Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 60 of 222
Found at i:18076950 original size:139 final size:140
Alignment explanation
Indices: 18076667--18077174 Score: 606
Period size: 140 Copynumber: 3.6 Consensus size: 140
18076657 TTTTAAGATT
* * * * * * *
18076667 ACACTTTTGTGCCAAAACTTTTCTAAGTGTTGGGATAGACTTGTCAACATACGCTTTGGTCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * *
18076732 CTTTATATAAGAGTTGGGATATGTATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
18076797 CATTATGCCG
131 CATTATGCCG
* * * * *
18076807 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGAATGGACTTGTTGACATATACTTTGGGCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* ** *
18076872 -TTTGTATAAGGGTTGGGATATGCATGCTTAAAACAACACTTAAATAAGAGTCGGCTTAT-TCCA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTT-TGTCCA
* * *
18076935 ACACTATACCA
130 ACATTATGCCG
* * * *
18076946 ACACTTTTGGGTCGACACTTTCTTAAGTGTTGGGATAAACTTGTCGACATATGCTTTGACCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * * **
18077011 CTTTATATAAGGGTTGAGATATGTATACTTAAGGCGACGCTTAAATAAGAGTCGATTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
**
18077076 CATTATGGGG
131 CATTATGCCG
* * * * * * *
18077086 ACCCTTTTGGGCCGACACTTTCCTAAATGTTGGGATCGATTTGTCGACATATGCTTTAGCCGAGT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
*
18077151 CTTTGTATAAGGGTTGGGATATGC
66 CTTTATATAAGGGTTGGGATATGC
18077175 CTTTTCCAAC
Statistics
Matches: 305, Mismatches: 60, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
139 118 0.39
140 187 0.61
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (140 bp):
ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CATTATGCCG
Found at i:18080144 original size:35 final size:34
Alignment explanation
Indices: 18080096--18080288 Score: 176
Period size: 35 Copynumber: 5.4 Consensus size: 34
18080086 TGGATGTGTC
*
18080096 TATCCCAACCTTTTTAAGGTTGTCTTAGACGGGTT
1 TATCCTAACCTTTTTAAGGTTG-CTTAGACGGGTT
* *
18080131 TATCCTAATCTTTTTAAGGTTGCATTAGACAGGTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
18080166 TAT-CTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCT
1 TATCCT-AACC-TTTTTAAGGTTG-CTTAGACGGGT-T
* * *
18080203 GT-TCC-AACTTTTTTTAAAGGTTGCCTTAGCCGGGTC
1 -TATCCTAAC-CTTTTT-AAGGTTG-CTTAGACGGGTT
* * * *
18080239 TATCCCAACCTTTTTAGGGTTGCTTTATACGGTTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
18080274 TATCCTAACCTTTTT
1 TATCCTAACCTTTTT
18080289 TTAAAGGTTG
Statistics
Matches: 131, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
34 4 0.03
35 64 0.49
36 37 0.28
37 24 0.18
38 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (34 bp):
TATCCTAACCTTTTTAAGGTTGCTTAGACGGGTT
Found at i:18080226 original size:37 final size:35
Alignment explanation
Indices: 18080106--18080378 Score: 228
Period size: 37 Copynumber: 7.5 Consensus size: 35
18080096 TATCCCAACC
* *
18080106 TTTTTAAGGTTGTCTTAGACGGGTTTATCCTAA-TC
1 TTTTTAAGGTTGCCTTAGACGGGTTTATCC-AACTT
* * *
18080141 TTTTTAAGGTTGCATTAGACAGGTTTATCTCAACCT
1 TTTTTAAGGTTGCCTTAGACGGGTTTATC-CAACTT
18080177 TTTTTAAGGTTGCCTTAGACGGGTCTGT-TCCAACTT
1 TTTTTAAGGTTGCCTTAGACGGGT-T-TATCCAACTT
* * *
18080213 TTTTTAAAGGTTGCCTTAGCCGGGTCTATCCCAAC-C
1 TTTTT-AAGGTTGCCTTAGACGGGTTTAT-CCAACTT
* * * *
18080249 TTTTTAGGGTTGCTTTATACGGTTTTATCCTAACCTT
1 TTTTTAAGGTTGCCTTAGACGGGTTTATCC-AA-CTT
**
18080286 TTTTTAAAGGTTGCCTTAGATAAGGTTTATCACAACTT
1 TTTTT-AAGGTTGCCTTAGA-CGGGTTTATC-CAACTT
* * **
18080324 TTTTAAAAGGTTGCCTTAAATTGGTTTATTCCAACTT
1 TTTT-TAAGGTTGCCTTAGACGGGTTTA-TCCAACTT
18080361 TTTTTAAAGGTTGACCTT
1 TTTTT-AAGGTTG-CCTT
18080379 GATTAAGTCT
Statistics
Matches: 192, Mismatches: 29, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
34 2 0.01
35 48 0.25
36 40 0.21
37 54 0.28
38 38 0.20
39 9 0.05
40 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTTTAAGGTTGCCTTAGACGGGTTTATCCAACTT
Found at i:18080287 original size:73 final size:72
Alignment explanation
Indices: 18080093--18080378 Score: 262
Period size: 73 Copynumber: 3.9 Consensus size: 72
18080083 CTTTGGATGT
* * *
18080093 GTCTATCCCAACCTTTTTAAGGTTG-TCTTAGACGGGTTTATCCTAA-TCTTTTT-AAGGTTGCA
1 GTCTATCCCAACCTTTTTAAGGTTGCT-TTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCC
18080155 TTAGACAG
65 TTAGACAG
* * * *
18080163 GTTTATCTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCTGT-TCC-AACTTTTTTTAAAGGTTG
1 GTCTATCCCAACC-TTTTTAAGGTTGCTTTAGAC-GGT-TTTATCCTAACTTTTTTTAAAGGTTG
* *
18080226 CCTTAGCCGG
63 CCTTAGACAG
* *
18080236 GTCTATCCCAACCTTTTTAGGGTTGCTTTATACGGTTTTATCCTAACCTTTTTTTAAAGGTTGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAA-CTTTTTTTAAAGGTTGCC
*
18080301 TTAGATAAG
65 TTAGA-CAG
* * * * * *
18080310 GTTTATCACAACTTTTTTAAAAGGTTGCCTTAAATTGG-TTTATTCC-AACTTTTTTTAAAGGTT
1 GTCTATCCCAACCTTTTT--AAGGTTGCTTTAGA-CGGTTTTA-TCCTAACTTTTTTTAAAGGTT
18080373 GACCTT
62 G-CCTT
18080379 GATTAAGTCT
Statistics
Matches: 176, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
70 13 0.07
71 26 0.15
72 30 0.17
73 49 0.28
74 16 0.09
75 16 0.09
76 21 0.12
77 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (72 bp):
GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCCT
TAGACAG
Found at i:18080394 original size:38 final size:37
Alignment explanation
Indices: 18080283--18080396 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 37
18080273 TTATCCTAAC
*
18080283 CTTTTTTTAAAGGTTGCCTTAGA-TAAGGTTTATCACAA
1 CTTTTTTTAAAGGTTGCCTTAGATTAA-GTTTTTC-CAA
* * *
18080321 CTTTTTTAAAAGGTTGCCTTAAATT-GGTTTATTCCAA
1 CTTTTTTTAAAGGTTGCCTTAGATTAAGTTT-TTCCAA
18080358 CTTTTTTTAAAGGTTGACCTT-GATTAAGTCTTTTCCAA
1 CTTTTTTTAAAGGTTG-CCTTAGATTAAGT-TTTTCCAA
18080396 C
1 C
18080397 CCTTCAATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
37 25 0.39
38 36 0.56
39 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (37 bp):
CTTTTTTTAAAGGTTGCCTTAGATTAAGTTTTTCCAA
Found at i:18085257 original size:9 final size:9
Alignment explanation
Indices: 18085243--18085297 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
18085233 ATTTACATCC
*
18085243 TTCTCTCAG
1 TTCTCTCAA
18085252 TTCTCTCAA
1 TTCTCTCAA
18085261 TTCTCTCAAA
1 TTCTCTC-AA
18085271 TTCTCTCAAA
1 TTCTCTC-AA
*
18085281 CTCTCTCAA
1 TTCTCTCAA
*
18085290 GTCTCTCA
1 TTCTCTCA
18085298 TTTTTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
9 24 0.57
10 18 0.43
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.40
Consensus pattern (9 bp):
TTCTCTCAA
Found at i:18085274 original size:10 final size:10
Alignment explanation
Indices: 18085243--18085289 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
18085233 ATTTACATCC
*
18085243 TTCTCTC-AG
1 TTCTCTCAAA
18085252 TTCTCTC-AA
1 TTCTCTCAAA
18085261 TTCTCTCAAA
1 TTCTCTCAAA
18085271 TTCTCTCAAA
1 TTCTCTCAAA
*
18085281 CTCTCTCAA
1 TTCTCTCAA
18085290 GTCTCTCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:18085284 original size:8 final size:9
Alignment explanation
Indices: 18085253--18085297 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
18085243 TTCTCTCAGT
*
18085253 TCTCTCAAT
1 TCTCTCAAA
18085262 TCTCTCAAA
1 TCTCTCAAA
18085271 TTCTCTCAAA
1 -TCTCTCAAA
*
18085281 CTCTCTCAAG
1 -TCTCTCAAA
18085291 TCTCTCA
1 TCTCTCA
18085298 TTTTTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (9 bp):
TCTCTCAAA
Found at i:18085511 original size:21 final size:20
Alignment explanation
Indices: 18085483--18085521 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
18085473 GTTAATGCTA
18085483 AATTTAATTTTTTTTATTAT
1 AATTTAATTTTTTTTATTAT
18085503 AATTATAATTTTTTTTATT
1 AATT-TAATTTTTTTTATT
18085522 GTGCAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTTAATTTTTTTTATTAT
Found at i:18089309 original size:27 final size:27
Alignment explanation
Indices: 18089278--18089455 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
18089268 TAAATTGTAC
18089278 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18089305 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18089331 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
18089359 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18089387 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18089414 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18089441 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18089456 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18089445 original size:82 final size:81
Alignment explanation
Indices: 18089275--18089455 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
18089265 GATTAAATTG
* *
18089275 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18089340 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
18089356 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18089420 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18089438 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18089456 GACTCAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 19 0.22
82 67 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18091150 original size:39 final size:39
Alignment explanation
Indices: 18091048--18091250 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
18091038 TGAATGATGT
* * * *
18091048 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGGCCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* * *
18091088 CCGGACTAAGAT-CCGAAGACATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
18091128 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
18091167 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAA
* ** *
18091207 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAA
18091247 CCGG
1 CCGG
18091251 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
39 36 0.26
40 96 0.68
41 9 0.06
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:18091183 original size:79 final size:81
Alignment explanation
Indices: 18091047--18091231 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
18091037 TTGAATGATG
* *
18091047 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGGCCATATCCGGACTAAGATCCGAAGACATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGACATT
18091111 TGTGCGAGAT-ACTA-A
66 TGTGCGAG-TCACTATA
* * * * *
18091126 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGACA
18091188 TTTGTGCGAGTCACTATA
64 TTTGTGCGAGTCACTATA
* *
18091206 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18091232 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGACATT
TGTGCGAGTCACTATA
Found at i:18091262 original size:79 final size:79
Alignment explanation
Indices: 18091099--18091264 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
18091089 CGGACTAAGA
* * **
18091099 TCCGAAGACATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
18091164 TAACCGGGCTAAGT
66 TAACCGGGCTAAAT
* *
18091178 CCCGAAGGCATTTGTGCGAG-TCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TA
1 TCCGAAGGCATTTGTGCGAGAT-ACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA
* *
18091240 GCTATATCC-GGTTAAAT
63 -CTATAACCGGGCTAAAT
18091257 TCCGAAGG
1 TCCGAAGG
18091265 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
TAACCGGGCTAAAT
Found at i:18099321 original size:40 final size:39
Alignment explanation
Indices: 18099237--18099440 Score: 184
Period size: 40 Copynumber: 5.1 Consensus size: 39
18099227 TTGAATGATG
* *
18099237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTATA
* **
18099277 TCCGGACTAAGATCCGAAGAAATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTATA
* *
18099316 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTATA
*
18099356 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TCACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGAT-ACTATA
* * **
18099396 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATA-CTATA
18099436 TCCGG
1 TCCGG
18099441 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
39 35 0.25
40 94 0.67
41 10 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTATA
Found at i:18099373 original size:79 final size:81
Alignment explanation
Indices: 18099237--18099421 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
18099227 TTGAATGATG
*
18099237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGAAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGAAATT
18099301 TGTGCGAGAT-ACTA-A
66 TGTGCGAG-TCACTATA
* * * * **
18099316 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGAAA
18099378 TTTGTGCGAGTCACTATA
64 TTTGTGCGAGTCACTATA
* *
18099396 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18099422 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGAAATT
TGTGCGAGTCACTATA
Found at i:18117183 original size:20 final size:20
Alignment explanation
Indices: 18117158--18117200 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18117148 ATCATACTAT
18117158 TTATTTGGTGTTTTATCAAA
1 TTATTTGGTGTTTTATCAAA
18117178 TTATTTGGTGTTTTATCAAA
1 TTATTTGGTGTTTTATCAAA
18117198 TTA
1 TTA
18117201 GTGTAACGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.56
Consensus pattern (20 bp):
TTATTTGGTGTTTTATCAAA
Found at i:18122303 original size:16 final size:15
Alignment explanation
Indices: 18122263--18122294 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18122253 ACTTAGTCCA
18122263 ATAAATTAGTAACAC
1 ATAAATTAGTAACAC
*
18122278 ATAAATTAGTATCAC
1 ATAAATTAGTAACAC
18122293 AT
1 AT
18122295 TGAATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAAATTAGTAACAC
Found at i:18128544 original size:45 final size:45
Alignment explanation
Indices: 18128457--18128544 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
18128447 AAGTCCATAG
* * * *
18128457 TTGAAAGATGCTATGGAATCATGATAAAAATGAGTAAAACCATGA
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
* * * *
18128502 TTGAAAAATGCCATGAAATCATGGTAAACAGGATTAAGACCAT
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCAT
18128545 AACTAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (45 bp):
TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
Found at i:18131929 original size:30 final size:31
Alignment explanation
Indices: 18131859--18131930 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
18131849 TTAGTTTAAG
18131859 AAAATAAATAAAAAAATAAAGAAACTAAAACA
1 AAAATAAA-AAAAAAATAAAGAAACTAAAACA
** * *
18131891 AAGTTAAAAAAAAGATAATA-AAA-TAAAATA
1 AAAATAAAAAAAAAATAA-AGAAACTAAAACA
18131921 AAAATAAAAA
1 AAAATAAAAA
18131931 CGAAAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 14 0.42
31 12 0.36
32 7 0.21
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATAAAAAAAAAATAAAGAAACTAAAACA
Found at i:18139004 original size:43 final size:43
Alignment explanation
Indices: 18138880--18139004 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
18138870 ATCTCGTACA
* * * **
18138880 GATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTTAAATT
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
18138923 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
*
18138966 GATGGCAATAGCCCAGCTATGGTTTTACACGAAATCTCA
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCA
18139005 CCTCGAAAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
Found at i:18139186 original size:31 final size:30
Alignment explanation
Indices: 18139119--18139201 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
18139109 ATCCAATACT
**
18139119 CAAATCAATTCGGCAATATATATCCATGTA
1 CAAATCAATTCGGCAATATATATCCACATA
** *
18139149 TGAATCAAATTCGGCAATATATATCTACATA
1 CAAATC-AATTCGGCAATATATATCCACATA
* *
18139180 CAAATCAATTCAGCAATGTATA
1 CAAATCAATTCGGCAATATATA
18139202 AAACATATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATCCACATA
Found at i:18145828 original size:17 final size:17
Alignment explanation
Indices: 18145806--18145840 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18145796 AGTCATGTTG
18145806 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
18145823 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
18145840 T
1 T
18145841 GGCCTAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (17 bp):
TTACATGGACTAGCACA
Found at i:18148497 original size:19 final size:17
Alignment explanation
Indices: 18148464--18148498 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
18148454 TATAGTTGGT
18148464 TTAATTGTTAATTAATC
1 TTAATTGTTAATTAATC
18148481 TTAATTAGTTAAATTAAT
1 TTAATT-GTT-AATTAAT
18148499 TCATGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAATTGTTAATTAATC
Found at i:18150466 original size:24 final size:24
Alignment explanation
Indices: 18150438--18150486 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18150428 ATTAAATTTT
*
18150438 ATTAATCT-TGATTAATATTAATTA
1 ATTAATCTGTAATTAAT-TTAATTA
*
18150462 ATTAATGTGTAATTAATTTAATTA
1 ATTAATCTGTAATTAATTTAATTA
18150486 A
1 A
18150487 GGTTTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTAATCTGTAATTAATTTAATTA
Found at i:18150494 original size:20 final size:19
Alignment explanation
Indices: 18150454--18150494 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18150444 CTTGATTAAT
*
18150454 ATTAATTAATTAATGTGTA
1 ATTAATTAATTAAGGTGTA
*
18150473 ATTAATTTAATTAAGGTTTA
1 ATTAA-TTAATTAAGGTGTA
18150493 AT
1 AT
18150495 CTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTAATTAATTAAGGTGTA
Found at i:18154869 original size:35 final size:35
Alignment explanation
Indices: 18154830--18154897 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
18154820 GCCTTGAAGG
* *
18154830 ACCTATGTGTCATTTACAC-GATGCCACCCCGAAAT
1 ACCTATATATCATTTACACTG-TGCCACCCCGAAAT
* *
18154865 ACCTATATATCGTTTACACTGTGTCACCCCGAA
1 ACCTATATATCATTTACACTGTGCCACCCCGAA
18154898 GGGCCAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (35 bp):
ACCTATATATCATTTACACTGTGCCACCCCGAAAT
Found at i:18156176 original size:25 final size:25
Alignment explanation
Indices: 18156132--18156179 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18156122 TAGCATTGTT
*
18156132 TTTGAGAAGTGCTATAGAAAAGTGA
1 TTTGAGAAGTACTATAGAAAAGTGA
* *
18156157 TTTGAGAAGTACTTTTGAAAAGT
1 TTTGAGAAGTACTATAGAAAAGT
18156180 TTGGTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTGAGAAGTACTATAGAAAAGTGA
Found at i:18157412 original size:102 final size:102
Alignment explanation
Indices: 18157236--18157445 Score: 375
Period size: 102 Copynumber: 2.1 Consensus size: 102
18157226 ACCATTCCAT
* * *
18157236 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTGAACTTGTTTTATCATGTTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
*
18157301 ATTCCATACCCTCATATACCATATCACTTGATCAAGC
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
*
18157338 AATTTTACAACAACTTATTAATCCAACCTAACCAAATTCAACTTGTTTCATCATGCTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
18157403 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
18157440 AATTTT
1 AATTTT
18157446 TCATTCATGT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (102 bp):
AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
ATTCCATACCCTCATATACCATATCACTTGATCAAGA
Found at i:18160980 original size:30 final size:30
Alignment explanation
Indices: 18160946--18161009 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
18160936 TATATTTTCA
18160946 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
18160976 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
18161006 GGTT
1 GGTT
18161010 TCTAGTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (30 bp):
GGTTCTAAGTGTAAAACTGGGAATTTATGG
Found at i:18163050 original size:30 final size:30
Alignment explanation
Indices: 18163014--18163095 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
18163004 ACATGTTTAA
18163014 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
18163044 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
18163074 TTATGTATGATTGTTGCTATAT
1 TTATGTATGATTGTTGCTATAT
18163096 GAATTAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (30 bp):
TTATGTATGATTGTTGCTATATCAATATAT
Found at i:18167034 original size:25 final size:25
Alignment explanation
Indices: 18167004--18167072 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
18166994 ATACTAATCT
*
18167004 ACAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTC
* * * *
18167029 ATAGCTAGAGTGAGCATACCGATTC
1 ACAGCTCGTGAGAGCATACCGATTC
18167054 ACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGA-GAGCATAC
18167073 ATGTACATGA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTC
Found at i:18168366 original size:60 final size:60
Alignment explanation
Indices: 18168273--18168385 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
