Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 53 of 75
Found at i:17004407 original size:11 final size:11
Alignment explanation
Indices: 17004391--17004426 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
17004381 ATAAATCTAA
17004391 TTATTTTTATT
1 TTATTTTTATT
*
17004402 TTATTTATATT
1 TTATTTTTATT
17004413 TTA-TTTTATT
1 TTATTTTTATT
17004423 TTAT
1 TTAT
17004427 AAAAAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:17004416 original size:16 final size:15
Alignment explanation
Indices: 17004391--17004423 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
17004381 ATAAATCTAA
17004391 TTATTTTTATTTTAT
1 TTATTTTTATTTTAT
17004406 TTATATTTTATTTTAT
1 TTAT-TTTTATTTTAT
17004422 TT
1 TT
17004424 TATAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTTTAT
Found at i:17006781 original size:22 final size:23
Alignment explanation
Indices: 17006739--17006786 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
17006729 GACTGTAAAA
*
17006739 TATGAAATCCGATAATCTGTTTG
1 TATGAAATCCGATAATCTGTTCG
* *
17006762 TATGAATTCTGAT-ATCTGTTCG
1 TATGAAATCCGATAATCTGTTCG
17006784 TAT
1 TAT
17006787 ATCTGAGACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (23 bp):
TATGAAATCCGATAATCTGTTCG
Found at i:17012304 original size:9 final size:9
Alignment explanation
Indices: 17012284--17012364 Score: 56
Period size: 9 Copynumber: 9.0 Consensus size: 9
17012274 CAAGGTCACG
*
17012284 ATCAATAGC
1 ATCAATATC
*
17012293 ATCACTATC
1 ATCAATATC
*
17012302 ATCAATAGC
1 ATCAATATC
* *
17012311 GTCATTAGT-
1 ATCAATA-TC
17012320 ATCAATATC
1 ATCAATATC
* * *
17012329 GTCACTAGC
1 ATCAATATC
17012338 ATCAATATC
1 ATCAATATC
* *
17012347 GTCACTATC
1 ATCAATATC
17012356 ATCAATATC
1 ATCAATATC
17012365 GATATCATCA
Statistics
Matches: 51, Mismatches: 19, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
8 1 0.02
9 50 0.98
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.31
Consensus pattern (9 bp):
ATCAATATC
Found at i:17012363 original size:18 final size:18
Alignment explanation
Indices: 17012284--17012377 Score: 106
Period size: 18 Copynumber: 5.4 Consensus size: 18
17012274 CAAGGTCACG
* *
17012284 ATCAATAGCATCACTATC
1 ATCAATATCGTCACTATC
* *
17012302 ATCAATAGCGTCATTAGT-
1 ATCAATATCGTCACTA-TC
*
17012320 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
17012338 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
17012356 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
17012371 ATCAATA
1 ATCAATA
17012378 AGAAAACCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
15 11 0.16
16 1 0.01
18 55 0.81
19 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:17019096 original size:22 final size:22
Alignment explanation
Indices: 17019068--17019113 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17019058 TAAAGTTTAT
*
17019068 ATATTATATTAATTAT-AATAAA
1 ATATTATATT-ATTATGAACAAA
*
17019090 ATATTATCTTATTATGAACAAA
1 ATATTATATTATTATGAACAAA
17019112 AT
1 AT
17019114 TCTTCTGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTATATTATTATGAACAAA
Found at i:17023745 original size:25 final size:24
Alignment explanation
Indices: 17023605--17023800 Score: 105
Period size: 25 Copynumber: 8.0 Consensus size: 24
17023595 TGGGCATGTA
* *
17023605 AACGGGAAGCTCTTTCA-AGCCATAT
1 AACGGGAAGCTC-ATGAGAGCCAT-T
*
17023630 AACGGGAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATGAGAGCCAT-T
* *
17023655 AACGAGAAGCTC-TTACGAGCCAATT
1 AACGGGAAGCTCATGA-GAGCC-ATT
* * *
17023680 ATCGGGAAGCTCAT-ACGGGCC-GT
1 AACGGGAAGCTCATGA-GAGCCATT
* *
17023703 AATGGGAAGCTCAAGAGAGCCATT
1 AACGGGAAGCTCATGAGAGCCATT
* *
17023727 AATTGGGAAGCTCATGAGAGCTAATT
1 AA-CGGGAAGCTCATGAGAGC-CATT
* ** *
17023753 AACGGGGAGCTCCGGAGAGCCAAAT
1 AACGGGAAGCTCATGAGAGCC-ATT
**
17023778 AACATGAAGCTCAAT-AGAGCCAT
1 AACGGGAAGCTC-ATGAGAGCCAT
17023801 ATATTGGGAT
Statistics
Matches: 131, Mismatches: 30, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
23 16 0.12
24 7 0.05
25 100 0.76
26 8 0.06
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
AACGGGAAGCTCATGAGAGCCATT
Found at i:17023800 original size:75 final size:75
Alignment explanation
Indices: 17023708--17023850 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
17023698 GCCGTAATGG
* * * *
17023708 GAAGCTCAAGAGAGCCAT-TAATTGGGAAGCTCATGAGAGCTAATTAACGGGGAGCTCCGGAGAG
1 GAAGCTCAAGAGAGCCATAT-ATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGAG
17023772 CCAAATAACAT
65 CCAAATAACAT
* * * * *
17023783 GAAGCTCAATAGAGCCATATATTGGGATGCTCCTAAGAGCTAAATAATGGGCAGCTCATGAGAGC
1 GAAGCTCAAGAGAGCCATATATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGAGC
17023848 CAA
66 CAA
17023851 GTATCAGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 57 0.98
76 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (75 bp):
GAAGCTCAAGAGAGCCATATATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGAGC
CAAATAACAT
Found at i:17023846 original size:25 final size:25
Alignment explanation
Indices: 17023702--17023850 Score: 104
Period size: 25 Copynumber: 6.0 Consensus size: 25
17023692 ATACGGGCCG
* *
17023702 TAATGGGAAGCTCAAGAGAGCC-AT
1 TAATGGGAAGCTCATGAGAGCCAAA
* *
17023726 TAATTGGGAAGCTCATGAGAGCTAAT
1 TAA-TGGGAAGCTCATGAGAGCCAAA
* * **
17023752 TAACGGGGAGCTCCGGAGAGCCAAA
1 TAATGGGAAGCTCATGAGAGCCAAA
*** *
17023777 TAACATGAAGCTCAAT-AGAGCCATA
1 TAATGGGAAGCTC-ATGAGAGCCAAA
* * * * *
17023802 TATTGGGATGCTCCTAAGAGCTAAA
1 TAATGGGAAGCTCATGAGAGCCAAA
*
17023827 TAATGGGCAGCTCATGAGAGCCAA
1 TAATGGGAAGCTCATGAGAGCCAA
17023851 GTATCAGGAC
Statistics
Matches: 93, Mismatches: 28, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
24 4 0.04
25 84 0.90
26 5 0.05
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (25 bp):
TAATGGGAAGCTCATGAGAGCCAAA
Found at i:17023872 original size:75 final size:75
Alignment explanation
Indices: 17023707--17023865 Score: 185
Period size: 75 Copynumber: 2.1 Consensus size: 75
17023697 GGCCGTAATG
* * * * *
17023707 GGAAGCTCAAGAGAGCCATTAATTGGGAAGCTCATGAGAGCTAATTAACGGGGAGCTCCGGAGAG
1 GGAAGCTCAATAGAGCCATTAATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGAG
17023772 CCAAATAACA
66 CCAAATAACA
* * * * *
17023782 TGAAGCTCAATAGAGCCA-TATATTGGGATGCTCCTAAGAGCTAAATAATGGGCAGCTCATGAGA
1 GGAAGCTCAATAGAGCCATTA-ATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGA
* *
17023846 GCCAAGTATCA
65 GCCAAATAACA
*
17023857 GGACGCTCA
1 GGAAGCTCA
17023866 TAAGAGCTGT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
74 2 0.03
75 67 0.97
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (75 bp):
GGAAGCTCAATAGAGCCATTAATTGGGAAGCTCATAAGAGCTAAATAACGGGCAGCTCAGGAGAG
CCAAATAACA
Found at i:17029260 original size:56 final size:51
Alignment explanation
Indices: 17029173--17029315 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 51
17029163 GGTAAAGAGA
* *
17029173 TCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCATTGAGATTATGAGAGGC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA--ATTG-G--TATGAGA-AC
* *
17029230 -CCCATGTAAGACCATGTCTGGGACATGGCA-TGGGAATTGGTATGAGAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAATTGGTATGAGAAC
* *
17029279 TCCTATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
17029316 GTACAGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
49 1 0.01
50 34 0.45
51 4 0.05
52 1 0.01
53 4 0.05
55 4 0.05
56 28 0.37
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (51 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAATTGGTATGAGAAC
Found at i:17029581 original size:12 final size:12
Alignment explanation
Indices: 17029564--17029602 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17029554 ATGAGTTATT
17029564 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
17029576 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
17029588 TAAGTGAGTAAG
1 TAAGTAAGCAAG
17029600 TAA
1 TAA
17029603 AGAGCGAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:17033585 original size:20 final size:20
Alignment explanation
Indices: 17033560--17033610 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 20
17033550 TGGCTGCATG
17033560 ATACTGATTTAAGACAGGCC
1 ATACTGATTTAAGACAGGCC
17033580 ATACTGA---AAG--AGGCC
1 ATACTGATTTAAGACAGGCC
*
17033595 ATACTGATTTGAGACA
1 ATACTGATTTAAGACA
17033611 TGATACAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 10
0.69 0.03 0.28
Matches are distributed among these distances:
15 12 0.48
17 3 0.12
18 2 0.08
20 8 0.32
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (20 bp):
ATACTGATTTAAGACAGGCC
Found at i:17046205 original size:20 final size:19
Alignment explanation
Indices: 17046180--17046408 Score: 93
Period size: 20 Copynumber: 11.5 Consensus size: 19
17046170 TATTGAATGA
17046180 TTGTACTTACGTGCCCCTGT
1 TTGTACTT-CGTGCCCCTGT
* * **
17046200 TTGTACTTCTGTACCTCTAA
1 TTGTACTTC-GTGCCCCTGT
* *
17046220 TTGCACTTACGTGCCCTTGT
1 TTGTACTT-CGTGCCCCTGT
* * * *
17046240 TTATACTCTGGTACCCCTGA
1 TTGTACT-TCGTGCCCCTGT
* *
17046260 TTGTACTTGCGTGCCCTTTT
1 TTGTACTT-CGTGCCCCTGT
* *
17046280 TTGTACTTCAGTACCCCTGAA
1 TTGTACTTC-GTGCCCCTG-T
*
17046301 TT-TACATCTGTGCCCCTGT
1 TTGTACTTC-GTGCCCCTGT
** * * *
17046320 TTGTACTTTTTTACCCTTGA
1 TTGTAC-TTCGTGCCCCTGT
*
17046340 TTGCACTTACGTGCCCCTGT
1 TTGTACTT-CGTGCCCCTGT
* * *
17046360 TTGTACTTCAATACCCCTGA
1 TTGTACTTC-GTGCCCCTGT
* * *
17046380 TTGCACTTTCCT-CCCTTGT
1 TTGTAC-TTCGTGCCCCTGT
17046399 TTGTACTTCG
1 TTGTACTTCG
17046409 GTACCCCTGA
Statistics
Matches: 146, Mismatches: 52, Indels: 24
0.66 0.23 0.11
Matches are distributed among these distances:
18 3 0.02
19 18 0.12
20 117 0.80
21 8 0.05
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTACTTCGTGCCCCTGT
Found at i:17046241 original size:40 final size:40
Alignment explanation
Indices: 17046177--17046424 Score: 243
Period size: 40 Copynumber: 6.2 Consensus size: 40
17046167 AATTATTGAA
* *
17046177 TGATTGTACTTACGTGCCCCTGTTTGTACTTCTGTACCTC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCTGTACCCC
* * *
17046217 TAATTGCACTTACGTGCCCTTGTTTATAC-TCTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCT-GTACCCC
* * * * *
17046257 TGATTGTACTTGCGTGCCCTTTTTTGTACTTCAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCTGTACCCC
* * * * *
17046297 TGAATT-TACAT-CTGTGCCCCTGTTTGTACTTTTTTACCCT
1 TG-ATTGCACTTAC-GTGCCCCTGTTTGTACTTCTGTACCCC
**
17046337 TGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCTGTACCCC
* * * *
17046377 TGATTGCACTTTCCT-CCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCTGTACCCC
*
17046416 TGAATGCAC
1 TGATTGCAC
17046425 ATTTGTTCCC
Statistics
Matches: 172, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
39 36 0.21
40 130 0.76
41 6 0.03
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.40
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCTGTACCCC
Found at i:17046357 original size:60 final size:60
Alignment explanation
Indices: 17046190--17046361 Score: 156
Period size: 60 Copynumber: 2.9 Consensus size: 60
17046180 TTGTACTTAC
* *
17046190 GTGCCCCTGTTTGTACTTCTGTA-CCTCTAATTGCACTTACGTGCCCTTGTTTATACTCTG
1 GTGCCCCTGTTTGTACTTCTGTACCCT-TAATTGCACTTACGTGCCCCTGTTTACACTCTG
* * * ** * *
17046250 GTACCCCTGATTGTACTTGC-GTGCCCTTTTTTGTACTT-CAGTACCCCTGAATTTACA-TCT-
1 GTGCCCCTGTTTGTACTT-CTGTACCCTTAATTGCACTTAC-GTGCCCCTG--TTTACACTCTG
* * *
17046310 GTGCCCCTGTTTGTACTTTTTTACCCTTGATTGCACTTACGTGCCCCTGTTT
