size:11
Alignment explanation
Indices: 37603355--37603443 Score: 56
Period size: 11 Copynumber: 7.9 Consensus size: 11
37603345 AATTAATTTT
37603355 AATTTAAAATA
1 AATTTAAAATA
*
37603366 AATTTAAATTTA
1 AATTTAAA-ATA
*
37603378 AA-GTAAAATCA
1 AATTTAAAAT-A
*
37603389 AACTTAAAATA
1 AATTTAAAATA
* *
37603400 AGTTTAAATTTA
1 AATTTAAA-ATA
* *
37603412 AA-ATAAATTCA
1 AATTTAAAAT-A
*
37603423 AACTTAAAATA
1 AATTTAAAATA
37603434 AATTTAAAAT
1 AATTTAAAAT
37603444 TTAAAATTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
10 3 0.05
11 39 0.65
12 18 0.30
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:37603375 original size:17 final size:17
Alignment explanation
Indices: 37603349--37603450 Score: 123
Period size: 17 Copynumber: 5.9 Consensus size: 17
37603339 TTCATTAATT
*
37603349 AATTTTAATTTAAAATA
1 AATTTAAATTTAAAATA
*
37603366 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
* * *
37603383 AAATCAAACTTAAAATA
1 AATTTAAATTTAAAATA
*
37603400 AGTTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
37603417 AATTCAAACTTAAAATA
1 AATTTAAATTTAAAATA
37603434 AATTTAAAATTTAAAAT
1 AATTT-AAATTTAAAAT
37603451 TTGGGCTCAA
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
17 59 0.86
18 10 0.14
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:37603406 original size:34 final size:34
Alignment explanation
Indices: 37603358--37603450 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
37603348 TAATTTTAAT
*
37603358 TTAAAATAAATTTAAATTTAAAGTAAAATCAAAC
1 TTAAAATAAATTTAAATTTAAAATAAAATCAAAC
* *
37603392 TTAAAATAAGTTTAAATTTAAAATAAATTCAAAC
1 TTAAAATAAATTTAAATTTAAAATAAAATCAAAC
37603426 TTAAAATAAATTTAAAATTTAAAAT
1 TTAAAATAAATTT-AAATTTAAAAT
37603451 TTGGGCTCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
34 43 0.80
35 11 0.20
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (34 bp):
TTAAAATAAATTTAAATTTAAAATAAAATCAAAC
Found at i:37616593 original size:3 final size:3
Alignment explanation
Indices: 37616585--37616615 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37616575 AAAACTAAAG
37616585 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37616616 TCCCCATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37617951 original size:24 final size:24
Alignment explanation
Indices: 37617904--37617951 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
37617894 TATAAAAATT
*
37617904 AAAAAATACTTAAAAACATTTTTA
1 AAAAAATACTTAAAAACATATTTA
37617928 AAAAAATACTTATAAAA-ATATTTA
1 AAAAAATACTTA-AAAACATATTTA
37617952 TAACTTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAATACTTAAAAACATATTTA
Found at i:37617952 original size:12 final size:12
Alignment explanation
Indices: 37617870--37617954 Score: 56
Period size: 12 Copynumber: 7.3 Consensus size: 12
37617860 ACTTAAAATA
37617870 ATAAAAATAATTT
1 ATAAAAAT-ATTT
*
37617883 A-CAAAAT-TTT
1 ATAAAAATATTT
37617893 ATATAAAA-A-TT
1 ATA-AAAATATTT
*
37617904 A-AAAAATACTT
1 ATAAAAATATTT
*
37617915 A-AAAACATTTTT
1 ATAAAA-ATATTT
* *
37617927 AAAAAAATACTT
1 ATAAAAATATTT
37617939 ATAAAAATATTT
1 ATAAAAATATTT
37617951 ATAA
1 ATAA
37617955 CTTTACCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
9 4 0.07
10 6 0.11
11 10 0.18
12 32 0.56
13 5 0.09
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAAAATATTT
Found at i:37621149 original size:26 final size:27
Alignment explanation
Indices: 37621106--37621162 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
37621096 CGTTAACCAT
* * *
37621106 GACCTGTTGACTCAAGTTGATCGACCC
1 GACCTGTTGACCCAAGTTGACCAACCC
*
37621133 GACC-GTTGACCCGAGTTGACCAACCC
1 GACCTGTTGACCCAAGTTGACCAACCC
37621159 GACC
1 GACC
37621163 CGAGTTGACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (27 bp):
GACCTGTTGACCCAAGTTGACCAACCC
Found at i:37623925 original size:6 final size:6
Alignment explanation
Indices: 37623913--37623948 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
37623903 AGGCAACCCA
* *
37623913 ATTTTT GTTTTT GTTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
37623949 TTTGCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:37624876 original size:97 final size:95
Alignment explanation
Indices: 37624689--37624874 Score: 241
Period size: 97 Copynumber: 1.9 Consensus size: 95
37624679 TAATAAATTA
* * *
37624689 GGAGTGTGTTAGACAGAGTAACCGGGATGGAGTGCTTGAGTCGTTATTTCATTTCGCGTCAAAAG
1 GGAGTATGTTAGACAGAGTAACCGAGATGGAGTGCTTGAGTCGTCATTTCATTT--CGTCAAAAG
* *
37624754 GGCTAATACATTCTTAAGTAAAAAAATGATTG
64 GGCCAATAAATTCTTAAGTAAAAAAATGATTG
* * *
37624786 GGAGTATGTTGGACTGAGTAACCGAGATGGAGTGCTT-AGGTTGTCATTTCATTT-GTCAAAAGG
1 GGAGTATGTTAGACAGAGTAACCGAGATGGAGTGCTTGA-GTCGTCATTTCATTTCGTCAAAAGG
*
37624849 TCCAATAAATTCTTAAGATAAAAAAA
65 GCCAATAAATTCTTAAG-TAAAAAAA
37624875 AAGAAAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
94 23 0.29
95 8 0.10
96 1 0.01
97 46 0.59
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (95 bp):
GGAGTATGTTAGACAGAGTAACCGAGATGGAGTGCTTGAGTCGTCATTTCATTTCGTCAAAAGGG
CCAATAAATTCTTAAGTAAAAAAATGATTG
Found at i:37628294 original size:27 final size:27
Alignment explanation
Indices: 37628237--37628294 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
37628227 TTTACATTTT
* *
37628237 ATTTATTTATTTAGCAAGATTTTATTT
1 ATTTATTTATTTAGCAAGATTTTAATA
*
37628264 ATTTATTTATTTTG-AATGATTTTAATA
1 ATTTATTTATTTAGCAA-GATTTTAATA
37628291 ATTT
1 ATTT
37628295 TTGTTTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (27 bp):
ATTTATTTATTTAGCAAGATTTTAATA
Found at i:37628342 original size:36 final size:35
Alignment explanation
Indices: 37628255--37628363 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 35
37628245 ATTTAGCAAG
*
37628255 ATTTTATTTATTTATTTATTTTGA-ATGATTTTAA-T
1 ATTTT-TTTATTTATTTA-ATTGACATGATTTTAATT
* * *
37628290 A-ATTTTTGTTTGTTTAATTGACATGATTTTTAATT
1 ATTTTTTTATTTATTTAATTGACATGA-TTTTAATT
* *
37628325 ATTTTTTTATTTTTTTAATTAACATGATTTTAATT
1 ATTTTTTTATTTATTTAATTGACATGATTTTAATT
37628360 ATTT
1 ATTT
37628364 AGCTTATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
32 4 0.06
33 14 0.23
34 8 0.13
35 15 0.24
36 21 0.34
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (35 bp):
ATTTTTTTATTTATTTAATTGACATGATTTTAATT
Found at i:37628371 original size:36 final size:36
Alignment explanation
Indices: 37628302--37628372 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
37628292 TTTTTGTTTG
* **
37628302 TTTAATTGACATGATTTTTAATTATTTTTTTATTTT
1 TTTAATTAACATGATTTTTAATTATTTGCTTATTTT
37628338 TTTAATTAACATGA-TTTTAATTATTTAGCTTATTT
1 TTTAATTAACATGATTTTTAATTATTT-GCTTATTT
37628373 ATTATTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (36 bp):
TTTAATTAACATGATTTTTAATTATTTGCTTATTTT
Found at i:37631063 original size:3 final size:3
Alignment explanation
Indices: 37631055--37631093 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
37631045 TGATCTAGTG
37631055 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37631094 CTTGTTGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37632322 original size:25 final size:25
Alignment explanation
Indices: 37632274--37632325 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
37632264 AAAGGAAAGG
* * *
37632274 AAATCAAATCTCCGAACAAGATTGT
1 AAATCAAATCTCCAAAAAAAATTGT
*
37632299 AAATCAAATCTGCAAAAAAAATTGT
1 AAATCAAATCTCCAAAAAAAATTGT
37632324 AA
1 AA
37632326 TTTCGTGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (25 bp):
AAATCAAATCTCCAAAAAAAATTGT
Found at i:37643019 original size:10 final size:10
Alignment explanation
Indices: 37643004--37643031 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
37642994 TTATGGTATA
37643004 ATTTGTTCCC
1 ATTTGTTCCC
37643014 ATTTGTTCCC
1 ATTTGTTCCC
37643024 ATTTGTTC
1 ATTTGTTC
37643032 ATCTTTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.25, G:0.11, T:0.54
Consensus pattern (10 bp):
ATTTGTTCCC
Found at i:37647472 original size:17 final size:17
Alignment explanation
Indices: 37647437--37647475 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37647427 AGGTGGAGAA
* * *
37647437 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGACAATT
37647454 CTTGTTCGTAGACAATT
1 CTTGTTCGTAGACAATT
37647471 CTTGT
1 CTTGT
37647476 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGACAATT
Found at i:37649178 original size:15 final size:16
Alignment explanation
Indices: 37649153--37649192 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
37649143 TACCTTTCTT
37649153 GCATATGCATTT-ATTA
1 GCAT-TGCATTTCATTA
37649169 GCATTGCATTTCATTA
1 GCATTGCATTTCATTA
37649185 -CA-TGCATT
1 GCATTGCATT
37649193 AAATTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 9 0.39
16 8 0.35
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (16 bp):
GCATTGCATTTCATTA
Found at i:37649215 original size:3 final size:3
Alignment explanation
Indices: 37649207--37649265 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
37649197 TTCATAAAAG
37649207 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37649255 AAT AAT AAT AA
1 AAT AAT AAT AA
37649266 AGATCCTCAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37654304 original size:49 final size:49
Alignment explanation
Indices: 37654238--37654636 Score: 160
Period size: 49 Copynumber: 8.1 Consensus size: 49
37654228 CATAAAGTTT
*
37654238 GAAGAGGAATAGATTGAAGCCGCAATGGCGA-ACCTAAAATCC-TAAAACC
1 GAAGAGGGATAGATTGAAGCCGCAATGGC-ATACCTAAAA-CCTTAAAACC
* * * * * *
37654287 GAAGAGGGATAGGTTGAAGTCGTAATGACATACCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGCAATGGCATACCTAAAACCTTAAAACC
* *** * * **
37654336 GAAGAGGGATAGATTGAAGCCACAATGGTGGATCTAACACCTTAAAATG
1 GAAGAGGGATAGATTGAAGCCGCAATGGCATACCTAAAACCTTAAAACC
* * * * * ** * *** **
37654385 GAAGAGGGAAAAATTGAAGCCACAACGACGGATCTTGCACCTTAAAATT
1 GAAGAGGGATAGATTGAAGCCGCAATGGCATACCTAAAACCTTAAAACC
* * * * * **
37654434 GAAGAGGGATAGGTTGAAGTCGCAACGAC-TGACCTAACACCCAAAAACC
1 GAAGAGGGATAGATTGAAGCCGCAATGGCAT-ACCTAAAACCTTAAAACC
* * * * * * * * * **
37654483 AAAGAGGGAAAGATTAAAGTCGCAATGACAGATCTTACACCTTAAAATT
1 GAAGAGGGATAGATTGAAGCCGCAATGGCATACCTAAAACCTTAAAACC
* *** * * * * *
37654532 GAAGAGGGATAGCTTGAAGCCATGACGACGA-ACGTAATACCTTTAAACC
1 GAAGAGGGATAGATTGAAGCCGCAATGGC-ATACCTAAAACCTTAAAACC
* * * * * *
37654581 AAAGAGGGATAGATTGAAGCCACGACGGCGA-ATCTAACACCTTAAAACC
1 GAAGAGGGATAGATTGAAGCCGCAATGGC-ATACCTAAAACCTTAAAACC
*
37654630 AAAGAGG
1 GAAGAGG
37654637 AAACAAATTG
Statistics
Matches: 271, Mismatches: 74, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
48 3 0.01
49 267 0.99
50 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (49 bp):
GAAGAGGGATAGATTGAAGCCGCAATGGCATACCTAAAACCTTAAAACC
Found at i:37654560 original size:98 final size:96
Alignment explanation
Indices: 37654236--37654599 Score: 295
Period size: 98 Copynumber: 3.7 Consensus size: 96
37654226 ATCATAAAGT
* * * * * *
37654236 TTGAAGAGGAATAGATTGAAGCCGCAATGGC-GAACCTAAAATCC-TAAAACCGAAGAGGGATAG
1 TTGAAGAGGGATAGATTGAAG-C-CAACGACTG-ACCTAACA-CCTTAAAACCAAAGAGGGAAAG
* * * * *
37654299 GTTGAAGTCGTAATGACATACCTAACACCTTAAAA
62 ATTGAAGTCGCAATGACAGATCTTACACCTTAAAA
* * * * *** *
37654334 TCGAAGAGGGATAGATTGAAGCC-ACAATGGTGGATCTAACACCTTAAAATGGAAGAGGGAAAAA
1 TTGAAGAGGGATAGATTGAAGCCAACGA--CT-GACCTAACACCTTAAAACCAAAGAGGGAAAGA
* * * * *
37654398 TTGAAGCCACAACGACGGATCTTGCACCTTAAAA
63 TTGAAGTCGCAATGACAGATCTTACACCTTAAAA
* **
37654432 TTGAAGAGGGATAGGTTGAAGTCGCAACGACTGACCTAACACCCAAAAACCAAAGAGGGAAAGAT
1 TTGAAGAGGGATAGATTGAAG-C-CAACGACTGACCTAACACCTTAAAACCAAAGAGGGAAAGAT
*
37654497 TAAAGTCGCAATGACAGATCTTACACCTTAAAA
64 TGAAGTCGCAATGACAGATCTTACACCTTAAAA
* * * * *
37654530 TTGAAGAGGGATAGCTTGAAGCCATGACGAC-GAACGTAATACCTTTAAACCAAAGAGGGATAGA
1 TTGAAGAGGGATAGATTGAAGCCA--ACGACTG-ACCTAACACCTTAAAACCAAAGAGGGAAAGA
37654594 TTGAAG
63 TTGAAG
37654600 CCACGACGGC
Statistics
Matches: 208, Mismatches: 47, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
95 1 0.00
96 3 0.01
97 5 0.02
98 192 0.92
99 3 0.01
100 1 0.00
101 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (96 bp):
TTGAAGAGGGATAGATTGAAGCCAACGACTGACCTAACACCTTAAAACCAAAGAGGGAAAGATTG
AAGTCGCAATGACAGATCTTACACCTTAAAA
Found at i:37654574 original size:147 final size:147
Alignment explanation
Indices: 37654280--37654599 Score: 347
Period size: 147 Copynumber: 2.2 Consensus size: 147
37654270 CCTAAAATCC
* * ** * *
37654280 TAAAACCGAAGAGGGATAGGTTGAAGTCGTAATGACATACCTAACACCTTAAAATCGAAGAGGGA
1 TAAAACCGAAGAGGGATAGGTTGAAGTCGCAACGACATACCTAACACCCAAAAACCAAAGAGGGA
* * ***
37654345 TAGATTGAAGCCACAATGGTGGATCTAACACCTTAAAATGGAAGAGGGAAAAATTGAAGCCACAA
66 AAGATTAAAGCCACAATGACAGATCTAACACCTTAAAATGGAAGAGGGAAAAATTGAAGCCACAA
* **
37654410 CGACGGATCTTGCACCT
131 CGACGGAACTAACACCT
**
37654427 TAAAATTGAAGAGGGATAGGTTGAAGTCGCAACGAC-TGACCTAACACCCAAAAACCAAAGAGGG
1 TAAAACCGAAGAGGGATAGGTTGAAGTCGCAACGACAT-ACCTAACACCCAAAAACCAAAGAGGG
* * * * * ** **
37654491 AAAGATTAAAGTCGCAATGACAGATCTTACACCTTAAAATTGAAGAGGGATAGCTTGAAGCCATG
65 AAAGATTAAAGCCACAATGACAGATCTAACACCTTAAAATGGAAGAGGGAAAAATTGAAGCCACA
*
37654556 ACGAC-GAACGTAATACCT
130 ACGACGGAAC-TAACACCT
* * *
37654574 TTAAACCAAAGAGGGATAGATTGAAG
1 TAAAACCGAAGAGGGATAGGTTGAAG
37654600 CCACGACGGC
Statistics
Matches: 140, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
146 4 0.03
147 136 0.97
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (147 bp):
TAAAACCGAAGAGGGATAGGTTGAAGTCGCAACGACATACCTAACACCCAAAAACCAAAGAGGGA
AAGATTAAAGCCACAATGACAGATCTAACACCTTAAAATGGAAGAGGGAAAAATTGAAGCCACAA
CGACGGAACTAACACCT
Found at i:37654664 original size:50 final size:49
Alignment explanation
Indices: 37654545--37654672 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
37654535 GAGGGATAGC
* * * * * * *
37654545 TTGAAGCCATGACGACGAA-CGTAATACCTTTAAACCAAAGAGGGATAGA
1 TTGAAGCCACGACGGCGAATC-TAACACCTTAAAACCAAAGAGGAACAAA
37654594 TTGAAGCCACGACGGCGAATCTAACACCTTAAAACCAAAGAGGAAACAAA
1 TTGAAGCCACGACGGCGAATCTAACACCTTAAAACCAAAGAGG-AACAAA
* *
37654644 TTGAAG-CAGCGACGGTGAATCTTACACCT
1 TTGAAGCCA-CGACGGCGAATCTAACACCT
37654673 CTTGAAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 39 0.58
50 28 0.42
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (49 bp):
TTGAAGCCACGACGGCGAATCTAACACCTTAAAACCAAAGAGGAACAAA
Found at i:37655232 original size:19 final size:19
Alignment explanation
Indices: 37655205--37655247 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
37655195 TCAAAAATTA
* *
37655205 AAACAAAAAATGAAACCCT
1 AAACCAAAAAGGAAACCCT
37655224 AAACC-AAAAGGAAACCCT
1 AAACCAAAAAGGAAACCCT
*
37655242 TAACCA
1 AAACCA
37655248 CCTGCTGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.58, C:0.26, G:0.07, T:0.09
Consensus pattern (19 bp):
AAACCAAAAAGGAAACCCT
Found at i:37655237 original size:18 final size:18
Alignment explanation
Indices: 37655211--37655247 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37655201 ATTAAAACAA
*
37655211 AAAATGAAACCCTAAACC
1 AAAAGGAAACCCTAAACC
*
37655229 AAAAGGAAACCCTTAACC
1 AAAAGGAAACCCTAAACC
37655247 A
1 A
37655248 CCTGCTGCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAGGAAACCCTAAACC
Found at i:37655373 original size:25 final size:25
Alignment explanation
Indices: 37655345--37655396 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
37655335 AAAGGAAAGG
* * *
37655345 AAATCAAATCTTCGAACAAGATTGT
1 AAATCAAATCTGCAAAAAAGATTGT
37655370 AAATCAAATCTGCAAAAAAGATTGT
1 AAATCAAATCTGCAAAAAAGATTGT
37655395 AA
1 AA
37655397 TTTCGTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (25 bp):
AAATCAAATCTGCAAAAAAGATTGT
Found at i:37656474 original size:3 final size:3
Alignment explanation
Indices: 37656468--37656510 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
37656458 TGGTTTATGC
37656468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37656511 TTCTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37658627 original size:19 final size:19
Alignment explanation
Indices: 37658611--37658650 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37658601 TGACTGACTC
37658611 GACCCATTGACTTTGACCT
1 GACCCATTGACTTTGACCT
* *
37658630 GACCCTTTGACTTTTACCT
1 GACCCATTGACTTTGACCT
37658649 GA
1 GA
37658651 TAGTTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (19 bp):
GACCCATTGACTTTGACCT
Found at i:37662769 original size:16 final size:17
Alignment explanation
Indices: 37662741--37662787 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
37662731 TATTATAAGG
37662741 GTATAATAGTAAATGAA
1 GTATAATAGTAAATGAA
*
37662758 GTATAA-AGTAAATTAA
