Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 57 of 163
Found at i:18687244 original size:22 final size:23
Alignment explanation
Indices: 18687219--18687263 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
18687209 AAAGAAAACA
* *
18687219 AAAAAATGAAAATG-AAAAATGG
1 AAAAAAGGAAAAAGTAAAAATGG
18687241 AA-AAAGGAAAAAGTAAAAATGG
1 AAAAAAGGAAAAAGTAAAAATGG
18687263 A
1 A
18687264 GAGGCTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (23 bp):
AAAAAAGGAAAAAGTAAAAATGG
Found at i:18688712 original size:88 final size:88
Alignment explanation
Indices: 18688456--18688692 Score: 348
Period size: 88 Copynumber: 2.7 Consensus size: 88
18688446 AAAATCACAA
* ** *
18688456 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTTG
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
*
18688521 CAGTGAAGCAGATCGAATACACC
66 CAGTGAAGCAGATCGAAGACACC
* * *
18688544 AGCCTTATCTCCCTAAGGAGAAGTGGAGTAGGTTCAAGATAGCAGATCTTGCCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
*
18688609 CAGTGAAGCAGATCGAAGACACT
66 CAGTGAAGCAGATCGAAGACACC
* * * **
18688632 AGCCTTATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATAGCGGATCTTATCTTCCTGTA
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA
18688693 ATGGAAACGA
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 132 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
CAGTGAAGCAGATCGAAGACACC
Found at i:18688837 original size:50 final size:50
Alignment explanation
Indices: 18688781--18689455 Score: 415
Period size: 50 Copynumber: 13.5 Consensus size: 50
18688771 TTTGGCATTA
* * * * *
18688781 CAGTGGAATAGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * * *
18688831 TAGTGGAACAGATTGAAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTA
1 CAGTGGAACAGATTGAAGCTACAACA-GCGAATCTTACTTCCCCGGCAGTG
** * * * ** *
18688881 CAGTTAAAAAGATTGAAGCTACAACAACGAATCTTAGTTCCTAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * *
18688931 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * ** *
18688981 CGGT-TAAAAGATTGAAGCTATAACATTGAATCTTACTTCCCAGGC-GATG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAG-TG
* * * *
18689030 TAGTGGAACATG-TTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACA-GATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * *
18689080 CAGTTAAAAAGAATGAAGCTACAACAACGAATCTTACTTCACAGGCAGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * ** * * *
18689130 CAGTGGAACAAATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * ** *
18689180 CAGTTAAAAAGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * * * * * *
18689230 CAGTGGAACAAATTGAATCTATAACGGCGAGTTTTGCTTCCTCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * *** * *
18689280 CAGTTAAAAAGATTGAAGCTATAACAGCGAATCTTTCTTACCTAACATTT
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * * * * *
18689330 CAGTAAAATAAATTGAAGCTGCAACAGCTAATCCTACCTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * *
18689380 TAGTGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * *
18689430 CAAAT-AAACTGATTGAAGCTACAACA
1 C-AGTGGAACAGATTGAAGCTACAACA
18689456 ACAAACCTGA
Statistics
Matches: 453, Mismatches: 164, Indels: 16
0.72 0.26 0.03
Matches are distributed among these distances:
49 39 0.09
50 408 0.90
51 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
Found at i:18689133 original size:199 final size:198
Alignment explanation
Indices: 18688790--18689323 Score: 730
Period size: 199 Copynumber: 2.7 Consensus size: 198
18688780 ACAGTGGAAT
* * *
18688790 AGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTAAAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAG-TTGAAGCTAAAC
* * *
18688855 AGGCAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTGAAGCTACAACAACGAATCTTAGTT
65 A-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
* * * *
18688920 CCTAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCGGT
129 CCTAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGT
18688985 T-AAA
194 TAAAA
* * *
18688989 AGATTGAAGCTATAACATTGAATCTTACTTCCCAGGCGATGTAGTGGAACATGTTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACA-GTTGAAGCTA-AA
*
18689054 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAATGAAGCTACAACAACGAATCTTACTT
64 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
** *
18689119 CAC-AGGCAGTGCAGTGGAACAAATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAG
129 C-CTAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAG
18689183 TTAAAA
193 TTAAAA
* * * *
18689189 AGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTGCAGTGGAACAAATTGAATCTATAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAAC-AGTTGAAGCTA-AA
* * * * * * *
18689254 CGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAGCTATAACAGCGAATCTTTCTT
64 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
18689319 ACCTA
129 -CCTA
18689324 ACATTTCAGT
Statistics
Matches: 295, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
199 171 0.58
200 121 0.41
201 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (198 bp):
AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGTTGAAGCTAAACA
GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTTCC
TAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTA
AAA
Found at i:18689299 original size:150 final size:149
Alignment explanation
Indices: 18688781--18689455 Score: 511
Period size: 150 Copynumber: 4.5 Consensus size: 149
18688771 TTTGGCATTA
* * * * * * ** * ** *
18688781 CAGTGGAATAGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCCC-GACATTGCAGTTAAAAAGATTG
* * * *
18688846 AAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTGAAGCTACAACAACG
65 AAGCTATAACA-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
18688910 AATCTTAGTTCCTAGGCGGTG
129 AATCTTACTTCCTAGGCGGTG
* * *
18688931 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCGGTT-AAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTT-CCCGACATTGCAGTTAAAAAGATTG
** * * * * * * *
18688995 AAGCTATAACATTGAATCTTACTTCCCAGGCGA-TGTAGTGGAACATG-TTGAAGCTACAACAGC
65 AAGCTATAACAGCGAATCTTGCTTCCCCGAC-ATTGCAGT-TAAAAAGATTGAAGCTACAACAGC
* ** * **
18689058 GAATCTTGCTTCCCCGACATTG
128 GAATCTTACTTCCTAGGCGGTG
* * * * * * * * * *
18689080 CAGT-TAAAAAGAATGAAGCTACAACAACGAATCTTACTTCACAGGCAGTGCAGTGGAACAA-AT
1 CAGTGGAACAA-ATTGAAGCTACAACAGCGAATCTTGCTTC-CCGACATTGCAGT-TAAAAAGAT
* * ** *
18689143 TAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGT
63 TGAAGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGC
18689208 GAATCTTACTTCCTAGGCGGTG
128 GAATCTTACTTCCTAGGCGGTG
* * * * *
18689230 CAGTGGAACAAATTGAATCTATAACGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCC-CGACATTGCAGTTAAAAAGATTG
* * ** * * * *
18689295 AAGCTATAACAGCGAATCTTTCTTACCTAACATTTCAG-TAAAATAAATTGAAGCTGCAACAGCT
65 AAGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA-AGATTGAAGCTACAACAGCG
* *
18689359 AATCCTACCTCCCT-GGCGGTG
129 AATCTTA-CTTCCTAGGCGGTG
* * * ** ** **
18689380 TAGTGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTGCAAATAAACTGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTT-GCTTCCCGACATTGCAGTTAAAAAGATTG
*
18689445 AAGCTACAACA
65 AAGCTATAACA
18689456 ACAAACCTGA
Statistics
Matches: 399, Mismatches: 110, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
148 4 0.01
149 114 0.29
150 262 0.66
151 19 0.05
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (149 bp):
CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCCCGACATTGCAGTTAAAAAGATTGA
AGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCGAA
TCTTACTTCCTAGGCGGTG
Found at i:18689346 original size:100 final size:100
Alignment explanation
Indices: 18688790--18689323 Score: 655
Period size: 100 Copynumber: 5.3 Consensus size: 100
18688780 ACAGTGGAAT
* ** * * *
18688790 AGATTGAAGCTACAGCAGTGAATCTTACTTCCCT-GGCGGTGTAGTGGAACAGATTGAAGCTA-A
1 AGATTGAAGCTACAACAACGAATCTTACTT-CCTAGGCAGTGCAGTGGAACAAATTGAAGCTACA
* * *
18688853 AAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAA
65 ACA-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
18688890 AGATTGAAGCTACAACAACGAATCTTAGTTCCTAGGCGGTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
* *
18688955 CAGCAAATCTTGCTTCCCCGACATTGCGGTT-AAA
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* ** * * **
18688989 AGATTGAAGCTATAACATTGAATCTTACTTCCCAGGC-GATGTAGTGGAACATGTTGAAGCTACA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAG-TGCAGTGGAACAAATTGAAGCTACA
18689053 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
65 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
18689089 AGAATGAAGCTACAACAACGAATCTTACTTCAC-AGGCAGTGCAGTGGAACAAATTAAAGCTACA
1 AGATTGAAGCTACAACAACGAATCTTACTTC-CTAGGCAGTGCAGTGGAACAAATTGAAGCTACA
**
18689153 ATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
65 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
** * * *
18689189 AGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTGCAGTGGAACAAATTGAATCTATAA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
* * * *