1 GTGCCCCTGTTTGTACTTCTGTACCCTTAATTGCACTTACGTGCCCCTGTTT
17046362 GTACTTCAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
58 3 0.03
59 1 0.01
60 70 0.80
61 8 0.09
62 5 0.06
ACGTcount: A:0.13, C:0.28, G:0.16, T:0.42
Consensus pattern (60 bp):
GTGCCCCTGTTTGTACTTCTGTACCCTTAATTGCACTTACGTGCCCCTGTTTACACTCTG
Found at i:17046472 original size:119 final size:120
Alignment explanation
Indices: 17046190--17046472 Score: 295
Period size: 120 Copynumber: 2.4 Consensus size: 120
17046180 TTGTACTTAC
* * * * * * **
17046190 GTGCCCCTGTTTGTACTTCTGTACCTCTAATTGCACTTACGTGCCCTTGTTTATAC-TCTGGTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTTGTACTTC-AATAC
* * * **
17046254 CCCTGATTGTACTTGCGTGCCCTTTTTTGTACTTCAGTACCCCTGAATTTACATCT
65 CCCTGATTGCACTTGCCTGCCCTTGTTTGTACTTCAGTACCCCTGAATGCACATCT
*** * *
17046310 GTGCCCCTGTTTGTACTTTTTTACCCTTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTTGTACTTCAATACC
* * *
17046375 CCTGATTGCACTTTCCT-CCCTTGTTTGTACTTCGGTACCCCTGAATGCACATTT
66 CCTGATTGCACTTGCCTGCCCTTGTTTGTACTTCAGTACCCCTGAATGCACATCT
* * *
17046429 GTTCCCTTGTTT-TCACTTCGGTGCCCCTGATCGCACATT-CGTGC
1 GTGCCCCTGTTTGT-ACTTCGGTACCCCTGATCGCAC-TTACGTGC
17046473 TCTTGATTGC
Statistics
Matches: 135, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
118 1 0.01
119 63 0.47
120 69 0.51
121 2 0.01
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.40
Consensus pattern (120 bp):
GTGCCCCTGTTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTTGTACTTCAATACC
CCTGATTGCACTTGCCTGCCCTTGTTTGTACTTCAGTACCCCTGAATGCACATCT
Found at i:17046486 original size:40 final size:40
Alignment explanation
Indices: 17046189--17046497 Score: 139
Period size: 40 Copynumber: 7.8 Consensus size: 40
17046179 ATTGTACTTA
* * * * *
17046189 CGTGCCCCTGTTTGTACTTCTGTACCTCT-AATTGCAC-TT
1 CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAA-TGCACATT
** * * *
17046228 ACGTGCCCTTGTTTATAC-TCTGGTACCCCTGATTGTAC-TT
1 -CGTGCCCTTGTTTGCACTTC-GGTGCCCCTGAATGCACATT
* * * * **
17046268 GCGTGCCCTTTTTTGTACTTCAGTACCCCTGAATTTACA-T
1 -CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAATGCACATT
* * *** * * *
17046308 CTGTGCCCCTGTTTGTACTTTTTTACCCTTGATTGCAC-TT
1 C-GTGCCCTTGTTTGCACTTCGGTGCCCCTGAATGCACATT
* * ** * * *
17046348 ACGTGCCCCTGTTTGTACTTCAATACCCCTGATTGCACTTT
1 -CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAATGCACATT
* * *
17046389 CCT-CCCTTGTTTGTACTTCGGTACCCCTGAATGCACATT
1 CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAATGCACATT
* * *
17046428 TGTTCCCTTGTTTTCACTTCGGTGCCCCTG-ATCGCACATT
1 CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAAT-GCACATT
* * *
17046468 CGTGCTCTTGATTGCACTTTGGTGCCCCTG
1 CGTGCCCTTGTTTGCACTTCGGTGCCCCTG
17046498 TTATGCATCT
Statistics
Matches: 217, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
39 37 0.17
40 174 0.80
41 6 0.03
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (40 bp):
CGTGCCCTTGTTTGCACTTCGGTGCCCCTGAATGCACATT
Found at i:17048531 original size:21 final size:21
Alignment explanation
Indices: 17048492--17048531 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17048482 CACCTACAGT
** *
17048492 ATGAAATTTTCTATCTTTTCC
1 ATGAAATTTTAAATATTTTCC
17048513 ATGAAATTTTAAATATTTT
1 ATGAAATTTTAAATATTTT
17048532 TTATTTAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (21 bp):
ATGAAATTTTAAATATTTTCC
Found at i:17052980 original size:25 final size:25
Alignment explanation
Indices: 17052914--17052984 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
17052904 ATCCCGATAT
17052914 ATGGCTCTTCGTGAGCTTTCCAATTA
1 ATGGCTCTTCGTGAGC-TTCCAATTA
* * *
17052940 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTCGTGAGCTTCC-AATTA
17052966 ATGGCTCTTCG-GAGCTTCC
1 ATGGCTCTTCGTGAGCTTCC
17052985 CGATATGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (25 bp):
ATGGCTCTTCGTGAGCTTCCAATTA
Found at i:17053087 original size:25 final size:25
Alignment explanation
Indices: 17053051--17053144 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 25
17053041 GACTCTTCGA
* *
17053051 AGCTACCCATTAT-TGGCTCGCATG
1 AGCTTCCCGTTATATGGCTCGCATG
* * **
17053075 AGCTTCCCGAT-TATGACTCTTATG
1 AGCTTCCCGTTATATGGCTCGCATG
** *
17053099 AGCTTCCCGTTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCGCATG
*
17053124 AGCTTCCTGTTATATGGCTCG
1 AGCTTCCCGTTATATGGCTCG
17053145 ATAGAGGGTT
Statistics
Matches: 52, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
23 1 0.02
24 26 0.50
25 25 0.48
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCGCATG
Found at i:17053102 original size:73 final size:74
Alignment explanation
Indices: 17052951--17053105 Score: 192
Period size: 73 Copynumber: 2.1 Consensus size: 74
17052941 AGGCTCTTTG
* * * *
17052951 TGAGCTTCCTGATTAATGGCTCTTCGGAGCTTCCCGATATGACTCGCATGAACTTCCCTATATAT
1 TGAGCTTCCTGATTAATGACTCTTCGAAGCTACCCGATATGACTCGCATGAACTTCCCGATATAT
*
17053016 GGCTATCTA
66 GACTATCTA
* *
17053025 -GAGCTTCCTGATTAATGACTCTTCGAAGCTACCC-ATTATTGGCTCGCATGAGCTTCCCGAT-T
1 TGAGCTTCCTGATTAATGACTCTTCGAAGCTACCCGA-TA-TGACTCGCATGAACTTCCCGATAT
*
17053087 ATGACTCT-TA
64 ATGACTATCTA
17053097 TGAGCTTCC
1 TGAGCTTCC
17053106 CGTTATACAG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
72 3 0.04
73 48 0.69
74 19 0.27
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (74 bp):
TGAGCTTCCTGATTAATGACTCTTCGAAGCTACCCGATATGACTCGCATGAACTTCCCGATATAT
GACTATCTA
Found at i:17059922 original size:6 final size:6
Alignment explanation
Indices: 17059906--17059950 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
17059896 TGAAACAAGT
*
17059906 AAATGAA AAATAA AAATAA AAATAA AAATAA AAAAAGA AAATAA A
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA AAATA-A AAATAA A
17059951 GAAGATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 26 0.74
7 9 0.26
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:17059940 original size:13 final size:13
Alignment explanation
Indices: 17059906--17059950 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
17059896 TGAAACAAGT
*
17059906 AAATGAAAAATAA
1 AAATAAAAAATAA
17059919 AAAT-AAAAATAA
1 AAATAAAAAATAA
17059931 AAATAAAAAA-AGA
1 AAATAAAAAATA-A
17059944 AAATAAA
1 AAATAAA
17059951 GAAGATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:17061129 original size:44 final size:44
Alignment explanation
Indices: 17061081--17061284 Score: 216
Period size: 44 Copynumber: 4.7 Consensus size: 44
17061071 TTTCTTCTGT
*
17061081 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* *
17061125 CTGCTCTACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* ***** * *
17061169 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTT-AAGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA-C
* * * * * *
17061212 CTGCTTCACTATTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGAC
17061256 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
17061285 CTGGTGGTTT
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 31 0.23
44 101 0.75
45 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
Found at i:17075686 original size:137 final size:138
Alignment explanation
Indices: 17075440--17075716 Score: 520
Period size: 137 Copynumber: 2.0 Consensus size: 138
17075430 TAGTGGGCTG
*
17075440 TTTGGGTTTGATTTGGGCCCGGGCGGAAAATGGGCTGTACGGAATCAATATATAAATACTATTGT
1 TTTGGGTTTGATTTGGGCCCGGGCGGAAAATGGGCTGTACAGAATCAATATATAAATACTATTGT
17075505 GACATTTACTAATAGAAATGTCTAAATCAATGTGACGTTTATAATGCCACTAAGTCAAC-AAATA
66 GACATTTACTAATAGAAATGTCTAAATCAATGTGACGTTTATAATGCCACTAAGTCAACAAAATA
17075569 AATATAAT
131 AATATAAT
* *
17075577 TTTGGGTTTGATTTGGGCCCGGGCGGAAAATGGGCTGTACAGTATCCATATATAAATACTATTGT
1 TTTGGGTTTGATTTGGGCCCGGGCGGAAAATGGGCTGTACAGAATCAATATATAAATACTATTGT
17075642 GACATTTACTAATAGAAATGTCTAAATCAATGTGACGTTTATAATGCCACTAAGTCAACAAAATA
66 GACATTTACTAATAGAAATGTCTAAATCAATGTGACGTTTATAATGCCACTAAGTCAACAAAATA
17075707 AATATAAT
131 AATATAAT
17075715 TT
1 TT
17075717 CCAAACAATT
Statistics
Matches: 136, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
137 121 0.89
138 15 0.11
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (138 bp):
TTTGGGTTTGATTTGGGCCCGGGCGGAAAATGGGCTGTACAGAATCAATATATAAATACTATTGT
GACATTTACTAATAGAAATGTCTAAATCAATGTGACGTTTATAATGCCACTAAGTCAACAAAATA
AATATAAT
Found at i:17079885 original size:31 final size:28
Alignment explanation
Indices: 17079836--17079901 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
17079826 AGAAGTTACA
17079836 ATTT-AGTCATTGAACTATTTAAAAGTTTTT
1 ATTTAAGTCATTGAACTA-TT--AAGTTTTT
**
17079866 ATTTAAGTCATTGTGCTATTAAGTTTTT
1 ATTTAAGTCATTGAACTATTAAGTTTTT
*
17079894 CTTTAAGT
1 ATTTAAGT
17079902 TCCGCCAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 15 0.47
30 6 0.19
31 11 0.34
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (28 bp):
ATTTAAGTCATTGAACTATTAAGTTTTT
Found at i:17080114 original size:22 final size:22
Alignment explanation
Indices: 17080072--17080114 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17080062 AATTTTAAAA
* *
17080072 ATATATTTTTATTTGATATTTG
1 ATATATTTTTATATGAAATTTG
17080094 ATATATTTTTATAAT-AAATTT
1 ATATATTTTTAT-ATGAAATTT
17080115 AAGTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATATTTTTATATGAAATTTG
Found at i:17081582 original size:29 final size:30
Alignment explanation
Indices: 17081535--17081643 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
17081525 TAAAAAATTG
* **
17081535 CATTTTGACCCCTGTACTTTTCAAAATTTA
1 CATTTTAACCCCTAAACTTTTCAAAATTTA
*
17081565 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
1 CATTTTAACCCCTAAACTTTTC-AAAATTTA
*
17081594 CATTTTAACCCTTAAACTTTCTCAAAATTT-
1 CATTTTAACCCCTAAACTTT-TCAAAATTTA
*
17081624 CACTTTAACCCCTAAACTTT
1 CATTTTAACCCCTAAACTTT
17081644 CTAGAAATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
29 20 0.29
30 45 0.65
31 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTTCAAAATTTA
Found at i:17081598 original size:59 final size:57
Alignment explanation
Indices: 17081528--17081695 Score: 162
Period size: 59 Copynumber: 2.9 Consensus size: 57
17081518 AAAAAATTAA
* *
17081528 AAAATTGCATTTTGACCCCTGTACTTTTCAAAATTTACATTTTGACCCCAAACTTTTCT
1 AAAATTACATTTT-ACCCCTATACTTTTCAAAATTTACATTTTGACCCCAAAC-TTTCT
* * * *
17081587 AAAATTACATTTTAACCCTTAAACTTTCTCAAAATTT-CACTTTAACCCCTAAACTTTCT
1 AAAATTACATTTT-ACCCCTATACTTT-TCAAAATTTACATTTTGACCCC-AAACTTTCT
* * *
17081646 AGAAATTACACTTTAGCCCTATATTTTTCTAAAA-TTACACTTTTG-CCCCA
1 A-AAATTACATTTTACCCCTATACTTTTC-AAAATTTACA-TTTTGACCCCA
17081696 GAAGCTTTGC
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
58 5 0.06
59 57 0.64
60 27 0.30
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (57 bp):
AAAATTACATTTTACCCCTATACTTTTCAAAATTTACATTTTGACCCCAAACTTTCT
Found at i:17081644 original size:30 final size:29
Alignment explanation
Indices: 17081550--17081688 Score: 131
Period size: 30 Copynumber: 4.7 Consensus size: 29
17081540 TGACCCCTGT
* *
17081550 ACTTTTCAAAATTTACATTTTGACCCC-AA
1 ACTTTTCAAAA-TTACACTTTAACCCCTAA
* *
17081579 ACTTTTCTAAAATTACATTTTAACCCTTAA
1 ACTTTTC-AAAATTACACTTTAACCCCTAA
*
17081609 ACTTTCTCAAAATTTCACTTTAACCCCTAA
1 ACTTT-TCAAAATTACACTTTAACCCCTAA
* *
17081639 AC-TTTCTAGAAATTACACTTT-AGCCCTAT
1 ACTTTTC-A-AAATTACACTTTAACCCCTAA
*
17081668 ATTTTTCTAAAATTACACTTT
1 ACTTTTC-AAAATTACACTTT
17081689 TGCCCCAGAA
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.02