1 GTATAATAGTAAATGAA
*
37662774 GTAAAATAAGTAAA
1 GTATAAT-AGTAAA
37662788 AAAATCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 14 0.54
17 6 0.23
18 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (17 bp):
GTATAATAGTAAATGAA
Found at i:37663576 original size:18 final size:18
Alignment explanation
Indices: 37663530--37663594 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
37663520 AGAAGTGAAA
* *
37663530 GTTTGAGCATACTAGCTA
1 GTTTGAGCATACTGGCTC
* *
37663548 GTTAGAACATACTGGCTC
1 GTTTGAGCATACTGGCTC
37663566 GTTTGAGCATACTGGCTC
1 GTTTGAGCATACTGGCTC
*
37663584 GTTTAAGCATA
1 GTTTGAGCATA
37663595 TAGGCTTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (18 bp):
GTTTGAGCATACTGGCTC
Found at i:37669418 original size:17 final size:17
Alignment explanation
Indices: 37669379--37669437 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
37669369 ATATATATGG
**
37669379 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
37669396 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
*
37669413 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
37669430 TAATGCAA
1 AAATGCAA
37669438 GGATAATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:37674919 original size:21 final size:21
Alignment explanation
Indices: 37674868--37674929 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
37674858 TGGTATTGAT
*
37674868 TTTTTGAACAATATCGATACCC
1 TTTTT-AAAAATATCGATACCC
* *
37674890 TTTATAAAAATATTGATA-CC
1 TTTTTAAAAATATCGATACCC
* *
37674910 TTTTTCAAAATACCGATACC
1 TTTTTAAAAATATCGATACC
37674930 TACGTAGCAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.50
21 12 0.38
22 4 0.12
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (21 bp):
TTTTTAAAAATATCGATACCC
Found at i:37675371 original size:23 final size:23
Alignment explanation
Indices: 37675317--37675375 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
37675307 TTGCAGCTAA
* *
37675317 AAGTCTATTGTTAGCAGTTAATG
1 AAGTCTGTTATTAGCAGTTAATG
37675340 AAGTCTGTTATTAGCAGTTAATG
1 AAGTCTGTTATTAGCAGTTAATG
* *
37675363 GAGTTTGTTATTA
1 AAGTCTGTTATTA
37675376 ACAATTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (23 bp):
AAGTCTGTTATTAGCAGTTAATG
Found at i:37677554 original size:27 final size:26
Alignment explanation
Indices: 37677524--37677581 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
37677514 GGGTCACAGG
*
37677524 TTCATCAGATATTGTATCTACTGATGA
1 TTCATCAGATATTGTACCTACTGAT-A
* * *
37677551 TTCATCTGCTATTGTCCCTACTGATA
1 TTCATCAGATATTGTACCTACTGATA
37677577 TTCAT
1 TTCAT
37677582 TAAGAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (26 bp):
TTCATCAGATATTGTACCTACTGATA
Found at i:37679170 original size:23 final size:23
Alignment explanation
Indices: 37679140--37679210 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
37679130 TTTATTGTTG
*
37679140 GAAGTCTGTTGTTAGCAGTTAAT
1 GAAGTCTGTTATTAGCAGTTAAT
*
37679163 GAAGTCTGTTATTAGCAGTTATT
1 GAAGTCTGTTATTAGCAGTTAAT
* *
37679186 GGAGTCTGTTATTAGCAGTTGAT
1 GAAGTCTGTTATTAGCAGTTAAT
37679209 GA
1 GA
37679211 GGTTGGTACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.39
Consensus pattern (23 bp):
GAAGTCTGTTATTAGCAGTTAAT
Found at i:37692074 original size:20 final size:20
Alignment explanation
Indices: 37692035--37692080 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
37692025 ATATATATAT
* *
37692035 AAGAAATAAAAGAATAAAGA
1 AAGAAACAAAAGAAGAAAGA
*
37692055 AAGAAACAAAAGAAGGAAGA
1 AAGAAACAAAAGAAGAAAGA
37692075 ACAGAA
1 A-AGAA
37692081 GCTCAAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AAGAAACAAAAGAAGAAAGA
Found at i:37692498 original size:22 final size:20
Alignment explanation
Indices: 37692468--37692508 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
37692458 GAATAAAAAT
37692468 AAAAAAATGAATTAAGTTAGA
1 AAAAAAATGAATTAA-TTAGA
*
37692489 AAAATAAATGAGTTAATTAG
1 AAAA-AAATGAATTAATTAG
37692509 GATTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (20 bp):
AAAAAAATGAATTAATTAGA
Found at i:37692525 original size:17 final size:18
Alignment explanation
Indices: 37692503--37692538 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37692493 TAAATGAGTT
37692503 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
37692520 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
37692538 A
1 A
37692539 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:37699752 original size:18 final size:18
Alignment explanation
Indices: 37699729--37699764 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37699719 GTAACCAATG
*
37699729 TGAAAAAGAAAAGTTGAA
1 TGAAAAAGAAAAATTGAA
*
37699747 TGAAAATGAAAAATTGAA
1 TGAAAAAGAAAAATTGAA
37699765 GCATATAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (18 bp):
TGAAAAAGAAAAATTGAA
Found at i:37702228 original size:3 final size:3
Alignment explanation
Indices: 37702220--37702261 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
37702210 TTTATGGTCC
37702220 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37702262 TTGTTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37705062 original size:12 final size:12
Alignment explanation
Indices: 37705045--37705069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37705035 AAAAAATACG
37705045 AAAAATTAAATA
1 AAAAATTAAATA
37705057 AAAAATTAAATA
1 AAAAATTAAATA
37705069 A
1 A
37705070 TCAAATAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTAAATA
Found at i:37713556 original size:2 final size:2
Alignment explanation
Indices: 37713551--37713591 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
37713541 TGTGTGTGTG
37713551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37713592 CATGCAGCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37714648 original size:4 final size:4
Alignment explanation
Indices: 37714632--37714694 Score: 117
Period size: 4 Copynumber: 15.8 Consensus size: 4
37714622 GGTATTAAAC
*
37714632 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37714680 ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACA
37714695 AAGAAAAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:37715931 original size:20 final size:20
Alignment explanation
Indices: 37715894--37715932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37715884 TTGTAATTGG
*
37715894 ATAATATAACATTAAAATAA
1 ATAATATAAAATTAAAATAA
* *
37715914 ATAATGTAAAATTGAAATA
1 ATAATATAAAATTAAAATA
37715933 GTTGAAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATATAAAATTAAAATAA
Found at i:37718403 original size:80 final size:80
Alignment explanation
Indices: 37718319--37718468 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
37718309 GCCTTTTATC
* * * ** * *
37718319 CACTCACGATGCTGTTCACACAAGTTGTCAAGAATCCGTAACATATGTCGGATCTTAGCCATCGG
1 CACTCACGATACTGCTCACACAAGCTGTCAAGAAAACGCAACATATGTAGGATCTTAGCCATCGG
37718384 AGGGTTCATATTTCT
66 AGGGTTCATATTTCT
* *
37718399 CACTCACGATATTGCTCACACAAGCTGTCAAGAAAATGCAACATATGTAGGATCTTAGCCATCGG
1 CACTCACGATACTGCTCACACAAGCTGTCAAGAAAACGCAACATATGTAGGATCTTAGCCATCGG
37718464 AGGGT
66 AGGGT
37718469 CCTTACATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (80 bp):
CACTCACGATACTGCTCACACAAGCTGTCAAGAAAACGCAACATATGTAGGATCTTAGCCATCGG
AGGGTTCATATTTCT
Found at i:37721313 original size:29 final size:29
Alignment explanation
Indices: 37721211--37721583 Score: 322
Period size: 30 Copynumber: 12.7 Consensus size: 29
37721201 AAATTGTCCA
* * *
37721211 AAAATTACATTTTAACCTCGAAACTTCCC
1 AAAATTACATTTTGACCCCAAAACTTCCC
* *
37721240 TAAAATTACATTTTGACCCCGAAACTTTTCC
1 -AAAATTACATTTTGACCCCAAAAC-TTCCC
* * *
37721271 AAAAGTACATTTTTAACCTCAAAACTTCCC
1 AAAATTACA-TTTTGACCCCAAAACTTCCC
* * *
37721301 AAAATTATATTTTGACCTCAAAACTTCTCT
1 AAAATTACATTTTGACCCCAAAACTTC-CC
* *
37721331 AAAATTACATTTTGACCCTAAAATTTCTCC
1 AAAATTACATTTTGACCCCAAAACTTC-CC
37721361 AAAATTACATTTTGACCCCAAAACTTCTCC
1 AAAATTACATTTTGACCCCAAAACTTC-CC
* * * *
37721391 AAAATTACATTTTTACCCTAAAACTTTCT
1 AAAATTACATTTTGACCCCAAAACTTCCC
* * * **
37721420 AAAATTACATTTTAACCTCGAAACTTCTA
1 AAAATTACATTTTGACCCCAAAACTTCCC
* * *
37721449 AAAATTCCATTTTGACCCTAAAACTTACC
1 AAAATTACATTTTGACCCCAAAACTTCCC
** * *
37721478 AAAATTATGTTTTTACCCCCAAACTT-CC
1 AAAATTACATTTTGACCCCAAAACTTCCC
