Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 63 of 325
Found at i:19404974 original size:39 final size:39
Alignment explanation
Indices: 19404757--19404979 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
19404747 TTGAATGCTG
* * * * * *
19404757 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
19404797 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
19404837 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* * *
19404877 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
19404917 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
19404956 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19404980 TGAACGAGGA
Statistics
Matches: 149, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
39 36 0.24
40 103 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:19410428 original size:43 final size:42
Alignment explanation
Indices: 19410393--19410532 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 42
19410383 TCTTACATGT
* **
19410393 AATCAAATATCGATGCCACTGTGCCAAACAGGGTCTTAAAAA
1 AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTAACGA
* *
19410435 AATCAAATA-CGATGCCAATGTCCCAAACATGGTCTTAACGTA
1 AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTAACG-A
*
19410477 AATCTCAA-ATCGATGCCAAC-GTCCCAAAC-GTGGTCTTACACGA
1 AATC-AAATATCGATGCC-ACTGTCCCAAACAG-GGTCTTA-ACGA
*
19410520 AATCACATATCGA
1 AATCAAATATCGA
19410533 AATCCTATGT
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.32
42 16 0.20
43 35 0.43
44 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (42 bp):
AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTAACGA
Found at i:19410461 original size:41 final size:42
Alignment explanation
Indices: 19410393--19410514 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 42
19410383 TCTTACATGT
* *
19410393 AATCAAATATCGATGCCACTGTGCCAAACAGGGTCTTAA-AAA
1 AATCAAATA-CGATGCCAATGTCCCAAACAGGGTCTTAACAAA
*
19410435 AATCAAATACGATGCCAATGTCCCAAACATGGTCTTAACGTAAA
1 AATCAAATACGATGCCAATGTCCCAAACAGGGTCTTAAC--AAA
** *
19410479 TCTCAAAT-CGATGCCAACGTCCCAAAC-GTGGTCTTA
1 AATCAAATACGATGCCAATGTCCCAAACAG-GGTCTTA
19410515 CACGAAATCA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
41 26 0.38
42 9 0.13
43 25 0.36
44 9 0.13
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAAACAGGGTCTTAACAAA
Found at i:19414010 original size:25 final size:25
Alignment explanation
Indices: 19413971--19414087 Score: 82
Period size: 25 Copynumber: 4.7 Consensus size: 25
19413961 TCCTGTACAT
*
19413971 GTATGCTCATACGAGTTGT-GAACTG
1 GTATGCTCATACGAGCTGTAGAAC-G
*
19413996 GTATGCTCACT-CGAGCTGTAGATCG
1 GTATGCTCA-TACGAGCTGTAGAACG
*
19414021 GTATGCTC-TCACGAGCTGTA-AATCA
1 GTATGCTCAT-ACGAGCTGTAGAA-CG
* * * *
19414046 GTATGCTCACACCAACTGTAGATCG
1 GTATGCTCATACGAGCTGTAGAACG
*
19414071 ATATGCTC-TAACGAGCT
1 GTATGCTCAT-ACGAGCT
19414088 ATGGGTTAGA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 64 0.90
26 5 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAGAACG
Found at i:19417893 original size:35 final size:36
Alignment explanation
Indices: 19417828--19417923 Score: 99
Period size: 35 Copynumber: 2.7 Consensus size: 36
19417818 GAAGAAAGAT
*
19417828 AAAAAGAAAAGCAAAAGAAAAAAAGTGAAAGGGAGG
1 AAAAACAAAAGCAAAAGAAAAAAAGTGAAAGGGAGG
* **
19417864 AAAAACAAAAG-AAAAGAAAAGATAG-GAAAGGGAAT
1 AAAAACAAAAGCAAAAGAAAA-AAAGTGAAAGGGAGG
*
19417899 AAAAAGAAAA-CAAATATGAAAAAAA
1 AAAAACAAAAGCAAA-A-GAAAAAAA
19417924 AAATAAAGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
35 29 0.58
36 16 0.32
37 5 0.10
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.05
Consensus pattern (36 bp):
AAAAACAAAAGCAAAAGAAAAAAAGTGAAAGGGAGG
Found at i:19423256 original size:66 final size:65
Alignment explanation
Indices: 19423126--19423257 Score: 160
Period size: 66 Copynumber: 2.0 Consensus size: 65
19423116 ATGTATAAGT
* *
19423126 TATTCTTTATGCAATAAAATAAACATACTTAAAATAACATAAAAAAATGCCTAAATAACCCCAAC
1 TATTCTTTATGCAAGAAAATAAACATACTTAAAATAACAT--AAAAATGCCTAAATAACACCAAC
19423191 TG
64 TG
* * *
19423193 TATTTTTTATGCAAGAAAATGTAACATACTTAAAAATAACAT-AAAATG-TTAAAATAACACCAA
1 TATTCTTTATGCAAGAAAAT-AAACATACTT-AAAATAACATAAAAATGCCT-AAATAACACCAA
19423256 CT
63 CT
19423258 TTTCTAATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
65 1 0.02
66 19 0.33
67 18 0.32
68 9 0.16
69 10 0.18
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (65 bp):
TATTCTTTATGCAAGAAAATAAACATACTTAAAATAACATAAAAATGCCTAAATAACACCAACTG
Found at i:19425158 original size:15 final size:15
Alignment explanation
Indices: 19425138--19425166 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19425128 CTTAATTACA
19425138 TTAGTTTAATTTAAC
1 TTAGTTTAATTTAAC
19425153 TTAGTTTAATTTAA
1 TTAGTTTAATTTAA
19425167 TTTCGACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAGTTTAATTTAAC
Found at i:19434808 original size:43 final size:43
Alignment explanation
Indices: 19434760--19434926 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
19434750 GTTATTGAGA
*
19434760 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** *
19434803 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* ** * * *
19434846 TATGATTTCATGTAAGACCTTGTCTGGGATAGTGGCATCG-AT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
19434888 ATGTGA-TAACATGTAAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTAA-ATGT-AAGACCATGTCTGGGACATTGGCAT
19434927 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
42 3 0.03
43 86 0.82
44 16 0.15
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:19437418 original size:15 final size:15
Alignment explanation
Indices: 19437389--19437430 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
19437379 TTAACCCAAT
*
19437389 CAAATACAA-AAAAA
1 CAAATAAAACAAAAA
*
19437403 CAAATAAAGCAAAAA
1 CAAATAAAACAAAAA
*
19437418 CGAATAAAACAAA
1 CAAATAAAACAAA
19437431 GAAACTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.74, C:0.14, G:0.05, T:0.07
Consensus pattern (15 bp):
CAAATAAAACAAAAA
Found at i:19452020 original size:17 final size:17
Alignment explanation
Indices: 19451998--19452030 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19451988 CAACATATAC
19451998 TTTTATCTA-TATTTTTA
1 TTTTAT-TATTATTTTTA
19452015 TTTTATTATTATTTTT
1 TTTTATTATTATTTTT
19452031 TCAAACGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATTATTTTTA
Found at i:19457681 original size:39 final size:39
Alignment explanation
Indices: 19457627--19457706 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
19457617 AAAACAACTT
*
19457627 AAAATAGGGCAATGTTGAAAATAGGTATGCTGTCTCGAC
1 AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
*
19457666 AAAATAGCGCAATGTTGAAAATAGGTGTGCTGTCTCGAC
1 AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
19457705 AA
1 AA
19457707 GAAAGATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (39 bp):
AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
Found at i:19459477 original size:18 final size:16
Alignment explanation
Indices: 19459450--19459496 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
19459440 AATAAACATC
19459450 TTAAAGTAATTTATATCAA
1 TTAAA-TAATTT-TAT-AA
19459469 -TAAATTAATTTTATAA
1 TTAAA-TAATTTTATAA
19459485 TTAAATAATTTT
1 TTAAATAATTTT
19459497 CTCAACCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 9 0.35
17 7 0.27
18 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAAATAATTTTATAA
Found at i:19459673 original size:4 final size:4
Alignment explanation
Indices: 19459627--19459654 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19459617 TTTGAACTCC
19459627 AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT
19459655 GAAAATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:19468489 original size:19 final size:19
Alignment explanation
Indices: 19468462--19468538 Score: 122
Period size: 19 Copynumber: 4.2 Consensus size: 19
19468452 AATCTTTAAG
19468462 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19468481 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19468500 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19468517 GATATGCAATCTTAGACAT
1 GATATGCAATCTTAGATAT
19468536 GAT
1 GAT
19468539 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.31
19 37 0.69
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19468492 original size:36 final size:35
Alignment explanation
Indices: 19468452--19468537 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 35
19468442 ATGGAAATAT
19468452 AATCTTTAAGGATATG-CAATCTTAGATATGATACGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATACGC
*
19468488 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATACGC
*
19468524 AATC-TTAGACATGA
1 AATCTTTAGATATGA
19468538 TCTTGTAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 35 0.78
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATACGC
Found at i:19468538 original size:36 final size:36
Alignment explanation
Indices: 19468468--19468538 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
19468458 TAAGGATATG
*
19468468 CAATCTTAGATATGATACGCAATCTTAGATATGATA
1 CAATCTTAGATATGATACGCAATCTTAGACATGATA
*
19468504 CAATCTTAGATATGATATGCAATCTTAGACATGAT
1 CAATCTTAGATATGATACGCAATCTTAGACATGAT
19468539 CTTGTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (36 bp):
CAATCTTAGATATGATACGCAATCTTAGACATGATA
Found at i:19473448 original size:31 final size:31
Alignment explanation
Indices: 19473407--19473470 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19473397 CCTTTTCATA
*
19473407 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
19473438 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
19473469 TT
1 TT
19473471 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:19473713 original size:24 final size:24
Alignment explanation
Indices: 19473677--19473780 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
19473667 TTAGAGGCCT
*