29 42 0.44
30 49 0.52
31 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (29 bp):
ACTTTTCAAAATTACACTTTAACCCCTAA
Found at i:17082239 original size:11 final size:11
Alignment explanation
Indices: 17082219--17082272 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
17082209 CCCGAAGAAG
*
17082219 AAGAAGGAAAA
1 AAGAAAGAAAA
17082230 AAGAAAG-AAA
1 AAGAAAGAAAA
*
17082240 AAGAGAGAAAA
1 AAGAAAGAAAA
*
17082251 AAGAAAGAGAA
1 AAGAAAGAAAA
17082262 AA-AAAGAAAA
1 AAGAAAGAAAA
17082272 A
1 A
17082273 TCAACAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 17 0.46
11 20 0.54
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:17082243 original size:21 final size:21
Alignment explanation
Indices: 17082213--17082272 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
17082203 GTGTGACCCG
*
17082213 AAGAAGAAGAAGGAAAAAAGA
1 AAGAAAAAGAAGGAAAAAAGA
17082234 AAGAAAAAG-AGAGAAAAAAGA
1 AAGAAAAAGAAG-GAAAAAAGA
*
17082255 AAGAGAAAA-AAAGAAAAA
1 AAGA-AAAAGAAGGAAAAA
17082273 TCAACAGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.06
21 27 0.79
22 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGAAGGAAAAAAGA
Found at i:17082264 original size:14 final size:15
Alignment explanation
Indices: 17082239--17082270 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17082229 AAAGAAAGAA
17082239 AAAGAGAGAAAAAAG
1 AAAGAGAGAAAAAAG
17082254 AAAGAGA-AAAAAAG
1 AAAGAGAGAAAAAAG
17082268 AAA
1 AAA
17082271 AATCAACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAGAGAGAAAAAAG
Found at i:17082306 original size:13 final size:13
Alignment explanation
Indices: 17082288--17082313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17082278 AGTCGGGTCA
17082288 ACCCGACCCGACC
1 ACCCGACCCGACC
17082301 ACCCGACCCGACC
1 ACCCGACCCGACC
17082314 CAAACTGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.62, G:0.15, T:0.00
Consensus pattern (13 bp):
ACCCGACCCGACC
Found at i:17082722 original size:20 final size:20
Alignment explanation
Indices: 17082693--17082736 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17082683 ATTTCCTTAA
*
17082693 ATTT-TTTAAAT-TTAGTTTT
1 ATTTATTTAAATATTA-TTTC
17082712 ATTTATTTAAATATTATTTC
1 ATTTATTTAAATATTATTTC
17082732 ATTTA
1 ATTTA
17082737 AATTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 15 0.68
21 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTATTTAAATATTATTTC
Found at i:17082730 original size:15 final size:16
Alignment explanation
Indices: 17082710--17082739 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17082700 AAATTTAGTT
17082710 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
17082725 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
17082740 TTAATTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:17083132 original size:17 final size:17
Alignment explanation
Indices: 17083105--17083150 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
17083095 AAAAAAATCG
17083105 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
17083122 TGTCTTCAAAATTTCTCC
1 TGT-TTCAAAATTTCTCA
17083140 TGTTTCAAAAT
1 TGTTTCAAAAT
17083151 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:17083258 original size:34 final size:35
Alignment explanation
Indices: 17083205--17083294 Score: 121
Period size: 37 Copynumber: 2.6 Consensus size: 35
17083195 TCTTTCTTTT
*
17083205 AAAAAAAATTTCGTG-TTTCAAAAATTCTCGTG-A
1 AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGTA
* *
17083238 ATAAAAAATTTTGTGTTTTCAAAAATTCCCGTGTTTA
1 AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTG--TA
17083275 AAAAAAAATTTCGTGTTTTC
1 AAAAAAAATTTCGTGTTTTC
17083295 GTGTTTTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 13 0.27
34 16 0.33
37 19 0.40
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (35 bp):
AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGTA
Found at i:17083279 original size:17 final size:16
Alignment explanation
Indices: 17083207--17083279 Score: 65
Period size: 17 Copynumber: 4.4 Consensus size: 16
17083197 TTTCTTTTAA
17083207 AAAAAATTTCGTGTTT
1 AAAAAATTTCGTGTTT
* **
17083223 CAAAAATTCTCGTGAAT
1 AAAAAATT-TCGTGTTT
*
17083240 AAAAAATTTTGTGTTTT
1 AAAAAATTTCGTG-TTT
* *
17083257 CAAAAATTCCCGTGTTT
1 AAAAAATT-TCGTGTTT
17083274 AAAAAA
1 AAAAAA
17083280 AAATTTCGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
16 11 0.26
17 29 0.67
18 3 0.07
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (16 bp):
AAAAAATTTCGTGTTT
Found at i:17083297 original size:27 final size:28
Alignment explanation
Indices: 17083267--17083320 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
17083257 CAAAAATTCC
17083267 CGTGTTTAAAAAAAAATT-TCGTGTTTT
1 CGTGTTTAAAAAAAAATTCTCGTGTTTT
** *
17083294 CGTGTTTTCAAAAAATTTCTCGTGTTT
1 CGTGTTTAAAAAAAAATTCTCGTGTTT
17083321 CAAAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (28 bp):
CGTGTTTAAAAAAAAATTCTCGTGTTTT
Found at i:17083323 original size:64 final size:63
Alignment explanation
Indices: 17083240--17083384 Score: 161
Period size: 64 Copynumber: 2.3 Consensus size: 63
17083230 TCTCGTGAAT
* *
17083240 AAAAAATTT-T-GTGTTTTCAAAAATTCCCGTGTTTAAAAAAAAATTTCGTGTTTTCGTGTTTTC
1 AAAAAATTTCTCGTG-TTTCAAAAATTCCCGTGTTT--AAAAAAATTTCATGTTTTCGGGTTTTC
17083303 -
63 A
** ** *
17083303 AAAAAATTTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGGGTTTTCAA
1 AAAAAATTTCTCGTGTTTCAAAAATTCCCGTGTTTAAAAAAATTTCATGTTTTCGGGTTTTC-A
*
17083367 AAAAAAATTCTCGTGTTT
1 AAAAAATTTCTCGTGTTT
17083385 TTTAAAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
62 22 0.31
63 9 0.13
64 36 0.51
65 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (63 bp):
AAAAAATTTCTCGTGTTTCAAAAATTCCCGTGTTTAAAAAAATTTCATGTTTTCGGGTTTTCA
Found at i:17083326 original size:45 final size:44
Alignment explanation
Indices: 17083246--17083339 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
17083236 GAATAAAAAA
17083246 TTTT-GTGTTTTCAAAAATTCCCGTGTTTAAAAAAAAATTTCGTG
1 TTTTCGTGTTTTCAAAAATTCCCGTGTTT-AAAAAAAATTTCGTG
* * *
17083290 TTTTCGTGTTTTCAAAAAATTTCTCGTGTTT-CAAAAATTTTCGTG
1 TTTTCGTGTTTTC-AAAAA-TTCCCGTGTTTAAAAAAAATTTCGTG
17083335 TTTTC
1 TTTTC
17083340 AAAATTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
44 4 0.09
45 25 0.57
46 5 0.11
47 10 0.23
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (44 bp):
TTTTCGTGTTTTCAAAAATTCCCGTGTTTAAAAAAAATTTCGTG
Found at i:17083333 original size:17 final size:18
Alignment explanation
Indices: 17083290--17083553 Score: 119
Period size: 18 Copynumber: 14.1 Consensus size: 18
17083280 AAATTTCGTG
17083290 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
17083309 TTTCTCGTG-TTTCAAAAA
1 TTT-TCGTGTTTTCAAAAA
17083327 TTTTCGTGTTTTCAAAATTTTCA
1 TTTTCGTGTTTTCAAAA-----A
*
17083350 TGTTTTCGGGTTTTCAAAAAAAAA
1 --TTTTCGTGTTTTC----AAAAA
* *
17083374 TTCTCGTGTTTTTTAAAAA
1 TTTTCGTG-TTTTCAAAAA
*** * *
17083393 AAATCGTATTTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
*** * *
17083411 AAATCATGTTTTCGAAAA
1 TTTTCGTGTTTTCAAAAA
* *
17083429 -TTTCGTATTTTCAAAAT
1 TTTTCGTGTTTTCAAAAA
17083446 TTTTCGTG---TCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* * *
17083462 TTCTCATG-TATCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
17083479 TTTCCTTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
17083497 TATTCCGTGTTTTCAAAAAA
1 T-TTTCGTGTTTTC-AAAAA
*
17083517 ATTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
17083534 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
17083552 TT
1 TT
17083554 ATTATTGTGT
Statistics
Matches: 190, Mismatches: 33, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.01
16 10 0.05
17 37 0.19
18 70 0.37
19 33 0.17
20 10 0.05
22 6 0.03
23 5 0.03
24 1 0.01
25 12 0.06
29 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:17083344 original size:98 final size:99
Alignment explanation
Indices: 17083160--17083356 Score: 238
Period size: 98 Copynumber: 2.0 Consensus size: 99
17083150 TAATAATAAT
* * * *
17083160 AAAATTTCCCGTGTTTCAAAAAATATATTCGTGTTTCTTTCTTTTAAAAAAAATTTCGTGTTTCA
1 AAAAATTCCCGTGTTTAAAAAAAAATATTCGTGTTTCTGTCTTTTAAAAAAAATTTCGTGTTTCA
*
17083225 AAAATTCTCGTGAATAAAAAATTTT-GTGTTTTC
66 AAAATTCTCGTGAATAAAAAATTTTCATGTTTTC
* * *
17083258 AAAAATTCCCGTGTTTAAAAAAAAAT-TTCGTGTTT-TCGTGTTTTCAAAAAATTTCTCGTGTTT
1 AAAAATTCCCGTGTTTAAAAAAAAATATTCGTGTTTCT-GTCTTTTAAAAAAAATT-TCGTGTTT
* ** **
17083321 CAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTC
64 CAAAAATTCTCGTGAATAAAAAATTTTCATGTTTTC
17083357 GGGTTTTCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
96 1 0.01
97 22 0.27
98 53 0.64
99 7 0.08
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (99 bp):
AAAAATTCCCGTGTTTAAAAAAAAATATTCGTGTTTCTGTCTTTTAAAAAAAATTTCGTGTTTCA
AAAATTCTCGTGAATAAAAAATTTTCATGTTTTC
Found at i:17083549 original size:36 final size:37
Alignment explanation
Indices: 17083474--17083569 Score: 113
Period size: 37 Copynumber: 2.5 Consensus size: 37
17083464 CTCATGTATC
*
17083474 AAAAATTTCCTTGTTTTCAAAAATATTCCGTGTTTTCAA
1 AAAAATTT-CGTG-TTTCAAAAATATTCCGTGTTTTCAA
*
17083513 AAAAATTTCGTGTTTCAAAAATCTT-CGTGTTTTCAA
1 AAAAATTTCGTGTTTCAAAAATATTCCGTGTTTTCAA
* *
17083549 AAATTATTATTGTGTTTCAAA
1 AAA-AATT-TCGTGTTTCAAA
17083570 GTTCTCGTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
36 14 0.27
37 15 0.29
38 14 0.27
39 8 0.16
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (37 bp):
AAAAATTTCGTGTTTCAAAAATATTCCGTGTTTTCAA
Found at i:17090685 original size:17 final size:16
Alignment explanation
Indices: 17090663--17090719 Score: 75
Period size: 15 Copynumber: 3.7 Consensus size: 16
17090653 TATTATGCCT
*
17090663 AAAAAAAACAACACAC
1 AAAAAAAACAACACAA
17090679 AAAAAAAA-AACA-AA
1 AAAAAAAACAACACAA
17090693 AACAAAAAACAA-ACAA
1 AA-AAAAAACAACACAA
17090709 AAAAAAAACAA
1 AAAAAAAACAA
17090720 AAAGAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 3 0.08
15 20 0.54
16 14 0.38
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAACACAA
Found at i:17090693 original size:11 final size:11
Alignment explanation
Indices: 17090679--17090737 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
17090669 AACAACACAC
17090679 AAAAAA-AAAA
1 AAAAAACAAAA
*
17090689 CAAAAACAAAA
1 AAAAAACAAAA
*
17090700 AACAAACAAAA
1 AAAAAACAAAA
17090711 AAAAAACAAAA
1 AAAAAACAAAA
* *
17090722 AGAAAAGAAAGA
1 AAAAAACAAA-A
17090734 AAAA
1 AAAA
17090738 TCAAGACGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 5 0.12
11 31 0.77
12 4 0.10
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:17090703 original size:28 final size:27
Alignment explanation
Indices: 17090663--17090727 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
17090653 TATTATGCCT
* *
17090663 AAAAAAAACAACACACAAAAAAAAAAC
1 AAAAAAAAAAACAAACAAAAAAAAAAC
17090690 AAAAACAAAAAACAAACAAAAAAAAAAC
1 AAAAA-AAAAAACAAACAAAAAAAAAAC
*
17090718 AAAAAGAAAA
1 AAAAAAAAAA
17090728 GAAAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.85, C:0.14, G:0.02, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAACAAACAAAAAAAAAAC
Found at i:17090727 original size:15 final size:14
Alignment explanation
Indices: 17090663--17090737 Score: 71
Period size: 15 Copynumber: 5.2 Consensus size: 14
17090653 TATTATGCCT
*
17090663 AAAAAAAACAACACA
1 AAAAAAAAAAACA-A
*
17090678 CAAAAAAAAAAC-A
1 AAAAAAAAAAACAA
*
17090691 AAAACAAAAAACAA