* *
37721506 AAAACTTCCATTTTAACCCCAAAACTT-CC
1 AAAA-TTACATTTTGACCCCAAAACTTCCC
* * *
37721535 AAAACTTCCATTTTTGACCCTAAAACTT-CT
1 AAAA-TTACA-TTTTGACCCCAAAACTTCCC
37721565 AAAATTACCATTTT-ACCCC
1 AAAATTA-CATTTTGACCCC
37721584 CAGATGTCCA
Statistics
Matches: 283, Mismatches: 54, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
28 10 0.04
29 116 0.41
30 141 0.50
31 16 0.06
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAAACTTCCC
Found at i:37721605 original size:87 final size:87
Alignment explanation
Indices: 37721211--37721606 Score: 284
Period size: 87 Copynumber: 4.5 Consensus size: 87
37721201 AAATTGTCCA
* * * * * *
37721211 AAAATTA-CATTTTAACCTCGAAACTTCCCTAAAATTACATTTTGACCCCGAAACTTTTCC-AAA
1 AAAATTACCATTTT-ACCCCCAAACTT-CCAAAAATTCCATTTTAACCCCAAAAC--TTCCAAAA
* * * * *
37721274 AGTACATTTTTAACCTCAAAACTTCCC
62 ATTCCATTTTGACCCT-AAAACTTACC
* * * * * * * * *
37721301 AAAATTA-TATTTTGACCTCAAAACTTCTCTAAAATTACATTTTGACCCTAAAATTTCTCCAAAA
1 AAAATTACCATTTT-ACCCCCAAACTTC-CAAAAATTCCATTTTAACCCCAAAACTTC-CAAAAA
* * *
37721365 TTACATTTTGACCCCAAAACTTCTCC
63 TTCCATTTTGACCCTAAAACTT-ACC
** * * * * * *
37721391 AAAATTA-CATTTTTACCCTAAAACTTTCTAAAATTACATTTTAACCTCGAAACTTCTAAAAATT
1 AAAATTACCA-TTTTACCCCCAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCCAAAAATT
37721455 CCATTTTGACCCTAAAACTTACC
65 CCATTTTGACCCTAAAACTTACC
*** * *
37721478 AAAATTATGTTTTTACCCCCAAACTTCCAAAACTTCCATTTTAACCCCAAAACTTCCAAAACTTC
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCCAAAAATTC
*
37721543 CATTTTTGACCCTAAAACTT-CT
66 CA-TTTTGACCCTAAAACTTACC
*
37721565 AAAATTACCATTTTACCCCCAGA-TGTCCAAAAA-TCTCATTTT
1 AAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC-CATTTT
37721607 TGATCCCGAT
Statistics
Matches: 254, Mismatches: 43, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
86 3 0.01
87 89 0.35
88 44 0.17
89 33 0.13
90 81 0.32
91 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (87 bp):
AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTAACCCCAAAACTTCCAAAAATTC
CATTTTGACCCTAAAACTTACC
Found at i:37727370 original size:6 final size:6
Alignment explanation
Indices: 37727333--37727391 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
37727323 CTCAATAAAT
* *
37727333 AAAAA- AAAAA- AAAAAG AAAAA- AGAAAG AAAGAAG AAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
37727379 AAAAAG AAAAAG A
1 AAAAAG AAAAAG A
37727392 GAGGTCAAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
5 14 0.30
6 28 0.60
7 5 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:37728954 original size:92 final size:92
Alignment explanation
Indices: 37728794--37729802 Score: 1697
Period size: 92 Copynumber: 11.0 Consensus size: 92
37728784 TCATATCAAA
*
37728794 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTGGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
37728859 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* *
37728886 ATCAAACATCAATTCCTATCCTCTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37728951 GAAGATGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* *
37728978 ATCAAACATCAAATCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729043 GAAGTTGTAGTAAGAGCAAGGTGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
*
37729070 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729135 GAAGTTGTAGTAAGAGCAAGGTGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
37729162 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729227 GAAGTTGTAGTAAGAGCAAGGTGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
37729254 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729319 GAAGTTGTAGTAAGAGCAAGGTGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
37729346 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729411 GAAGTTGTAGTAAGAGCAAGATGAAGT
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
37729438 TTC-AACATAAATTCCTATCCTCTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729502 GAAGTTGTAGTAAGAGCAAGATGAAGT
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * * *
37729529 TTC-AACATGAATTCCTATCCTCTTGATGTTGTAGTAAAGTTGGATAGCAAAAT-TTTATCTCTC
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGC-AAGTCTTTATCTCTC
*
37729592 TGAAGTTGTAGTAAGAGCAAGATGAAGT
65 TGAAGTTGTAGTAAGAGCAAGATGAAGC
* *
37729620 TTC-AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGAATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
37729684 GAAGTTATAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
37729711 TTCGATAC--CAAATTCCTATCCTCTTGAAGTTGCAGTAAAGTTGGATAGCAAGTCTTTATCTCT
1 ATC-AAACATC-AATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCT
*
37729774 CTGAAATTGTAGTAAGAGCAAGATGAAGC
64 CTGAAGTTGTAGTAAGAGCAAGATGAAGC
37729803 TTCGATACCA
Statistics
Matches: 882, Mismatches: 30, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
90 3 0.00
91 254 0.29
92 623 0.71
93 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (92 bp):
ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
GAAGTTGTAGTAAGAGCAAGATGAAGC
Found at i:37729472 original size:51 final size:51
Alignment explanation
Indices: 37729405--37729656 Score: 192
Period size: 51 Copynumber: 5.4 Consensus size: 51
37729395 AAGTCTTTAT
37729405 CTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
* *** * *
37729457 CTCTTAAAGTTGTAGTAA-AGTTGGAT--AG---CAA-GT--CTT--TATC
1 CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
*
37729497 TCTC-TGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATGAATTCCTATC
1 -CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
* * * * *
37729548 CTCTTGATGTTGTAGT---A--AAGTTG--G-AT-AGCA-AAATT-TTAT-
1 CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
*
37729587 CTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
37729639 CTCTTGAAGTTGTAGTAA
1 CTCTTGAAGTTGTAGTAA
37729657 AGTTGAATAG
Statistics
Matches: 150, Mismatches: 24, Indels: 53
0.66 0.11 0.23
Matches are distributed among these distances:
39 4 0.03
40 31 0.21
41 12 0.08
42 5 0.03
43 4 0.03
44 2 0.01
45 8 0.05
46 8 0.05
47 2 0.01
48 4 0.03
49 5 0.03
50 12 0.08
51 45 0.30
52 8 0.05
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (51 bp):
CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAACATAAATTCCTATC
Found at i:37730428 original size:28 final size:28
Alignment explanation
Indices: 37730397--37730450 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
37730387 GATTTTTAAA
* * *
37730397 TTAAGTTTGAATTGATTTTAAATTTATT
1 TTAAATTTAAATTGATCTTAAATTTATT
*
37730425 TTAAATTTAAATTTATCTTAAATTTA
1 TTAAATTTAAATTGATCTTAAATTTA
37730451 AATTTACTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (28 bp):
TTAAATTTAAATTGATCTTAAATTTATT
Found at i:37730431 original size:22 final size:23
Alignment explanation
Indices: 37730385--37730431 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
37730375 GATTAAAATT
*
37730385 TTGATTTTTAAATTAAGTTTGAA
1 TTGATTTTTAAATTAAGTTTAAA
* *
37730408 TTGA-TTTTAAATTTATTTTAAA
1 TTGATTTTTAAATTAAGTTTAAA
37730430 TT
1 TT
37730432 TAAATTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (23 bp):
TTGATTTTTAAATTAAGTTTAAA
Found at i:37730433 original size:6 final size:6
Alignment explanation
Indices: 37730413--37730488 Score: 70
Period size: 6 Copynumber: 12.8 Consensus size: 6
37730403 TTGAATTGAT
* *
37730413 TTTAAA TTT-AT TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA
*
37730461 TTTAAA TTT-AC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
37730489 TTAAACTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 38 0.67
7 2 0.04
8 5 0.09
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:37730433 original size:17 final size:17
Alignment explanation
Indices: 37730413--37730487 Score: 104
Period size: 17 Copynumber: 4.6 Consensus size: 17
37730403 TTGAATTGAT
*
37730413 TTTAAATTTATTTTAAA
1 TTTAAATTTATCTTAAA
37730430 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
37730447 TTTAAATTTA-CTT--A
1 TTTAAATTTATCTTAAA
37730461 TTTAAATTTA-CTTTAAA
1 TTTAAATTTATC-TTAAA
37730478 TTTAAATTTA
1 TTTAAATTTA
37730488 ATTAAACTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
14 12 0.22
15 2 0.04
16 3 0.06
17 37 0.69
