Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 59 of 228
Found at i:17663769 original size:35 final size:35
Alignment explanation
Indices: 17663730--17663800 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
17663720 ATATATGTGA
17663730 TTTTATATTTTTTCTAACATAATATACATGGGATG
1 TTTTATATTTTTTCTAACATAATATACATGGGATG
17663765 TTTTATATTTTTTCTAACATAATATACATGGGATG
1 TTTTATATTTTTTCTAACATAATATACATGGGATG
17663800 T
1 T
17663801 GGATTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.49
Consensus pattern (35 bp):
TTTTATATTTTTTCTAACATAATATACATGGGATG
Found at i:17664933 original size:39 final size:39
Alignment explanation
Indices: 17664804--17664957 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
17664794 AGCGGCACTT
** * *
17664804 TTAGCGGCGTTTGGAAAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTT-TTAAAAAAACGCCGCTAAAAAT-GAGCA
* ** * * *
17664845 TTAGCGGCGATTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
17664885 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
17664924 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
17664958 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 51 0.57
41 11 0.12
42 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:17665058 original size:41 final size:40
Alignment explanation
Indices: 17664993--17665108 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 40
17664983 AACATTTCGT
*
17664993 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* * *
17665034 GTCTTTAGCGGCGTTTTTGGAAAAGAGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
17665075 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
17665109 AAACATTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:17665350 original size:22 final size:22
Alignment explanation
Indices: 17665325--17665399 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
17665315 GAGTTACTGT
17665325 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
17665347 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
17665369 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
17665389 TTTAAGGTTTA
1 TTTAAGGTTTA
17665400 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:17665371 original size:14 final size:15
Alignment explanation
Indices: 17665341--17665381 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
17665331 GTTTATGGAG
17665341 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
17665356 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
17665370 TATGG-TTTAAGG
1 TATGGATTTAAGG
17665382 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:17665420 original size:22 final size:22
Alignment explanation
Indices: 17665394--17665456 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
17665384 TGAGATTTAA
*
17665394 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
*
17665416 GGTTTGGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
17665438 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
17665457 CATGGGTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:17665508 original size:12 final size:12
Alignment explanation
Indices: 17665487--17665529 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
17665477 TGGGTTTAGA
17665487 TTAA-TTATTTT
1 TTAATTTATTTT
17665498 TTAATTTATTTT
1 TTAATTTATTTT
* *
17665510 TAAATAT-TTTT
1 TTAATTTATTTT
17665521 TTAATTTAT
1 TTAATTTAT
17665530 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:17665524 original size:23 final size:24
Alignment explanation
Indices: 17665486--17665539 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
17665476 TTGGGTTTAG
*
17665486 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
17665508 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
17665532 ATTAAATA
1 ATTAAATA
17665540 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:17665729 original size:28 final size:27
Alignment explanation
Indices: 17665698--17665766 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
17665688 GATTATATAT
* * *
17665698 GGATTTAGGGATTATAGTTTAAGTGTTA
1 GGATTTAGGG-TTAGAGGTTAAGAGTTA
*
17665726 GGATTTAAGGGTTAGGGGTTAAGAGTTA
1 GGATTT-AGGGTTAGAGGTTAAGAGTTA
17665754 GGAATTTAGGGTT
1 GG-ATTTAGGGTT
17665767 TCAAGGGCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (27 bp):
GGATTTAGGGTTAGAGGTTAAGAGTTA
Found at i:17670361 original size:43 final size:42
Alignment explanation
Indices: 17670313--17670496 Score: 212
Period size: 42 Copynumber: 4.3 Consensus size: 42
17670303 ATGGTACTTT
* *
17670313 TAGCGGCGTTTGCGAAAAAGACGTCGCTAAAAG-TCATGATCTA
1 TAGCGGCGTTTGTGAAAAAG-TGTCGCTAAAAGATC-TGATCTA
* * *
17670356 TAGCGGCGTTTATAAAAAAGTGTCGCT-AAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAGTGTCGCTAAAAGATC-TGATCTA
* *
17670398 TAGCGGCGTTTGTGTAAAAGTGCCGCT-AAAGATCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAGTGTCGCTAAAAGAT-CTGATCTA
* * *
17670440 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGT-GAAAAAGTGTCGCTAAAAGATCTGATCTA
17670483 TAGCGGCGTTTGTG
1 TAGCGGCGTTTGTG
17670497 GGAAAAGCGC
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
41 4 0.03
42 64 0.52
43 51 0.41
44 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAGTGTCGCTAAAAGATCTGATCTA
Found at i:17670463 original size:85 final size:85
Alignment explanation
Indices: 17670313--17670557 Score: 298
Period size: 85 Copynumber: 2.9 Consensus size: 85
17670303 ATGGTACTTT
* * * * **
17670313 TAGCGGCGTTTGCGAAAAAGACGTCGCTAAA-AGTCATGATCTATAGCGGCGTTTAT-AAAAAAG
1 TAGCGGCGTTTGTGAAAAAG-CGCCGCTAAAGA-TCCTGATCTATAGCGGCGTTTGTGGGAAAAG
17670376 TGTCGCTAAAGG-TCTTGATCTA
64 TGTCGCTAAAGGTTC-TGATCTA
* *
17670398 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
17670463 TCGCTAAAGGTTCTGATCTA
66 TCGCTAAAGGTTCTGATCTA
* * * * * *
17670483 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGGAAAAGT
*
17670548 GCCGCTAAAG
65 GTCGCTAAAG
17670558 TTAGCGACAC
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
84 29 0.21
85 56 0.40
86 55 0.39
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (85 bp):
TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
TCGCTAAAGGTTCTGATCTA
Found at i:17670497 original size:43 final size:43
Alignment explanation
Indices: 17670313--17670557 Score: 257
Period size: 43 Copynumber: 5.7 Consensus size: 43
17670303 ATGGTACTTT
* * * *
17670313 TAGCGGCGTTTG-CGAAAAAGACGTCGCTAAAAG-TCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAG-CGCCGCTAAAGGTTC-TGATCTA
* ** * *
17670356 TAGCGGCGTTTAT-AAAAAAGTGTCGCTAAAGG-TCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-TGATCTA
* * * *
17670398 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGATCTA
* *
17670440 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGATCTA
* * * *
17670483 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGATCTA
17670526 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
17670558 TTAGCGACAC
Statistics
Matches: 177, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 66 0.37
43 111 0.63
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGATCTA
Found at i:17670657 original size:22 final size:22
Alignment explanation
Indices: 17670629--17670671 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17670619 CAGCGGCGCT
*
17670629 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
17670651 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
17670672 GTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:17673038 original size:30 final size:30
Alignment explanation
Indices: 17673002--17673059 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17672992 AAAAAAACCC
17673002 TTTTTTTCAA-TATTTACCGAAATGGGCCGG
1 TTTTTTT-AATTATTTACCGAAATGGGCCGG
*
17673032 TTTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTTAATTATTTACCGAAATGGGCC
17673060 ATTTTCAGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (30 bp):
TTTTTTTAATTATTTACCGAAATGGGCCGG
Found at i:17673713 original size:11 final size:12
Alignment explanation
Indices: 17673693--17673717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17673683 TCGAAATTTA
17673693 GGGGCAAAAAAG
1 GGGGCAAAAAAG
17673705 GGGGCAAAAAAG
1 GGGGCAAAAAAG
17673717 G
1 G
17673718 ATATTTTTCG
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:0.48, C:0.08, G:0.44, T:0.00
Consensus pattern (12 bp):
GGGGCAAAAAAG
Found at i:17674051 original size:29 final size:29
Alignment explanation
Indices: 17674010--17674065 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
17674000 CGCGGAAAAT
*
17674010 GGCCTATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
*
17674039 GGCCCATTTCGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
17674066 AGGGCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:17683321 original size:25 final size:25
Alignment explanation
Indices: 17683293--17683345 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
17683283 ACTAATCGAT
* * *
17683293 GAGCACTGACGTGCTAATAATTAGA
1 GAGCACTAACGTGCTAAAAATGAGA
* *
17683318 GAGCAGTAATGTGCTAAAAATGAGA
1 GAGCACTAACGTGCTAAAAATGAGA
17683343 GAG
1 GAG
17683346 TGCGCTAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCACTAACGTGCTAAAAATGAGA
Found at i:17686945 original size:31 final size:31
Alignment explanation
Indices: 17686886--17686942 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
17686876 ATAATATCTT
*
17686886 TTAATAAAATAAAAGGATCTATATAATAAGA
1 TTAAAAAAATAAAAGGATCTATATAATAAGA
17686917 TTAAAAAAATAAAA-GA-CTA-ATAATAA
1 TTAAAAAAATAAAAGGATCTATATAATAA
17686943 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 3 0.12
30 2 0.08
31 13 0.52
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (31 bp):
TTAAAAAAATAAAAGGATCTATATAATAAGA
Found at i:17686966 original size:16 final size:15
Alignment explanation
Indices: 17686924--17686977 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
17686914 AGATTAAAAA
*
17686924 AATAAAAGACTAATAAT
1 AATAAAA-A-TAATAAC
* *
17686941 AATAATAATAATGACC
1 AATAAAAATAAT-AAC
17686957 AATAAAAATAATAAC
1 AATAAAAATAATAAC
17686972 AATAAA
1 AATAAA
17686978 TCAATTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 12 0.39
16 13 0.42
17 6 0.19
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (15 bp):
AATAAAAATAATAAC
Found at i:17686966 original size:22 final size:20
Alignment explanation
Indices: 17686918--17686970 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
17686908 ATAATAAGAT
*
17686918 TAAAAA-AATAAAAGACTAA
1 TAAAAATAATAAAAGACCAA
*
17686937 TAATAATAATAATAATGACCAA
1 TAAAAATAATAA-AA-GACCAA
17686959 TAAAAATAATAA
1 TAAAAATAATAA
17686971 CAATAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 2 0.07
22 16 0.57
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAAAATAATAAAAGACCAA
Found at i:17689102 original size:132 final size:132
Alignment explanation
Indices: 17688781--17690101 Score: 1578
Period size: 132 Copynumber: 10.0 Consensus size: 132
