Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 91 of 216
Found at i:28069192 original size:1 final size:1
Alignment explanation
Indices: 28069178--28069284 Score: 61
Period size: 1 Copynumber: 107.0 Consensus size: 1
28069168 TCGGTAGAAG
* * * * * * * * * * * *
28069178 TTTTTGTTTCTTTTTTTTGTTCTTTTTTTATTTTGTTTTTATTTTGTTTTTATTTTGTGTTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
28069243 TTTTTTGTTTTTTATTTTTTATTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28069285 GTCCTCTACT
Statistics
Matches: 72, Mismatches: 34, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:28069196 original size:13 final size:12
Alignment explanation
Indices: 28069178--28069286 Score: 89
Period size: 13 Copynumber: 8.6 Consensus size: 12
28069168 TCGGTAGAAG
28069178 TTTTTGTTTCTTT
1 TTTTTGTTT-TTT
28069191 TTTTTGTTCTTTT
1 TTTTTGTT-TTTT
28069204 TTTATT-TTGTTTT
1 TTT-TTGTT-TTTT
28069217 TATTTTGTTTTTAT
1 T-TTTTGTTTTT-T
*
28069231 TTTGTGTTTTTAT
1 TTTTTGTTTTT-T
28069244 TTTTTGTTTTTT
1 TTTTTGTTTTTT
28069256 ATTTTT-TATTTTT
1 -TTTTTGT-TTTTT
* *
28069269 TATTT-TTTATT
1 TTTTTGTTTTTT
28069280 TTTTTGT
1 TTTTTGT
28069287 CCTCTACTGC
Statistics
Matches: 82, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
11 8 0.10
12 8 0.10
13 57 0.70
14 9 0.11
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:28069216 original size:11 final size:11
Alignment explanation
Indices: 28069202--28069281 Score: 76
Period size: 11 Copynumber: 6.9 Consensus size: 11
28069192 TTTTGTTCTT
28069202 TTTTTATTTTG
1 TTTTTATTTTG
28069213 TTTTTATTTTG
1 TTTTTATTTTG
28069224 TTTTTATTTTGTG
1 TTTTTA-TTT-TG
28069237 TTTTTATTTTTTG
1 TTTTTA--TTTTG
28069250 TTTTTTATTTT-
1 -TTTTTATTTTG
28069261 TTATTT-TTTAT-
1 TT-TTTATTT-TG
28069272 TTTTTATTTT
1 TTTTTATTTT
28069282 TTTGTCCTCT
Statistics
Matches: 62, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.15
11 26 0.42
12 7 0.11
13 10 0.16
14 10 0.16
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTG
Found at i:28069216 original size:22 final size:20
Alignment explanation
Indices: 28069178--28069284 Score: 85
Period size: 21 Copynumber: 5.2 Consensus size: 20
28069168 TCGGTAGAAG
* *
28069178 TTTTTGTTTCTTTT-TTTTGT
1 TTTTTTTTTATTTTGTTTT-T
*
28069198 TCTTTTTTTATTTTGTTTTT
1 TTTTTTTTTATTTTGTTTTT
*
28069218 ATTTTGTTTTTATTTTGTGTTT
1 -TTTT-TTTTTATTTTGTTTTT
* *
28069240 TTATTTTTTGTTTT-TTATTT
1 TTTTTTTTTATTTTGTT-TTT
28069260 TTTATTTTTTATTTT-TTATTT
1 TTT-TTTTTTATTTTGTT-TTT
28069281 TTTT
1 TTTT
28069285 GTCCTCTACT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.01
20 27 0.38
21 29 0.40
22 15 0.21
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTATTTTGTTTTT
Found at i:28069247 original size:7 final size:7
Alignment explanation
Indices: 28069201--28069283 Score: 91
Period size: 7 Copynumber: 11.9 Consensus size: 7
28069191 TTTTTGTTCT
28069201 TTTTTTA
1 TTTTTTA
28069208 TTTTGTT-
1 TTTT-TTA
28069215 TTTATTT-
1 TTT-TTTA
28069222 TGTTTTTA
1 T-TTTTTA
*
28069230 TTTTGT-
1 TTTTTTA
*
28069236 GTTTTTA
1 TTTTTTA
*
28069243 TTTTTTG
1 TTTTTTA
28069250 TTTTTTA
1 TTTTTTA
28069257 TTTTTTA
1 TTTTTTA
28069264 TTTTTTA
1 TTTTTTA
28069271 TTTTTTA
1 TTTTTTA
28069278 TTTTTT
1 TTTTTT
28069284 TGTCCTCTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
6 4 0.06
7 55 0.85
8 6 0.09
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:28074883 original size:18 final size:19
Alignment explanation
Indices: 28074847--28074884 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
28074837 ATAAAAGGAT
28074847 ATAAAATAATAATTAATGA
1 ATAAAATAATAATTAATGA
*
28074866 ATAAAATAATCA-TAATGA
1 ATAAAATAATAATTAATGA
28074884 A
1 A
28074885 AATAGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAATAATAATTAATGA
Found at i:28074907 original size:7 final size:8
Alignment explanation
Indices: 28074891--28074927 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
28074881 TGAAAATAGT
28074891 AATAAAAA
1 AATAAAAA
28074899 AATAAAAA
1 AATAAAAA
28074907 AATAAAAA
1 AATAAAAA
28074915 AATAAAAA
1 AATAAAAA
28074923 AATAA
1 AATAA
28074928 GTAGAGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:28075722 original size:9 final size:9
Alignment explanation
Indices: 28075708--28075732 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
28075698 AGAAACATAG
28075708 AAAGAAAAA
1 AAAGAAAAA
28075717 AAAGAAAAA
1 AAAGAAAAA
28075726 AAAGAAA
1 AAAGAAA
28075733 CCTTTGCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:28080754 original size:15 final size:15
Alignment explanation
Indices: 28080736--28080766 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28080726 ACTTTCCTCA
*
28080736 TTTTCATTTTCTTTT
1 TTTTCAATTTCTTTT
28080751 TTTTCAATTTCTTTT
1 TTTTCAATTTCTTTT
28080766 T
1 T
28080767 CATTTTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCAATTTCTTTT
Found at i:28082099 original size:28 final size:28
Alignment explanation
Indices: 28082065--28082126 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
28082055 GTAACAGAAT
*
28082065 AAAACAAGGTGGGCTTTAGCCCAATACA
1 AAAACAAGGTGGGCCTTAGCCCAATACA
*
28082093 GAAACAAGGTGGGCCTTAGCCCAATACA
1 AAAACAAGGTGGGCCTTAGCCCAATACA
28082121 AAAACA
1 AAAACA
28082127 GTATGCAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (28 bp):
AAAACAAGGTGGGCCTTAGCCCAATACA
Found at i:28082322 original size:27 final size:27
Alignment explanation
Indices: 28082285--28082349 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
28082275 AGTAGAGCTG
28082285 CCAGT-ACAGTATATATGGCAAAGCCA
1 CCAGTAACAGTATATATGGCAAAGCCA
* *
28082311 CCAGTAACAGTATATGTGGCAGAGCCA
1 CCAGTAACAGTATATATGGCAAAGCCA
*
28082338 CCCGTAACAGTA
1 CCAGTAACAGTA
28082350 CTTCCTCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 5 0.14
27 30 0.86
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTATATATGGCAAAGCCA
Found at i:28082674 original size:54 final size:53
Alignment explanation
Indices: 28082587--28082744 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 53
28082577 CTTACCATAC
* * * * * *
28082587 AGGGGTATTTCAATAATTTCAAAAACCAAGGGTATTTCGATAATTTCACAGATT
1 AGGGGTGTTTCAGTAATTTTACAAACCGAGGGTATTT-GATAATTTCACACATT
* * * *
28082641 -GGAGGTGTTTC-GATAATTTTACAAACTGGGGGTATTTTAGTAATTTTACACATT
1 AGG-GGTGTTTCAG-TAATTTTACAAACCGAGGGTATTTGA-TAATTTCACACATT
* *
28082695 AGGGGTGTTTCAGTAATTTTGCAAACCGAGGGTATTTAGGTAATTTCACA
1 AGGGGTGTTTCAGTAATTTTACAAACCGAGGGTATTT-GATAATTTCACA
28082745 AATAGAGGGT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
53 3 0.04
54 76 0.93
55 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (53 bp):
AGGGGTGTTTCAGTAATTTTACAAACCGAGGGTATTTGATAATTTCACACATT
Found at i:28082684 original size:27 final size:27
Alignment explanation
Indices: 28082654--28082746 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
28082644 GGTGTTTCGA
28082654 TAATTTTACAAACTGGGGGTATTTTAG
1 TAATTTTACAAACTGGGGGTATTTTAG
* * * * *
28082681 TAATTTTACACATTAGGGGTGTTTCAG
1 TAATTTTACAAACTGGGGGTATTTTAG
* * *
28082708 TAATTTTGCAAACCGAGGGTA-TTTAGG
1 TAATTTTACAAACTGGGGGTATTTTA-G
*
28082735 TAATTTCACAAA
1 TAATTTTACAAA
28082747 TAGAGGGTCT
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 3 0.06
27 47 0.94
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACTGGGGGTATTTTAG
Found at i:28084832 original size:13 final size:13
Alignment explanation
Indices: 28084816--28084841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28084806 ACTCGTTCCT
28084816 TTTACCTCTCGAA
1 TTTACCTCTCGAA
28084829 TTTACCTCTCGAA
1 TTTACCTCTCGAA
28084842 GTTCTTAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTACCTCTCGAA
Found at i:28087965 original size:25 final size:25
Alignment explanation
Indices: 28087890--28087959 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
28087880 TCCTATACAT
*
28087890 GTATGCTCACACGAACTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* *
28087915 GTATGCTTACACGAGCT-TTAATTCG
1 GTATGCTCACACGAGCTGTGAA-TCG
*
28087940 GTATGCTCACATGAGCTGTG
1 GTATGCTCACACGAGCTGTG
28087960 GGTCGGAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 3 0.08
25 33 0.89
26 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:28097807 original size:42 final size:42
Alignment explanation
Indices: 28097673--28097852 Score: 181
Period size: 42 Copynumber: 4.3 Consensus size: 42
28097663 CTCGGTGGAT
28097673 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
* **
28097714 TCAGCACATAGCAACC-CCTTTCACAA-TCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATTCAGTGATACGG-GGAA
* *
28097757 TCAACACTTA-CTAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGC-AACCACCTTTAAATTCAGTGATACGGGGAA
* * * * *
28097799 TCAGCACTTAACAACCACCTTTAGAA-TCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAA
*
28097841 TTAGCACTTAGC
1 TCAGCACTTAGC
28097853 GACCCCTCAG
Statistics
Matches: 114, Mismatches: 16, Indels: 17
0.78 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 17 0.15
42 59 0.52
43 31 0.27
44 5 0.04
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
Found at i:28097814 original size:85 final size:84
Alignment explanation
Indices: 28097665--28097828 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 84
28097655 ATCCGTTACT
* * *
28097665 CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAACAACC
28097730 -CCTTTCACAATCAAAGATA
66 ACCTTT-ACAATCAAAGATA
* *
28097749 CGGTGGAATCAACACTTA-CTAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAACAA
1 CGGTGGAATCAACACTTAGC-AACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAACAA
*
28097813 CCACCTTTAGAATCAA
64 CCACCTTTACAATCAA
28097829 TAATTCAGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.01
84 23 0.32
85 42 0.59
86 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAACAACC
ACCTTTACAATCAAAGATA
Found at i:28097862 original size:26 final size:26
Alignment explanation
Indices: 28097833--28097885 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28097823 AATCAATAAT
28097833 TCAGGGAAT-TAGCACTTAGCGACCCC
1 TCAGGGAATCTA-CACTTAGCGACCCC
28097859 TCAGGGAATCTACACTTAGCGACCCC
1 TCAGGGAATCTACACTTAGCGACCCC
28097885 T
1 T
28097886 TTTCATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (26 bp):
TCAGGGAATCTACACTTAGCGACCCC
Found at i:28098257 original size:30 final size:30
Alignment explanation
Indices: 28098223--28098284 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
28098213 TCATTAACTC
28098223 AAACTTTGGCAAAATTACAATTTTGCCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
* * * * *
28098253 AAACTTTTGCATATTTACACTTTTGTCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
28098283 AA
1 AA
28098285 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCA
Found at i:28102346 original size:32 final size:34
Alignment explanation
Indices: 28102298--28102367 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
28102288 ATACGACATG
28102298 CAGTATCAGTCTGGGCCTAAGCCCTAA-A-AGTAA
1 CAGTATCAGTCTGGGCCTAAG-CCTAATACAGTAA
* *
28102331 CAGTAT-AGTGTGGGCCTTAGCCTAATACAGTAA
1 CAGTATCAGTCTGGGCCTAAGCCTAATACAGTAA
28102364 CAGT
1 CAGT
28102368 GTGGGCCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 13 0.39
33 15 0.45
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTATCAGTCTGGGCCTAAGCCTAATACAGTAA
Found at i:28102395 original size:28 final size:28
Alignment explanation
Indices: 28102337--28102395 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
28102327 GTAACAGTAT
* *
28102337 AGTGTGGGCCTTAGCCTAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
*
28102365 AGTGTGGGCCTTAGCCCAATACAATATC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
28102393 AGT
1 AGT
28102396 ACAGTGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:28102401 original size:33 final size:27
Alignment explanation
Indices: 28102330--28102387 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
28102320 CCTAAAAGTA
*
28102330 ACAGTATAGTGTGGGCCTTAGCCTAAT
1 ACAGTACAGTGTGGGCCTTAGCCTAAT
*
28102357 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGT-ACAGTGTGGGCCTTAGCCTAAT
28102385 ACA
1 ACA
28102388 ATATCAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTTAGCCTAAT
Found at i:28102532 original size:26 final size:26
Alignment explanation
Indices: 28102503--28102569 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
28102493 ACCAATACCG
28102503 CAGCAAAGCTGCCAGTAGT-AGCATCA
1 CAGCAAAGCTGCCAGTA-TCAGCATCA
* * * *
28102529 CAGCAGAGCTGCCTGTATCAGTATCG
1 CAGCAAAGCTGCCAGTATCAGCATCA
28102555 CAGCAAAGCTGCCAG
1 CAGCAAAGCTGCCAG
28102570 AACAGTATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTATCAGCATCA
Found at i:28103275 original size:27 final size:27
Alignment explanation
Indices: 28102740--28103285 Score: 484
Period size: 27 Copynumber: 20.3 Consensus size: 27
28102730 GGGTATAATA
**
28102740 GTCATTTTACCC--TACGGGGTATTTTA
1 GTCATTTTACCCTTTA-GGGGTATTTCG
** **
28102766 GTCATTTTACCCTTCGGGGGTATTTTT
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
28102793 GTCATTTTACCCTTTAGGAGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * **
28102820 ATCATTTTA-CCTTTCGGGGGTATTTTA
1 GTCATTTTACCCTTT-AGGGGTATTTCG
* *
28102847 GTCATTTTACCCTTTAAGGTTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * * *
28102874 GTTATTTTTCCC-TAAGGGGGTATTTCT
1 GTCATTTTACCCTTTA-GGGGTATTTCG
*
28102901 GTCATTTTACCC-TTCGGAGGTATTTCG
1 GTCATTTTACCCTTTAGG-GGTATTTCG
* *
28102928 ATCATTTTACCTTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * * * *
28102955 ATTATTTTACTCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* **
28102982 ATCATTTTACCCTTT-GGGCGTATTTTA
1 GTCATTTTACCCTTTAGGG-GTATTTCG
*
28103009 GTCATTTTA-TCTTTAGGGGGTATTTCG
1 GTCATTTTACCCTTTA-GGGGTATTTCG
* *
28103036 ATCATTTTACCCTTCAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
28103063 ATCATTTTA-CCTTTTGGGGATATTTCG
1 GTCATTTTACCCTTTAGGGG-TATTTCG
* * *
28103090 GTTATTTTACCTTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
28103117 ATCATTTTACCCTTCT-GGGGTATTTCG
1 GTCATTTTACCCTT-TAGGGGTATTTCG
* *
28103144 GTCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
28103171 GTTATTTTA-CCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* *
28103198 GTCATTTTATCCTTT-GGTGGTATTTCA
1 GTCATTTTACCCTTTAGG-GGTATTTCG
* *
28103225 GTCATTTTACCCTTCAGGGCTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
28103252 GTCATTTTATCCTTTAGGAGTATTTCA
1 GTCATTTTACCCTTTAGGGGTATTTCG
28103279 GTCATTT
1 GTCATTT
28103286 GCCCACGAAT
Statistics
Matches: 425, Mismatches: 76, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
26 43 0.10
27 350 0.82
28 32 0.08
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:28110280 original size:28 final size:28
Alignment explanation
Indices: 28110248--28110326 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
28110238 GTAACAGTGT
**
28110248 AGTGTGGGCCTTAGCCTCATACAGTAAC
1 AGTGTGGGCCTTAGCCAAATACAGTAAC
28110276 AGTGTGGGCCTTAGCCAAATACAGTAAC
1 AGTGTGGGCCTTAGCCAAATACAGTAAC
* *
28110304 AGTCTGGGCCTTAGCCCAATACA
1 AGTGTGGGCCTTAGCCAAATACA
28110327 ATATCAGTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCAAATACAGTAAC
Found at i:28110750 original size:54 final size:54
Alignment explanation
Indices: 28110620--28110924 Score: 313
Period size: 54 Copynumber: 5.7 Consensus size: 54
28110610 AAAGGTATAA
* * *
28110620 CAGTCATTTTATCCTAT-GGGGGTATTTT-GGTCATTTTACCCTTGGGGGTATTT
1 CAGTCATTTTACCCT-TCGGGGGTATTTTCGATCATTTTACCTTTGGGGGTATTT
* * * * *
28110673 -TGATCATTTTACCTTTTGGGGGTATTTTAG-TCATTTTACCTTTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGGGGGTATTTTCGATCATTTTACCTTT-GGGGGTATTT
* * *
28110727 CAGTCATTTTACCCTTCGAGGGTA-TTTCGATTATTTTACTTTTAGGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTCGATCATTTTACCTTT-GGGGGTATTT
* *
28110781 CAATCATTTTACCCTTCGGGGGTA-TTTCGATCATTTTACCCTTTGGGGATATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTCGATCATTTTA-CCTTTGGGGGTATTT
* * **
28110835 CAGTTATTTTACCTTTCATGGGTATTTT-GATCATTTTACCCTTTGGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTCGATCATTTTA-CCTTTGGGGGTATTT
* *
28110889 C-GATCATTTTACCCTACGGGGGTA-TTTCGGTCATTT
1 CAG-TCATTTTACCCTTCGGGGGTATTTTCGATCATTT
28110925 GGCCATGAGT
Statistics
Matches: 211, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 41 0.19
54 160 0.76
55 8 0.04
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (54 bp):
CAGTCATTTTACCCTTCGGGGGTATTTTCGATCATTTTACCTTTGGGGGTATTT
Found at i:28110790 original size:81 final size:82
Alignment explanation
Indices: 28110623--28110917 Score: 354
Period size: 81 Copynumber: 3.6 Consensus size: 82
28110613 GGTATAACAG
* * * * *
28110623 TCATTTTATCCTAT-GGGGGTATTTTGGTCATTTTACCCTT-GGGGGTATTTTGATCATTTTACC
1 TCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGATTATTTTACC
*
28110686 TTTT-GGGGGTATTTTAG
65 TTTTAGGGGGTATTTTAA
* *
28110703 TCATTTTACCTTTCGAGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTA-C
1 TCATTTTACCTTTCGGGGGTATTTCGA-TCATTTTACCCTTCGGGGGTATTTCGATTATTTTACC
*
28110766 TTTTAGGGGGTATTTCAA
65 TTTTAGGGGGTATTTTAA
* * *
28110784 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTGGGGATATTTC-AGTTATTTTACC
1 TCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGA-TTATTTTACC
* * *
28110848 TTTCA-TGGGTATTTTGA
65 TTTTAGGGGGTATTTTAA
*
28110865 TCATTTTACCCTTT-GGGGGTATTTCGATCATTTTACCCTACGGGGGTATTTCG
1 TCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCG
28110918 GTCATTTGGC
Statistics
Matches: 184, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
79 4 0.02
80 36 0.20
81 134 0.73
82 10 0.05
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (82 bp):
TCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGATTATTTTACCT
TTTAGGGGGTATTTTAA
Found at i:28110860 original size:27 final size:27
Alignment explanation
Indices: 28110620--28110924 Score: 195
Period size: 27 Copynumber: 11.3 Consensus size: 27
28110610 AAAGGTATAA
* *
28110620 CAGTCATTTTATCCTAT-GGGGGTATTT
1 CAGTCATTTTA-CCTTTCAGGGGTATTT
** * *
28110647 TGGTCATTTTACCCTT-GGGGGTATTT
1 CAGTCATTTTACCTTTCAGGGGTATTT
* **
28110673 -TGATCATTTTACCTTTTGGGGGTATTT
1 CAG-TCATTTTACCTTTCAGGGGTATTT
*
28110700 TAGTCATTTTACCTTTC-GAGGGTATTT
1 CAGTCATTTTACCTTTCAG-GGGTATTT
*
28110727 CAGTCATTTTACCCTTC-GAGGGTATTT
1 CAGTCATTTTACCTTTCAG-GGGTATTT
* *
28110754 C-GATTATTTTA-CTTTTAGGGGGTATTT
1 CAG-TCATTTTACCTTTCA-GGGGTATTT
* * *
28110781 CAATCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCTTTCAGGGGTATTT
28110808 C-GATCATTTTACCCTTT--GGGGATATTT
1 CAG-TCATTTTA-CCTTTCAGGGG-TATTT
* *
28110835 CAGTTATTTTACCTTTCATGGGTATTT
1 CAGTCATTTTACCTTTCAGGGGTATTT
* *
28110862 -TGATCATTTTACCCTTT-GGGGGTATTT
1 CAG-TCATTTTA-CCTTTCAGGGGTATTT
* * *
28110889 C-GATCATTTTACCCTACGGGGGTATTT
1 CAG-TCATTTTACCTTTCAGGGGTATTT
*
28110916 CGGTCATTT
1 CAGTCATTT
28110925 GGCCATGAGT
Statistics
Matches: 230, Mismatches: 28, Indels: 40
0.77 0.09 0.13
Matches are distributed among these distances:
25 1 0.00
26 43 0.19
27 167 0.73
28 19 0.08
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (27 bp):
CAGTCATTTTACCTTTCAGGGGTATTT
Found at i:28115258 original size:28 final size:27
Alignment explanation
Indices: 28115218--28115282 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
28115208 CAGTAATAGT
* *
28115218 ACAGTGTTGGCCTCATCCCAAAACAGAA
1 ACAGTG-TGGCCTAAGCCCAAAACAGAA
** *
28115246 ACAGTGTGAGCCTAAGCCTGATACAGAA
1 ACAGTGTG-GCCTAAGCCCAAAACAGAA
28115274 ACAGTGTGG
1 ACAGTGTGG
28115283 TGCAAGTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.10
28 28 0.90
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
ACAGTGTGGCCTAAGCCCAAAACAGAA
Found at i:28115439 original size:26 final size:26
Alignment explanation
Indices: 28115388--28115439 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28115378 ACCAATATCA
* * *
28115388 CAGCATAGCTGCCAGTAGTAATAATG
1 CAGCAGAGCTACCAGTAGTAAGAATG
*
28115414 CAGCAGAGCTACCAGTAGTTAGAATG
1 CAGCAGAGCTACCAGTAGTAAGAATG
28115440 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
CAGCAGAGCTACCAGTAGTAAGAATG
Found at i:28115517 original size:31 final size:32
Alignment explanation
Indices: 28115482--28115558 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
28115472 ATAAATAGAA
*
28115482 TGGCTACAAGCCATAAGTA-CAGTAATGTGAT
1 TGGCTACAAGCCATAAGTAGCAGTAATATGAT
* *
28115513 TGGCT-CAAAGCCATCAGTAGCAGTGATATGAT
1 TGGCTAC-AAGCCATAAGTAGCAGTAATATGAT
*
28115545 CGGC-ACACAGCCAT
1 TGGCTACA-AGCCAT
28115559 CAGAAACGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 1 0.03
31 17 0.45
32 20 0.53
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (32 bp):
TGGCTACAAGCCATAAGTAGCAGTAATATGAT
Found at i:28115576 original size:32 final size:32
Alignment explanation
Indices: 28115509--28115784 Score: 238
Period size: 32 Copynumber: 8.6 Consensus size: 32
28115499 TACAGTAATG
* * * *
28115509 TGATTGGCTCAAAGCCATCAGTAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* *
28115541 TGATCGGCACACAGCCATCAGAAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * * * *
28115573 TGATCGGCACAAAGCTAGCAGCAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * * * * *
28115605 TGACCGGCACACAGCCATTATTAACAGTGA-AA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
*
28115637 TGATCAGCACAAAGCCATCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
28115669 TGATTC-GCACAAAGCCATCAGTAACAGTACTA
1 TGA-TCGGCACAAAGCCATCAGTAACGGTACTA
* * *
28115701 TGATCGACACAAAGCCATTAGTAACGATACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
* * *
28115733 TGATCGGTACAAAGCCATCATTAATGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
28115765 TGATCGGTACAAAGCCATCA
1 TGATCGGCACAAAGCCATCA
28115785 ACAGCACCGC
Statistics
Matches: 198, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
31 3 0.02
32 193 0.97
33 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:28115703 original size:96 final size:96
Alignment explanation
Indices: 28115518--28115784 Score: 292
Period size: 96 Copynumber: 2.8 Consensus size: 96
28115508 GTGATTGGCT
* * * *
28115518 CAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGAAACGGTAAC-ATGATCGGCA
1 CAAAGCCATTAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGT-ACTATGATCGGCA
* * * *
28115582 CAAAGCTAGCAGCAGCAGTGATATGACCGGCA
65 CAAAGCCATCAGCAACAGTGATATGACCGACA
* * * *
28115614 CACAGCCATTATTAACAGTGAAATGATCAGCACAAAGCCATCAGTAACGGTACTATGATTC-GCA
1 CAAAGCCATTAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGTACTATGA-TCGGCA
* *
28115678 CAAAGCCATCAGTAACAGT-ACTATGATCGACA
65 CAAAGCCATCAGCAACAGTGA-TATGACCGACA
* * * *
28115710 CAAAGCCATTAGTAAC-GAT-ACTATGATCGGTACAAAGCCATCATTAATGGTACTATGATCGGT
1 CAAAGCCATTAGTAACAG-TGA-TATGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGC
28115773 ACAAAGCCATCA
64 ACAAAGCCATCA
28115785 ACAGCACCGC
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
95 7 0.05
96 134 0.94
97 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (96 bp):
CAAAGCCATTAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGCAC
AAAGCCATCAGCAACAGTGATATGACCGACA
Found at i:28116103 original size:27 final size:27
Alignment explanation
Indices: 28116062--28116450 Score: 394
Period size: 27 Copynumber: 14.5 Consensus size: 27
28116052 GGGAAAAATT
* *
28116062 GTCA-TTTACCC-ACAAGGGCATTAAG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
28116087 GTCATTTTACCCTACAAAGGTAATACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
28116114 ATCATTTTACCCTAC-AGGGATATTACA
1 GTCATTTTACCCTACAAGGG-TATTACG
* * *
28116141 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
* *
28116168 GTCATTTTACCCTACAAAGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
28116195 GTCATTTTACGCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * *
28116222 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * *
28116249 GTTATTTTACCTTA-TAGGTGCATTACG
1 GTCATTTTACCCTACAAGG-GTATTACG
28116276 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
28116303 ATCATTTTACCCTACAATGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
28116330 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
*
28116357 GTCATTTTACCCTA-TAGAGGTATTACG
1 GTCATTTTACCCTACAAG-GGTATTACG
* * * *
28116384 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * **
28116411 AT-ATTCTACCCTACGAGGGTATTTTG
1 GTCATTTTACCCTACAAGGGTATTACG
28116437 GTCATTTTACCCTA
1 GTCATTTTACCCTA
28116451 TAGGGGCATT
Statistics
Matches: 305, Mismatches: 50, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
25 4 0.01
26 33 0.11
27 261 0.86
28 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:28116488 original size:27 final size:28
Alignment explanation
Indices: 28116276--28116489 Score: 128
Period size: 27 Copynumber: 8.0 Consensus size: 28
28116266 GTGCATTACG
*
28116276 GTCATTTTACCCTA-CAAGGGTA--TTA
1 GTCATTTTACCCTATCGAGGGTATTTTA
* * * *
28116301 CGATCATTTTACCCTA-CAATGGTATTATG
1 -G-TCATTTTACCCTATCGAGGGTATTTTA
* ***
28116330 GTCATTTTACCCTA-CAAGGGTATTACG
1 GTCATTTTACCCTATCGAGGGTATTTTA
* ***
28116357 GTCATTTTACCCTATAGA-GGTATTACG
1 GTCATTTTACCCTATCGAGGGTATTTTA
* * *
28116384 GTCATTTTATCCTATAG-GGGTA-TTTC
1 GTCATTTTACCCTATCGAGGGTATTTTA
* *
28116410 GAT-ATTCTACCCTA-CGAGGGTATTTTG
1 G-TCATTTTACCCTATCGAGGGTATTTTA
* *
28116437 GTCATTTTACCCTATAG-GGGCATTTTA
1 GTCATTTTACCCTATCGAGGGTATTTTA
*
28116464 GTCATTTTACCC-ATCGAGAGTATTTT
1 GTCATTTTACCCTATCGAGGGTATTTT
28116490 GGTCCAGATA
Statistics
Matches: 155, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.01
26 21 0.14
27 129 0.83
28 3 0.02
29 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (28 bp):
GTCATTTTACCCTATCGAGGGTATTTTA
Found at i:28125475 original size:15 final size:16
Alignment explanation
Indices: 28125455--28125484 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28125445 TGTAGCCTTG
28125455 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
28125470 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
28125485 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:28129775 original size:17 final size:18
Alignment explanation
Indices: 28129750--28129784 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28129740 AAATATTAAC
*
28129750 AATTCAATAAA-TTGAAA
1 AATTAAATAAATTTGAAA
28129767 AATTAAATAAATTTGAAA
1 AATTAAATAAATTTGAAA
28129785 TTTAGGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
AATTAAATAAATTTGAAA
Found at i:28135489 original size:40 final size:40
Alignment explanation
Indices: 28135395--28135585 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
28135385 TGATTCATTA
* * *
28135395 GCACAAAGCCTTCTAGGCACTAAGCCTGAGT-AC-CACCA
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACCG
* * * *
28135433 GTA-AGAAGCCTACTAGGCGCTAAGCCTGAATAACACACTG
1 GCACA-AAGCCTGCTAGGCACTAAGCCTGAATAACACACCG
* *
28135473 GCACAAAGCCTGCTAGGCACTAAGCTTGAATATCACACCG
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACCG
* * * * *
28135513 GCACGAAGCGTGCTAGGCATTAAACCTGAATAACACAACG
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACCG
* *
28135553 GCACGAAGCCTGCTAGGCACTAGGCCTGAATAA
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATAA
28135586 TTTTAAGGTA
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 25 0.20
39 2 0.02
40 97 0.77
41 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (40 bp):
GCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACCG
Found at i:28135549 original size:80 final size:78
Alignment explanation
Indices: 28135395--28135584 Score: 229
Period size: 80 Copynumber: 2.4 Consensus size: 78
28135385 TGATTCATTA
* * * * *
28135395 GCACAAAGCCTTCTAGGCACTAAGCCTGAGTACCACCAGTAAGAAGCCTACTAGGCGCTAAGCCT
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATACCACCAGCAAGAAGCCTACTAGGCACTAAACCT
28135460 GAATAACAC-ACTG
66 GAATAACACAAC-G
* * * * * *
28135473 GCACAAAGCCTGCTAGGCACTAAGCTTGAATATCACACCGGCACGAAGCGTGCTAGGCATTAAAC
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATA-C-CACCAGCAAGAAGCCTACTAGGCACTAAAC
28135538 CTGAATAACACAACG
64 CTGAATAACACAACG
* *
28135553 GCACGAAGCCTGCTAGGCACTAGGCCTGAATA
1 GCACAAAGCCTGCTAGGCACTAAGCCTGAATA
28135585 ATTTTAAGGT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 29 0.31
79 1 0.01
80 63 0.66
81 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.16
Consensus pattern (78 bp):
GCACAAAGCCTGCTAGGCACTAAGCCTGAATACCACCAGCAAGAAGCCTACTAGGCACTAAACCT
GAATAACACAACG
Found at i:28146140 original size:40 final size:40
Alignment explanation
Indices: 28146053--28146362 Score: 408
Period size: 40 Copynumber: 7.8 Consensus size: 40
28146043 TTGATTCACT
* * * * *
28146053 AGCACAAAGCCTACTAAGAACTAAGCCTGAGT-AC-CACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
28146091 AGCACGAAGCCTGCTAGGCGCTAAGCCTAAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
28146131 AGCACGAAGCCTACTAGGCACTAAGCTTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
**
28146171 AGCACGAAGCCTGCTAGGCACTAAGTTTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* * * * *
28146211 GGCACGAAGCCTACTACGCACTAAGCTTGAATAACACATC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* * *
28146251 AGCACAAAGCCTGCTAGGCACTAAGCCTAAATAACACACA
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
28146291 AGTACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
*
28146331 AGCACGAAGCCTACTAGGCACTAAGCCTGAAT
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAAT
28146363 TACTTCTCCA
Statistics
Matches: 238, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
38 25 0.11
39 2 0.01
40 211 0.89
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (40 bp):
AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
Found at i:28157873 original size:30 final size:30
Alignment explanation
Indices: 28157837--28157895 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
28157827 ATTATAGGGA
*
28157837 TCACACACCCGTGTGGCCAGGCCGTGTGCC
1 TCACACACCCATGTGGCCAGGCCGTGTGCC
*
28157867 TCACACACCTATGTGGCCAGGCCGTGTGC
1 TCACACACCCATGTGGCCAGGCCGTGTGC
28157896 TTTACACGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (30 bp):
TCACACACCCATGTGGCCAGGCCGTGTGCC
Found at i:28158916 original size:43 final size:43
Alignment explanation
Indices: 28158867--28158953 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
28158857 TCATATCTCA
*
28158867 TTTCTCATATCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