18689254 CGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAA
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
18689289 AGATTGAAGCTATAACAGCGAATCTTTCTTACCTA
1 AGATTGAAGCTACAACAACGAATCTTACTT-CCTA
18689324 ACATTTCAGT
Statistics
Matches: 384, Mismatches: 42, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
98 1 0.00
99 91 0.24
100 283 0.74
101 9 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:18690372 original size:14 final size:14
Alignment explanation
Indices: 18690353--18690380 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18690343 TGATAGAAAA
18690353 CTGATTTTAGGGTT
1 CTGATTTTAGGGTT
18690367 CTGATTTTAGGGTT
1 CTGATTTTAGGGTT
18690381 ATAAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (14 bp):
CTGATTTTAGGGTT
Found at i:18695324 original size:43 final size:41
Alignment explanation
Indices: 18695267--18695381 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 41
18695257 TATATTCAGT
*
18695267 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAG
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAG
* * *
18695309 GATACGGTGGAATCAGCAGTTAGCAACCACCTTTAGAATCAAT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAG
* * * *
18695352 AATTCGGGGAAACAGCACTTAGCAGCCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
18695382 CAGGGAATCT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 3 0.05
42 24 0.39
43 30 0.48
44 5 0.08
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAATCAAG
Found at i:18695387 original size:26 final size:26
Alignment explanation
Indices: 18695358--18695407 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18695348 CAATAATTCG
*
18695358 GGGAAAC-AGCACTTAGCAGCCCCTCA
1 GGGAAACTA-CACTTAGCAACCCCTCA
*
18695384 GGGAATCTACACTTAGCAACCCCT
1 GGGAAACTACACTTAGCAACCCCT
18695408 TTTTGATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (26 bp):
GGGAAACTACACTTAGCAACCCCTCA
Found at i:18695429 original size:41 final size:41
Alignment explanation
Indices: 18695384--18695572 Score: 279
Period size: 41 Copynumber: 4.6 Consensus size: 41
18695374 CAGCCCCTCA
* * *
18695384 GGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
18695425 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
18695466 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
* * * ** *
18695507 GGAAATTTGCACTTAGCAACCCCTTTTTGATCTGTGATTCA
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
* *
18695548 GGAAATCTGCACTTAGCAATCCCTT
1 GGGAATCTGCACTTAGCAACCCCTT
18695573 ACATTCAATG
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
Found at i:18697073 original size:13 final size:14
Alignment explanation
Indices: 18697055--18697083 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18697045 AAAATTGCTT
18697055 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
18697068 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
18697082 AA
1 AA
18697084 GCCACAAAGC
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:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:18706601 original size:20 final size:20
Alignment explanation
Indices: 18706554--18706630 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
18706544 TACACTAGAC
*
18706554 CAGAGGCATC-ATAGATGCATAT
1 CAGAGGCATCGA-AG-TGCA-AG
18706576 CAGAGGCATCGAAGTGCAAG
1 CAGAGGCATCGAAGTGCAAG
* *
18706596 CAGAGGCA-CAAATATGCAAG
1 CAGAGGCATCGAA-GTGCAAG
* *
18706616 TAGAGGCACCGAAGT
1 CAGAGGCATCGAAGT
18706631 ACAAACAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.07
20 23 0.50
21 7 0.15
22 12 0.26
23 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (20 bp):
CAGAGGCATCGAAGTGCAAG
Found at i:18706629 original size:40 final size:40
Alignment explanation
Indices: 18706568--18706675 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
18706558 GGCATCATAG
* * * *
18706568 ATGCATATCAGAGGCATCGAAGTGCAAGCAGAGGCACAAAT
1 ATGCA-ATCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
* *
18706609 ATGCAAGT-AGAGGCACCGAAGTACAAACAGAAGAACGAAT
1 ATGCAA-TCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
* **
18706649 GTGTGATCAGAGGCACCGAAGTGCAAA
1 ATGCAATCAGAGGCACCGAAGTGCAAA
18706676 TCCCGTACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.02
40 48 0.87
41 6 0.11
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (40 bp):
ATGCAATCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
Found at i:18714113 original size:19 final size:20
Alignment explanation
Indices: 18714086--18714123 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18714076 GTTTCTTTTG
*
18714086 GCTTACAC-TATTTAAAGAT
1 GCTTACACTTATGTAAAGAT
*
18714105 GCTTGCACTTATGTAAAGA
1 GCTTACACTTATGTAAAGA
18714124 ACTACGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
GCTTACACTTATGTAAAGAT
Found at i:18726497 original size:68 final size:68
Alignment explanation
Indices: 18726418--18726599 Score: 238
Period size: 80 Copynumber: 2.5 Consensus size: 68
18726408 AAAGATTTTT
*
18726418 TATGCATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
1 TATGTATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
18726483 ACA
66 ACA
18726486 TATGTATATTACTTTATTATACACTATTATTTTTTACTATTATTATATATTTGGTTACATTTTCG
1 TATGTATATTACTTTATTATACAC---TA-----T--TATT-TT-TATATTTGGTTACATTTTCG
*
18726551 GTTACTTTTTTTACA
54 GTTACCTTTTTTACA
18726566 TATGTATATTACTTTATTATACACTATTATTTTT
1 TATGTATATTACTTTATTATACACTATTATTTTT
18726600 TACTATTATT
Statistics
Matches: 100, Mismatches: 2, Indels: 24
0.79 0.02 0.19
Matches are distributed among these distances:
68 24 0.24
69 2 0.02
70 4 0.04
71 2 0.02
72 1 0.01
76 1 0.01
77 2 0.02
78 4 0.04
79 2 0.02
80 58 0.58
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (68 bp):
TATGTATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
ACA
Found at i:18726563 original size:80 final size:80
Alignment explanation
Indices: 18726440--18726609 Score: 313
Period size: 80 Copynumber: 2.1 Consensus size: 80
18726430 TTTATTATAC
*
18726440 ACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTA
1 ACTATTA-TTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTA
18726505 TACACTATTATTTTTT
65 TACACTATTATTTTTT
*
18726521 ACTATTATTATATATTTGGTTACATTTTCGGTTACTTTTTTTACATATGTATATTACTTTATTAT
1 ACTATTATTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTAT
18726586 ACACTATTATTTTTT
66 ACACTATTATTTTTT
18726601 ACTATTATT
1 ACTATTATT
18726610 NNNNNNNNNN
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
80 80 0.92
81 7 0.08
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.58
Consensus pattern (80 bp):
ACTATTATTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTAT
ACACTATTATTTTTT
Found at i:18731992 original size:13 final size:12
Alignment explanation
Indices: 18731971--18732004 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18731961 AAAAAGAAGA
*
18731971 AAAAGAAAAATC
1 AAAATAAAAATC
18731983 AAAATCAAAAATC
1 AAAAT-AAAAATC
18731996 AAAATAAAA
1 AAAATAAAA
18732005 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:18732013 original size:41 final size:40
Alignment explanation
Indices: 18731943--18732019 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
18731933 AAGCAATAGA
*
18731943 AAAATCAAGATCAAAACAAAAAAGAAGAAAAAGAAAAATC
1 AAAATCAAAATCAAAACAAAAAAGAAGAAAAAGAAAAATC
* *
18731983 AAAATCAAAAATCAAAA-TAAAATGAGAGAAAAAGAAA
1 AAAATC-AAAATCAAAACAAAAAAGA-AGAAAAAGAAA
18732020 GAAGAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 12 0.38
41 20 0.62
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.09
Consensus pattern (40 bp):
AAAATCAAAATCAAAACAAAAAAGAAGAAAAAGAAAAATC
Found at i:18732918 original size:7 final size:7
Alignment explanation
Indices: 18732902--18732955 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 7
18732892 TTTGAGTTAA
*
18732902 AAAAACG
1 AAAAATG
18732909 AAAAATG
1 AAAAATG
18732916 AAAAAATG
1 -AAAAATG
18732924 -AAAATG
1 AAAAATG
*
18732930 GAAAATG
1 AAAAATG
18732937 AAAAA-G
1 AAAAATG
*
18732943 AAAAGT-
1 AAAAATG
18732949 AAAAATG
1 AAAAATG
18732956 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 16 0.41
7 16 0.41
8 7 0.18
ACGTcount: A:0.70, C:0.02, G:0.17, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:18734257 original size:43 final size:43
Alignment explanation
Indices: 18734204--18734308 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
18734194 GAAATTACAG
* *
18734204 ATCTTGTCTCCCTAAGCA-ACAGTGGAGCAGATCGAAGCCAGAA
1 ATCTTATCTCCCTAAG-ATACAGCGGAGCAGATCGAAGCCAGAA
* * * *
18734247 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTAAGA-TACAGCGGAGCAGATCGAAGCCAGAA
*
18734291 ATCCTATCTCCCTAAGAT
1 ATCTTATCTCCCTAAGAT
18734309 TACAATGGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 15 0.29
44 36 0.69
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGATACAGCGGAGCAGATCGAAGCCAGAA
Found at i:18734285 original size:44 final size:44
Alignment explanation
Indices: 18734222--18734466 Score: 181
Period size: 44 Copynumber: 5.3 Consensus size: 44
18734212 TCCCTAAGCA
* *
18734222 ACAGTGGAGCAGATCGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