17688771 AGATTCGCCG
* * * * * *
17688781 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAACCTATTCCACTGCC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * * * * * * * *
17688846 GACCAGGGAGATAAGACTT-GTGGCTTAAATCTGCTTCC-C--T-A-CTCCTGGGAAAGATGAGA
66 GACCAGGGAGAT-AGAATTACTGGCTTCAATGTAC-TCCACTGTAACCT-CAGGG--AGGTAAAA
17688905 T-TCGCCA
126 TCT-GCCA
* * *** * *
17688912 TCTTTGATCTGCTCTGTTACTGCTTAGGGAGATAAGATATGTAAT-TTCTAACCTATTCCACTGC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC-AATCTATTCCACTGC
* * * *
17688976 TGACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCG
65 TGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTG
*
17689041 TCA
130 CCA
* * * * * *
17689044 TCTTCAATTTGCTCCACTACTACTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * *
17689109 AACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTGT
66 GACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
17689174 CA
131 CA
* * * * *
17689176 TCTTCAATCTACTCCACTACTGCTTAGGAAGACT-AGATTTGCT-ATCTTTAATCTATTCCACTA
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGA-TAAGATCTG-TAATCTTCAATCTATTCCACTG
** * *
17689239 CCAACCAAGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT
64 CTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT
17689304 GCCA
129 GCCA
** *
17689308 TCTTCGATCTACTCCACTACTGCTTAGGGAGACT-AGATCTACAATCTTTAATCTATTCCACTGC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGA-TAAGATCTGTAATCTTCAATCTATTCCACTGC
** *
17689372 CAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTACCCTCAGGGAGGTAAAATCTG
65 TGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTG
17689437 CCA
130 CCA
* * * *
17689440 TCTTCGATCTACTTCACTACTTCTTAGGGAGATAAAATATGTAATCTTCAATCTATTCCACTGCT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * * *
17689505 G-CCTAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGAGAGGTAAAATCTG
66 GACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTG
17689569 CCA
130 CCA
*
17689572 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * **
17689637 G-CCTAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAACTCCA
66 GACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTG
17689701 CCA
130 CCA
* * *
17689704 TCTTCGATCTACTCCATTATTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * * * * *
17689769 GCCCAGGAAGATAAAACTACTGGCTTCAATGTACTCCACTGTAATCAT-AGGGAGGTAAAATCCG
66 GACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA-CCTCAGGGAGGTAAAATCTG
17689833 CCA
130 CCA
* * * **
17689836 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCA-TTAT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
* * * *
17689900 CGACCAAGGAGATAGAATTACTGGTTTCAATGTATTCCACTATAACCTCAGGGAGGTAAAATCTG
66 -GACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTG
17689965 CCA
130 CCA
*
17689968 TCTTTC-ATCTACTCCACTACCGCTTAGGGAGATAAGATCCT-TAATCTTCAATCTATTCCACTG
1 TC-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT-CTGTAATCTTCAATCTATTCCACTG
* * * * * *
17690031 CTGCCCAGGGAGATAGAATTACTGGCTTCAATGTGCTCTACTATAGCCTCAGGGAGGTAAAATCC
64 CTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT
17690096 GCCA
129 GCCA
17690100 TC
1 TC
17690102 AACCTGCTCC
Statistics
Matches: 1041, Mismatches: 128, Indels: 41
0.86 0.11 0.03
Matches are distributed among these distances:
130 11 0.01
131 84 0.08
132 923 0.89
133 17 0.02
134 5 0.00
135 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
GACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
CA
Found at i:17689160 original size:44 final size:44
Alignment explanation
Indices: 17688980--17689690 Score: 215
Period size: 44 Copynumber: 16.2 Consensus size: 44
17688970 CACTGCTGAC
* ** * * *
17688980 CAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCA
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
* * * * * *
17689024 CAGGGAGGTA-AAATCCGTCATCTTCAATTTGCTCCACTACT-A-CT
1 CAGGGAGATAGAATTAC-T-ATCTTCAATCTACTCCACT-GTAACCT
* * *
17689068 TAGGGAGATA-AGATCTA-TAATCTTCAATCTATTCCACTGCCAA-C-
1 CAGGGAGATAGA-AT-TACT-ATCTTCAATCTACTCCACTG-TAACCT
** *
17689112 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
* * **
17689156 CAGGGAGGTAAAATTTGTCATCTTCAATCTACTCCAC--T-ACTGCT
1 CAGGGAGATAGAATTACT-ATCTTCAATCTACTCCACTGTAAC--CT
* * * * * * **
17689200 TAGGAAGACTAGATTTGCTATCTTTAATCTATTCCACTACCAA-C-
1 CAGGGAGA-TAGAATTACTATCTTCAATCTACTCCACT-GTAACCT
* * ** *
17689244 CAAGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
* * * * *
17689288 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCAC--T-ACTGCT
1 CAGGGAGATAGAAT-TACTATCTTCAATCTACTCCACTGTAAC--CT
* * * * *
17689332 TAGGGAGACTAG-ATCTACAATCTTTAATCTATTCCACTGCCAA-C-
1 CAGGGAGA-TAGAAT-TACTATCTTCAATCTACTCCACTG-TAACCT
** * *
17689376 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTACCCT
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
* * * * * *
17689420 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTTCAC--T-ACTTCT
1 CAGGGAGATAGAAT-TACTATCTTCAATCTACTCCACTGTAAC--CT
* * * * *
17689464 TAGGGAGATA-AAATATGTAATCTTCAATCTATTCCACTGCT-GCCT
1 CAGGGAGATAGAATTA-CT-ATCTTCAATCTACTCCACTG-TAACCT
* ** * * *
17689509 -AGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCA
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
* * * * * *
17689552 CAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCAC--T-ACTGCT
1 CAGGGAGATAGAAT-TACTATCTTCAATCTACTCCACTGTAAC--CT
* * * * *
17689596 TAGGGAGATA-AGATCT-GTAATCTTTAATCTATTCCACTGCT-GCCT
1 CAGGGAGATAGA-AT-TACT-ATCTTCAATCTACTCCACTG-TAACCT
* *
17689641 -AGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
17689684 CAGGGAG
1 CAGGGAG
17689691 GTAAACTCCA
Statistics
Matches: 475, Mismatches: 137, Indels: 110
0.66 0.19 0.15
Matches are distributed among these distances:
42 14 0.03
43 111 0.23
44 241 0.51
45 101 0.21
46 2 0.00
47 4 0.01
48 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
CAGGGAGATAGAATTACTATCTTCAATCTACTCCACTGTAACCT
Found at i:17692377 original size:14 final size:15
Alignment explanation
Indices: 17692348--17692390 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
17692338 TTTCTCTTCT
*
17692348 TTTTTGATTTTTTTGA
1 TTTTT-ATTATTTTGA
17692364 TTTTT-TTATTTTGA
1 TTTTTATTATTTTGA
17692378 TTTTTATTATTTT
1 TTTTTATTATTTT
17692391 TATTCTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 7 0.28
16 5 0.20
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTTATTATTTTGA
Found at i:17693201 original size:25 final size:25
Alignment explanation
Indices: 17693151--17693209 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
17693141 AAGAAAGTCC
* *
17693151 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAACTACTCA
*
17693176 AAAAGAATGAAAGAA-CACTAGCTCA
1 AAAAGAATGAAAGAATAACTA-CTCA
17693201 AAAATGAAT
1 AAAA-GAAT
17693210 ACAAAGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.19
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAACTACTCA
Found at i:17693467 original size:79 final size:79
Alignment explanation
Indices: 17693336--17693484 Score: 289
Period size: 79 Copynumber: 1.9 Consensus size: 79
17693326 GCTCTAAAAT
*
17693336 CTACAGGCATTTCTTCTACAGTCCAATTGCTTTGAACACTCCCAAATTTATAATGGCAGATATTT
1 CTACAGGCATTTCTTCTACAGTCCAATTGCTTTGAACACTCCCAAATTTATAAGGGCAGATATTT
17693401 AACAAGGTTTAGAG
66 AACAAGGTTTAGAG
17693415 CTACAGGCATTTCTTCTACAGTCCAATTGCTTTGAACACTCCCAAATTTATAAGGGCAGATATTT
1 CTACAGGCATTTCTTCTACAGTCCAATTGCTTTGAACACTCCCAAATTTATAAGGGCAGATATTT
17693480 AACAA
66 AACAA
17693485 AGCCCCTTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (79 bp):
CTACAGGCATTTCTTCTACAGTCCAATTGCTTTGAACACTCCCAAATTTATAAGGGCAGATATTT
AACAAGGTTTAGAG
Found at i:17694249 original size:7 final size:7
Alignment explanation
Indices: 17694237--17694275 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
17694227 AAGAAGAAAT
17694237 AAAATTA
1 AAAATTA
17694244 AAAATTA
1 AAAATTA
17694251 AAAATTA
1 AAAATTA
17694258 AAAATTA
1 AAAATTA
17694265 AAAATTA
1 AAAATTA
17694272 AAAA
1 AAAA
17694276 CTATACTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:17694458 original size:59 final size:59
Alignment explanation
Indices: 17694366--17694497 Score: 246
Period size: 59 Copynumber: 2.2 Consensus size: 59
17694356 CCAAAAATGA
* *
17694366 AGAAAAAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTTAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
17694425 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
17694484 AGAAATAAAGAAAA
1 AGAAATAAAGAAAA
17694498 AAAATAAAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 71 1.00
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.17
Consensus pattern (59 bp):
AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
Found at i:17696868 original size:29 final size:29
Alignment explanation
Indices: 17696820--17696876 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
17696810 CTTGCTAAGT
*
17696820 TTTAAATTTAGTTCTGAATTTAAGTTTTC
1 TTTAAATTTAGTTCTAAATTTAAGTTTTC
* *
17696849 TTTAATTTTAGTTTTAAATTTAAGTTTT
1 TTTAAATTTAGTTCTAAATTTAAGTTTT
17696877 TTAAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (29 bp):
TTTAAATTTAGTTCTAAATTTAAGTTTTC
Found at i:17696870 original size:12 final size:13
Alignment explanation
Indices: 17696815--17696876 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
17696805 TTTTTCTTGC
17696815 TAAGTTTTAAATT
1 TAAGTTTTAAATT
* *
17696828 T-AGTTCTGAATT
1 TAAGTTTTAAATT
*
17696840 TAAGTTTTCTTTAATT
1 TAAG--TT-TTAAATT
*
17696856 TTAGTTTTAAATT
1 TAAGTTTTAAATT
17696869 TAAGTTTT
1 TAAGTTTT
17696877 TTAAAAATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
12 10 0.26
13 16 0.42
14 2 0.05
15 2 0.05
16 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (13 bp):
TAAGTTTTAAATT
Found at i:17703572 original size:27 final size:25
Alignment explanation
Indices: 17703542--17703591 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
17703532 TTTAATGTAG
17703542 ATATTAATTAAATTTGGATTTCAAAGC
1 ATATTAA-TAAATTTGGA-TTCAAAGC
* *
17703569 ATATTTATGAATTTGGATTCAAA
1 ATATTAATAAATTTGGATTCAAA
17703592 ATTTCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 9 0.43
27 6 0.29
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (25 bp):
ATATTAATAAATTTGGATTCAAAGC
Found at i:17707716 original size:29 final size:29
Alignment explanation
Indices: 17707676--17707752 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
17707666 TTTTTCTCGG
* * * *
17707676 GTTACATTTTAGACACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATATTTAAAAT
*
17707705 GTTATGTTTTAGTCACTTATATTTAAAAT
1 GTTACGTTTTAGTCACTTATATTTAAAAT
17707734 GTTACGTTTTAGTCACTTA
1 GTTACGTTTTAGTCACTTA
17707753 CGTTATCGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATATTTAAAAT
Found at i:17709016 original size:18 final size:18
Alignment explanation