1 AAAAAAAAAAACAA
17090705 ACAAAAAAAAAACAA
1 A-AAAAAAAAAACAA
* *
17090720 AAAGAAAAGAAAGAA
1 AAA-AAAAAAAACAA
17090735 AAA
1 AAA
17090738 TCAAGACGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 11 0.22
14 4 0.08
15 35 0.70
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:17090727 original size:17 final size:17
Alignment explanation
Indices: 17090663--17090727 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
17090653 TATTATGCCT
*
17090663 AAAAAAAACAACACACAA
1 AAAAAAAACAA-AAACAA
17090681 AAAAAAAACAAAAACAA
1 AAAAAAAACAAAAACAA
*
17090698 AAAACAAACAAAAA-AA
1 AAAAAAAACAAAAACAA
*
17090714 AAACAAAAAGAAAA
1 AAA-AAAAACAAAA
17090728 GAAAGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
16 5 0.12
17 26 0.62
18 11 0.26
ACGTcount: A:0.85, C:0.14, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAACAA
Found at i:17090737 original size:22 final size:22
Alignment explanation
Indices: 17090663--17090722 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
17090653 TATTATGCCT
* * *
17090663 AAAAAAAACAACACACAAAAAAA
1 AAAAAAAACAAAAAAC-AAACAA
17090686 AAACAAAAACAAAAAACAAACAA
1 AAA-AAAAACAAAAAACAAACAA
17090709 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
17090723 GAAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.33
23 11 0.33
24 11 0.33
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAAAAACAAACAA
Found at i:17091923 original size:82 final size:80
Alignment explanation
Indices: 17091608--17092831 Score: 1207
Period size: 77 Copynumber: 15.5 Consensus size: 80
17091598 TTTTTTTTTT
* * * * *
17091608 AAATCAACTCATAATAC-AGAGATGAGTTGAGCCTCAGGT-CACGCTGAGGTATTTTTAATT-TA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTT--TTAAA
* ****
17091670 TGTCTTTTTTTAAAAAA
64 TTTCTTTTTTTTTTCAA
* ** *
17091687 AAATCAACTCATAAT-ATAGAGATGAGTTGAGCCTCGGGGGT-CACGCTGAGGTA--TTTTT-AA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGGTCCACGCTGAGGTATTTTTTTAAA
* *
17091747 TTTCGGTCTTTTTTT-AA
64 TTTC-TTTTTTTTTTCAA
* * * *
17091764 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTTGGGTCGCACACTGAGGTATTTTTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA-TTTTTTTAAA
17091828 TTTCTATTTTTTTTTCAA
64 TTTCT-TTTTTTTTTCAA
* * *
17091846 AAATCAACTCATATTGCAATAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAAT
*
17091910 TTCTGTTTGTTTTTCAA
65 TTCT-TTTTTTTTTCAA
**
17091927 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTGTACGCTGAGGTATTTTTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TCCACGCTGAGGTA-TTTTTTTAAA
*
17091992 TTTCTATTTTTTTTCAA
64 TTTCTTTTTTTTTTCAA
* *
17092009 AAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA-TTTTTTTAAA
17092074 TTTCTGTTTTTTTTTCAA
64 TTTCT-TTTTTTTTTCAA
*
17092092 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTT---A
*
17092157 AATTTCTATTTTTTTT---
62 AATTTCTTTTTTTTTTCAA
* *** * *
17092173 AAATAAACTCATATAATGAGAAGTGAGTTGAGTCTCGGGTCGCACGCTGAGGTATTTTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAAT
17092238 TTCTATTTTTTTTTCAA
65 TTCT-TTTTTTTTTCAA
* ** *
17092255 AAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGTCACATACCGAGGTATTTTTTTAAA-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAAT
* *
17092319 -T-TTATGTTTTTCAA
65 TTCTTTTTTTTTTCAA
* * * * *
17092333 AGATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
* * ****
17092397 TTATGTTTTTCAAAAA
65 TTCTTTTTTTTTTCAA
* * * *
17092413 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
*
17092477 TTC---TGTTTTTCAA
65 TTCTTTTTTTTTTCAA
* * * * *
17092490 AAATCAACTCATATTTCAAGAGATGAGTTGAGCCTCGGGT-CACGCCGAGGTA--TTTTTCAA-T
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATT
* *
17092551 TC--ATGTTTTTCAA
66 TCTTTTTTTTTTCAA
* * * *
17092564 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
*
17092628 TTC---TGTTTTTCAA
65 TTCTTTTTTTTTTCAA
* * * *
17092641 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
*
17092705 TTC---TGTTTTTCAA
65 TTCTTTTTTTTTTCAA
*
17092718 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTA--TTTTTCAA-T
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATT
* *
17092779 TC-ATGTTTTTTCAA
66 TCTTTTTTTTTTCAA
*
17092793 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
17092832 GCACATGTCG
Statistics
Matches: 1009, Mismatches: 96, Indels: 84
0.85 0.08 0.07
Matches are distributed among these distances:
73 8 0.01
74 65 0.06
75 52 0.05
76 15 0.01
77 246 0.24
78 63 0.06
79 46 0.05
80 77 0.08
81 158 0.16
82 153 0.15
83 110 0.11
84 8 0.01
85 8 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (80 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATT
TCTTTTTTTTTTCAA
Found at i:17092086 original size:246 final size:237
Alignment explanation
Indices: 17091608--17092831 Score: 1226
Period size: 246 Copynumber: 5.2 Consensus size: 237
17091598 TTTTTTTTTT
* * *
17091608 AAATCAACTCATAATAC-AG-AGATGAGTTGAGCCTCAGGT-CACGCTGAGGTA--TTTTT-AAT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAAT
* * ** * *
17091667 TTATGTCTTTTTTTAAAAAAAAATCAACTCATAAT-ATAGAGATGAGTTGAGCCTCGGGGGTCAC
65 TTCTGT-TTTTTTT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAG-CAC
* *
17091731 GCTGAGGTA---TTTTT-AATTTCGGTCTTTTTTT-AAAAATCAACTCATAATAC-AGAGGTGAG
125 GCTGAGGTATTTTTTTTAAATTTC--T-TTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAG
* * *
17091790 TTGAGCCTTGGGTCGCACACTGAGGTATTTTTTTTAAATTTCTATTTTTTTTTCAA
187 TTGAGCCTCGGGTC-CACGCTGAGGTA-TTTTTTTAAATTTC---TGTTTTTTCAA
* *
17091846 AAATCAACTCATATTGCAATAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTTTAAAT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAAT
* * *
17091910 TTCTGTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTGTACGCT
65 TTCTGTTT-TTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-AGCACGCT
*
17091975 GAGGTATTTTTTTTAAATTTCTATTTTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGA
128 GAGGTATTTTTTTTAAATTTC--TTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
17092040 GCCTCGGGTCGCACGCTGAGGTATTTTTTTTAAATTTCTGTTTTTTTTTCAA
191 GCCTCGGGTC-CACGCTGAGGTA-TTTTTTTAAATTTCTG---TTTTTTCAA
17092092 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAA
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTT---A
* * *** * * *
17092157 AATTTCTATTTTTTTT---AAATAAACTCATATAATGAGAAGTGAGTTGAGTCTCGGGTCGCACG
62 AATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-AGCACG
*
17092219 CTGAGGTA-TTTTTTTAAATTTCTATTTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
126 CTGAGGTATTTTTTTTAAATTTC---TTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGT
* ** * *
17092283 TGAGGCTCGGGTCACATACCGAGGTATTTTTTTAAATTTATG-TTTTTCAA
188 TGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTCAA
* * * * * *
17092333 AGATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
* *** * * * *
17092397 TTATGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGA
65 TTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGCACGCTGA
* * * *
17092461 GGTATTTCTTTTAAATTTC-TGTTTTTCAAAAATCAACTCATATTTCAAGAGATGAGTTGAGCCT
130 GGTATTTTTTTTAAATTTCTTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
* *
17092525 CGGGT-CACGCCGAGGTA--TTTTTCAA-TTCATG-TTTTTCAA
195 CGGGTCCACGCTGAGGTATTTTTTTAAATTTC-TGTTTTTTCAA
* * * * *
17092564 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAAT
* * * * *
17092628 TTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGA
65 TTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGCACGCTGA
* * *
17092689 GGTATTTCTTTTAAATTTC-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
130 GGTATTTTTTTTAAATTTCTTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
*
17092753 CGGGT-CACGCTGAGGTA--TTTTTCAA-TTCATGTTTTTTCAA
195 CGGGTCCACGCTGAGGTATTTTTTTAAATTTC-TGTTTTTTCAA
* *
17092793 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG
17092832 GCACATGTCG
Statistics
Matches: 870, Mismatches: 85, Indels: 70
0.85 0.08 0.07
Matches are distributed among these distances:
228 143 0.16
229 42 0.05
230 4 0.00
231 84 0.10
233 10 0.01
235 45 0.05
237 12 0.01
238 25 0.03
239 45 0.05
240 54 0.06
241 84 0.10
242 8 0.01
243 14 0.02
244 12 0.01
245 53 0.06
246 213 0.24
247 6 0.01
249 5 0.01
250 11 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (237 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATT
TCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGCACGCTGAG
GTATTTTTTTTAAATTTCTTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
GGGTCCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTCAA
Found at i:17093151 original size:29 final size:30
Alignment explanation
Indices: 17093118--17093202 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
17093108 TAACCCCTGT
*
17093118 ACTTTTC-AAAATTTATATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
17093147 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCC-AA
17093178 AC-TTTCTAAAA-TTACATTTTGACCC
1 ACTTTTCTAAAATTTACATTTTGACCC
17093203 TTAGACTTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 21 0.40
30 28 0.53
31 4 0.08
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAA
Found at i:17093210 original size:29 final size:28
Alignment explanation
Indices: 17093121--17093287 Score: 131
Period size: 29 Copynumber: 5.7 Consensus size: 28
17093111 CCCCTGTACT
* *
17093121 TTTC-AAAATTTATATTTTGACCCCAAAC
1 TTTCTAAAA-TTACATTTTGACCCTAAAC
*
17093149 TTTTCTAAAATTTACATTTTGACCCCAAAAC
1 -TTTCTAAAA-TTACATTTTGA-CCCTAAAC
*
17093180 TTTCTAAAATTACATTTTGACCCTTAGAC
1 TTTCTAAAATTACATTTTGACCC-TAAAC
* * *
17093209 TTTCTCAAAATTGCACTTTAACCCTAAAC
1 TTTCT-AAAATTACATTTTGACCCTAAAC
** * *
17093238 TTTCTAGAAATTACGCTTT-AGCCCTATAT
1 TTTCTA-AAATTACATTTTGA-CCCTAAAC
17093267 TTTCCTAAAATTACACTTTTG
1 TTT-CTAAAATTACA-TTTTG
17093288 CCCCAGAAGC
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
28 5 0.04
29 58 0.50
30 45 0.39
31 7 0.06
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.40
Consensus pattern (28 bp):
TTTCTAAAATTACATTTTGACCCTAAAC
Found at i:17094471 original size:20 final size:20
Alignment explanation
Indices: 17094443--17094480 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17094433 GAAAATATTC
*
17094443 AAAATTCCTCGTATTTCAAT
1 AAAAATCCTCGTATTTCAAT
*
17094463 AAAAATCCTCGTGTTTCA
1 AAAAATCCTCGTATTTCA
17094481 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (20 bp):
AAAAATCCTCGTATTTCAAT
Found at i:17094630 original size:17 final size:17
Alignment explanation
Indices: 17094603--17094648 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
17094593 AAAAAAATCG
17094603 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
17094620 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
17094638 TGTTTCAAAAT
1 TGTTTCAAAAT
17094649 AATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:17094659 original size:28 final size:27
Alignment explanation
Indices: 17094627--17094679 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
17094617 TCATGTCTTC
*
17094627 AAAATTTCTCGTGTTTCAAAATAATAAT
1 AAAATTTCCCGTGTTTCAAAA-AATAAT
17094655 AAAATTTCCCGTGTTTCAAAAAATA
1 AAAATTTCCCGTGTTTCAAAAAATA
17094680 TATTCGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (27 bp):
AAAATTTCCCGTGTTTCAAAAAATAAT
Found at i:17094730 original size:17 final size:17
Alignment explanation
Indices: 17094702--17094771 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
