Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 123 of 240
Found at i:38309262 original size:18 final size:18
Alignment explanation
Indices: 38309208--38309263 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
38309198 TATATATATC
*
38309208 TTTTATATTTTTA-TAAT
1 TTTTATAATTTTATTAAT
38309225 TTTTATAATTTT-TATAAT
1 TTTTATAATTTTAT-TAAT
*
38309243 TTTTATAATTTTATTCAT
1 TTTTATAATTTTATTAAT
38309261 TTT
1 TTT
38309264 CTTTGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 11 0.32
18 22 0.65
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTATTAAT
Found at i:38328424 original size:43 final size:43
Alignment explanation
Indices: 38328369--38328470 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
38328359 CGTTTATGTG
* *
38328369 AAAAAACGCCGCTATAGAACATGACCTTTAACGTCACTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
* * *
38328412 AAAAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
* *
38328455 CACAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
38328471 AGTACCGTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAT
Found at i:38335535 original size:7 final size:7
Alignment explanation
Indices: 38335525--38335557 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
38335515 CCCCTAACCG
38335525 CTAAATC
1 CTAAATC
38335532 CTAAATC
1 CTAAATC
38335539 CTAAATC
1 CTAAATC
38335546 CTAAATC
1 CTAAATC
*
38335553 ATAAA
1 CTAAA
38335558 ACATAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAATC
Found at i:38335564 original size:21 final size:21
Alignment explanation
Indices: 38335525--38335564 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38335515 CCCCTAACCG
* * *
38335525 CTAAATCCTAAATCCTAAATC
1 CTAAATCATAAAACATAAATC
38335546 CTAAATCATAAAACATAAA
1 CTAAATCATAAAACATAAA
38335565 CCATAAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAAATCATAAAACATAAATC
Found at i:38335620 original size:64 final size:64
Alignment explanation
Indices: 38335547--38335667 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
38335537 TCCTAAATCC
* *
38335547 TAAATCATAAAACATAAACCATAAACCCTTAACCCCTAACTCC-TAAACCTTAAACCCCAACCTT
1 TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAA-TCCATAAACCTTAAACCCCAACCTT
* * * * *
38335611 TAAACCATAAACCATAAACCATAATCCCTAAACTCGTAATCCATAAATCTTAAACCC
1 TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAATCCATAAACCTTAAACCC
38335668 TAAACCATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 3 0.06
64 46 0.94
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (64 bp):
TAAACCATAAAACATAAACCATAAACCCTAAACCCCTAATCCATAAACCTTAAACCCCAACCTT
Found at i:38335621 original size:7 final size:7
Alignment explanation
Indices: 38335611--38335705 Score: 82
Period size: 7 Copynumber: 13.4 Consensus size: 7
38335601 CCCCAACCTT
38335611 TAAACCA
1 TAAACCA
38335618 TAAACCA
1 TAAACCA
38335625 TAAACCA
1 TAAACCA
* *
38335632 TAATCCC
1 TAAACCA
*
38335639 TAAACTCG
1 TAAAC-CA
*
38335647 TAATCCA
1 TAAACCA
* *
38335654 TAAATCT
1 TAAACCA
*
38335661 TAAACCC
1 TAAACCA
38335668 TAAACCA
1 TAAACCA
* *
38335675 TATACCT
1 TAAACCA
38335682 TAAACCA
1 TAAACCA
*
38335689 TAAACCC
1 TAAACCA
*
38335696 TAAACTA
1 TAAACCA
38335703 TAA
1 TAA
38335706 TGATAATTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
7 63 0.93
8 5 0.07
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:38335628 original size:14 final size:14
Alignment explanation
Indices: 38335611--38335705 Score: 91
Period size: 14 Copynumber: 6.7 Consensus size: 14
38335601 CCCCAACCTT
*
38335611 TAAACCATAAACCA
1 TAAACCATAAACCC
*
38335625 TAAACCATAATCCC
1 TAAACCATAAACCC
* * *
38335639 TAAACTCGTAATCCA
1 TAAAC-CATAAACCC
* *
38335654 TAAATCTTAAACCC
1 TAAACCATAAACCC
* *
38335668 TAAACCATATACCT
1 TAAACCATAAACCC
38335682 TAAACCATAAACCC
1 TAAACCATAAACCC
*
38335696 TAAACTATAA
1 TAAACCATAA
38335706 TGATAATTAA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
14 54 0.83
15 11 0.17
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:38336182 original size:40 final size:40
Alignment explanation
Indices: 38336129--38336231 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
38336119 TTTGCGGCGA
* *
38336129 TTTTCAAAAAGTGCCGCTCATGGTCGACCTATAGCGACAT
1 TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
* * * *
38336169 TTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCGTCGT
1 TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
*
38336209 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAAGTGCCGCTAATGC
38336232 CACTAAAGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGACAT
Found at i:38336332 original size:40 final size:41
Alignment explanation
Indices: 38336277--38336398 Score: 142
Period size: 40 Copynumber: 3.0 Consensus size: 41
38336267 TAATTTTTTT
* *
38336277 GCGGCGTTTCTCAAAAAGCGA-CGCTAATGGTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGACCGCTAATGCTCGACCTATA
* *
38336317 GCGGCGTTTTTCAAAAAG-TACCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGACCGCTAATGCTCGACCTATA
* ** * *
38336357 GCGGCATTTTTCAAAAAGCG-TTGTTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGACCGCTAATGCTCGACCTATA
38336397 GC
1 GC
38336399 AACATATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTTTCAAAAAGCGACCGCTAATGCTCGACCTATA
Found at i:38336345 original size:155 final size:154
Alignment explanation
Indices: 38336008--38336376 Score: 526
Period size: 155 Copynumber: 2.4 Consensus size: 154
38335998 AATGTTTTTT
* * * * *
38336008 GCGGCGTTTTTTATAAAGTGTCGCTAAAGCTCGATCTATAGCGAT-GTTTTTCAAAAAGTGCCGC
1 GCGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCG-TCGTTTTTCAAAAAGCGCCGC
*
38336072 TAATACCACTAAAACTCAACATAAAACGACGCTTTGTGCTTAATTTTTTTGCGGCGATTTTCAAA
65 TAATACCACTAAAACTCAACATAAAACGACGCGTTGTGCTTAATTTTTTTGCGGCGATTTTCAAA
* * *
38336137 AAGTGCCGCTCATGGTCGACCTATA
130 AAGCGACGCTAATGGTCGACCTATA
* * *
38336162 GCGACATTTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCGTCGTTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGTCGTTTTTCAAAAAGCGCCGCT
* * * *
38336227 AATGCCACTAAAGCTCAACATAAAACGATGACGTTGTGGTTAATTTTTTTGCGGCG-TTTCTCAA
66 AATACCACTAAAACTCAACATAAAACGACG-CGTTGTGCTTAATTTTTTTGCGGCGATTT-TCAA
38336291 AAAGCGACGCTAATGGTCGACCTATA
129 AAAGCGACGCTAATGGTCGACCTATA
* * *
38336317 GCGGCGTTTTTCAAAAAGTACCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCG
1 GCGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGTCGTTTTTCAAAAAGCG
38336377 TTGTTAATGC
Statistics
Matches: 190, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
153 1 0.01
154 85 0.45
155 104 0.55
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (154 bp):
GCGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGTCGTTTTTCAAAAAGCGCCGCT
AATACCACTAAAACTCAACATAAAACGACGCGTTGTGCTTAATTTTTTTGCGGCGATTTTCAAAA
AGCGACGCTAATGGTCGACCTATA
Found at i:38339398 original size:27 final size:26
Alignment explanation
Indices: 38339279--38339401 Score: 110
Period size: 27 Copynumber: 4.8 Consensus size: 26
38339269 AGTTTATCCT
*
38339279 ATAGGGGTATTTCGGTAATTTTACCC
1 ATAGGGGTATTTTGGTAATTTTACCC
* *
38339305 AT----CTATTTTGTTAATTTTACCC
1 ATAGGGGTATTTTGGTAATTTTACCC
* ** *
38339327 ATCAGGGGTATTTCGACAATTTTACCT
1 AT-AGGGGTATTTTGGTAATTTTACCC
* * *
38339354 ATCGCGGTATTTTAGTAATTTTACCC
1 ATAGGGGTATTTTGGTAATTTTACCC
38339380 ATTAGGGGTATTTTGGTAATTT
1 A-TAGGGGTATTTTGGTAATTT
38339402 AACAAACTTT
Statistics
Matches: 73, Mismatches: 18, Indels: 11
0.72 0.18 0.11
Matches are distributed among these distances:
22 19 0.26
26 20 0.27
27 34 0.47
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (26 bp):
ATAGGGGTATTTTGGTAATTTTACCC
Found at i:38339401 original size:53 final size:49
Alignment explanation
Indices: 38339280--38339401 Score: 147
Period size: 53 Copynumber: 2.4 Consensus size: 49
38339270 GTTTATCCTA
38339280 TAGGGGTATTTCGGTAATTTTACCCATCTATTTTGTTAATTTTACCCAT
1 TAGGGGTATTTCGGTAATTTTACCCATCTATTTTGTTAATTTTACCCAT
* ** *
38339329 CAGGGGTATTTCGACAATTTTACCTATCGCGGTATTTTAG-TAATTTTACCCAT
1 TAGGGGTATTTCGGTAATTTTACCCAT--C--TATTTT-GTTAATTTTACCCAT
*
38339382 TAGGGGTATTTTGGTAATTT
1 TAGGGGTATTTCGGTAATTT
38339402 AACAAACTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 23 0.38
51 1 0.02
53 35 0.58
54 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (49 bp):
TAGGGGTATTTCGGTAATTTTACCCATCTATTTTGTTAATTTTACCCAT
Found at i:38350694 original size:232 final size:230
Alignment explanation
Indices: 38350287--38350974 Score: 1052
Period size: 225 Copynumber: 3.0 Consensus size: 230
38350277 AGCAACACTG
* *
38350287 AAAAATTTTGAAAACCAAATGGGTTAGATAGCTACGGATCTACGTAATAGACCACAATGAACCTT
1 AAAAATTTGGAAAACCAAATGGGTTAGATAGCTACGGAGCTACGTAATAGACCACAATGAACCTT
* *
38350352 GCCGAGCGATACTGAGAATCCAAGAAATTTTGGTAAAGAACATATCAAGGTAGTGGCATTATAGA
66 GCCGAGCGATACTGAGAATCCAAGAAATTTGGGTAAAGAACATATCAAGGCAGTGGCATTATAGA
* *
38350417 ATGGTAAAATTCTAGAACCCCGATTAATTGGTGTCGAAGATAAGCCCGTTGAGAAGAATCAACCA
131 GTGGTAAAATTCTAGAACCCCGATTGATTGGTGTCGAAGATAAGCCCGTTGAGAAGAATCAACCA
*
38350482 GCTGTTGAAGTTCCGGTACCAAAGGAATCAGAATCTA
196 GCTGTTGAAGTTCCAG-ACC-AAGGAATCAGAATCTA
*
38350519 GAAAATTTGGAAAACCAAATGGGTTAGATAGCTACGGAGCTACGTAATAGACCACAATGAACCTT
1 AAAAATTTGGAAAACCAAATGGGTTAGATAGCTACGGAGCTACGTAATAGACCACAATGAACCTT
38350584 GCCGAGCGATACTGAGAATCCAAGAAATTTGGGTAAAGAACATATCAAGGCAGTGGCATTATAGA
66 GCCGAGCGATACTGAGAATCCAAGAAATTTGGGTAAAGAACATATCAAGGCAGTGGCATTATAGA
* * *
38350649 GTGGTAAAATTCTAGAACCCTGATTGATTGGTGTCGAAGATAAGCCCGTTGATTTAAAGAAT-GA
131 GTGGTAAAATTCTAGAACCCCGATTGATTGGTGTCGAAGATAAGCCCGTTGA---GAAGAATCAA
* * ** * *
38350713 --TGCT-TTG-ATTTAAAG-CCAAGCAGT-A-ACA-CTA
193 CCAGCTGTTGAAGTTCCAGACCAAGGAATCAGA-ATCTA
*
38350744 AAAAATTTGGAAAACCAAATGGGTTAGATAGATACGGAGCTACGTAATAGACCACAATGAACCTT
1 AAAAATTTGGAAAACCAAATGGGTTAGATAGCTACGGAGCTACGTAATAGACCACAATGAACCTT
* * *
38350809 GCCGAGCGATACTGAGAATCCATGAAATTTGGGTAAATAACATATCAAGGCAGTGGCATTATAAA
66 GCCGAGCGATACTGAGAATCCAAGAAATTTGGGTAAAGAACATATCAAGGCAGTGGCATTATAGA
38350874 GTGGTAAAATTCTAGAACCCCGATTGATTGGTGTCGAAGATAAGCCCGTTGAGAAGAATCAACCA
131 GTGGTAAAATTCTAGAACCCCGATTGATTGGTGTCGAAGATAAGCCCGTTGAGAAGAATCAACCA
38350939 GCTGTTGAAGTTCCAGCACCGAAGGAATCAGAATCT
196 GCTGTTGAAGTTCCAG-ACC-AAGGAATCAGAATCT
38350975 GCAAAGTTTG
Statistics
Matches: 410, Mismatches: 31, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
222 6 0.01
223 1 0.00
225 183 0.45
226 5 0.01
227 10 0.02
228 2 0.00
229 2 0.00
230 9 0.02
231 5 0.01
232 180 0.44
234 1 0.00
235 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (230 bp):
AAAAATTTGGAAAACCAAATGGGTTAGATAGCTACGGAGCTACGTAATAGACCACAATGAACCTT
GCCGAGCGATACTGAGAATCCAAGAAATTTGGGTAAAGAACATATCAAGGCAGTGGCATTATAGA
GTGGTAAAATTCTAGAACCCCGATTGATTGGTGTCGAAGATAAGCCCGTTGAGAAGAATCAACCA
GCTGTTGAAGTTCCAGACCAAGGAATCAGAATCTA
Found at i:38358636 original size:50 final size:50
Alignment explanation
Indices: 38358578--38358705 Score: 123
Period size: 49 Copynumber: 2.6 Consensus size: 50
38358568 TATTGAGGTT
* * *
38358578 ATGAGAGGTTCCATGTAAGACCATGTCTGTGACACGGCGTTGGTACCGAG
1 ATGAGAGGTTCCATGTAAGACCATGTCTGTGACACGGCATGGGCACCGAG
** * * * *
38358628 ATGAGAGG-TCCCCGTAAGACTATGTTTGTGACATGGCATGGGCACCGAT
1 ATGAGAGGTTCCATGTAAGACCATGTCTGTGACACGGCATGGGCACCGAG
** * * *
38358677 ATGAGAACTCCCATGTAAGTCCATATCTG
1 ATGAGAGGTTCCATGTAAGACCATGTCTG
38358706 GGATATGACA
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
49 38 0.64
50 21 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (50 bp):
ATGAGAGGTTCCATGTAAGACCATGTCTGTGACACGGCATGGGCACCGAG
Found at i:38361118 original size:20 final size:18
Alignment explanation
Indices: 38361081--38361121 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
38361071 CGAAGGTTGA
38361081 TATTTTTGTTTTTTTATT
1 TATTTTTGTTTTTTTATT
38361099 TATTTTTAGTTTTATTTATT
1 TATTTTT-GTTTT-TTTATT
38361119 TAT
1 TAT
38361122 ATACTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
TATTTTTGTTTTTTTATT
Found at i:38367913 original size:32 final size:32
Alignment explanation
Indices: 38367877--38367941 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
38367867 CTCATGTCTG
38367877 AACGTCATTATTCTAATAAAATACATATTCGC
1 AACGTCATTATTCTAATAAAATACATATTCGC