Indices: 17708971--17709005 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17708961 GGCCCAACCC
*
17708971 ATATTAAATATATATTTA
1 ATATAAAATATATATTTA
*
17708989 ATATATAATATATATTT
1 ATATAAAATATATATTT
17709006 GATTAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAAAATATATATTTA
Found at i:17710713 original size:18 final size:18
Alignment explanation
Indices: 17710690--17710727 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17710680 GTTTCTGTCC
17710690 TTATA-TTACATTTAAATT
1 TTATATTTA-ATTTAAATT
*
17710708 TTATATTTAATTTATATT
1 TTATATTTAATTTAAATT
17710726 TT
1 TT
17710728 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTTAATTTAAATT
Found at i:17714334 original size:3 final size:3
Alignment explanation
Indices: 17714326--17714384 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
17714316 TAGGTTGAGT
17714326 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
17714374 GAA GAAA GAA G
1 GAA G-AA GAA G
17714385 GAAAAAAAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17715050 original size:25 final size:27
Alignment explanation
Indices: 17715018--17715084 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
17715008 AGATTCTTTG
*
17715018 AAGCTAGTGTTAGCAGAATC-GAACCA
1 AAGCTAGTGTTAGCAGAACCTGAACCA
* *
17715044 AA-CTAGTGTTAGCA-ACCCTGATCCA
1 AAGCTAGTGTTAGCAGAACCTGAACCA
17715069 AAGCTAGTGTTAGCAG
1 AAGCTAGTGTTAGCAG
17715085 CCCGATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 2 0.06
25 19 0.54
26 14 0.40
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
AAGCTAGTGTTAGCAGAACCTGAACCA
Found at i:17720530 original size:5 final size:6
Alignment explanation
Indices: 17720514--17720538 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17720504 TTTTAATTTT
17720514 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
17720539 TAATTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:17720913 original size:46 final size:46
Alignment explanation
Indices: 17720846--17720939 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
17720836 GTGTTGAAAG
17720846 TAAGAATTTATTAGATCAATTCTATAACACTTATGACTAAGCGATA
1 TAAGAATTTATTAGATCAATTCTATAACACTTATGACTAAGCGATA
* *
17720892 TAAGAATTTATTAGATCAATTCTATATCACTTATGACTAAGTGATA
1 TAAGAATTTATTAGATCAATTCTATAACACTTATGACTAAGCGATA
17720938 TA
1 TA
17720940 CTTATTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (46 bp):
TAAGAATTTATTAGATCAATTCTATAACACTTATGACTAAGCGATA
Found at i:17721965 original size:21 final size:20
Alignment explanation
Indices: 17721932--17721975 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
17721922 TTATTTATAA
*
17721932 TAATTATAATTAATTAATATT
1 TAATTATAATTAAATAAT-TT
**
17721953 TAATTATGTTTAAATAATTT
1 TAATTATAATTAAATAATTT
17721973 TAA
1 TAA
17721976 AAAAATACGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTATAATTAAATAATTT
Found at i:17723567 original size:153 final size:149
Alignment explanation
Indices: 17723291--17723572 Score: 413
Period size: 153 Copynumber: 1.9 Consensus size: 149
17723281 GTGTTTTGTT
* * **
17723291 CATTTGTTCGTATTTTTTTCGAATTTTATTATTTTTAAAAAAATACTATTTTTTAATTTTTTTTA
1 CATTTGTTCGTATTTTTTTCGAATTTTATTACTTTCAAAAAAATACTATTTTTTAATTTTTAGTA
* * *
17723356 TTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTA
66 TTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTA
17723421 ACAAAATTCTTATTTCGAC
131 ACAAAATTCTTATTTCGAC
* **
17723440 CATTTGTTCGTAATTTTTTTTCGGATTTTATTACTTTCAATAAAAATA-TATTATTTTCGTATTT
1 CATTTGTTCGT-A-TTTTTTTCGAATTTTATTACTTTCAA-AAAAATACTATT-TTTTAAT-TTT
*
17723504 TAGTATTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTTTGTTTTTTAAATA
61 TAGTATTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATA
17723569 AATT
126 AATT
17723573 TAAAAAAAAC
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
149 11 0.09
150 1 0.01
151 27 0.23
152 12 0.10
153 66 0.56
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (149 bp):
CATTTGTTCGTATTTTTTTCGAATTTTATTACTTTCAAAAAAATACTATTTTTTAATTTTTAGTA
TTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTA
ACAAAATTCTTATTTCGAC
Found at i:17723821 original size:153 final size:152
Alignment explanation
Indices: 17723597--17724375 Score: 1146
Period size: 153 Copynumber: 5.1 Consensus size: 152
17723587 AAAAAACCCT
17723597 AAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTAAATTTATTTAAAAAACACAGTAAATT
1 AAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
*
17723661 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
66 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT
*
17723726 TTTAAAGTAATAAATTTCGGAG
131 TTTAAAGTAATAAATCTCGGAG
* *
17723748 AAAAAATACAAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACAGTAAAT
1 AAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTTAAATTTATTTAAAAAACACAGTAAAT
*
17723813 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATATTATATTT
65 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTT
*
17723878 TTTTAAAGTAATAAACTCTAGG-G
130 TTTTAAAGTAATAAA-TCTCGGAG
* *
17723901 -AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
1 AAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
* *
17723965 AATACATTTCAAACATAATGTACTAAAATAATGTAAACTAATAAAATTAGAAAATAGTATATTTT
66 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT
*
17724030 TTTAAAGTAATAAA-CTCTGGGG
131 TTTAAAGTAATAAATCTC-GGAG
* * * *
17724052 AAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTTTAATTTATTTAAAAAATATAGTAAAT
1 -AAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAAT
* * *
17724117 TAATACATTTTAAACATGATGTACTAAAATAATGTAAAATAATAAAA-TACAAAAATAATATATT
65 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-AAAAATAGTATATT
17724181 TTTATTGAAAGTAATAAAATCT--GAG
129 TTT-TT-AAAGTAAT-AAATCTCGGAG
* *
17724206 AAAAAAATACAAACAAAGGGCCGAAATAATGA-TTTTTTT-AATTTATTTAAAAAACACATTAAA
1 -AAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTTTTAAATTTATTTAAAAAACACAGTAAA
* * *
17724269 TTAATAAATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAATTAAAAAATAGTATAT
64 TTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT-AATAAAATTAAAAAATAGTATAT
* * *
17724334 TTTTTAAAAGTAATAAAAT-TTGGAA
128 TTTTTTAAAGTAAT-AAATCTCGGAG
17724359 AAAAAATACGAACAAAG
1 AAAAAATACGAACAAAG
17724376 AGCCAAAACA
Statistics
Matches: 573, Mismatches: 38, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
149 2 0.00
150 2 0.00
151 141 0.25
152 59 0.10
153 288 0.50
154 64 0.11
155 12 0.02
156 3 0.01
157 2 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (152 bp):
AAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT
TTTAAAGTAATAAATCTCGGAG
Found at i:17724146 original size:304 final size:306
Alignment explanation
Indices: 17723597--17724375 Score: 1221
Period size: 304 Copynumber: 2.5 Consensus size: 306
17723587 AAAAAACCCT
*
17723597 AAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTAAATTTATTTAAAAAACACAGTAAATT
1 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
17723661 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
66 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
* * *
17723726 TTTAAAGTAATAAATTTCGGAGAAAAAATACAAACAAAGGGCCGAAATAAGGGTTTTTTTTAAAT
131 TTTAAAGTAATAAATTTGGGA-AAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTTAAAT
17723791 TTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
195 TTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * *
17723856 AAAATTA-AAAAATATTATATTTTT-TT-AAAGTAATAAACTCT-AGG
260 AAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
* *
17723900 GAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
1 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
*
17723965 AATACATTTCAAACATAATGTACTAAAATAATGTAAACTAATAAAATTAGAAAATAGTATATTTT
66 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
* *
17724030 TTTAAAGTAATAAACTCTGGGGAAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTTT-AA
131 TTTAAAGTAATAAA-T-TTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTTAAA
* * * *
17724094 TTTATTTAAAAAATATAGTAAATTAATACATTTTAAACATGATGTACTAAAATAATGTAAAATAA
194 TTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
17724159 TAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
259 TAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
* * * *
17724207 AAAAAATACAAACAAAGGGCCGAAATAATGATTTTTTT-AATTTATTTAAAAAACACATTAAATT
1 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
* * * *
17724271 AATAAATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAATTAAAAAATAGTATATTT
66 AATACATTTCAAACATAATGTACTAAAATAATGTAAAAT-AATAAAATTAGAAAATAGTATATTT
* *
17724336 TTTAAAAGTAATAAAATTTGGAAAAAAAATACGAACAAAG
130 TTTTAAAGTAAT-AAATTTGGGAAAAAAATACGAACAAAG
17724376 AGCCAAAACA
Statistics
Matches: 436, Mismatches: 31, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
303 30 0.07
304 195 0.45
305 39 0.09
306 99 0.23
307 70 0.16
308 3 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (306 bp):
AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
TTTAAAGTAATAAATTTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTTAAATT
TATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
Found at i:17727015 original size:21 final size:21
Alignment explanation
Indices: 17726978--17727050 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
17726968 CAAAACAACA
* *
17726978 GTTTCTCCCCTCATTCTTGTTG
1 GTTTCT-CCCTCGTTCTTGCTG
*
17727000 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
* * *
17727021 GTTTGTCTCTCGTTTTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
17727042 GTTTCTCCC
1 GTTTCTCCC
17727051 CTCTCTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 36 0.86
22 6 0.14
ACGTcount: A:0.01, C:0.29, G:0.18, T:0.52
Consensus pattern (21 bp):
GTTTCTCCCTCGTTCTTGCTG
Found at i:17729969 original size:23 final size:23
Alignment explanation
Indices: 17729943--17729988 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
17729933 CTAATAATAG
*
17729943 ATACCCAAATGATGAAACGAAAA
1 ATACCCAAATGATCAAACGAAAA
17729966 ATACCCAAATGATCAAACGAAAA
1 ATACCCAAATGATCAAACGAAAA
17729989 TGGGAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.13
Consensus pattern (23 bp):
ATACCCAAATGATCAAACGAAAA
Found at i:17730426 original size:28 final size:29
Alignment explanation
Indices: 17730373--17730548 Score: 275
Period size: 30 Copynumber: 5.9 Consensus size: 29
17730363 TGCACTGTAT
17730373 TAGTGTATTTTAAAAA-AAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAA-ATATATG
17730402 TAGTGTATTTTAAAAATAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAA-ATATATG
*
17730432 TAGTGTACTTTAAAAATAAAAAAAAATATATG
1 TAGTGTATTTTAAAAAT---AAAAAATATATG
17730464 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAAT-AAAAAATATATG
17730494 TAGTGTATTTTAAAAAT-AAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATG
17730522 TAGTGTATTTTAAAAATAAAAAATATA
1 TAGTGTATTTTAAAAATAAAAAATATA
17730549 GTTTATATTC