18734266 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * ** * *
18734310 ACAATGGAGCGGATT-AAAATA-AAGGATCTTATCTCTCT-AAAGTT
1 ACAGTGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
* *
18734354 ATAGTAGAGTAGATCGTATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGT-G-G-AG--C-----AGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
18734408 ATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
*
18734452 ACAGTGGAGCTGATT
1 ACAGTGGAGCAGATT
18734467 AAAATAGAGG
Statistics
Matches: 155, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 109 0.70
45 1 0.01
46 1 0.01
47 2 0.01
49 2 0.01
51 2 0.01
52 1 0.01
53 1 0.01
54 22 0.14
55 5 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:18734485 original size:44 final size:44
Alignment explanation
Indices: 18734388--18734486 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
18734378 TGAAGCCAGA
* **
18734388 AATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * *
18734432 AATCCTATCTCCCTGAGATTACAGTGGAGCTGATT-AAAATAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
18734474 AGGATCTTATCTC
1 A--ATCTTATCTC
18734487 TCTAAAGTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 5 0.11
44 40 0.87
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
Found at i:18734493 original size:142 final size:142
Alignment explanation
Indices: 18734232--18734511 Score: 497
Period size: 142 Copynumber: 2.0 Consensus size: 142
18734222 ACAGTGGAGC
18734232 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
*
18734297 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAGA
66 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
18734362 GTAGATCGTATT
131 GTAGATCGTATT
* *
18734374 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
* * * *
18734439 TCTCCCTGAGATTACAGTGGAGCTGATTAAAATAGAGGATCTTATCTCTCTAAAGTTAGAGTAGA
66 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
18734504 GTAGATCG
131 GTAGATCG
18734512 CATCAGGTCT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 131 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (142 bp):
AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
GTAGATCGTATT
Found at i:18734748 original size:100 final size:99
Alignment explanation
Indices: 18734585--18736010 Score: 1332
Period size: 100 Copynumber: 14.2 Consensus size: 99
18734575 CAAACGATGT
* * * *
18734585 AGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACATTGCAGTTAAAAGGATTAA
* *
18734650 AGCTACAGCAGCGAATCTTACCTCCCAGGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
18734685 AGTGGAATAGATTAAAACCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAG
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCC-GACATTGCAGTTAAAAGGATTAA
* * * *
18734750 AGCTACAGCAGCGAATCTTACCTCTCAGGCGGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
** *
18734785 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TGTCATTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TC-CCGACATTGCAGTT-AAAAGGATT
* * * * * * * *
18734848 AAAGCCACAGCGGTGAGTATTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
*
18734885 AGT-GAAGCAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * * *
18734949 AA-ATCACAAC-GACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * * * *
18734986 AGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
* *
18735051 AGCTACAACAACGAATCTTACTTCCCATGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
18735086 AGTGGAATAGATTAAAGTCACAACAGTGAATCTTG-TCTCCTTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TCC-CGACATTGCAGTT-AAAAGGATT
* * * * * * * *
18735149 AAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18735186 AGT-GAAGAAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * *
18735250 AAG-TCACAAC-GACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * * **
18735287 AGTAGATA-AGGTTAAAGCCACATCGGTGAATCTTGCTTTCCCGAAATTGCAACTAAAAGGATTA
1 AGTGGA-ACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
*
18735351 AAGCTACAACAGCAAATCTTACTTCCCAGGCAGTGC
64 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18735387 AGTGGAACAGATTAAACCCACAACGGTGAATCTTG-TCTCCCTGACATTGTAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TCCC-GACATTGCAGTT-AAAAGGATT
* * * * * * *
18735450 AAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18735487 AGT-GAAGCGGATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* *
18735551 AAG-TCACAAC-GACGAATC-TAGCTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTA-CT-TCCCAGGCAGTGC
* * * *
18735588 AGTAGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCAACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
* *
18735653 AGCTACAACAACGAATCTTACTTCCCAAGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18735688 AGTGGAACAAATTAAAGCCACAAC-GTGAATCTTG-TCTCACTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TC-CCGACATTGCAGTT-AAAAGGATT
* *** * * * * *
18735750 AAAGCCACAGTGGCGATTGTTACTTCCCTGGCAATAC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18735787 A-T-GAAGCAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * * * *
18735850 AAG-TAACAATAACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAGCGAATCTTACT-TCCCAGGCAGTGC
* * * * * *
18735887 AATAGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTTCCAGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
18735952 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18735987 AGTGGAACAGATTGAAGCTACAAC
1 AGTGGAACAGATTAAAGCCACAAC
18736011 AACAAATCTC
Statistics
Matches: 1079, Mismatches: 190, Indels: 114
0.78 0.14 0.08
Matches are distributed among these distances:
97 4 0.00
98 25 0.02
99 128 0.12
100 570 0.53
101 333 0.31
102 18 0.02
103 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (99 bp):
AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCGACATTGCAGTTAAAAGGATTAAA
GCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
Found at i:18735133 original size:301 final size:301
Alignment explanation
Indices: 18734592--18736010 Score: 2161
Period size: 301 Copynumber: 4.7 Consensus size: 301
18734582 TGTAGTGGAA
* * * * * *
18734592 CAGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAGGATTAAAG-CTAC
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTC-AC
* * * * * ** * *
18734656 AGC-AGCGAATCTTAC-CTCCCAGGCAGTGCAGTGGAATAGATTAAAACCACAACGGTGAATCTT
65 AACGA-CGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTT
* * * * * * * *
18734719 GC-CTCCCTGACATTGCAGTTAAAAAGATTAGAGCTACAGCAGCGAATCTTACCTCTCAGGCGGT
129 GCTTTCCC-GACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGT
* *
18734783 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTGTCATTGACATTGCAGTTGAAAAGACT
193 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACT
* *
18734848 AAAGCCACAGCGGTGAGTATTACTTCCCTGGCAATGCAGTGAAG
258 AAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
*
18734892 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAATCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
*
18734957 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * *
18735022 TTTCCTGACATTGCAGCTAAAAGGATTAAAGCTACAACAACGAATCTTACTTCCCATGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* * *
18735087 GTGGAATAGATTAAAGTCACAACAGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
*
18735152 GCCACAGCGGTGAGTGTTACTTCCCTGGCAATGCAGTGAAG
261 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
*
18735193 AAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
** *
18735258 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGATAAGGTTAAAGCCACATCGGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * *
18735323 TTTCCCGAAATTGCAACTAAAAGGATTAAAGCTACAACAGCAAATCTTACTTCCCAGGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* * *
18735388 GTGGAACAGATTAAACCCACAACGGTGAATCTTGTCTCCCTGACATTGTAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
18735453 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
261 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
* *
18735494 CGGATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
*
18735559 ACGACGAATCT-AGCTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACAACGGTGAATCTTG
66 ACGACGAATCTCA-CTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTG
* * *
18735623 CTTTCCCAACATTGCAGCTAAAAGGATTAAAGCTACAACAACGAATCTTACTTCCCAAGCAGTGC
130 CTTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
*
18735688 AGTGGAACAAATTAAAGCCACAAC-GTGAATCTTGTCTCAC-TGACATTGCAGTTGAAAAGACTA
195 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTC-CTTGACATTGCAGTTGAAAAGACTA
* * *
18735751 AAGCCACAGTGGCGATTGTTACTTCCCTGGCAATACA-TGAAG
259 AAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
* *
18735793 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAGGATTAAAGTAACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
** *
18735858 ATAACGAATCTCACTCTCTCAGCCAGTGCAATAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
*
18735923 TTTCCAGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* *
18735988 GTGGAACAGATTGAAGCTACAAC
196 GTGGAACAGATTAAAGCCACAAC