17094692 TTTCTTTAAA
17094702 AAAAATTC-CGTGTTTC
1 AAAAATTCTCGTGTTTC
** *
17094718 AAAAATTCTCGTGAATA
1 AAAAATTCTCGTGTTTC
17094735 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
*
17094752 AAAAATTCCCGTGTTT-
1 AAAAATTCTCGTGTTTC
17094768 AAAA
1 AAAA
17094772 TTTTTTTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 17 0.39
17 23 0.52
18 4 0.09
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:17094771 original size:34 final size:33
Alignment explanation
Indices: 17094701--17094764 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
17094691 CTTTCTTTAA
*
17094701 AAAAAATTCCGTGTTTCAAAAATTCTCGTGAAT
1 AAAAAATTCCGTGTTTCAAAAATTCCCGTGAAT
*
17094734 AAAAAATTTCGTGTTTTCAAAAATTCCCGTG
1 AAAAAATTCCGTG-TTTCAAAAATTCCCGTG
17094765 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (33 bp):
AAAAAATTCCGTGTTTCAAAAATTCCCGTGAAT
Found at i:17094837 original size:18 final size:18
Alignment explanation
Indices: 17094785--17095044 Score: 115
Period size: 17 Copynumber: 14.1 Consensus size: 18
17094775 TTTTTTCGTG
17094785 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
17094804 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
17094821 TTTTCGTGTTTTCAAAATTTTCA
1 TTTTCGTGTTTTCAAAA-----A
17094844 TGTTTTCGTGTTTTCAAAAAAA
1 --TTTTCGTGTTTTC--AAAAA
* * *
17094866 ATCTCGTGTTTTTTAAAAA
1 TTTTCGTG-TTTTCAAAAA
*** *
17094885 AAATCGTATTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
** * *
17094902 AATTCATGTTTTC-GAAA
1 TTTTCGTGTTTTCAAAAA
* *
17094919 TTTTCGT-ATTTCAAAATT
1 TTTTCGTGTTTTCAAAA-A
17094937 TTTTCGTG---TCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* * * *
17094953 TTCTCATG-TATCGAAAA
1 TTTTCGTGTTTTCAAAAA
* *
17094970 TTTCCTTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
17094989 ATTCCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
17095008 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
17095025 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
17095043 TT
1 TT
17095045 ATTATTGTGT
Statistics
Matches: 187, Mismatches: 33, Indels: 43
0.71 0.13 0.16
Matches are distributed among these distances:
16 12 0.06
17 64 0.34
18 34 0.18
19 48 0.26
20 6 0.03
21 4 0.02
22 1 0.01
23 1 0.01
25 13 0.07
27 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:17094874 original size:20 final size:21
Alignment explanation
Indices: 17094849--17094889 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17094839 TTTCATGTTT
17094849 TCGTG-TTTTCAAAAAAAATC
1 TCGTGTTTTTCAAAAAAAATC
*
17094869 TCGTGTTTTTTAAAAAAAATC
1 TCGTGTTTTTCAAAAAAAATC
17094890 GTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
TCGTGTTTTTCAAAAAAAATC
Found at i:17094910 original size:64 final size:61
Alignment explanation
Indices: 17094783--17094915 Score: 167
Period size: 64 Copynumber: 2.1 Consensus size: 61
17094773 TTTTTTTTCG
* *** * * **
17094783 TGTTTTCGTGTTTTCAAAAAATTCTCGTGTTTTAAAAATTTTCGTGTTTTCAAAATTTTCA
1 TGTTTTCGTGTTTTCAAAAAAATCTCGTGTTTTAAAAAAAATCGTATTTTAAAAAAATTCA
17094844 TGTTTTCGTGTTTTCAAAAAAAATCTCGTGTTTTTTAAAAAAAATCGTATTTTAAAAAAATTCA
1 TGTTTTCGTGTTTTC-AAAAAAATCTCGTG--TTTTAAAAAAAATCGTATTTTAAAAAAATTCA
17094908 TGTTTTCG
1 TGTTTTCG
17094916 AAATTTTCGT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
61 15 0.25
62 13 0.21
64 33 0.54
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (61 bp):
TGTTTTCGTGTTTTCAAAAAAATCTCGTGTTTTAAAAAAAATCGTATTTTAAAAAAATTCA
Found at i:17096594 original size:7 final size:7
Alignment explanation
Indices: 17096584--17096649 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
17096574 AAAGTTAAAA
17096584 TATATAT
1 TATATAT
17096591 TATAATAT
1 TAT-ATAT
17096599 TATAATAT
1 TAT-ATAT
*
17096607 TATATCT
1 TATATAT
17096614 TA-ATTAT
1 TATA-TAT
17096621 TAAGTATAT
1 T-A-TATAT
17096630 ATATTATAT
1 -TA-TATAT
17096639 TATATAT
1 TATATAT
17096646 TATA
1 TATA
17096650 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:17096600 original size:8 final size:8
Alignment explanation
Indices: 17096587--17096652 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
17096577 GTTAAAATAT
17096587 ATATTATA
1 ATATTATA
17096595 ATATTATA
1 ATATTATA
17096603 ATATTAT-
1 ATATTATA
*
17096610 ATCTTA-A
1 ATATTATA
*
17096617 TTATTA-A
1 ATATTATA
*
17096624 GTATATATATT
1 --ATAT-TATA
17096635 ATATTAT-
1 ATATTATA
17096642 ATATTATA
1 ATATTATA
17096650 ATA
1 ATA
17096653 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:17096619 original size:27 final size:26
Alignment explanation
Indices: 17096584--17096652 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
17096574 AAAGTTAAAA
17096584 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
17096612 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
17096639 TATATATTATAATA
1 TATATATTATAATA
17096653 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:17096662 original size:30 final size:32
Alignment explanation
Indices: 17096594--17096662 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
17096584 TATATATTAT
* *
17096594 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
17096627 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
17096657 AATATA
1 AATATA
17096663 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:17096695 original size:20 final size:21
Alignment explanation
Indices: 17096665--17096712 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
17096655 TAAATATAAT
17096665 AAATA-AAAGAAACA-AAAAG
1 AAATAGAAAGAAACAGAAAAG
*
17096684 AAATAGAAAGAAACAGAATAG
1 AAATAGAAAGAAACAGAAAAG
17096705 AAAT-GAAA
1 AAATAGAAA
17096713 TAGGGAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.08
Consensus pattern (21 bp):
AAATAGAAAGAAACAGAAAAG
Found at i:17099113 original size:89 final size:91
Alignment explanation
Indices: 17098944--17099139 Score: 254
Period size: 89 Copynumber: 2.2 Consensus size: 91
17098934 TTTAAGGGTG
* * *** * *
17098944 CAAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGACCTTGTTTTTCTTTTTGCACTCATT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGACCCTGACCTTCTTTTTGCACCCAAT
*
17099008 TGGGTACTTGAACTTTCAAAATGCAT
66 TAGGTACTTGAACTTTCAAAATGCAT
* *
17099034 CAAAAAGATCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCT-ACCTT-TTTTTGCACCCAAT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGACCCTGACCTTCTTTTTGCACCCAAT
*
17099097 TAGGTACTTGAACTTTCAAAATGTAT
66 TAGGTACTTGAACTTTCAAAATGCAT
* *
17099123 TAAAAAAACCCTCAAAC
1 CAAAAAGACCCTCAAAC
17099140 TTAAAAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 50 0.55
90 9 0.10
91 32 0.35
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (91 bp):
CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGACCCTGACCTTCTTTTTGCACCCAAT
TAGGTACTTGAACTTTCAAAATGCAT
Found at i:17099262 original size:9 final size:9
Alignment explanation
Indices: 17099249--17099347 Score: 65
Period size: 9 Copynumber: 10.6 Consensus size: 9
17099239 AGAAATTTAT
17099249 TAAAAATTA
1 TAAAAATTA
*
17099258 GAAAAA-TA
1 TAAAAATTA
*
17099266 TAAAAATCA
1 TAAAAATTA
*
17099275 TAAAAAATA
1 TAAAAATTA
*
17099284 TAAAAATTTG
1 TAAAAA-TTA
*
17099294 TAAAATTTTA
1 TAAAA-ATTA
17099304 TAAAAATCGTA
1 TAAAAAT--TA
* *
17099315 AAAAAAATA
1 TAAAAATTA
*
17099324 TAGAAATATA
1 TAAAAAT-TA
*
17099334 AAAAAATTA
1 TAAAAATTA
17099343 TAAAA
1 TAAAA
17099348 TTTTATAAAG
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
8 7 0.11
9 32 0.48
10 20 0.30
11 7 0.11
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17099271 original size:18 final size:17
Alignment explanation
Indices: 17099224--17099291 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 17
17099214 AATTTTAATA
* *
17099224 AAAAATTTAAATATTAG
1 AAAAATATAAAAATTAG
**
17099241 AAATTTATTAAAAATTAG
1 AAAAATA-TAAAAATTAG
17099259 AAAAATATAAAAATCATA-
1 AAAAATATAAAAAT--TAG
17099277 AAAAATATAAAAATT
1 AAAAATATAAAAATT
17099292 TGTAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.02
17 11 0.26
18 28 0.67
19 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAATATAAAAATTAG
Found at i:17099297 original size:10 final size:10
Alignment explanation
Indices: 17099241--17099356 Score: 57
Period size: 10 Copynumber: 12.1 Consensus size: 10
17099231 TAAATATTAG
17099241 AAATTTATTAA
1 AAATTTA-TAA
*
17099252 AAA-TTAGAA
1 AAATTTATAA
17099261 AAA--TATAA
1 AAATTTATAA
*
17099269 AAA-TCATAA
1 AAATTTATAA
*
17099278 AAA-ATATAA
1 AAATTTATAA
*
17099287 AAATTTGTAA
1 AAATTTATAA
*
17099297 AATTTTATAA
1 AAATTTATAA
*
17099307 AAATCGTA-AA
1 AAAT-TTATAA
** *
17099317 AAAAATATAG
1 AAATTTATAA
*
17099327 AAATATA-AA
1 AAATTTATAA
*
17099336 AAAATTATAA
1 AAATTTATAA
*
17099346 AATTTTATAA
1 AAATTTATAA
17099356 A
1 A
17099357 GTCGTAAGAA
Statistics
Matches: 80, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
8 7 0.09
9 27 0.34
10 41 0.51
11 5 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
AAATTTATAA
Found at i:17099333 original size:48 final size:48
Alignment explanation
Indices: 17099279--17099373 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
17099269 AAATCATAAA
* *
17099279 AAATAT-AAAAATTTGTAAAATTTTATAAAAATCGTAAAAAAAATATAG
1 AAATATAAAAAAATTATAAAATTTTAT-AAAATCGTAAAAAAAATATAG
* * *
17099327 AAATATAAAAAAATTATAAAATTTTATAAAGTCGTAAGAAAATTATA
1 AAATATAAAAAAATTATAAAATTTTATAAAATCGTAAAAAAAATATA
17099374 CAAAATGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 23 0.56
49 18 0.44
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (48 bp):
AAATATAAAAAAATTATAAAATTTTATAAAATCGTAAAAAAAATATAG
Found at i:17099335 original size:19 final size:18
Alignment explanation
Indices: 17099313--17099348 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17099303 ATAAAAATCG
17099313 TAAAAAAAATATAGAAATA
1 TAAAAAAAATATA-AAATA
*
17099332 TAAAAAAATTATAAAAT
1 TAAAAAAAATATAAAAT
17099349 TTTATAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAAAAAAATATAAAATA
Found at i:17099336 original size:38 final size:37
Alignment explanation
Indices: 17099264--17099336 Score: 85
Period size: 38 Copynumber: 1.9 Consensus size: 37
17099254 ATTAGAAAAA
* *
17099264 TATAAAAATCATAAAAAATATAAAAATTTGTAAAATTT
1 TATAAAAATCAAAAAAAATATAAAAA-TTATAAAATTT
*
17099302 TATAAAAATCGTAAAAAAAATATAGAAA-TATAAAA
1 TATAAAAATC--AAAAAAAATATAAAAATTATAAAA
17099337 AAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
38 16 0.53
40 14 0.47
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (37 bp):
TATAAAAATCAAAAAAAATATAAAAATTATAAAATTT
Found at i:17099627 original size:35 final size:35
Alignment explanation
Indices: 17099560--17099630 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
17099550 GTCGTTAAAT
* * *
17099560 TTTTTTATGATTTTTATAAAATTTTAATATTTTTA
1 TTTTTTACGATTTTTATAAAAATTCAATATTTTTA
17099595 TTTTTTACGATTTTTATAAAAAATTCCAAT-TTTTTA
1 TTTTTTACGATTTTTAT-AAAAATT-CAATATTTTTA
17099631 ATAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 16 0.52
36 12 0.39
37 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (35 bp):
TTTTTTACGATTTTTATAAAAATTCAATATTTTTA
Found at i:17099761 original size:88 final size:88
Alignment explanation
Indices: 17099662--17099833 Score: 220
Period size: 89 Copynumber: 2.0 Consensus size: 88
17099652 ATAAGAGCAT
* * *
17099662 GGGCTTAATTGC-TTTTTTGAAAAACTTGGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTAC
1 GGGCTTAATTGCTTTTTTTGAAAAACTTGGAAGGCCTTTCTGATGCATTTTAAAAGTTCAAGTAC
*