19473677 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
19473702 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
19473726 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
19473749 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
19473772 AGCCTTTTT
1 AGCCCTTTT
19473781 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
23 45 0.59
24 27 0.36
25 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:19473895 original size:20 final size:20
Alignment explanation
Indices: 19473829--19473889 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
19473819 TTATGAATAC
19473829 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
19473849 ATCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
19473869 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
19473889 A
1 A
19473890 CTATGTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:19475133 original size:27 final size:27
Alignment explanation
Indices: 19475103--19475189 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
19475093 ACGGAACATA
19475103 AGGGGTATTACGGTCACTTTACCCTAC
1 AGGGGTATTACGGTCACTTTACCCTAC
** *
19475130 AGGGGCT-TTACGGTCTTTTTA-CCTAAT
1 AGGGG-TATTACGGTCACTTTACCCT-AC
*** *
19475157 AGGGGTATTTTAGTCACTTCACCCTAC
1 AGGGGTATTACGGTCACTTTACCCTAC
*
19475184 AAGGGT
1 AGGGGT
19475190 GTTTTGGTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
26 4 0.09
27 37 0.82
28 4 0.09
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (27 bp):
AGGGGTATTACGGTCACTTTACCCTAC
Found at i:19475259 original size:28 final size:27
Alignment explanation
Indices: 19475206--19475292 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 27
19475196 GTAAATCTAC
19475206 AAACCAAGGGTATTTC-AGTAAATTTTGT
1 AAACCAAGGGTATTTCTA-T-AATTTTGT
*
19475234 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
19475260 AAAAAGTCAAGGGTATTTCTATAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
19475290 AAA
1 AAA
19475293 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 22 0.44
29 20 0.40
30 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:19475320 original size:27 final size:27
Alignment explanation
Indices: 19475294--19475449 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
19475284 CTTTGTAAAT
19475294 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
19475320 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
19475348 CAAGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
19475375 TAGGGGTATTTTGGTTATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
19475402 TAAGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* ** *
19475429 CAATGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
19475450 GTAAATCGAG
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 110 0.98
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:19475462 original size:54 final size:54
Alignment explanation
Indices: 19475183--19475463 Score: 233
Period size: 54 Copynumber: 5.1 Consensus size: 54
19475173 CTTCACCCTA
* * * *
19475183 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT-AATTTTGTAAAC
* * * * * *
19475238 CAATGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAAC
* * *** ** ***
19475294 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
* * * * **
19475348 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTTATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
* * *
19475402 TAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
*
19475456 CGAGGGTA
1 CAAGGGTA
19475464 AAATAGTAAT
Statistics
Matches: 177, Mismatches: 43, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
54 115 0.65
55 21 0.12
56 28 0.16
57 12 0.07
58 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:19475463 original size:27 final size:27
Alignment explanation
Indices: 19475183--19475490 Score: 165
Period size: 27 Copynumber: 11.3 Consensus size: 27
19475173 CTTCACCCTA
* * * * * *
19475183 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
19475210 CAAGGGTATTTCAGTAAATTTTGTAAAC
1 CAAGGGTATTTTAGT-AATTTTATAAAT
* *
19475238 CAATGGTATTTCTA-TAATTTTTAAAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
19475267 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * * *
19475294 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * * *
19475321 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
19475348 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
19475374 CTAGGGGTATTTTGGTTATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* * *
19475401 CTAAGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* *
19475429 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** *
19475456 CGAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
19475483 CAAGGGTA
1 CAAGGGTA
19475491 AAATAGTAAT
Statistics
Matches: 226, Mismatches: 48, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.01
27 174 0.77
28 33 0.15
29 17 0.08
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:19475463 original size:81 final size:82
Alignment explanation
Indices: 19475267--19475461 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 82
19475257 TTTAAAAAGT
* * *
19475267 CAAGGGTATTTCTA-TAACTTTGTAAAT-TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TAGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
19475330 TTCGGTAATTTCACAAAC
65 TTCGGTAATTTCACAAAC
* ** *
19475348 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTTATTTTACAAACTAAGGGTATT
1 CAAGGGTATTTTAGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
* *
19475412 TTGGTAATTTTACAAAC
66 TCGGTAATTTCACAAAC
* *
19475429 CAATGGTATTTTAGTAATTTTGTAAATCGAGGG
1 CAAGGGTATTTTAGTAATTTTGTAAATCTAGGG
19475462 TAAAATAGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 91 0.94
82 5 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (82 bp):
CAAGGGTATTTTAGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
TCGGTAATTTCACAAAC
Found at i:19475473 original size:54 final size:54
Alignment explanation
Indices: 19475415--19475625 Score: 154
Period size: 54 Copynumber: 3.9 Consensus size: 54
19475405 GGGTATTTTG
* * *** *
19475415 GTAATTTTACAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATA
* * * **
19475469 GTAATTCTATAAATCAAGGGTAAAATAGTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATA
** * * * * **
19475523 GTAATTCTGTAAATCAAGGGTAAAA-CGATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAAAATA
* ** * * ** * *
19475577 GTAATTATGTAAATCAGGGGTAAAACGGTAATTCTATAAATCGGGGGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
19475626 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 132 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATA
Found at i:19475488 original size:81 final size:81
Alignment explanation
Indices: 19475307--19475490 Score: 183
Period size: 81 Copynumber: 2.3 Consensus size: 81
19475297 GGGTATTTTG
* * * *
19475307 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACA
1 GTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACA
* *** *
19475372 AACTAGGGGTATTTTG
66 AACGAGGGGTAAAATA
* * * * * **
19475388 GTTATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTAGTAATTTTGTA
1 GTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACA
19475453 AATCGA-GGGTAAAATA
66 AA-CGAGGGGTAAAATA
*
19475469 GTAATTCTATAAA-TCAAGGGTA
1 GTAATTCTACAAACT-AAGGGTA
19475491 AAATAGTAAT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 81 0.96
82 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACA
AACGAGGGGTAAAATA
Found at i:19475623 original size:27 final size:27
Alignment explanation
Indices: 19475442--19475625 Score: 217
Period size: 27 Copynumber: 6.8 Consensus size: 27
19475432 TGGTATTTTA
* **
19475442 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
19475469 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19475496 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19475523 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19475550 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19475577 GTAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
19475604 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
19475626 CTTTGGTAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19475652 original size:27 final size:27
Alignment explanation
Indices: 19475631--19475720 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
19475621 GGGTACTTTG
*
19475631 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
19475658 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
19475685 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
19475712 GTAATTTTA
1 GTAATTTTA
19475721 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:19475734 original size:27 final size:27
Alignment explanation
Indices: 19475631--19475735 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
19475621 GGGTACTTTG
* *
19475631 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
19475658 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
19475685 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
19475712 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
19475736 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:19478234 original size:9 final size:9
Alignment explanation
Indices: 19478219--19478297 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
19478209 TTCTACTTCA
19478219 AAAAAAAAGG
1 AAAAAAAA-G
19478229 AAAAAAAAG
1 AAAAAAAAG
19478238 AAAAAGAAA-
1 AAAAA-AAAG
* *
19478247 AGAGAAAA-
1 AAAAAAAAG
*
19478255 AATAAAAAG
1 AAAAAAAAG
*
19478264 AAAAAAGAG
1 AAAAAAAAG
19478273 AAAAGAGAAA-
1 AAAA-A-AAAG
19478283 AATAAAAAAG
1 AA-AAAAAAG
19478293 AAAAA
1 AAAAA
19478298 TGGAGAGGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
8 8 0.15
9 26 0.47
10 17 0.31
11 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:19478241 original size:7 final size:7
Alignment explanation
Indices: 19478231--19478297 Score: 75
Period size: 7 Copynumber: 9.7 Consensus size: 7