38367909 AACGTCATTATTCTAATAAAATACATATTCGC
1 AACGTCATTATTCTAATAAAATACATATTCGC
38367941 A
1 A
38367942 TTCATTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
AACGTCATTATTCTAATAAAATACATATTCGC
Found at i:38370320 original size:44 final size:44
Alignment explanation
Indices: 38370184--38370322 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 44
38370174 GATAACAGAT
* * * * *
38370184 CTTGCCTTCCTACACCGACAGCAAAGCAGATAGAAGACACTAGC
1 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGC
* ** * * * * * * * *
38370228 CTTGCCTCCCTGGGTTG-CAGCGGAGCAG-GCTAAAAATAGCAGAT
1 CTTGCCTTCCTGCATCGACAGCGAAGCAGATC-GAAGACACCAG-C
38370272 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGC
38370316 CTTGCCT
1 CTTGCCT
38370323 CTCTGGGTTG
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 15 0.23
44 31 0.48
45 17 0.27
46 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:38370329 original size:88 final size:88
Alignment explanation
Indices: 38370179--38370362 Score: 278
Period size: 88 Copynumber: 2.1 Consensus size: 88
38370169 GTGAAGATAA
*
38370179 CAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATAGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATAGAAGACACCAGCCTTGCCTCCCTGGGTT
38370244 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
38370267 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATAGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
38370332 GCAGCGGAGCAGGTTGAAAATTG
66 GCAGCGGAGCAGGCTAAAAATAG
*
38370355 CAAATCTT
1 CAGATCTT
38370363 ATCTCCCTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATAGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:38370413 original size:43 final size:43
Alignment explanation
Indices: 38370364--38370527 Score: 150
Period size: 44 Copynumber: 3.8 Consensus size: 43
38370354 GCAAATCTTA
* *
38370364 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGCCTTG
* * * * ** * *
38370407 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCTTA
1 TCTCCCTAAGCAGCAGTGGAGCAGATTG-AAGTCCCCAG-CCTTG
* *
38370451 TCTACCTAAGCAGTAGTGGAGCAGATTGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGCCTTG
** * *
38370494 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTC
1 TCTCCCT-AAGCAGCAGTGGAGCAGATTGAAGTC
38370528 GATAATCCTA
Statistics
Matches: 91, Mismatches: 26, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
43 38 0.42
44 53 0.58
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (43 bp):
TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGCCTTG
Found at i:38370433 original size:87 final size:87
Alignment explanation
Indices: 38370296--38370546 Score: 326
Period size: 87 Copynumber: 2.9 Consensus size: 87
38370286 TCGACAGCGA
* * * * * *
38370296 AGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTGAAAATTGCAAATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGTTGCAGTGGAGCAGGTTGAAAATTGCAAATC
38370361 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
** * * *
38370383 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGTTGCAGTGGAGCAGGTTGAAAATTGCAAATC
*
38370448 TTATCTACCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* * *
38370470 AGCAGATTGAAGTCCCCAGCCTTGTCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGTCG-ATAA
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG-AGTTGCAGTGGAGCAGGTTGAAAATTGCA-AA
*
38370533 TCCTATCTCCCTAA
64 TCTTATCTCCCTAA
38370547 AGTTGCAGTG
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
86 1 0.01
87 123 0.88
88 16 0.11
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (87 bp):
AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGTTGCAGTGGAGCAGGTTGAAAATTGCAAATC
TTATCTCCCTAAGCAGTAGTGG
Found at i:38370469 original size:44 final size:44
Alignment explanation
Indices: 38370337--38370480 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
38370327 GGGTTGCAGC
* * *
38370337 GGAGCAGGTTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
* * ** * * * *
38370381 GGAGCAGATCG-AAGTCCCCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGATTGAAAAT-TACAGATCTTATCTCCCTAAGCAGTAGT
* * *
38370424 GGAGTAGGTTGAAAATTACAGATCTTATCTACCTAAGCAGTAGT
1 GGAGCAGATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
38370468 GGAGCAGATTGAA
1 GGAGCAGATTGAA
38370481 GTCCCCAGCC
Statistics
Matches: 74, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
43 32 0.43
44 42 0.57
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (44 bp):
GGAGCAGATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
Found at i:38370542 original size:44 final size:44
Alignment explanation
Indices: 38370494--38371219 Score: 324
Period size: 44 Copynumber: 16.7 Consensus size: 44
38370484 CCCAGCCTTG
* *
38370494 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * * * *
38370538 TCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATC-TTGGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT-AATCTTA
* * *** *
38370582 TCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC--TAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * * * **
38370622 TCTCCCTGAAGTTACAATCGAGCAGACTAAGGAAG-TAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAA-TCTTA
* * * * * *
38370666 TC-CTTCTGAAGTTACAGTGGGGCAGACTGAAGATGGCA-AATCTTA
1 TCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-ATAATCTTA
* * * *
38370711 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * **
38370755 TCTCCCTCAAGTTGCAGTGGAGCGGATTAAA-ACCTTAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT-AATCTTA
* * * ** * *
38370799 TCTCTCTGAAGTTGCAG-AGATCAGATTGCA-TC--TAGTATTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * * * *
38370839 TCTCCCTGAAGTTACAGTGGAGCTGACT-AAGTAAGCA-AGTTTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-ATAATCTTA
* * * *
38370883 TC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCA-AATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-ATAATCTTA
* * *
38370928 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * * **
38370972 TCTCCCTAAAGTTCCAGTGGATCAGATTAAA-ACCTTAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATA-ATCTTA
* * * *** *
38371016 TCTCTCTGAAGTTGCAG-AGAGTAGATCGCA-TC--TAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
* * * *
38371056 TCTCCCTGAAGTTGCAGTGGAGAAAACT-AAGT--ATGCAAGTCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT--AA-TCTTA
* * * *
38371100 TC-CTCCTGAAGTTGCAG-AGAGGCAGACTGAAGATGGCA-AATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-ATAATCTTA
* *
38371145 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAG-CTGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-GATAATCTTA
* *
38371189 TCTCCCTCAAGTTGCAGTGGAGCGGATTAAA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
38371220 ACCTTAAATA
Statistics
Matches: 514, Mismatches: 125, Indels: 86
0.71 0.17 0.12
Matches are distributed among these distances:
40 61 0.12
41 25 0.05
42 2 0.00
43 44 0.09
44 274 0.53
45 94 0.18
46 13 0.03
49 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCTTA
Found at i:38370869 original size:217 final size:217
Alignment explanation
Indices: 38370494--38371382 Score: 1348
Period size: 217 Copynumber: 4.1 Consensus size: 217
38370484 CCCAGCCTTG
* *
38370494 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
* ** * *
38370559 GCGGATTAAAATCTTGGATCTTGTCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATC
66 GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGATCAGATCGCATCTAGTCTTATC
* * * * * *
38370624 TCCCTGAAGTTACAATCGAGCAGACTAAGGAAGTAAGTCTTATCCTTCTGAAGTTACAGTGGGGC
131 TCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGC
38370689 AGACTGAAGATGGCAAATCTTA
196 AGACTGAAGATGGCAAATCTTA
* * *
38370711 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTCAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
* *
38370776 GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGATCAGATTGCATCTAGTATTATC
66 GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGATCAGATCGCATCTAGTCTTATC
* *
38370841 TCCCTGAAGTTACAGTGGAGCTGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTACAGTGAGGC
131 TCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGC
38370906 AGACTGAAGATGGCAAATCTTA
196 AGACTGAAGATGGCAAATCTTA
* *
38370928 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTCCCTAAAGTTCCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
* * *
38370993 TCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGT-AGATCGCATCTAGTCTTAT
66 GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGA-TCAGATCGCATCTAGTCTTAT
* * * * * * *
38371057 CTCCCTGAAGTTGCAGTGGAGAAAACTAAGTATGCAAGTCTTGTCCTCCTGAAGTTGCAGAGAGG
130 CTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGG
38371122 CAGACTGAAGATGGCAAATCTTA
195 CAGACTGAAGATGGCAAATCTTA
* * *
38371145 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTGATAATCCTATCTCCCTCAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
* * * * *
38371210 GCGGATTAAAACCTTAAATATTATCTCTCTAAAGTTGTAGAGATCAAATTGCATCTAGTCTTATC
66 GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGATCAGATCGCATCTAGTCTTATC
* * * * *
38371275 TCCTTGAAGTTGCAGTGGAGCTGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCAGTGAGGC
131 TCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGC
*
38371340 AGACTGAAGATGGCGAATCTTA
196 AGACTGAAGATGGCAAATCTTA
38371362 TCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGA
38371383 ATAGATTGAA
Statistics
Matches: 611, Mismatches: 59, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
216 1 0.00
217 609 1.00
218 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (217 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGA
GCGGATTAAAACCTTAAATCTTATCTCTCTGAAGTTGCAGAGATCAGATCGCATCTAGTCTTATC
TCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGC
AGACTGAAGATGGCAAATCTTA
Found at i:38371372 original size:45 final size:44
Alignment explanation
Indices: 38370615--38371382 Score: 287
Period size: 44 Copynumber: 17.6 Consensus size: 44
38370605 GATCGCATCT
* * * * *
38370615 AGTCTTATCTCCCTGAAGTTACAATCGAGCAGACTAAGGAAGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * *
38370659 AGTCTTATC-CTTCTGAAGTTACAGTGGGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCA
* * * * *
38370704 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* * * * *
38370749 A-TCCTATCTCCCTCAAGTTGCAGTGGAGCGGATTAA--AACCTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--A
* * * * * * * *
38370792 AATCTTATCTCTCTGAAGTTGCAG-AGATCAGA-T-TG-CATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
38370832 AGTATTATCTCCCTGAAGTTACAGTGGAGCTGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
38370876 AGTTTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
* *
38370921 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG--AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A
* * * * * * * *
38370964 TAATCCTATCTCCCTAAAGTTCCAGTGGATCAGATTAA--AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
* * * * * * *
38371008 AGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CG-CATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
38371049 AGTCTTATCTCCCTGAAGTTGCAGTGGAGAAAACTAAGTATGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
38371093 AGTCTTGTC-CTCCTGAAGTTGCAG-AGAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
* * * *
38371138 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTGA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AG-TAAGCA
* * * * *
38371183 A-TCCTATCTCCCTCAAGTTGCAGTGGAGCGGATTAA--AACCTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--A
* * * * * * * * * * * *
38371226 AATATTATCTCTCTAAAGTTGTAG-AGATCA-AAT-TG-CATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
38371266 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCTGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
38371310 AGTCTTATC-CTTCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGC-A
38371356 A-TCTTATCTCCCTGAAGTTGCAGTGGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA
38371383 ATAGATTGAA
Statistics
Matches: 542, Mismatches: 125, Indels: 112
0.70 0.16 0.14
Matches are distributed among these distances:
40 62 0.11
41 17 0.03
42 15 0.03
43 37 0.07
44 266 0.49
45 132 0.24
46 12 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:38373465 original size:36 final size:36
Alignment explanation
Indices: 38373424--38373614 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
38373414 TGTAGCTTTA
38373424 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
38373460 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
*
38373505 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
38373542 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
38373578 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
38373614 G
1 G
38373615 GTAGCTTAGC
Statistics
Matches: 136, Mismatches: 9, Indels: 20
0.82 0.05 0.12
Matches are distributed among these distances:
36 99 0.73
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 29 0.21
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:38373525 original size:82 final size:81
Alignment explanation
Indices: 38373388--38373614 Score: 310
Period size: 82 Copynumber: 2.9 Consensus size: 81
38373378 TTTGAGTATT
*
38373388 TCTGATCAAGAGATAAAGTGATAAGTTGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAG-TGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
38373453 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* * *
38373470 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
38373535 GATAAGTGTTATACTTA
65 GATAAGTGCTACACTTA
*
38373552 TCTGATCAAGTGAAAAAGTGATAA--GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
38373608 ATAAGTG
66 ATAAGTG
38373615 GTAGCTTAGC
Statistics
Matches: 135, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
72 31 0.23
74 1 0.01
76 2 0.01
78 2 0.01
79 2 0.01
81 1 0.01
82 96 0.71
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGCTACACTTA
Found at i:38375709 original size:14 final size:16
Alignment explanation
Indices: 38375674--38375721 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
38375664 TAATTTTCAT
38375674 ATGTAATTATTTTTTTA
1 ATGTAA-TATTTTTTTA
38375691 CATGT-ATATTTTTTT-
1 -ATGTAATATTTTTTTA
38375706 ATGTACATATTTTTTT
1 ATGTA-ATATTTTTTT
38375722 TAAAACTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
16 19 0.68
17 1 0.04
18 4 0.14
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (16 bp):
ATGTAATATTTTTTTA
Found at i:38383728 original size:12 final size:12
Alignment explanation
Indices: 38383711--38383735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38383701 CAAGCGGAAC
38383711 CATGGCGAAAAA
1 CATGGCGAAAAA
38383723 CATGGCGAAAAA
1 CATGGCGAAAAA
38383735 C
1 C
38383736 CAACCCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.24, T:0.08
Consensus pattern (12 bp):
CATGGCGAAAAA
Found at i:38397667 original size:30 final size:30
Alignment explanation
Indices: 38397616--38397898 Score: 182
Period size: 30 Copynumber: 9.3 Consensus size: 30
38397606 ATCGATCTAA
* ** *
38397616 GAAAAAGGATAGCTTTGGCTATCGAACTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* *
38397646 GAAAAGGGATAGCTCCAGCTATCAAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* * * * *
38397676 GAAAAGGGAT-GGTGACGGCCATCAAACAAT
1 GAAAAGGGATAGCT-TCAGCTATCAAACTAT
* * * *
38397706 GAAAAGGGAT-G-GTGACGACCATCAAAATTAT
1 GAAAAGGGATAGCTTCA-G-CTATC-AAACTAT
38397737 GAAAAAGGGATAGCTTCAGCTATCAAACTAT
1 G-AAAAGGGATAGCTTCAGCTATCAAACTAT
*
38397768 GAAAAGGGATAGCTTCAGCTATCAAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* * * * *
38397798 GAAAATGGATGGCTACA-ATCATCAAACAAT
1 GAAAAGGGATAGCTTCAGCT-ATCAAACTAT
* * * *
38397828 GAAAAGGGAT-G-GTGACGACCATCAAAATTAT
1 GAAAAGGGATAGCTTCA-G-CTATC-AAACTAT
* * *
38397859 GAAAAGGGATAGCTTCGGCTATCGAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
*
38397889 GGAAAGGGAT
1 GAAAAGGGAT
38397899 GGTATCAACC
Statistics
Matches: 196, Mismatches: 43, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
28 1 0.01
29 5 0.03
30 138 0.70
31 32 0.16
32 15 0.08
33 3 0.02
34 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCAGCTATCAAACTAT
Found at i:38397808 original size:92 final size:90
Alignment explanation
Indices: 38397643--38397911 Score: 278
Period size: 92 Copynumber: 2.9 Consensus size: 90
38397633 GCTATCGAAC
* * * * **
38397643 TATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAAAGGGAT-GGTGACGGCCATCAAACAATG
1 TATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCT-TCGGCTATCAAATTATG
*
38397707 AAAAGGGATGGTGACGACCATCAAA-A
65 AAAAGGGATGGT-ACAACCATCAAACA
* *
38397733 TTATGAAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATAGCTTCAGCTATCAAATTAT
1 -TATG-AAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTAT
* *
38397798 GAAAATGGATGGCTACAATCATCAAACA
64 GAAAAGGGATGG-TACAACCATCAAACA
* * * *
38397826 -ATGAAAAGGGAT-G-GTGACGACCATCAAAATTATGAAAAGGGATAGCTTCGGCTATCGAATTA
1 TATGAAAAGGGATAGCTTCA-G-CTATC-AAATTATGAAAAGGGATAGCTTCGGCTATCAAATTA
*
38397888 TGGAAAGGGATGGTATCAACCATC
63 TGAAAAGGGATGGTA-CAACCATC
38397912 TTATTATCAC
Statistics
Matches: 150, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
88 2 0.01
89 2 0.01
90 15 0.10
91 58 0.39
92 69 0.46
93 4 0.03
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (90 bp):
TATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGA
AAAGGGATGGTACAACCATCAAACA
Found at i:38397839 original size:122 final size:122
Alignment explanation
Indices: 38397616--38397898 Score: 446
Period size: 122 Copynumber: 2.3 Consensus size: 122
38397606 ATCGATCTAA
*
38397616 GAAAAA-GGATAGCTTTGGCTATCGAACTATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAA
1 GAAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAA
**
38397680 AGGGATGGTGACGGCCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
66 AGGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
* * *
38397737 GAAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAA
1 GAAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAA
* *
38397802 ATGGATGGCT-ACAATCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
66 AGGGATGG-TGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
* *
38397859 G-AAAAGGGATAGCTTCGGCTATCGAATTATGGAAAGGGAT
1 GAAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT
38397899 GGTATCAACC
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
121 41 0.28
122 106 0.72
123 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (122 bp):
GAAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAA
AGGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
Found at i:38400667 original size:47 final size:47
Alignment explanation
Indices: 38400601--38401218 Score: 1013
Period size: 47 Copynumber: 13.1 Consensus size: 47
38400591 GAAATGATAG
38400601 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38400648 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38400697 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38400744 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38400791 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38400838 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38400887 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38400934 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38400981 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38401028 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38401074 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38401121 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
38401168 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38401215 TAAG
1 TAAG
38401219 TCCCGAAGGG
Statistics
Matches: 544, Mismatches: 22, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 45 0.08
47 406 0.75
49 93 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38400880 original size:143 final size:143
Alignment explanation
Indices: 38400601--38401218 Score: 989
Period size: 143 Copynumber: 4.4 Consensus size: 143
38400591 GAAATGATAG
*
38400601 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
38400666 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
38400731 TG--TATATGTGTGA
129 TGTATATATGTGTGA
* *
38400744 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
38400809 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
38400874 TATATATATGTGA
131 TATATATGTGTGA
*
38400887 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
38400952 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
38401017 TATATA--TGTGA
131 TATATATGTGTGA
* *
38401028 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
38401092 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
38401157 TATATA--TGTGA
131 TATATATGTGTGA
*** * * * * * * *
38401168 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38401219 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
140 130 0.29
141 95 0.21
143 224 0.50
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGTGA
Found at i:38400924 original size:190 final size:189
Alignment explanation
Indices: 38400601--38401218 Score: 1060
Period size: 190 Copynumber: 3.3 Consensus size: 189
38400591 GAAATGATAG
*
38400601 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
38400666 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38400731 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
130 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
38400791 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
38400856 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38400921 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
130 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
38400981 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
*
38401046 TGATGAATGTGAAAGTG--TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
38401109 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*** * * * * * * * *
38401168 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38401219 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
187 141 0.34
189 24 0.06
190 246 0.60
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (189 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:38401393 original size:37 final size:37
Alignment explanation
Indices: 38401337--38401415 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38401327 CCGAGCTCTA
* *
38401337 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38401374 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38401411 AAGAC
1 AAGAC
38401416 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38403317 original size:43 final size:43
Alignment explanation
Indices: 38403269--38403371 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
38403259 TTGGTTTTCA
38403269 GCACTAAGTGTGCGGGCAATAAGTGTT-GACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCG-CGGTTGTGAGATTG
38403312 GCACTAAGTGTGCGGGCAATAAGTGTTCGCGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCGCGGTTGTGAGATTG
38403355 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38403372 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 58 0.98
44 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCGCGGTTGTGAGATTG
Found at i:38403388 original size:29 final size:29
Alignment explanation
Indices: 38403353--38403426 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38403343 GTTGTGAGAT
* *
38403353 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38403382 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38403411 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38403427 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38403860 original size:40 final size:40
Alignment explanation
Indices: 38403816--38404011 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
38403806 GAGTTACTAA
*
38403816 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
38403856 ATCCGGGCTAAGT-CCAAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
38403895 ATTCGGGCTAAGTCCCGAAAAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
38403935 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
** * * *
38403975 ATCCGTACTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
38404012 CGTGTATTCG
Statistics