18736011 AACAAATCTC
Statistics
Matches: 1025, Mismatches: 87, Indels: 15
0.91 0.08 0.01
Matches are distributed among these distances:
299 206 0.20
300 138 0.13
301 678 0.66
302 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (301 bp):
CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
Found at i:18735849 original size:50 final size:50
Alignment explanation
Indices: 18734594--18735970 Score: 571
Period size: 50 Copynumber: 27.5 Consensus size: 50
18734584 TAGTGGAACA
* * * * *
18734594 GATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * * * * * * * * *
18734644 GATTAAAGCTACAGCAGCGAATCTTAC-CTCCCAGGCAGTGCAGTGGAATA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGT-TAAAAG
* * *
18734694 GATTAAAACCACAACGGTGAATCTTGC-CTCCCTGACATTGCAGTTAAAAA
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAG
* * * * * * * * * ** * *
18734744 GATTAGAGCTACAGCAGCGAATCTTAC-CTCTCAGGCGGTGCAGTGGAACA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGT-TAAAAG
* **
18734794 GATTAAAGCCACAACGGTGAATCTTG-TGTCATTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAG
* * * * * * * * *
18734844 GACTAAAGCCACAGCGGTGAGTATTAC-TTCCCTGGCAATGCAGTGAAGCA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
*
18734894 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
** ** ** * * * * *
18734944 GATTAAAATCACAACGACGAATCTCACTCTCTCAGCCAGTGCAG-T-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* * * *
18734993 CAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* *** * * * *
18735045 GATTAAAGCTACAACAACGAATCTTAC-TTCCC-ATGCAGTGCAGTGGAATA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA--CATTGCAGT-TAAAAG
* * * *
18735095 GATTAAAGTCACAACAGTGAATCTTG-TCTCCTTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCC-CGACATTGCAGTT-AAAAG
* * * * * * * *
18735145 GACTAAAGCCACAGCGGTGAGTGTTAC-TTCCCTGGCAATGCAGTGAAGAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
*
18735195 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* ** ** * * * *
18735245 GATTAAAGTCACAACGACGAATCTCACTCTCTCAGCCAGTGCAG-TAGATAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTA-A-AAG
* * **
18735297 G-TTAAAGCCACATCGGTGAATCTTGCTTTCCCGAAATTGCAACTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * ** * * * * *
18735346 GATTAAAGCTACAACAGCAAATCTTAC-TTCCCAGGCAGTGCAGTGGAACA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGT-TAAAAG
* * *
18735396 GATTAAACCCACAACGGTGAATCTTG-TCTCCCTGACATTGTAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAG
* * * * * * * * * **
18735446 GACTAAAGCCACAGCGGCGAGTGTTAC-TTCCCTGGCAATGCAGTGAAGCG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAG
* *
18735496 GATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* ** * * * * * *
18735546 GATTAAAGTCACAACGACGAATCTAGCTCTCTCAGCCAGTGCAG-T-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* *
18735595 CAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCAACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* *** * * * *
18735647 GATTAAAGCTACAACAACGAATCTTAC-TTCCCAAGCAGTGCAGTGGAACAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA-CATTGCAGT-TAA-AAG
* *
18735698 -ATTAAAGCCACAAC-GTGAATCTTG-TCTCACTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAG
* ** * * * * * * * * *
18735746 GACTAAAGCCACAGTGGCGATTGTTAC-TTCCCTGGCAATACA-TGAAGCA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
* *
18735795 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
** **** ** * * * * * *
18735845 GATTAAAGTAACAATAACGAATCTCACTCTCTCAGCCAGTGCA-AT-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* * *
18735894 CAGATTAAAGCCACATCGGTGAATCTTGCTTTCCAGACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * *
18735946 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACGGTGAATCTT
18735971 ACTTCCCAGG
Statistics
Matches: 950, Mismatches: 312, Indels: 130
0.68 0.22 0.09
Matches are distributed among these distances:
48 5 0.01
49 103 0.11
50 665 0.70
51 161 0.17
52 16 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
Found at i:18739329 original size:224 final size:224
Alignment explanation
Indices: 18738936--18739384 Score: 871
Period size: 224 Copynumber: 2.0 Consensus size: 224
18738926 TTTCTTTAAA
18738936 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
1 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
18739001 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
66 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
* *
18739066 AACCCTTCCTCGTGTGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCGCAGACCTAAAATTA
131 AACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATTA
18739131 TTTTCAAGGTGATCCGAGCACACCACAAT
196 TTTTCAAGGTGATCCGAGCACACCACAAT
18739160 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
1 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
18739225 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
66 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
*
18739290 AACCCTTCCTCGTGCGTAATCGACTCCCAAACCTGTTTTCTCAAAAATTCACAGACCTAAAATTA
131 AACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATTA
18739355 TTTTCAAGGTGATCCGAGCACACCACAAT
196 TTTTCAAGGTGATCCGAGCACACCACAAT
18739384 A
1 A
18739385 AAAGATCGGT
Statistics
Matches: 222, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
224 222 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (224 bp):
ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
AACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATTA
TTTTCAAGGTGATCCGAGCACACCACAAT
Found at i:18741061 original size:24 final size:24
Alignment explanation
Indices: 18741029--18741078 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
18741019 CAGGTTATAA
18741029 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
18741053 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
18741077 AA
1 AA
18741079 ATTTTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTCATCTAAATTAAAACTTTC
Found at i:18744576 original size:50 final size:50
Alignment explanation
Indices: 18744452--18744835 Score: 414
Period size: 50 Copynumber: 7.7 Consensus size: 50
18744442 GATAATAACA
* ** *
18744452 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TCTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCT-CGG
* * * * ** ** * *
18744501 TACCAATGTCATATCCCAGATATGGTCTTACATATGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * *
18744551 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
18744601 TGCCAATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * *
18744651 TGCCAATTCCATGTCCCAAACATAGTCTTACACGGGGCCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
18744701 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
18744751 TGCCAACGTCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
18744801 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
18744836 CTCACATATT
Statistics
Matches: 285, Mismatches: 47, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
48 5 0.02
49 32 0.11
50 248 0.87
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:18747365 original size:51 final size:50
Alignment explanation
Indices: 18747289--18747481 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 50
18747279 TACAAACACG
* * *
18747289 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATTGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT-TTGGTCACA
* * * * *
18747340 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGATTTGGTCACA
* * * *
18747391 TGTGTAGTACTATGTGCAGGCTACTACGTGAACTAGAAAG-TTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGAATGATTTGGTCACA
* *
18747441 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCGAATGAT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT
18747482 ATTAATTACA
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
49 5 0.04
50 38 0.32
51 72 0.61
52 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATTTGGTCACA
Found at i:18763623 original size:43 final size:42
Alignment explanation
Indices: 18763570--18763669 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 42
18763560 TTTCGTTTAT
* * ** *
18763570 CCCTAATGGGTTTTCGTTCAGCTCTTTTGAGCTTCAGTTTAA
1 CCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
*
18763612 CCCTTATTGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTCAA
1 CCCTTA-TGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
18763655 CCCTTATGGGTTTCC
1 CCCTTATGGGTTTCC
18763670 ATTTAGCACT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 14 0.27
43 37 0.73
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (42 bp):
CCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
Found at i:18763669 original size:21 final size:21
Alignment explanation
Indices: 18763610--18763669 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18763600 GCTTCAGTTT
18763610 AACCCTTATTGGGTTTCCGTTC
1 AACCCTTA-TGGGTTTCCGTTC
* * * * *
18763632 AGCTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
18763653 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
18763670 ATTTAGCACT