18168263 ATGGCCTAGC
*
18168273 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTTC-AAGGGTACACGGCTTGGTACACAG
1 ACACGGCCTGGCACATGGGTGTGTGAGGTTAC-TTCGAAGGGTACACAGCTTGGTACACAG
18168333 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGG
1 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGG
18168386 CATACGGATG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (60 bp):
ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGGTACACAG
Found at i:18170849 original size:20 final size:20
Alignment explanation
Indices: 18170826--18170870 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
18170816 CACACGGGCA
*
18170826 TGTGCCTATCCACAC-AGGTG
1 TGTGACTATCCACACGA-GTG
18170846 TGTGACTATCCACACGAGTG
1 TGTGACTATCCACACGAGTG
18170866 TGTGA
1 TGTGA
18170871 GGGGTTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (20 bp):
TGTGACTATCCACACGAGTG
Found at i:18177065 original size:22 final size:22
Alignment explanation
Indices: 18177040--18177097 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
18177030 ACCATAGTGG
*
18177040 TAAGCAGATAGCATTGAACTGC
1 TAAGCAGAAAGCATTGAACTGC
*
18177062 TAAGCAGAAAGCATTGAAGTGC
1 TAAGCAGAAAGCATTGAACTGC
*
18177084 TAAGCAGAGAGCAT
1 TAAGCAGAAAGCAT
18177098 CAAAGTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (22 bp):
TAAGCAGAAAGCATTGAACTGC
Found at i:18177103 original size:22 final size:22
Alignment explanation
Indices: 18177022--18177104 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
18177012 TGCAACACAC
* * *
18177022 CAGAGAGCACCATAGTGGTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* ** *
18177044 CAGATAGCATTGAACTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* **
18177066 CAGAAAGCATTGAAGTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
18177088 CAGAGAGCATCAAAGTG
1 CAGAGAGCATCAAAGTG
18177105 TTTAATAGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (22 bp):
CAGAGAGCATCAAAGTGCTAAG
Found at i:18186380 original size:21 final size:22
Alignment explanation
Indices: 18186349--18186390 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
18186339 ATATTTCTCC
*
18186349 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
18186371 TCTT-AATTATATTATTTATG
1 TCTTGAATTATATTATTTATG
18186391 CTTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:18194171 original size:30 final size:30
Alignment explanation
Indices: 18194137--18194224 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
18194127 CTGGGCATTT
*
18194137 CCACACGGGTAGGACACGTGCCCATGTGTG
1 CCACACGGGTAGGACACATGCCCATGTGTG
* *
18194167 CCACACAGGCAGGACACATGCCCATGTGTG
1 CCACACGGGTAGGACACATGCCCATGTGTG
* * *
18194197 TCACATGGACT-GGACACATGCCCATGTG
1 CCACACGG-GTAGGACACATGCCCATGTG
18194225 CTAGCCCGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (30 bp):
CCACACGGGTAGGACACATGCCCATGTGTG
Found at i:18201999 original size:17 final size:17
Alignment explanation
Indices: 18201956--18202005 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
18201946 TTATTCTTGT
18201956 AAAAAAAG--AAG-AAG
1 AAAAAAAGAAAAGAAAG
18201970 AAAAAAATCGAAAAGAAAG
1 AAAAAAA--GAAAAGAAAG
*
18201989 AAAAAAAGAAAATAAAG
1 AAAAAAAGAAAAGAAAG
18202006 TATTCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.23
16 1 0.03
17 9 0.30
18 3 0.10
19 10 0.33
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAAAGAAAAGAAAG
Found at i:18221173 original size:24 final size:25
Alignment explanation
Indices: 18221141--18221187 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
18221131 ATTAAGGTTT
*
18221141 TATTTATTATTAAATTAT-AAATTA
1 TATTAATTATTAAATTATGAAATTA
*
18221165 TATTAATTATTATATTATGAAAT
1 TATTAATTATTAAATTATGAAAT
18221188 AAATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTAATTATTAAATTATGAAATTA
Found at i:18221771 original size:9 final size:9
Alignment explanation
Indices: 18221757--18221809 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
18221747 ATAAAGTAAG
18221757 TAAAAGAAA
1 TAAAAGAAA
18221766 CT-AAAGAAA
1 -TAAAAGAAA
18221775 TAAAAGAAA
1 TAAAAGAAA
* *
18221784 GAAAAGAAG
1 TAAAAGAAA
18221793 TAAAAGAAA
1 TAAAAGAAA
*
18221802 CAAAAGAA
1 TAAAAGAA
18221810 CAGTAGAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:18221778 original size:18 final size:18
Alignment explanation
Indices: 18221757--18221809 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
18221747 ATAAAGTAAG
*
18221757 TAAAAGAAACTAAAGAAA
1 TAAAAGAAACAAAAGAAA
* *
18221775 TAAAAGAAAGAAAAGAAG
1 TAAAAGAAACAAAAGAAA
18221793 TAAAAGAAACAAAAGAA
1 TAAAAGAAACAAAAGAA
18221810 CAGTAGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (18 bp):
TAAAAGAAACAAAAGAAA
Found at i:18223102 original size:23 final size:23
Alignment explanation
Indices: 18223069--18223115 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
18223059 AGTAGGGTGG
* *
18223069 TGGGTCTGTTTTGCGTCTTTTTTT
1 TGGGTCTGTTTGGC-CCTTTTTTT
18223093 TGGGT-TGTTTGGCCCTTTTTTT
1 TGGGTCTGTTTGGCCCTTTTTTT
18223115 T
1 T
18223116 CTCTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.00, C:0.13, G:0.26, T:0.62
Consensus pattern (23 bp):
TGGGTCTGTTTGGCCCTTTTTTT
Found at i:18233597 original size:17 final size:17
Alignment explanation
Indices: 18233564--18233597 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18233554 CACTAATAGT
* *
18233564 AAAATGTAATGATAATG
1 AAAATGTAATAACAATG
18233581 AAAATGTAATAACAATG
1 AAAATGTAATAACAATG
18233598 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (17 bp):
AAAATGTAATAACAATG
Found at i:18238576 original size:14 final size:14
Alignment explanation
Indices: 18238548--18238576 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18238538 GCTTAGTGGC
18238548 TTTTGACTTGATTT
1 TTTTGACTTGATTT
18238562 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
18238575 TT
1 TT
18238577 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:18245625 original size:47 final size:47
Alignment explanation
Indices: 18245539--18245901 Score: 564
Period size: 47 Copynumber: 7.6 Consensus size: 47
18245529 GTATATTTGA
18245539 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGACGTG
*
18245590 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
*
18245637 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
18245684 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
*
18245731 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
18245778 ATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* * * * *
18245825 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
18245872 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
18245902 TCCCGAAGGG
Statistics
Matches: 297, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 283 0.95
51 14 0.05
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
Found at i:18246078 original size:37 final size:37
Alignment explanation
Indices: 18246020--18246098 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
18246010 CCGAGCTCTA
* *
18246020 AAGACCCGATGACTACATGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
* *
18246057 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
18246094 AAGAC
1 AAGAC
18246099 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:18248010 original size:29 final size:29
Alignment explanation
Indices: 18247975--18248048 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
18247965 GTTGTGAGAT
* * *
18247975 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
18248004 TGGCACTAAATGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18248033 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18248049 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18248551 original size:40 final size:40
Alignment explanation
Indices: 18248357--18248539 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
18248347 TTGAATGATG
* * *
18248357 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
18248397 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
18248437 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
18248477 TCCGTG-CTAA-ACCCTGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCC-GAAGAGCATTCGTGCTAGTGATATA
* *
18248517 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
18248540 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 104 0.83
41 11 0.09
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:18252069 original size:47 final size:47
Alignment explanation
Indices: 18251983--18252251 Score: 403
Period size: 47 Copynumber: 5.6 Consensus size: 47
18251973 GTATATTTGA
18251983 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGACGTG
*
18252034 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
*
18252081 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
18252128 ATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* * * * *
18252175 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
* *
18252222 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
18252252 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 189 0.93
51 14 0.07
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
Found at i:18252426 original size:37 final size:37
Alignment explanation
Indices: 18252370--18252448 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18252360 CCGAGCTCTA
* *
18252370 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
18252407 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18252444 AAGAC
1 AAGAC
18252449 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:18257490 original size:46 final size:46
Alignment explanation
Indices: 18257424--18257511 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
18257414 GAGTGGTTGC
*
18257424 TATTTATTTGCTATTTTTAGTGGCCATTACCACCAATAAATAATCT
1 TATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAATCT
18257470 TATTTAGTTTG-TATTTTTAGTAGCCATTACCACCAATAAATA
1 TATTTA-TTTGCTATTTTTAGTAGCCATTACCACCAATAAATA
18257512 CCCCTATTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 36 0.90
47 4 0.10
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (46 bp):
TATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAATCT
Found at i:18267650 original size:13 final size:13
Alignment explanation
Indices: 18267616--18267650 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