Matches: 136, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 35 0.26
40 101 0.74
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:38403880 original size:80 final size:80
Alignment explanation
Indices: 38403775--38404011 Score: 298
Period size: 80 Copynumber: 3.0 Consensus size: 80
38403765 TAAGTGACCA
* * * * *
38403775 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGC
1 TATCCGGGCTAAGATCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGC
38403839 ATTCATGCTGGTGATG
65 ATTCATGCTGGTGATG
* * * * * *
38403855 TATCCGGGCTAAG-TCCAAAGAGCATTCATGCTAGCGATGTATTCGGGCTAAGTCCCGAAAAGCA
1 TATCCGGGCTAAGATCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
*
38403919 TTCATGCTAGTGATG
66 TTCATGCTGGTGATG
* ** *
38403934 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTACTAAATCCCGAAGAGCA
1 TATCCGGGCTAAGATCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
*
38403999 ATCATGCTGGTGA
66 TTCATGCTGGTGA
38404012 CGTGTATTCG
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 56 0.42
80 76 0.58
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGATCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
TTCATGCTGGTGATG
Found at i:38406557 original size:27 final size:27
Alignment explanation
Indices: 38406498--38406649 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
38406488 TAAATTGTAC
*
38406498 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
38406526 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
38406553 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
38406580 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
38406608 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
38406635 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38406650 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:38406564 original size:55 final size:55
Alignment explanation
Indices: 38406498--38406649 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
38406488 TAAATTGTAC
38406498 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
38406553 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
38406608 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
38406650 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:38406612 original size:82 final size:82
Alignment explanation
Indices: 38406498--38406649 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
38406488 TAAATTGTAC
* *
38406498 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
38406563 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
38406580 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
38406645 GTGCG
66 GTGCG
38406650 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:38411073 original size:47 final size:47
Alignment explanation
Indices: 38411007--38411576 Score: 960
Period size: 47 Copynumber: 12.1 Consensus size: 47
38410997 GAAATGATAG
38411007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38411054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38411103 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38411150 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38411197 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38411244 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38411291 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38411338 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38411385 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38411432 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38411479 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
38411526 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38411573 TAAG
1 TAAG
38411577 TCCCGAAGGG
Statistics
Matches: 500, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 453 0.91
49 47 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38411751 original size:37 final size:37
Alignment explanation
Indices: 38411695--38411773 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38411685 CCGAGCTCTA
* *
38411695 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38411732 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38411769 AAGAC
1 AAGAC
38411774 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38417678 original size:26 final size:27
Alignment explanation
Indices: 38417626--38417678 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
38417616 TTGAATTTTT
* *
38417626 TAAAGGTTATAAATGTAATTAAGTAAA
1 TAAAGGTTATAAATGTAATAAAATAAA
38417653 TAAAGGTTA-AAAT-TAAATAAAATAAA
1 TAAAGGTTATAAATGT-AATAAAATAAA
38417679 AACTTACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.04
26 13 0.57
27 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAGGTTATAAATGTAATAAAATAAA
Found at i:38418006 original size:30 final size:31
Alignment explanation
Indices: 38417972--38418032 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
38417962 TGAAATTATC
38417972 ATTTAGGGAT-TAAATTGAAAAATAA-GAAAT
1 ATTTAGGG-TGTAAATTGAAAAATAATGAAAT
* **
38418002 ATTTATGGTGTAAATTGTGAAATAATGAAAT
1 ATTTAGGGTGTAAATTGAAAAATAATGAAAT
38418033 GTGTGGGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 20 0.77
31 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (31 bp):
ATTTAGGGTGTAAATTGAAAAATAATGAAAT
Found at i:38418424 original size:30 final size:30
Alignment explanation
Indices: 38418383--38418637 Score: 146
Period size: 30 Copynumber: 8.4 Consensus size: 30
38418373 ACCATCGATC
* * *
38418383 TATGAAAAGGGATAGCTCTGGCTATTACAT
1 TATGAAAAGGGATAGCTCTAGCTATCAAAT
* * *
38418413 TATGGAAAGGGATAG-TGACAAG-AATCAAAAT
1 TATGAAAAGGGATAGCT--CTAGCTATC-AAAT
* *
38418444 TATGAAAAGGGATAGCTTTAGCTATCAAAC
1 TATGAAAAGGGATAGCTCTAGCTATCAAAT
* *
38418474 TATGGAAAGGGATAGCTCTGGCTATCAAAT
1 TATGAAAAGGGATAGCTCTAGCTATCAAAT
* * * * *
38418504 TATGAAAATGGATGGCTACGA-CTATTAAAC
1 TATGAAAAGGGATAGCT-CTAGCTATCAAAT
* * * * *
38418534 AATGAAAAGGGAT-GGT-GACGACCATCAAAAC
1 TATGAAAAGGGATAGCTCTA-G-CTATC-AAAT
*
38418565 TATGAAAAGGGATAGCT-TCAGCTATCGAAT
1 TATGAAAAGGGATAGCTCT-AGCTATCAAAT
*** *
38418595 CCCGAAAAGGGATAGCT-TCGGCTATCAAAT
1 TATGAAAAGGGATAGCTCT-AGCTATCAAAT
*
38418625 TATGCAAAGGGAT
1 TATGAAAAGGGAT
38418638 GGTATCAACC
Statistics
Matches: 171, Mismatches: 42, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.01
29 3 0.02
30 118 0.69
31 43 0.25
32 4 0.02
33 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTCTAGCTATCAAAT
Found at i:38418602 original size:91 final size:91
Alignment explanation
Indices: 38418470--38418640 Score: 200
Period size: 91 Copynumber: 1.9 Consensus size: 91
38418460 TTTAGCTATC
* * * * * * *
38418470 AAACTATGGAAAGGGATAGCTCTGGCTATCAAATTATGAAAATGGATGGCTACGACTATTAAACA
1 AAACTATGAAAAGGGATAGCTCTAGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAACA
38418535 ATGAAAAGGGATGGTGACGACCATCA
66 ATGAAAAGGGATGGTGACGACCATCA
* * * * *
38418561 AAACTATGAAAAGGGATAGCT-TCAGCTATCGAATCCCGAAAAGGGATAGCTTCGGCTATCAAAT
1 AAACTATGAAAAGGGATAGCTCT-AGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAAC
* *
38418625 TATGCAAAGGGATGGT
65 AATGAAAAGGGATGGT
38418641 ATCAACCATC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
90 1 0.02
91 64 0.98
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (91 bp):
AAACTATGAAAAGGGATAGCTCTAGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAACA
ATGAAAAGGGATGGTGACGACCATCA
Found at i:38418604 original size:121 final size:121
Alignment explanation
Indices: 38418383--38418639 Score: 304
Period size: 121 Copynumber: 2.1 Consensus size: 121
38418373 ACCATCGATC
* * * ** * * *
38418383 TATGAAAAGGGATAGCT-CTGGCTATTACATTATGGAAAGGGATAGTGACAAGAATCAAAATTAT
1 TATGAAAAGGGATGGCTAC-GACTATTAAACAATGAAAAGGGATAGTGACAACAATCAAAACTAT
* * *
38418447 GAAAAGGGATAGCTTTAGCTATCAAACTATGGAAAGGGATAGC-TCTGGCTATCAAAT
65 GAAAAGGGATAGCTTCAGCTATCAAACTACGAAAAGGGATAGCTTC-GGCTATCAAAT
* * * *
38418504 TATGAAAATGGATGGCTACGACTATTAAACAATGAAAAGGGATGGTGACGACCATCAAAACTATG
1 TATGAAAAGGGATGGCTACGACTATTAAACAATGAAAAGGGATAGTGACAACAATCAAAACTATG
* *
38418569 AAAAGGGATAGCTTCAGCTATCGAA-TCCCGAAAAGGGATAGCTTCGGCTATCAAAT
66 AAAAGGGATAGCTTCAGCTATCAAACT-ACGAAAAGGGATAGCTTCGGCTATCAAAT
*
38418625 TATGCAAAGGGATGG
1 TATGAAAAGGGATGG
38418640 TATCAACCAT
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
120 1 0.01
121 110 0.96
122 3 0.03
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (121 bp):
TATGAAAAGGGATGGCTACGACTATTAAACAATGAAAAGGGATAGTGACAACAATCAAAACTATG
AAAAGGGATAGCTTCAGCTATCAAACTACGAAAAGGGATAGCTTCGGCTATCAAAT
Found at i:38441736 original size:11 final size:11
Alignment explanation
Indices: 38441720--38441745 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38441710 TAGAAAATCT
38441720 AAAAATACAAA
1 AAAAATACAAA
38441731 AAAAATACAAA
1 AAAAATACAAA
38441742 AAAA
1 AAAA
38441746 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:38445320 original size:22 final size:22
Alignment explanation
Indices: 38445295--38445353 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
38445285 GATAGGTGGT
*
38445295 GGTGGCATGGTGGTGGTGCGAC
1 GGTGGTATGGTGGTGGTGCGAC
* ** *
38445317 GGTGGTATGGTGGTTGTGTTAT
1 GGTGGTATGGTGGTGGTGCGAC
38445339 GGTGGTATGGTGGTG
1 GGTGGTATGGTGGTG
38445354 TCAAGGAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.08, C:0.05, G:0.53, T:0.34
Consensus pattern (22 bp):
GGTGGTATGGTGGTGGTGCGAC
Found at i:38455171 original size:54 final size:53
Alignment explanation
Indices: 38455113--38455284 Score: 184
Period size: 54 Copynumber: 3.2 Consensus size: 53
38455103 ACCCCCGTAA
* *
38455113 GGTAAAATGATTGAAAAACCTCTATTGGGTAAAATGATCGTAATGCCCCTATAG
1 GGTAAAATGATCGAAAAACC-CTATAGGGTAAAATGATCGTAATGCCCCTATAG
* * **
38455167 GGTAAAATAATCAAAAAACCCTCATAGGGTAAAATGATCGTAATGCCCCTGCAG
1 GGTAAAATGATCGAAAAACCCT-ATAGGGTAAAATGATCGTAATGCCCCTATAG
* * * * * * *
38455221 GGTAAAATGATCGTAATACCCCCATAGGTTTAAAA-GATCGAAATACCCCTATAA
1 GGTAAAATGATCG-AAAAACCCTATAGG-GTAAAATGATCGTAATGCCCCTATAG
38455275 GGTAAAATGA
1 GGTAAAATGA
38455285 CCATAATGCC
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.02
54 85 0.87
55 11 0.11
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (53 bp):
GGTAAAATGATCGAAAAACCCTATAGGGTAAAATGATCGTAATGCCCCTATAG
Found at i:38455226 original size:81 final size:81
Alignment explanation
Indices: 38455139--38455307 Score: 209
Period size: 81 Copynumber: 2.1 Consensus size: 81
38455129 AACCTCTATT
* * *
38455139 GGGTAAAATGATCGTAATGCCCCTATAGG-GTAAAATAATCAAAAAA-CCCTCATAGGGTAAAAT
1 GGGTAAAATGATCGTAATACCCCCATAGGTGTAAAA-AATCAAAAAACCCCT-ATAAGGTAAAAT
* *
38455202 GATCGTAATGCCCCT-GCA
64 GACCATAATGCCCCTAG-A
* * * *
38455220 GGGTAAAATGATCGTAATACCCCCATAGGTTTAAAAGATCGAAATACCCCTATAAGGTAAAATGA
1 GGGTAAAATGATCGTAATACCCCCATAGGTGTAAAAAATCAAAAAACCCCTATAAGGTAAAATGA
38455285 CCATAATGCCCCTAGA
66 CCATAATGCCCCTAGA
38455301 GGGTAAA
1 GGGTAAA
38455308 TGACTATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
81 66 0.87
82 10 0.13
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (81 bp):
GGGTAAAATGATCGTAATACCCCCATAGGTGTAAAAAATCAAAAAACCCCTATAAGGTAAAATGA
CCATAATGCCCCTAGA
Found at i:38455297 original size:27 final size:27
Alignment explanation
Indices: 38455088--38455307 Score: 153
Period size: 27 Copynumber: 8.1 Consensus size: 27
38455078 CCAATATTTT
** *
38455088 TAAAATGAAT-ATAATACCCCCGTAAGG
1 TAAAATG-ATCATAATACCCCTATAGGG
* * * *
38455115 TAAAATGATTGA-AAAACCTCTATTGGG
1 TAAAATGA-TCATAATACCCCTATAGGG
* *
38455142 TAAAATGATCGTAATGCCCCTATAGGG
1 TAAAATGATCATAATACCCCTATAGGG
* * *
38455169 TAAAATAATCA-AAAAACCCTCATAGGG
1 TAAAATGATCATAATACCCCT-ATAGGG
* * **
38455196 TAAAATGATCGTAATGCCCCTGCAGGG
1 TAAAATGATCATAATACCCCTATAGGG
* * *
38455223 TAAAATGATCGTAATACCCCCATAGGTT
1 TAAAATGATCATAATACCCCTATAGG-G
*
38455251 TAAAA-GATCGA-AATACCCCTATAAGG
1 TAAAATGATC-ATAATACCCCTATAGGG
* * *
38455277 TAAAATGACCATAATGCCCCTAGAGGG
1 TAAAATGATCATAATACCCCTATAGGG
38455304 TAAA
1 TAAA
38455308 TGACTATTTT
Statistics
Matches: 147, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
26 14 0.10
27 121 0.82
28 12 0.08
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAAATGATCATAATACCCCTATAGGG
Found at i:38455362 original size:50 final size:48
Alignment explanation