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:37730467 original size:31 final size:31
Alignment explanation
Indices: 37730429--37730487 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
37730419 TTTATTTTAA
37730429 ATTTAAATTTA-TCTTAAATTTAAATTTACTT
1 ATTTAAATTTACT-TTAAATTTAAATTTACTT
37730460 ATTTAAATTTACTTTAAATTTAAATTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
37730488 ATTAAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTT
Found at i:37730490 original size:11 final size:11
Alignment explanation
Indices: 37730391--37730488 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
37730381 AATTTTGATT
37730391 TTTAAA-TTAA
1 TTTAAATTTAA
* * *
37730401 GTTTGAATTGAT
1 -TTTAAATTTAA
*
37730413 TTTAAATTTAT
1 TTTAAATTTAA
37730424 TTTAAATTTAAA
1 TTTAAATTT-AA
** *
37730436 TTTATCTTAAA
1 TTTAAATTTAA
37730447 TTTAAATTTACTTA
1 TTTAAATTTA---A
*
37730461 TTTAAATTTAC
1 TTTAAATTTAA
37730472 TTTAAATTTAAA
1 TTTAAATTT-AA
37730484 TTTAA
1 TTTAA
37730489 TTAAACTTAA
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
11 41 0.61
12 15 0.22
14 11 0.16
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:37732465 original size:29 final size:29
Alignment explanation
Indices: 37732352--37732641 Score: 228
Period size: 29 Copynumber: 9.9 Consensus size: 29
37732342 TAAATTATCA
*
37732352 AAAAATTACATTTTAACCCCGAAACTTCTC
1 AAAAATTACATTTTAACCCCAAAACTTC-C
* * *
37732382 TAAAATTACATTTTGACCCCGAAACTTCC
1 AAAAATTACATTTTAACCCCAAAACTTCC
* **
37732411 AAAAATTACATTTTTGACCTTAAAACTTCC
1 AAAAATTACA-TTTTAACCCCAAAACTTCC
* * *
37732441 CAAAATTAAATTTTAACCCCAAAACTTCT
1 AAAAATTACATTTTAACCCCAAAACTTCC
* **
37732470 AAAAATTCCATTTTAACCTTAAAACTTTCC
1 AAAAATTACATTTTAACCCCAAAAC-TTCC
** * *
37732500 -AAAATTATGTTTTTACCCCCAAACTTCC
1 AAAAATTACATTTTAACCCCAAAACTTCC
* * *
37732528 AAAAATTCCATTTTTGACCCTAAAA-TTCC
1 AAAAATTACA-TTTTAACCCCAAAACTTCC
** *
37732557 AAAAATTACATTTTTGCCCC-TAACTTCC
1 AAAAATTACATTTTAACCCCAAAACTTCC
* ** * *
37732585 AAAAATTTCATTTTTGCTCCC-GAACTTTC
1 AAAAATTACATTTTAAC-CCCAAAACTTCC
* *
37732614 AAAAATTCCATTTTTAACCCCGAAACTT
1 AAAAATTACA-TTTTAACCCCAAAACTT
37732642 TTGAAATTAC
Statistics
Matches: 209, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.01
28 31 0.15
29 102 0.49
30 74 0.35
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCCAAAACTTCC
Found at i:37732518 original size:58 final size:57
Alignment explanation
Indices: 37732352--37732598 Score: 246
Period size: 59 Copynumber: 4.2 Consensus size: 57
37732342 TAAATTATCA
** * *
37732352 AAAAATTACATTTTAACCCCGAAACTTCTCTAAAATTACATTTTGACCCCGAAACTTCC
1 AAAAATTACATTTTAACCCTAAAACTT-TCCAAAATTACATTTTTACCCC-AAACTTCC
* * * * * *
37732411 AAAAATTACATTTTTGACCTTAAAACTTCCCAAAATTAAATTTTAACCCCAAAACTTCT
1 AAAAATTACA-TTTTAACCCTAAAACTTTCCAAAATTACATTTTTACCCC-AAACTTCC
* * **
37732470 AAAAATTCCATTTTAACCTTAAAACTTTCCAAAATTATGTTTTTACCCCCAAACTTCC
1 AAAAATTACATTTTAACCCTAAAACTTTCCAAAATTACATTTTTA-CCCCAAACTTCC
* * * *
37732528 AAAAATTCCATTTTTGACCCTAAAA--TTCCAAAAATTACATTTTTGCCCCTAACTTCC
1 AAAAATTACA-TTTTAACCCTAAAACTTTCC-AAAATTACATTTTTACCCCAAACTTCC
*
37732585 AAAAATTTCATTTT
1 AAAAATTACATTTT
37732599 TGCTCCCGAA
Statistics
Matches: 160, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
56 4 0.03
57 24 0.15
58 59 0.37
59 60 0.38
60 13 0.08
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (57 bp):
AAAAATTACATTTTAACCCTAAAACTTTCCAAAATTACATTTTTACCCCAAACTTCC
Found at i:37733888 original size:143 final size:143
Alignment explanation
Indices: 37733692--37734063 Score: 471
Period size: 143 Copynumber: 2.6 Consensus size: 143
37733682 GGTTTCGACA
* * *
37733692 TTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGTTCAAATTTTTAAACAAAGTTT
1 TTTAAAAATAAAAAT-TGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTT
* * *
37733757 TGATTTTTTTAACTATTTCA-AA-AAAAAATTAGATTTTTAAATAAAATTATTATTTTCTTTAAA
65 TGATTTTTTTAACTATTTCATAATAAAAAATTAGATTTTTAAATAAAATGATGATTTTCATTAAA
37733820 AAAGAGAGTTTAGATT
130 AAA-A-AGTTTAGATT
* ** *
37733836 TTTAAAAATGAAAATTGTTTTTTAGTCATTTTGGAGAAAAAATTTAAATTTTTAAACAAAGTTTT
1 TTTAAAAATAAAAATTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTT
* ** * * * *
37733901 GATTTTTTTAACTATTTTATAATAAAAGTTTGGATTTTTAAGTAAAGTGGTGATTTTCATTAAAA
66 GATTTTTTTAACTATTTCATAATAAAAAATTAGATTTTTAAATAAAATGATGATTTTCATTAAAA
37733966 AAAAGTTTAGATT
131 AAAAGTTTAGATT
* * *
37733979 TTTAAAAAAAATAAAAATTTGTTTTTTAGTGATTTTAAAG-AAAAGTTTAAAATTTTAAACAAAT
1 TTT---AAAAATAAAAA-TTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAG
*
37734043 TTTTGATTTGTTTAACTATTT
62 TTTTGATTTTTTTAACTATTT
37734064 TGAAATAAAA
Statistics
Matches: 197, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
143 75 0.38
144 17 0.09
145 35 0.18
146 51 0.26
147 19 0.10
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (143 bp):
TTTAAAAATAAAAATTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTT
GATTTTTTTAACTATTTCATAATAAAAAATTAGATTTTTAAATAAAATGATGATTTTCATTAAAA
AAAAGTTTAGATT
Found at i:37734058 original size:146 final size:145
Alignment explanation
Indices: 37733692--37734103 Score: 521
Period size: 146 Copynumber: 2.8 Consensus size: 145
37733682 GGTTTCGACA
* * * *
37733692 TTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGTTCAAATTTTTAAACAAAGTTT
1 TTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTT
* ** * * * *
37733757 TGATTTTTTTAACTATTTCAAA-AAAAAATTAGATTTTTAAATAAAATTA-TTATTTTCTTTAAA
66 TGATTTTTTTAACTATTTTAAATAAAAGTTTAGATTTTTAAGT-AAAGTAGTGATTTTCATTAAA
37733820 AAAGAGAGTTTAGATT
130 AAAGAGAGTTTAGATT
* ** *
37733836 TTTAAAAATGAAAA-TTGTTTTTTAGTCATTTTGGAGAAAAAATTTAAATTTTTAAACAAAGTTT
1 TTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTT
* *
37733900 TGATTTTTTTAACTATTTTATAATAAAAGTTTGGATTTTTAAGTAAAGTGGTGATTTTCATTAAA
66 TGATTTTTTTAACTATTTTA-AATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTTCATTAAA
37733965 AAA-A-AGTTTAGATT
130 AAAGAGAGTTTAGATT
* * *
37733979 TTTAAAAAAAATAAAAATTTGTTTTTTAGTGATTTTAAAG-AAAAGTTTAAAATTTTAAACAAAT
1 TTT---AAAAATAAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAG
* * *
37734043 TTTTGATTTGTTTAACTATTTTGAAATAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTT
63 TTTTGATTTTTTTAACTATTTT-AAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTT
37734104 GTTTTAATCA
Statistics
Matches: 232, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
143 75 0.32
144 20 0.09
145 31 0.13
146 86 0.37
147 20 0.09
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (145 bp):
TTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTT
TGATTTTTTTAACTATTTTAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTTCATTAAAA
AAGAGAGTTTAGATT
Found at i:37734141 original size:146 final size:142
Alignment explanation
Indices: 37733701--37734142 Score: 464
Period size: 143 Copynumber: 3.0 Consensus size: 142
37733691 ATTTAAAAAT
* * * *
37733701 AAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGTTCAAATTTTTAAACAAAGTTTTGATTTTTT
1 AAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTT
* ** * * *
37733766 TAACTATTTCAAA-AAAAAATTAGATTTTTAAATAAAATTA-TTATTTTCTTTAAAAAAG-AGAG
66 TAACTATTTTAAATAAAAGTTTAGATTTTTAAGT-AAAGTAGTGATTTTCTTTAAAAAAGAAGA-
37733828 TTTAGATTTTTAAA
129 TTTAGATTTTTAAA
* ** *
37733842 AATGAAAATTGTTTTTTAGTCATTTTGGAGAAAAAATTTAAATTTTTAAACAAAGTTTTGATTTT
1 AA--AAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTT
* * *
37733907 TTTAACTATTTTATAATAAAAGTTTGGATTTTTAAGTAAAGTGGTGATTTTCATTAAAAAA-AAG
64 TTTAACTATTTTA-AATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTTCTTTAAAAAAGAAG
37733971 -TTTAGATTTTTAAAAAAAA
128 ATTTAGATTTTT-----AAA
* * * *
37733990 TAAAAATTTGTTTTTTAGTGATTTTAAAG-AAAAGTTTAAAATTTTAAACAAATTTTTGATTTGT
1 -AAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTT
* * *
37734054 TTAACTATTTTGAAATAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTTGTTTTAATCAAAAGA
65 TTAACTATTTT-AAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTT-CTTTAA--AAAAGA
*
37734119 AGACTTTTGATTTTTTAAA
126 AGA-TTTAGA-TTTTTAAA
37734138 AAAAA
1 AAAAA
37734143 AGAAAAAGAA
Statistics
Matches: 250, Mismatches: 31, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
141 2 0.01
143 76 0.30
144 6 0.02
145 33 0.13
146 76 0.30
147 32 0.13