* * **
28158910 TTTCTCATCTCATATTCATTTATCATATTTTTCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
28158953 T
1 T
28158954 AATCACATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:28159432 original size:8 final size:8
Alignment explanation
Indices: 28159419--28159443 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28159409 TAATTCAATT
28159419 CCCAAGTA
1 CCCAAGTA
28159427 CCCAAGTA
1 CCCAAGTA
28159435 CCCAAGTA
1 CCCAAGTA
28159443 C
1 C
28159444 TCATCTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.40, G:0.12, T:0.12
Consensus pattern (8 bp):
CCCAAGTA
Found at i:28160192 original size:12 final size:12
Alignment explanation
Indices: 28160170--28160204 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
28160160 TATTATGTTT
28160170 TCATT-TTATTA
1 TCATTATTATTA
*
28160181 TCTTTATTATTA
1 TCATTATTATTA
28160193 TCATTATTATTA
1 TCATTATTATTA
28160205 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:28166890 original size:23 final size:23
Alignment explanation
Indices: 28166854--28166901 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
28166844 CAGGTTCTGA
28166854 TTAGGCTTACTTTGGATTTAAAT
1 TTAGGCTTACTTTGGATTTAAAT
* *
28166877 TTAGGTTTATTTTGGATTTAAAT
1 TTAGGCTTACTTTGGATTTAAAT
28166900 TT
1 TT
28166902 TTTCAGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (23 bp):
TTAGGCTTACTTTGGATTTAAAT
Found at i:28167199 original size:94 final size:95
Alignment explanation
Indices: 28167011--28167200 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 95
28167001 TAGACGGGCT
28167011 CTAGCAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAAATTTAAATGGA
1 CTAGCAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAAATTTAAATGGA
28167076 ATAATATATTTTACATTTATGCGATGACAA
66 ATAATATATTTTACATTTATGCGATGACAA
*
28167106 CTAGCAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTT-TAAAAAAATTTAAATGGA
1 CTAGCAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAAATTTAAATGGA
28167170 ATAATATATTTTACATTTATGCGATGACAA
66 ATAATATATTTTACATTTATGCGATGACAA
28167200 C
1 C
28167201 GCAACTCAAA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 48 0.51
95 46 0.49
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (95 bp):
CTAGCAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAAATTTAAATGGA
ATAATATATTTTACATTTATGCGATGACAA
Found at i:28175912 original size:51 final size:49
Alignment explanation
Indices: 28175847--28176113 Score: 198
Period size: 51 Copynumber: 5.3 Consensus size: 49
28175837 ACATGGACTG
*
28175847 TGTGTAGG-TCACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGTACTA
1 TGTGTAGGCT-ACTATGTGAACG-GAAAGT-ATGGTCACGTGTGTAGTACTA
* * * * * *
28175898 TGTGTAGGCTACTATGTGTACCAGAATGAAAT-GTCGCATGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAG-TATGGTCACGTGTGTAGTACTA
* * * * *
28175948 TGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAG-TAT-GGTCACGTGTGTAGTACTA
* ** * *
28175999 TGTGTAGGCTACTACGTGTATTGGATATTAATGGTCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAGT-ATGGTCACGTGTGTAGTACTA
* * * * * *
28176050 TGTGCAGGCTACTACGTGAACCGAAAAGTTTGATCACGTGTGTAGTACAA
1 TGTGTAGGCTACTATGTGAA-CGGAAAGTATGGTCACGTGTGTAGTACTA
*
28176100 TGTGAAGGCTACTA
1 TGTGTAGGCTACTA
28176114 CGTGTATCAA
Statistics
Matches: 174, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
49 1 0.01
50 72 0.41
51 98 0.56
52 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGGCTACTATGTGAACGGAAAGTATGGTCACGTGTGTAGTACTA
Found at i:28175998 original size:101 final size:101
Alignment explanation
Indices: 28175881--28176156 Score: 324
Period size: 101 Copynumber: 2.7 Consensus size: 101
28175871 AAAGTGATGG
* * *
28175881 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTACCAGAATGAAAT-GTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGAAATGGTCACATGTGTAGTA
* * * *
28175945 CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 CTATGTGCAGGCTACTACGCGAACCGAAAAG-TTCGA
** * *
28175982 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATTGGATAT-TAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGA-ATGAAATGGTCACATGTGTAGT
* *
28176046 ACTATGTGCAGGCTACTACGTGAACCGAAAAGTTTGA
65 ACTATGTGCAGGCTACTACGCGAACCGAAAAGTTCGA
* * * * * * *
28176083 TCACGTGTGTAGTACAATGTGAAGGCTACTACGTGTATCA-AATGATAATAGTTAAATGAGTGGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGA-AATGGTCACATGTGTAGT
28176147 ACTATGTGCA
65 ACTATGTGCA
28176157 AACCACCAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
99 2 0.01
100 1 0.01
101 103 0.70
102 41 0.28
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGAAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACGCGAACCGAAAAGTTCGA
Found at i:28182203 original size:138 final size:138
Alignment explanation
Indices: 28181854--28182410 Score: 787
Period size: 138 Copynumber: 4.0 Consensus size: 138
28181844 AAGAACATAG
* *
28181854 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * *
28181919 AATATAAACAGCTATATTAATT-ACTTTCAGTCAAAATATAAATGACATGAAAATTAATATTCTT
66 AATATAAACAGTTATATTAATTAATTTTGA-TCAAAATATAAAAGACATGAAAATTAATATTCTT
28181983 TTGG-AAAA
130 TTGGAAAAA
* * * *
28181991 ATATAATTAATAGATGAATTTGATTAATACAAAATATTAATTGTATATATTTTTCCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * *
28182056 AATATAAACAGTTATATTAATCAATTTTGATCAAAATAT-AAAGACATGTAAATAAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
28182120 TGGAAAAA
131 TGGAAAAA
* * ** ***
28182128 ATATAATTAATATATGAATTTTGATTCATACAAAATACTAGGTGTATATATTTTACTGGATTTAT
1 ATATAATTAATATATGAA-TTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTAT
* * * *
28182193 TCATATAAACAGTTGTATTAATTAATTTTGGTTAAAATATAAAAGACATGAAAATTAATATTCTT
65 TAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATGAAAATTAATATTCTT
*
28182258 TTGGAAAGA
130 TTGGAAAAA
*
28182267 ATATGATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * * *
28182332 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGAAATGGAAATTAATATTTTTT
66 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
28182397 TGGAAAGA
131 TGGAAAAA
28182405 ATATAA
1 ATATAA
28182411 CTCCTTTTTC
Statistics
Matches: 368, Mismatches: 48, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
136 25 0.07
137 109 0.30
138 187 0.51
139 47 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAAA
Found at i:28182531 original size:75 final size:77
Alignment explanation
Indices: 28182388--28182549 Score: 195
Period size: 75 Copynumber: 2.1 Consensus size: 77
28182378 ATGGAAATTA
* * *
28182388 ATATT-TTTTTGGAAAGAATATAACTCCTTTTTCTAACTTTAAATTTGCATTCTTTGTTAACAAA
1 ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
28182452 GGAATAATCCT-
66 GGAATAATCCTG
* ** * * * *
28182463 ATATTCTTTTT-GAAAGAATATAATTCATTTTTCTAACTTTCCATTTTCCTTCTCTATTAATAAG
1 ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
*
28182527 GGAATAATCTTG
66 GGAATAATCCTG
*
28182539 ATTTTCTTTTT
1 ATATTCTTTTT
28182550 TAATATGTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
75 58 0.79
76 15 0.21
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (77 bp):
ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
GGAATAATCCTG
Found at i:28189385 original size:24 final size:24
Alignment explanation
Indices: 28189351--28189402 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
28189341 TTTCTAGAAG
* **
28189351 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
28189375 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
28189399 ATTT
1 ATTT
28189403 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:28194532 original size:25 final size:25
Alignment explanation
Indices: 28194500--28194569 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
28194490 CAGGCCTATT
*
28194500 TTCACAGCTCGTATGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* * *
28194525 TTCACAGCTCGTGTGCGAATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
28194550 TTCACAGCTCATGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
28194570 ACATGTACAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:28207742 original size:6 final size:6
Alignment explanation
Indices: 28207733--28207766 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
28207723 GATTCAAAAA
* *
28207733 AAAATC AAAATC AAAATC AAAATA AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
28207767 AAAAGAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:28207750 original size:12 final size:12
Alignment explanation
Indices: 28207726--28207770 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
28207716 GGGTTCAGAT
28207726 TCAAAA-AAAAA
1 TCAAAATAAAAA
*
28207737 TCAAAATCAAAA
1 TCAAAATAAAAA
28207749 TCAAAATAAAAA
1 TCAAAATAAAAA
*
28207761 ACAAAA-AAAA
1 TCAAAATAAAA
28207771 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (12 bp):
TCAAAATAAAAA
Found at i:28207769 original size:21 final size:21
Alignment explanation
Indices: 28207727--28207787 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
28207717 GGTTCAGATT
*
28207727 CAAAA-AAAAATCAAAATCAAAA
1 CAAAAGAAAAAACAAAA--AAAA
*
28207749 TCAAAATAAAAAACAAAAAAAA
1 -CAAAAGAAAAAACAAAAAAAA
* *
28207771 GAAAAGAAAAAATAAAA
1 CAAAAGAAAAAACAAAA
28207788 GTCAAAAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.42
22 4 0.12
23 5 0.15
24 10 0.30
ACGTcount: A:0.80, C:0.08, G:0.03, T:0.08
Consensus pattern (21 bp):
CAAAAGAAAAAACAAAAAAAA
Found at i:28209272 original size:87 final size:87
Alignment explanation
Indices: 28209120--28209531 Score: 691
Period size: 87 Copynumber: 4.7 Consensus size: 87
28209110 AAATCAGTGA
*
28209120 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
28209185 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
28209207 AGATCGAAAGCAAAGCCTTGACTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
28209272 CTTCCTGCGTTAACAGCGAAAC
66 CTTCCTGCGTTAACAGCGAAGC
* *
28209294 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
28209359 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
28209381 AGATCGAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
28209446 CTTCCTGCATTGACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
28209468 AGATCGAAAACAAAGCTTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-GACAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAG-CAGATCTTG
28209532 TCTCCCTAAG
Statistics
Matches: 302, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 301 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:28209728 original size:128 final size:128
Alignment explanation
Indices: 28209526--28209851 Score: 580
Period size: 128 Copynumber: 2.5 Consensus size: 128
28209516 AAGATGACAG
28209526 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* * *
28209591 AAGAAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTATAA
66 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
* * *
28209654 ATCTTATCTCCCTAAGTAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
*
28209719 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
*
28209782 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
28209847 AAGCA
66 AAGCA
28209852 AATTGGAGCT
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 187 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (128 bp):
ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
Found at i:28217287 original size:10 final size:10
Alignment explanation
Indices: 28217272--28217306 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
28217262 TTATGTATTC
28217272 TAATTAAATT
1 TAATTAAATT
28217282 TAATTAAATTT
1 TAATTAAA-TT
*
28217293 TAAATAAATT
1 TAATTAAATT
28217303 TAAT
1 TAAT
28217307 ACATCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATTAAATT
Found at i:28217732 original size:21 final size:20
Alignment explanation
Indices: 28217695--28217736 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
28217685 TTATATTCAA
28217695 TACTCATTTAATATTAAAAT
1 TACTCATTTAATATTAAAAT
* * *
28217715 TACTTATTTTATATTTAAAT
1 TACTCATTTAATATTAAAAT
28217735 TA
1 TA
28217737 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TACTCATTTAATATTAAAAT
Found at i:28218073 original size:7 final size:7
Alignment explanation
Indices: 28218061--28218098 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
28218051 TAAATGAATG
28218061 AAATATA
1 AAATATA
28218068 AAATATA
1 AAATATA
28218075 AAATATA
1 AAATATA
28218082 AAATATA
1 AAATATA
28218089 AAATATA
1 AAATATA
28218096 AAA
1 AAA
28218099 GATCTATCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATATA
Found at i:28218425 original size:4 final size:4
Alignment explanation
Indices: 28218416--28218469 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
28218406 TGGGATTGGA
* * *
28218416 ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT AAAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
28218464 ACAT AC
1 ACAT AC
28218470 GTACGTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:28218909 original size:2 final size:2
Alignment explanation
Indices: 28218902--28218942 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
28218892 CAAATGCATA
28218902 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
28218943 AACCTAATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28227124 original size:33 final size:33
Alignment explanation
Indices: 28227058--28227130 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
28227048 ACATGCAATA
* * * *
28227058 ATAGTCTGGGCCTGAGCCCTATTCAGTAACAGT
1 ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
* *
28227091 ATAGTGTGGGCCTTAGCCCAATACAATATCAGT
1 ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
*
28227124 ACAGTGT
1 ATAGTGT
28227131 AATAATACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (33 bp):
ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
Found at i:28227261 original size:26 final size:26
Alignment explanation
Indices: 28227231--28227298 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
28227221 ACCAATATTG
* *
28227231 CAGCAAAGCTGCTAGTAATAGTATCGT
1 CAGCAAAGCTGCCAGTAACAGTAT-GT
* *
28227258 -AGCAAACCTGCCAGTAACAGTATTT
1 CAGCAAAGCTGCCAGTAACAGTATGT
28227283 CAGCAAAGCTGCCAGT
1 CAGCAAAGCTGCCAGT
28227299 GCAGTATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATGT
Found at i:28235777 original size:17 final size:17
Alignment explanation
Indices: 28235728--28235778 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
28235718 CAATTTCTCA
*
28235728 CACTCATTTTTC-TTTT
1 CACTCTTTTTTCTTTTT
28235744 C-CT-TCTTTTTCTATTTT
1 CACTCT-TTTTTCT-TTTT
28235761 CACTCTTTTTTCTTTTT
1 CACTCTTTTTTCTTTTT
28235778 C
1 C
28235779 CTTCATGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 10 0.34
18 9 0.31
19 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (17 bp):
CACTCTTTTTTCTTTTT
Found at i:28240909 original size:50 final size:49
Alignment explanation
Indices: 28240855--28241019 Score: 177
Period size: 50 Copynumber: 3.3 Consensus size: 49
28240845 AGATTCGTCA
*
28240855 TTGTGGCTTTAATCTTTTTAACTGCAATGTTAGGGAGGCAAGATTTACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTT-GGGAGGCAAGATTCACCG
* ** * * *