Statistics
Matches: 140, Mismatches: 2, Indels: 10
0.92 0.01 0.07
Matches are distributed among these distances:
28 28 0.20
29 25 0.18
30 59 0.42
32 23 0.16
33 5 0.04
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (29 bp):
TAGTGTATTTTAAAAATAAAAAATATATG
Found at i:17730467 original size:62 final size:61
Alignment explanation
Indices: 17730386--17730548 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 61
17730376 TGTATTTTAA
17730386 AAAAAAAATATATATGTAGTGTATTTTAAAAATAAAAATATATATGTAGTGTACTTTAAAAAT
1 AAAAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAA-ATATATGTAGTGTACTTTAAAAAT
*
17730449 AAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT
1 AAAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTAGTGTACTTTAAAAAT
17730511 ----AAAAATATATGTAGTGTATTTTAAAAATAAAAAATATA
1 AAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATA
17730549 GTTTATATTC
Statistics
Matches: 98, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
57 10 0.10
58 28 0.29
62 47 0.48
63 13 0.13
ACGTcount: A:0.55, C:0.01, G:0.09, T:0.36
Consensus pattern (61 bp):
AAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAAT
Found at i:17734121 original size:21 final size:21
Alignment explanation
Indices: 17734095--17734143 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
17734085 GTTTCTAATT
*
17734095 TCACCGCTACAGTATCCAATC
1 TCACCGCTACAGTAACCAATC
*
17734116 TCACCGCTACAGTAACTAATC
1 TCACCGCTACAGTAACCAATC
17734137 TCACCGC
1 TCACCGC
17734144 CACCTCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.22
Consensus pattern (21 bp):
TCACCGCTACAGTAACCAATC
Found at i:17752547 original size:25 final size:27
Alignment explanation
Indices: 17752492--17752550 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
17752482 GTTTTAAAAT
* *
17752492 TTATTTTTATACAATAATAATAGTATT
1 TTATTTTTATAAAATAATAATAGTATG
17752519 TTATTTTT-TAAAAT-ATAATTA-TATG
1 TTATTTTTATAAAATAATAA-TAGTATG
17752544 TTATTTT
1 TTATTTT
17752551 ACTACTCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 14 0.48
26 7 0.24
27 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (27 bp):
TTATTTTTATAAAATAATAATAGTATG
Found at i:17752682 original size:45 final size:47
Alignment explanation
Indices: 17752616--17752706 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 47
17752606 CATTTTAACC
*
17752616 TACTAAATAATTAACTAAATTACATAGTATTTATTATAAATTATTTA
1 TACTAAATAATTAACTAAATTACATAGTACTTATTATAAATTATTTA
*
17752663 TACTAAAT-A-TAACTAAATTACATAGTACTTATTATTAATTATTT
1 TACTAAATAATTAACTAAATTACATAGTACTTATTATAAATTATTT
17752707 GTATTTGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 33 0.79
46 1 0.02
47 8 0.19
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (47 bp):
TACTAAATAATTAACTAAATTACATAGTACTTATTATAAATTATTTA
Found at i:17758429 original size:6 final size:7
Alignment explanation
Indices: 17758412--17758437 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17758402 TATGCTCTCT
17758412 TTTTTTC
1 TTTTTTC
17758419 TTTTTTC
1 TTTTTTC
17758426 TTTTTTC
1 TTTTTTC
17758433 TTTTT
1 TTTTT
17758438 AATGAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:17762024 original size:18 final size:19
Alignment explanation
Indices: 17761986--17762026 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17761976 CCGGAAAATG
17761986 AATAATTATGTTTATTAAA
1 AATAATTATGTTTATTAAA
*
17762005 AATAATTTAT-TTTATAAAA
1 AATAA-TTATGTTTATTAAA
17762024 AAT
1 AAT
17762027 GCAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATAATTATGTTTATTAAA
Found at i:17765135 original size:265 final size:265
Alignment explanation
Indices: 17764662--17765192 Score: 1053
Period size: 265 Copynumber: 2.0 Consensus size: 265
17764652 GACGATATTA
17764662 TTAGATGGTGCCTTTCAGATGAATAACGAGGTGTCAGCACTGATATGTAATGTAACTATGTGGTT
1 TTAGATGGTGCCTTTCAGATGAATAACGAGGTGTCAGCACTGATATGTAATGTAACTATGTGGTT
*
17764727 TGCATGCAATCCAAACATGGAAACAAACCAGTGTAACTGGGGAGGGAGAAAAAAAGGCACTTCGT
66 TGCATGCAATCCAAACATGGAAACAAACCAGTGTAACTAGGGAGGGAGAAAAAAAGGCACTTCGT
17764792 CGTACAGTGAGGAAATCTTTATTACTTTCTTCCCTAACGAGCCCATGCCCATACACATAACAAGA
131 CGTACAGTGAGGAAATCTTTATTACTTTCTTCCCTAACGAGCCCATGCCCATACACATAACAAGA
17764857 GCTTCAAATTGGATATTGACATGAAGATATGAACATATGAAACTCCAAATATAAGTTAAAATTTA
196 GCTTCAAATTGGATATTGACATGAAGATATGAACATATGAAACTCCAAATATAAGTTAAAATTTA
17764922 CTAGT
261 CTAGT
17764927 TTAGATGGTGCCTTTCAGATGAATAACGAGGTGTCAGCACTGATATGTAATGTAACTATGTGGTT
1 TTAGATGGTGCCTTTCAGATGAATAACGAGGTGTCAGCACTGATATGTAATGTAACTATGTGGTT
17764992 TGCATGCAATCCAAACATGGAAACAAACCAGTGTAACTAGGGAGGGAGAAAAAAAGGCACTTCGT
66 TGCATGCAATCCAAACATGGAAACAAACCAGTGTAACTAGGGAGGGAGAAAAAAAGGCACTTCGT
17765057 CGTACAGTGAGGAAATCTTTATTACTTTCTTCCCTAACGAGCCCATGCCCATACACATAACAAGA
131 CGTACAGTGAGGAAATCTTTATTACTTTCTTCCCTAACGAGCCCATGCCCATACACATAACAAGA
17765122 GCTTCAAATTGGATATTGACATGAAGATATGAACATATGAAACTCCAAATATAAGTTAAAATTTA
196 GCTTCAAATTGGATATTGACATGAAGATATGAACATATGAAACTCCAAATATAAGTTAAAATTTA
17765187 CTAGT
261 CTAGT
17765192 T
1 T
17765193 AGAAGGACCA
Statistics
Matches: 265, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 265 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (265 bp):
TTAGATGGTGCCTTTCAGATGAATAACGAGGTGTCAGCACTGATATGTAATGTAACTATGTGGTT
TGCATGCAATCCAAACATGGAAACAAACCAGTGTAACTAGGGAGGGAGAAAAAAAGGCACTTCGT
CGTACAGTGAGGAAATCTTTATTACTTTCTTCCCTAACGAGCCCATGCCCATACACATAACAAGA
GCTTCAAATTGGATATTGACATGAAGATATGAACATATGAAACTCCAAATATAAGTTAAAATTTA
CTAGT
Found at i:17771083 original size:5 final size:5
Alignment explanation
Indices: 17771069--17771108 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
17771059 CTTTCTTTCA
17771069 CCTT- CCTTC CCTTCC CCTTC CCTTC CCTTC CCTTC CCTTC
1 CCTTC CCTTC CCTT-C CCTTC CCTTC CCTTC CCTTC CCTTC
17771109 TTTTTCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CCTTC
Found at i:17772033 original size:157 final size:157
Alignment explanation
Indices: 17771747--17772062 Score: 578
Period size: 157 Copynumber: 2.0 Consensus size: 157
17771737 CAGTTGAGTA
17771747 ATCTAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATT
1 ATCTAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATT
17771812 TGCTTCATTCACAAATATTTCCTCAAAGAACATGATTGCATCTCAATTCAATGCTTTTGAAGGCA
66 TGCTTCATTCACAAATATTTCCTCAAAGAACATGATTGCATCTCAATTCAATGCTTTTGAAGGCA
17771877 AACAAAAGTCCAGAACATTACAATGTC
131 AACAAAAGTCCAGAACATTACAATGTC
* *
17771904 ATCTAAAGAGCACATCTAACCAAACTAAATGATGCAGAGAATGATACGACAATTACCACATAATT
1 ATCTAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATT
*
17771969 TGCTTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAATTCAATGCTTTTGAAGGCA
66 TGCTTCATTCACAAATATTTCCTCAAAGAACATGATTGCATCTCAATTCAATGCTTTTGAAGGCA
* * *
17772034 AACAAAAGTCCAGATCATTGCATTGTC
131 AACAAAAGTCCAGAACATTACAATGTC
17772061 AT
1 AT
17772063 TTCCAAAAAT
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (157 bp):
ATCTAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATT
TGCTTCATTCACAAATATTTCCTCAAAGAACATGATTGCATCTCAATTCAATGCTTTTGAAGGCA
AACAAAAGTCCAGAACATTACAATGTC
Found at i:17775977 original size:41 final size:41
Alignment explanation
Indices: 17775919--17775996 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
17775909 TAATTTTTTT
*
17775919 TCTTTTATATTCTTTTAACTTTATTTTTTAT-TATTTTCCTC
1 TCTTTTATATTCTTTTAAC-GTATTTTTTATATATTTTCCTC
* *
17775960 TCTTTTCTATT-TCTTTAACGTATTTTTTCTATATTTT
1 TCTTTTATATTCT-TTTAACGTATTTTTTATATATTTT
17775997 TTATTTGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 10 0.31
41 22 0.69
ACGTcount: A:0.17, C:0.14, G:0.01, T:0.68
Consensus pattern (41 bp):
TCTTTTATATTCTTTTAACGTATTTTTTATATATTTTCCTC
Found at i:17776042 original size:27 final size:29
Alignment explanation
Indices: 17775988--17776042 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
17775978 CGTATTTTTT
17775988 CTATATTTTTTATTTGTTAAAACTAATTC
1 CTATATTTTTTATTTGTTAAAACTAATTC
*
17776017 CTATA-TTTTTATTTTTTAAAAC-AATT
1 CTATATTTTTTATTTGTTAAAACTAATT
17776043 TAATTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 16 0.64
29 5 0.20
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (29 bp):
CTATATTTTTTATTTGTTAAAACTAATTC
Found at i:17781387 original size:11 final size:11
Alignment explanation
Indices: 17781371--17781416 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
17781361 TTTCAATGAT
17781371 TTTTATTTTTA
1 TTTTATTTTTA
*
17781382 TTTTATTTTGA
1 TTTTATTTTTA
*
17781393 CTTTTGTTTTTA
1 -TTTTATTTTTA
*
17781405 TTTTCTTTTTA
1 TTTTATTTTTA
17781416 T
1 T
17781417 AGCATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:17788296 original size:12 final size:12
Alignment explanation
Indices: 17788279--17788313 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17788269 ACCACACAGG
*
17788279 CGTGTGGTCGCC
1 CGTGTGGTCGAC
17788291 CGTGTGGTCGAC
1 CGTGTGGTCGAC
*
17788303 CGTGTGATCGA
1 CGTGTGGTCGA
17788314 ACATGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.40, T:0.26
Consensus pattern (12 bp):
CGTGTGGTCGAC
Found at i:17823401 original size:18 final size:18
Alignment explanation
Indices: 17823378--17823420 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17823368 CTGCTTATAT
17823378 ATGTATACATGTAC-ATAC
1 ATGTATACAT-TACAATAC
* *
17823396 ATGTATATATTTCAATAC
1 ATGTATACATTACAATAC
17823414 ATGTATA
1 ATGTATA
17823421 TATAAGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (18 bp):
ATGTATACATTACAATAC
Found at i:17824910 original size:17 final size:17
Alignment explanation
Indices: 17824860--17824912 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
17824850 CAGAAAATTG
* *
17824860 TTTTTCAAAATATAATTA
1 TTTTTAAAAAAAT-ATTA
*
17824878 TTTTTAATACATAATATTA
1 TTTTTAA-A-AAAATATTA
17824897 TTTTTAAAAAAATATT
1 TTTTTAAAAAAATATT
17824913 TTCTCCTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 12 0.41
20 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTAAAAAAATATTA
Found at i:17837703 original size:73 final size:77
Alignment explanation
Indices: 17837621--17837809 Score: 314
Period size: 80 Copynumber: 2.5 Consensus size: 77
17837611 ACAACTTGAC
17837621 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTT-AAAATAAAT-CA-C-CACCTA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAAATAAATCCACCACACCTA
17837682 CTACCACTAACA
66 CTACCACTAACA
17837694 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAAATAAATCACCACCTACAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAAATAAAT--CCACC-ACAC
17837759 CTACTACCACTAACA
63 CTACTACCACTAACA
*
17837774 AACTTAGTTGGAATACAACTAAGTTACATCATTACA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACA
17837810 CCCAAATAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
73 43 0.40
74 9 0.08
77 2 0.02
78 1 0.01
80 53 0.49
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (77 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAAATAAATCCACCACACCTA
CTACCACTAACA