148 6 0.02
149 6 0.02
150 3 0.01
152 5 0.02
153 5 0.02
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (142 bp):
AAAAATTTGTTTTTTAGTCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTT
TAACTATTTTAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTTCTTTAAAAAAGAAGATT
TAGATTTTTAAA
Found at i:37743108 original size:42 final size:42
Alignment explanation
Indices: 37743049--37743607 Score: 760
Period size: 42 Copynumber: 13.3 Consensus size: 42
37743039 AAGGAAAGCA
* *
37743049 TTCATTGCATTTAGAGGCCCAAGTGTGGAGCCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
37743091 TTCATTGCATTTAGAGGCGCTA-GTGTGAAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGC-CCAGGTGTGGAGGCCCATTTACTT
* *
37743133 TTCATTACATTTAGAGGCCCAGGTGTAGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
37743175 TTCATTGCATTTAGTGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
37743217 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * *
37743259 TTCATTGCATTAAGAGGCCCAGGTGTGGAGGTCCATCTACCT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * *
37743301 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATATACCT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
37743343 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGCCAATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * *
37743385 TTCATCGCGTTTAGAGGCCTAGGTATGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
37743427 TTCATTACATTTAGAGGCCCAAGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
37743469 TTCATTGCATTTAGAGGCCCAAGTGTAGAGGCTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
** * *
37743511 TTCATTGCATTTAGAGGTTCAAGTGTGGAGGCCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
37743553 TTCATTACATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
*
37743595 TTCATCGCATTTA
1 TTCATTGCATTTA
37743608 TTTCTTCACT
Statistics
Matches: 460, Mismatches: 55, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
41 2 0.00
42 456 0.99
43 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
Found at i:37753623 original size:25 final size:25
Alignment explanation
Indices: 37753595--37753689 Score: 72
Period size: 24 Copynumber: 3.9 Consensus size: 25
37753585 TTCCAGAAAT
37753595 TTAGCTCATACAAGCCCAGACA-AAA
1 TTAGCTCATACAAGCCCAGA-ATAAA
* * **
37753620 TTAGCTCATGCGAGCCCA-AATAGG
1 TTAGCTCATACAAGCCCAGAATAAA
* *
37753644 TTAGCTCTTACAAGCCCAG-ATAAG
1 TTAGCTCATACAAGCCCAGAATAAA
* * *
37753668 TAAGCTCATTCGAGCCCA-AATA
1 TTAGCTCATACAAGCCCAGAATA
37753690 GAGTTTAACC
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
23 1 0.02
24 38 0.69
25 16 0.29
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (25 bp):
TTAGCTCATACAAGCCCAGAATAAA
Found at i:37753689 original size:48 final size:49
Alignment explanation
Indices: 37753595--37753690 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
37753585 TTCCAGAAAT
*
37753595 TTAGCTCATACAAGCCCAGACAAAATTAGCTCATGCGAGCCCAAATAGG
1 TTAGCTCATACAAGCCCAGACAAAATAAGCTCATGCGAGCCCAAATAGG
* * * *
37753644 TTAGCTCTTACAAGCCCAGA-TAAGTAAGCTCATTCGAGCCCAAATAG
1 TTAGCTCATACAAGCCCAGACAAAATAAGCTCATGCGAGCCCAAATAG
37753691 AGTTTAACCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 23 0.55
49 19 0.45
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (49 bp):
TTAGCTCATACAAGCCCAGACAAAATAAGCTCATGCGAGCCCAAATAGG
Found at i:37759356 original size:92 final size:92
Alignment explanation
Indices: 37759194--37759369 Score: 262
Period size: 92 Copynumber: 1.9 Consensus size: 92
37759184 CTAAATACAT
* * *
37759194 AACTACTGATACTTGTAATTCATCTATCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACT
1 AACTACCGATACTTATAATTCATCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACT
*
37759259 CTGTACTTCTATCGATACAAGTATGCA
66 CTGTACTTCTACCGATACAAGTATGCA
* * * * *
37759286 AACTACCGATACTTATTATTCATCTACCGGTACAACCCAAGTCAGTGAACAGCTTCTCTCCTACT
1 AACTACCGATACTTATAATTCATCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACT
*
37759351 TTGTACTTCTACCGATACA
66 CTGTACTTCTACCGATACA
37759370 TGCATGGTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (92 bp):
AACTACCGATACTTATAATTCATCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACT
CTGTACTTCTACCGATACAAGTATGCA
Found at i:37766707 original size:12 final size:12
Alignment explanation
Indices: 37766687--37766732 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
37766677 GTGATAAAAA
*
37766687 CTTCCTCTTTTT
1 CTTCTTCTTTTT
37766699 CTTCTTCTTTCTT
1 CTTCTTCTTT-TT
37766712 -TTCTTCTTCTTT
1 CTTCTTCTT-TTT
37766724 CTTC-TCTTT
1 CTTCTTCTTT
37766733 CTTTTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 1 0.03
12 23 0.77
13 6 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
CTTCTTCTTTTT
Found at i:37766713 original size:15 final size:15
Alignment explanation
Indices: 37766695--37766744 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
37766685 AACTTCCTCT
37766695 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
37766710 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
* *
37766725 TTCTCTTTCTT-TTCC
1 TTTTC-TTCTTCTTTC
37766740 TTTTC
1 TTTTC
37766745 GATACCCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 26 0.84
16 5 0.16
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCTTCTTCTTTC
Found at i:37766719 original size:24 final size:24
Alignment explanation
Indices: 37766692--37766738 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37766682 AAAAACTTCC
37766692 TCTT-TTTCTTCTTCTTTCTTTTCT
1 TCTTCTTTCTTC-TCTTTCTTTTCT
37766716 TCTTCTTTCTTCTCTTTCTTTTC
1 TCTTCTTTCTTCTCTTTCTTTTC
37766739 CTTTTCGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTCTTTCTTCTCTTTCTTTTCT
Found at i:37777928 original size:21 final size:21
Alignment explanation
Indices: 37777904--37777959 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
37777894 GTGCAGATTC
* *
37777904 TTACTGACACAAGTGACAGTT
1 TTACCGACACAAGTGACACTT
*
37777925 TTACCGATACAAGTGACACTT
1 TTACCGACACAAGTGACACTT
* *
37777946 TTACCAATACAAGT
1 TTACCGACACAAGT
37777960 CTTACTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (21 bp):
TTACCGACACAAGTGACACTT
Found at i:37777966 original size:21 final size:21
Alignment explanation
Indices: 37777912--37777976 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
37777902 TCTTACTGAC
* *
37777912 ACAAGTGACAGTTTTACCGAT
1 ACAAGTCACACTTTTACCGAT
* *
37777933 ACAAGTGACACTTTTACCAAT
1 ACAAGTCACACTTTTACCGAT
** *
37777954 ACAAGTCTTACTTCTACCGAT
1 ACAAGTCACACTTTTACCGAT
37777975 AC
1 AC
37777977 TAAAAACTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (21 bp):
ACAAGTCACACTTTTACCGAT
Found at i:37778243 original size:113 final size:113
Alignment explanation
Indices: 37778016--37778233 Score: 357
Period size: 113 Copynumber: 1.9 Consensus size: 113
37778006 ATTGCTACTT
* * *
37778016 CTACCGATACAAGTATGCGAACTACCGATACTTCTAAATACATGACTATCGATACTTGTTATTTA
1 CTACCGATACAAGTATGCAAACTACCGATACTTCTAAACACATGACTATCGATACTTGTTATTCA
*
37778081 TCTACCGATACAACCCAAGTTAGTAAACAACCTCTCTCCTACCCTGTA
66 TCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACCCTGTA
*
37778129 CTACCGATACAAGTATGCAAACTACCGATACTTCTAAACACATTACTA-CTGATACTTGTTATTC
1 CTACCGATACAAGTATGCAAACTACCGATACTTCTAAACACATGACTATC-GATACTTGTTATTC
* *
37778193 ATCTACGGATACAACCCAAGTCAGTGAACAACCTCTCTCCT
65 ATCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCT
37778234 TCTTTGTACT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
112 1 0.01
113 96 0.99
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (113 bp):
CTACCGATACAAGTATGCAAACTACCGATACTTCTAAACACATGACTATCGATACTTGTTATTCA
TCTACCGATACAACCCAAGTCAGTAAACAACCTCTCTCCTACCCTGTA
Found at i:37781686 original size:23 final size:24
Alignment explanation
Indices: 37781642--37781687 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
37781632 CCCCTAATTT
***
37781642 TTACAATTTTTCACACCCTTAACG
1 TTACAATTTTTCACAAAATTAACG
37781666 TTACAATTTTTCA-AAAATTAAC
1 TTACAATTTTTCACAAAATTAAC
37781688 CCAATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (24 bp):
TTACAATTTTTCACAAAATTAACG
Found at i:37781908 original size:21 final size:22
Alignment explanation
Indices: 37781870--37781915 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