Indices: 38455303--38455400 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
38455293 CCCCTAGAGG
38455303 GTAAATGACTATTTTGCCCCTCGAGTGTAAACGATTGATTTGTCTGTGAT
1 GTAAATGACTATTTTG-CCCTCGA-TGTAAACGATTGATTTGTCTGTGAT
* * * * * *
38455353 GTAAATGACTGTTTTGTCTTTGATTTAAATGATTGATTTGTCTGTGAT
1 GTAAATGACTATTTTGCCCTCGATGTAAACGATTGATTTGTCTGTGAT
38455401 TGGTATGACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 23 0.55
49 4 0.10
50 15 0.36
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (48 bp):
GTAAATGACTATTTTGCCCTCGATGTAAACGATTGATTTGTCTGTGAT
Found at i:38455368 original size:24 final size:24
Alignment explanation
Indices: 38455328--38455438 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
38455318 GCCCCTCGAG
* *
38455328 TGTAAACGATTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
* *
38455352 TGTAAATGACTGTTTTGTCTTTGA
1 TGTAAATGACTGATTTGTCTGTGA
* *
38455376 TTTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
*
38455400 TTGGT--ATGACTGATTTGTTTGTGA
1 -T-GTAAATGACTGATTTGTCTGTGA
* **
38455424 TTTGTATGACTGATT
1 TGTAAATGACTGATT
38455439 CTAAGGAAGG
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 67 0.94
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:38455409 original size:48 final size:47
Alignment explanation
Indices: 38455330--38455426 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 47
38455320 CCCTCGAGTG
*
38455330 TAAACGATTGATTTGTCTGTGATGTAAATGACTGTTTTGTCTT-TGATT
1 TAAACGATTGATTTGTCTGTGATGT-AATGACTGATTTGT-TTGTGATT
*
38455378 TAAATGATTGATTTGTCTGTGATTGGT-ATGACTGATTTGTTTGTGATT
1 TAAACGATTGATTTGTCTGTGA-T-GTAATGACTGATTTGTTTGTGATT
38455426 T
1 T
38455427 GTATGACTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
47 2 0.05
48 39 0.89
49 1 0.02
50 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (47 bp):
TAAACGATTGATTTGTCTGTGATGTAATGACTGATTTGTTTGTGATT
Found at i:38455438 original size:48 final size:47
Alignment explanation
Indices: 38455338--38455438 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
38455328 TGTAAACGAT
* *
38455338 TGATTTGTCTGTGATGTAAATGACTGTTTTGTCTTTGATTTAAATGAT
1 TGATTTGTCTGTGATGT-AATGACTGATTTGTCTTTGATTTAAATGAC
**
38455386 TGATTTGTCTGTGATTGGT-ATGACTGATTTGT-TTGTGATTTGTATGAC
1 TGATTTGTCTGTGA-T-GTAATGACTGATTTGTCTT-TGATTTAAATGAC
38455434 TGATT
1 TGATT
38455439 CTAAGGAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 2 0.04
48 41 0.89
49 1 0.02
50 2 0.04
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.50
Consensus pattern (47 bp):
TGATTTGTCTGTGATGTAATGACTGATTTGTCTTTGATTTAAATGAC
Found at i:38455651 original size:32 final size:32
Alignment explanation
Indices: 38455613--38455735 Score: 140
Period size: 32 Copynumber: 3.8 Consensus size: 32
38455603 GCAATGATAT
*
38455613 TGATGGCTTTGTGCTAATCATATTACTGTTAT
1 TGATGGCTTTGTGCTAATCATATTACTGTTAC
** * *
38455645 TGATGGCTTTGTGCCGATCATAATACCGTTAC
1 TGATGGCTTTGTGCTAATCATATTACTGTTAC
** * *
38455677 TGATGG-TTGTGTGCTGGTCATATCACTGCTAC
1 TGATGGCTT-TGTGCTAATCATATTACTGTTAC
*
38455709 TGGTGGCTTTGTGCTAATCATATTACT
1 TGATGGCTTTGTGCTAATCATATTACT
38455736 ATACTTTTAG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.03
32 70 0.95
33 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.41
Consensus pattern (32 bp):
TGATGGCTTTGTGCTAATCATATTACTGTTAC
Found at i:38457851 original size:110 final size:111
Alignment explanation
Indices: 38457658--38457879 Score: 401
Period size: 110 Copynumber: 2.0 Consensus size: 111
38457648 TTGTGGAAAC
*
38457658 TCCACAAATCATGTGAGCAACATTGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
1 TCCACAAATCATGTGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
* *
38457723 CATTTCACAGCTTGTGTGAGCAATAATATGAAGGAAAGGTTA-AAT
66 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
*
38457768 TCCACAACTCATGTGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
1 TCCACAAATCATGTGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
38457833 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
66 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
38457879 T
1 T
38457880 ATATGTTTAA
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
110 103 0.96
111 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (111 bp):
TCCACAAATCATGTGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
Found at i:38461291 original size:50 final size:50
Alignment explanation
Indices: 38461230--38461468 Score: 217
Period size: 50 Copynumber: 4.6 Consensus size: 50
38461220 TACTACTAAC
* * * ** *
38461230 GCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
*** * * * *
38461280 GCCATGTCCCAGACATGGTCTTATGGGGGACTTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* * **
38461330 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGTTAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* *
38461380 GCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATAATCTCAATAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC------GGTGCCAAT
*
38461439 TCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
38461469 TCTAATTCCC
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
50 117 0.76
53 2 0.01
59 35 0.23
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
Found at i:38461410 original size:100 final size:100
Alignment explanation
Indices: 38461227--38461410 Score: 242
Period size: 100 Copynumber: 1.8 Consensus size: 100
38461217 CTATACTACT
* ** * *
38461227 AACGCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAG
1 AACGCCATATCCCAGACATGGTATTACATGGGACCTCTCATATCGATGCCAATGCCATGTCCCAG
**
38461292 ACATGGTCTTATGGGGGACTTCTTATCTCGGTGCC
66 ACATGGTCTTACAGGGGACTTCTTATCTCGGTGCC
* * * **
38461327 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGTTAATGCCATGTCCCAG
1 AACGCCATATCCCAGACATGGTATTACATGGGACCTCTCATATCGATGCCAATGCCATGTCCCAG
* *
38461392 ACATTGTCTTACATGGGAC
66 ACATGGTCTTACAGGGGAC
38461411 CTCTCATAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (100 bp):
AACGCCATATCCCAGACATGGTATTACATGGGACCTCTCATATCGATGCCAATGCCATGTCCCAG
ACATGGTCTTACAGGGGACTTCTTATCTCGGTGCC
Found at i:38461844 original size:30 final size:30
Alignment explanation
Indices: 38461810--38461873 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
38461800 CCTTGACTCG
* *
38461810 AACTTTGGGAAAATTACAATTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCCAA
* * *
38461840 AACTTTTGCATAATTACACTTTTGCCCCAA
1 AACTTTGGCAAAATTACAATTTTGCCCCAA
38461870 AACT
1 AACT
38461874 CAGAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTGCCCCAA
Found at i:38464348 original size:37 final size:36
Alignment explanation
Indices: 38464282--38464395 Score: 104
Period size: 37 Copynumber: 3.1 Consensus size: 36
38464272 GAGTACACAA
*
38464282 CTAATCCAACCGAAACACGCCAAACGCTCATAAGAG
1 CTAATCCAACCAAAACACGCCAAACGCTCATAAGAG
** *
38464318 CTAATCCAACCAATAACACGCTGAATGCTCATAAGAG
1 CTAATCCAACCAA-AACACGCCAAACGCTCATAAGAG
* * ** * *
38464355 CAAACCCAACTGTAAACATGCCAAATG-TGCATAAGAG
1 CTAATCCAAC-CAAAACACGCCAAACGCT-CATAAGAG
38464392 CTAA
1 CTAA
38464396 GCATTTGCCC
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
36 13 0.21
37 49 0.78
38 1 0.02
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (36 bp):
CTAATCCAACCAAAACACGCCAAACGCTCATAAGAG
Found at i:38476858 original size:26 final size:26
Alignment explanation
Indices: 38476822--38476898 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
38476812 ACCAACACAC
38476822 CAATATCGCAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* * * **
38476848 TAGTATTGCAGCAAAGCTGGTAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
*
38476874 CAATATCACAGCAAAGCTGCCAGTA
1 CAATATCGCAGCAAAGCTGCCAGTA
38476899 CAGTGTACTT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:38503269 original size:50 final size:50
Alignment explanation
Indices: 38503163--38503384 Score: 309
Period size: 50 Copynumber: 4.3 Consensus size: 50
38503153 GGGAATGAGA
*
38503163 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATGAGAGG
*
38503219 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
*
38503269 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
** * * **
38503319 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
38503369 TCCCATGTAAGACCAT
1 TCCCATGTAAGACCAT
38503385 ATCTAGGATA
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
50 113 0.74
53 2 0.01
54 1 0.01
55 1 0.01
56 36 0.24
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
Found at i:38509559 original size:50 final size:50
Alignment explanation
Indices: 38509492--38509727 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
38509482 GGGAATGAGA
* * *
38509492 TCCCATGTAACACCATGTCTGGGACATGGAATTTGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
38509542 TCCCATTTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * * **
38509592 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
38509642 TCCCATGTAAGACCATATCTAGGATATGGCATT--CACAGTACGA-GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A-GATGAGAGG
* * *
38509691 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38509728 TGTTGTATTC
Statistics
Matches: 147, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
48 3 0.02
49 31 0.21
50 111 0.76
51 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:38509957 original size:16 final size:17
Alignment explanation
Indices: 38509906--38509963 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 17
38509896 GCAACGAAGG
* *
38509906 AGTAAGTTAAGCAAGCA
1 AGTAAGTAAAGCAAGAA
*
38509923 AGTAAGTAAACGAGTAAGAA
1 AGTAAGT-AA--AGCAAGAA
38509943 AGTAAGTAAAG-AAGAA
1 AGTAAGTAAAGCAAGAA
38509959 AGTAA
1 AGTAA
38509964 AGATCTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 10 0.29
17 9 0.26
18 1 0.03
19 2 0.06
20 13 0.37
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (17 bp):
AGTAAGTAAAGCAAGAA
Found at i:38516350 original size:22 final size:22
Alignment explanation
Indices: 38516275--38516351 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
38516265 TGGACAAGCC
*
38516275 ACCAATGATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
* * * *
38516297 ACCACTGATAACACTTTGTAGACAAGCC
1 ACCACTG-----A-TTTGCAGATAAACT
38516325 ACCACTGATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
38516347 ACCAC
1 ACCAC
38516352 ATACTTCCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
22 21 0.52
23 1 0.03
27 1 0.03
28 17 0.43
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (22 bp):
ACCACTGATTTGCAGATAAACT
Found at i:38523639 original size:22 final size:22
Alignment explanation
Indices: 38523591--38523641 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
38523581 AGAGCCAAAC
* *
38523591 AAGCATAAACAAAAAAAATAGC
1 AAGCAAAAACAAAAAAAATAGA
*
38523613 AAGCAAAAACAACAAAAA-AGA
1 AAGCAAAAACAAAAAAAATAGA
38523634 ATAGCAAA
1 A-AGCAAA
38523642 GAAGAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.71, C:0.14, G:0.10, T:0.06
Consensus pattern (22 bp):
AAGCAAAAACAAAAAAAATAGA
Found at i:38523812 original size:26 final size:23
Alignment explanation
Indices: 38523765--38523811 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
38523755 CAAAGGAGAA
38523765 ATAGAAAAAGGAAAGAAAAAAAT
1 ATAGAAAAAGGAAAGAAAAAAAT
38523788 ATAGAAGAAAGGGAAAGAAAAAAA
1 ATAGAA-AAA-GGAAAGAAAAAAA
38523812 AGAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
ATAGAAAAAGGAAAGAAAAAAAT
Found at i:38523818 original size:25 final size:23
Alignment explanation
Indices: 38523767--38523821 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
38523757 AAGGAGAAAT
*
38523767 AGAAAAAGGAAAGAAAAAAATAT
1 AGAAAAAGGAAAGAAAAAAATAA
38523790 AGAAGAAAGGGAAAGAAAAAAA-AGA
1 AGAA-AAA-GGAAAGAAAAAAATA-A
38523815 AGAAAAA
1 AGAAAAA
38523822 AATGAACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 7 0.25
25 17 0.61
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (23 bp):
AGAAAAAGGAAAGAAAAAAATAA
Found at i:38524165 original size:17 final size:18
Alignment explanation
Indices: 38524145--38524188 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
38524135 GAAAGGAACG
*
38524145 GAGAAGAAG-AAGAAAAA
1 GAGAAAAAGAAAGAAAAA
38524162 GAGAAAAAGAAAGAAAAA
1 GAGAAAAAGAAAGAAAAA
38524180 GAGGAAAAA