17099726 CCAATTGAGTGATAGAAAAAGCCG
66 CCAATTGAGT-ATAAAAAAAGCCG
* * * * * * *
17099750 GGGCTTAATTGCTTTTTTTTAAGAAGTTTGAAGGCCTTTCTGATGTATTTTGAAAGTTCAAGTGC
1 GGGCTTAATTGCTTTTTTTGAAAAACTTGGAAGGCCTTTCTGATGCATTTTAAAAGTTCAAGTAC
*
17099815 TCAATTGAGTATAAAAAAA
66 CCAATTGAGTATAAAAAAA
17099834 TAGGGACTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 20 0.28
89 51 0.72
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (88 bp):
GGGCTTAATTGCTTTTTTTGAAAAACTTGGAAGGCCTTTCTGATGCATTTTAAAAGTTCAAGTAC
CCAATTGAGTATAAAAAAAGCCG
Found at i:17101432 original size:21 final size:18
Alignment explanation
Indices: 17101400--17101439 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17101390 ATTTAGATGC
17101400 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
17101420 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
17101439 A
1 A
17101440 ACAAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:17103246 original size:50 final size:50
Alignment explanation
Indices: 17103176--17103447 Score: 216
Period size: 50 Copynumber: 5.5 Consensus size: 50
17103166 TGCATCGCCT
* *
17103176 GGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCACTGTTGTAGCTTCGATCTTTTAAATTGCAATGTCGG
* * * ** * *
17103226 GGAAGTGAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGC-A--TCGCC
1 GGAAGTAAGATTCACTGTTGTAGCTTCGATCTTTTAAATTGCAATGTCG-G
* *
17103274 AGAAGTAAGATTCACCGTTGTAGCTTCGATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCACTGTTGTAGCTTCGATCTTTTAAATTGCAATGTCGG
* ** * ** **** *
17103324 GGAAGTGAGATTCGTTGTTGTAGCTTCAATCTGCTCCGCTGC-A--TCGCC
1 GGAAGTAAGATTCACTGTTGTAGCTTCGATCTTTTAAATTGCAATGTCG-G
* * * *
17103372 AGAAGTAAGATTC-GTCGTTGTGGCTTCGATCCTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCACT-GTTGTAGCTTCGATCTTTTAAATTGCAATGTCGG
* *
17103422 GGAAGTGAGATTTACTGTTGTAGCTT
1 GGAAGTAAGATTCACTGTTGTAGCTT
17103448 TAATCTGCTC
Statistics
Matches: 163, Mismatches: 49, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
47 7 0.04
48 62 0.38
49 4 0.02
50 83 0.51
51 7 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (50 bp):
GGAAGTAAGATTCACTGTTGTAGCTTCGATCTTTTAAATTGCAATGTCGG
Found at i:17103304 original size:98 final size:98
Alignment explanation
Indices: 17103134--17103530 Score: 580
Period size: 98 Copynumber: 4.0 Consensus size: 98
17103124 CGAGGAAATA
* * * ** * *
17103134 AGATTCGCCGTTGCAGCTTCAATCTATTCCGTTGCATCGCCTGGAAGTAAGATTCACCGTTGTGG
1 AGATTCACTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCC-AGAAGTAAGATTCACCGTTGTGG
17103199 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
65 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * *
17103233 AGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAAGTAAGATTCACCGTTGTAGC
1 AGATTCACTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
17103298 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
** **
17103331 AGATTCGTTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGTCGTTGTGGC
1 AGATTCACTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
*
17103396 TTCGATCCTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * * *
17103429 AGATTTACTGTTGTAGCTTTAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCACTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
* *
17103494 TTCGATCTTCTT-AATTGCAATGTCAGGGAAGTA
66 TTCGATCTT-TTAAATTGCAATGTCGGGGAAGTG
17103527 AGAT
1 AGAT
17103531 CCGTTGTTNN
Statistics
Matches: 272, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
98 235 0.86
99 37 0.14
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (98 bp):
AGATTCACTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
Found at i:17122710 original size:21 final size:18
Alignment explanation
Indices: 17122678--17122717 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17122668 ATTTAGATGC
17122678 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
17122698 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
17122717 A
1 A
17122718 ACAAAACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:17126188 original size:9 final size:9
Alignment explanation
Indices: 17126174--17126239 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
17126164 TTGGGTAATT
17126174 TTCGGGTAA
1 TTCGGGTAA
17126183 TTCGGGTAA
1 TTCGGGTAA
*
17126192 TTTTCGGTTAA
1 --TTCGGGTAA
*
17126203 TTCGGTTAA
1 TTCGGGTAA
17126212 -TCGGGTAA
1 TTCGGGTAA
17126220 TTCGGGTAA
1 TTCGGGTAA
17126229 TTCGGGTAA
1 TTCGGGTAA
17126238 TT
1 TT
17126240 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.13
9 37 0.71
11 8 0.15
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:17126191 original size:20 final size:18
Alignment explanation
Indices: 17126174--17126239 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 18
17126164 TTGGGTAATT
17126174 TTCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAA
* *
17126192 TTTTCGGTTAATTCGGTTAA
1 --TTCGGGTAATTCGGGTAA
17126212 -TCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAA
17126229 TTCGGGTAATT
1 TTCGGGTAATT
17126240 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.37
18 10 0.24
20 16 0.39
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (18 bp):
TTCGGGTAATTCGGGTAA
Found at i:17129614 original size:153 final size:154
Alignment explanation
Indices: 17129383--17130350 Score: 1301
Period size: 153 Copynumber: 6.3 Consensus size: 154
17129373 TTTAGTGTGT
* * * * *
17129383 TTTTATTAAAAGTAATAAAAT--TCGAGAAAAAATAAGAACAAATGGCTGAAATAA-GATTTTTT
1 TTTT-TTAAAAGTAATAAAATCCTGGA-AAAAAATACGAACAAAGGGCCGAAAAAAGGATTTTTT
**
17129445 TTTAAATTTATTTAAAAAACACACT-AATGAATACATTTCAAACATAATGTACTAAAATAATGTA
64 TAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
17129509 AAATAATAAAATTAGAAAATAATATA
129 AAATAATAAAATTAGAAAATAATATA
*
17129535 TTTTTTAAAAGTAATAAAATCCTGGAAAAAAATACAAACAAAGGGCCGAAAAAAGGATTTTTTTA
1 TTTTTTAAAAGTAATAAAATCCTGGAAAAAAATACGAACAAAGGGCCGAAAAAAGGATTTTTTTA
* *
17129600 AAAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
66 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
17129664 ATAATAAAATTAGAAAATAATATA
131 ATAATAAAATTAGAAAATAATATA
*
17129688 TTTTTTAAAAGTAATAAAATCCTGGAAAAAAATACAAACAAAGGGCCGAAAAAAGGATTTTTTTA
1 TTTTTTAAAAGTAATAAAATCCTGGAAAAAAATACGAACAAAGGGCCGAAAAAAGGATTTTTTTA
* *
17129753 AAAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
66 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
17129817 ATAATAAAA-TACGAAAATAATATA
131 ATAATAAAATTA-GAAAATAATATA
* * * * *
17129841 TTTTTATTGAAATTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGGTTTTT
1 -TTTT-TTAAAAGTAATAAAATCCTGGAAAAAAATACGAACAAAGGGCCGAAA-AAAGGATTTTT
**
17129906 TTTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
63 TTAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
** *
17129971 AAAATAATAAAATGCGAAAATAACAT-
128 AAAATAATAAAATTAGAAAATAATATA
* * * * *
17129997 TTTTTT-AAAGTAATAAACT-CTGGGGAAAAAATACGAATAAATGGCCGAAATAAGGATTTTTTT
1 TTTTTTAAAAGTAATAAAATCCT-GGAAAAAAATACGAACAAAGGGCCGAAAAAAGGATTTTTTT
* *
17130060 AAAAATTTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
65 AAAAA-TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
** *
17130125 AAATAATAAAATGCGAAAATAATGTA
129 AAATAATAAAATTAGAAAATAATATA
* * * *
17130151 TTTTTATTGAAAGTAATAAAATCC-GGGAAAAAATACGAACAAAGAGCCGAAATAA-GAGTTTTT
1 -TTTT-TTAAAAGTAATAAAATCCTGGAAAAAAATACGAACAAAGGGCCGAAAAAAGGA-TTTTT
* * **
17130214 TT---AATTTATTTAAAAAACAAACTAAATGAATACATTTCAAACATAATCTACCGAAATAATGT
63 TTAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
*
17130276 AAAATAA-AAAA-TAG-AAATAGTATA
128 AAAATAATAAAATTAGAAAATAATATA
*
17130300 TTTTTTAAAAGTAATAAAATCC-GAGAAAAAAATACGAACAAATGGCC-AAAA
1 TTTTTTAAAAGTAATAAAATCCTG-GAAAAAAATACGAACAAAGGGCCGAAAA
17130351 TATTAACAAT
Statistics
Matches: 740, Mismatches: 57, Indels: 43
0.88 0.07 0.05
Matches are distributed among these distances:
147 21 0.03
148 24 0.03
149 8 0.01
150 1 0.00
151 20 0.03
152 112 0.15
153 354 0.48
154 6 0.01
155 53 0.07
156 58 0.08
157 82 0.11
158 1 0.00
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.29
Consensus pattern (154 bp):
TTTTTTAAAAGTAATAAAATCCTGGAAAAAAATACGAACAAAGGGCCGAAAAAAGGATTTTTTTA
AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
ATAATAAAATTAGAAAATAATATA
Found at i:17130096 original size:310 final size:308
Alignment explanation
Indices: 17129382--17130352 Score: 1391
Period size: 310 Copynumber: 3.2 Consensus size: 308
17129372 ATTTAGTGTG
* * *
17129382 TTTTTATTAAAAGTAATAAAAT-T-CGAGAAAAAATAAGAACAAATGGCTGAAATAA-GATTTTT
1 TTTTT-TTAAAAGTAATAAAATCTGGGA-AAAAAATACGAACAAATGGCCGAAATAAGGATTTTT
** * *
17129444 TTTTAAATTTATTTAAAAAACACACT-AATGAATACATTTCAAACATAATGTACTAAAATAATGT
64 TTAAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
* *
17129508 AAAATAATAAAATTA-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATCCTGGAAAAAAATAC
129 AAAATAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATAC
* * * ** * *
17129570 AAACAAAGGGCCGAAAAAAGGATTTTTTTAAAAATTTATTT-AAAAACACAGTAAATTAATACAT
193 GAACAAAGGGCCGAAATAAGGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACAT
17129634 TTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATA
258 TTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TAGAAAATAATA
* * *
17129686 TATTTTTTAAAAGTAATAAAATCCT-GGAAAAAAATACAAACAAAGGGCCGAAAAAAGGATTTTT
1 T-TTTTTTAAAAGTAATAAAAT-CTGGGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTT
*
17129750 TTAAAAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
64 TTAAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
*
17129814 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAATTAATAAAATCCGGGAAAAAAATACG
129 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACG
17129879 AACAAAGGGCCGAAATAAGGGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACAT
194 AACAAAGGGCCGAAATAA-GGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACAT
* *
17129944 TTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATGCGAAAATAACA
258 TTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT-AGAAAATAATA
* * *
17129996 TTTTTTT-AAAGTAATAAACTCTGGGGAAAAAATACGAATAAATGGCCGAAATAAGGATTTTTTT
1 TTTTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTT
17130060 AAAAATTTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
66 AAAAA-TTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
* *
17130125 AAATAATAAAATGCGAAAATAATGTATTTTTATTGAAAGTAATAAAATCCGGG-AAAAAATACGA
130 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGA
* * *
17130189 ACAAAGAGCCGAAATAAGAG--TTTTTTT-AATTTATTTAAAAAACAAACTAAATGAATACATTT
195 ACAAAGGGCCGAAATAAGGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACATTT
* ** *
17130251 CAAACATAATCTACCGAAATAATGTAAAATAA-AAAATAG-AAATAGTA
260 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATAGAAAATAATA
* * *
17130298 TATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACAAATGGCCAAAATA
1 T-TTTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACAAATGGCCGAAATA
17130353 TTAACAATTG
Statistics
Matches: 604, Mismatches: 47, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
302 7 0.01
303 7 0.01
304 62 0.10
305 102 0.17
306 90 0.15
307 6 0.01
308 100 0.17
309 60 0.10
310 170 0.28
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (308 bp):
TTTTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTT
AAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
AATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAA
CAAAGGGCCGAAATAAGGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACATTTC
AAACATAATGTACTAAAATAATGTAAAATAATAAAATAGAAAATAATA
Found at i:17130490 original size:11 final size:11
Alignment explanation
Indices: 17130474--17130514 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
17130464 AAAAATATTT
17130474 ATATTATTTTG
1 ATATTATTTTG
17130485 ATATTATTTT-
1 ATATTATTTTG
* *
17130495 ATTTTTTTTTG
1 ATATTATTTTG
17130506 -TATTATTTT
1 ATATTATTTT
17130515 TGTAAAAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (11 bp):
ATATTATTTTG
Found at i:17131864 original size:20 final size:21
Alignment explanation
Indices: 17131813--17131865 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
17131803 TCAATATGCA
* *
17131813 AAAATAAAATTTCTTAGATCG
1 AAAATTAATTTTCTTAGATCG
*
17131834 AAAATTGATTTTC-TAGATC-
1 AAAATTAATTTTCTTAGATCG
17131853 AAAACTTAATTTT
1 AAAA-TTAATTTT
17131866 AAAAGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (21 bp):
AAAATTAATTTTCTTAGATCG
Found at i:17136235 original size:14 final size:16
Alignment explanation
Indices: 17136206--17136237 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
17136196 AATTATATAT
17136206 TTTTTAAATGTTTTAA
1 TTTTTAAATGTTTTAA
17136222 TTTTT-AAT-TTTTAA
1 TTTTTAAATGTTTTAA
17136236 TT
1 TT
17136238 ATATATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTAAATGTTTTAA
Found at i:17136272 original size:2 final size:2
Alignment explanation
Indices: 17136261--17136294 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
17136251 CAAGCACACC
17136261 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17136295 CATTACATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17140104 original size:2 final size:2
Alignment explanation
Indices: 17140097--17140124 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17140087 GGGAATTATG
17140097 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17140125 ACGAACGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17146614 original size:21 final size:21
Alignment explanation
Indices: 17146588--17146627 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17146578 TTCACATCTG
*
17146588 CAACAAGGACTTCCTCCTCTC
1 CAACAAGAACTTCCTCCTCTC
*
17146609 CAACAATAACTTCCTCCTC
1 CAACAAGAACTTCCTCCTC
17146628 AACAGCAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.42, G:0.05, T:0.25
Consensus pattern (21 bp):
CAACAAGAACTTCCTCCTCTC
Found at i:17148390 original size:5 final size:5
Alignment explanation
Indices: 17148382--17148415 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
17148372 ACAAAAACAA
*
17148382 AAAAT AAAAT AAAAT AAAAT CAAAT AATAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAA
17148416 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:17151498 original size:23 final size:22
Alignment explanation
Indices: 17151455--17151512 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
17151445 AAATGGTATC
* *
17151455 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
17151476 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
17151499 TACATATCATATCT
1 TACAAATCATATCT
17151513 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:17151515 original size:19 final size:19
Alignment explanation
Indices: 17151468--17151538 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 19
17151458 AAATTAAATC
*
17151468 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
17151488 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
17151510 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
17151531 TCTAAGAT
1 TCTAAGAT
17151539 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.20
21 17 0.39
22 7 0.16
23 11 0.25
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:17152020 original size:44 final size:44
Alignment explanation
Indices: 17151968--17152074 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
17151958 TTCTGCTCTT
* * *
17151968 TGCAACTTCAGAGAGATAAGATCCA-AAGTTTTAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGAT-CATAAGCTTTAATCTGCTCCAC
* * **
17152012 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCATAAGCTTTAATCTGCTCCAC
*
17152056 TGCAACTTTAGGGAGATAA
1 TGCAACTTCAGGGAGATAA
17152075 AATTTTCCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATCATAAGCTTTAATCTGCTCCAC
Found at i:17152447 original size:44 final size:43
Alignment explanation
Indices: 17152381--17152497 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
17152371 GCTATTTTCC
** ** *
17152381 ACCTACTTTACTGCTGCTCAGGGAGATAGG-GTTAACGATCTTCA
1 ACCTACTCCACTGCTGC-CAGGGAGATAGGACCT-ACAATCTTCA
17152425 ACCTACTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCA
1 ACCTACTCCACTGCTG-CCAGGGAGATAGGACCTACAATCTTCA
* *
17152469 ATCTATTCCACTGCTGCCCAGGGAGATAG
1 ACCTACTCCACTGCTG-CCAGGGAGATAG
17152498 AATTCTNNNN
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 61 0.97
45 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (43 bp):
ACCTACTCCACTGCTGCCAGGGAGATAGGACCTACAATCTTCA
Found at i:17159983 original size:19 final size:21
Alignment explanation
Indices: 17159945--17159983 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
17159935 CCTTTTTTAA
*
17159945 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
17159966 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
17159984 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:17160186 original size:23 final size:21
Alignment explanation
Indices: 17160142--17160239 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
17160132 AAAGGGTATC
* *
17160142 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
17160163 TACAAAATCATATCTGCTAAGAT
1 TAC-AAATCATATCT-CTAAGAT
*
17160186 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17160205 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
17160226 TGCATATCATATCT
1 TACAAATCATATCT
17160240 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
19 16 0.25
20 1 0.02
21 22 0.34
22 16 0.25
23 10 0.15
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:17160203 original size:19 final size:19
Alignment explanation
Indices: 17160155--17160252 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
17160145 AAATTAAATC
*
17160155 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
17160175 TCTGCTAAGATTACATATCATA
1 --T-CTAAGATTACATATCATA
*
17160197 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
17160218 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
17160237 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
17160253 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
19 32 0.46
20 1 0.01
21 18 0.26
22 8 0.12
23 10 0.14
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:17160215 original size:21 final size:21
Alignment explanation
Indices: 17160189--17160251 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
17160179 CTAAGATTAC
17160189 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
17160210 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
17160229 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
17160250 AT
1 AT
17160252 CCTTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:17167373 original size:18 final size:18
Alignment explanation
Indices: 17167350--17167387 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17167340 CATAATTTAC
17167350 TAATGCAAATTATGTAAA
1 TAATGCAAATTATGTAAA
*
17167368 TAATGCAAATTATGTTAA
1 TAATGCAAATTATGTAAA
17167386 TA
1 TA
17167388 CTGAATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (18 bp):
TAATGCAAATTATGTAAA
Found at i:17174973 original size:16 final size:16
Alignment explanation
Indices: 17174952--17174984 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17174942 GGATTATGAA
17174952 CGACATCGACTGCACT
1 CGACATCGACTGCACT
17174968 CGACATCGACTGCACT
1 CGACATCGACTGCACT
17174984 C
1 C
17174985 CTGAGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.18
Consensus pattern (16 bp):
CGACATCGACTGCACT
Found at i:17175771 original size:22 final size:22
Alignment explanation
Indices: 17175743--17175784 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17175733 GGACAAGCAG
*
17175743 AGGTGCTAGTCAGACTGAGGTA
1 AGGTGCTACTCAGACTGAGGTA
*
17175765 AGGTGCTACTCAGATTGAGG
1 AGGTGCTACTCAGACTGAGG
17175785 AGAGGCAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (22 bp):
AGGTGCTACTCAGACTGAGGTA
Found at i:17179005 original size:40 final size:40
Alignment explanation
Indices: 17178961--17179083 Score: 201
Period size: 40 Copynumber: 3.1 Consensus size: 40
17178951 GAACTTTAAT
* * *
17178961 TTTATTAAACTCATCTTAGTTAATATTTGAGTTGCTGGAC
1 TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
* *
17179001 TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTCGAA
1 TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
17179041 TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
1 TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
17179081 TTT
1 TTT
17179084 CTTTTATTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
Found at i:17185552 original size:34 final size:34
Alignment explanation
Indices: 17185514--17185610 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 34
17185504 TAAAGTAATG
17185514 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
*
17185548 CATTA---AA--TT-AAGTTATGGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA--GTTAAGTTTGCAT
17185574 -A-TATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
17185606 CATTA
1 CATTA
17185611 AAATTAATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 28
0.61 0.03 0.36
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
27 3 0.06
28 8 0.17
29 14 0.30
30 8 0.17
31 3 0.06
33 1 0.02
34 7 0.15
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:17185723 original size:9 final size:9
Alignment explanation
Indices: 17185709--17185792 Score: 63
Period size: 9 Copynumber: 9.4 Consensus size: 9
17185699 TGCTTATTAA
17185709 GTTTAATGT
1 GTTTAATGT
17185718 GTTTAATGT
1 GTTTAATGT
17185727 GTTTTTAATGT
1 G--TTTAATGT
17185738 GTTT--TGT
1 GTTTAATGT
*
17185745 GTTTAATATGA
1 GTTT-A-ATGT
17185756 GTTTAAATGT
1 GTTT-AATGT
*
17185766 GATTAATGT
1 GTTTAATGT
17185775 -TTT--TGT
1 GTTTAATGT
17185781 -TTTAATGT
1 GTTTAATGT
17185789 GTTT
1 GTTT
17185793 GATTGTAGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 5 0.08
9 21 0.34
10 6 0.10
11 17 0.27
ACGTcount: A:0.21, C:0.00, G:0.20, T:0.58
Consensus pattern (9 bp):
GTTTAATGT
Found at i:17185735 original size:11 final size:11
Alignment explanation
Indices: 17185710--17185742 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17185700 GCTTATTAAG
17185710 TTTAATGTG--
1 TTTAATGTGTT
17185719 TTTAATGTGTT
1 TTTAATGTGTT
17185730 TTTAATGTGTT
1 TTTAATGTGTT
17185741 TT
1 TT
17185743 GTGTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
11 13 0.59
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:17187756 original size:45 final size:44
Alignment explanation
Indices: 17187697--17187804 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 44
17187687 AGCAATTAAG
*
17187697 TAACTAAAATGAGTTAAATAAAAGAAAGTCCA-ACAACTCAATTAC
1 TAACTAAGATGAGTT-AATAAAAGAAAGTCCAGA-AACTCAATTAC
* * *
17187742 TAACTAAGAGGAGTT--T--AATAAAGTCCAGAAACTCAATTAT
1 TAACTAAGATGAGTTAATAAAAGAAAGTCCAGAAACTCAATTAC