18267606 TAATTTTGTG
*
18267616 AAAATTTCATTCA
1 AAAATTTCGTTCA
18267629 AAAATTTCGTTCA
1 AAAATTTCGTTCA
18267642 AAAATTTCG
1 AAAATTTCG
18267651 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (13 bp):
AAAATTTCGTTCA
Found at i:18268589 original size:50 final size:50
Alignment explanation
Indices: 18268525--18268827 Score: 269
Period size: 50 Copynumber: 6.0 Consensus size: 50
18268515 CAAATTTTGT
* *
18268525 ACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* * *
18268575 ACCGAGATAGGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* *
18268625 ACCGAGATAATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
1 ACCGAG---ATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* * * * *
18268678 ACCGAGATGGGAGGTCCTC-CGTAAGATCATGTCTGGGACAT-AGCATGGGC
1 ACCGAGATAGGAGGTCC-CATGTAAGACCATGTCTGGGACATGA-CGTTGGC
* * * * * *
18268728 ACC-A-ATAGGAGAACTCCCATGTAAGACCATATTTGGGATATGTCATTGGC
1 ACCGAGATAGGAG--GTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* ** * *
18268778 ACTACAAGA-A--ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 AC--CGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
18268827 A
1 A
18268828 TGTTATTATC
Statistics
Matches: 209, Mismatches: 31, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.03
49 34 0.16
50 116 0.56
51 2 0.01
52 1 0.00
53 49 0.23
54 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
Found at i:18268715 original size:103 final size:103
Alignment explanation
Indices: 18268531--18268718 Score: 297
Period size: 103 Copynumber: 1.8 Consensus size: 103
18268521 TTGTACCGAG
* *
18268531 ATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGCACCGAGATAGGAGGTCCCATG
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCCCACG
*
18268596 TAAGACCATATTTGGGACATGGCGTTGGCACCGAGATA
66 TAAGACCATATCTGGGACATGGCGTTGGCACCGAGATA
* *
18268634 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGGGAGGTCCTC-C
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCC-CAC
* *
18268698 GTAAGATCATGTCTGGGACAT
65 GTAAGACCATATCTGGGACAT
18268719 AGCATGGGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 76 0.99
104 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (103 bp):
ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCCCACG
TAAGACCATATCTGGGACATGGCGTTGGCACCGAGATA
Found at i:18272647 original size:24 final size:24
Alignment explanation
Indices: 18272620--18272674 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
18272610 AATTCAATCG
18272620 CTACTTTTCTACTCAATGCATCAA
1 CTACTTTTCTACTCAATGCATCAA
*
18272644 CTACTTTTCTACTCAATGCATCAG
1 CTACTTTTCTACTCAATGCATCAA
18272668 CTACTTT
1 CTACTTT
18272675 CAGAAGTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.05, T:0.40
Consensus pattern (24 bp):
CTACTTTTCTACTCAATGCATCAA
Found at i:18279081 original size:18 final size:17
Alignment explanation
Indices: 18279055--18279102 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
18279045 ATAAAAAAAA
18279055 AACATTTTGAAATTGAAT
1 AACATTTTGAAA-TGAAT
*
18279073 AACAATTTGTAAATGAAT
1 AACATTTTG-AAATGAAT
*
18279091 AATATTTTGAAA
1 AACATTTTGAAA
18279103 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (17 bp):
AACATTTTGAAATGAAT
Found at i:18287102 original size:42 final size:39
Alignment explanation
Indices: 18286975--18287203 Score: 300
Period size: 40 Copynumber: 5.8 Consensus size: 39
18286965 ATTACCACAA
* ** *
18286975 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18287015 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
18287055 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
* *
18287097 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18287137 GCACAATGCCTTCGGGTCTTAGCCCGGATAAATC-ACTA
1 GCACAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18287175 GCACAATGCCTT-GGGACTTAGCCCGGATA
1 GCACAATGCCTTCGGGTCTTAGCCCGGATA
18287204 AAATTCAAAT
Statistics
Matches: 172, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
37 16 0.09
38 15 0.09
39 30 0.17
40 72 0.42
41 2 0.01
42 35 0.20
43 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:18287126 original size:82 final size:79
Alignment explanation
Indices: 18286975--18287203 Score: 322
Period size: 82 Copynumber: 2.9 Consensus size: 79
18286965 ATTACCACAA
* ** *
18286975 GCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCAC-AATGCC-TCGGGTCTTAGC
18287039 CCGGATATATCAACTT
64 CCGGATATATCAACTT
18287055 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTCGCAC-AATGCCT-CGGGTCTTAG
18287120 CCCGGATATATCAACTT
63 CCCGGATATATCAACTT
* * *
18287137 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAA-ATC-ACTAGCACAATGCCTTGGGACTTAGCCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCACAATGCCTCGGGTCTTAGCCC
18287199 GGATA
66 GGATA
18287204 AAATTCAAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
76 16 0.12
77 7 0.05
78 7 0.05
79 3 0.02
80 28 0.20
81 25 0.18
82 52 0.38
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCACAATGCCTCGGGTCTTAGCCC
GGATATATCAACTT
Found at i:18295168 original size:47 final size:47
Alignment explanation
Indices: 18295105--18295531 Score: 665
Period size: 47 Copynumber: 9.1 Consensus size: 47
18295095 GAAATGATAG
*
18295105 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
18295152 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18295199 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
18295246 TAAGGCCTAATAGCTGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295293 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
18295340 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295387 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295434 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
18295481 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295528 TAAG
1 TAAG
18295532 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 346 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18295706 original size:47 final size:47
Alignment explanation
Indices: 18295647--18295838 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
18295637 GAAATGATAG
*
18295647 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18295694 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295741 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
18295788 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18295835 TAAG
1 TAAG
18295839 TCCCGAAGGG
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18313231 original size:44 final size:45
Alignment explanation
Indices: 18313164--18313475 Score: 224
Period size: 44 Copynumber: 6.7 Consensus size: 45
18313154 GAGGAATTAC
18313164 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
* *
18313209 A-ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATTGCATCAGATTGAAGCCAG-
1 AGATCTTATCTCCCTGAGA-TTACAGC---G--GA--G---CAGATTGAAGCTAGT
*
18313262 AGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
* * * * ** **
18313307 A-ATCCTATCTCCATGAGATTACAGTGGAGCGGATT-AAAATAAA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
* * * * * *
18313350 AGATCTTATCTCTCTGA-AGTTACAACAGAGTAGATCGAATCAGATTGAAGT
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTG-A--AG-CT--AGT
*
18313401 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 -AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
* *
18313447 A-ATCCTATCTCCCTGAGATTACAGTGGAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAG
18313476 TGGATTAAAA
Statistics
Matches: 206, Mismatches: 36, Indels: 51
0.70 0.12 0.17
Matches are distributed among these distances:
43 7 0.03
44 112 0.54
45 3 0.01
46 4 0.02
47 2 0.01
48 2 0.01
49 7 0.03
51 4 0.02
52 29 0.14
53 2 0.01
54 33 0.16
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
Found at i:18313268 original size:54 final size:54
Alignment explanation
Indices: 18313194--18313298 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
18313184 TACAGCGGAG
* *
18313194 CAGATTGAAGCTAGTAATCTTATCT-CTCTGA-AGTTACAGCAGAGTAGATTGCAT
1 CAGATTGAAGCCAGTAATCTTATCTCCT-TGAGA-TTACAGCAGAGCAGATTGCAT
*
18313248 CAGATTGAAGCCAG-AGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTG
1 CAGATTGAAGCCAGTA-ATCTTATCTCCTTGAGATTACAGCAGAGCAGATTG
18313299 AAGCTAGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 1 0.02
54 41 0.91
55 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (54 bp):
CAGATTGAAGCCAGTAATCTTATCTCCTTGAGATTACAGCAGAGCAGATTGCAT
Found at i:18313464 original size:140 final size:142
Alignment explanation
Indices: 18313170--18313525 Score: 538
Period size: 140 Copynumber: 2.5 Consensus size: 142
18313160 TTACAGATCT
* * ** ** *
18313170 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCTTATCTCTCTGAAGTTACAGC
1 TATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCTGAAGTTACAAC
* * *
18313234 AGAGTAGATTGCATCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTG
65 AGAGTAGATCGAATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTG
18313299 AAGCTAGTAATCC
130 AAGCTAGTAATCC
*
18313312 TATCTCCATGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACA
*
18313377 GAGTAGATCGAATCAGATTGAAGTCAG-G-TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
66 GAGTAGATCGAATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
18313440 AGCTAGTAATCC
131 AGCTAGTAATCC
* * *
18313452 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACA
*
18313517 GAATAGATC
66 GAGTAGATC
18313526 ACATCAGGTC
Statistics
Matches: 196, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
140 115 0.59
141 6 0.03
142 75 0.38
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACA
GAGTAGATCGAATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
AGCTAGTAATCC
Found at i:18319865 original size:26 final size:26
Alignment explanation
Indices: 18319826--18319880 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
18319816 CGGAGCTCTA
* *
18319826 GATTAAAGGCTCTTCGTGAGCTTCCT
1 GATTAAAAGCTCTTCGTGAACTTCCT
* *
18319852 GATTAAAAGTTCTTTGTGAACTTCCT
1 GATTAAAAGCTCTTCGTGAACTTCCT
18319878 GAT
1 GAT
18319881 AATGGCTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (26 bp):
GATTAAAAGCTCTTCGTGAACTTCCT
Found at i:18321414 original size:54 final size:54
Alignment explanation
Indices: 18321350--18321757 Score: 392