19478221 AAAAAAGGAA
19478231 AAAAAAG
1 AAAAAAG
19478238 -AAAAAG
1 AAAAAAG
*
19478244 AAAAGAG
1 AAAAAAG
19478251 AAAAAA-
1 AAAAAAG
*
19478257 TAAAAAG
1 AAAAAAG
19478264 AAAAAAG
1 AAAAAAG
*
19478271 AGAAAAG
1 AAAAAAG
*
19478278 AGAAAAAT
1 A-AAAAAG
19478286 AAAAAAG
1 AAAAAAG
19478293 AAAAA
1 AAAAA
19478298 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
6 11 0.22
7 33 0.67
8 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:19478253 original size:22 final size:22
Alignment explanation
Indices: 19478221--19478297 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
19478211 CTACTTCAAA
19478221 AAAAAAGGAAAAAAAAGAAAAAG
1 AAAAAA-GAAAAAAAAGAAAAAG
* *
19478244 --AAAAGAGAAAAAATAAAAAG
1 AAAAAAGAAAAAAAAGAAAAAG
* * *
19478264 AAAAAAGAGAAAAGAGAAAAAT
1 AAAAAAGAAAAAAAAGAAAAAG
19478286 AAAAAAGAAAAA
1 AAAAAAGAAAAA
19478298 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
20 14 0.30
21 4 0.09
22 28 0.61
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAGAAAAAG
Found at i:19478255 original size:29 final size:29
Alignment explanation
Indices: 19478221--19478297 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
19478211 CTACTTCAAA
19478221 AAAAAAGGAAAAA-AAAGAAAAAGAAAAGAG
1 AAAAAA-GAAAAAGAAA-AAAAAGAAAAGAG
* *
19478251 AAAAAATAAAAAGAAAAAAGAGAAAAGAG
1 AAAAAAGAAAAAGAAAAAAAAGAAAAGAG
19478280 AAAAATA-AAAAAGAAAAA
1 AAAAA-AGAAAAAGAAAAA
19478298 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 33 0.77
30 10 0.23
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (29 bp):
AAAAAAGAAAAAGAAAAAAAAGAAAAGAG
Found at i:19478298 original size:13 final size:13
Alignment explanation
Indices: 19478231--19478297 Score: 73
Period size: 13 Copynumber: 4.9 Consensus size: 13
19478221 AAAAAAGGAA
19478231 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
*
19478244 AAAAGAGAAAAA-
1 AAAAAAGAAAAAG
19478256 ATAAAAAGAAAAAAG
1 A-AAAAAG-AAAAAG
*
19478271 AGAAAAGAGAAAAAT
1 A-AAAA-AGAAAAAG
19478286 AAAAAAGAAAAA
1 AAAAAAGAAAAA
19478298 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.02
13 23 0.50
14 9 0.20
15 11 0.24
16 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:19479298 original size:88 final size:88
Alignment explanation
Indices: 19479192--19479363 Score: 281
Period size: 88 Copynumber: 2.0 Consensus size: 88
19479182 AATCGAAGAT
19479192 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
1 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
19479257 TAACATTCCTGTGCTTACAGCAA
66 TAACATTCCTGTGCTTACAGCAA
* * * *
19479280 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
** *
19479345 TGGCATTCTTGTGCTTACA
66 TAACATTCCTGTGCTTACA
19479364 AGGAACAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
TAACATTCCTGTGCTTACAGCAA
Found at i:19479312 original size:44 final size:44
Alignment explanation
Indices: 19479192--19479313 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
19479182 AATCGAAGAT
* * * **
19479192 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGA
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTACAGCAA
* ** ** *
19479236 A-CAAATCGAAGATAGCAG-ATCTAACATTCCTGTGCTTACAGCAA
1 AGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTACAGCAA
19479280 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTG
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTG
19479314 TTTATAGGGA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
42 1 0.02
43 13 0.23
44 28 0.49
45 14 0.25
46 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTACAGCAA
Found at i:19479349 original size:44 final size:43
Alignment explanation
Indices: 19479213--19479379 Score: 122
Period size: 44 Copynumber: 3.8 Consensus size: 43
19479203 GATTTCAGCA
*
19479213 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT
** * * * ** **
19479256 CTAACATTCCTGTGCTTACAGCAAAGC-AGATCGAAGATTTCAGCA-
1 -TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-AT
*
19479301 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA-T
* * * * * *
19479345 TGGCATTCTTGTGCTTACAAGGAACAAATCGAAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
19479380 CATAGCTGAT
Statistics
Matches: 90, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 1 0.01
43 11 0.12
44 65 0.72
45 12 0.13
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT
Found at i:19479694 original size:206 final size:207
Alignment explanation
Indices: 19479341--19480082 Score: 1188
Period size: 206 Copynumber: 3.6 Consensus size: 207
19479331 GAAGATAGCA
* * *
19479341 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCT
* * *
19479405 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* ** *
19479470 CGTCTCCATATTCGACGGAGAGCAGACACATAACAGATCTGGCCTTCATATGTTTATACTGAAAG
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAG
*
19479535 -AGATCCAAGGT
196 CAGATCCAAGAT
19479546 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCT
19479611 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
19479676 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAATCTTCAGATGTTTATACT-AAAG
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAG
*
19479740 TAGATCCAAGAT
196 CAGATCCAAGAT
*
19479752 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAT-GTGC
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC-TCGTGC
19479816 TTACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
65 TTACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* * * *
19479881 GCGTCTCCATATTCGACGGAGGGAAGACACATAGCAGATCTAACCTTCAGATGATTAGACTG-AA
130 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAA
19479945 GCAGATCCAAGAT
195 GCAGATCCAAGAT
* * * * * * *
19479958 GGTTTGGTATCCTTGTGCTTACAATGAGCAAATTGAAGACATAGTTGATTTGGTTTTCTCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCT
* * *
19480023 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
19480083 ATAACAGATT
Statistics
Matches: 502, Mismatches: 30, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
205 64 0.13
206 437 0.87
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (207 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCT
TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAG
CAGATCCAAGAT
Found at i:19480485 original size:14 final size:15
Alignment explanation
Indices: 19480466--19480522 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
19480456 AATCTTTAAG
19480466 GATATG-CAATCTTA
1 GATATGACAATCTTA
19480480 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
19480497 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
19480516 GATATGA
1 GATATGA
19480523 TCTTGTAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:19480513 original size:19 final size:19
Alignment explanation
Indices: 19480466--19480523 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
19480456 AATCTTTAAG
19480466 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19480485 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19480502 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19480521 GAT
1 GAT
19480524 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.46
19 20 0.54
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19483113 original size:9 final size:8
Alignment explanation
Indices: 19483046--19483132 Score: 84
Period size: 8 Copynumber: 10.5 Consensus size: 8
19483036 ACGTTAACAA
19483046 TAAATTTT
1 TAAATTTT
*
19483054 TAAAAATTT
1 T-AAATTTT
* *
19483063 AAAATATT
1 TAAATTTT
* *
19483071 AAAATATT
1 TAAATTTT
*
19483079 TATACTTTT
1 TA-AATTTT
*
19483088 TAATTATTT
1 TAAAT-TTT
19483097 TAAATTTT
1 TAAATTTT
19483105 TAAATTTT
1 TAAATTTT
19483113 TAAATTTT
1 TAAATTTT
19483121 TAAATTTT
1 TAAATTTT
19483129 TAAA
1 TAAA
19483133 AATTTTAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
8 48 0.72
9 19 0.28
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (8 bp):
TAAATTTT
Found at i:19483142 original size:8 final size:8
Alignment explanation
Indices: 19483046--19483144 Score: 72
Period size: 8 Copynumber: 11.9 Consensus size: 8
19483036 ACGTTAACAA
*
19483046 TAAATTTT
1 TAAAATTT
*
19483054 TAAAAATT
1 TAAAATTT
*
19483062 TAAAATAT
1 TAAAATTT
19483070 TAAAATATT
1 TAAAAT-TT
**
19483079 TATACTTTT
1 TA-AAATTT
*
19483088 TAATTATTT
1 TAA-AATTT
*
19483097 TAAATTTT
1 TAAAATTT
*
19483105 TAAATTTT
1 TAAAATTT
*
19483113 TAAATTTT
1 TAAAATTT
*
19483121 TAAATTTT
1 TAAAATTT
19483129 TAAAAATTT
1 T-AAAATTT
19483138 TAAAATT
1 TAAAATT
19483145 AATTAATTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
8 53 0.71
9 20 0.27
10 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (8 bp):
TAAAATTT
Found at i:19483209 original size:20 final size:20
Alignment explanation
Indices: 19483180--19483226 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
19483170 GTGTATGCCA
*
19483180 CATCAGTAAGTTAACTTTTC
1 CATCAATAAGTTAACTTTTC
19483200 CATCAATAAGTTAACTTTTC
1 CATCAATAAGTTAACTTTTC
19483220 CATCAAT
1 CATCAAT
19483227 TTTGGGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (20 bp):
CATCAATAAGTTAACTTTTC
Found at i:19483598 original size:15 final size:15
Alignment explanation
Indices: 19483578--19483685 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
19483568 TTTATGGAAA
*
19483578 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
19483593 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
19483607 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
19483623 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
19483637 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
19483653 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
19483667 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
19483683 ATC
1 ATC
19483686 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:19483619 original size:30 final size:30
Alignment explanation
Indices: 19483572--19483695 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
19483562 TTCTTATTTA
* *