28240905 TTGTGGCTTTAATCTGTTCCACTGCACTGCTTGGGAGGTAAGATTCACTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATG-TTGGGAGGCAAGATTCACCG
* * * * * *
28240955 CTGTAGCTTTAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCATCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGT-TGGGAGGCAAGATTCACCG
*
28241005 ATGTGGCTTTAATCT
1 TTGTGGCTTTAATCT
28241020 ATTCCACTAC
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.01
50 89 0.97
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (49 bp):
TTGTGGCTTTAATCTTTTTAACTGCAATGTTGGGAGGCAAGATTCACCG
Found at i:28241015 original size:100 final size:100
Alignment explanation
Indices: 28240860--28241048 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 100
28240850 CGTCATTGTG
* * * * * *
28240860 GCTTTAATCTTTTTAACTGCAATGTTAGGGAGGCAAGATTTACCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACCGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
* *
28240925 ACTGCA-CTGCTTGGGAGGTAAGATTCACTGCTGTA
66 ACTACATC-GCTTGGGAGATAAGATTCACTGCTGTA
* *
28240960 GCTTTAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACCGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
28241025 ACTACATCGCTTGGGAGATAAGAT
66 ACTACATCGCTTGGGAGATAAGAT
28241049 CTGTAATTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 77 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACCGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
ACTACATCGCTTGGGAGATAAGATTCACTGCTGTA
Found at i:28241195 original size:44 final size:44
Alignment explanation
Indices: 28241146--28241417 Score: 246
Period size: 44 Copynumber: 6.1 Consensus size: 44
28241136 CCTCTATTTT
* * *
28241146 AATCTGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * * * *
28241190 AATCTGCTCCGCTGTAATCTCAGGGTGATAAGGTTTCTGGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * *
28241234 AATCTGATGCGATCTACACTGTAA-CTTCAGAGAGATAAGATCTTTTA-TTTC
1 AATC---TGC--TC--CACTGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTC
* * * * *
28241285 AATCCGCTCCACTATAATATCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* *
28241329 AATCTGCTCTACTGTAATCTTAGGGAGATAAGA-TT-TAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * *
28241371 AATCTGCTCCGCTGTAATCTCTGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
28241415 AAT
1 AAT
28241418 TTGATGCGAT
Statistics
Matches: 181, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
42 36 0.20
43 6 0.03
44 99 0.55
46 2 0.01
47 3 0.02
48 2 0.01
49 2 0.01
50 1 0.01
51 27 0.15
52 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
Found at i:28241283 original size:139 final size:141
Alignment explanation
Indices: 28241095--28241360 Score: 419
Period size: 139 Copynumber: 1.9 Consensus size: 141
28241085 GAGATAAGAC
* * *
28241095 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTCTATTTTAATCTGCTCCACTA
1 CTGATGCGATCTAC-CTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTA
* * *
28241160 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGTGATAAGGTT
65 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGGTT
28241225 TCTGGTTTCAAT
130 TCTGGTTTCAAT
* *
28241237 CTGATGCGATCTA-C-ACTGTAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTAT
1 CTGATGCGATCTACCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTAT
* *
28241300 AATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTACTGTAATCTTAGGGAGATAAG
66 AATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAG
28241361 ATTTAGCTTC
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
139 100 0.88
140 1 0.01
142 13 0.11
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (141 bp):
CTGATGCGATCTACCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTAT
AATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGGTTT
CTGGTTTCAAT
Found at i:28241376 original size:42 final size:42
Alignment explanation
Indices: 28241282--28241406 Score: 153
Period size: 42 Copynumber: 2.9 Consensus size: 42
28241272 GATCTTTTAT
* * * * *
28241282 TTCAATCCGCTCCACTATAATATCAGGGAGATAGGATTACTAGC
1 TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATT--TAGC
*
28241326 TTCAATCTGCTCTACTGTAATCTTAGGGAGATAAGATTTAGC
1 TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTAGC
*
28241368 TTCAATCTGCTCCGCTGTAATCTCT-GGGAGATAAGATTT
1 TTCAATCTGCTCCACTGTAATCT-TAGGGAGATAAGATTT
28241407 CTGGCTTCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
42 39 0.54
43 1 0.01
44 32 0.44
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (42 bp):
TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTAGC
Found at i:28241508 original size:183 final size:182
Alignment explanation
Indices: 28241146--28241519 Score: 563
Period size: 183 Copynumber: 2.0 Consensus size: 182
28241136 CCTCTATTTT
*
28241146 AATCTGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTATAATCTCAGGGAGATAAGATTA-TAGCTTCAATCTGCTCCGCTGTAATCTC
* * * *
28241211 AGGGTGATAAGGTTTCTGGTTTCAATCTGATGCGATCTACACTGTAACTTCAGAGAGATAAGATC
65 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACACTGTAACCTCAGAGAGATAAGATC
* **
28241276 TTTTATTTCAATCCGCTCCACTATAATATCAGGGAGATAGGATTACTAGCTTC
130 CTTTATTTCAATCCGCTCCACTATAATATCACAGAGATAGGATTACTAGCTTC
* * * *
28241329 AATCTGCTCTACTGTAATCTTAGGGAGATAAGATT-TAGCTTCAATCTGCTCCGCTGTAATCTCT
1 AATCTGCTCCACTATAATCTCAGGGAGATAAGATTATAGCTTCAATCTGCTCCGCTGTAATCTCA
*
28241393 GGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGA
66 GGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTA--C-ACTGTAACCTCAGAGAGATAAGA
* *
28241458 TCCTTTATTT-AATCCGCTCCACTGTAATCTCACAGAGATAGGATTACTAGCTTC
128 TCCTTTATTTCAATCCGCTCCACTATAATATCACAGAGATAGGATTACTAGCTTC
28241512 AATCTGCT
1 AATCTGCT
28241520 TCGCTACTGC
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
181 62 0.36
183 80 0.46
184 31 0.18
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (182 bp):
AATCTGCTCCACTATAATCTCAGGGAGATAAGATTATAGCTTCAATCTGCTCCGCTGTAATCTCA
GGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACACTGTAACCTCAGAGAGATAAGATCC
TTTATTTCAATCCGCTCCACTATAATATCACAGAGATAGGATTACTAGCTTC
Found at i:28241824 original size:87 final size:87
Alignment explanation
Indices: 28241620--28242040 Score: 637
Period size: 87 Copynumber: 4.9 Consensus size: 87
28241610 ACTTTCGACG
* *
28241620 CAGGAGGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
*
28241685 TCGATC-TGTTCGCTGTTAACA
66 TCGATCTTCTTCGCTGTTAACA
* * *
28241706 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTATTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
* *
28241771 TCGATCTTCTTCGCTGTCAATA
66 TCGATCTTCTTCGCTGTTAACA
* * * * *
28241793 CAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCATTACAATCGGTGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
* * * *
28241858 TTGATCTGCTTCGCTATTAACG
66 TCGATCTTCTTCGCTGTTAACA
*
28241880 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
* * *
28241945 TTGATCTGCTTCGCTGTTAACG
66 TCGATCTTCTTCGCTGTTAACA
*
28241967 CAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
28242032 TCGATCTTC
66 TCGATCTTC
28242041 ACTGATCTGT
Statistics
Matches: 303, Mismatches: 31, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 66 0.22
87 237 0.78
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
TCGATCTTCTTCGCTGTTAACA
Found at i:28241891 original size:43 final size:42
Alignment explanation
Indices: 28241842--28241978 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 42
28241832 CAATCGGTGG
28241842 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTATTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCT-TTAACGCAGGA
* * * * * * * **
28241885 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTGCAATCG-ATGG-
1 AGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTTTAA-CGCA-GGA
28241929 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCT-TTAACGCAGGA
28241972 AGGCAAG
1 AGGCAAG
28241979 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
42 19 0.28
43 18 0.27
44 11 0.16
45 19 0.28
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (42 bp):
AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTTTAACGCAGGA
Found at i:28244225 original size:27 final size:26
Alignment explanation
Indices: 28244167--28244226 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
28244157 TTGATTTCTC
*
28244167 TTTTTTTCTTTTGACATTGATTTTTT
1 TTTTTTTCTTTTGACATTGATTTTAT
* **
28244193 TCTTTTTTGTTTTGATTTTGATTTTGAT
1 T-TTTTTTCTTTTGACATTGATTTT-AT
28244221 TTTTTT
1 TTTTTT
28244227 CTCTCTCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (26 bp):
TTTTTTTCTTTTGACATTGATTTTAT
Found at i:28247438 original size:47 final size:47
Alignment explanation
Indices: 28247317--28247866 Score: 828
Period size: 45 Copynumber: 11.7 Consensus size: 47
28247307 CCCTTCGGGA
* * * * * *
28247317 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28247364 CCTGTCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28247409 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28247456 CTTATCAC--ATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28247501 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28247550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28247597 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28247646 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28247691 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28247736 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28247785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28247832 CTTATCACATATATGCACATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
28247867 AAAATCCTAA
Statistics
Matches: 463, Mismatches: 28, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
45 168 0.36
47 165 0.36
49 130 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28247569 original size:141 final size:140
Alignment explanation
Indices: 28247317--28247866 Score: 826
Period size: 141 Copynumber: 3.9 Consensus size: 140
28247307 CCCTTCGGGA
* * * * * * *
28247317 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
28247380 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
28247445 GGCTATTAGGC
130 GGCCATTAGGC
**
28247456 CTTATCAC-ATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATACA
1 CTTATCACAATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACA
* *
28247520 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
64 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
28247585 CGGCCATTAGGC
129 CGGCCATTAGGC
*
28247597 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCAC--ATATAC
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
28247660 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATACACTTTCACATTCATCACA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
28247723 TCGGCCATTAGGC
128 TCGGCCATTAGGC
*
28247736 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* *
28247801 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCACATTCACATTCATCACA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
28247866 T
128 T
28247867 AAAATCCTAA
Statistics
Matches: 378, Mismatches: 21, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
137 36 0.10
139 100 0.26
141 177 0.47
143 23 0.06
145 42 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATCACAATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:28247700 original size:22 final size:22
Alignment explanation
Indices: 28247672--28247745 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
28247662 TTTCACATTC
28247672 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
28247694 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
28247716 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
28247739 ATCACAT
1 ATCACAT
28247746 ATATATACAC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:28247730 original size:235 final size:234
Alignment explanation
Indices: 28247317--28247866 Score: 926
Period size: 235 Copynumber: 2.4 Consensus size: 234
28247307 CCCTTCGGGA
* * * * * * * *
28247317 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
28247380 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACACTTTCACATTCATCACATC
*
28247445 GGCTATTAGGCCTTATCACATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACA
130 GGCCATTAGGCCTTATCACATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACA
28247510 TATATATACACTTTCACATTCATCACATTGGCCATTCGGC
195 TATATATACACTTTCACATTCATCACATTGGCCATTCGGC
28247550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
28247615 ACTTTCACATTCATCACATTGGCTATTAGGCCTTATCAC-ATATACACTTTCACATTCATCACAT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCACATTCATCACAT
*
28247679 CGGCCATTAGGCCTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
129 CGGCCATTAGGCCTTATCACATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCAC
28247744 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
194 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
28247785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
28247850 ATTCACATTCATCACAT
66 TTTCACATTCATCACAT
28247867 AAAATCCTAA
Statistics
Matches: 299, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
233 72 0.24
235 184 0.62
237 43 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:28249418 original size:13 final size:13
Alignment explanation
Indices: 28249400--28249424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28249390 TACTAAATTT
28249400 TCATGGATTCAAA
1 TCATGGATTCAAA
28249413 TCATGGATTCAA
1 TCATGGATTCAA
28249425 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:28251630 original size:40 final size:40
Alignment explanation
Indices: 28251586--28251848 Score: 364
Period size: 40 Copynumber: 6.6 Consensus size: 40
28251576 CCAGCATGGT
* * * *
28251586 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
28251626 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
28251666 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
28251706 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
28251746 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
28251786 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
28251826 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
28251849 CATTTCACTC
Statistics
Matches: 195, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:28251799 original size:120 final size:120
Alignment explanation
Indices: 28251586--28251848 Score: 409
Period size: 120 Copynumber: 2.2 Consensus size: 120
28251576 CCAGCATGGT
* * ***
28251586 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAGCACGGATA
*
28251651 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
* * ** *
28251706 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAGCACGGATA
*
28251771 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
*
28251826 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGAGACTTAGCCCGGA
28251849 CATTTCACTC
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 130 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGAGACTTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
Found at i:28253431 original size:47 final size:47