Period size: 54 Copynumber: 7.6 Consensus size: 54
18321340 ATTCATGAGT
*
18321350 AAATGATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * * * *
18321404 AAATAATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACGCTCAAAAGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * * * * * *
18321458 AAATTATCAAAATACCGTCAAAGGGTTAAATTACCAAAATACCCTTGAAGTGTT
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * ** * *
18321512 AAATTACCAAAATACCCTTTAATGGTAAAATTACTAAAATACCCTCGAAGAGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * * * *
18321566 AAATTA-CTAAAATACCTTCGAATGATAAAATTACTGAAATACCCTCGAAAGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* ** * ** *
18321620 AAATTATCGAAATACCTTTTAAGGGTAAAATTACTGAAATACCCTTAAAGGATA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* ** * **
18321674 AAATTATCGAAATACCCTCGAAGGGTAAAATTGCCGAAATA-CCTCTACTGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
*
18321727 AAATTATC-ATAATACCC-CTTAAGGGTAAAAT
1 AAATTATCGA-AATACCCTC-GAAGGGTAAAAT
18321758 GATCTTTATA
Statistics
Matches: 295, Mismatches: 55, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
52 2 0.01
53 34 0.12
54 258 0.87
55 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
Found at i:18321711 original size:27 final size:27
Alignment explanation
Indices: 18321357--18321716 Score: 342
Period size: 27 Copynumber: 13.3 Consensus size: 27
18321347 AGTAAATGAT
18321357 CGAAATACCCTCGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
** * *
18321384 TAAAATACCCTCGAAGGGTAAAATAAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
*
18321411 CGAAATACCCTCAAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * * *
18321438 TGAAATACGCTCAAAAGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * *
18321465 CAAAATACCGTCAAAGGGTTAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * *
18321492 CAAAATACCCTTGAAGTGTTAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** *
18321519 CAAAATACCCTTTAATGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
** *
18321546 TAAAATACCCTCGAAGAGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
** * * *
18321573 TAAAATACCTTCGAATGATAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
18321600 TGAAATACCCTCGAAAGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* **
18321627 CGAAATACCTTTTAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** * *
18321654 TGAAATACCCTTAAAGGATAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
*
18321681 CGAAATACCCTCGAAGGGTAAAATTGC
1 CGAAATACCCTCGAAGGGTAAAATTAC
18321708 CGAAATACC
1 CGAAATACC
18321717 TCTACTGGTA
Statistics
Matches: 274, Mismatches: 59, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 274 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAC
Found at i:18321746 original size:81 final size:78
Alignment explanation
Indices: 18321357--18321757 Score: 331
Period size: 81 Copynumber: 5.0 Consensus size: 78
18321347 AGTAAATGAT
* * *
18321357 CGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCT
1 CGAAATACCCTCGAAAGGTAAAATTACCAAAATA-CCTCGAAGGGTAAAATTATC-AAATACCCT
* *
18321422 CAAAGGGTAAAATTA
64 TAAAGGATAAAATTA
* * * * * *
18321437 CTGAAATACGCTCAAAAGGTAAAATTATCAAAATACCGTCAAAGGGTTAAATTACCAAAATACCC
1 C-GAAATACCCTCGAAAGGTAAAATTACCAAAATACC-TCGAAGGGTAAAATTATC-AAATACCC
* *
18321502 TTGAAGTG-TTAAATTA
63 TTAAAG-GATAAAATTA
* ** * * * *
18321518 CCAAAATACCCTTTAATGGTAAAATTACTAAAATACCCTCGAAGAGTAAAATTACTAAAATA-CC
1 -CGAAATACCCTCGAAAGGTAAAATTACCAAAATA-CCTCGAAGGGTAAAATTA-TCAAATACCC
* *
18321582 TTCGAATGATAAAATTA
63 TT-AAAGGATAAAATTA
* * ** *
18321599 CTGAAATACCCTCGAAAGGTAAAATTATCGAAATACCTTTTAAGGGTAAAATTACTGAAATACCC
1 C-GAAATACCCTCGAAAGGTAAAATTACCAAAATACC-TCGAAGGGTAAAATTA-TCAAATACCC
18321664 TTAAAGGATAAAATTA
63 TTAAAGGATAAAATTA
* * * * **
18321680 TCGAAATACCCTCGAAGGGTAAAATTGCCGAAATACCTCTACTGGTAAAATTATCATAATACCCC
1 -CGAAATACCCTCGAAAGGTAAAATTACCAAAATACCTCGAAGGGTAAAATTATCA-AATA-CCC
*
18321745 TT-AAGGGTAAAAT
63 TTAAAGGATAAAAT
18321758 GATCTTTATA
Statistics
Matches: 259, Mismatches: 48, Indels: 28
0.77 0.14 0.08
Matches are distributed among these distances:
79 2 0.01
80 38 0.15
81 210 0.81
82 9 0.03
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (78 bp):
CGAAATACCCTCGAAAGGTAAAATTACCAAAATACCTCGAAGGGTAAAATTATCAAATACCCTTA
AAGGATAAAATTA
Found at i:18321757 original size:27 final size:27
Alignment explanation
Indices: 18321350--18321757 Score: 163
Period size: 27 Copynumber: 15.1 Consensus size: 27
18321340 ATTCATGAGT
* *
18321350 AAATGATCGAAATA-CCCTCGAAGGGTA
1 AAATTATCGAAATACCCCT-TAAGGGTA
* *
18321377 AAATTA-CTAAAATA-CCCTCGAAGGGTA
1 AAATTATC-GAAATACCCCT-TAAGGGTA
* *
18321404 AAATAATCGAAATA-CCCTCAAAGGGTA
1 AAATTATCGAAATACCCCT-TAAGGGTA
* * *
18321431 AAATTA-CTGAAATA-CGCTCAAAAGGTA
1 AAATTATC-GAAATACCCCT-TAAGGGTA
* * * *
18321458 AAATTATCAAAATA-CCGTCAAAGGGTT
1 AAATTATCGAAATACCCCT-TAAGGGTA
* * * *
18321485 AAATTACCAAAATA-CCCTTGAAGTGTT
1 AAATTATCGAAATACCCCTT-AAGGGTA
* * * *
18321512 AAATTACCAAAATACCCTTTAATGGTA
1 AAATTATCGAAATACCCCTTAAGGGTA
* * *
18321539 AAATTA-CTAAAATA-CCCTCGAAGAGTA
1 AAATTATC-GAAATACCCCT-TAAGGGTA
* * *
18321566 AAATTA-CTAAAATA--CCTTCGAATGATA
1 AAATTATC-GAAATACCCCTT--AAGGGTA
* *
18321593 AAATTA-CTGAAATA-CCCTCGAAAGGTA
1 AAATTATC-GAAATACCCCT-TAAGGGTA
**
18321620 AAATTATCGAAATACCTTTTAAGGGTA
1 AAATTATCGAAATACCCCTTAAGGGTA
*
18321647 AAATTA-CTGAAATA-CCCTTAAAGGATA
1 AAATTATC-GAAATACCCCTT-AAGGGTA
*
18321674 AAATTATCGAAATA-CCCTCGAAGGGTA
1 AAATTATCGAAATACCCCT-TAAGGGTA
** * **
18321701 AAATTGCCGAAATACCTC-TACTGGTA
1 AAATTATCGAAATACCCCTTAAGGGTA
18321727 AAATTATC-ATAATACCCCTTAAGGGTA
1 AAATTATCGA-AATACCCCTTAAGGGTA
18321754 AAAT
1 AAAT
18321758 GATCTTTATA
Statistics
Matches: 307, Mismatches: 53, Indels: 42
0.76 0.13 0.10
Matches are distributed among these distances:
25 1 0.00
26 31 0.10
27 260 0.85
28 15 0.05
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
AAATTATCGAAATACCCCTTAAGGGTA
Found at i:18328359 original size:27 final size:26
Alignment explanation
Indices: 18328329--18328416 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
18328319 TAAATGACCG
*
18328329 AAATACCCTCGAAGGTTAAAATTACTA
1 AAATACCCTC-AAGGGTAAAATTACTA
18328356 AAATACCCTCAAAGGGTAAAATTACTA
1 AAATACCCTC-AAGGGTAAAATTACTA
*
18328383 AAATACCCAT-AAGGGTAAAATTACTG
1 AAATACCC-TCAAGGGTAAAATTACTA
*
18328409 TAATACCC
1 AAATACCC
18328417 CCTAAATGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 22 0.39
27 33 0.59
28 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
AAATACCCTCAAGGGTAAAATTACTA
Found at i:18330527 original size:12 final size:12
Alignment explanation
Indices: 18330510--18330535 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18330500 TGTATACTTG
18330510 ATTATATCATGT
1 ATTATATCATGT
18330522 ATTATATCATGT
1 ATTATATCATGT
18330534 AT
1 AT
18330536 AAGACTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTATATCATGT
Found at i:18332670 original size:10 final size:10
Alignment explanation
Indices: 18332655--18332679 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18332645 TTCTCCTTTC
18332655 TCTTTTTCTT
1 TCTTTTTCTT
18332665 TCTTTTTCTT
1 TCTTTTTCTT
18332675 TCTTT
1 TCTTT
18332680 CTAATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:18338648 original size:10 final size:10
Alignment explanation
Indices: 18338633--18338679 Score: 76
Period size: 10 Copynumber: 4.6 Consensus size: 10
18338623 TCCCTAAACT
18338633 TTAAAATTAC
1 TTAAAATTAC
*
18338643 TTAAAATCAC
1 TTAAAATTAC
18338653 TTCAAAATTAC
1 TT-AAAATTAC
18338664 TTAAAATTAC
1 TTAAAATTAC
18338674 TTAAAA
1 TTAAAA
18338680 CTGTACATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (10 bp):
TTAAAATTAC
Found at i:18338654 original size:21 final size:21
Alignment explanation
Indices: 18338630--18338679 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
18338620 TAATCCCTAA
18338630 ACTTTAAAATTACTTAAAATC
1 ACTTTAAAATTACTTAAAATC
* *
18338651 ACTTCAAAATTACTTAAAATT
1 ACTTTAAAATTACTTAAAATC
18338672 AC-TTAAAA
1 ACTTTAAAA
18338680 CTGTACATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
ACTTTAAAATTACTTAAAATC
Found at i:18348731 original size:27 final size:26
Alignment explanation
Indices: 18348679--18349659 Score: 835
Period size: 27 Copynumber: 36.4 Consensus size: 26
18348669 TTAGTAGATG
*
18348679 AAAATGACTAAAATACCCCATAGGGT
1 AAAATGACTGAAATACCCCATAGGGT
*
18348705 AAAATGACTGAAATAACCCCAAAGGGT
1 AAAATGACTGAAAT-ACCCCATAGGGT
* ** *
18348732 AAAATAACCAAAATTCCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
*
18348759 AAAATGACTGAAATACCCCCATAGGGA
1 AAAATGACTGAAATA-CCCCATAGGGT
*
18348786 AAAATGA-TCGAAATACCCTTATAGGGT
1 AAAATGACT-GAAATACCC-CATAGGGT
*
18348813 AAAATGA-TCGAAATACCCTCATAGGAT
1 AAAATGACT-GAAATACCC-CATAGGGT
*
18348840 AAAAT-AATCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
* * *
18348867 TAAATGACCGAAACACCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
18348894 AAAATGACTGAAATACCTCCATAGGGT
1 AAAATGACTGAAATACC-CCATAGGGT
* * *
18348921 AAAATGACCGAAGTACCCCTAATA-GAT
1 AAAATGACTGAAATACCCC--ATAGGGT
** *
18348948 GAAAATGACCAAAATACCCCTAAAGGGT
1 -AAAATGACTGAAATACCCC-ATAGGGT
* * **
18348976 AAAATGAC-CAAGATACCCTTAATA-CAT
1 AAAATGACTGAA-ATACCC--CATAGGGT
* **
18349003 AAAAATGACTAAAATATTCCATAGGGT
1 -AAAATGACTGAAATACCCCATAGGGT
18349030 AAAATGACTGAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
* **
18349057 AAAATAACCAAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
*
18349084 GAAATGA-TCGAAATACCCCATAGGGT
1 AAAATGACT-GAAATACCCCATAGGGT
* *
18349110 AAAATGACCGAAATAACCCCATAAGGT
1 AAAATGACTGAAAT-ACCCCATAGGGT
* * *
18349137 AAAATGA-TCGAAATACTGCTATAGGGA
1 AAAATGACT-GAAATAC-CCCATAGGGT
18349164 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
*
18349191 AAAATGATTGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
18349218 AAAATGA-TGAAAATACCCCCATAGGGT
1 AAAATGACTG-AAATA-CCCCATAGGGT
* *
18349245 AAAATGACTGAAATACCCTTAATA-GAT
1 AAAATGACTGAAATACCC--CATAGGGT
*
18349272 GAAAATGACTGGAATACCCCCATA-GGT
1 -AAAATGACTGAAATA-CCCCATAGGGT
*
18349299 AAAATGACTAAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
18349326 AAAATGA-TCGAAATACCACCATAGGGT
1 AAAATGACT-GAAATACC-CCATAGGGT
* *
18349353 AAAATGACTGAAATACCACCATAAGAT