Found at i:17837822 original size:3 final size:3
Alignment explanation
Indices: 17837814--17837842 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17837804 ATTACACCCA
17837814 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17837843 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17842141 original size:73 final size:77
Alignment explanation
Indices: 17842059--17842247 Score: 314
Period size: 80 Copynumber: 2.5 Consensus size: 77
17842049 ACAACTTGAC
17842059 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAA-ATAAAT-CA-C-CACCTA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAGATAAATCCACCACACCTA
17842120 CTACCACTAACA
66 CTACCACTAACA
17842132 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAGATAAATCACCACCTACAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAGATAAAT--CCACC-ACAC
17842197 CTACTACCACTAACA
63 CTACTACCACTAACA
*
17842212 AACTTAGTTGGAATACAACTAAGTTACATCATTACA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACA
17842248 CCCAAATAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
73 46 0.43
74 6 0.06
77 2 0.02
78 1 0.01
80 53 0.49
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.28
Consensus pattern (77 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAGATAAATCCACCACACCTA
CTACCACTAACA
Found at i:17842260 original size:3 final size:3
Alignment explanation
Indices: 17842252--17842283 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17842242 ATTACACCCA
17842252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17842284 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17848122 original size:19 final size:19
Alignment explanation
Indices: 17848098--17848172 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
17848088 AATCTTCGAG
* *
17848098 GATATGTAATTTTAGATAT
1 GATATGCAATCTTAGATAT
17848117 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17848136 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
17848157 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
17848173 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.63
21 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17848144 original size:21 final size:21
Alignment explanation
Indices: 17848099--17848161 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
17848089 ATCTTCGAGG
* *
17848099 ATATGTAATTTTAGATATG--
1 ATATGCAATCTTAGATATGAT
17848118 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
17848139 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
17848160 AT
1 AT
17848162 GTAATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 17 0.43
21 23 0.57
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:17848191 original size:23 final size:22
Alignment explanation
Indices: 17848111--17848195 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
17848101 ATGTAATTTT
*
17848111 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
17848132 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
17848151 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
17848173 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
17848196 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:17848205 original size:22 final size:23
Alignment explanation
Indices: 17848161--17848205 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17848151 AGATATGATA
*
17848161 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
17848184 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
17848206 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:17853737 original size:44 final size:45
Alignment explanation
Indices: 17853689--17853947 Score: 266
Period size: 44 Copynumber: 5.9 Consensus size: 45
17853679 GTGAAAAAGT
* * *
17853689 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* *
17853733 AGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
17853776 AGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
17853821 AGATCTTGTCTTCATGTATTGG-CGTGAAGTTGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
17853865 AGATCCTATCTTCCTATATTGGTAG-GAAGTTGATCGAAGAT-GT
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
17853908 AGATCTTATC-TCCT-TA-AGCAGTAGTGAAGCAGATCGAAGA
1 AGATCTTGTCTTCCTATATTG--GTAGTGAAGTAGATCGAAGA
17853948 CGGCAAATCT
Statistics
Matches: 182, Mismatches: 26, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 8 0.04
43 47 0.26
44 101 0.55
45 23 0.13
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
Found at i:17854063 original size:132 final size:132
Alignment explanation
Indices: 17853900--17854393 Score: 837
Period size: 132 Copynumber: 3.8 Consensus size: 132
17853890 GAAGTTGATC
* * *
17853900 GAAGA-TGTAGATCTTATCTCCTTAAGCAGTAGTGAAGCAGATCGAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
17853964 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAACAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
17854029 TT
131 TT
* *
17854031 AAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
17854096 TCCAAGATAGTGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
17854161 TT
131 TT
*
17854163 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
17854228 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
17854293 TT
131 TT
* * * *
17854295 GAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGAAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
17854360 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
17854394 ATCCTATCTC
Statistics
Matches: 340, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 4 0.01
132 336 0.99
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
TT
Found at i:17854071 original size:44 final size:44
Alignment explanation
Indices: 17854021--17854211 Score: 131
Period size: 44 Copynumber: 4.3 Consensus size: 44
17854011 GAGCAACAGC
*
17854021 GGAGTAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGATTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* ** * * *
17854065 GGAGTAGATCAAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGT
1 GGAGTAGATTAAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT
* *** * * * *
17854107 GGGAAGTAGATTTAAGCCA-CCAAG-CCTTGTCTCCCTAAGCAGCAGC
1 -GG-AGTAGATTAAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
17854153 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGATTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
17854197 GGAGCAGATCAAAGA
1 GGAGTAGATTAAAGA
17854212 CGACAAATCT
Statistics
Matches: 106, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
42 5 0.05
43 8 0.08
44 83 0.78
45 7 0.07
46 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
GGAGTAGATTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
Found at i:17854222 original size:44 final size:44
Alignment explanation
Indices: 17854042--17854358 Score: 150
Period size: 44 Copynumber: 7.2 Consensus size: 44
17854032 AAGATTGTAG
* * *
17854042 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACAA
* * * *
17854086 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGACGA-CAA
** * * * * * * * * *
17854130 GCCTTGTCTCCCTAAGCAGCAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGA-CGACAA
*
17854174 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACAA
* * *
17854218 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGACGACAA
* * * * * * * * ** * *
17854261 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACAA
* *
17854306 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC-GACAA
17854350 ATCTTATCT
1 ATCTTATCT
17854359 TTCCAAGATA
Statistics
Matches: 195, Mismatches: 59, Indels: 38
0.67 0.20 0.13
Matches are distributed among these distances:
42 8 0.04
43 20 0.10
44 147 0.75
45 16 0.08
46 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACAA
Found at i:17854446 original size:264 final size:263
Alignment explanation
Indices: 17853912--17854447 Score: 790
Period size: 264 Copynumber: 2.0 Consensus size: 263
17853902 AGATGTAGAT
* * *
17853912 CTTATCTCCTTAAGCAGTAGTGAAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
* * * *
17853977 GAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAACAGCGGAGTAGGTTAAAGATTGTAG
66 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGGTTAAAGATTATAG
* * * *
17854042 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGT
131 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGAAAATCTTATCTTTCCAAGATAGT
* * * *
17854107 GGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGTAGGTTGAAGATTGT
196 GGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTCAACATTG-
*
17854172 AGAT
260 AGAA
*
17854176 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
* *
17854241 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAG
66 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGGTTAAAGATTATAG
17854306 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGAAAATCTTATCTTTCCAAGATAGT
131 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGAAAATCTTATCTTTCCAAGATAGT
* ** * *
17854371 GGGAAGCAGATTTAAGCCACCAAATCC-TATCTCCCTGAAGTTGCAGCGGAG-CGGATTACAACC
196 GGGAAGCAGATTTAAGCCACC-AAGCCTTATCTCCCT-AAGCAGCAGCGGAGTAGG-TT-CAACA
17854434 TTG-GAA
257 TTGAGAA
17854440 CTTATCTC
1 CTTATCTC
17854448 TCTGAATTTG
Statistics
Matches: 244, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
264 221 0.91
265 18 0.07
266 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (263 bp):
CTTATCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGGTTAAAGATTATAG
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACAGAAAATCTTATCTTTCCAAGATAGT
GGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTCAACATTGA
GAA
Found at i:17854927 original size:19 final size:19
Alignment explanation
Indices: 17854903--17854979 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
17854893 AATCTTCGAG
17854903 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
17854922 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
17854941 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
17854963 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
17854980 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 30 0.59
20 3 0.06
22 8 0.16
23 10 0.20
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:17854989 original size:22 final size:23
Alignment explanation
Indices: 17854945--17854989 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17854935 AGATATGATA
*
17854945 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
17854968 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
17854990 GTACATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:17857564 original size:44 final size:44
Alignment explanation
Indices: 17857514--17857671 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 44
17857504 GCTTGAATCA
* **
17857514 GCTCCACTATAACTTCAGGGAGATAGGA-TTAGTAGCTTCAGTAT