Alignment explanation
Indices: 28253310--28253857 Score: 817
Period size: 47 Copynumber: 11.7 Consensus size: 47
28253300 CCCTTCGGGA
* * * * * *
28253310 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28253357 CCTGTCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28253402 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28253449 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28253494 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
28253541 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28253588 CTTATCACATGTATATACACTTTCACATTCATCACGTTGGCTATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
28253637 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28253682 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28253727 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28253776 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28253823 CTTATCACATATATGCACATTCGCATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
28253858 AAAATCCTAA
Statistics
Matches: 461, Mismatches: 28, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
45 168 0.36
46 1 0.00
47 205 0.44
48 1 0.00
49 86 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28253560 original size:139 final size:138
Alignment explanation
Indices: 28253310--28253857 Score: 807
Period size: 139 Copynumber: 3.9 Consensus size: 138
28253300 CCCTTCGGGA
* * * * * * *
28253310 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATACACTT
1 CTTATCAC-TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATACACTT
28253375 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
28253440 CTATTAGGC
130 CCATTAGGC
*
28253449 CTTATCAC-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 CTTATCACTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATACACT
*
28253513 TTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCACATC
28253577 GGCCATTAGGC
128 GGCCATTAGGC
* *
28253588 CTTATCACATGTATATACACTTTCACATTCATCACGTTGGCTATTAGGCCTTATCACATATACAC
1 CTTATCAC---TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATACAC
28253653 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATACACTTTCACATTCATCACATC
63 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
28253716 GGCCATTAGGC
128 GGCCATTAGGC
*
28253727 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC---TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAC
* * * *
28253792 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATGCACATTCGCATTCATCACA
61 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
28253857 T
126 T
28253858 AAAATCCTAA
Statistics
Matches: 375, Mismatches: 22, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
137 37 0.10
139 186 0.50
140 2 0.01
141 86 0.23
143 64 0.17
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (138 bp):
CTTATCACTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGC
Found at i:28253572 original size:25 final size:25
Alignment explanation
Indices: 28253497--28253575 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
28253487 ATTAGGCCTT
28253497 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * *
28253522 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATACACTTTCA-CATTC
28253544 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
28253569 ATCACAT
1 ATCACAT
28253576 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 12 0.29
23 5 0.12
24 5 0.12
25 19 0.46
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:28253691 original size:22 final size:22
Alignment explanation
Indices: 28253663--28253736 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
28253653 TTTCACATTC
28253663 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
28253685 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
28253707 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
28253730 ATCACAT
1 ATCACAT
28253737 ATATATACAC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:28253854 original size:25 final size:25
Alignment explanation
Indices: 28253737--28253858 Score: 71
Period size: 25 Copynumber: 5.1 Consensus size: 25
28253727 CTTATCACAT
* * *
28253737 ATATATACACTTTCACATTCATCAC
1 ATATATGCACATTCGCATTCATCAC
* *
28253762 AT-T-GGC-CATTCGGCCTT-ATCAC
1 ATATATGCACATTC-GCATTCATCAC
* * *
28253784 ATATATACACTTTCACATTCATCAC
1 ATATATGCACATTCGCATTCATCAC
* * *
28253809 AT-CA-GC-CATTAGGCCTT-ATCAC
1 ATATATGCACATT-CGCATTCATCAC
28253831 ATATATGCACATTCGCATTCATCAC
1 ATATATGCACATTCGCATTCATCAC
28253856 ATA
1 ATA
28253859 AAATCCTAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 20
0.64 0.18 0.19
Matches are distributed among these distances:
22 21 0.31
23 10 0.15
24 12 0.18
25 25 0.37
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATGCACATTCGCATTCATCAC
Found at i:28255416 original size:13 final size:13
Alignment explanation
Indices: 28255398--28255422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28255388 TACTAAATTT
28255398 TCATGGATTCAAA
1 TCATGGATTCAAA
28255411 TCATGGATTCAA
1 TCATGGATTCAA
28255423 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:28258500 original size:11 final size:11
Alignment explanation
Indices: 28258484--28258510 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
28258474 GAATAAAACG
28258484 CAATGGGATGA
1 CAATGGGATGA
28258495 CAATGGGATGA
1 CAATGGGATGA
28258506 CAATG
1 CAATG
28258511 TATATCGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (11 bp):
CAATGGGATGA
Found at i:28259773 original size:6 final size:6
Alignment explanation
Indices: 28259762--28259812 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
28259752 TTGATTCGTA
28259762 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
28259810 AAA
1 AAA
28259813 TGAAATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:28262559 original size:15 final size:16
Alignment explanation
Indices: 28262539--28262569 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
28262529 AAAATTGCTT
28262539 AAAAATCAAG-CAAAA
1 AAAAATCAAGTCAAAA
28262554 AAAAATCAAGTCAAAA
1 AAAAATCAAGTCAAAA
28262570 GACACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.71, C:0.13, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAATCAAGTCAAAA
Found at i:28268753 original size:173 final size:173
Alignment explanation
Indices: 28268454--28268800 Score: 604
Period size: 173 Copynumber: 2.0 Consensus size: 173
28268444 TAAAAAGTCC
* * *
28268454 CTGTGGGTACGATTACTCGACATTTACTTGTCTCTTTATTACTTATTGCGATTGTATACACTTGC
1 CTGTAGGTACGATTACTCAACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
* * *
28268519 ACATTTCCATCGTTCCAAAACTATAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
66 ACATTTCCATCATTCCAAAAATACAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
28268584 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
131 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
* * *
28268627 CTGTAGGTATGATTACTCAACATTTATTTGTCACTTTATTACTTGTTGCGATTGTATACACTTGC
1 CTGTAGGTACGATTACTCAACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
*
28268692 ACATTTCCATCATTCCAAAAATGCAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
66 ACATTTCCATCATTCCAAAAATACAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
28268757 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
131 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
28268800 C
1 C
28268801 CTGAATTATT
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 164 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (173 bp):
CTGTAGGTACGATTACTCAACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
ACATTTCCATCATTCCAAAAATACAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
Found at i:28286719 original size:27 final size:27
Alignment explanation
Indices: 28286689--28286756 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
28286679 AAATTTATGA
* *
28286689 AAATTTATTATAAAATTAATTAAAATT
1 AAATTTTTTATAAAATTAAGTAAAATT
* *
28286716 AAATATTTTTAT-AATTTAAGTACAATT
1 AAAT-TTTTTATAAAATTAAGTAAAATT
28286743 AAATTATTTTATAA
1 AAATT-TTTTATAA
28286757 TTATTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.03
27 26 0.76
28 7 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
AAATTTTTTATAAAATTAAGTAAAATT
Found at i:28291875 original size:15 final size:16
Alignment explanation
Indices: 28291850--28291879 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
28291840 ATCAATGTAA
28291850 TAATATAAATCATATC
1 TAATATAAATCATATC
28291866 TAAT-TAAATCATAT
1 TAATATAAATCATAT
28291880 GAATTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATAAATCATATC
Found at i:28294206 original size:29 final size:28
Alignment explanation
Indices: 28293950--28294200 Score: 263
Period size: 28 Copynumber: 8.9 Consensus size: 28
28293940 TAAAAATGGA
*
28293950 CCTTTATGGCTATCTCTG--AAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
** * *
28293976 TTTTTATGGCTATCTCTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * * * * *
28294004 TCGTTGTTGTTATCTTTATTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
*
28294032 CCTTTATGGCTATCTCTGTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
*
28294060 CCTTTGTGGCTATCTCTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * *
28294088 CCTTTGTGACTATCTTTCTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * * *
28294116 CCTTTGTAGATATCTCTATAAAAAGGATG
1 CCTTTGTGGCTATCTCTGT-TAAAGGATG
* *
28294145 CCTTTGTGGCTATCTCTATAAAAAGGATG
1 CCTTTGTGGCTATCTCTGT-TAAAGGATG
28294174 CCTTTGTGGCTATCTCTGTTCAAAGGA
1 CCTTTGTGGCTATCTCTGTT-AAAGGA
28294201 CACCTTCATG
Statistics
Matches: 187, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.09
28 112 0.60
29 59 0.32
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (28 bp):
CCTTTGTGGCTATCTCTGTTAAAGGATG
Found at i:28295465 original size:22 final size:23
Alignment explanation
Indices: 28295440--28295483 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
28295430 ACATTCAACC
*
28295440 ATTACTCTTTT-CTTTTGTTTCT
1 ATTACTCTTTTCCTTTTATTTCT
*
28295462 ATTATTCTTTTCCTTTTATTTC
1 ATTACTCTTTTCCTTTTATTTC
28295484 CTTCCGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTACTCTTTTCCTTTTATTTCT
Found at i:28298753 original size:51 final size:51
Alignment explanation
Indices: 28298690--28298880 Score: 228
Period size: 51 Copynumber: 3.8 Consensus size: 51
28298680 CCTGTTCACA
28298690 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * * * * *
28298741 TAGTAGCTTGCACATAGTACTACAC-TCGTGATCA-AAGCTATCCAATACGCA
1 TAGTAGCCTGCACATAGTACTACACAT-GTGACCATCA-CTATCCGATACACG
* ** *
28298792 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACG
*
28298842 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
28298881 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 39 0.34
51 70 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:28298866 original size:101 final size:102
Alignment explanation
Indices: 28298688--28298872 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
28298678 TACCTGTTCA
* *
28298688 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
*
28298753 CATAGTACTACACTCGTGATCAAAGCTATCCAATACG
66 CATAGTACTACACACGTGATCAAAGCTATCCAATACG
** *
28298790 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TTTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
28298853 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
28298873 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 37 0.49
102 35 0.46
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGCTATCCAATACG
Found at i:28319273 original size:40 final size:40
Alignment explanation
Indices: 28319175--28319437 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
28319165 TCCTCGTTCA
* * * * *
28319175 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
28319214 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
28319254 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
28319294 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
28319334 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
28319374 AAGGCCTTC-GGATCTTAATCCAGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
28319414 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
28319438 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 151 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:28327211 original size:40 final size:40
Alignment explanation
Indices: 28327113--28327375 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
28327103 TCCTCGTTCA
* * * * *
28327113 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
28327152 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
28327192 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
28327232 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
28327272 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
28327312 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
28327352 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
28327376 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:28332117 original size:647 final size:647
Alignment explanation
Indices: 28330825--28335597 Score: 7313
Period size: 647 Copynumber: 7.3 Consensus size: 647
28330815 CCACACGGCC
* * * * * * *
28330825 GTGTGACCCTTGTAGTGTG-AATTTTTGTAACCTTTTCCTTATGGTTTTATATGTTCCCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
*** * * * ** *
28330889 GTCCCAAATCATTTTTAAAGTGTTTTTAAGGTCTCGAGGAG-TCTATTAAGGGACGATATACATG
66 GTCCGGGATCATTTTTAAA-TTTTTTTAAGGCCTCGAGG-GCTCGATTAAGGGATAATATGCATG
* * * * * * * * * * **
28330953 TGTTTC-ATGGAATAATGGTAAGATTTATCCAATGCTTGAAAATGACTGTTTTAAGTTATGATTT
129 TGTTTCAAT-GAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTT
* * * *
28331017 TACGGTAATGCTCTGTAACCCTATTTTAGCGACGAATACAGTTAGGGGTGTTACAATTAGTGGTA
193 TACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATA
* * *
28331082 TCAGAGCTACAATTTAGTAGATTCTCGGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGA
258 TCAGAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGA
* *
28331147 CAGTTAACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAA
323 CACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAA
* * * * *
28331212 AATATGTCGTCGGGATCTAAT-AAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAA
388 AAGATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAA
* * **
28331276 CGAGGAAAGTACACAGAATGAACCTGGACCACAAGAATCTAGAGAAGTAGCACCTAATTTATTTC
453 CGAGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTC
* * *
28331341 TTCGTATAATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAA
518 TTCGTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAA
** * * * * *
28331406 TCTCCTCACCATCAAGGTTCAAGTAAGCAATGCGCTCATAGGGTGACCATGTATAAAATTAGAAA
583 TCTGTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
* **
28331471 GTGTGACACTTGTAACGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
* *
28331536 GTCCGGGATTATTTTTAAATTTTTATAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
66 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
*
28331601 TTTCAATGAATTATGCTATGAGTTATCAAATGTTTGGAAATGAATTTTTTATGTTACAATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTTTAC
* *
28331666 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATATGGTTAAGGGTGTTACATTTAGTGATATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATATCA
*
28331731 GAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
261 GAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
28331796 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
28331861 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
* * *
28331926 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGACAAGTATCACCTAATTTATTTCTTT
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTC
*
28331991 GTATGATGCATGACATGTATGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
28332056 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
28332118 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
* *
28332183 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCACGATTAAGAGATAATATGCATGTG
66 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
* **
28332248 TTTCAATGAATTATGGTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTATGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTTTAC
* *
28332313 GGTAATGCTCTCTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGATATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATATCA
*
28332378 GAACTACAATTTAGTCGATTCTCAGACCAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
261 GAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
28332443 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
28332508 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
*
28332573 GGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTC
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTC
28332638 GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
28332703 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
*
28332765 GTGTGACACTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAG-TTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
* * * *
28332829 GTCTGGGATCATTTTCAAATTTTTTTCAGGCCTCGAGGGCTCGATTAAGGTATAATATGCATGTG
66 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
*
28332894 TTTC-ATGAATTATGCTATGA-TTATC-AAT-TTTGGAAATGAATTTTTTATGTTACGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTTTAC
28332955 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATAC--TTAGGGGTGTT--ATTTAGTG-TATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATATCA
*
28333015 GAAC-ACAATTTAGTCGATTCTCAGACTAAA-TTAGTATGGATAGAGTCTAGAAATACATGACAC
261 GAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
*
28333078 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCATATATAGGTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
28333143 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
* * *
28333208 GGAAAGTACGCAGAATGAACCTGGACCGTAAGAATCTAGACAAGTATCACCTAATTTATTTCTTC
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTC
28333273 GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
28333338 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
28333400 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
* * * *
28333465 GTCTGGGATCATTTTCAAATTTTTTTCAGGCCTCGAGGGCTCGATAGATTAAGGTATAATATGCA
66 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTC----GATTAAGGGATAATATGCA
* *
28333530 TGTGTTTCAATTAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATT
127 TGTGTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATT
* * *
28333595 TTACGGTAATGCTTTGTAACCCTATTTTAGTGACAAATACGATTAGGGGTGTTACATTTAGTGAT
192 TTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGAT
*
28333660 ATCAGAACTACTATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATG
257 ATCAGAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATG
* * *
28333725 ACACTTGACTAACCAGAGATAGTGTGATAGC-TTTGATTAGTTTTGAAATGTTCTTATATAGGTG
322 ACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTA
*
28333789 AAAGATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCTACCTACTA
387 AAAGATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTA
* *
28333854 ACGAGGAAAGTACGCGGAATGAACCTGGACCGCAATAATCTAGAGAAGTAGCACCTAATTTATTT
452 ACGAGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTT
* *
28333919 CTTCGTATGATGCATGA-ATGTA-GATGCGCATTTATTTTAATGGTAAAACTTCCAC-GTTTCCA
517 CTTCGTATGATGCATGACATGTACGATACGC----A-TTTAAT-GTTAAAC-TCCACAG-TT-C-
* * *
28333981 CACAACCTCAATGCT-CTCACCATAACAAGGGTTTCAAGTAAGTAATGTGCTCATAGAGTGACCA
572 CACAACCTCAAT-CTGTTCACCGT--CAA-GG-TTCAAGTAAGGAATGTGCTCATAGAGTGACCA
*
28334045 GAGTAATAAAGTTAAGAAA
632 -TGT-ATAAAGTT-AGAAA
*
28334064 GTGGTGACCCTTGTAGTGTGGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTAT-ACGAT
1 GT-GTGACCCTTGTAGTGT-GCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGT-TCTCGAT
* * *
28334128 TTAGTCCAGAATCATTTTTAAATTTTTTTAAAGCCTCGAGGGCTCGATTAAGGGATAGAGATATG
63 TTAGTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGAT--A-ATATG
*
28334193 CATGTGTTTCAATAAATTATGCTATGA-TTATCGAATGTTTTGGAAATGAA-TTTTTATGTTACA
125 CATGTGTTTCAATGAATTATGCTATGAGTTATCGAATG-TTTGGAAATGAATTTTTTATGTTACA
*
28334256 ATTCTTATCGGTAATGCTCTGTAACCTTATTTTAGTGACAGAATTACGGTTAGGGGTGTTACATT
189 ATT-TTA-CGGTAATGCTCTGTAACCCTATTTTAGTGAC-GAA-TACGGTTAGGGGTGTTACATT
* *
28334321 TAGTGATATTAGTAAGCTATAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCCTA
250 TAGTGATATCAG-AA-CTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGT-CTA
28334386 GAAAATACATGACACTTGACTAACCGGAGATAGTTGTGATAGCTTTTTGATTA-TTTTGAAATGT
312 G-AAATACATGACACTTGACTAACCGGAGATAG-TGTGATAGC-TTTTGATTATTTTTGAAATG-
*
28334450 TTCTTATATAGGTAAAAGATGTTGTGGGGATCTATATCAAGTAGGTTCAAATGAGGGAAGAAAAG
373 TTCTTATATAGGTAAAAGATGTTGTGGGGATCTA-ATCAAGTAGGTTCTAATGAGGG-AG-AAAG
* *
28334515 TTTATTCTTCCACCTACTAACGAGGAAAGTACGCGGAATGAA-CTGGACCGTAAGAATCTAGACA
435 -TT-TTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGA
* * *
28334579 A-TATCACCT-ATTAATTTCTCTTCGTATGATGCATGACATGTACGATACACATTTAATGTTAAA
498 AGTAGCACCTAATTTA-TT-TCTTCGTATGATGCATGACATGTACGATACGCATTTAATGTTAAA
*
28334642 CTCCACAGTTCCACAACCTCAATCTGTTCACCGTCAAGGTTCAAGTAAGGAATGCGCTCATAGAG
561 CTCCACAGTTCCACAACCTCAATCTGTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAG
28334707 TGACCATGTTATAAAGTTAGAAA
626 TGACCATG-TATAAAGTTAGAAA
28334730 GTGTGACCCTTGTAGTGTGGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTT
1 GTGTGACCCTTGTAGTGT-GCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTT
* *
28334795 AGTCTGGGATCATTTTCAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGAATAATATTGCAT
65 AGTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGG-ATAATA-TGCAT
* *
28334860 GTGTTTCAATGAATTATGCTATGAGTTAT-GAATGTTTGGAAATGAATTTTTTATGTTATGATTT
128 GTGTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTA-CAATT
* * *
28334924 TTACGGGTATATGCGTCTCTAACCCTATTTTAGTGACAAATACGATTAGGGGTGTTACATTTAGT
192 TTAC-GGTA-ATGC-TCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGT
* * *
28334989 GATATCAGAACTACTATTTAGTCGATTCTCAGACTAAACTTAGTATGGATAGAATCTAGAAATAC
254 GATATCAGAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATAC
* ** *
28335054 ATGACGCTTGACTAACAAGAGATAGTGTGATAGCTTTTGATTAGTTTTGAAATGTTCTTATATA-
319 ATGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAG
* * **
28335118 GTGAAGAGATGTTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTTAATCTAT
384 GT-AAAAGATG-TTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAG-TTTT-AT-TCC
28335183 ACCTACTAACG-GGAAAGTACGCGG-ATGAACCTGGACCGTAAGAATCTAGAGAAGTA-CA-CTA
444 ACCTACTAACGAGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTA
* * *
28335244 ATTTATTTCTTCGTATGATGCATGACATGT-TGATGCGCATTTAATGGTAAACTCCAC-GTTCCA
509 ATTTATTTCTTCGTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCA
* * * *
28335307 CAACCTCAATCTGCTCACCATCAAGGTTCAAGTAAGTAATGTGCTCATAGAGTGACCAGGTATAA
574 CAACCTCAATCTGTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAA
28335372 AGTTAGAAA
639 AGTTAGAAA
28335381 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTT-
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
*
28335445 GT-CGGAATCATTTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
66 GTCCGGGATCA-TTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
28335509 GTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAA-TTTA
130 GTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTTTA
*
28335573 TGGTAATGCTCTGTAA-CCTATTTTA
195 CGGTAATGCTCTGTAACCCTATTTTA
28335598 AGTGCNNNNN
Statistics
Matches: 3831, Mismatches: 208, Indels: 180
0.91 0.05 0.04
Matches are distributed among these distances:
635 392 0.10
636 87 0.02
637 9 0.00
638 7 0.00
640 38 0.01
641 15 0.00
642 81 0.02
643 12 0.00
644 76 0.02
645 20 0.01
646 401 0.10
647 976 0.25
648 55 0.01
649 55 0.01
650 242 0.06
651 90 0.02
652 62 0.02
653 29 0.01
654 30 0.01
655 18 0.00
656 50 0.01
657 36 0.01
658 49 0.01
659 34 0.01
660 30 0.01
661 35 0.01
662 53 0.01
663 26 0.01
664 117 0.03
665 182 0.05
666 138 0.04
667 12 0.00
668 62 0.02
669 4 0.00
670 46 0.01
671 6 0.00
672 48 0.01
673 10 0.00
674 17 0.00
675 48 0.01
676 27 0.01
677 7 0.00
678 13 0.00
679 40 0.01
680 41 0.01
681 5 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (647 bp):
GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTA
GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACAATTTTAC
GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATATCA
GAACTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
ATGTTGTGGGGATCTAATCAAGTAGGTTCTAATGAGGGAGAAAGTTTTATTCCACCTACTAACGA
GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTC
GTATGATGCATGACATGTACGATACGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCT
GTTCACCGTCAAGGTTCAAGTAAGGAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
Found at i:28342556 original size:40 final size:40
Alignment explanation
Indices: 28342512--28342641 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
28342502 GGACTAAGAT
*
28342512 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * **
28342552 CCGAAGGCCTTTGTGCGAGATACCAATTCCGGGTT-AGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
28342591 CCAAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
28342631 CCGAAGGCATT
1 CCGAAGGCATT
28342642 GAATGAGTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 31 0.41
40 44 0.59
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:28344575 original size:647 final size:647
Alignment explanation
Indices: 28343097--28345391 Score: 3857
Period size: 647 Copynumber: 3.6 Consensus size: 647
28343087 GGGGTGTTAC
* * * * * *
28343097 AGTTAGAAAGTGTGACCCTTGTAGTGTTCACTTTTTCTAGCTTTTTTCTTAAGATTTCATATGTT
1 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
* *
28343162 CTCGATTTAGTCCGGGATCATTTTTCAAATTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAAT
66 CTCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
* * * *
28343227 ATGCATGTGTTTCAATG-ATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTCATGTTA
131 ATGCATGTGTTTCAATGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
* ** * * *
28343291 CGATTTTACGGCAATGCTCTGTAGGCGTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTA
196 CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
* * * * *
28343356 GTGATATCAGAGCTACAATTTAGTTGATTCTCAAACTAAACTTAGCATGGATAGAGTCTAGAAAT
261 GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAAACTAAACTTAGCATGGATACAGTCTAGAAAT
*
28343421 ACATGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
326 ACAAGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
*
28343486 AGGTAAAAGATGTTGTCGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
391 AGGTAAAAGATGTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
28343551 TACTAACGAGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAA-TAGCACCTAATT
456 TACTAACGAGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATT
* *
28343615 TATTTCTTCGTACGATGTATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAA
521 TATTTCTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAA
28343680 CCTCAATCTGCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
586 CCTCAATCTGCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
*
28343742 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGCTTCATATGTT
1 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
* * * * *
28343807 CTTGATTTAGTCCGAGATCATTTTTAAAATTTTCTAAGGCCTTGAAGGCTCGATTGAGGGATAAT
66 CTCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
* *
28343872 ATGCATGTGTTTCAATGAATTCTGCTATGATTTATCTAATGTTTGGAAATGAATTTTTTATGTTA
131 ATGCATGTGTTTCAATGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
* * * * *
28343937 CAATTTTACGGTAATGCTCTGCAACCCTATTTGAGTGACGAATACGATTAGGGGTGTTACGTTTA
196 CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
* * * *
28344002 GTGGTATCAGAGCAACAATTTAGTTGATTCTCAAACTAAACTTAGCATGCATAGAGTCTAGAAAT
261 GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAAACTAAACTTAGCATGGATACAGTCTAGAAAT
* * * *
28344067 ACATGACACTTGACTAACCAGAGATAGTTTGATAGCTTTTGATTATCTTTGAAATGTTCATATAT
326 ACAAGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
28344132 AGGTAAAAGATGTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
391 AGGTAAAAGATGTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
*
28344197 TACTAACGGGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATT
456 TACTAACGAGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATT
*
28344262 TATTTCTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAATTCCACAA
521 TATTTCTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAA
* *
28344327 CCTGAATCTGCTCACCATCAAGGTTCAAGTAAGCAATCTGCTCATAGAGTGACCATGTATAA
586 CCTCAATCTGCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
28344389 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
1 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
* *
28344454 CTCAATTTAGTCCGGGATCATTTATAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
66 CTCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
*
28344519 ATGCATGTGTTTCATTGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
131 ATGCATGTGTTTCAATGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
*
28344584 TGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
196 CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
*
28344649 GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATACAGTCTAGAAAT
261 GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAAACTAAACTTAGCATGGATACAGTCTAGAAAT
*
28344714 ATAAGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
326 ACAAGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
* * *
28344779 AGGTAAAAGATGTTGTTGGGATCTAATCAGGTAGGTTCTAATGAGATAGAAAGTTCTATTCCACC
391 AGGTAAAAGATGTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
* * *
28344844 TACTAACGAGGAAAGTACGCAGAATGAACCTGGACCGTAAGAATGTCA-AGAAGTAGCACCTAAT
456 TACTAACGAGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCT-AGAGAAGTAGCACCTAAT
* *
28344908 TTAGTTCTTCGTATGATGCATGACATGTACAATGCGCATTTAATGGTAAACTCCACAGTTCCACA
520 TTATTTCTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACA
** *
28344973 AAGTCAATCTACT---CATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
585 ACCTCAATCTGCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
*
28345033 AGTTAAAAAGTGTGACCCTTGTAGTGTGCA-TTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
1 AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
*
28345097 ATCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
66 CTCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
*
28345162 ATGCATGTGTTTCATTGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
131 ATGCATGTGTTTCAATGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
28345227 CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
196 CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
* *
28345292 GTGGTATCAGACCAAAAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATACAGTCTAGAAAT
261 GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAAACTAAACTTAGCATGGATACAGTCTAGAAAT
*
28345357 ATAAGACACTTGACTAACCGGAGATAGTGTGATAG
326 ACAAGACACTTGACTAACCGGAGATAGTGTGATAG
28345392 TGATATGAGC
Statistics
Matches: 1559, Mismatches: 88, Indels: 8
0.94 0.05 0.00
Matches are distributed among these distances:
643 324 0.21
644 75 0.05
645 133 0.09
646 338 0.22
647 688 0.44
648 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (647 bp):
AGTTAGAAAGTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCCTCAAGGTTTCATATGTT
CTCGATTTAGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTTGAGGGCTCGATTAAGGGATAAT
ATGCATGTGTTTCAATGAATTATGCTATGATTTATCTAATATTTGGAAATGAATTTTTTATGTTA
CGATTTTACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTCA
GTGGTATCAGAGCAAAAATTTAGTCGATTCTCAAACTAAACTTAGCATGGATACAGTCTAGAAAT
ACAAGACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATCTTTGAAATGTTCTTATAT
AGGTAAAAGATGTTGTTGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACC
TACTAACGAGGAAAGTATGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATT
TATTTCTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAA
CCTCAATCTGCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAA
Found at i:28347122 original size:18 final size:17
Alignment explanation
Indices: 28347087--28347121 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28347077 TTCTTTGTGT
*
28347087 ATTCAGTATTAAAAAAA
1 ATTCAGAATTAAAAAAA
28347104 ATTCAGAATTAAAAAAA
1 ATTCAGAATTAAAAAAA
28347121 A
1 A
28347122 AGAAGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
ATTCAGAATTAAAAAAA
Found at i:28349159 original size:15 final size:14
Alignment explanation
Indices: 28349123--28349177 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
28349113 TCTATTGATC
28349123 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
28349137 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
28349151 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
28349166 GAAAGAAAAGAA
1 GAGA-AAAAGAA
28349178 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:28356459 original size:647 final size:647
Alignment explanation
Indices: 28353564--28363117 Score: 16110
Period size: 647 Copynumber: 14.8 Consensus size: 647
28353554 GGGCGTATCA
* *
28353564 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTTGGGATCTAATCAG
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* * *
28353629 GTAGGTTCTAATGAGATAGAAAGTTCTATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
* * * * *
28353694 TGGACCGTAAGAATGTAAAGAAGTAGCACCTAATTTAGTTCTTCGTATAATGCATGACATGTACA
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
** *
28353759 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAAATTCAATCTACT---CATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28353821 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAAAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* * *
28353886 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTATCGATTTAGTCCGAGATTATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
* *
28353951 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATTCATGTGTTTCAATGAATTATTCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* *
28354016 ATCTAATGTTTAGAAATGAATTTTTTATGTTACAATTTTACGGTAATGCTCTGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
*
28354081 AGTGACGAATACTGTTAGGGGTGTTACGTTTAGTGG-ATCAGAGCAGA-AATTTAGTCGATTCTC
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCA-ACAATTTAGTCGATTCTC
* * *
28354144 GGACTAATCTTAGCATGGTTAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
*
28354207 GATAGCTTTTGATTATCTTTGCAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* * *
28354272 GTAAGTTCTAATGAGGTAGAGAGTTTTATTTCACCTACTAACGAGGAAAGTACGCGGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
* *
28354337 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTCTTTCTTCGTATGATGCATGACATGTACT
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
*
28354402 ATGCGCATTTAATGGTAAACTCCATAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28354467 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCAGTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* *
28354532 TGTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTATAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
28354597 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* *
28354662 ATCTAATGTTTAGAAATGAATTTTTTATGTTACAATTTTACGGTAATGCTCTGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* * *
28354727 AGTGACGAATACGGTTAGGGGTGTTACGATTAGTGGTATCTGAGCAGA-AATTTAGTTGATTCTC
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCA-ACAATTTAGTCGATTCTC
* *
28354791 AGACTAATCTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAATCGGAGATAGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
28354854 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* *
28354919 GTA-GTTCTAATGAGGTAGAGAGTTTTATT-CACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28354982 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
28355047 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAA-C-CAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
* * *
28355110 AAGCAATTTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTATAGTGTGCAGTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
*
28355175 TTTCTAACTTTTTCCTTAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
28355240 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
28355305 ATCTAATGTTTGGAAATGAA-TTTTTATGTTACGATTTTAC-GTAATGCTCTGTAA-CCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
*
28355367 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAAAGCAACAATTTAGTCGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
*
28355432 GACTAATCTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* *
28355494 GATAGCTTTTGATTATCTTTGAAATGTTCTTAT-TTGGTTAAAAAATGTTGTCGGGATCTAATCA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGG-TAAAAGATGTTGTCGGGATCTAATCA
* * * * *
28355558 AGTACGTTCTAATTAGGTAGAATGTTTTATTCCATCTACTAACGAGGAAAGTA-TCGGAATGAAC
65 AGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAAC
*
28355622 CTGGACCGCAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTAC
130 CTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTAC
*
28355687 GATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCACAATCTGCTCACCATCAAGGTTCAAG
195 GATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAG
* * *
28355752 TAAGCAATTTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTATAGTGTGCAGT
260 TAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATT
* * * * *
28355817 GTTTCTAACTTTTTCTTCAAGGTTTCATATGTTCTTGATTTAGTTCGGGATCATTTTCAAAATTT
325 TTTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTT
28355882 TTTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATT
390 TTTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATT
* *
28355947 TATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCGTGTTT
455 TATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTT
* ** * * * * *
28356012 TAGTGACGAATACAATTAGGGGTGTAACATTTAGTGATATCAAAGCAACAATTTAGTTGATTCTC
520 GAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTC
* *** * *
28356077 AGACTAAACTTAGCATGGATAGAGTCTAGAATTATATTG-TTTTTGACTAACCAGAGATAATGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATA-TGACACTTGACTAACCGGAGATAGTGT
*
28356140 GATAGTTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* * * **
28356205 GTAGGATCTAATGAGGTAGAGAGTTTTATTCCACCTACTAACGAGAAAAGTATACGGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28356270 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
*
28356335 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATATGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
* * *
28356400 AAGCAATCTGCTAATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCAGTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* *
28356465 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCTGGGATCATTTTCAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
*
28356530 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGAGTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* * * *
28356595 ATCGAATGTTT-GAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCGTGTTTT
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
** * * *
28356659 AGTGACGAATATAGTTAGGGGTGTAACATTTAGTGGTATCAGAGCTACAATTTAGTCGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* *
28356724 AACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCAGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
28356786 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* *
28356851 GTAGGTTCTAATGAGGTAGAAAGTTCTATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
*
28356916 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACA
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* * **
28356981 ATGTGCATTTAATGGTAAACTCCACAGTTCCAGAAAGTCAATCTGCT---CATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
28357043 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* *
28357108 TTTCTAACTTTTTCCTTAAGATTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
*
28357173 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATG-ATTATGCTATGAGTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* * ** *
28357237 ATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC-GAAATGCTCTGTAACTGTATTTT
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* * * * *
28357301 AGTGACAAATACGGTTAGGGGTGTTACATTTAGTGATATCAGAGCTACAATTTAGTTGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* *
28357366 AACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACACTTGACTAACCGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
28357428 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
*
28357493 GTAGGTTCTAATGAGGTAGAGAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28357558 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
28357623 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
28357688 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
28357753 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
28357818 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* *
28357883 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAAGGTAATGCTCAGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* *
28357948 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGTAAAAATTTAGTCGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* ** * *
28358013 GACTAAACTTAGCATGGATACAGTCTAGAAATATAAAACACTTGATTAACTGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* *
28358075 GAGAGCTTTTGATTATCTTTGAGATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* *
28358140 GTAGGTTCTAATGAGGTAG-AAG-TTCATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28358203 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* * * *
28358268 ATGCACATTTAATGGTAAACTCCACAGTTCCACAACCTGAATTTGCTCACAATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28358333 AAGCAATCTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
*
28358398 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTCGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
28358463 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* * *
28358528 AACTAATGTTTGAAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCAGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* * *
28358593 AGTGACAAATACGGTTAGGGGTGTTACATTTAGTGGTATCAGAGCAAAAATTTAGTCGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* *
28358658 GACTAAACTTAGCATGGATACAGTCTAGAAATATATGACACTTGACTAACTGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* *
28358720 GAGAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATAAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* ** *
28358785 GCAGGTTCTAATGAGGTAGAAAGTTCAATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28358850 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* * * *
28358915 ATGCACATTTAATGGTAAACTCCACAGTTCCACAACCTGAATTTGCTCACAATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28358980 AAGCAATCTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGT-TGGACCCTTGTAGTGTGCATT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGT-GACCCTTGTAGTGTGCATT
* *
28359044 TTTTCTAACTTTTTCGTCAAGGTTTCATATGTTCTCCATTTAGTCCGGGATCATTTTTAAAATTT
325 TTTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTT
*
28359109 TTTAAGGCCTTGAGGGCTCGATTAAGGGATGATATGCATGTGTTTCAATGAATTATGCTATGATT
390 TTTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATT
*
28359174 TATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCAGTAACCCTATTT
455 TATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTT
* * * *
28359239 GAGTGACAAATATGGTTAGGGGTGTTATGTTTAGTGGTATCAGAGCAAAAATTTAGTCGATTCTC
520 GAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTC
* *
28359304 AGACTAAACTTAGCATGGATAAAGTCTAGAAATATATGACACTTGACTAACTGGAGATAGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* *
28359367 GAGAGCTTTTGATTATATTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* ** *
28359432 GCAGGTTCTAATGAGGTAGAAAGTTCAATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
*
28359497 TGGTCCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* *
28359562 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTGAATTTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28359627 AAGCAATCTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* * * *
28359692 TTTCTAACTTTTTCCTCAAGCTTTCATATGTTCTCCATTTAGTCTGGGTTCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
* *
28359757 TTACGGCCTTGAAGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
*
28359822 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCAGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* * * * *
28359887 AGTGACAAATACGGTTAGGGGTGTTACGTTTAGTGGTATCCGAGCAAAAATTTAGTCAATTCTTA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* *
28359952 GACTAAACTTAGCATGGATACAGTCTAGAAATATATGACACTTGACTAACTGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* *
28360014 GAGAGCTTTTGATTATCTTTGAAATGTTCTTATGTAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* *