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:18769965 original size:11 final size:11
Alignment explanation
Indices: 18769949--18769977 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18769939 ACATTGAAAG
18769949 AAATAGTGATT
1 AAATAGTGATT
18769960 AAATAGTGATT
1 AAATAGTGATT
18769971 AAATAGT
1 AAATAGT
18769978 AAATAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (11 bp):
AAATAGTGATT
Found at i:18770829 original size:11 final size:12
Alignment explanation
Indices: 18770813--18770845 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18770803 GAACAGAAAC
18770813 AAAAATAAAA-T
1 AAAAATAAAATT
18770824 AAAAATAAAATT
1 AAAAATAAAATT
18770836 ACAAAATAAA
1 A-AAAATAAA
18770846 TTTTGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:18774145 original size:21 final size:20
Alignment explanation
Indices: 18774107--18774165 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
18774097 TTGAGTGTGC
* **
18774107 TGATTGTAGTTCTGTTGTTGT
1 TGATTGTAATTCCCTTGTT-T
18774128 TGATTGTAATTCCCTTGTTT
1 TGATTGTAATTCCCTTGTTT
* *
18774148 TGAATTATAATTTCCTTG
1 TG-ATTGTAATTCCCTTG
18774166 AATAGATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.17, C:0.10, G:0.19, T:0.54
Consensus pattern (20 bp):
TGATTGTAATTCCCTTGTTT
Found at i:18779395 original size:54 final size:54
Alignment explanation
Indices: 18779350--18779477 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
18779340 TAGCCTTTGA
* *
18779350 ACTAGGGAGACACAGCCGTGTCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
1 ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
* * *
18779404 AGTAGGGTCACACGGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
1 ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
* * *
18779458 AGTAGGGTCACACGGCCGTG
1 ACTAGGGACACACAGCCGTG
18779478 TCTTGTGCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.21
Consensus pattern (54 bp):
ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
Found at i:18789977 original size:100 final size:104
Alignment explanation
Indices: 18789847--18790082 Score: 246
Period size: 100 Copynumber: 2.3 Consensus size: 104
18789837 TTTCATGTAC
* * * ** * *
18789847 TGCCAATGCCATATCCCAGATATGGTCTTACACAGGAGTTCTCATATCGATGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
* *
18789912 CCACAAACGGTCTTACGGGGGACCT-TTCATCTC-A-G-
66 CCACAAACGGTCTTACAGGGGACCTCATCATCTCAAGGA
* ** * * *
18789947 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
* * * * *
18790012 CCAGACATGGTCTTACATGGGACCTGCCATGATCTCAAGGA
66 CCACAAACGGTCTTACAGGGGACCT--CATCATCTCAAGGA
18790053 TGCCAATGCCATGTCCCAAACATGGTCTTA
1 TGCCAATGCCATGTCCCAAACATGGTCTTA
18790083 TATGGGATCT
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
100 72 0.66
103 6 0.06
104 1 0.01
105 1 0.01
106 29 0.27
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (104 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
CCACAAACGGTCTTACAGGGGACCTCATCATCTCAAGGA
Found at i:18790064 original size:56 final size:50
Alignment explanation
Indices: 18789904--18790094 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 50
18789894 CGATGCCCAT
* ** * * *
18789904 GCCATGTCCCACAA-ACGGTCTTACGGGGGACCTTTCATCTCAGTGCCAAC
1 GCCATGTCCCA-AACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
18789954 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
* *
18790004 GCCATGTCCCAGACATGGTCTTACATGGGACCTGC-CATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGACCT-CTC--G-TCTC--GG-TGCCAAC
* *
18790060 GCCATGTCCCAAACATGGTCTTATATGGGATCTCT
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCT
18790095 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
49 2 0.02
50 74 0.61
51 1 0.01
52 1 0.01
53 4 0.03
55 3 0.02
56 36 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
Found at i:18803652 original size:56 final size:50
Alignment explanation
Indices: 18803385--18803681 Score: 213
Period size: 50 Copynumber: 5.8 Consensus size: 50
18803375 GATAAGAACA
* ** * * * **
18803385 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * * * * * ** * *
18803434 TGCCAATGCCATATCCCAGATATTGTCTTACACGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * * * * *
18803484 TGCCTATGCCATGTCCCACAAATGGTCTT--ATGGAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-G-GGACCTCTCGTCTCGG
* * *
18803534 TACGAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
18803584 TGCCAACACCATGTCCCAGACATGGTTTTACATGGGACCTTTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG
* *
18803639 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18803682 TTACCCAAAT
Statistics
Matches: 195, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.19
50 109 0.56
51 1 0.01
52 3 0.02
53 4 0.02
55 2 0.01
56 37 0.19
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:18811668 original size:42 final size:42
Alignment explanation
Indices: 18811622--18811704 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
18811612 CGTATATGTG
** *
18811622 AGGCAATTTTGTGAGTTACACAGCCTGGCACAT-GAGCGTGTA
1 AGGCAATTTCATGAGGTACACAGCCTGGCACATAG-GCGTGTA
*
18811664 AGGCAATTTCATGAGGTACACGGCCTGGCACATAGGCGTGT
1 AGGCAATTTCATGAGGTACACAGCCTGGCACATAGGCGTGT
18811705 GACACGGCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (42 bp):
AGGCAATTTCATGAGGTACACAGCCTGGCACATAGGCGTGTA
Found at i:18817156 original size:30 final size:30
Alignment explanation
Indices: 18817095--18817156 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
18817085 GCTTTTTGAA
* * * * **
18817095 AATATTTACAAAATGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
18817125 AATATTTACAAAAAGAGAAACCAAAAATTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
18817155 AA
1 AA
18817157 AAATAATTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAAATTT
Found at i:18824919 original size:60 final size:60
Alignment explanation
Indices: 18824852--18824966 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
18824842 GCAAGAGCCA
* *
18824852 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACCACTAGACCACGAGCT
1 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCACGAGCT
*
18824912 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACTGCAACAACTAGACCAC
1 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCAC
18824967 AAGTTTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.17
Consensus pattern (60 bp):
AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCACGAGCT
Found at i:18828052 original size:98 final size:99
Alignment explanation
Indices: 18827926--18828132 Score: 382
Period size: 98 Copynumber: 2.1 Consensus size: 99
18827916 AATTATTTTA
*
18827926 AAAATATA-TAATTATATCACTATTCAAATTTAAAATTTACCCAATAGTCAAAGGTCAAAACAAA
1 AAAATAAAGTAATTATAT-ACTATTCAAATTTAAAATTTACCCAATAGTCAAAGGTCAAAACAAA
18827990 AATTTCTGATTGCACTACAATTTTTGAAATAATCC
65 AATTTCTGATTGCACTACAATTTTTGAAATAATCC
18828025 AAAATAAAGTAATTATAT-CTATTCAAATTTAAAATTTACCCAATAGTCAAAGGTCAAAACAAAA
1 AAAATAAAGTAATTATATACTATTCAAATTTAAAATTTACCCAATAGTCAAAGGTCAAAACAAAA
18828089 ATTTCTGATTGCACTACAATTTTTGAAATAATCC
66 ATTTCTGATTGCACTACAATTTTTGAAATAATCC
18828123 AAAATAAAGT
1 AAAATAAAGT
18828133 TGTCTAAATA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
98 90 0.85
99 7 0.07
100 9 0.08
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (99 bp):
AAAATAAAGTAATTATATACTATTCAAATTTAAAATTTACCCAATAGTCAAAGGTCAAAACAAAA
ATTTCTGATTGCACTACAATTTTTGAAATAATCC
Found at i:18829562 original size:126 final size:126
Alignment explanation
Indices: 18829424--18829712 Score: 452
Period size: 126 Copynumber: 2.3 Consensus size: 126
18829414 TAATTTCAAA
* * *
18829424 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* * * * *
18829489 TTGAGTAAATAGTGTCAAAAACGCTTTTAGTAGGATGCTTTGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
* * *
18829550 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGGGTAGACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* *
18829615 CTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGATTTGTGAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
*
18829676 AAGCTCCCACGTGGACGCGCTTTTGCTATAGTAGCTC
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTC
18829713 TTGTTTGGCC
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 149 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
Found at i:18835284 original size:11 final size:11
Alignment explanation
Indices: 18835265--18835337 Score: 69
Period size: 11 Copynumber: 6.6 Consensus size: 11
18835255 TAAAATGAAT
18835265 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
18835276 TTGAAAGGAAC
1 TTGAGAGGAAA
*
18835287 TTGAGAGGAAT
1 TTGAGAGGAAA
* *
18835298 TTAAGAGGAAT
1 TTGAGAGGAAA
18835309 TTGAGA-GAATA
1 TTGAGAGGAA-A
18835320 TTG-GAGAGAAA
1 TTGAGAG-GAAA
18835331 TTGAGAG
1 TTGAGAG
18835338 AAAGGATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.10
11 40 0.78
12 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:18839415 original size:20 final size:19
Alignment explanation
Indices: 18839379--18839420 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