19483572 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
19483602 TAGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
19483632 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
19483662 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
19483693 TGG
1 TGG
19483696 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:19488278 original size:15 final size:15
Alignment explanation
Indices: 19488258--19488365 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
19488248 TTTATGGAAA
19488258 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
19488273 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
19488287 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
19488303 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
19488317 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
19488333 ATTAAATAT-TGGAA
1 ATCAAAGATATGGGT
19488347 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
19488363 ATC
1 ATC
19488366 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 12 0.18
15 41 0.63
16 12 0.18
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:19488295 original size:30 final size:30
Alignment explanation
Indices: 19488252--19488375 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
19488242 TCCATATTTA
* *
19488252 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
19488282 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
19488312 TGGAAAGTCAAAGATATGGGTATTAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
19488342 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
19488373 TGG
1 TGG
19488376 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:19495509 original size:26 final size:26
Alignment explanation
Indices: 19495440--19495509 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
19495430 TTTGTCGTTG
* *
19495440 AATAATTGACATAAAAATCAACAATTC
1 AATAATTTACAT-ACAATCAACAATTC
* * * *
19495467 AAAAATTTATATGCAATCATCAATTC
1 AATAATTTACATACAATCAACAATTC
19495493 AATAATTTACATACAAT
1 AATAATTTACATACAAT
19495510 AAATTAGTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (26 bp):
AATAATTTACATACAATCAACAATTC
Found at i:19497729 original size:26 final size:25
Alignment explanation
Indices: 19497659--19497729 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
19497649 ATCAATTTTT
*
19497659 TATTTTAATTTAATAATAATATAAAAA
1 TATTATAATTT-ATAA-AATATAAAAA
*
19497686 TATTATAATTTATGAAAATTTAAAAA
1 TATTATAATTTAT-AAAATATAAAAA
19497712 TA-TATAAATTTACTAAAA
1 TATTAT-AATTTA-TAAAA
19497730 AGCATGTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.08
26 23 0.59
27 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (25 bp):
TATTATAATTTATAAAATATAAAAA
Found at i:19500675 original size:38 final size:38
Alignment explanation
Indices: 19500630--19500714 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
19500620 CATCCAACCT
19500630 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
1 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
* *
19500668 TACACTCCATGTGGTGATATAATCAACCCACCCATCTC
1 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
19500706 TACACTCCA
1 TACACTCCA
19500715 AAAAGTACCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.36, G:0.11, T:0.24
Consensus pattern (38 bp):
TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
Found at i:19502014 original size:38 final size:38
Alignment explanation
Indices: 19501963--19502039 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
19501953 ATATGGACTC
19501963 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
1 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
*
19502001 GTATGAGCATGGGTACTATTTGGCCTAACATGGGTGTT
1 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
19502039 G
1 G
19502040 AGAAATTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (38 bp):
GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
Found at i:19502583 original size:43 final size:43
Alignment explanation
Indices: 19502533--19502617 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
19502523 ATGTGATTCT
* **
19502533 GATATGTGTTTACGA-GTAAGACCTTGTCTGGGACAG-TGGCATC
1 GATATGTGGTTAC-ATGTAAGACCACGTCTGGGAC-GTTGGCATC
19502576 GATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCAT
19502618 TGTACGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
GATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:19511049 original size:14 final size:14
Alignment explanation
Indices: 19511030--19511061 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19511020 TAAATTTTGG
19511030 ATATA-AAT-ATAT
1 ATATATAATCATAT
19511042 ATATATAATCATAT
1 ATATATAATCATAT
19511056 ATATAT
1 ATATAT
19511062 TCGTTCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 3 0.17
14 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATAATCATAT
Found at i:19517248 original size:47 final size:47
Alignment explanation
Indices: 19517170--19517360 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
19517160 CCCTTCGGGA
* * * * * *
19517170 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
19517217 CCTGTCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19517264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19517311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19517358 CTT
1 CTT
19517361 CTTTCACATT
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19517370 original size:33 final size:33
Alignment explanation
Indices: 19517328--19517393 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
19517318 CATATATACA
19517328 CTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
*
19517361 CTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
19517394 ATCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:19517377 original size:80 final size:80
Alignment explanation
Indices: 19517281--19517440 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
19517271 CATATATACA
19517281 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19517346 CGGCCATTAGGCCTT
66 CGGCCATTAGGCCTT
*
19517361 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19517426 CGGCCATTAGGCCTT
66 CGGCCATTAGGCCTT
19517441 ATCACATATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (80 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTT
Found at i:19517414 original size:47 final size:47
Alignment explanation
Indices: 19517361--19518093 Score: 1261
Period size: 47 Copynumber: 15.4 Consensus size: 47
19517351 ATTAGGCCTT
*
19517361 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
19517408 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
19517455 CTTTCTCATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
19517502 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
19517549 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
19517596 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
*
19517645 CTTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
19517694 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
19517741 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
19517790 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
19517839 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
19517886 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
*
19517935 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
19517982 CTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* * *
19518029 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCTCATATATGCA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
19518076 -TGTTCACATCCATCACAT
1 CT-TTCACATTCATCACAT
19518094 AGAATCCTAA
Statistics
Matches: 664, Mismatches: 15, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 426 0.64
49 237 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
Found at i:19517667 original size:96 final size:94
Alignment explanation
Indices: 19517361--19518093 Score: 1261
Period size: 96 Copynumber: 7.7 Consensus size: 94
19517351 ATTAGGCCTT
*
19517361 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19517426 CGGCCATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
* *
19517455 CTTTCTCATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
19517520 CGGCTATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
19517549 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19517614 CGGCCATTAGGCCTTATCACATATATATACA
66 CGGCCATTAGGCCTTATCAC--ATATATACA
*
19517645 CTTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
19517710 ATCGGCCATTAGGCCTTATCACATATATACA
64 ATCGGCCATTAGGCCTTATCACATATATACA
19517741 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
19517806 ATCGGCCATTAGGCCTTATCACATATATATACA
64 ATCGGCCATTAGGCCTTATCAC--ATATATACA
19517839 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19517904 CGGCCATTAGGCCTTATCACATATATATACA
66 CGGCCATTAGGCCTTATCAC--ATATATACA
* *
19517935 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTTACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19518000 CGGCCATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
* * * *
19518029 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
19518093 T
65 T
19518094 AGAATCCTAA
Statistics
Matches: 617, Mismatches: 15, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
93 1 0.00
94 240 0.39
96 282 0.46
98 94 0.15
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACA
Found at i:19517741 original size:145 final size:145
Alignment explanation
Indices: 19517361--19518072 Score: 1296
Period size: 145 Copynumber: 5.0 Consensus size: 145
19517351 ATTAGGCCTT
*
19517361 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
* *
19517424 ATCGGCCATTAGGCCTTATCACATATATACACTTTCTCATTCATCACATCGGCTATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
19517489 TCAC--ATATATACA
131 TCACATATATATACA
*
19517502 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
19517565 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