1 AAAATGACTGAAATACC-CCATAGGGT
* * *
18349380 AAACTGACCGAAATACCCTCGTAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
18349407 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
*
18349434 AAAATGACCGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
18349461 AAAATGA-TCGAAATACCCCTATAGGGT
1 AAAATGACT-GAAATACCCC-ATAGGGT
* * ** *
18349488 AAAATAACCGAAATACCCTTGTTGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
*
18349515 AAAATGACTAAAATACCCCCATAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
* ** *
18349542 AGAATGACCAAAATACCCCCACAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
*
18349569 AAAATGACTGAAATACCTTCATAGGGT
1 AAAATGACTGAAATACC-CCATAGGGT
* *
18349596 AGAATGA-TCGAAATACCCCTATAGGAT
1 AAAATGACT-GAAATACCCC-ATAGGGT
*
18349623 AGAATGA-TCGAAATACCCCTATAGGGT
1 AAAATGACT-GAAATACCCC-ATAGGGT
18349650 AAAATGACTG
1 AAAATGACTG
18349660 TTATAGTCTT
Statistics
Matches: 793, Mismatches: 108, Indels: 107
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.01
26 102 0.13
27 603 0.76
28 79 0.10
29 5 0.01
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
AAAATGACTGAAATACCCCATAGGGT
Found at i:18348779 original size:81 final size:80
Alignment explanation
Indices: 18348648--18349659 Score: 930
Period size: 81 Copynumber: 12.5 Consensus size: 80
18348638 ACCCCTGAAT
* * *
18348648 GGTAAAATGACCAAAATACCCTTAGTA-GATGAAAATGACTAAAATA-CCCCATAGGGTAAAATG
1 GGTAAAATGACCAAAATACCCTCA-TAGGGT-AAAATGACTGAAATACCCCCATAGGGTAAAATG
*
18348711 ACTGAAATAACCCCAAAG
64 ACTGAAAT-ACCCCATAG
* * *
18348729 GGTAAAATAACCAAAATTCCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGAAAAATGA-
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGAC
*
18348793 TCGAAATACCCTTATAG
66 T-GAAATACCC-CATAG
* * * * *
18348810 GGTAAAATGATCGAAATACCCTCATAGGATAAAAT-AATCGAAATACCCCCATAGGGTTAAATGA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGA
* *
18348874 CCGAAACACCCTCATAG
65 CTGAAATACCC-CATAG
** * * * *
18348891 GGTAAAATGACTGAAATA-CCTCCATAGGGTAAAATGACCGAAGTACCCCTAATA-GATGAAAAT
1 GGTAAAATGACCAAAATACCCT-CATAGGGTAAAATGACTGAAATACCCC-CATAGGGT-AAAAT
** *
18348954 GACCAAAATACCCCTAAAG
63 GACTGAAATACCCC-ATAG
* * ** * **
18348973 GGTAAAATGACCAAGATACCCTTAATA-CATAAAAATGACTAAAATA-TTCCATAGGGTAAAATG
1 GGTAAAATGACCAAAATACCC-TCATAGGGT-AAAATGACTGAAATACCCCCATAGGGTAAAATG
18349036 ACTGAAATACCCTCATAG
64 ACTGAAATACCC-CATAG
* *
18349054 GGTAAAATAACCAAAATACCCTCATAGGGTGAAATGA-TCGAAATA-CCCCATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGA
* *
18349117 CCGAAATAACCCCATAA
65 CTGAAAT-ACCCCATAG
* * * *
18349134 GGTAAAATGATCGAAATACTGCT-ATAGGGAAAAATGA-TCGAAATACCCCCATAGGGTAAAATG
1 GGTAAAATGACCAAAATAC-CCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATG
*
18349197 ATTGAAATACCCCTATAG
64 ACTGAAATACCCC-ATAG
** * ** *
18349215 GGTAAAATGATGAAAATACCCCCATAGGGTAAAATGACTGAAATACCCTTAATA-GATGAAAATG
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCC-CCATAGGGT-AAAATG
*
18349279 ACTGGAATACCCCCATA-
64 ACTGAAATA-CCCCATAG
* *
18349296 GGTAAAATGACTAAAATACCC-CTATAGGGTAAAATGA-TCGAAATACCACCATAGGGTAAAATG
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATG
*
18349359 ACTGAAATACCACCATAA
64 ACTGAAATACC-CCATAG
* * * *
18349377 GATAAACTGACCGAAATACCCTCGTAGGGTAAAATGA-TCGAAATACCCCCATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGA
*
18349441 CCGAAATACCCCTATAG
65 CTGAAATACCCC-ATAG
* * * * *** *
18349458 GGTAAAATGATCGAAATACCC-CTATAGGGTAAAATAACCGAAATACCCTTGTTGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGA
*
18349522 CTAAAATACCCCCATAG
65 CTGAAATA-CCCCATAG
* * * ** *
18349539 GGTAGAATGACCAAAATACCCCCACAGGGTAAAATGACTGAAATACCTTCATAGGGTAGAATGA-
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGAC
18349603 TCGAAATACCCCTATAG
66 T-GAAATACCCC-ATAG
* * * *
18349620 GATAGAATGATCGAAATACCC-CTATAGGGTAAAATGACTG
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAATGACTG
18349660 TTATAGTCTT
Statistics
Matches: 770, Mismatches: 120, Indels: 82
0.79 0.12 0.08
Matches are distributed among these distances:
79 3 0.00
80 142 0.18
81 535 0.69
82 68 0.09
83 21 0.03
84 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (80 bp):
GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGAC
TGAAATACCCCATAG
Found at i:18348954 original size:28 final size:27
Alignment explanation
Indices: 18348921--18349011 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
18348911 TCCATAGGGT
18348921 AAAATGACCGAAGTACCCCTAATAGATG
1 AAAATGACC-AAGTACCCCTAATAGATG
* *
18348949 AAAATGACCAAAATACCCCTAA-AG-GG
1 AAAATGACC-AAGTACCCCTAATAGATG
* * *
18348975 TAAAATGACCAAGATACCCTTAATACATA
1 -AAAATGACCAAG-TACCCCTAATAGATG
18349004 AAAATGAC
1 AAAATGAC
18349012 TAAAATATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.06
27 19 0.37
28 29 0.57
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (27 bp):
AAAATGACCAAGTACCCCTAATAGATG
Found at i:18350093 original size:28 final size:28
Alignment explanation
Indices: 18350045--18350217 Score: 226
Period size: 28 Copynumber: 6.2 Consensus size: 28
18350035 TACTGCACTG
* *
18350045 CACT-ATTACTGTACTGGGCTAAGGCCTA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
* *
18350073 CACTGATTCTATATTAGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
18350101 CACTG-TTACTGTATTGGGCTAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
*
18350129 CACTGATTCTGTATTGGGTTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
18350157 TACTGATTCTGTATTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
* *
18350185 CACTG-TTACTATATTGGGATAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
18350213 CACTG
1 CACTG
18350218 TACTGGCATT
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
27 4 0.03
28 120 0.93
29 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (28 bp):
CACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:18350194 original size:84 final size:85
Alignment explanation
Indices: 18350045--18350217 Score: 260
Period size: 84 Copynumber: 2.1 Consensus size: 85
18350035 TACTGCACTG
*
18350045 CACT-ATTACTGTACTGGGCTAAGGCCTACACTGATTCTATATTAGGCTAAGGCCCACACTGTTA
1 CACTGATTACTGTACTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTA
* *
18350109 CTGTATTGGGCTAAGGCCCA
66 CTATATTGGGATAAGGCCCA
* * * * *
18350129 CACTGATT-CTGTATTGGGTTAAGGCCCATACTGATTCTGTATTGGGCTAAGGCCCACACTGTTA
1 CACTGATTACTGTACTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTA
18350193 CTATATTGGGATAAGGCCCA
66 CTATATTGGGATAAGGCCCA
18350213 CACTG
1 CACTG
18350218 TACTGGCATT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 77 0.96
85 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (85 bp):
CACTGATTACTGTACTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTA
CTATATTGGGATAAGGCCCA
Found at i:18350918 original size:21 final size:21
Alignment explanation
Indices: 18350883--18350927 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
18350873 AAAGAACCTT
*
18350883 AAAGTCTTGTTTTAGGGCTTAA
1 AAAGTCTTATTTTA-GGCTTAA
*
18350905 AAAGTC-TATTTTAGGCTTGA
1 AAAGTCTTATTTTAGGCTTAA
18350925 AAA
1 AAA
18350928 TCAGTGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (21 bp):
AAAGTCTTATTTTAGGCTTAA
Found at i:18353511 original size:45 final size:45
Alignment explanation
Indices: 18353411--18353511 Score: 103
Period size: 47 Copynumber: 2.2 Consensus size: 45
18353401 AGTGCTGAGC
* * * * * * * *
18353411 ACACATATATATTGTATTTGTTGGTTTCACCGACCAATACTGGGC
1 ACACATATATATTATAGTTGTCGATTTCACCAAACAATACAGGGA
*
18353456 ACACTTATATATATTATAGTTGTCGATTTCACCAAACAGTACAGGGA
1 ACAC--ATATATATTATAGTTGTCGATTTCACCAAACAATACAGGGA
18353503 ACACATATA
1 ACACATATA
18353512 AATAATATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
45 9 0.20
47 36 0.80
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (45 bp):
ACACATATATATTATAGTTGTCGATTTCACCAAACAATACAGGGA
Found at i:18355098 original size:22 final size:23
Alignment explanation
Indices: 18355072--18355114 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18355062 CATGTAATGG
18355072 AAACATAG-TATTGAACTTTTGA
1 AAACATAGTTATTGAACTTTTGA
* *
18355094 AAACATCGTTATTGAGCTTTT
1 AAACATAGTTATTGAACTTTT
18355115 TATTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (23 bp):
AAACATAGTTATTGAACTTTTGA
Found at i:18355889 original size:36 final size:34
Alignment explanation
Indices: 18355827--18355894 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
18355817 ACAAATTTTC
*
18355827 AATAGGCATGCTTTACATGCAAATCAGAATTTCGT
1 AATAGGCATGCTTAACATGCAAATCAG-ATTTCGT
**
18355862 AATATGGCATGCTTAACATGCGGATCAGATTTC
1 AATA-GGCATGCTTAACATGCAAATCAGATTTC
18355895 ATATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (34 bp):
AATAGGCATGCTTAACATGCAAATCAGATTTCGT
Found at i:18359064 original size:16 final size:15
Alignment explanation
Indices: 18359039--18359068 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18359029 ATTAAATTAA
18359039 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
18359054 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
18359069 TGCAAGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:18382058 original size:42 final size:42
Alignment explanation
Indices: 18381920--18382146 Score: 212
Period size: 43 Copynumber: 5.4 Consensus size: 42
18381910 CTCGGTGTAT
* * * *
18381920 TCAGCACTTGGCTACCACC-TTA-AATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * *
18381961 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGATGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACG-GGGAA
* * *
18382004 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* * *
18382046 TCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACAGTGAAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATAC-GGGGAA
* * *
18382089 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
*
18382131 TAAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
18382147 CTTTGGGGAA
Statistics
Matches: 151, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 20 0.13
42 58 0.38
43 61 0.40
44 10 0.07
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:18382062 original size:85 final size:85
Alignment explanation
Indices: 18381920--18382147 Score: 318
Period size: 85 Copynumber: 2.7 Consensus size: 85
18381910 CTCGGTGTAT