18839369 TGATTAAACA
*
18839379 ATATAATTTCATGTAATACT
1 ATATAATTTCATATAAT-CT
18839399 ATATAATTT-ATTATAATCT
1 ATATAATTTCA-TATAATCT
18839418 ATA
1 ATA
18839421 GTAAAACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATAATTTCATATAATCT
Found at i:18839800 original size:249 final size:253
Alignment explanation
Indices: 18839361--18839947 Score: 740
Period size: 249 Copynumber: 2.3 Consensus size: 253
18839351 AGCTCTAATA
* * ** * *
18839361 TGCATCAATGATTAAACAATATAATTTCATGTAATACTATATAATTTATTATAATCTATAGTAAA
1 TGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATAATATA
* * * * *
18839426 ACT-ATAGTTATTTATAATTGTAGTTCATTATATATTAATTGTTATATCTTATTGTTTATCATAT
66 A-TAATAGTTATATATAATAGTAGTACATTATATATTAATTATTATATATTATTGTTTATCATAT
* * * * * **
18839490 AGTAGTTTAAATATACTTTAAGTCTCTATACTTTTCGTAAATTTGAAAATTAGTGCTCCTACTAT
130 ACTAGTTGAAATATACTCTAAGCCTCTATACATTTCGTAAATTTGAAAATTAGCCCTCCTACTAT
* *
18839555 ATTATATAATG-AT-ATATCATATCATATAGTATATAATATATTAATAG-TT-TATTTG
195 ATTATATAATGTATCATATCATATCATATAGTATATAATATATTAAAAGCTTATATGTG
** *
18839610 TGCATCAATGATTAAACATTATAATATCACATAATACTATATCTTTTATTATAGT-TCATAATAT
1 TGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCT-ATAATAT
* * *
18839674 AATAAAAGTTATATCTAATAGTAGTACATTATATATTAATTATTATATATTATTGTTTATTATTA
65 AATAATAGTTATATATAATAGTAGTACATTATATATTAATTATTATATATTATTGTTTATCA-TA
* * * *
18839739 TACTGGTTGAAATATGCTCTAAGCCTCTATACATTTCGTACATTTGAAAGTTA-CCCTCCTACTA
129 TACTAGTTGAAATATACTCTAAGCCTCTATACATTTCGTAAATTTGAAAATTAGCCCTCCTACTA
*
18839803 TATTATATAATGTTATATCATATCATATCATATAGTATGTAATATATTAAAAGCTTATATGTG
194 TATTATATAATG---TATCATATCATATCATATAGTATATAATATATTAAAAGCTTATATGTG
* *
18839866 TACGCATCTATGATTAAACAATT-TAATATCATGTAATATTATATCTTTTATTATAATCTATAAT
1 T--GCATCAATGATTAAAC-ATTATAATATCATGTAATACTATATCTTTTATTATAATCTATAAT
18839930 ATAATAATAGTTATATAT
63 ATAATAATAGTTATATAT
18839948 TTCCTTAAAA
Statistics
Matches: 286, Mismatches: 38, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
248 2 0.01
249 126 0.44
250 46 0.16
253 2 0.01
254 32 0.11
255 2 0.01
256 6 0.02
258 66 0.23
259 4 0.01
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.45
Consensus pattern (253 bp):
TGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATAATATA
ATAATAGTTATATATAATAGTAGTACATTATATATTAATTATTATATATTATTGTTTATCATATA
CTAGTTGAAATATACTCTAAGCCTCTATACATTTCGTAAATTTGAAAATTAGCCCTCCTACTATA
TTATATAATGTATCATATCATATCATATAGTATATAATATATTAAAAGCTTATATGTG
Found at i:18840545 original size:41 final size:41
Alignment explanation
Indices: 18840440--18840878 Score: 475
Period size: 41 Copynumber: 10.9 Consensus size: 41
18840430 CTTTGAGTTT
* *
18840440 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGTCCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCG--CCGCTAATGC
* *
18840483 TCGGGGGCTTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATAC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
18840525 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
18840566 TCAGGGCTTTAACGGCGTTTTTGGAGAAGCGCCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
18840607 TCAGGGCTTTAGCCGCGTTTTGGGAGAAGCGCCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
18840648 TCGGGGCTTTAGCGGTGTTTTGGGAGAAGCGTCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
18840689 TCGAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* **
18840730 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCATCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * * * *
18840771 AGGGGGCTTTAGCGTCGTTTTTGGAGAAGTGCTGCTAATG-
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
18840811 -C-AGG-----G-GGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
18840844 TCAGGGCTTTAGCGGCGTTTGTT-GAAAAGTGCCGC
1 TCGGGGCTTTAGCGGCGTTT-TTGGAAAAGCGCCGC
18840879 AAAAATATTT
Statistics
Matches: 341, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
32 23 0.07
33 1 0.00
34 1 0.00
35 2 0.01
38 2 0.01
40 1 0.00
41 270 0.79
42 13 0.04
43 2 0.01
44 26 0.08
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:18841569 original size:21 final size:21
Alignment explanation
Indices: 18841479--18841577 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 21
18841469 ATTTAAGGCC
* *
18841479 GGTTTAAGAGTTGTTATTTTAA
1 GGTTTAAGGGTTGTGA-TTTAA
*
18841501 GGTTTAGAGGAGTATG-GATTTAG
1 GGTTTA-AGG-GT-TGTGATTTAA
* * *
18841524 GGATT-AGGGATTAGGGA-TTAT
1 GGTTTAAGGG-TT-GTGATTTAA
18841545 GGTTTAAGGGTTGTGATTTAA
1 GGTTTAAGGGTTGTGATTTAA
*
18841566 GGTTTAGGGGTT
1 GGTTTAAGGGTT
18841578 AGACATTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.08
21 28 0.47
22 12 0.20
23 10 0.17
24 3 0.05
25 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTGTGATTTAA
Found at i:18845006 original size:43 final size:43
Alignment explanation
Indices: 18844946--18845036 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
18844936 CTTTGAGTTC
* *
18844946 ATTA-CAAGATTTCCTTGATTAA-ATAAATGTATTATATATTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTATATATTTT
* *
18844988 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
18845031 ATTACC
1 ATTACC
18845037 TTGCATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:18845190 original size:43 final size:41
Alignment explanation
Indices: 18845125--18845435 Score: 334
Period size: 43 Copynumber: 7.3 Consensus size: 41
18845115 GATATGTTTT
* * *
18845125 TAGCAGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTGATCTA
18845167 TAGCGGCGTTTGTACGGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT--GGAAAAGCGCCGCTAAAGGTC-TGATCTA
** * *
18845211 TAGTAGCGTTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * * *
18845254 TAGCGACGTTTGTGAAAAAAGCGCCACTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTC-TGATCTA
* *
18845297 TACCGGCATTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGT-CTGATCTA
* * * *
18845339 TAGTGGCGTTTCTGGAAAAGGCACCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAGGT-CTGATCTA
*
18845382 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTGATGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGT-CTGATCTA
18845425 TAGCGGCGTTT
1 TAGCGGCGTTT
18845436 ATTTATATAA
Statistics
Matches: 226, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
42 50 0.22
43 152 0.67
44 24 0.11
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (41 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:18845232 original size:86 final size:85
Alignment explanation
Indices: 18845125--18845435 Score: 374
Period size: 86 Copynumber: 3.6 Consensus size: 85
18845115 GATATGTTTT
* * *
18845125 TAGCAGCGTTTGTGTGAAAAGCGCTGCTAAAGGT-CTGTTCTATAGCGGCGTTTGTACGGAAAAG
1 TAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGT--GGAAAAG
*
18845189 CGCCGCTAAAGGTCTTGATCTA
64 CGCCACTAAAGGTCTTGATCTA
* * * * * *
18845211 TAGTAGCGTTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTATAGCGACGTTTGTGAAAAAAGC
1 TAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTG-GAAAAGC
* *
18845276 GCCACTAAAGATCTTGAGCTA
65 GCCACTAAAGGTCTTGATCTA
* * * * *
18845297 TACCGGCATTTGT-GGAAAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTCTGGAAAAGGC
1 TAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAA-GC
* *
18845361 ACCACTAAAGGTCCTGATCTA
65 GCCACTAAAGGTCTTGATCTA
* **
18845382 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTGATGATCTATAGCGGCGTTT
1 TAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTT
18845436 ATTTATATAA
Statistics
Matches: 189, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
84 4 0.02
85 68 0.36
86 99 0.52
87 18 0.10
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (85 bp):
TAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAGCG
CCACTAAAGGTCTTGATCTA
Found at i:18845426 original size:128 final size:128
Alignment explanation
Indices: 18845125--18845431 Score: 366
Period size: 128 Copynumber: 2.4 Consensus size: 128
18845115 GATATGTTTT
* * * * * *
18845125 TAGCAGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTATAGCGGCGTTTGTACGGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCATTTGTA-GGAAAAGC
* * ** * * *
18845190 GCCGCTAAAGGTCTTGATCTATAGTAGCGTTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
* * * * * * *
18845254 TAGCGACGTTTGTGAAAAAAGCGCCACTAAAGATCTTGAGCTATACCGGCATTTGT-GGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-ATGATCTATAGCGGCATTTGTAGGAAAAGC
*
18845318 GCCGCTAAAGGTCCTGATCTATAGTGGCGTTTCT-GGAAAAGGCACCACTAAAGGTCCTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAA-GCACCACTAAAGGTCCTGATCTA
*
18845382 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTGATGATCTATAGCGGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-ATGATCTATAGCGGC
18845432 GTTTATTTAT
Statistics
Matches: 147, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 6 0.04
128 98 0.67
129 27 0.18
130 16 0.11
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (128 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCATTTGTAGGAAAAGCG
CCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
Found at i:18853909 original size:31 final size:31