1 GA-GAAAAA
38524189 TAATATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
GAGAAAAAGAAAGAAAAA
Found at i:38524172 original size:23 final size:23
Alignment explanation
Indices: 38524122--38524181 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
38524112 TTTCGGCCCG
* *
38524122 AAGAAGAAGAAGAGAAAGGAACG
1 AAGAAGAAGAAGAAAAAGGAACA
*
38524145 GAGAAGAAGAAGAAAAAGAGAA-A
1 AAGAAGAAGAAGAAAAAG-GAACA
*
38524168 AAGAAAGAAAAAGA
1 AAG-AAGAAGAAGA
38524182 GGAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (23 bp):
AAGAAGAAGAAGAAAAAGGAACA
Found at i:38526164 original size:12 final size:12
Alignment explanation
Indices: 38526147--38526178 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
38526137 TAGGAAGGTG
38526147 TTATTAGGCATT
1 TTATTAGGCATT
*
38526159 TTATTAGACATT
1 TTATTAGGCATT
38526171 TTATTAGG
1 TTATTAGG
38526179 AAGGTGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (12 bp):
TTATTAGGCATT
Found at i:38533268 original size:75 final size:74
Alignment explanation
Indices: 38533166--38533701 Score: 533
Period size: 75 Copynumber: 7.0 Consensus size: 74
38533156 AGTTTTTTTT
* * *
38533166 AAATCAACTCATAATGCGATAGGTGAGTTGAGCCACGGATCACACACCGAGGTATTTTCAATTTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
38533231 TGTTTTTCAA
66 T-TTTTTCAA
* * * *
38533241 AAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGA-CATATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTA-TTTTCAATTT
** *
38533305 CATTTTAAAAAATAATA
65 --TTTT----TTTCA-A
*
38533322 ATAATCAACTCATAATGCGAGAGGTGAGTAGAGCCTCAGG--CACACGCCGAGGTATTTTTCAAT
1 A-AATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAGGTA-TTTTCAA-
38533385 TTCTGTTTTTTTCAA
62 TT-T-TTTTTTTCAA
* * * * *
38533400 AAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACACTGAGGTATTTTCAATTTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
38533465 TATTTTTCAA
66 T-TTTTTCAA
* * * *
38533475 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGA-CCCATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTA-TTTTCAATTT
***
38533539 CATTTTTAAAAA
65 --TTTTTTTCAA
* * * *
38533551 AAATCAACTCATAATGCGAGTGGTGAGTTGAGCCTCAGG-TCGCACGCTGAGGTATTTCCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAGGTATTTTCAATTT
*
38533615 ATGTTTTTCAA
65 -TTTTTTTCAA
* * * **
38533626 AAATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTCAATTTC
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTT-
*
38533691 TATTTTTCAA
65 TTTTTTTCAA
38533701 A
1 A
38533702 TAAATAATAA
Statistics
Matches: 386, Mismatches: 54, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
74 25 0.06
75 171 0.44
76 54 0.14
77 56 0.15
78 13 0.03
79 2 0.01
80 2 0.01
81 2 0.01
82 52 0.13
83 8 0.02
84 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (74 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
TTTTTTCAA
Found at i:38533604 original size:151 final size:149
Alignment explanation
Indices: 38533166--38533701 Score: 569
Period size: 151 Copynumber: 3.5 Consensus size: 149
38533156 AGTTTTTTTT
* * * * *
38533166 AAATCAACTCATAATGCGATAGGTGAGTTGAGCCACGGATCACACACCGAGGTA-TTTTCAATTT
1 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGA-CACACGCCGAGGTATTTTTCAATTT
* * * ** * *
38533230 -TTGTTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGACATATGCCGAGGTA
65 CTT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCGCACGCTGAGGTA
* *
38533294 TTTTTCAA-TTTCATTTTAAAAAATAATA
129 -TTTTCAATTTTTATTTT------TCA-A
* * *
38533322 ATAATCAACTCATAATGCGAGAGGTGAGTAGAGCCTCAGGCACACGCCGAGGTATTTTTCAATTT
1 A-AATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGACACACGCCGAGGTATTTTTCAATTT
* *
38533387 CTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACACTGAGG
65 C--TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCGCACGCTGAGG
38533452 TATTTTCAATTTTTATTTTTCAA
127 TATTTTCAATTTTTATTTTTCAA
* *
38533475 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGACCCATGCCGAGGTATTTTTCAATTTC
1 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGACACACGCCGAGGTATTTTTCAATTTC
*** *
38533540 ATTTTTAAAAAAAATCAACTCATAATGCGAGTGGTGAGTTGAGCCTCAGGTCGCACGCTGAGGTA
66 -TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCGCACGCTGAGGTA
* * *
38533605 TTTCCAATTTATGTTTTTCAA
129 TTTTCAATTTTTATTTTTCAA
* * * **
38533626 AAATCAACTCATAATCCA-AGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTA-TTTTCAATT
1 AAATCAACTCATAAT-GAGAGAGGTGAGTTGAGCCTC-AGACACACGCCGAGGTATTTTTCAATT
*
38533689 TCTATTTTTCAAA
64 TCTTTTTTTCAAA
38533702 TAAATAATAA
Statistics
Matches: 327, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
150 7 0.02
151 119 0.36
152 71 0.22
153 2 0.01
154 2 0.01
156 14 0.04
157 43 0.13
159 48 0.15
160 21 0.06
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (149 bp):
AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGACACACGCCGAGGTATTTTTCAATTTC
TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCGCACGCTGAGGTATT
TTCAATTTTTATTTTTCAA
Found at i:38534061 original size:30 final size:29
Alignment explanation
Indices: 38534027--38534097 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 29
38534017 AAAAAAAATA
*
38534027 AAATTTACATTTTGACCCTTAA-ATTTTTCT
1 AAATTTACATTTTGACCC-TAACA-TTTTAT
38534057 AAATTTACATTTTGACCCTAACATTTTAT
1 AAATTTACATTTTGACCCTAACATTTTAT
38534086 AAA-TTACATTTT
1 AAATTTACATTTT
38534098 AGCCTCTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 9 0.23
29 11 0.28
30 19 0.49
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATTTACATTTTGACCCTAACATTTTAT
Found at i:38534106 original size:29 final size:29
Alignment explanation
Indices: 38534051--38534171 Score: 83
Period size: 28 Copynumber: 4.2 Consensus size: 29
38534041 ACCCTTAAAT
*
38534051 TTTTCTAAATTTACATTTT-GACCCT-AACA
1 TTTTATAAA-TTACATTTTAG-CCCTAAACA
*
38534080 TTTTATAAATTACATTTTAGCCTCTAAACT
1 TTTTATAAATTACATTTTAGCC-CTAAACA
* **
38534110 TTTTGA-AAATT-CTATTTTAGCCCCAAATT
1 TTTT-ATAAATTAC-ATTTTAGCCCTAAACA
* *
38534139 TTTTA-AAATTGCACTTTT-GCCCTAAAAA
1 TTTTATAAATTACA-TTTTAGCCCTAAACA
38534167 TTTTA
1 TTTTA
38534172 CGTCTTCTAC
Statistics
Matches: 78, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
28 30 0.38
29 26 0.33
30 21 0.27
31 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTTATAAATTACATTTTAGCCCTAAACA
Found at i:38534656 original size:26 final size:28
Alignment explanation
Indices: 38534611--38534674 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
38534601 AAGAAAGGAG
38534611 AAAAAGA--AAAGGGAAAG-AAAAAA-A
1 AAAAAGATGAAAGGGAAAGAAAAAAAGA
* *
38534635 ATAAAGATGAAAGGGAATGAAAAAAAGA
1 AAAAAGATGAAAGGGAAAGAAAAAAAGA
38534663 AAAAAGATGAAA
1 AAAAAGATGAAA
38534675 AAAAGGAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 6 0.18
26 9 0.27
27 6 0.18
28 12 0.36
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (28 bp):
AAAAAGATGAAAGGGAAAGAAAAAAAGA
Found at i:38534890 original size:20 final size:23
Alignment explanation
Indices: 38534867--38534912 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
38534857 ATAGCAAAAC
38534867 AAGAAAGAA-AAGAA-AG-GGAG
1 AAGAAAGAAGAAGAAGAGAGGAG
*
38534887 AAGAGAGAAGAAGAAGAGAGGAG
1 AAGAAAGAAGAAGAAGAGAGGAG
38534910 AAG
1 AAG
38534913 CAGCAACGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 2 0.09
23 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (23 bp):
AAGAAAGAAGAAGAAGAGAGGAG
Found at i:38535029 original size:9 final size:8
Alignment explanation
Indices: 38535017--38535074 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
38535007 GGAGAAGAAG
38535017 AAAAAGGA
1 AAAAAGGA
38535025 GAAAAAGGAA
1 -AAAAAGG-A
*
38535035 TAAAAAAGA
1 -AAAAAGGA
38535044 AAAAAGGGAA
1 AAAAA-GG-A
38535054 AAAAAGGA
1 AAAAAGGA
38535062 AAAAGAGGA
1 AAAA-AGGA
38535071 AAAA
1 AAAA
38535075 TAATATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 10 0.24
9 19 0.45
10 13 0.31
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (8 bp):
AAAAAGGA
Found at i:38535073 original size:17 final size:17
Alignment explanation
Indices: 38535026--38535074 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
38535016 GAAAAAGGAG
*
38535026 AAAAAGGAATAAAAAAGA
1 AAAAAGGGA-AAAAAAGA
*
38535044 AAAAAGGGAAAAAAAGG
1 AAAAAGGGAAAAAAAGA
38535061 AAAAAGAGGAAAAA
1 AAAAAG-GGAAAAA
38535075 TAATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAAAGGGAAAAAAAGA
Found at i:38536573 original size:74 final size:74
Alignment explanation
Indices: 38536434--38536595 Score: 173
Period size: 74 Copynumber: 2.2 Consensus size: 74
38536424 TAATTTATCT
* * * **
38536434 GAAAACAGGCCAAATGATCATAAGAGCTCATCGACCCGATAACACGCCAATTGCTTTGAAGAGCT
1 GAAAACAGGCCAAATGATCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCGAAGAGCT
38536499 AATCCAACC
66 AATCCAACC
* * * * * *
38536508 GAAAACATGTCAAATGCTCATTAGAGCTAATCCACCCAATAACATGCTAATTGCTCCGTAA-AGC
1 GAAAACAGGCCAAATGATCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCG-AAGAGC
* *
38536572 TAGTCTAACC
65 TAATCCAACC
* *
38536582 AAAAACAGTCCAAA
1 GAAAACAGGCCAAA
38536596 ACAGGGGGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
74 68 0.97
75 2 0.03
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.20
Consensus pattern (74 bp):
GAAAACAGGCCAAATGATCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCGAAGAGCT
AATCCAACC
Found at i:38537557 original size:21 final size:22
Alignment explanation
Indices: 38537518--38537560 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
38537508 GAAGATGAAA
* *
38537518 TGTTTTATTCTTTCTTTAATTT
1 TGTTTTAATCTTTCATTAATTT
38537540 TGTTTTAAT-TTTCATTAATTT
1 TGTTTTAATCTTTCATTAATTT
38537561 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TGTTTTAATCTTTCATTAATTT
Found at i:38539266 original size:33 final size:32
Alignment explanation
Indices: 38539224--38539371 Score: 99
Period size: 33 Copynumber: 4.4 Consensus size: 32
38539214 GTGGATTCAA
38539224 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCA-TGATTCGGGGAATCAG
* * *
38539257 CACTTAGCAACCCCTTTCACATTCAAATATATGGTGGAATCAG
1 CACTTAGCAA--CC--AC-CA-T--GAT-T-CGG-GGAATCAG
38539300 CACTTAGCAACCACCAATGATTCGGGGAATCAG
1 CACTTAGCAACCACC-ATGATTCGGGGAATCAG
* *
38539333 CACTTAGCAGCC-CC----TTGGGGGAATCAG
1 CACTTAGCAACCACCATGATTCGGGGAATCAG
38539360 CACTTAGCAACC
1 CACTTAGCAACC
38539372 CCCTTCACAT
Statistics
Matches: 94, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
27 23 0.24
32 2 0.02
33 29 0.31
34 2 0.02
35 3 0.03
36 2 0.02
37 1 0.01
38 5 0.05
39 2 0.02
40 2 0.02
41 3 0.03
42 2 0.02
43 18 0.19
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (32 bp):
CACTTAGCAACCACCATGATTCGGGGAATCAG
Found at i:38539430 original size:102 final size:103
Alignment explanation
Indices: 38539247--38539578 Score: 477
Period size: 103 Copynumber: 3.2 Consensus size: 103
38539237 CCAGTGATTC
* * *
38539247 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAATATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
38539312 ACCAATGATTCGGGGAATCAGCACTTAGCAGCCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
38539350 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
38539414 AACAATGAATCGGGGAATCAGCACTTAGCAAACCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * * * * * *
38539452 GGGGAATCAACACTTAGCATCCCCCTTTATAATCAAAGATACGGTGGAATCAGCACTTAGTAAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
38539517 ACCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
38539555 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
38539579 TTTTATATTT
Statistics
Matches: 202, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
102 89 0.44
103 113 0.56
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:38539568 original size:27 final size:27
Alignment explanation
Indices: 38539529--38539580 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
38539519 CAATGAGTCA
38539529 GGGAATCAACACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
*
38539556 GGGAATCAGCACTTAGCAACCCCTT
1 GGGAATCAACACTTAGCAACCCCTT
38539581 TTATATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGAATCAACACTTAGCAACCCCTTGG
Found at i:38545380 original size:49 final size:47
Alignment explanation