19517630 TCACATATATATACA
131 TCACATATATATACA
*
19517645 CTTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
19517710 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
19517775 TCACATATATATACA
131 TCACATATATATACA
19517790 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
19517855 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
19517920 TCACATATATATACA
131 TCACATATATATACA
*
19517935 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTTACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
*
19517998 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
19518063 TCTCATATAT
131 TCACATATAT
19518073 GCATGTTCAC
Statistics
Matches: 559, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
141 130 0.23
143 134 0.24
145 295 0.53
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATATACA
Found at i:19541599 original size:23 final size:24
Alignment explanation
Indices: 19541567--19541611 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
19541557 TTGAACTACT
19541567 TTTTATTTTTTTTAGATT-TTAAAA
1 TTTTATTTTTTTTA-ATTATTAAAA
19541591 TTTTA-TTTTTTTAATTATTAA
1 TTTTATTTTTTTTAATTATTAA
19541612 TTTTGGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTATTTTTTTTAATTATTAAAA
Found at i:19546069 original size:29 final size:29
Alignment explanation
Indices: 19546031--19546115 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
19546021 GAAAACCCAT
*
19546031 TGGAAAAATTGTAAAATATGGAAAAATAG
1 TGGAAAAATTGTAAAATATGGAAAAACAG
** *
19546060 TGGAAAAATTGTAAAACCTGGAAAACCAG
1 TGGAAAAATTGTAAAATATGGAAAAACAG
* * *
19546089 TTGCAAAATTGTAAAATTTGGAAAAAC
1 TGGAAAAATTGTAAAATATGGAAAAAC
19546116 TATGGCAGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.24
Consensus pattern (29 bp):
TGGAAAAATTGTAAAATATGGAAAAACAG
Found at i:19559240 original size:32 final size:33
Alignment explanation
Indices: 19559204--19559272 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
19559194 AAGAAAGATA
*
19559204 AATTCTAA-TAGAATTTGAAAAGGAGTAGTTTG
1 AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
* * *
19559236 AATTCTAATTAGGATTTTAAAAGGATTAATTTG
1 AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
19559269 AATT
1 AATT
19559273 TCAAATTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (33 bp):
AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
Found at i:19561255 original size:37 final size:40
Alignment explanation
Indices: 19561159--19561297 Score: 119
Period size: 40 Copynumber: 3.5 Consensus size: 40
19561149 GCACACTAGT
*
19561159 TTGGCACCCAGTG-CTTCATCGGATAATTCGAAGTAATAAG
1 TTGGCACCCAGTGTC-TCATCGGATAAATCGAAGTAATAAG
* * *
19561199 TTGACACCCAGTGTTTCATCGGCTAAAT-GAAAGT-A-AA-
1 TTGGCACCCAGTGTCTCATCGGATAAATCG-AAGTAATAAG
* * *
19561236 TTGGCACCCAGTGTCTCATCGAATTAATCCAAAGTAAT-AG
1 TTGGCACCCAGTGTCTCATCGGATAAAT-CGAAGTAATAAG
* *
19561276 ATTGACACCCTGTGTCTCATCG
1 -TTGGCACCCAGTGTCTCATCG
19561298 ACTCGAGGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
37 23 0.29
38 6 0.08
39 4 0.05
40 27 0.34
41 19 0.24
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (40 bp):
TTGGCACCCAGTGTCTCATCGGATAAATCGAAGTAATAAG
Found at i:19562130 original size:12 final size:13
Alignment explanation
Indices: 19562113--19562150 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
19562103 CCAACTCTCC
19562113 TTCTTTCTT-CTT
1 TTCTTTCTTCCTT
19562125 TTCTTT-TTCCTT
1 TTCTTTCTTCCTT
19562137 TTCTTTCTTTCCTT
1 TTCTTTC-TTCCTT
19562151 CTCTGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 15 0.65
14 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTCTTCCTT
Found at i:19564998 original size:21 final size:21
Alignment explanation
Indices: 19564974--19565023 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
19564964 CTGCTGTATC
19564974 TATTTGACTATTTGAATGAAA
1 TATTTGACTATTTGAATGAAA
* * * *
19564995 TATTTGACTGTTTGATTGTAT
1 TATTTGACTATTTGAATGAAA
19565016 TATTTGAC
1 TATTTGAC
19565024 AGAAAGACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (21 bp):
TATTTGACTATTTGAATGAAA
Found at i:19567728 original size:22 final size:21
Alignment explanation
Indices: 19567698--19567744 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19567688 TATAAATTAA
19567698 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
19567720 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
19567741 ATCT
1 ATCT
19567745 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:19567738 original size:16 final size:16
Alignment explanation
Indices: 19567717--19567767 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
19567707 ATTACAAGAT
19567717 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
19567733 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
19567752 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
19567768 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:19567750 original size:19 final size:21
Alignment explanation
Indices: 19567715--19567757 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
19567705 AGATTACAAG
19567715 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
19567736 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
19567755 ATC
1 ATC
19567758 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:19568513 original size:206 final size:206
Alignment explanation
Indices: 19568159--19569092 Score: 1431
Period size: 206 Copynumber: 4.5 Consensus size: 206
19568149 CAATCTATTT
*
19568159 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * * * * *
19568224 CAACTATGTCTTCGATTT-TCTCCTTGTAAGCACAAAGATACCTAACCATCTTGGATTTGCTTCA
66 CAGCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCA
* * * * * *
19568288 GTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCAAAC
130 GTATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAAC
19568353 TTCGATTTGTTC
195 TTCGATTTGTTC
* * *
19568365 TCTGACAATATAGAAATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * *
19568430 CAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGAATTCCAAATCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * *
19568495 TATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCTGTTGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
19568560 TTGATCTGTTC
196 TCGATTTGTTC
* *
19568571 TCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCTTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* **
19568636 CAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCATGTCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *
19568701 TATAAACATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
19568766 TTGATTTGTTC
196 TCGATTTGTTC
19568777 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
*
19568842 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTACTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * * * *
19568907 TATAAACATATGAAGGCAAGGTCTGTTATGTGTCTTCTCTCCGTCGAATATGGAGATGCCAATCT
131 TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
19568972 TCGATTTGTTC
196 TCGATTTGTTC
* * * *
19568983 TCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTTAGCGTAAAC-CGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
19569047 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
19569093 ATGTTATCTT
Statistics
Matches: 671, Mismatches: 56, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
205 60 0.09
206 610 0.91
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
TCGATTTGTTC
Found at i:19569130 original size:44 final size:43
Alignment explanation
Indices: 19569063--19569572 Score: 352
Period size: 44 Copynumber: 11.7 Consensus size: 43
19569053 TGTCTTCGAT
* * * * * *
19569063 TTGTTCCTTGTAAGCACAAGGATGCCAAATATGTTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGATATCTTCAAC
* * *
19569107 TTATTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGATATCTTC-AAC
** * * * * * ** * *
19569151 TACTTCACTGTAAGCACAGGAATGTCAGATCTCCTATCTTCGAT
1 TTGTTCCCTATAAACACAGGGATGCCA-ATCTGATATCTTCAAC
*
19569195 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGATATCTTCAAC
* **
19569239 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTTGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGATATCTTCAAC
* * * * * * * * *
19569281 TCTGCTTCACTGTAAGCACAGGAATGTCAGACCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGATATCTTCAAC
* *
19569327 TTGTTCCCTATAAACACAGGGATGTCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATG-CCAATCTGATATCTTCAAC
* * *
19569371 TTGTTCCCTATAAACATAGGGATGCC-ATGCTAAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGATATCTTCAAC
*
19569414 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGATATCTTCAAC
* *
19569457 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGATATCTTCAAC
** * * * * ** *
19569499 TCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTTGAT
1 T-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGATATCTTCAAC
*
19569545 TTGTTCCCTATAAACACAAGGATGCCAA
1 TTGTTCCCTATAAACACAGGGATGCCAA
19569573 ATCTTGTTTC
Statistics
Matches: 371, Mismatches: 75, Indels: 41
0.76 0.15 0.08
Matches are distributed among these distances:
42 8 0.02
43 119 0.32
44 200 0.54
45 37 0.10
46 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAATCTGATATCTTCAAC
Found at i:19569167 original size:88 final size:87
Alignment explanation
Indices: 19569055--19569571 Score: 392
Period size: 88 Copynumber: 5.9 Consensus size: 87
19569045 ATCAGCTATG
* * * * * *
19569055 TCTTCGAT-TTGTTCCTTGTAAGCACAAGGATGCCAAATATGTTATCTTCAACTTATTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATA
19569119 AACACAGGGATGCCATGCTGAAA
65 AACACAGGGATGCCATGCTGAAA
** * * * * * * *
19569142 TCTTCGATCTACTTCACTGTAAGCAC-AGGAATGTCAGATCTCCTATCTTCGATTTGTTCCCTAT
1 TCTTCGATCTTGTTCCCTATAAACACAAGG-ATGCCA-ATCTGCTATCTTCAACTTGTTCCCTAT
**
19569206 AAACACAGGGATGCCAAAT-CTGCTA
64 AAACACAGGGATGCC--ATGCTGAAA
* * ** ** * *
19569231 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTTGA-TCTGCTTCACTG