1 GCTCCACTATAACTTCAGGGAGATAAGACTT-GTAGCTTCAACAT
* * * * *
17857558 GCTCCACTACAAGTTTAGGGAGATAAGACTTGTATCTTCAACCT
1 GCTCCACTATAACTTCAGGGAGATAAGACTTGTAGCTTCAACAT
* * * *
17857602 GCTCCACTGTAACTTCAAGGAGATAAGACTTATTG-TTCCAACAT
1 GCTCCACTATAACTTCAGGGAGATAAGACTTGTAGCTT-CAACAT
** *
17857646 GCTCCACT-GCACTACAGGGAGATAAG
1 GCTCCACTATAACTTCAGGGAGATAAG
17857672 GTTCGATTTG
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
43 16 0.18
44 73 0.80
45 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
GCTCCACTATAACTTCAGGGAGATAAGACTTGTAGCTTCAACAT
Found at i:17857850 original size:41 final size:41
Alignment explanation
Indices: 17857758--17857915 Score: 129
Period size: 41 Copynumber: 3.7 Consensus size: 41
17857748 TTAATTCAAC
* ** *
17857758 CTACTGCAACTTCAGAG-GTATAGGATTCATTATTTTGATCCGCT
1 CTACTGCAACTTCAGAGAG-ATAAGA--C-TTATCGTGATCTGCT
* *
17857802 CCACTGCAACTTCAGGGAGATAAGACTTATCGTGATCTGCT
1 CTACTGCAACTTCAGAGAGATAAGACTTATCGTGATCTGCT
* * **
17857843 CTACTGCAACTTCAGAGAGATAAGATCTGCTATCTTCAATCTATT
1 CTACTGCAACTTCAGAGAGATAAGA-CT--TATCGT-GATCTGCT
* *
17857888 CTACTGCAACCTCAGTGAGATAAGACTT
1 CTACTGCAACTTCAGAGAGATAAGACTT
17857916 GTAGCTTCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 35 0.37
42 4 0.04
44 27 0.28
45 29 0.31
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (41 bp):
CTACTGCAACTTCAGAGAGATAAGACTTATCGTGATCTGCT
Found at i:17858012 original size:44 final size:46
Alignment explanation
Indices: 17857944--17858066 Score: 125
Period size: 44 Copynumber: 2.8 Consensus size: 46
17857934 GATGCGATCT
* * * *
17857944 GCTCTACTGCAACTT-TGGAGAGATAAGATCTA-T-CCTTTTAATCC
1 GCTCCACTGCAACTTCAGGAGAGATAAGATCTAGTAAC-TTCAATCC
* * *
17857988 GCTTCACTGCAACTTCAGGA-AGATAGGA-CTAGTAACTTCAATCT
1 GCTCCACTGCAACTTCAGGAGAGATAAGATCTAGTAACTTCAATCC
17858032 GCTCCACTGCAACTTCA-GAGAGATAAGATCT-GTAA
1 GCTCCACTGCAACTTCAGGAGAGATAAGATCTAGTAA
17858067 TTTATAGCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.08
44 54 0.83
45 6 0.09
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (46 bp):
GCTCCACTGCAACTTCAGGAGAGATAAGATCTAGTAACTTCAATCC
Found at i:17858265 original size:181 final size:181
Alignment explanation
Indices: 17858041--17858519 Score: 631
Period size: 181 Copynumber: 2.6 Consensus size: 181
17858031 TGCTCCACTG
* **
17858041 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCCTT-AATCTGTTCCACTGCAACTTCAGAAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAG-CTTCAATCTGTTCCACTGCAACTTCAGGGAA
* * *
17858105 ATAAGATTTGCTATTTTCAGTCTGCTCTACTGTAACTTCAGGGAGATAAGACTCATAATTTCAAC
65 ATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCATAATTTCAAC
* * *
17858170 CTGCCGCACTACAACTTT-AGGGAGATGAGGTTTGATATGATCTACTCTACTA
130 CTGCCCCACTACAA-TTTCAGGGAGATAAAGTTTGATATGATCTACTCTACTA
* * * *
17858222 TAACTTCAGAGAGATAGGATCGGTATTTTATAGCTTCAATCTGTTTCACTGCAACTTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
* * * *
17858287 TAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGTAATTTCAACC
66 TAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCATAATTTCAACC
** * *
17858352 TGCCCCACTGTAATTTCAGGGAGATAAAGTTTGATATGATCTGCTCTACTG
131 TGCCCCACTACAATTTCAGGGAGATAAAGTTTGATATGATCTACTCTACTA
* *
17858403 CAACTTCAAAGAGATAAGATCGGTAATTTATATCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
* * * * *
17858468 TAAGGTTTGATAAGATCTGT-AGTCTACTCCACTGTAACTTCAAGGAGATAAG
66 TAAGATTTGCT---ATCT-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
17858520 GCTGGTGCTT
Statistics
Matches: 257, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
180 6 0.02
181 219 0.85
184 31 0.12
185 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (181 bp):
CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCATAATTTCAACC
TGCCCCACTACAATTTCAGGGAGATAAAGTTTGATATGATCTACTCTACTA
Found at i:17860240 original size:57 final size:55
Alignment explanation
Indices: 17860141--17860250 Score: 130
Period size: 57 Copynumber: 2.0 Consensus size: 55
17860131 TTTCTTTTTC
* * *
17860141 TTCTTTTTCCTTTTTTTTGACTCAAAGTGCTCTTTGAAGGTTTTCACTTTGGTCT
1 TTCTTTTTCCTTTTTTTTGACTCAAAGCGCCCTTTGAAGGTTTTCACCTTGGTCT
* * ** *
17860196 TTCTTTTTTCTTTTTTTTAGGACTCAATGCGCCCTTTGCTGGTTTTTACCTTGGT
1 TTCTTTTTCCTTTTTTTT--GACTCAAAGCGCCCTTTGAAGGTTTTCACCTTGGT
17860251 TTCTTCCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
55 17 0.38
57 28 0.62
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (55 bp):
TTCTTTTTCCTTTTTTTTGACTCAAAGCGCCCTTTGAAGGTTTTCACCTTGGTCT
Found at i:17868654 original size:12 final size:12
Alignment explanation
Indices: 17868636--17868670 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17868626 GTAGGTTTCC
17868636 AAAAATGGAAAT
1 AAAAATGGAAAT
* *
17868648 GAAAATGAAAAT
1 AAAAATGGAAAT
17868660 AAAAATGGAAA
1 AAAAATGGAAA
17868671 CTTGCAATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
AAAAATGGAAAT
Found at i:17875849 original size:28 final size:29
Alignment explanation
Indices: 17875817--17875882 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
17875807 GCCCTTGATT
17875817 TAAAAATTATATAA-AAAATTAAA-ATCAA
1 TAAAAATTATA-AATAAAATTAAATATCAA
* ** *
17875845 TAAAAACTATAAATATTATTAAATATTAA
1 TAAAAATTATAAATAAAATTAAATATCAA
17875874 TAAAAATTA
1 TAAAAATTA
17875883 GAAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.06
28 17 0.55
29 12 0.39
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
TAAAAATTATAAATAAAATTAAATATCAA
Found at i:17875897 original size:9 final size:9
Alignment explanation
Indices: 17875817--17875916 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
17875807 GCCCTTGATT
17875817 TAAAAATTA
1 TAAAAATTA
*
17875826 TATAAAA-AA
1 TA-AAAATTA
* *
17875835 TTAAAATCAA
1 TAAAAAT-TA
*
17875845 TAAAAACTA
1 TAAAAATTA
*
17875854 TAAATATTA
1 TAAAAATTA
*
17875863 TTAAATATTAA
1 -TAAAAATT-A
17875874 TAAAAATTA
1 TAAAAATTA
*
17875883 GAAAAAATTA
1 -TAAAAATTA
17875893 TAAAAATCGTA
1 TAAAAAT--TA
17875904 -AAAAATTA
1 TAAAAATTA
17875912 TAAAA
1 TAAAA
17875917 TTTTATAAAG
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
8 6 0.08
9 23 0.32
10 40 0.56
11 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17875897 original size:19 final size:19
Alignment explanation
Indices: 17875873--17875916 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
17875863 TTAAATATTA
17875873 ATAAAAATTAG-AAAAAATT
1 ATAAAAA-TAGTAAAAAATT
*
17875892 ATAAAAATCGTAAAAAATT
1 ATAAAAATAGTAAAAAATT
17875911 ATAAAA
1 ATAAAA
17875917 TTTTATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (19 bp):
ATAAAAATAGTAAAAAATT
Found at i:17876202 original size:19 final size:20
Alignment explanation
Indices: 17876168--17876214 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17876158 TTTTGATCCA
* **
17876168 TTTTATAATTTTTTTATGAT
1 TTTTATAATTATTTTACAAT
17876188 TTTTATAA-TATTTTACAAT
1 TTTTATAATTATTTTACAAT
17876207 TTTTATAA
1 TTTTATAA
17876215 AAAAAATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATAATTATTTTACAAT
Found at i:17876656 original size:22 final size:22
Alignment explanation
Indices: 17876615--17876664 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17876605 AATGAGAGAA
* *
17876615 AAGG-AAAAGAGAAGGGAA-GG
1 AAGGAAAAAGAGAAAGAAAGGG
17876635 AATGGAAAAAGAGAAAGAAAGGG
1 AA-GGAAAAAGAGAAAGAAAGGG
17876658 AAGGAAA
1 AAGGAAA
17876665 GAAAAAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 17 0.68
23 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (22 bp):
AAGGAAAAAGAGAAAGAAAGGG
Found at i:17876656 original size:27 final size:27
Alignment explanation
Indices: 17876603--17876680 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 27
17876593 TGGATGGATG
17876603 GGAATGAGAGAAAAGGAAAAGAGAAGGGAA
1 GGAATG-GA-AAAAGG-AAAGAGAAGGGAA
17876633 GGAATGGAAAAAGAGAAAGA-AAGGGAA
1 GGAATGGAAAAAG-GAAAGAGAAGGGAA
* *
17876660 GGAA-AGAAAAAGGAAAAAGAA
1 GGAATGGAAAAAGGAAAGAGAA
17876681 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.11
26 9 0.20
27 11 0.25
28 10 0.23
29 3 0.07
30 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (27 bp):
GGAATGGAAAAAGGAAAGAGAAGGGAA
Found at i:17877270 original size:21 final size:21
Alignment explanation
Indices: 17877246--17877310 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
17877236 TAATATATTT
17877246 TAATTTTTGATAAAAATAAAA
1 TAATTTTTGATAAAAATAAAA
* **
17877267 TAATTTTAG-T-TTAATAAAA
1 TAATTTTTGATAAAAATAAAA
* *
17877286 TTAATTTTTAATAAATATAAAA
1 -TAATTTTTGATAAAAATAAAA
17877308 TAA
1 TAA
17877311 AATAAATTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 12 0.36
22 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
TAATTTTTGATAAAAATAAAA
Found at i:17887121 original size:21 final size:22
Alignment explanation
Indices: 17887095--17887141 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
17887085 CTCTGCTCAA
* *
17887095 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGATGCGAAGTACT
17887116 ACTCCACCTGATGCGAAGTACT
1 ACTCCACCTGATGCGAAGTACT
17887138 ACTC
1 ACTC
17887142 ACTCATTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGATGCGAAGTACT
Found at i:17890231 original size:86 final size:86
Alignment explanation
Indices: 17890089--17890347 Score: 351
Period size: 87 Copynumber: 3.0 Consensus size: 86
17890079 GTCGCTATAG
* *
17890089 AACATGACCTTTAGCGGCGCTTTTATAATAAACGTCGCTAAAGAACATGACCTTTAACGACA-TT
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGTCGCTAAAGAACATGACCTTTAACGACACTT
17890153 TTACCAACAAACGCCGCTAAAA
66 TTACC-ACAAACGCCGCTAAAA
* * **
17890175 AACATGACCTTAAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATATTTAACGACACTT
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGTCGCTAAAGAACATGACCTTTAACGACACTT
**
17890240 TTAACC-CAAACGTTGCTAAAAA
66 TT-ACCACAAACGCCGCT-AAAA
* * * *
17890262 AACATGATCTTTAGCGGTGCTTTTATCACAAACGTCGCTAAAGAGCATGACCTTTAGCGACACTT
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGTCGCTAAAGAACATGACCTTTAACGACACTT
* *
17890327 TTATCACAAACTCCGCTAAAA
66 TTACCACAAACGCCGCTAAAA
17890348 GTACCGTTCT
Statistics
Matches: 149, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
86 71 0.48
87 75 0.50
88 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (86 bp):
AACATGACCTTTAGCGGCGCTTTTATCACAAACGTCGCTAAAGAACATGACCTTTAACGACACTT
TTACCACAAACGCCGCTAAAA
Found at i:17890285 original size:44 final size:43
Alignment explanation
Indices: 17890076--17890347 Score: 260
Period size: 43 Copynumber: 6.3 Consensus size: 43
17890066 TGCTATAGAC
* * * *
17890076 AACGTCGCTATAGAACATGACCTTTAGCGGCGCTTTTATAATA
1 AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCACA
* * * * *
17890119 AACGTCGCTAAAGAACATGACCTTTAACGAC-ATTTTACCAACA
1 AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATC-ACA
* *
17890162 AACGCCGCTAAAAAACATGACCTTAAGCGGCGCTTTTATCACA
1 AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCACA
* * ** * * * * *
17890205 AACGCCGCTAAAGAACATGATATTTAACGACACTTTTAACCCA