37781860 TTTCTCTCAT
* *
37781870 TTTTTTTTCTTGCCAAACACCA
1 TTTTTCTTCTTGCAAAACACCA
*
37781892 TTTTTCTTCTT-CAAAACATCA
1 TTTTTCTTCTTGCAAAACACCA
37781913 TTT
1 TTT
37781916 ATAAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTCTTCTTGCAAAACACCA
Found at i:37782974 original size:21 final size:23
Alignment explanation
Indices: 37782950--37782991 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
37782940 CCAAGCATAA
*
37782950 GGTGTTTTG-AAGA-AGAAAAAT
1 GGTGTTTGGCAAGAGAGAAAAAT
37782971 GGTGTTTGGCAAGAGAGAAAA
1 GGTGTTTGGCAAGAGAGAAAA
37782992 TGAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.24
Consensus pattern (23 bp):
GGTGTTTGGCAAGAGAGAAAAAT
Found at i:37783053 original size:10 final size:10
Alignment explanation
Indices: 37783040--37783065 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
37783030 AAAAAGGAAG
37783040 ATGAAATAAA
1 ATGAAATAAA
37783050 ATGAAATAAA
1 ATGAAATAAA
37783060 ATGAAA
1 ATGAAA
37783066 AAATTTTAAA
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:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (10 bp):
ATGAAATAAA
Found at i:37785773 original size:264 final size:264
Alignment explanation
Indices: 37785303--37785830 Score: 1056
Period size: 264 Copynumber: 2.0 Consensus size: 264
37785293 TAGGTATGGC
37785303 AACTAATACCTGCTTCATTTCAATTATTTTGCGGCATGTCCATTTTGAGCTTCCGGTTTGAGATT
1 AACTAATACCTGCTTCATTTCAATTATTTTGCGGCATGTCCATTTTGAGCTTCCGGTTTGAGATT
37785368 AAATAAATTTCTGCTCCGGTTTAACCTTATTGTAATGAAAAAGGATAAGTTGATTTGAATGTTTG
66 AAATAAATTTCTGCTCCGGTTTAACCTTATTGTAATGAAAAAGGATAAGTTGATTTGAATGTTTG
37785433 AAAGGCTTCTGATGCTAAACTCTAACTAAACAGGAAGTGGATTACCAGAGCACTTACCGATACTA
131 AAAGGCTTCTGATGCTAAACTCTAACTAAACAGGAAGTGGATTACCAGAGCACTTACCGATACTA
37785498 ACCTGTCTTCTCCACAGTCTGAAGTTGTGAGTATTGCACCTATGCGAAGGTACGTGATTGATCGT
196 ACCTGTCTTCTCCACAGTCTGAAGTTGTGAGTATTGCACCTATGCGAAGGTACGTGATTGATCGT
37785563 CTTT
261 CTTT
37785567 AACTAATACCTGCTTCATTTCAATTATTTTGCGGCATGTCCATTTTGAGCTTCCGGTTTGAGATT
1 AACTAATACCTGCTTCATTTCAATTATTTTGCGGCATGTCCATTTTGAGCTTCCGGTTTGAGATT
37785632 AAATAAATTTCTGCTCCGGTTTAACCTTATTGTAATGAAAAAGGATAAGTTGATTTGAATGTTTG
66 AAATAAATTTCTGCTCCGGTTTAACCTTATTGTAATGAAAAAGGATAAGTTGATTTGAATGTTTG
37785697 AAAGGCTTCTGATGCTAAACTCTAACTAAACAGGAAGTGGATTACCAGAGCACTTACCGATACTA
131 AAAGGCTTCTGATGCTAAACTCTAACTAAACAGGAAGTGGATTACCAGAGCACTTACCGATACTA
37785762 ACCTGTCTTCTCCACAGTCTGAAGTTGTGAGTATTGCACCTATGCGAAGGTACGTGATTGATCGT
196 ACCTGTCTTCTCCACAGTCTGAAGTTGTGAGTATTGCACCTATGCGAAGGTACGTGATTGATCGT
37785827 CTTT
261 CTTT
37785831 TTCAAGAATG
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 264 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (264 bp):
AACTAATACCTGCTTCATTTCAATTATTTTGCGGCATGTCCATTTTGAGCTTCCGGTTTGAGATT
AAATAAATTTCTGCTCCGGTTTAACCTTATTGTAATGAAAAAGGATAAGTTGATTTGAATGTTTG
AAAGGCTTCTGATGCTAAACTCTAACTAAACAGGAAGTGGATTACCAGAGCACTTACCGATACTA
ACCTGTCTTCTCCACAGTCTGAAGTTGTGAGTATTGCACCTATGCGAAGGTACGTGATTGATCGT
CTTT
Found at i:37792593 original size:17 final size:18
Alignment explanation
Indices: 37792563--37792596 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37792553 TTATTCACAC
37792563 AAAACTATTAAATAATTT
1 AAAACTATTAAATAATTT
*
37792581 AAAA-TATTTAATAATT
1 AAAACTATTAAATAATT
37792597 ATGAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACTATTAAATAATTT
Found at i:37807840 original size:25 final size:25
Alignment explanation
Indices: 37807812--37807860 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
37807802 TTTTATATTA
*
37807812 ATATTTATATTAATGTTAAATAAAC
1 ATATTTATATTAATATTAAATAAAC
* *
37807837 ATATTTATTTTCATATTAAATAAA
1 ATATTTATATTAATATTAAATAAA
37807861 ATAAAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATTTATATTAATATTAAATAAAC
Found at i:37819600 original size:19 final size:21
Alignment explanation
Indices: 37819578--37819623 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
37819568 ATTAAAAAAA
37819578 TAAAAATAATTT-T-AAAA-TT
1 TAAAAAT-ATTTATAAAAATTT
37819597 T-AAAATATTTATAAAAATTT
1 TAAAAATATTTATAAAAATTT
37819617 TAAAAAT
1 TAAAAAT
37819624 CTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 5 0.22
20 3 0.13
21 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATATTTATAAAAATTT
Found at i:37819600 original size:27 final size:27
Alignment explanation
Indices: 37819564--37819640 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
37819554 AATTCTCAAT
37819564 AAATATTAAAAAAATAAAAATAATTTT-A
1 AAAT-TTAAAAAAATAAAAA-AATTTTAA
** *
37819592 AAATTTAAAATATTTATAAAAATTTTAA
1 AAATTTAAAA-AAATAAAAAAATTTTAA
* *
37819620 AAATCTAAAAAAATATAAAAA
1 AAATTTAAAAAAATAAAAAAA
37819641 GAGTTAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (27 bp):
AAATTTAAAAAAATAAAAAAATTTTAA
Found at i:37819631 original size:19 final size:20
Alignment explanation
Indices: 37819591--37819633 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
37819581 AAATAATTTT
* *
37819591 AAAA-TTTAAAATATTTATA
1 AAAATTTTAAAATATCTAAA
37819610 AAAATTTTAAAA-ATCTAAA
1 AAAATTTTAAAATATCTAAA
37819629 AAAAT
1 AAAAT
37819634 ATAAAAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTTTAAAATATCTAAA
Found at i:37819968 original size:21 final size:22
Alignment explanation
Indices: 37819942--37819987 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
37819932 CATTAATTAC
*
37819942 TTTATA-TTTGATATTTATTTT
1 TTTATACTTTGAGATTTATTTT
*
37819963 TTTATACTTTTTAGATTTATTTT
1 TTTATAC-TTTGAGATTTATTTT
37819986 TT
1 TT
37819988 AATTTGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTATACTTTGAGATTTATTTT
Found at i:37826448 original size:17 final size:17
Alignment explanation
Indices: 37826429--37826522 Score: 70
Period size: 17 Copynumber: 5.5 Consensus size: 17
37826419 TGTGAAGTGT
*
37826429 GAGCTCACCACAACTGT
1 GAGCTCACCACAACTGC
*
37826446 GAGCTCACTGA-ATA-TGC
1 GAGCTCAC-CACA-ACTGC
37826463 GAGCTCACCACAACTGC
1 GAGCTCACCACAACTGC
* * *
37826480 GAGCACACTGA-ATA-TGT
1 GAGCTCAC-CACA-ACTGC
*
37826497 GAGCTCACCACAGCTGC
1 GAGCTCACCACAACTGC
37826514 GAGCTCACC
1 GAGCTCACC
37826523 TAAGTTAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
16 3 0.05
17 52 0.88
18 4 0.07
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (17 bp):
GAGCTCACCACAACTGC
Found at i:37826467 original size:34 final size:34
Alignment explanation
Indices: 37826429--37826521 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
37826419 TGTGAAGTGT
*
37826429 GAGCTCACCACAACTGTGAGCTCACTGAATATGC
1 GAGCTCACCACAACTGCGAGCTCACTGAATATGC
* *
37826463 GAGCTCACCACAACTGCGAGCACACTGAATATGT
1 GAGCTCACCACAACTGCGAGCTCACTGAATATGC
*
37826497 GAGCTCACCACAGCTGCGAGCTCAC
1 GAGCTCACCACAACTGCGAGCTCAC
37826522 CTAAGTTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (34 bp):
GAGCTCACCACAACTGCGAGCTCACTGAATATGC
Found at i:37828292 original size:31 final size:31
Alignment explanation
Indices: 37828250--37828322 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
37828240 AAAACTTAAC
* * * *
37828250 AATTCATTGACTTAAGT-AAATTTTTTTGAAT
1 AATTCAGTGACTTAAATGAAA-TCTTTTAAAT
37828281 AATTCAGTGACTTAAATGAAATCTTTTAAAT
1 AATTCAGTGACTTAAATGAAATCTTTTAAAT
*
37828312 AATTTAGTGAC
1 AATTCAGTGAC
37828323 CAAATTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (31 bp):
AATTCAGTGACTTAAATGAAATCTTTTAAAT
Found at i:37830206 original size:25 final size:22
Alignment explanation
Indices: 37830181--37830240 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
37830171 TAATTATTTA
37830181 AAAATTATAAAAATATATACTATT
1 AAAATTATAAAAATA-ATA-TATT
*
37830205 AAAATAAT-AAAATAATATATTT
1 AAAATTATAAAAATAATATA-TT
**
37830227 ATTATTATAAAAAT
1 AAAATTATAAAAAT
37830241 TACAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.07
22 10 0.33
23 11 0.37
24 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTATAAAAATAATATATT
Found at i:37842669 original size:20 final size:19
Alignment explanation
Indices: 37842644--37842686 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
37842634 CTAAACATAC
37842644 AAATCCAAACCTCGAA-AACA
1 AAATCCAAA-CTC-AAGAACA
*
37842664 AAATCCTAACTCAAGAACA
1 AAATCCAAACTCAAGAACA
37842683 AAAT
1 AAAT
37842687 TCTTTCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 11 0.52
20 8 0.38