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAAT-CTGCTATCTTCAACT-TG-TTCCCTA
* * * **
19569293 TAAGCACAGGAATGTCA-GACCTGCTA
63 TAAACACAGGGATGCCATG--CTGAAA
* *
19569319 TCTTCGAT-TTGTTCCCTATAAACACAGGGATGTCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATG-CCAATCTGCTATCTTCAACTTGTTCCCTATA
* *
19569383 AACATAGGGATGCCATGCTAAAA
65 AACACAGGGATGCCATGCTGAAA
* * **
19569406 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAAT-CTGCTATCTTCAACTTGTTCCCTATA
19569469 AACACAGGGATGCCATGCTGAAA
65 AACACAGGGATGCCATGCTGAAA
** * * * ** *
19569492 TCTTCGATC-TGCTTTGCTGTAAGCAC-AGGAGTGTCAGATCTGCTATCTTTGATTTGTTCCCTA
1 TCTTCGATCTTG-TTCCCTATAAACACAAGGA-TGCCA-ATCTGCTATCTTCAACTTGTTCCCTA
*
19569555 TAAACACAAGGATGCCA
63 TAAACACAGGGATGCCA
19569572 AATCTTGTTT
Statistics
Matches: 342, Mismatches: 64, Indels: 47
0.75 0.14 0.10
Matches are distributed among these distances:
85 2 0.01
86 61 0.18
87 70 0.20
88 177 0.52
89 27 0.08
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (87 bp):
TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAA
Found at i:19569292 original size:132 final size:132
Alignment explanation
Indices: 19569055--19569410 Score: 586
Period size: 132 Copynumber: 2.7 Consensus size: 132
19569045 ATCAGCTATG
* * * * * * *
19569055 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATATGTTATCTTCAACTTATTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
19569120 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTCC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
19569185 TA
131 TA
19569187 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * *
19569252 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGACCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
19569317 TA
131 TA
*
19569319 TCTTCGATTTGTTCCCTATAAACACAGGGATGTCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* *
19569384 ACATAGGGATGCCATGCTAAAATCTTC
66 ACACAGGGATGCCATGCTGAAATCTTC
19569411 AACTTGTTCC
Statistics
Matches: 209, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 209 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
TA
Found at i:19570440 original size:7 final size:7
Alignment explanation
Indices: 19570424--19570489 Score: 60
Period size: 7 Copynumber: 8.7 Consensus size: 7
19570414 GGCCTCTCCA
*
19570424 TTTTTAT
1 TTTTTCT
19570431 TTTTTCTT
1 TTTTTC-T
19570439 TTTTATCT
1 TTTT-TCT
*
19570447 TTTATCT
1 TTTTTCT
*
19570454 TTTTATTT
1 TTTT-TCT
19570462 TTTTCTCTT
1 TTTT-TC-T
19570471 TTTTTCT
1 TTTTTCT
19570478 TTTTTCT
1 TTTTTCT
19570485 TTTTT
1 TTTTT
19570490 TTTGAAATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
7 24 0.49
8 18 0.37
9 7 0.14
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:19570441 original size:8 final size:8
Alignment explanation
Indices: 19570430--19570490 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
19570420 TCCATTTTTA
19570430 TTTTTTCT
1 TTTTTTCT
19570438 TTTTTATC-
1 TTTTT-TCT
*
19570446 TTTTATCT
1 TTTTTTCT
19570454 TTTTATT-T
1 TTTT-TTCT
*
19570462 TTTTCTCT
1 TTTTTTCT
19570470 TTTTTTC-
1 TTTTTTCT
19570477 TTTTTTCT
1 TTTTTTCT
19570485 TTTTTT
1 TTTTTT
19570491 TTGAAATAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 10 0.23
8 31 0.70
9 3 0.07
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:19570449 original size:15 final size:15
Alignment explanation
Indices: 19570424--19570489 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
19570414 GGCCTCTCCA
19570424 TTTTTAT-TTTTTCT
1 TTTTTATCTTTTTCT
19570438 TTTTTATCTTTTATC-
1 TTTTTATCTTTT-TCT
*
19570453 TTTTTATTTTTTTCT
1 TTTTTATCTTTTTCT
*
19570468 CTTTTTTTCTTTTTTCT
1 -TTTTTATC-TTTTTCT
19570485 TTTTT
1 TTTTT
19570490 TTTGAAATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
14 9 0.20
15 15 0.34
16 13 0.30
17 7 0.16
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATCTTTTTCT
Found at i:19570474 original size:10 final size:9
Alignment explanation
Indices: 19570430--19570491 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
19570420 TCCATTTTTA
19570430 TTTTTTCTT
1 TTTTTTCTT
*
19570439 TTTTATCTT
1 TTTTTTCTT
*
19570448 TTATCTTTTTAT
1 TT-T-TTTCT-T
19570460 TTTTTTCTCT
1 TTTTTTCT-T
19570470 TTTTTTC--
1 TTTTTTCTT
19570477 TTTTTTCTT
1 TTTTTTCTT
19570486 TTTTTT
1 TTTTTT
19570492 TGAAATAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.16
9 16 0.37
10 13 0.30
11 4 0.09
12 3 0.07
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:19570490 original size:15 final size:15
Alignment explanation
Indices: 19570424--19570490 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
19570414 GGCCTCTCCA
*
19570424 TTTTTATTTTTTCTT
1 TTTTTCTTTTTTCTT
*
19570439 TTTTATCTTTTATCTT
1 TTTT-TCTTTTTTCTT
19570455 TTTATT-TTTTTCTCTT
1 TTT-TTCTTTTT-TCTT
19570471 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
19570486 TTTTT
1 TTTTT
19570491 TTGAAATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
15 19 0.42
16 25 0.56
17 1 0.02
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:19576071 original size:22 final size:21
Alignment explanation
Indices: 19576036--19576079 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
19576026 AAAGGATATC
19576036 TACAAATCAAATCTCCAAGAT
1 TACAAATCAAATCTCCAAGAT
* *
19576057 TACAAGATCATATCTTCAAGAT
1 TACAA-ATCAAATCTCCAAGAT
19576079 T
1 T
19576080 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (21 bp):
TACAAATCAAATCTCCAAGAT
Found at i:19576098 original size:19 final size:19
Alignment explanation
Indices: 19576063--19576160 Score: 128
Period size: 19 Copynumber: 5.2 Consensus size: 19
19576053 AGATTACAAG
19576063 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
19576084 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
19576103 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
* *
19576120 ATTATATCCAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
19576139 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
19576158 ATC
1 ATC
19576161 CTTAAAGATT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
17 15 0.22
19 45 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:19576170 original size:36 final size:36
Alignment explanation
Indices: 19576049--19576153 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 36
19576039 AAATCAAATC
* *
19576049 TCCAAGATTACAAGATCATATCTTCAAGATTGCATATCATA
1 TCCAAGATTGC-ATATCATATC-T-AAGATTG--TATCATA
** *
19576090 TTTAAGATTGCATATCATATCTAAGATTGTATTATA
1 TCCAAGATTGCATATCATATCTAAGATTGTATCATA
19576126 TCCAAGATTGCATATCATATCTAAGATT
1 TCCAAGATTGCATATCATATCTAAGATT
19576154 ACATATCCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
36 32 0.56
38 7 0.12
39 1 0.02
40 9 0.16
41 8 0.14
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (36 bp):
TCCAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:19576549 original size:34 final size:35
Alignment explanation
Indices: 19576483--19576551 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
19576473 ATAGTTTAGA
*
19576483 AATTTCAATTCATTCACATATTATAAACAATCAAG
1 AATTTCAATTCATTCACATACTATAAACAATCAAG
*
19576518 AATTTCAATTCATTCATA-ACCT-TAAACAATCAAG
1 AATTTCAATTCATTCACATA-CTATAAACAATCAAG
19576552 TAAGTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (35 bp):
AATTTCAATTCATTCACATACTATAAACAATCAAG
Found at i:19580062 original size:29 final size:28
Alignment explanation
Indices: 19580021--19580087 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 28
19580011 TTTTTTAAAG
*
19580021 AATAGTGGTAAAACTGTAAAATTTGGAA
1 AATAGTGGCAAAACTGTAAAATTTGGAA
* *
19580049 GATCAGTGGCAAAATTGTAAAATTTGGAA
1 AAT-AGTGGCAAAACTGTAAAATTTGGAA
19580078 AATAGTGGCA
1 AATAGTGGCA
19580088 GGACTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (28 bp):
AATAGTGGCAAAACTGTAAAATTTGGAA
Found at i:19580097 original size:28 final size:29
Alignment explanation
Indices: 19580024--19580100 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
19580014 TTTAAAGAAT
* * *
19580024 AGTGGTAAAACTGTAAAATTTGGAAGATC
1 AGTGGCAAAACTATAAAATTTGGAAAATC
* *
19580053 AGTGGCAAAATTGTAAAATTTGGAAAAT-
1 AGTGGCAAAACTATAAAATTTGGAAAATC
**
19580081 AGTGGCAGGACTATAAAATT
1 AGTGGCAAAACTATAAAATT
19580101 GTTAAAACGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 16 0.39
29 25 0.61
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.27
Consensus pattern (29 bp):
AGTGGCAAAACTATAAAATTTGGAAAATC
Found at i:19580354 original size:33 final size:32
Alignment explanation
Indices: 19580300--19580368 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
19580290 AAGAAAGATA
19580300 AATTCTATTAGAATTTGAAAAGGAGTAATTTG
1 AATTCTATTAGAATTTGAAAAGGAGTAATTTG
* * * *
19580332 AATTCTAATTAGGATTTTAAAAGGATTAATTTT
1 AATTCT-ATTAGAATTTGAAAAGGAGTAATTTG
19580365 AATT
1 AATT
19580369 TCAAGTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (32 bp):
AATTCTATTAGAATTTGAAAAGGAGTAATTTG
Found at i:19587047 original size:13 final size:14
Alignment explanation
Indices: 19587031--19587059 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19587021 TAATCCAATC
19587031 AAATAATC-AATAT
1 AAATAATCAAATAT
19587044 AAATAATCAAATAT
1 AAATAATCAAATAT
19587058 AA
1 AA
19587060 CATGATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATCAAATAT
Found at i:19589108 original size:49 final size:47
Alignment explanation
Indices: 19589011--19589274 Score: 164
Period size: 49 Copynumber: 5.5 Consensus size: 47
19589001 GATGCCGACA
* * * * * * **
19589011 CCATGTTCCAAACATGGTCTTACACTGGCTCTTACATCTAAGTTGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTCATACATCGAGGCCGATG
*
19589059 CCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGAC-T-CATACATCGAGGCCGATG
* * * ** * *
19589108 CCATGTCCCAAATAGGTCTTACACT-A-ACACGCCTC-AAGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTCATACATCGAGGCCGATG
* *
19589152 CCATGTCCCAGACAGGTCTTACTCT-AGCTTGCATATC-TTGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-C-T-CATA-CATCGAGGCCGATG