* * *
18381920 TCAGCACTTGGCTACCACC-TTAAATTCAGTGATATGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
*
18381984 CAATCAAAGATAC-GATGGAA
66 CAATCAAAGATACAG-TGAAA
*
18382004 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
*
18382069 CAATCAAATATACAGTGAAA
66 CAATCAAAGATACAGTGAAA
* * * * *
18382089 TCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATAAGCACTTAGCAACCC
1 TCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAACCC
18382148 TTTGGGGAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
84 17 0.13
85 110 0.85
86 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
CAATCAAAGATACAGTGAAA
Found at i:18399132 original size:20 final size:20
Alignment explanation
Indices: 18399109--18399156 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
18399099 TTGCACTATA
18399109 GTGTCTCTGTATACACTTCG
1 GTGTCTCTGTATACACTTCG
* * * *
18399129 GTGTCCCTTTTTTCACTTCG
1 GTGTCTCTGTATACACTTCG
*
18399149 GTGCCTCT
1 GTGTCTCT
18399157 TTTATGCATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.08, C:0.29, G:0.19, T:0.44
Consensus pattern (20 bp):
GTGTCTCTGTATACACTTCG
Found at i:18404235 original size:14 final size:15
Alignment explanation
Indices: 18404211--18404241 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
18404201 TCAAGCTATG
18404211 TTTACAAGTTATGTT
1 TTTACAAGTTATGTT
18404226 TTTA-AAGTTATGTT
1 TTTACAAGTTATGTT
18404240 TT
1 TT
18404242 ACGCGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTACAAGTTATGTT
Found at i:18404241 original size:13 final size:14
Alignment explanation
Indices: 18404198--18404243 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
18404188 TAAGACTCTA
*
18404198 TTTT-CAAGCTATG
1 TTTTACAAGTTATG
18404211 -TTTACAAGTTATG
1 TTTTACAAGTTATG
18404224 TTTTTA-AAGTTATG
1 -TTTTACAAGTTATG
18404238 TTTTAC
1 TTTTAC
18404244 GCGTCCTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 8 0.29
15 4 0.14
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTTACAAGTTATG
Found at i:18407418 original size:38 final size:38
Alignment explanation
Indices: 18407366--18407442 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
18407356 TTTGTGTTTT
18407366 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
1 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
*
18407404 TCTTTGCTATTTTCTTAACGCGTCTTTTATAAAATAAC
1 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
18407442 T
1 T
18407443 AAATTATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (38 bp):
TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
Found at i:18408612 original size:13 final size:13
Alignment explanation
Indices: 18408594--18408618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18408584 CTACAAATGC
18408594 TTGTTTAGTGAAA
1 TTGTTTAGTGAAA
18408607 TTGTTTAGTGAA
1 TTGTTTAGTGAA
18408619 CTAAGCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
TTGTTTAGTGAAA
Found at i:18410345 original size:28 final size:28
Alignment explanation
Indices: 18410283--18410346 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
18410273 TGATTTCGCG
*
18410283 AAAAATGGACCATTCCGGTAAATTATTA
1 AAAAAAGGACCATTCCGGTAAATTATTA
* * * *
18410311 CATAAAGGCCCATTTCGGTAAATT-TTGA
1 AAAAAAGGACCATTCCGGTAAATTATT-A
18410339 AAAAAAGG
1 AAAAAAGG
18410347 GCTTTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (28 bp):
AAAAAAGGACCATTCCGGTAAATTATTA
Found at i:18410547 original size:17 final size:18
Alignment explanation
Indices: 18410511--18410548 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18410501 GTCTTTTATG
* *
18410511 TATATTCTTGTATGTTTT
1 TATATTCTTGGATATTTT
18410529 TATATT-TTGGATATTTT
1 TATATTCTTGGATATTTT
18410546 TAT
1 TAT
18410549 GTAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (18 bp):
TATATTCTTGGATATTTT
Found at i:18410556 original size:21 final size:21
Alignment explanation
Indices: 18410532--18410571 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18410522 ATGTTTTTAT
*
18410532 ATTTTGGATATTTTTATGTAA
1 ATTTTGGATAATTTTATGTAA
*
18410553 ATTTTGTATAATTTTATGT
1 ATTTTGGATAATTTTATGT
18410572 GTTTTCCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTTGGATAATTTTATGTAA
Found at i:18416892 original size:25 final size:25
Alignment explanation
Indices: 18416864--18416924 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
18416854 CCTGTACATG
* *
18416864 TATGCTCACACGAGCTGTGAATCGA
1 TATGCTCACACGAGCTGTAAATCAA
*
18416889 TATGCTCACATGAGCTGTAAATCAA
1 TATGCTCACACGAGCTGTAAATCAA
18416914 TATGCTCACAC
1 TATGCTCACAC
18416925 AAATTGTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAAATCAA
Found at i:18417433 original size:65 final size:65
Alignment explanation
Indices: 18417329--18417458 Score: 233
Period size: 65 Copynumber: 2.0 Consensus size: 65
18417319 GATCTATACG
* *
18417329 GATAAATTGAACTTAATTCAATATATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
1 GATAAATTCAACTTAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
*
18417394 GATAAATTCAACTTAATTCAATAGATATTTCATTCAATTTAACCCAAATTAATTTTTGGAAAAAT
1 GATAAATTCAACTTAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
18417459 TATTATTTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (65 bp):
GATAAATTCAACTTAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
Found at i:18422111 original size:29 final size:29
Alignment explanation
Indices: 18422053--18422383 Score: 208
Period size: 29 Copynumber: 11.4 Consensus size: 29
18422043 ACCTCAAATA
* * *
18422053 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* *
18422082 ATGAAAAGGGAT-GGTGACGACCATCAATT
1 ATGAAAAGGGATAGCT-TCGACCATCAATT
* *
18422111 ATTG-AAAGGGAT-GGTGACGACCATCGAA-T
1 A-TGAAAAGGGATAGCT-TCGACCATC-AATT
* * * *
18422140 ATGAAAAGGGATAGCTTTGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* * * *
18422169 GTGAAAAGGGATAACTTTGGCCATCGAA-T
1 ATGAAAAGGGATAGCTTCGACCATC-AATT
* * * *
18422198 ATGAAAAGGGATAGCTTTGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* * * *
18422227 GTGAAAAGGGATAACTTTGGCCATCGAA-T
1 ATGAAAAGGGATAGCTTCGACCATC-AATT
* * *
18422256 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* *** *
18422285 ATGAAAAGGGATGGAAACGACCATCAACT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* *
18422314 ATGAAAAGGGAT-GGTGACGACCATCAATT
1 ATGAAAAGGGATAGCT-TCGACCATCAATT
* * *
18422343 AATGAAAAGGGATGGTTTCGACCATCAAAT
1 -ATGAAAAGGGATAGCTTCGACCATCAATT
*
18422373 ATGAAAGGGGA
1 ATGAAAAGGGA
18422384 CAGTTACAAC
Statistics
Matches: 250, Mismatches: 39, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
28 10 0.04
29 205 0.82
30 33 0.13
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACCATCAATT
Found at i:18422166 original size:58 final size:58
Alignment explanation
Indices: 18422054--18422383 Score: 237
Period size: 58 Copynumber: 5.7 Consensus size: 58
18422044 CCTCAAATAA
* * * * * * * *
18422054 TGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGAT-GGTGACGACCATCAATTAT
1 TGAAAAGGGAT-GGTTCGACCATCGAATATGAAAAGGGATAGCT-TCGGCTATCAATTAT
* *
18422113 TG-AAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCAA--AT
1 TGAAAAGGGATGGT-TCGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTAT
** * * *
18422169 GTGAAAAGGGATAACTTTGGCCATCGAATATGAAAAGGGATAGCTTTGGCTATCAA--AT
1 -TGAAAAGGGAT-GGTTCGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTAT
** * * *
18422227 GTGAAAAGGGATAACTTTGGCCATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTA-
1 -TGAAAAGGGAT-GGTTCGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTAT
** * * * * *
18422286 TGAAAAGGGATGGAAACGACCATC-AACTATGAAAAGGGAT-GGTGACGACCATCAATTAA
1 TGAAAAGGGATGG-TTCGACCATCGAA-TATGAAAAGGGATAGCT-TCGGCTATCAATTAT
* *
18422345 TGAAAAGGGATGGTTTCGACCATCAAATATGAAAGGGGA
1 TGAAAAGGGATGG-TTCGACCATCGAATATGAAAAGGGA
18422384 CAGTTACAAC
Statistics
Matches: 227, Mismatches: 32, Indels: 24
0.80 0.11 0.08
Matches are distributed among these distances:
56 2 0.01
57 8 0.04
58 177 0.78
59 37 0.16
60 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (58 bp):
TGAAAAGGGATGGTTCGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTAT
Found at i:18422206 original size:87 final size:85
Alignment explanation
Indices: 18422115--18422325 Score: 233
Period size: 87 Copynumber: 2.4 Consensus size: 85
18422105 TCAATTATTG
* * *
18422115 AAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCAAATGTGAAAAGGGA
1 AAAGGGATGGT-ACGACCATC-AATATGAAAAGGGATAACTTTGGCCATCAAATATGAAAAGGGA
*
18422180 TAACTTTGGCCATCGAATATGA
64 TAACTTCGGCCATCGAATATGA
* ** * * * *
18422202 AAAGGGATAGCTTTGGCTATCAAATGTGAAAAGGGATAACTTTGGCCATCGAATATGAAAAGGGA
1 AAAGGGAT-GGTACGACCATC-AATATGAAAAGGGATAACTTTGGCCATCAAATATGAAAAGGGA
* * *
18422267 TAGCTTCGGCTATCGATTATGA
64 TAACTTCGGCCATCGAATATGA
*
18422289 AAAGGGATGGAAACGACCATCAACTATGAAAAGGGAT
1 AAAGGGATGG-TACGACCATCAA-TATGAAAAGGGAT
18422326 GGTGACGACC
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
86 3 0.03
87 94 0.95
88 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (85 bp):
AAAGGGATGGTACGACCATCAATATGAAAAGGGATAACTTTGGCCATCAAATATGAAAAGGGATA
ACTTCGGCCATCGAATATGA
Found at i:18422396 original size:59 final size:59
Alignment explanation
Indices: 18422285--18422398 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
18422275 GCTATCGATT
* ** *
18422285 ATGAAAAGGGATGGAAACGACCATCAACTATGAAAAGGGATGGTGACGACCATCAATTA
1 ATGAAAAGGGATGGAAACGACCATCAAATATGAAAAGGGACAGTGACAACCATCAATTA
*** * *
18422344 ATGAAAAGGGATGGTTTCGACCATCAAATATGAAAGGGGACAGTTACAACCATCA
1 ATGAAAAGGGATGGAAACGACCATCAAATATGAAAAGGGACAGTGACAACCATCA
18422399 TTTAGCACAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (59 bp):
ATGAAAAGGGATGGAAACGACCATCAAATATGAAAAGGGACAGTGACAACCATCAATTA
Found at i:18439720 original size:49 final size:49
Alignment explanation
Indices: 18439664--18440172 Score: 761
Period size: 49 Copynumber: 10.6 Consensus size: 49
18439654 TATTTGAATA
*
18439664 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
18439713 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
18439762 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
18439809 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
18439858 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