28360079 GTAGGTTCTAATGAGGTAGAAAGTTCTATTCCACCTACTAACGAGGAAAGTACGCAGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28360144 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
28360209 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28360274 AAGCAATGTGCTCATAGAGTGACCATGTATAAATTTAGAAAGT-TGGACCCTTGTAGTGTGCATT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGT-GACCCTTGTAGTGTGCATT
* *
28360338 TTTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTTGTCTGGGATCATTTTTAAAATTT
325 TTTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTT
*
28360403 TTTAAGGCCTTGAGGGCTCGCTTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATT
390 TTTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATT
* * *
28360468 TATCTAATGTTTTGAAATGAATTTTTTATGCTACGATTTTACGGTAATGCTTTGTAACCCTATTT
455 TATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTT
* * * *
28360533 TAGTGACGAATACAGTTTGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTT
520 GAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTC
* *
28360598 AGACTAAACTTAGCGTGGATAGAGTCTAGAAATACATGACACTTGACTAACCGGAGATAGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* * * *
28360661 GATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAGATGTCGTCAGGATCTAATCAG
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* * *
28360726 GTAGGTTCTGATGAGGTAGAAAGTTTTATTCCGCCTACTAACGAGGAAAGTACGCGGAATGAACT
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
* * * *
28360791 TGGACCGCAATAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACGTGTAAG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* * *
28360856 ATACGCATTTAATGGTAAACTACACAGTTCCACAACTTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28360921 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTTCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* * * *
28360986 TTTTTAGCTTTTTCCTTAAGATTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
* * *
28361051 TTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTCTTTCAATG-ATTATGCTATGAGTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* * * * *
28361115 ATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGCAATACTCTGTAGGCGC-ATTT
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTA-ACCCTATTT
* * * * *
28361179 TAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGATATCAGAGCTACAATTTAGTTGATTCTC
520 GAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTC
* * *
28361244 AAACTAAACTTAGCATGGATAGAGTCTAGAAATACACGACACTTGACTAACCGGAGATAGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
28361307 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
*
28361372 GTAGGTTCTAATGAGGTAGAGAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28361437 TGGACCGTAAGAATCTAGAGAA-TAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* *
28361501 ATACGCATTTAATGGTAAACTCCACTGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28361566 AAGCAATGTGCTCATAGGGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
*
28361631 TTTCTAACTTTTTCCTCAATGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
*
28361696 CTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
* *
28361761 ATCTAATGTTTGGAAATGAATTTTTTATGTTACAATTTTACGGTAATGCTCAGTAACCCTATTTG
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
* *
28361826 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGTAAAAATTTAGTCGATTCTCA
521 AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
* *
28361891 GACTAAAGTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAATCGGAGATAGTGT
586 GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
28361953 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* * *
28362018 GTAGGTTCTAATGAGATAGAGAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATAAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
28362083 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
*
28362148 ATGCGCATTTAATGTTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28362213 AAGCAATGTGCTCATAGGGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* * **
28362278 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTATCGATTTAGTCTGGGATCATGATTAAAATTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
28362343 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
28362408 ATCTAATGTTTGGAAATGAATTTTTTATGTTACG-TATTTACGGTAATGCTCTGTAACCCTATTT
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGAT-TTTACGGTAATGCTCTGTAACCCTATTT
* *
28362472 GAGTGACAAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCTATTCTC
520 GAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTC
* * *
28362537 AGACTAAACTTAGCTTGGATAGAGTCTAGAAATACATGACACTTGACTAACCGGAGATTGTGT
585 AGACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
* * * *
28362600 GATAGCTTTTGATTATTTTTGAAGTGTTCTTATATAGGTAAAAGATGTCGTCGTGATCTAATCAA
1 GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
* *
28362665 GTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGAAATGAACC
66 GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
* * * *
28362730 TGGACCTTAAGAATCTAGATAAGTAGCACCTAATTTATTTCTTCGTATAATGCATGGCATGTACG
131 TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
* * * *
28362795 ATGCGCATTTAATGGTAAACTCCACAGCTCCATATCCTCAATCTCCTCACCATCAAGGTTCAAGT
196 ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
*
28362860 AAGTAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
261 AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
* * * * *
28362925 TTTCTAACTTTTTCTTTAAGGTTTCATATGTTCTCGATTTAGTCCAGGATCATTTTT-GATTTTT
326 TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
*
28362989 TTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
391 TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
28363054 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTT
456 ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTT
28363118 CGACAACAAA
Statistics
Matches: 8464, Mismatches: 412, Indels: 67
0.95 0.05 0.01
Matches are distributed among these distances:
639 4 0.00
640 190 0.02
641 146 0.02
642 439 0.05
643 911 0.11
644 21 0.00
645 1233 0.15
646 1791 0.21
647 3727 0.44
648 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (647 bp):
GATAGCTTTTGATTATCTTTGAAATGTTCTTATATAGGTAAAAGATGTTGTCGGGATCTAATCAA
GTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGAGGAAAGTACGCGGAATGAACC
TGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTCGTATGATGCATGACATGTACG
ATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCTGCTCACCATCAAGGTTCAAGT
AAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAAGTGTGACCCTTGTAGTGTGCATTT
TTTCTAACTTTTTCCTCAAGGTTTCATATGTTCTCGATTTAGTCCGGGATCATTTTTAAAATTTT
TTAAGGCCTTGAGGGCTCGATTAAGGGATAATATGCATGTGTTTCAATGAATTATGCTATGATTT
ATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTACGGTAATGCTCTGTAACCCTATTTG
AGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATCAGAGCAACAATTTAGTCGATTCTCA
GACTAAACTTAGCATGGATAGAGTCTAGAAATATATGACACTTGACTAACCGGAGATAGTGT
Found at i:28386902 original size:37 final size:37
Alignment explanation
Indices: 28386852--28386930 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
28386842 TTATTATGAA
* *
28386852 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
28386889 GTCTTACCCGGACAAAATTCCCATACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
28386926 GTCTT
1 GTCTT
28386931 TAGAGCTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:28387127 original size:47 final size:47
Alignment explanation
Indices: 28387049--28387728 Score: 1162
Period size: 47 Copynumber: 14.5 Consensus size: 47
28387039 CCCTTCGGGA
* * * * * * *
28387049 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28387096 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28387143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387190 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28387237 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387284 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28387331 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28387378 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387425 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28387472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387519 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387566 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387613 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28387660 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28387707 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
28387729 TTGGCTGAAT
Statistics
Matches: 608, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 608 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28396294 original size:4 final size:4
Alignment explanation
Indices: 28396285--28396310 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
28396275 TTAGTTTAGT
28396285 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
28396311 AGGTTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:28410100 original size:13 final size:13
Alignment explanation
Indices: 28410082--28410110 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
28410072 TGTGTCTTAT
28410082 ACGACTAAGTCAC
1 ACGACTAAGTCAC
28410095 ACGACTAAGTCAC
1 ACGACTAAGTCAC
28410108 ACG
1 ACG
28410111 CCCGTGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (13 bp):
ACGACTAAGTCAC
Found at i:28412196 original size:13 final size:13
Alignment explanation
Indices: 28412158--28412198 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
28412148 TCGTGCGTGA
*
28412158 CTTTCTTTTC-TT
1 CTTTTTTTTCTTT
28412170 CTTTCTTTTTCTTT
1 CTTT-TTTTTCTTT
28412184 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
28412197 CT
1 CT
28412199 AAGTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 16 0.62
14 6 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:28414886 original size:54 final size:54
Alignment explanation
Indices: 28414748--28414943 Score: 233
Period size: 57 Copynumber: 3.7 Consensus size: 54
28414738 ATACAAATTA
* * *
28414748 CAGAAAATATTTCCTGTTCACTCATCTTTTCTTGCAGGGAATTTTTACTGTTTTCAT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTG-TTT--T
* *
28414805 CAGAGAATATTTCCTGTTCGCTCGTCTTTTCTTGCAGGAAATATTTACTGTTTT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
* *
28414859 CAGAGAATATTTCTTGTTCACTCGTCTTTTCTTACAGGGAATATTT--TG---T
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
* *
28414908 CA-ACGAATATTTCATGTTCACTTGTCTTTTCTTGCA
1 CAGA-GAATATTTCCTGTTCACTCGTCTTTTCTTGCA
28414944 TCATATTTTC
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
48 1 0.01
49 32 0.25
52 2 0.02
54 43 0.34
56 3 0.02
57 45 0.36
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (54 bp):
CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
Found at i:28418331 original size:35 final size:35
Alignment explanation
Indices: 28418285--28418351 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
28418275 TGTTTATGAC
28418285 AATATTTATTTTTATTAAATATCTTTGAATAGGAA
1 AATATTTATTTTTATTAAATATCTTTGAATAGGAA
28418320 AATATTTATTTTTATTAAATATCTTTGAATAG
1 AATATTTATTTTTATTAAATATCTTTGAATAG
28418352 ATACTTCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (35 bp):
AATATTTATTTTTATTAAATATCTTTGAATAGGAA
Found at i:28423609 original size:28 final size:28
Alignment explanation
Indices: 28423578--28423644 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
28423568 AAGTCCGCTG
*
28423578 AGGACTGTCTTATGTGGAAAGCCCGCCA
1 AGGACTGTCTTATGAGGAAAGCCCGCCA
***
28423606 AGGACTGTCTTATGAGGAAAGTTTGCCA
1 AGGACTGTCTTATGAGGAAAGCCCGCCA
*
28423634 AGGACTATCTT
1 AGGACTGTCTT
28423645 GAAGATGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGACTGTCTTATGAGGAAAGCCCGCCA
Found at i:28426195 original size:15 final size:15
Alignment explanation
Indices: 28426171--28426202 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28426161 TATGCATGTA
*
28426171 AAATATAAAAGACAT
1 AAATACAAAAGACAT
28426186 AAATACAAAAGACAT
1 AAATACAAAAGACAT
28426201 AA
1 AA
28426203 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:28436169 original size:13 final size:11
Alignment explanation
Indices: 28436142--28436184 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
28436132 AGTTAAATAT
28436142 TATTTTATTAA
1 TATTTTATTAA
28436153 TATTTTACTTAA
1 TATTTTA-TTAA
*
28436165 -ATATTTATTAT
1 TAT-TTTATTAA
28436176 TATTTTATT
1 TATTTTATT
28436185 TAGAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:28439724 original size:8 final size:9
Alignment explanation
Indices: 28439699--28439723 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
28439689 TAAAATTGAA
28439699 TATAAAAAT
1 TATAAAAAT
28439708 TATAAAAAT
1 TATAAAAAT
28439717 TATAAAA
1 TATAAAA
28439724 TCTATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:28442704 original size:33 final size:33
Alignment explanation
Indices: 28442635--28442732 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
28442625 CTATACCCAT
* * *
28442635 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
28442672 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
28442705 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
28442733 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:28442992 original size:41 final size:41
Alignment explanation
Indices: 28442947--28443184 Score: 381
Period size: 41 Copynumber: 5.8 Consensus size: 41
28442937 ACCGGCTCTT
*
28442947 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
28442988 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
28443029 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
28443070 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
28443111 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
28443152 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
28443185 TAACAATAAA
Statistics
Matches: 186, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 177 0.95
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:28448440 original size:36 final size:37
Alignment explanation
Indices: 28448400--28448477 Score: 140
Period size: 36 Copynumber: 2.1 Consensus size: 37
28448390 ATTTAAATTC
*
28448400 ATTTTTATTTATATAATTTTCAAATAAATAT-TTTTA
1 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
28448436 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
1 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
28448473 ATTTT
1 ATTTT
28448478 AAAAATAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 30 0.75
37 10 0.25
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (37 bp):
ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
Found at i:28448700 original size:21 final size:21
Alignment explanation
Indices: 28448683--28448736 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
28448673 ACCAAAAATT
28448683 TATTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATTAAAAAAAG
28448704 TATTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATTAAAAAAAG
28448725 TATTTTAAAAAT
1 TATTTTAAAAAT
28448737 ATTTTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TATTTTAAAAATTAAAAAAAG
Done.