Alignment explanation
Indices: 18853863--18853930 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
18853853 ATGGGGGTAC
* *
18853863 GACATTGTATCTGTTCCAATCTG-TTCTGCAT
1 GACACTGTATATGTTCCAATCTGCTT-TGCAT
*
18853894 GACACTGTATATGTTCTAATCTGCTTTGCAT
1 GACACTGTATATGTTCCAATCTGCTTTGCAT
18853925 GACACT
1 GACACT
18853931 ATATCTATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
GACACTGTATATGTTCCAATCTGCTTTGCAT
Found at i:18858261 original size:30 final size:31
Alignment explanation
Indices: 18858205--18858276 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
18858195 TATTATAATG
18858205 ATAGTTATATATGTATTAATATTTTTA-GTA
1 ATAGTTATATATGTATTAATATTTTTATGTA
18858235 ATAGTTATATAT-TA-TAATATTATTTTATGTA
1 ATAGTTATATATGTATTAATA-T-TTTTATGTA
* *
18858266 TTAGTAATATA
1 ATAGTTATATA
18858277 CTAGCTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.14
29 3 0.08
30 17 0.46
31 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (31 bp):
ATAGTTATATATGTATTAATATTTTTATGTA
Found at i:18864520 original size:37 final size:36
Alignment explanation
Indices: 18864479--18864574 Score: 88
Period size: 37 Copynumber: 2.6 Consensus size: 36
18864469 ATAATGATAG
* * *
18864479 TTATATATGTATTAATATTTTTAGTAATAGTTATATA
1 TTATATAT-TATTAATATTTTTAGTAATACTAATACA
* *
18864516 TTATAATATTATT-TTATGTATTAGTAATACTAATACA
1 TTAT-ATATTATTAATAT-TTTTAGTAATACTAATACA
*
18864553 TTATA-ATATATTACTATTTTTA
1 TTATATAT-TATTAATATTTTTA
18864575 TACATTAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
35 2 0.04
36 12 0.25
37 30 0.62
38 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (36 bp):
TTATATATTATTAATATTTTTAGTAATACTAATACA
Found at i:18864531 original size:30 final size:31
Alignment explanation
Indices: 18864475--18864540 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
18864465 TATTATAATG
18864475 ATAGTTATATATGTATTAATATTTTTA-GTA
1 ATAGTTATATATGTATTAATATTTTTATGTA
18864505 ATAGTTATATAT-TA-TAATATTATTTTATGTA
1 ATAGTTATATATGTATTAATA-T-TTTTATGTA
*
18864536 TTAGT
1 ATAGT
18864541 AATACTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.16
29 3 0.09
30 17 0.53
31 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (31 bp):
ATAGTTATATATGTATTAATATTTTTATGTA
Found at i:18864602 original size:26 final size:25
Alignment explanation
Indices: 18864548--18864602 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
18864538 AGTAATACTA
* *
18864548 ATACATTATAATATATTACTATTTTT
1 ATACATTATAATATACTAC-ATTTGT
18864574 ATACATTAGTAATATACTA-ATTTAGT
1 ATACATTA-TAATATACTACATTT-GT
18864600 ATA
1 ATA
18864603 TTGATTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 12 0.48
27 9 0.36
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (25 bp):
ATACATTATAATATACTACATTTGT
Found at i:18868577 original size:389 final size:389
Alignment explanation
Indices: 18867849--18868631 Score: 1251
Period size: 389 Copynumber: 2.0 Consensus size: 389
18867839 TGGCTTGTTC
18867849 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
*
18867914 TTTTCCATACACTAGATAACTAACCAAATCCGCATACTAAGAGGTTCCATCTACAACAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
* *
18867979 TCTCATCGGGGAATGCGTCGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTTCAATCGA
131 TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
18868044 GATAGATAGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
196 GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
* * * *
18868109 GTTTTACATCCTTCTTCGTAAAAAGATATCTTAACGACGAGTGATTAGTAAATACGGTAACCTTT
261 GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
* * * *
18868174 GGGCCAAAAAGATAAGAACAAAACTTGTTGAAAGCAAAGACTACAGCCAACAATTCTTTCTCTG
326 GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
* * *
18868238 TAGTGGTACTTCACTACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTTACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
* * * * * *
18868303 TTTTCCATACACTAGATAATTAACCAAATCTGCATACCAAGGGGTTGCATCTATAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
*
18868368 TCTCATCTGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
131 TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
* * *
18868433 GATAGATGGTCTGCAACCTGATTTTTTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTG
196 GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
* * *
18868498 GTTTTGCATCATTCTTCGTAAAAAGATATCTCAACGCCAATTGATCAGTAAATACGGTAACCTTT
261 GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
* * * * * * *
18868563 GTGTCGACAAGATAAGAATAAAACTTGTGGAAAGCAAAGACTATAACCAAAAATTATTTCTTTG
326 GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
18868627 TAGTG
1 TAGTG
18868632 CTATAATTGA
Statistics
Matches: 359, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
389 359 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (389 bp):
TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
Found at i:18889487 original size:5 final size:5
Alignment explanation
Indices: 18889477--18889501 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18889467 GGGCTATTAG
18889477 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
18889502 TGATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:18889875 original size:25 final size:25
Alignment explanation
Indices: 18889807--18889875 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
18889797 CGGATACACC
* * *
18889807 ACAGCTCGTATGAGCTTACCAATTT
1 ACAGCTCGTATGAGCATATCAATTA
*
18889832 ACAGCTCGTGA-GAGAATATCAATTA
1 ACAGCTCGT-ATGAGCATATCAATTA
*
18889857 ATAGCTCGTATGAGCATAT
1 ACAGCTCGTATGAGCATAT
18889876 TTGTACATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
ACAGCTCGTATGAGCATATCAATTA
Found at i:18897429 original size:17 final size:17
Alignment explanation
Indices: 18897407--18897439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18897397 TAGGGATTCA
*
18897407 TACATGTGTTGTGGTCC
1 TACATGTGTTGCGGTCC
18897424 TACATGTGTTGCGGTC
1 TACATGTGTTGCGGTC
18897440 ACACCACAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.39
Consensus pattern (17 bp):
TACATGTGTTGCGGTCC
Found at i:18897534 original size:25 final size:25
Alignment explanation
Indices: 18897506--18897563 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
18897496 CGGCTCGTTT
* *
18897506 GAGCTTACCAATTTATAGCTTGTGA
1 GAGCATACCAATTCATAGCTTGTGA
*
18897531 GAGCATACCGATTCATAGCTTGT-A
1 GAGCATACCAATTCATAGCTTGTGA
18897555 TGAGCATAC
1 -GAGCATAC
18897564 ATGTACAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCATACCAATTCATAGCTTGTGA
Found at i:18897559 original size:50 final size:50
Alignment explanation
Indices: 18897446--18897559 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
18897436 GGTCACACCA
* * * *
18897446 CAGCTCGTATGAGCTTACCGATTTGCAGCTCATGAGAGCTTATCGATTCT
1 CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCT
* * * **
18897496 CGGCTCGTTTGAGCTTACCAATTTATAGCTTGTGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTC-T
*
18897547 -AGCTTGTATGAGC
1 CAGCTCGTATGAGC
18897560 ATACATGTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCT
Found at i:18898935 original size:20 final size:20
Alignment explanation
Indices: 18898910--18898948 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18898900 TATTTTCTTC
18898910 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18898930 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18898949 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18899277 original size:50 final size:49
Alignment explanation
Indices: 18899157--18899279 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
18899147 ACATGAAAAA
* * *
18899157 GCCATTTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCAAAT
1 GCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTACTGCAAAT
* * * **
18899206 GTCATATACCAGATATGGTCTTACATGAGA-GTTCTCATGT-CGGTGCCCAT
1 GCCATATCCCAGACATGGTCTTACATGAGATGTT-TCATGTAC--TGCAAAT
*
18899256 GCCATGTCCCAGACATGGTCTTAC
1 GCCATATCCCAGACATGGTCTTAC
18899280 GTGGGACCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.07
49 30 0.51
50 25 0.42
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTACTGCAAAT
Found at i:18902709 original size:14 final size:14
Alignment explanation
Indices: 18902690--18902719 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18902680 AGTGAGAGAG
*
18902690 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18902704 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18902718 GA
1 GA
18902720 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18912761 original size:14 final size:14
Alignment explanation
Indices: 18912742--18912771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18912732 ATTGAGAGAG
*
18912742 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18912756 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18912770 GA
1 GA
18912772 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18918904 original size:25 final size:24
Alignment explanation
Indices: 18918828--18918898 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
18918818 TGAGCTACAA