Indices: 38545333--38545968 Score: 945
Period size: 47 Copynumber: 13.3 Consensus size: 47
38545323 TGTGAGTGTA
38545333 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
38545380 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545427 TATATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG
38545476 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545525 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTG
1 ----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38545576 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
38545625 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38545672 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545721 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
38545768 TATATATGTG--AAGGCCGAGTGGCCGACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545813 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545860 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
38545907 TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545954 TATAAATGTGATAAG
1 TATATATGTGATAAG
38545969 TCCCGAAGGG
Statistics
Matches: 544, Mismatches: 35, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
45 40 0.07
47 272 0.50
48 1 0.00
49 181 0.33
50 2 0.00
51 48 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38545452 original size:96 final size:94
Alignment explanation
Indices: 38545333--38545968 Score: 945
Period size: 96 Copynumber: 6.7 Consensus size: 94
38545323 TGTGAGTGTA
38545333 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
38545398 GAATGGCCAATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
38545427 TATATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 --TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA
38545491 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
61 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545525 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATATGTGAT
1 ----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
38545590 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
60 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
38545625 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
38545690 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38545721 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG--AAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
38545784 GAGTGGCCGACGTGATGGATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* *
38545813 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38545878 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
38545907 TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38545969 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 31, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
92 88 0.18
94 93 0.19
95 2 0.00
96 178 0.36
98 45 0.09
100 93 0.19
101 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38548511 original size:40 final size:40
Alignment explanation
Indices: 38548192--38548499 Score: 449
Period size: 40 Copynumber: 7.7 Consensus size: 40
38548182 AGGTCTCGAC
*
38548192 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
38548231 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38548271 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38548311 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38548351 GATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38548391 GATGTATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
38548431 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
38548471 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
38548500 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 236 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:38548814 original size:57 final size:58
Alignment explanation
Indices: 38548711--38548819 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 58
38548701 CGAATGATTA
*
38548711 GAGGCACTGTGTGTGCAAATTCTTTTAACCAAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
38548769 GAGGCACTGTGTGTGCGAGTTC-TTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCG
38548820 ATCAGTGGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 27 0.57
58 20 0.43
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:38552394 original size:49 final size:49
Alignment explanation
Indices: 38552331--38552523 Score: 241
Period size: 47 Copynumber: 3.9 Consensus size: 49
38552321 CTATATTGTA
38552331 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
38552380 TAATAGCCGATGTGATGGATGAATGTGAAAGTGTATATATATGTGATGAGGCC
1 TAATGGCCGA--TG-T-GATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
38552433 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
38552480 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
38552524 TCCCGAAGGG
Statistics
Matches: 125, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
47 47 0.38
48 1 0.01
49 27 0.22
50 1 0.01
51 4 0.03
52 1 0.01
53 44 0.35
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:38552412 original size:53 final size:51
Alignment explanation
Indices: 38552331--38552468 Score: 203
Period size: 53 Copynumber: 2.7 Consensus size: 51
38552321 CTATATTGTA
*
38552331 TAATGGCCGATG-T-GATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATAGCCGATGATGGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
38552380 TAATAGCCGATGTGATGGATGAATGTGAAAGTGTATATATATGTGATGAGGCC
1 TAATAGCCGA--TGATGGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
38552433 TAATGGCCGATG-T-GATGAATGTGAAAGTGTATATAT
1 TAATAGCCGATGATGGATGAATGTGAAAGTGTATATAT
38552469 GTGACAGGGC
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
49 32 0.39
50 1 0.01
51 4 0.05
52 1 0.01
53 44 0.54
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (51 bp):
TAATAGCCGATGATGGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:38555061 original size:40 final size:40
Alignment explanation
Indices: 38554742--38555049 Score: 458
Period size: 40 Copynumber: 7.7 Consensus size: 40
38554732 AGGTCTCGAC
*
38554742 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
38554781 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38554821 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38554861 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38554901 GATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38554941 GATGTATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
38554981 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
38555021 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
38555050 ATCATGCTGG
Statistics
Matches: 245, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 238 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:38555330 original size:58 final size:57
Alignment explanation
Indices: 38555261--38555369 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
38555251 CGAATGATTA
* *
38555261 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
38555319 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
38555370 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:38558888 original size:49 final size:49
Alignment explanation
Indices: 38558835--38559332 Score: 711
Period size: 47 Copynumber: 10.4 Consensus size: 49
38558825 TTGTGATGTG
38558835 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
38558884 AGTG--TATATATGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38558931 AGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38558980 AGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38559031 AGTGTATATATATGAGATAAGGCCTAATGG-CGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38559079 AGTG--TATATATGTGATAAGG-CGAATGGCCAAT-TGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38559124 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38559173 AGTG--TATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38559220 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
38559267 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38559314 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
38559333 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 27, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
45 23 0.06
46 18 0.04
47 195 0.47
48 34 0.08
49 93 0.23
51 48 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:38561874 original size:40 final size:40
Alignment explanation
Indices: 38561555--38561862 Score: 451
Period size: 40 Copynumber: 7.7 Consensus size: 40
38561545 AGGTCTCGAC
*
38561555 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
38561594 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38561634 GATGTA-CCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38561674 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38561714 GATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38561754 GATGTATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
38561794 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
38561834 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
38561863 ATCATGCTGG
Statistics
Matches: 244, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.03
40 233 0.95
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:38562143 original size:58 final size:57
Alignment explanation
Indices: 38562074--38562182 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
38562064 CGAATGATTA
* *
38562074 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
38562132 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
38562183 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:38565702 original size:49 final size:49
Alignment explanation
Indices: 38565649--38566149 Score: 729
Period size: 47 Copynumber: 10.4 Consensus size: 49
38565639 TTGTGATGTG
38565649 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
38565698 AGTG--TATATATGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38565745 AGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38565794 AGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38565845 AGTGTATATATATGAGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38565894 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38565941 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38565990 AGTG--TATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38566037 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
38566084 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38566131 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
38566150 TCCCGAAGGG
Statistics
Matches: 415, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 222 0.53
48 1 0.00
49 144 0.35
51 48 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:38565774 original size:96 final size:96
Alignment explanation
Indices: 38565649--38566149 Score: 785
Period size: 96 Copynumber: 5.2 Consensus size: 96
38565639 TTGTGATGTG
38565649 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
38565714 AAGGCCGAATGGCCAATCTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
*
38565745 AGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATG
* *
38565810 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
38565845 AGTGTATATATATGAGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
38565910 AAGGCCGAATGGCCAATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
*
38565941 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * **
38566006 AAGGCCTAATAGCTGATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
38566037 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * *
38566100 AGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
38566131 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
38566150 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 28, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
94 92 0.25
95 1 0.00
96 188 0.51
100 90 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:38571831 original size:103 final size:102
Alignment explanation
Indices: 38571540--38571842 Score: 410
Period size: 102 Copynumber: 3.0 Consensus size: 102
38571530 AGTGATTCGA
* * * * * *