1 AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCACA
* * *
17890248 AACGTTGCTAAAAAAACATGATCTTTAGCGGTGCTTTTATCACA
1 AACGTCGCT-AAAAAACATGACCTTTAGCGGCGCTTTTATCACA
* * * *
17890292 AACGTCGCTAAAGAGCATGACCTTTAGCGACACTTTTATCACA
1 AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCACA
17890335 AAC-TCCGCTAAAA
1 AACGT-CGCTAAAA
17890348 GTACCGTTCT
Statistics
Matches: 184, Mismatches: 41, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
42 6 0.03
43 138 0.75
44 40 0.22
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (43 bp):
AACGTCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCACA
Found at i:17896147 original size:13 final size:13
Alignment explanation
Indices: 17896129--17896155 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17896119 CCACCTTAGA
17896129 AATCCAACCATAT
1 AATCCAACCATAT
17896142 AATCCAACCATAT
1 AATCCAACCATAT
17896155 A
1 A
17896156 CTTTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
AATCCAACCATAT
Found at i:17897036 original size:16 final size:16
Alignment explanation
Indices: 17897015--17897060 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17897005 TTATTAAATT
17897015 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
17897031 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
17897046 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
17897061 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:17897069 original size:107 final size:108
Alignment explanation
Indices: 17896955--17897165 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
17896945 TATAGTATTA
* * *
17896955 TATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
17897020 TTTTAATTATAATATATTTAATAATAATTATG-TTAAATTATC
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
17897062 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
17897127 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
17897166 ATGATTAAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 94 0.94
108 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (108 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
Found at i:17897143 original size:16 final size:16
Alignment explanation
Indices: 17897122--17897163 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17897112 TTATTAAATT
*
17897122 ATATATTTTAATTATA
1 ATATATTTTAATAATA
17897138 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
17897153 AT-TATGTTTAA
1 ATATAT-TTTAA
17897164 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:17897148 original size:15 final size:15
Alignment explanation
Indices: 17897113--17897154 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17897103 TTAAGAATTT
*
17897113 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17897127 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17897141 TATTTAATAATAAT
1 TATTTAATTATAAT
17897155 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17897314 original size:16 final size:16
Alignment explanation
Indices: 17897293--17897326 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17897283 CCATTATGCT
*
17897293 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
17897309 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
17897325 AT
1 AT
17897327 AGAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:17898354 original size:14 final size:14
Alignment explanation
Indices: 17898301--17898460 Score: 81
Period size: 14 Copynumber: 11.2 Consensus size: 14
17898291 CTAATTAATC
*
17898301 TAAACCCTAAACCCC
1 TAAACCCTAAA-CCA
**
17898316 TATCCCCTAAACCA
1 TAAACCCTAAACCA
* * *
17898330 TAAATCATAAAACA
1 TAAACCCTAAACCA
*
17898344 TAAACCCTAAACCC
1 TAAACCCTAAACCA
* *
17898358 TAAACCCCTAAATCT
1 TAAA-CCCTAAACCA
* *
17898373 TAAACCCTAACCCT
1 TAAACCCTAAACCA
* *
17898387 TAAACCATAATCCA
1 TAAACCCTAAACCA
*
17898401 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* **
17898413 TAGTAACTCATAAACTT
1 TA--AAC-CCTAAACCA
*
17898430 TAAACCCTAAACTA
1 TAAACCCTAAACCA
* *
17898444 TATACCCTAAACTA
1 TAAACCCTAAACCA
17898458 TAA
1 TAA
17898461 TGATAATTAA
Statistics
Matches: 112, Mismatches: 27, Indels: 13
0.74 0.18 0.09
Matches are distributed among these distances:
12 3 0.03
14 78 0.70
15 29 0.26
17 2 0.02
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:17898368 original size:8 final size:7
Alignment explanation
Indices: 17898300--17898411 Score: 73
Period size: 7 Copynumber: 15.7 Consensus size: 7
17898290 ACTAATTAAT
17898300 CTAAACC
1 CTAAACC
17898307 CTAAACCC
1 CTAAA-CC
**
17898315 CTATCCC
1 CTAAACC
17898322 CTAAACC
1 CTAAACC
* *
17898329 ATAAATC
1 CTAAACC
* *
17898336 ATAAAAC
1 CTAAACC
*
17898343 ATAAACC
1 CTAAACC
17898350 CTAAACC
1 CTAAACC
17898357 CTAAACCC
1 CTAAA-CC
*
17898365 CTAAATC
1 CTAAACC
*
17898372 TTAAACC
1 CTAAACC
17898379 CT-AACC
1 CTAAACC
17898385 CTTAAACC
1 C-TAAACC
* *
17898393 ATAATCC
1 CTAAACC
*
17898400 ATAAACC
1 CTAAACC
*
17898407 TTAAA
1 CTAAA
17898412 ATAGTAACTC
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
6 5 0.06
7 63 0.75
8 16 0.19
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:17898396 original size:50 final size:50
Alignment explanation
Indices: 17898301--17898411 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 50
17898291 CTAATTAATC
** *
17898301 TAAACCCTAAACCCCTATCCCCTAAACCATAAATCATAAAACATAAACCC
1 TAAACCCTAAACCCCTAAACCCTAAACCATAAACCATAAAACATAAACCC
* * * * * * * *
17898351 TAAACCCTAAACCCCTAAATCTTAAACCCTAACCCTTAAACCATAATCCA
1 TAAACCCTAAACCCCTAAACCCTAAACCATAAACCATAAAACATAAACCC
*
17898401 TAAACCTTAAA
1 TAAACCCTAAA
17898412 ATAGTAACTC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (50 bp):
TAAACCCTAAACCCCTAAACCCTAAACCATAAACCATAAAACATAAACCC
Found at i:17898930 original size:40 final size:40
Alignment explanation
Indices: 17898875--17898979 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
17898865 TTTTTTGTGG
* *
17898875 CGTTTTTCAAAAAGCGCTGCTAATGATCGATCTATAGCGA
1 CGTTTTTCAAAAAGCGCTGCTAATGATCAATCAATAGCGA
* * * *
17898915 CGTTTTTTAAAAAGCGCCGCTAATGCTCAATCAATAGCGG
1 CGTTTTTCAAAAAGCGCTGCTAATGATCAATCAATAGCGA
* *
17898955 CATTTTTGAAAAAGCGCTGCTAATG
1 CGTTTTTCAAAAAGCGCTGCTAATG
17898980 CCACTAAAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCTGCTAATGATCAATCAATAGCGA
Found at i:17898952 original size:147 final size:145
Alignment explanation
Indices: 17898767--17899243 Score: 589
Period size: 147 Copynumber: 3.2 Consensus size: 145
17898757 GTTTTTTGCG
* * * *
17898767 GCGTTTTTGATAAAGCGCCGCTAAAGCTCAATCTATAGCGGCATTTTTCAAAAAGCATCGCTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGC-CCGCTAAT
* *
17898832 GCCATTAAAGCTCAACACGGCGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCTGCTA
65 GCCACTAAAGCTCAACACGGCGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCCGCTA
*
17898897 ATGATCGATCTATAGC
130 ATGCTCGATCTATAGC
* * * *
17898913 GACGTTTTTTAAAAAGCGCCGCTAATGCTCAATCAATAGCGGCATTTTTGAAAAAGCGCTGCTAA
1 G-CGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGC-CCGCTAA
* *
17898978 TGCCACTAAAGCTCAACACGATTGTGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAAGCAC
64 TGCCACTAAAGCTCAACACG---GCGTTGTGCTTAACTTTTTTGTGGCGTTTTTC-AAAAAGCGC
* * *
17899043 CGCTAGTGCTCGATTTATAGT
125 CGCTAATGCTCGATCTATAGC
* *
17899064 G-GCTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGC-CCGCTAAT
* * *
17899128 GCCACTAAAGCTCAACATAAAATAACGGCATTGTGCTTAA-TTTTTTGCGGCGATTTTCAAAAAG
65 GCCACTAAAGCTCAAC--------ACGGCGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAG
17899192 CGCCGCTAATGCTCGATCTATAGC
122 CGCCGCTAATGCTCGATCTATAGC
*
17899216 GGCGTTTTTCAAAAAGCGCTGCTAATGC
1 -GCGTTTTTCAAAAAGCGCCGCTAATGC
17899244 CATTAAAACT
Statistics
Matches: 284, Mismatches: 32, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
146 1 0.00
147 74 0.26
149 73 0.26
150 31 0.11
151 25 0.09
152 26 0.09
153 17 0.06
154 34 0.12
157 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (145 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCCCGCTAATG
CCACTAAAGCTCAACACGGCGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCCGCTAA
TGCTCGATCTATAGC
Found at i:17899108 original size:149 final size:146
Alignment explanation
Indices: 17898778--17899243 Score: 580
Period size: 149 Copynumber: 3.1 Consensus size: 146
17898768 CGTTTTTGAT
* * *
17898778 AAAGCGCCGCTAAAGCTCAATCTATAGCGGCATTTTTCAAAAAGC-ATCGCTAATGCCATTAAAG
1 AAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCGCT-GCTAATGCCACTAAAG
* *
17898842 CTCAACACG--GCGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCTGCTAATGATCGA
65 CTCAACACGATG-GTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGA
* *
17898905 TCTATAGCGACGTTTTTTAA
129 TCTATAGCG--GCTTTTCAA
* *
17898925 AAAGCGCCGCTAATGCTCAATCAATAGCGGCATTTTTGAAAAAGCGCTGCTAATGCCACTAAAGC
1 AAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCGCTGCTAATGCCACTAAAGC
* *
17898990 TCAACACGATTGTGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAAGCACCGCTAGTGCTCG
66 TCAACACGA-TG-GTTGTGCTTAACTTTTTTGTGGCGTTTTTC-AAAAAGCGCCGCTAATGCTCG
* *
17899055 ATTTATAGTGGCTTTTCAA
128 ATCTATAGCGGCTTTTCAA
* *
17899074 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGC
1 AAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCGCTGCTAATGCCACTAAAGC
** * *
17899139 TCAACATAAAATAACGGCATTGTGCTTAA-TTTTTTGCGGCGATTTTCAAAAAGCGCCGCTAATG
66 TCAAC--ACGAT---GG--TTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCCGCTAATG
17899203 CTCGATCTATAGCGGCGTTTTTCAA
124 CTCGATCTATAGCGGC--TTTTCAA
*
17899228 AAAGCGCTGCTAATGC
1 AAAGCGCCGCTAATGC
17899244 CATTAAAACT
Statistics
Matches: 278, Mismatches: 27, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
147 66 0.24
148 1 0.00
149 73 0.26
150 32 0.12
151 27 0.10
152 30 0.11
153 17 0.06
154 32 0.12
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (146 bp):
AAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCGCTGCTAATGCCACTAAAGC
TCAACACGATGGTTGTGCTTAACTTTTTTGTGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC
TATAGCGGCTTTTCAA
Found at i:17899122 original size:40 final size:39
Alignment explanation
Indices: 17899028--17899243 Score: 151
Period size: 40 Copynumber: 5.6 Consensus size: 39
17899018 TTTGTGGCGT
* * * *
17899028 TTTTCAAAAAAGCACCGCTAGTGCTCGATTTATAGTGGC-
1 TTTTC-AAAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
17899067 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
1 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
* *
17899106 TTTTTCAAAAAGCGCCGCTAATGC-C-A-CTAAAGC-TCA
1 -TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
*** * ** ** * * *
17899142 ACAT-AAAATAACG--GCATTGTGCTTAATTTTTTGCGGCGA
1 TTTTCAAAA-AGCGCCGC-TAATGCTCGATCTATAGCGGC-A
*
17899181 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGT
1 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC-A
*
17899221 TTTTCAAAAAGCGCTGCTAATGC