ACGTcount: A:0.56, C:0.26, G:0.05, T:0.14
Consensus pattern (19 bp):
AAATCCAAACTCAAGAACA
Found at i:37845675 original size:41 final size:41
Alignment explanation
Indices: 37845618--37845774 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
37845608 GAATAAATGT
37845618 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* *
37845659 AAGACTCATGTCTCGGGATGAGCATGAGAATATATTAAAGA
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
*
37845700 AAGACTCATGTCTCGAGG-TGAGCATGAGATTATTTTTAAAAGG
1 AAGACTCATGTCTCG-GGATGAGCATGAGATTA-TATT-AAAGG
* * * *
37845743 AAAACTCGTGACTCGGTATGAGCATGAGATTA
1 AAGACTCATGTCTCGGGATGAGCATGAGATTA
37845775 CGTGTAAAAG
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 67 0.65
42 6 0.06
43 30 0.29
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (41 bp):
AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
Found at i:37845785 original size:82 final size:82
Alignment explanation
Indices: 37845618--37845771 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 82
37845608 GAATAAATGT
* *
37845618 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCGGGATGAGCA
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAAACTCATGACTCGGGATGAGCA
*
37845683 TGAGAATATATTAAAGA
66 TGAGAATATAGTAAAGA
* * *
37845700 AAGACTCATGTCTCGAGG-TGAGCATGAGATTATTTTTAAAAGGAAAACTCGTGACTCGGTATGA
1 AAGACTCATGTCTCG-GGATGAGCATGAGATTA-TATT-AAAGGAAAACTCATGACTCGGGATGA
37845764 GCATGAGA
63 GCATGAGA
37845772 TTACGTGTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
82 29 0.45
83 5 0.08
84 30 0.47
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (82 bp):
AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAAACTCATGACTCGGGATGAGCA
TGAGAATATAGTAAAGA
Found at i:37852016 original size:41 final size:41
Alignment explanation
Indices: 37851954--37852175 Score: 205
Period size: 41 Copynumber: 5.3 Consensus size: 41
37851944 ACTTGATGAA
*
37851954 TAAATGGAAGATTCATGTCTCGGGATGAGCATGAGATTATAT
1 TAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
* *
37851996 TAAAGGAAGACTCATGTCTCGGGATGATCATGAGAGTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
* * * * *
37852037 TAATGGAAGACTCATGTCTTGGGGTAAGCATGAGATTATGTT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTAT-AT
* ** * * *
37852079 TAAAAGGAAGATTTGTGACTC--AACTAGAGCATGAGATTATGTT
1 T-AAAGGAAGACTCATGTCTCGGGA-T-GAGCATGAGATTAT-AT
* * * *
37852122 TTAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTATGT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
37852163 ATAAAGGAAGACT
1 -TAAAGGAAGACT
37852176 TATGATTCGG
Statistics
Matches: 148, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
41 68 0.46
42 48 0.32
43 31 0.21
44 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
Found at i:37852141 original size:42 final size:41
Alignment explanation
Indices: 37851978--37852175 Score: 150
Period size: 42 Copynumber: 4.8 Consensus size: 41
37851968 ATGTCTCGGG
* * * *
37851978 ATGAGCATGAGATTAT-ATTAAAGGAAGACTCATGTCTCGGG
1 ATGAGCATGAGATTATGTTTAAAGGAAGACTCGTGACTC-GA
* * * * * * * *
37852019 ATGATCATGAGAGTAT-ATTAATGGAAGACTCATGTCTTGGG
1 ATGAGCATGAGATTATGTTTAAAGGAAGACTCGTGAC-TCGA
* * * *
37852060 GTAAGCATGAGATTATGTTTAAAAGGAAGATTTGTGACTC-A
1 ATGAGCATGAGATTATGTTT-AAAGGAAGACTCGTGACTCGA
* *
37852101 ACTAGAGCATGAGATTATGTTTTAAGGAAGACTCGTGACTCGGG
1 A-T-GAGCATGAGATTATGTTTAAAGGAAGACTCGTGACTC-GA
*
37852145 ATGAGCATGAGATTATGTATAAAGGAAGACT
1 ATGAGCATGAGATTATGTTTAAAGGAAGACT
37852176 TATGATTCGG
Statistics
Matches: 126, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
41 47 0.37
42 48 0.38
43 30 0.24
44 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (41 bp):
ATGAGCATGAGATTATGTTTAAAGGAAGACTCGTGACTCGA
Found at i:37859048 original size:41 final size:41
Alignment explanation
Indices: 37858986--37859200 Score: 193
Period size: 41 Copynumber: 5.1 Consensus size: 41
37858976 GAATAAATAA
37858986 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * *
37859027 AAGATTCATGTCTCGGGATGAGCATGAGAGTATATTAAGGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * * *
37859068 AAGACTCATATCTCGGGGTGAGCATGACATTATGTTTAAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTAT-ATT-AAAGG
* * * * *
37859111 AAAACT--TGTAACTC-GGATAAAGCATGAGATTATGTTTTAAGA
1 AAGACTCATGT--CTCGGGAT-GAGCATGAGATTAT-ATTAAAGG
* * * **
37859153 AAGACTCGTGACTTGGGATGAGCATGAGATTACGTGTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATAT-TAAAGG
37859195 AAGACT
1 AAGACT
37859201 TACGATTTGG
Statistics
Matches: 140, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
41 69 0.49
42 37 0.26
43 32 0.23
44 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (41 bp):
AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
Found at i:37866809 original size:14 final size:13
Alignment explanation
Indices: 37866787--37866838 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
37866777 CAAGTACGAG
37866787 AAAATAAATGATA
1 AAAATAAATGATA
*
37866800 AAATATAAATGCAGA
1 AAA-ATAAATG-ATA
*
37866815 AAAATAAATGGTA
1 AAAATAAATGATA
37866828 AACAATAAATG
1 AA-AATAAATG
37866839 GGATGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 6 0.18
14 22 0.67
15 5 0.15
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (13 bp):
AAAATAAATGATA
Found at i:37875467 original size:31 final size:30
Alignment explanation
Indices: 37875429--37875492 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
37875419 GTATTTATAC
* *
37875429 TTTAATTTGGTCATTTTTAG-CCATTATACTT
1 TTTAATTTAGTCAATTTTAGTCC-TTATA-TT
37875460 TTTAATTTAGTCAATTTTAGTCCTTATATT
1 TTTAATTTAGTCAATTTTAGTCCTTATATT
37875490 TTT
1 TTT
37875493 CAAATTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 23 0.77
32 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTAATTTAGTCAATTTTAGTCCTTATATT
Found at i:37876605 original size:19 final size:19
Alignment explanation
Indices: 37876583--37876619 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37876573 ATATTTGAAT
37876583 ATTTATTATATTTA-ATTTC
1 ATTTATTA-ATTTATATTTC
37876602 ATTTATTAATTTATATTT
1 ATTTATTAATTTATATTT
37876620 GTGTGATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTAATTTATATTTC
Found at i:37890488 original size:28 final size:28
Alignment explanation
Indices: 37890457--37890535 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
37890447 TAAAATTAAT
* *
37890457 AATTTA-AATTTTTTTATTATTTTAATAA
1 AATTTATAA-TTTTTAATAATTTTAATAA
*
37890485 AATTTTATAATTTTTAATAATTTTATTAA
1 AA-TTTATAATTTTTAATAATTTTAATAA
* *
37890514 AATGTAATAATTTGT-ATAATTT
1 AAT-TTATAATTTTTAATAATTT
37890536 GTATTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 10 0.23
29 31 0.72
30 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
AATTTATAATTTTTAATAATTTTAATAA
Found at i:37890492 original size:19 final size:18
Alignment explanation
Indices: 37890468--37890512 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
37890458 ATTTAAATTT
37890468 TTTTATTA-TTTTAATAAAA
1 TTTTATTATTTTTAAT--AA
*
37890487 TTTTATAATTTTTAATAA
1 TTTTATTATTTTTAATAA
37890505 TTTTATTA
1 TTTTATTA
37890513 AAATGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 7 0.30
20 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATTATTTTTAATAA
Found at i:37890507 original size:29 final size:28
Alignment explanation
Indices: 37890467--37890535 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
37890457 AATTTAAATT
* * *
37890467 TTTTTATTATTTTAATAAAATTTTATAA
1 TTTTTATAATTTTAATAAAATGTAATAA
*
37890495 TTTTTAATAATTTTATTAAAATGTAATAA
1 TTTTT-ATAATTTTAATAAAATGTAATAA
*
37890524 TTTGTATAATTT
1 TTTTTATAATTT
37890536 GTATTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTATAATTTTAATAAAATGTAATAA
Found at i:37890538 original size:19 final size:18
Alignment explanation
Indices: 37890485--37890548 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
37890475 ATTTTAATAA
*
37890485 AATTTTATAATTTTTAAT
1 AATTTTATAATTTGTAAT
**
37890503 AATTTTATTAAAATGTAAT
1 AATTTTA-TAATTTGTAAT
*
37890522 AATTTGTATAATTTGTATT
1 AATTT-TATAATTTGTAAT
*
37890541 ATTTTTAT
1 AATTTTAT
37890549 TTTTATAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 10 0.27
19 25 0.68
20 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTATAATTTGTAAT
Done.