17187782 TAACTAAGATGAGTTTAATAAAA
1 TAACTAAGATGAG-TTAATAAAA
17187805 TTAAAGTTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
40 32 0.62
41 3 0.06
42 1 0.02
43 1 0.02
45 15 0.29
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (44 bp):
TAACTAAGATGAGTTAATAAAAGAAAGTCCAGAAACTCAATTAC
Found at i:17187765 original size:40 final size:40
Alignment explanation
Indices: 17187721--17187803 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
17187711 TAAATAAAAG
17187721 AAAGTCCA-ACAACTCAATTACTAACTAAGAGGAGTTTAAT
1 AAAGTCCAGA-AACTCAATTACTAACTAAGAGGAGTTTAAT
* *
17187761 AAAGTCCAGAAACTCAATTATTAACTAAGATGAGTTTAAT
1 AAAGTCCAGAAACTCAATTACTAACTAAGAGGAGTTTAAT
17187801 AAA
1 AAA
17187804 ATTAAAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (40 bp):
AAAGTCCAGAAACTCAATTACTAACTAAGAGGAGTTTAAT
Found at i:17199576 original size:20 final size:20
Alignment explanation
Indices: 17199553--17199592 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17199543 TTAGCTGTGT
17199553 TAGAAATCTTGGTGAGTGGG
1 TAGAAATCTTGGTGAGTGGG
17199573 TAGAAATCTTGGTGAGTGGG
1 TAGAAATCTTGGTGAGTGGG
17199593 ACACGTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.40, T:0.30
Consensus pattern (20 bp):
TAGAAATCTTGGTGAGTGGG
Found at i:17204995 original size:53 final size:53
Alignment explanation
Indices: 17204915--17205024 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
17204905 AAAGGGCACC
17204915 TCAATCTCAACACCCAAACATGTATAACTATATACTCAAATTGGCCATACTGT
1 TCAATCTCAACACCCAAACATGTATAACTATATACTCAAATTGGCCATACTGT
17204968 TCAATCTCAACACCCAAACATGTATAACTATATACTCAAATTGGCCATACTGT
1 TCAATCTCAACACCCAAACATGTATAACTATATACTCAAATTGGCCATACTGT
17205021 TCAA
1 TCAA
17205025 CTAACTTCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.28
Consensus pattern (53 bp):
TCAATCTCAACACCCAAACATGTATAACTATATACTCAAATTGGCCATACTGT
Found at i:17205964 original size:25 final size:25
Alignment explanation
Indices: 17205898--17205965 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
17205888 CTCTATATGT
17205898 ATGCTCACACGAGCTGT-AATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
* *
17205922 ATGCTCAGACGAGTTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
*
17205947 ATGCTCACATGAGCTGTGA
1 ATGCTCACACGAGCTGTGA
17205966 CAATGGGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 15 0.39
25 23 0.61
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAGA
Found at i:17215477 original size:156 final size:156
Alignment explanation
Indices: 17215188--17215541 Score: 591
Period size: 156 Copynumber: 2.3 Consensus size: 156
17215178 ATTTGGGTAA
* **
17215188 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATTTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
* **
17215253 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGGGATGAGAGGTCCCATGTAAGACCAAGTC
66 ATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATGAGAGGTCCCATGTAAGACCAAGTC
**
17215318 TGGGACATGGCGTTGGCACCGGGATG
131 TGGGACATGGCGTTGGCACCAAGATG
17215344 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
*
17215409 ATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATGAGAGGTCCCATGTAAGACCATGTC
66 ATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATGAGAGGTCCCATGTAAGACCAAGTC
*
17215474 TGGGACATGGGGTTGGCACCAAGATG
131 TGGGACATGGCGTTGGCACCAAGATG
* * *
17215500 AGAGGTCCCATGTAAGACCATCTTTGGGACATGGCGTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17215542 CCAAGATGAG
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 185 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (156 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
ATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATGAGAGGTCCCATGTAAGACCAAGTC
TGGGACATGGCGTTGGCACCAAGATG
Found at i:17215592 original size:50 final size:50
Alignment explanation
Indices: 17215188--17215626 Score: 500
Period size: 50 Copynumber: 8.5 Consensus size: 50
17215178 ATTTGGGTAA
* * *
17215188 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA---AG---ATG
** **
17215244 AGATTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* **
17215294 AGAGGTCCCATGTAAGACCAAGTCTGGGACATGGCGTTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* *
17215344 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA---AG---ATG
*
17215400 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
17215450 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGGGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* *
17215500 AGAGGTCCCATGTAAGACCATCTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*** * * * * ** *
17215550 AGAGGTCCCCCATAAGACAATGTCAGGGACATGGCATGGGCACTTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * *
17215600 AGAACTCTCATGTAAGACCATATCTGG
1 AGAGGTCCCATGTAAGACCATGTCTGG
17215627 AATATGGCAT
Statistics
Matches: 334, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
50 245 0.73
53 4 0.01
56 85 0.25
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:17219373 original size:6 final size:6
Alignment explanation
Indices: 17219362--17219392 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17219352 ATACCACTTA
17219362 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG A
1 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG A
17219393 AGAAAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AGGAAG
Found at i:17233769 original size:12 final size:12
Alignment explanation
Indices: 17233752--17233778 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17233742 AGATGAGCTG
17233752 CTAACCCTAGGC
1 CTAACCCTAGGC
17233764 CTAACCCTAGGC
1 CTAACCCTAGGC
17233776 CTA
1 CTA
17233779 TAAATAGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.41, G:0.15, T:0.19
Consensus pattern (12 bp):
CTAACCCTAGGC
Found at i:17241196 original size:140 final size:140
Alignment explanation
Indices: 17240943--17241501 Score: 696
Period size: 140 Copynumber: 4.0 Consensus size: 140
17240933 GGCCTACCGC
* * * *
17240943 GACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGTCGATATATGCTTTGGCCAAA
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGTCGACATACGCTTTGGCCAAC
* *
17241008 TCTTTGTATAAGGGTTGGGGTATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCCA
66 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACAATTAAATAAGAGTCGGATTTGTCCA
*
17241073 ACATTATGCT
131 ACACTATGCT
* *
17241083 GACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTG-CTGACATACGCTTTGGTCAA
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGTC-GACATACGCTTTGGCCAA
* * * * * *
17241147 CTCTTTGTATAAGGGTTGGAATATACATGCCTAAGGCAACAATTTAATAAGATTC-AACTTTGTA
65 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACAATTAAATAAGAGTCGGA-TTTGTC
*
17241211 CAACACTATGCC
129 CAACACTATGCT
* * * * *
17241223 GACACATTTGGGCTAACACTTTCCTTAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAC
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGTCGACATACGCTTTGGCCAAC
* * ** *
17241288 TCTTTGTATAAGGGTTAGGG-TATGCATGCTTAAGGTAACTCTTAAATAAGAGTCGGCTTTGTCC
66 TCTTTGTATAAGGGTT-GGGATATGCATGCCTAAGGCAACAATTAAATAAGAGTCGGATTTGTCC
17241352 AACACTATG-T
130 AACACTATGCT
* * * * * *
17241362 CGACACTTTTGGGCCAACATTTTCTTAAGTGTT-GAGATAGACTTGTCGACGTATGCTTTGACAA
1 -GACACTTTTGGGCCAACACTTTCCTAAGTGTTAG-GATAGACTTGTCGACATACGCTTTGGCCA
* * * * * *
17241426 ACTCTTTATATAATGGTTGGGATATGCACGCCTAAGGCAACAATTAGATAAGAGTTGGCTTTGTC
64 ACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACAATTAAATAAGAGTCGGATTTGTC
17241491 CAACACTATGC
129 CAACACTATGC
17241502 CGACTTTTGT
Statistics
Matches: 359, Mismatches: 51, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
139 6 0.02
140 350 0.97
141 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
GACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGTCGACATACGCTTTGGCCAAC
TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACAATTAAATAAGAGTCGGATTTGTCCA
ACACTATGCT
Found at i:17241461 original size:280 final size:280
Alignment explanation
Indices: 17240942--17241505 Score: 771
Period size: 280 Copynumber: 2.0 Consensus size: 280
17240932 AGGCCTACCG
* * * * *
17240942 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGTCGATATATGCTTTGGCCAA
1 CGACACATTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTGGCCAA
*
17241007 ATCTTTGTATAAGGGTTGGGGTATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCC
66 ATCTTTGTATAAGGGTTAGGGTATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCC
* *
17241072 AACATTATGCTGACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGCTGACATACG
131 AACACTATGCTGACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGCTGACATACG
* * *
17241137 CTTTGGTCAACTCTTTGTATAAGGGTTGGAATATACATGCCTAAGGCAACAATTTA-ATAAGA-T
196 CTTTGGACAACTCTTTATATAAGGGTTGGAATATACACGCCTAAGGCAACAA-TTAGATAAGAGT
17241200 TCAACTTTGTACAACACTATGC
260 T-AACTTTGTACAACACTATGC
* * *
17241222 CGACACATTTGGGCTAACACTTTCCTTAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
1 CGACACATTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTGGCCAA
* * * * *
17241287 CTCTTTGTATAAGGGTTAGGGTATGCATGCTTAAGGTAACTCTTAAATAAGAGTCGGCTTTGTCC
66 ATCTTTGTATAAGGGTTAGGGTATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCC
* * *
17241352 AACACTATG-TCGACACTTTTGGGCCAACATTTTCTTAAGTGTT-GAGATAGACTTG-TCGACGT
131 AACACTATGCT-GACACTTTTGGGCCAACACTTTCCTAAGTGTTAG-GATAGACTTGCT-GACAT
* * * *
17241414 ATGCTTT-GACAAACTCTTTATATAATGGTTGGGATATGCACGCCTAAGGCAACAATTAGATAAG
193 ACGCTTTGGAC-AACTCTTTATATAAGGGTTGGAATATACACGCCTAAGGCAACAATTAGATAAG
** *
17241478 AGTTGGCTTTGTCCAACACTATGC
257 AGTTAACTTTGTACAACACTATGC
17241502 CGAC
1 CGAC
17241506 TTTTGTTATA
Statistics
Matches: 249, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
279 8 0.03
280 239 0.96
281 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (280 bp):
CGACACATTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTGGCCAA
ATCTTTGTATAAGGGTTAGGGTATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCC
AACACTATGCTGACACTTTTGGGCCAACACTTTCCTAAGTGTTAGGATAGACTTGCTGACATACG
CTTTGGACAACTCTTTATATAAGGGTTGGAATATACACGCCTAAGGCAACAATTAGATAAGAGTT
AACTTTGTACAACACTATGC
Found at i:17243270 original size:36 final size:35
Alignment explanation
Indices: 17243094--17243367 Score: 242
Period size: 36 Copynumber: 7.6 Consensus size: 35
17243084 AAAAAAATTA
* * * *
17243094 CCTTAGATGTGTCTAACCGAACCTTTTTAAGGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
* * *
17243129 CCTTAGATGGGTATATCCCAACCTTTTTAATGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
** *
17243164 CCTTAGATAAGGTCTATCCCAACTTTATTTAAAGGTTG
1 CCTTAGA-CGGGTCTATCCCAACCTT-TTT-AAGGTTG
* * * *
17243202 CCTTAAACACGGCCTATCCCAACCTTTCTAAGGTTG
1 CCTTAGAC-GGGTCTATCCCAACCTTTTTAAGGTTG
* * *
17243238 TCTTAGACGGGTTTATCTCAACCTTTTATAAGGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTT-TAAGGTTG
* * *
17243274 TCTTAGATGGGTCTATCACAACCTTTTTTAAAGGTTG
1 CCTTAGACGGGTCTATCCCAACC-TTTTT-AAGGTTG
* **
17243311 TCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTG
1 CCTTAGAC-GGGTCTATCCCAACCTTTTTAAGGTTG
* * *
17243347 CCTCAGATGGGTTTATCCCAA
1 CCTTAGACGGGTCTATCCCAA
17243368 TGTTTTTTAA
Statistics
Matches: 195, Mismatches: 36, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
35 61 0.31
36 68 0.35
37 28 0.14
38 38 0.19
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (35 bp):
CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
Done.