38571540 GGAATCACCACTTAGTAAGCCCTTTCACATTCAAAGATATGGTGGAAGCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCTTT-ACATTCAAAGATACGGTGGAATCAGCACTTAGTAACCAC
* * * *
38571605 CAATGATTCAGGGAATCAGCACTTAACAGCCCCTTGGG
65 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* * * *
38571643 GGAATCAGCACTTAGCAATCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGTAACCAC
1 GGAATCAGCACTTAGCAA-CCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACCAC
*
38571707 CAATGAATCGGGGAATCAGCACTGAGCAACCCCTTGGG
65 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* *
38571745 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGAGGAATCAGCACTTAGTAACCAC
1 GGAATCAGCACTTAGCAA-CCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACCAC
*
38571810 CAATGAGTCGGGGAATCAGCACTTAGCAACCCC
65 CAATGAATCGGGGAATCAGCACTTAGCAACCCC
38571843 CTTTATATTC
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
102 88 0.51
103 81 0.47
104 5 0.03
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACCACC
AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:38576708 original size:20 final size:20
Alignment explanation
Indices: 38576683--38576721 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38576673 TACTTTCTTC
38576683 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
38576703 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
38576722 AAATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:38577047 original size:50 final size:48
Alignment explanation
Indices: 38576923--38577164 Score: 155
Period size: 50 Copynumber: 4.8 Consensus size: 48
38576913 GACAATAACA
* * *
38576923 TGCCAAAGCCATGTCCCATACATGGTCTTACATGGGATGTTCCCTGTA-C-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTT--CTATATCG
* * *
38576972 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCT-ATATC-G
* ** ** *
38577022 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCT-ATATCG
** * * * **
38577071 ATGCCAACACCATGTCCCTGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GT-TC-T-A--T--ATCG
*
38577128 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38577165 TCTCATCCCC
Statistics
Matches: 150, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 4 0.03
49 33 0.22
50 70 0.47
51 1 0.01
52 2 0.01
53 2 0.01
55 1 0.01
56 32 0.21
57 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTATATCG
Found at i:38580391 original size:41 final size:41
Alignment explanation
Indices: 38580338--38580558 Score: 372
Period size: 41 Copynumber: 5.4 Consensus size: 41
38580328 AGATTCACTA
*
38580338 GCACTTCA-CCTGCTAGGCTTATAGCCTGATTTAGTTCACCG
1 GCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* *
38580379 ACACTTAGCCTGCTGGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* *
38580420 GCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGTTCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
38580461 GCACTTAGCCTGCAAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
38580502 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
38580543 GCACTTAGCCTGCTAG
1 GCACTTAGCCTGCTAG
38580559 ACGTAAAGTC
Statistics
Matches: 168, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 1 0.01
41 167 0.99
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
Found at i:38582284 original size:28 final size:31
Alignment explanation
Indices: 38582252--38582310 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
38582242 TGTTTTGTTT
38582252 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
38582280 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
38582311 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:38582842 original size:24 final size:24
Alignment explanation
Indices: 38582814--38582860 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
38582804 GTCCATACAA
38582814 AGCTTCATAAGGGGCCATCTTCAG
1 AGCTTCATAAGGGGCCATCTTCAG
38582838 AGCTTCATAAGGGGCCATCTTCA
1 AGCTTCATAAGGGGCCATCTTCA
38582861 AACTCGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AGCTTCATAAGGGGCCATCTTCAG
Found at i:38585893 original size:13 final size:13
Alignment explanation
Indices: 38585875--38585925 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
38585865 AGTTCTTCAT
*
38585875 TGCTTTTGAGAAG
1 TGCTTTTCAGAAG
38585888 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
38585901 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
*
38585914 TGCTTTTGAGAA
1 TGCTTTTCAGAA
38585926 ATTTAAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTCAGAAG
Found at i:38586538 original size:22 final size:21
Alignment explanation
Indices: 38586513--38586556 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
38586503 AAGTATATGA
*
38586513 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
38586535 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
38586556 A
1 A
38586557 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:38590344 original size:28 final size:28
Alignment explanation
Indices: 38590312--38590369 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
38590302 AGCAGTATAG
38590312 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* * * *
38590340 TGTGGGCCTTGGCCCATTACATTATCAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
38590368 TG
1 TG
38590370 CAGTGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:38590489 original size:58 final size:57
Alignment explanation
Indices: 38590397--38590525 Score: 249
Period size: 58 Copynumber: 2.2 Consensus size: 57
38590387 CCATCCCAAT
38590397 CCAGCCAACACACCACTCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAGCCAACACACCACTCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
38590454 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAGCCAACACACCACT-CGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
38590512 CCAGCCAACACACC
1 CCAGCCAACACACC
38590526 TATATCGCAG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
57 17 0.24
58 54 0.76
ACGTcount: A:0.35, C:0.43, G:0.13, T:0.09
Consensus pattern (57 bp):
CCAGCCAACACACCACTCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
Found at i:38590793 original size:27 final size:26
Alignment explanation
Indices: 38590763--38590929 Score: 140
Period size: 27 Copynumber: 6.2 Consensus size: 26
38590753 ATAGTCATTC
*
38590763 TACCCTAAAGGGGTATTTCAGTTATTG
1 TACCCTAAAGGGGTATTTC-GTTATTT
**
38590790 TACCCTATGGGGGTATTTCGGTTATTT
1 TACCCTAAAGGGGTATTTC-GTTATTT
* *
38590817 TACCCT-ATGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
38590843 TACCCTATAA-GGGTATTTCGTTCATTT
1 TACCCTA-AAGGGGTATTTCGTT-ATTT
* ** *
38590870 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
* ** *
38590897 TATCCTATGGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
38590924 TACCCT
1 TACCCT
38590930 CTTGAAAGAT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 22 0.19
27 93 0.79
28 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
TACCCTAAAGGGGTATTTCGTTATTT
Found at i:38590879 original size:80 final size:81
Alignment explanation
Indices: 38590757--38590929 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 81
38590747 GGTACTATAG
* * *
38590757 TCATTCTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGGTTATTTTACCC
1 TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
38590822 TAT-GGGGTATTTCGA
66 TATGGGGGTATTTCGA
* * *
38590837 TCATTTTACCCTATAA-GGGTATTTC-GTTCATTTTACCTTATGGGGGTATTTCGATCATTTTAT
1 TCATTTTACCCTA-AAGGGGTATTTCAGTT-ATTGTACCCTATGGGGGTATTTCGATCATTTTAC
38590900 CCTATGGGGGTATTTCGA
64 CCTATGGGGGTATTTCGA
38590918 TCATTTTACCCT
1 TCATTTTACCCT
38590930 CTTGAAAGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
79 3 0.04
80 55 0.65
81 26 0.31
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCGA
Found at i:38590904 original size:54 final size:53
Alignment explanation
Indices: 38590757--38590929 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 53
38590747 GGTACTATAG
* * * * **
38590757 TCATTCTACCCTAAAGGGGTATTTC-AGTTATTGTACCCTATGGGGGTATTTCGGT
1 TCATTTTACCCT-ATGGGGTATTTCGA-TCATTTTACCCTATAAGGGTATTTC-GT
38590812 T-ATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
1 TCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
* * ** *
38590864 TCATTTTACCTTATGGGGGTATTTCGATCATTTTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
38590918 TCATTTTACCCT
1 TCATTTTACCCT
38590930 CTTGAAAGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.03
53 43 0.42
54 56 0.54
55 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
Found at i:38595795 original size:50 final size:50
Alignment explanation
Indices: 38595671--38595912 Score: 164
Period size: 50 Copynumber: 4.7 Consensus size: 50
38595661 GATAATAACA
* * * * * *
38595671 TGCCAAAGTCATGTCCCAGACATGGTTTTACATGGGATGTT-TCCTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGG
* * * *
38595720 TACCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
* ** ** * * *
38595770 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
* * * * ** **
38595820 TGCCAACGCCATGTCCCTGACATGGTCTTACGTGGAACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GG
*
38595876 TGCCAATGCCATGTCGCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38595913 TCTCATCCCC
Statistics
Matches: 148, Mismatches: 37, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
48 3 0.02
49 35 0.24
50 77 0.52
53 1 0.01
56 32 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
Found at i:38601656 original size:43 final size:42
Alignment explanation
Indices: 38601550--38601675 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 42
38601540 GGTGTGATTT
* * *
38601550 CATGTAAGATCATGTCTAGGACATTGGCATCGATATGAGACT-A
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGTGA-TAA
* * *
38601593 CGTGTAAGACCTTGTGTGGGACAGTGGCATCGATATGTGATAA
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGTGATAA
* * *
38601636 CATGTAAGACCATATCTGGGATATGGCATTG-TATGTGATA
1 CATGTAAGACCATGTCTGGGACATGGCATCGATATGTGATA
38601676 TATGTGTTTC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 9 0.13
42 8 0.12
43 52 0.75
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGATATGTGATAA
Found at i:38605184 original size:25 final size:26
Alignment explanation
Indices: 38605150--38605210 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
38605140 GATGAATGTT
* * * *
38605150 AAAATTAAATTAAA-AAACTAATATG
1 AAAATGAAATAAAATAAAATAAAATG
38605175 AAAATGAAATAAAATAAAATAAAATG
1 AAAATGAAATAAAATAAAATAAAATG
38605201 -AAATGAAATA
1 AAAATGAAATA
38605211 GTTTTGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.23
Consensus pattern (26 bp):
AAAATGAAATAAAATAAAATAAAATG
Found at i:38607182 original size:15 final size:15
Alignment explanation
Indices: 38607162--38607191 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38607152 TATGACAAAA
38607162 TTGCTAAAGTGTTTT
1 TTGCTAAAGTGTTTT
38607177 TTGCTAAAGTGTTTT
1 TTGCTAAAGTGTTTT
38607192 GGCATGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (15 bp):
TTGCTAAAGTGTTTT
Found at i:38609679 original size:21 final size:21
Alignment explanation
Indices: 38609659--38609705 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
38609649 AACACGATTA
38609659 AATATATT-TTGAATTATATT
1 AATATATTATTGAATTATATT
* *
38609679 ATTATATTATTGTATTATA--
1 AATATATTATTGAATTATATT
38609698 AATATATT
1 AATATATT
38609706 TAACATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
AATATATTATTGAATTATATT
Found at i:38626125 original size:27 final size:26
Alignment explanation
Indices: 38626095--38626238 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 26
38626085 TACACTGTTT
* *
38626095 TGACTAAAATACCTCCATAGGGTGAAA
1 TGACTGAAATACC-CCATAGGGTAAAA
* *
38626122 TGACCGAAATACCCCCATAGGGTAGAA
1 TGACTGAAATA-CCCCATAGGGTAAAA
*
38626149 TGACCGAAATACCCTCATAGGGTAAAA
1 TGACTGAAATACCC-CATAGGGTAAAA
38626176 TGA-TCGAAATACCCCCATAGGGTAAAA
1 TGACT-GAAATA-CCCCATAGGGTAAAA
*
38626203 TGATTGAAATACCCTCATAGGGTAAAA
1 TGACTGAAATACCC-CATAGGGTAAAA
38626230 TGACTGAAA
1 TGACTGAAA
38626239 AATGATTGAA
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
26 6 0.06
27 92 0.88
28 6 0.06
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
TGACTGAAATACCCCATAGGGTAAAA
Done.