18439907 AATGTGAAAGTGTATATATATGTGATAAGGCCGAAAGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
18439956 AATGTGAAAGTGTATATATATGTGATAAGGGCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
18440005 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
18440052 AATGTGAAAGTG--TATATATGTGATTAGGCCTAATGGCCGATGTAATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
18440099 AATGTGAAAGTG--TATATATGTGA-CAGGGCTGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATG
*
18440146 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
18440173 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 21, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
46 5 0.01
47 176 0.41
48 3 0.01
49 249 0.58
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:18439942 original size:27 final size:27
Alignment explanation
Indices: 18439863--18439943 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
18439853 TGATGAATGT
18439863 GAAAGTGTATATATATGTGATAAGGCC
1 GAAAGTGTATATATATGTGATAAGGCC
*** * *
18439890 G-AA-TG--GCCA-ATGTGATGAATG-T
1 GAAAGTGTATATATATGTGAT-AAGGCC
18439912 GAAAGTGTATATATATGTGATAAGGCC
1 GAAAGTGTATATATATGTGATAAGGCC
18439939 GAAAG
1 GAAAG
18439944 GCCAATGTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
22 8 0.22
23 6 0.16
24 2 0.05
25 2 0.05
26 6 0.16
27 13 0.35
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.27
Consensus pattern (27 bp):
GAAAGTGTATATATATGTGATAAGGCC
Found at i:18439972 original size:145 final size:144
Alignment explanation
Indices: 18439664--18440172 Score: 758
Period size: 145 Copynumber: 3.5 Consensus size: 144
18439654 TATTTGAATA
*
18439664 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
18439729 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
65 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
18439794 ATGGCCGATGTGATG
130 ATGGCCGATGTGATG
*
18439809 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
18439874 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
18439939 GAAAGGCCAATGTGATG
128 GAATGGCCGATGTGATG
* * * *
18439956 AATGTGAAAGTGTATATATATGTGATAAGGGCTAATAGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
18440019 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATTAGGCCTA
65 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
18440084 ATGGCCGATGTAATG
130 ATGGCCGATGTGATG
* * * * * *
18440099 AATGTGAAAGTG-TATATATGTGACAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
18440162 A-ATGTGATAAG
66 ATATGTGATAAG
18440173 TCCCGAAGGG
Statistics
Matches: 333, Mismatches: 27, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
141 47 0.14
142 1 0.00
143 44 0.13
145 150 0.45
147 91 0.27
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (144 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
TGGCCGATGTGATG
Found at i:18447754 original size:27 final size:27
Alignment explanation
Indices: 18447724--18447901 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
18447714 ATATTGAGCC
* *
18447724 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
18447751 CGCACACTTAGTGCTACGTAATCCAA-T
1 CGCACACTTAGTGCTACATAAT-CAACT
*
18447778 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18447806 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18447833 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18447860 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
18447887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18447902 GTACAATTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18448398 original size:12 final size:12
Alignment explanation
Indices: 18448381--18448406 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18448371 ATGGCATACT
18448381 TATGTATATATA
1 TATGTATATATA
18448393 TATGTATATATA
1 TATGTATATATA
18448405 TA
1 TA
18448407 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:18449523 original size:11 final size:11
Alignment explanation
Indices: 18449507--18449531 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18449497 CCTCACTAGG
18449507 CCAACATGTTT
1 CCAACATGTTT
18449518 CCAACATGTTT
1 CCAACATGTTT
18449529 CCA
1 CCA
18449532 CCCATAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (11 bp):
CCAACATGTTT
Found at i:18455924 original size:27 final size:27
Alignment explanation
Indices: 18455894--18456071 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
18455884 ATATTGAGCC
* *
18455894 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
18455921 CGCACACTTAGTGCTACGTAATCCAA-T
1 CGCACACTTAGTGCTACATAAT-CAACT
*
18455948 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18455976 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18456003 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18456030 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
18456057 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18456072 GTACAATTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18456568 original size:12 final size:12
Alignment explanation
Indices: 18456551--18456577 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18456541 ATGGCATACT
18456551 TATGTATATATA
1 TATGTATATATA
18456563 TATGTATATATA
1 TATGTATATATA
18456575 TAT
1 TAT
18456578 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:18457694 original size:11 final size:11
Alignment explanation
Indices: 18457678--18457702 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18457668 CCTCACTAGG
18457678 CCAACATGTTT
1 CCAACATGTTT
18457689 CCAACATGTTT
1 CCAACATGTTT
18457700 CCA
1 CCA
18457703 CCCATAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (11 bp):
CCAACATGTTT
Found at i:18459757 original size:19 final size:19
Alignment explanation
Indices: 18459733--18459776 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
18459723 AATAAACACC
18459733 AAAAAATTATTTTAAAAATA
1 AAAAAATTATTTT-AAAATA
*
18459753 AAAAAAGTATTTTAAAATA
1 AAAAAATTATTTTAAAATA
18459772 AAAAA
1 AAAAA
18459777 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAAATTATTTTAAAATA
Found at i:18460829 original size:7 final size:7
Alignment explanation
Indices: 18460817--18460849 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
18460807 TACAGCTGCA
18460817 TCTTTGT
1 TCTTTGT
18460824 TCTTTGT
1 TCTTTGT
18460831 TCTTTGT
1 TCTTTGT
*
18460838 TCTTCGT
1 TCTTTGT
18460845 TCTTT
1 TCTTT
18460850 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.70
Consensus pattern (7 bp):
TCTTTGT
Found at i:18467216 original size:21 final size:22
Alignment explanation
Indices: 18467192--18467236 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
18467182 TATTTAAACC
*
18467192 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
18467213 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
18467235 AA
1 AA
18467237 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:18471091 original size:17 final size:16
Alignment explanation
Indices: 18471069--18471100 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18471059 TCCTTAAATG
18471069 GTTTATTTACCATTTAA
1 GTTTATTTACC-TTTAA
18471086 GTTTATTTACCTTTA
1 GTTTATTTACCTTTA
18471101 TTCATTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
GTTTATTTACCTTTAA
Found at i:18472944 original size:15 final size:15
Alignment explanation
Indices: 18472924--18472955 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18472914 TAAATTAGTT
18472924 CAAACTATAGAAACA
1 CAAACTATAGAAACA
*
18472939 CAAACTGTAGAAACA
1 CAAACTATAGAAACA
18472954 CA
1 CA
18472956 GTGCGGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.09, T:0.12
Consensus pattern (15 bp):
CAAACTATAGAAACA
Found at i:18473101 original size:20 final size:20
Alignment explanation
Indices: 18473073--18473110 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18473063 TACAGAATAA
18473073 AATAAAC-AACACATTTCATC
1 AATAAACAAACA-ATTTCATC
*
18473093 AATACACAAACAATTTCA
1 AATAAACAAACAATTTCA
18473111 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAACAAACAATTTCATC
Found at i:18477567 original size:28 final size:28
Alignment explanation
Indices: 18477525--18477585 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18477515 CTATTCAGTA
* * *
18477525 ACAGT-ACAGTGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
18477552 ACAGTAACAATGTGGGCCTTAACCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
*
18477580 ATAGTA
1 ACAGTA
18477586 TCGGTGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAACCCAAT
Found at i:18477722 original size:26 final size:26
Alignment explanation
Indices: 18477693--18477773 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
18477683 AACACACCAA
*
18477693 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
18477719 TATCGCAGCGAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
18477745 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
18477771 TAT
1 TAT
18477774 ACTTCTTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:18478040 original size:27 final size:27
Alignment explanation
Indices: 18477939--18478049 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
18477929 GTATAACAGC
* *
18477939 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
18477966 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
*
18477993 CATTTTACCTTATGGGGGTAATTCGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
18478020 CCTTTTACCCTATGGGGGTAATTCAGT
1 CATTTTACCCTATGGGGGTAATTCGGT
18478047 CAT
1 CAT
18478050 ACCAGTGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTAATTCGGT
Found at i:18478929 original size:18 final size:18
Alignment explanation
Indices: 18478906--18478947 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
18478896 TTCGGTAATC
*
18478906 AAAGAAG-AGAGAAAGTAA
1 AAAGAAGAAGAAAAAG-AA
18478924 AAAGAAAGAAGAAAAAGAA
1 AAAG-AAGAAGAAAAAGAA
18478943 AAAGA
1 AAAGA
18478948 TGAGGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAGAA
Found at i:18483173 original size:21 final size:20
Alignment explanation
Indices: 18483149--18483190 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
18483139 TAGAGACAAA
18483149 ATCAGATAAAC-AACACATTTC
1 ATCA-ATAAACAAACA-ATTTC
*
18483170 ATCAATACACAAACAATTTC
1 ATCAATAAACAAACAATTTC
18483190 A
1 A
18483191 CATTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (20 bp):
ATCAATAAACAAACAATTTC
Done.