* * * *
19589201 TCGTGTCCTC-GACAGGTCTTACACTGGCTCTTATCTATCG-GTGCCGATG
1 CCATGTCC-CAGACAGGTCTTACACTGACTCATA-C-ATCGAG-GCCGATG
* *
19589250 CCATGTCCCAGACAAGTTTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
19589275 AACACACACA
Statistics
Matches: 169, Mismatches: 33, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
44 30 0.18
45 5 0.03
47 18 0.11
48 20 0.12
49 95 0.56
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCATACATCGAGGCCGATG
Found at i:19589218 original size:93 final size:93
Alignment explanation
Indices: 19589055--19589225 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
19589045 CATCTAAGTT
*
19589055 GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCTGATGCCATGTCCCAAA
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAAA
*
19589120 TAGGTCTTACACTAACACGCCTCAAGCC
66 CAGGTCTTACACTAACACGCCTCAAGCC
* * * * *
19589148 GATGCCATGTCCCAGACAGGTCTTACTCT-AGCTTGCATATC-TTGAGGCCGATGTCGTGTCCTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CATCGAGGCCGATGCCATGTCC-C
*
19589211 -GACAGGTCTTACACT
63 AAACAGGTCTTACACT
19589226 GGCTCTTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 1 0.01
93 64 0.96
94 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAAA
CAGGTCTTACACTAACACGCCTCAAGCC
Found at i:19608329 original size:20 final size:21
Alignment explanation
Indices: 19608274--19608332 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
19608264 ATTCGACATT
19608274 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATATATAA
* * *
19608295 TGT-TTTGATATGATAT-TTA
1 TGTATATGATAAGATATATAA
19608314 TGTATATGATAAGATATAT
1 TGTATATGATAAGATATAT
19608333 TTGTAATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTATATGATAAGATATATAA
Found at i:19608337 original size:20 final size:20
Alignment explanation
Indices: 19608271--19608337 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
19608261 ATGATTCGAC
19608271 ATTTGTATATGTATAAG-TAT
1 ATTTGTATATG-ATAAGATAT
* * *
19608291 ATAATGT-TTTGATATGATAT
1 AT-TTGTATATGATAAGATAT
19608311 -TTATGTATATGATAAGATAT
1 ATT-TGTATATGATAAGATAT
19608331 ATTTGTA
1 ATTTGTA
19608338 ATGTATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 8 0.22
20 23 0.64
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATTTGTATATGATAAGATAT
Found at i:19610868 original size:21 final size:21
Alignment explanation
Indices: 19610807--19610889 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
19610797 TAGGTGGATA
* *
19610807 AACTCTTACAAGCTTCTATTC
1 AACTCTTACGAGCTTCTGTTC
19610828 AACTCTTACGAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
*
19610849 AACTCTTACGAGCTTTTGTTC
1 AACTCTTACGAGCTTCTGTTC
** **
19610870 CGCTCTTTTGAGCTTCTGTT
1 AACTCTTACGAGCTTCTGTT
19610890 GATGTGTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTC
Found at i:19617106 original size:46 final size:47
Alignment explanation
Indices: 19616839--19617158 Score: 221
Period size: 46 Copynumber: 6.8 Consensus size: 47
19616829 AAGGTGTAAT
*
19616839 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGA
* * * * * ** * **
19616886 GTCGATGCTATGTCCTAGACATGGACTTATACTAACTATAAAAATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGA
* * * * * * *
19616934 GGCAGACGCTATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGA
* *
19616985 CCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-A
19617031 -CCTGATG-CATG-CCCAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GCC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA
* * * *
19617075 GGCCGATG-CATGTCCCAGATAT-GTCTAACACTAGCTCT-CATCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGA
* *
19617121 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
19617159 CTCATAATGT
Statistics
Matches: 214, Mismatches: 43, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
43 12 0.06
44 10 0.05
45 24 0.11
46 44 0.21
47 42 0.20
48 15 0.07
49 31 0.14
50 34 0.16
51 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA
Found at i:19617117 original size:91 final size:94
Alignment explanation
Indices: 19616986--19617158 Score: 214
Period size: 91 Copynumber: 1.9 Consensus size: 94
19616976 CATATCCGTC
* * *
19616986 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTC-GTACCTGATG-CATG-CCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTAACACTGACACATCTCAAT-CCTGATGCCATGTCCCAAA
19617048 CAT-GTCTTACACTGGCTTACATCTCGAGG
65 CATGGTCTTACACTGGCTTACATCTCGAGG
* * * *
19617077 CCGATG-CATGTCCCAGATAT-GTCTAACACTAGCTCTCATCTCAATGCTGATGCCATGTCCCAA
1 CCGATGCCATGTCCCAGACATGGTCTAACACT-G-ACACATCTCAATCCTGATGCCATGTCCCAA
19617140 ACATGGTCTTACACTGGCT
64 ACATGGTCTTACACTGGCT
19617159 CTCATAATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
89 9 0.13
90 14 0.20
91 19 0.28
92 5 0.07
93 8 0.12
94 14 0.20
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTAACACTGACACATCTCAATCCTGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTTACATCTCGAGG
Found at i:19626249 original size:48 final size:48
Alignment explanation
Indices: 19626167--19626260 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
19626157 TTTCTTGGCT
* *
19626167 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
19626215 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
19626261 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:19628758 original size:48 final size:48
Alignment explanation
Indices: 19628676--19628769 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
19628666 TTTCTTGGCT
* *
19628676 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
19628724 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
19628770 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:19630139 original size:20 final size:22
Alignment explanation
Indices: 19630101--19630141 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
19630091 TTCAATAAAT
*
19630101 AAAAATAAAATTATTAATATTA
1 AAAAATAAAATTATAAATATTA
19630123 AAAAAT-AAA-TATAAATATT
1 AAAAATAAAATTATAAATATT
19630142 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAAAATTATAAATATTA
Found at i:19631350 original size:23 final size:24
Alignment explanation
Indices: 19631316--19631364 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
19631306 TAATAAATTT
*
19631316 TACACAAAATGAAAAACGACAAAG
1 TACACAAAATGAAAAACAACAAAG
19631340 TACA-AAAATGAAAAACAACAAAG
1 TACACAAAATGAAAAACAACAAAG
19631363 TA
1 TA
19631365 AATGATGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.65, C:0.14, G:0.10, T:0.10
Consensus pattern (24 bp):
TACACAAAATGAAAAACAACAAAG
Found at i:19639887 original size:39 final size:39
Alignment explanation
Indices: 19639833--19639912 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
19639823 TTTACAAATT
*
19639833 TTGGTAGACTTGTAGATATTTTGCCAAAATAGCAGATTC
1 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
19639872 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
1 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
19639911 TT
1 TT
19639913 ACCCTGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (39 bp):
TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
Found at i:19658915 original size:39 final size:40
Alignment explanation
Indices: 19658814--19659037 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
19658804 TTGAATGATG
* *
19658814 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19658853 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19658894 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19658933 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19658972 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19659011 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19659038 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19659001 original size:79 final size:80
Alignment explanation
Indices: 19658814--19659037 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
19658804 TTGAATGATG
* * * *
19658814 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
19658877 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
19658894 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
19658956 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
19658972 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
19659037 G
66 G
19659038 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 35 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:19659059 original size:79 final size:79
Alignment explanation
Indices: 19658814--19659070 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
19658804 TTGAATGATG
* * * * *
19658814 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
19658876 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
19658894 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
19658958 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
19658972 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
19659036 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
19659052 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19659071 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 68 0.44
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:19666102 original size:40 final size:39
Alignment explanation
Indices: 19666018--19666213 Score: 245
Period size: 39 Copynumber: 4.9 Consensus size: 39
19666008 TTGAATGATG
* *
19666018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
19666057 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
19666098 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19666137 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19666176 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
19666214 TAACCGGGAT
Statistics
Matches: 142, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 74 0.52
40 56 0.39
41 11 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19666221 original size:40 final size:39
Alignment explanation