1 TTTTCAAAAAGCGCCGCTAATGC
17899244 CATTAAAACT
Statistics
Matches: 134, Mismatches: 31, Indels: 23
0.71 0.16 0.12
Matches are distributed among these distances:
33 2 0.01
34 8 0.06
35 4 0.03
36 3 0.02
37 9 0.07
38 31 0.23
39 11 0.08
40 64 0.48
41 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (39 bp):
TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
Found at i:17899338 original size:114 final size:114
Alignment explanation
Indices: 17899067--17899337 Score: 418
Period size: 114 Copynumber: 2.4 Consensus size: 114
17899057 TTATAGTGGC
17899067 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCA
1 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCA
* *
17899132 CTAAAGCTCAACATAAAATAACGGCATTGTGCTTAATTTTTTGCGGCGA
66 CTAAAACTCAACATAAAATAACAGCATTGTGCTTAATTTTTTGCGGCGA
* *
17899181 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCTGCTAATGCCA
1 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCA
* * * * * *
17899246 TTAAAACTCAACATAAAATGACATCATT-TGCTTATTTTTTTGTGGCGT
66 CTAAAACTCAACATAAAATAACAGCATTGTGCTTAATTTTTTGCGGCGA
* * *
17899294 TTTTTAAAAAGTGCCGCTAATGCTCGATCTATAGCGTCATTTTT
1 TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTT
17899338 TATCCAAACG
Statistics
Matches: 143, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
113 57 0.40
114 86 0.60
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (114 bp):
TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCA
CTAAAACTCAACATAAAATAACAGCATTGTGCTTAATTTTTTGCGGCGA
Found at i:17901579 original size:12 final size:12
Alignment explanation
Indices: 17901562--17901606 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
17901552 AAGAGAATAG
17901562 AAAATAAAGAAA
1 AAAATAAAGAAA
17901574 AAAATAAAGTTAAA
1 AAAATAAAG--AAA
17901588 AGAACATAAAGAAA
1 A-AA-ATAAAGAAA
17901602 AAAAT
1 AAAAT
17901607 TAAATTGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 11 0.38
13 2 0.07
14 8 0.28
15 2 0.07
16 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAATAAAGAAA
Found at i:17901690 original size:32 final size:32
Alignment explanation
Indices: 17901649--17901717 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
17901639 CAATAGTATA
*
17901649 ATTT-AACATATAATTTTCGTTTGAAATGATG
1 ATTTAAACATATAATTTTCATTTGAAATGATG
17901680 ATTTAAACATATAATTTTCATTTGAAATGATG
1 ATTTAAACATATAATTTTCATTTGAAATGATG
17901712 ATTTAA
1 ATTTAA
17901718 CATGCCATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (32 bp):
ATTTAAACATATAATTTTCATTTGAAATGATG
Found at i:17902632 original size:96 final size:98
Alignment explanation
Indices: 17902527--17902787 Score: 345
Period size: 97 Copynumber: 2.7 Consensus size: 98
17902517 TAATTAAAAC
* * *
17902527 TTTTAATGTTAATGATAAT-AAAGTAATTAATAGTTTCTTTTAATAAGAAAATAATATTAAATAA
1 TTTTTATGTTAATGATAATAAAAGTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAA
17902591 TTATCATT-AAAAAATTTAAATAATTAATAAAT-
66 TTATCATTCAAAAAA-TTAAATAATTAATAAATA
* *
17902623 TTTTTATGTTAATGATAATAAAAGTAATTAATATTTTATTTTAGTAA-AAAATAAGA-TAAATAA
1 TTTTTATGTTAATGATAATAAAAGTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAA
**
17902686 TTATTGTTCAAAAAATTAAATAATTAATAAATA
66 TTATCATTCAAAAAATTAAATAATTAATAAATA
* * * * *
17902719 TTTTTAATGATAACGATAATGAAAA-TAATTAAGATTTTCTTTGAATAGGAAAATAAGATTAAAT
1 TTTTT-ATGTTAATGATAAT-AAAAGTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAAT
17902783 AATTA
64 AATTA
17902788 AATTTAAAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
95 30 0.21
96 37 0.26
97 54 0.38
98 13 0.09
99 10 0.07
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (98 bp):
TTTTTATGTTAATGATAATAAAAGTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAA
TTATCATTCAAAAAATTAAATAATTAATAAATA
Found at i:17902995 original size:22 final size:22
Alignment explanation
Indices: 17902952--17902999 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17902942 TACTGATTCC
*
17902952 ATTTAGTTTTATTTTTTATTTT
1 ATTTAGTTTTATTTTATATTTT
*
17902974 ATTTATTTTTA-TTTATACTTTT
1 ATTTAGTTTTATTTTATA-TTTT
17902996 ATTT
1 ATTT
17903000 TTATTGTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTAGTTTTATTTTATATTTT
Found at i:17907860 original size:14 final size:14
Alignment explanation
Indices: 17907837--17907868 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17907827 TGTCGTGTTC
*
17907837 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
17907851 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
17907865 TTAG
1 TTAG
17907869 AACAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:17908139 original size:22 final size:22
Alignment explanation
Indices: 17908090--17908156 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
17908080 TAATTTAGCC
17908090 ATTTTTATTTTTATTTTTATTA
1 ATTTTTATTTTTATTTTTATTA
*
17908112 AATTTTA-TTTT-TTTTTAGTTTA
1 ATTTTTATTTTTATTTTTA--TTA
*
17908134 ATTTTTGTTTTCTAATTTTTATT
1 ATTTTTATTTT-T-ATTTTTATT
17908157 TTATTTGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 6 0.17
21 4 0.11
22 14 0.39
23 3 0.08
24 3 0.08
26 6 0.17
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (22 bp):
ATTTTTATTTTTATTTTTATTA
Found at i:17908144 original size:21 final size:20
Alignment explanation
Indices: 17908092--17908138 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
17908082 ATTTAGCCAT
17908092 TTTTATTTTTATTTTTATTAAA
1 TTTTA-TTTT-TTTTTATTAAA
*
17908114 TTTTATTTTTTTTTAGTTTAA
1 TTTTATTTTTTTTTA-TTAAA
17908135 TTTT
1 TTTT
17908139 TGTTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTATTTTTTTTTATTAAA
Found at i:17913003 original size:27 final size:27
Alignment explanation
Indices: 17912973--17913026 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17912963 CAATTATGTA
17912973 TACTTATTTCGTGCTTTAATATTTTAG
1 TACTTATTTCGTGCTTTAATATTTTAG
17913000 TACTTATTTCGTGCTTTAATATTTTAG
1 TACTTATTTCGTGCTTTAATATTTTAG
17913027 GGATATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (27 bp):
TACTTATTTCGTGCTTTAATATTTTAG
Found at i:17934201 original size:3 final size:3
Alignment explanation
Indices: 17934193--17934228 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17934183 GTGTATTGCA
17934193 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
17934229 TGTAGTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17939593 original size:13 final size:13
Alignment explanation
Indices: 17939575--17939653 Score: 52
Period size: 13 Copynumber: 6.0 Consensus size: 13
17939565 CATATATATC
17939575 CATATAAACATTT
1 CATATAAACATTT
* * *
17939588 CATATACATAATT
1 CATATAAACATTT
*
17939601 CACAT-AACTATTT
1 CATATAAAC-ATTT
* *
17939614 CCATATAACCAATT
1 -CATATAAACATTT
*
17939628 CATATAATCATTT
1 CATATAAACATTT
* *
17939641 TATATAATCATTT
1 CATATAAACATTT
17939654 TCCATATAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 1 0.02
13 40 0.80
14 7 0.14
15 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.41
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:17939640 original size:27 final size:25
Alignment explanation
Indices: 17939575--17939646 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 25
17939565 CATATATATC
*
17939575 CATATAAACATTTCATATACATAATT
1 CATAT-AACATTTCATATACACAATT
*
17939601 CACATAACTATTTCCATATA-ACCAATT
1 CATATAAC-ATTT-CATATACA-CAATT
*
17939628 CATATAATCATTTTATATA
1 CATATAA-CATTTCATATA
17939647 ATCATTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 3 0.08
26 14 0.37
27 20 0.53
28 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (25 bp):
CATATAACATTTCATATACACAATT
Found at i:17939654 original size:13 final size:13
Alignment explanation
Indices: 17939629--17939695 Score: 73
Period size: 13 Copynumber: 5.0 Consensus size: 13
17939619 TAACCAATTC
17939629 ATATAATCATTTT
1 ATATAATCATTTT
17939642 ATATAATCATTTT
1 ATATAATCATTTT
* *
17939655 CCATATAATTGA-TTC
1 --ATATAA-TCATTTT
17939670 ATATAATCATTTT
1 ATATAATCATTTT
*
17939683 ATATATTCATTTT
1 ATATAATCATTTT
17939696 CCACTCGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
12 2 0.04
13 33 0.73
15 8 0.18
16 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.52
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:17939661 original size:28 final size:27
Alignment explanation
Indices: 17939626--17939695 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
17939616 ATATAACCAA
17939626 TTCATATAATCATTTTATATAATCATT
1 TTCATATAATCATTTTATATAATCATT
* *
17939653 TTCCATATAATTGA-TTCATATAATCATT
1 TT-CATATAA-TCATTTTATATAATCATT
*
17939681 TT-ATATATTCATTTT
1 TTCATATAATCATTTT
17939696 CCACTCGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.06
26 7 0.20
27 2 0.06
28 22 0.63
29 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.53
Consensus pattern (27 bp):
TTCATATAATCATTTTATATAATCATT
Found at i:17939661 original size:41 final size:41
Alignment explanation
Indices: 17939611--17939698 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
17939601 CACATAACTA
17939611 TTTCCATATAACCAATTCATATAATCATTTTATATAATCAT
1 TTTCCATATAACCAATTCATATAATCATTTTATATAATCAT
*** *
17939652 TTTCCATATAATTGATTCATATAATCATTTTATATATTCAT
1 TTTCCATATAACCAATTCATATAATCATTTTATATAATCAT
17939693 TTTCCA
1 TTTCCA
17939699 CTCGATTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.01, T:0.48
Consensus pattern (41 bp):
TTTCCATATAACCAATTCATATAATCATTTTATATAATCAT
Found at i:17947081 original size:40 final size:39
Alignment explanation
Indices: 17947009--17947122 Score: 113
Period size: 40 Copynumber: 2.9 Consensus size: 39
17946999 GGCGTTTGGA
* *
17947009 TAAAAAAACG-CAGCTAAAAATCAAGCACTAGCGGCGCTTT
1 TAAAAAAACGCCA-CTAAAAAT-TAGCATTAGCGGCGCTTT
* * *
17947049 TAAAAAAACGCCACTAAAGATTGAGTATTAGCGACGCTTT
1 TAAAAAAACGCCACTAAAAATT-AGCATTAGCGGCGCTTT
*** *
17947089 TTGGAAAACGCCGCTAAAAATTAGCATTAGCGGC
1 TAAAAAAACGCCACTAAAAATTAGCATTAGCGGC
17947123 ATTTTTCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
39 10 0.17
40 48 0.80
41 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (39 bp):
TAAAAAAACGCCACTAAAAATTAGCATTAGCGGCGCTTT
Found at i:17947140 original size:39 final size:38
Alignment explanation
Indices: 17947009--17947147 Score: 109
Period size: 40 Copynumber: 3.5 Consensus size: 38
17946999 GGCGTTTGGA
* * * *
17947009 TAAAAAAACGCAGCTAAAAATCAAGCACTAGCGGCGCTTT
1 TAAAAAAACGCCGCTAAAAAT-TAGCATTAGCGGC-TTTT
* * *
17947049 TAAAAAAACGCCACTAAAGATTGAGTATTAGCGACGCTTTT
1 TAAAAAAACGCCGCTAAAAATT-AGCATTAGCG--GCTTTT
**
17947090 T-GGAAAACGCCGCTAAAAATTAGCATTAGCGGCATTTT
1 TAAAAAAACGCCGCTAAAAATTAGCATTAGCGGC-TTTT
* * *
17947128 TCAAAAAGCGCCGCAAAAAA
1 TAAAAAAACGCCGCTAAAAA
17947148 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 11
0.74 0.15 0.10
Matches are distributed among these distances:
37 2 0.03
38 5 0.06
39 23 0.29
40 42 0.54
41 4 0.05
42 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (38 bp):
TAAAAAAACGCCGCTAAAAATTAGCATTAGCGGCTTTT
Done.