Indices: 19666018--19666241 Score: 258
Period size: 40 Copynumber: 5.7 Consensus size: 39
19666008 TTGAATGATG
* * *
19666018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
19666058 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
19666097 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
19666136 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
19666176 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
19666216 ACCGGGATATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19666242 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 74 0.45
40 83 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:19666221 original size:79 final size:80
Alignment explanation
Indices: 19666018--19666241 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 80
19666008 TTGAATGATG
* * * * *
19666018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
19666082 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
19666098 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
19666160 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * *
19666176 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGATATGTCTCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
19666241 G
66 G
19666242 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 57 0.46
80 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:19666263 original size:79 final size:79
Alignment explanation
Indices: 19666071--19666274 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 79
19666061 GGACTAAGAT
** * *
19666071 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
* *
19666134 AATTCCGGGCTAAGC
65 AATACCGGGATAAGC
** * *
19666149 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
19666213 ATAACCGGGATATGTC
66 AT-ACCGGGATAAG-C
* * * *
19666229 TCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
19666275 TACGTGATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 47 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGATAAGC
Found at i:19669113 original size:18 final size:20
Alignment explanation
Indices: 19669076--19669122 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
19669066 TAAATAATAG
19669076 TTATATTTGTATAAATGTGAA
1 TTATATTTGTAT-AATGTGAA
19669097 TTATATTTG-AT-ATGTGAA
1 TTATATTTGTATAATGTGAA
19669115 TTAATATT
1 TT-ATATT
19669123 GAATGTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
19 5 0.20
20 2 0.08
21 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
TTATATTTGTATAATGTGAA
Found at i:19669124 original size:18 final size:17
Alignment explanation
Indices: 19669089--19669129 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
19669079 TATTTGTATA
19669089 AATGTGAATTATATTTG
1 AATGTGAATTATATTTG
19669106 ATATGTGAATTA-ATATTG
1 A-ATGTGAATTATAT-TTG
19669124 AATGTG
1 AATGTG
19669130 GAAGGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (17 bp):
AATGTGAATTATATTTG
Found at i:19669360 original size:23 final size:23
Alignment explanation
Indices: 19669333--19669430 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
19669323 AGTGTTATTG
19669333 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
19669356 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19669379 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19669401 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19669424 ATCAGTG
1 ATCAGTG
19669431 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:19669398 original size:45 final size:46
Alignment explanation
Indices: 19669333--19669430 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
19669323 AGTGTTATTG
* *
19669333 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
19669379 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
19669424 ATCAGTG
1 ATCAGTG
19669431 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:19674647 original size:18 final size:17
Alignment explanation
Indices: 19674614--19674652 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19674604 TTGTATAAAT
19674614 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
19674632 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
19674649 TGTG
1 TGTG
19674653 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:19674883 original size:23 final size:23
Alignment explanation
Indices: 19674856--19674953 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
19674846 AGTGTTATTG
19674856 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
19674879 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19674902 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19674924 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19674947 ATCAGTG
1 ATCAGTG
19674954 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:19674921 original size:45 final size:46
Alignment explanation
Indices: 19674856--19674953 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
19674846 AGTGTTATTG
* *
19674856 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
19674902 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
19674947 ATCAGTG
1 ATCAGTG
19674954 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:19687248 original size:39 final size:39
Alignment explanation
Indices: 19687204--19687281 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
19687194 AACTCTGTGA
19687204 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
1 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
*
19687243 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGGAGAC
1 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
19687282 ACCTAGGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (39 bp):
TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
Found at i:19692808 original size:40 final size:40
Alignment explanation
Indices: 19692739--19692814 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
19692729 ACGATGTTTG
*
19692739 GCTCTTAGTGTGAGATTGAGAACAGCTTCGGCTATAAATA
1 GCTCTTAGTGTGAGATTGAGAACAACTTCGGCTATAAATA
* *
19692779 GCTCTTAGTGTGTGAATTG-GAATAACTTCGGCTATA
1 GCTCTTAGTGTGAG-ATTGAGAACAACTTCGGCTATA
19692815 TGAGGCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (40 bp):
GCTCTTAGTGTGAGATTGAGAACAACTTCGGCTATAAATA
Found at i:19700843 original size:41 final size:40
Alignment explanation
Indices: 19700796--19700981 Score: 192
Period size: 41 Copynumber: 4.6 Consensus size: 40
19700786 CCTAATTATT
* * *
19700796 CCCTGAATTGTACATACGTGCCCCTTTCTATACTTCAATAC
1 CCCTGAATTGCACATATGTGCCCCTTT-TATACTTCAGTAC
** *
19700837 CCCTGAATTGCACATATGTGCCCCTATTTATACTTTGGCAC
1 CCCTGAATTGCACATATGTGCCCCT-TTTATACTTCAGTAC
* * * *
19700878 CCCTGAATTCCACATATGTGCCCCTCTCTGTACTTCGGTAC
1 CCCTGAATTGCACATATGTGCCCCT-TTTATACTTCAGTAC
* ** * *
19700919 CCTTGAATTGCACATACATGCCCCTGTTGTACTTCAGTAC
1 CCCTGAATTGCACATATGTGCCCCTTTTATACTTCAGTAC
* *
19700959 CCCTAAAATGCACATATGTGCCC
1 CCCTGAATTGCACATATGTGCCC
19700982 TGTTTACACT
Statistics
Matches: 120, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 30 0.25
41 88 0.73
42 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (40 bp):
CCCTGAATTGCACATATGTGCCCCTTTTATACTTCAGTAC
Found at i:19703834 original size:18 final size:17
Alignment explanation
Indices: 19703808--19703848 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
19703798 ACTTGGTTTT
*
19703808 TCTTGTTTTCTTTTGCTC
1 TCTTTTTTTCTTTT-CTC
19703826 TCTTTTTTTCTTTTCTC
1 TCTTTTTTTCTTTTCTC
19703843 T-TTTTT
1 TCTTTTT
19703849 AGGACACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 4 0.18
18 13 0.59
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.76
Consensus pattern (17 bp):
TCTTTTTTTCTTTTCTC
Found at i:19706071 original size:17 final size:17
Alignment explanation
Indices: 19706049--19706084 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19706039 AAAGTCAGGG
*
19706049 TAAAATTATAATAAAAA
1 TAAAATAATAATAAAAA
*
19706066 TAAAATAATATTAAAAA
1 TAAAATAATAATAAAAA
19706083 TA
1 TA
19706085 TGGAAGGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAATAATAATAAAAA
Found at i:19707416 original size:44 final size:44
Alignment explanation
Indices: 19707302--19707533 Score: 320
Period size: 44 Copynumber: 5.2 Consensus size: 44
19707292 AGCCGAAATG
* * * * *
19707302 TTCGATCTGCTCTCTGACAATACAGAGACACCGAATCCACAACC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
* * * *
19707346 CTCAATCTTGCTCTCTGACAATACAGAGACGTCAAATCTGCTATC
1 TTCGATC-TGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
* * *
19707391 TTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
*
19707435 TTCGATCTGCTCTCTGACAATACAGAGACGTCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
* *
19707479 TTCGATCTGCTTTCTGGCAATACAGAGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
19707523 TTCGATCTGCT
1 TTCGATCTGCT
19707534 ATCTTCGATC
Statistics
Matches: 164, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 131 0.80
45 33 0.20
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATC
Found at i:19707535 original size:14 final size:14
Alignment explanation
Indices: 19707513--19707552 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
19707503 GAGACGCCAA
*
19707513 ATCTACTATCTTCG
1 ATCTGCTATCTTCG
19707527 ATCTGCTATCTTCG
1 ATCTGCTATCTTCG
*
19707541 ATCTGCTCTCTT
1 ATCTGCTATCTT
19707553 ACAATACAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (14 bp):
ATCTGCTATCTTCG
Found at i:19707564 original size:58 final size:58
Alignment explanation
Indices: 19707469--19707591 Score: 201
Period size: 58 Copynumber: 2.1 Consensus size: 58
19707459 GAGACGTCAA
* * *
19707469 ATCTACTATCTTCGATCTGCTTTCTGGCAATACAGAGACGCCAAATCTACTATCTTCG
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
* *
19707527 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
19707585 ATCTGCT
1 ATCTGCT
19707592 CTCTGACAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (58 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
Done.