18918828 CTCGTATGAGTTTACCAATTTGCAG
1 CTCGTATGAGTTTACCAATTT-CAG
* * *
18918853 CTTGTAAGAGTTTACCGATTCTCAG
1 CTCGTATGAGTTTACCAATT-TCAG
*
18918878 CTCGTATGAGCTTACCAATTT
1 CTCGTATGAGTTTACCAATTT
18918899 ATAGCTTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (24 bp):
CTCGTATGAGTTTACCAATTTCAG
Found at i:18918905 original size:50 final size:50
Alignment explanation
Indices: 18918828--18918938 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
18918818 TGAGCTACAA
* * **
18918828 CTCGTATGAGTTTACCAATTTGCAGCTTGT-AAGAGTTTACCGATTC-TCAG
1 CTCGTATGAGCTTACCAATTTACAGCTTGTGAA-AGCATACCGATTCAT-AG
* *
18918878 CTCGTATGAGCTTACCAATTTATAGCTTGTGAAAGCATATCGATTCATAG
1 CTCGTATGAGCTTACCAATTTACAGCTTGTGAAAGCATACCGATTCATAG
18918928 CTCGTATGAGC
1 CTCGTATGAGC
18918939 ATACATGTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (50 bp):
CTCGTATGAGCTTACCAATTTACAGCTTGTGAAAGCATACCGATTCATAG
Found at i:18918939 original size:25 final size:25
Alignment explanation
Indices: 18918865--18918942 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
18918855 TGTAAGAGTT
*
18918865 TACCGATTC-TCAGCTCGTATGAGCT
1 TACCGATTCAT-AGCTCGTATGAGCA
* * * *
18918890 TACCAATTTATAGCTTGTGA-AAGCA
1 TACCGATTCATAGCTCGT-ATGAGCA
*
18918915 TATCGATTCATAGCTCGTATGAGCA
1 TACCGATTCATAGCTCGTATGAGCA
18918940 TAC
1 TAC
18918943 ATGTACAGGA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTATGAGCA
Found at i:18920480 original size:10 final size:10
Alignment explanation
Indices: 18920465--18920489 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18920455 AATATGAATT
18920465 ATTTTGATTG
1 ATTTTGATTG
18920475 ATTTTGATTG
1 ATTTTGATTG
18920485 ATTTT
1 ATTTT
18920490 TATATGAGTT
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGATTG
Found at i:18927610 original size:25 final size:24
Alignment explanation
Indices: 18927534--18927604 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
18927524 TGAGCTACAA
18927534 CTCGTATGAGTTTACCAATTTGCAG
1 CTCGTATGAGTTTACCAATTT-CAG
* * *
18927559 CTTGTAAGAGTTTACCGATTCTCAG
1 CTCGTATGAGTTTACCAATT-TCAG
*
18927584 CTCGTATGAGCTTACCAATTT
1 CTCGTATGAGTTTACCAATTT
18927605 ATAGCTTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (24 bp):
CTCGTATGAGTTTACCAATTTCAG
Found at i:18927611 original size:50 final size:50
Alignment explanation
Indices: 18927534--18927644 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
18927524 TGAGCTACAA
* * **
18927534 CTCGTATGAGTTTACCAATTTGCAGCTTGT-AAGAGTTTACCGATTC-TCAG
1 CTCGTATGAGCTTACCAATTTACAGCTTGTGAA-AGCATACCGATTCAT-AG
* *
18927584 CTCGTATGAGCTTACCAATTTATAGCTTGTGAAAGCATATCGATTCATAG
1 CTCGTATGAGCTTACCAATTTACAGCTTGTGAAAGCATACCGATTCATAG
18927634 CTCGTATGAGC
1 CTCGTATGAGC
18927645 ATACATGTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (50 bp):
CTCGTATGAGCTTACCAATTTACAGCTTGTGAAAGCATACCGATTCATAG
Found at i:18927645 original size:25 final size:25
Alignment explanation
Indices: 18927571--18927648 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
18927561 TGTAAGAGTT
*
18927571 TACCGATTC-TCAGCTCGTATGAGCT
1 TACCGATTCAT-AGCTCGTATGAGCA
* * * *
18927596 TACCAATTTATAGCTTGTGA-AAGCA
1 TACCGATTCATAGCTCGT-ATGAGCA
*
18927621 TATCGATTCATAGCTCGTATGAGCA
1 TACCGATTCATAGCTCGTATGAGCA
18927646 TAC
1 TAC
18927649 ATGTACAGGA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTATGAGCA
Found at i:18929186 original size:10 final size:10
Alignment explanation
Indices: 18929171--18929195 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18929161 AATATGAATT
18929171 ATTTTGATTG
1 ATTTTGATTG
18929181 ATTTTGATTG
1 ATTTTGATTG
18929191 ATTTT
1 ATTTT
18929196 TATATGAGTT
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGATTG
Found at i:18935191 original size:25 final size:25
Alignment explanation
Indices: 18935163--18935212 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18935153 GTTTCATATA
18935163 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
18935188 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
18935213 ATATACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CATGTATCATCCAATTCAATTTTCC
Found at i:18935222 original size:31 final size:30
Alignment explanation
Indices: 18935154--18935224 Score: 91
Period size: 25 Copynumber: 2.5 Consensus size: 30
18935144 ATAAATTATG
18935154 TTTCATATA-CATGTATCATCCAATTCAAT
1 TTTCATATACCATGTATCATCCAATTCAAT
18935183 TTTC-----CCATGTATCATCCAATTCAAT
1 TTTCATATACCATGTATCATCCAATTCAAT
18935208 TTTCCATATACCATGTA
1 TTT-CATATACCATGTA
18935225 ATAACATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
25 23 0.66
26 1 0.03
29 4 0.11
31 7 0.20
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (30 bp):
TTTCATATACCATGTATCATCCAATTCAAT
Found at i:18939407 original size:22 final size:22
Alignment explanation
Indices: 18939365--18939408 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18939355 AACAACAAAC
* *
18939365 TGGTAGCAACATAGTACTAAAA
1 TGGTAGCAAAATAGTAATAAAA
18939387 TGGTAGCAAAATAG-AGATAAAA
1 TGGTAGCAAAATAGTA-ATAAAA
18939409 CAACAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (22 bp):
TGGTAGCAAAATAGTAATAAAA
Found at i:18939432 original size:23 final size:23
Alignment explanation
Indices: 18939404--18939448 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
18939394 AAAATAGAGA
* *
18939404 TAAAACAACAAGAAAATAACATT
1 TAAAACAAAAAGAAAAAAACATT
18939427 TAAAACAAAAAGAAAAAAACAT
1 TAAAACAAAAAGAAAAAAACAT
18939449 ATTTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.71, C:0.11, G:0.04, T:0.13
Consensus pattern (23 bp):
TAAAACAAAAAGAAAAAAACATT
Found at i:18940313 original size:3 final size:3
Alignment explanation
Indices: 18940305--18940330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18940295 NNNNTTGCAT
18940305 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18940331 TAATAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18943338 original size:122 final size:124
Alignment explanation
Indices: 18943036--18943487 Score: 598
Period size: 126 Copynumber: 3.6 Consensus size: 124
18943026 TAATTTCGAG
** * *
18943036 TTGACGTTTCTGATAAAATAGTACAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
18943101 AAATCGCGCCCTCATGGACGCACTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATGTAAG-AATAATT-TTTTT
18943162 TTGACGTTAT-TGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
1 TTGACGTT-TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
*
18943226 GAAATCGCGGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAG-A-AATTTTTTT
65 GAAATCGCGCCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCATGTAAGAATAATTTTTTT
* *
18943284 TTGACGCTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * ** *
18943349 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTA-G-CATGTTTGGGCTATAATTATTTTTT
66 AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATG--TAAG-AATAA-T-TTTTTT
*
18943411 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTA--A-GATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
18943473 AAATCGCGGCCTCGT
66 AAATCGCGCCCTCGT
18943488 CAGAATATGA
Statistics
Matches: 294, Mismatches: 21, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
120 4 0.01
121 3 0.01
122 99 0.34
123 4 0.01
124 39 0.13
125 3 0.01
126 100 0.34
127 42 0.14
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATGTAAGAATAATTTTTTT
Found at i:18946440 original size:22 final size:20
Alignment explanation
Indices: 18946403--18946448 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
18946393 CTAACAATAC
18946403 GTTAAGGTTAGAGTTTTTAA
1 GTTAAGGTTAGAGTTTTTAA
*
18946423 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGAGTTTTTAA
18946445 -TTAA
1 GTTAA
18946449 ATTAGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGAGTTTTTAA
Found at i:18946476 original size:18 final size:20
Alignment explanation
Indices: 18946436--18946499 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 20
18946426 AAGGGTTTAG
18946436 GGTTTTTAATTAAATTAGGTT
1 GGTTTTTAATTAAATTA-GTT
18946457 AGTGTTTTTAATTAAATTAGGTT
1 -G-GTTTTTAATTAAATTA-GTT
18946480 AGGGTTTTTAATTAAATTAG
1 --GGTTTTTAATTAAATTAG
18946500 GTTAAGGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 2 0.05
23 36 0.92
24 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (20 bp):
GGTTTTTAATTAAATTAGTT
Found at i:18946492 original size:46 final size:51
Alignment explanation
Indices: 18946432--18946764 Score: 214
Period size: 59 Copynumber: 6.2 Consensus size: 51
18946422 AGTTAAGGGT
*
18946432 TTAGGGTTTTTAATTAAATTAGGTT-A-G-T-G-TTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGTTTTTTAAATAAATTAGG
18946478 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGTTTTTTAAATAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTA-GTTTTTTAAATAAATTAGG
* * * * *
18946530 TTAGGGTTAAGGTTTTTAATTAAATTAGATTAAGGTTAGGGTTTTTAAGTTAA--GGG
1 TTA--G----GGTTTTTAATTAAATTAGGTTAAGGTTA-GTTTTTTAAATAAATTAGG
* * **
18946586 TTTAGGGTTTTTAATTCAAA-TAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTTAAGGG
1 -TTAGGGTTTTTAATT-AAATTAGGTTAAGGTTA--GTTT-T--TTAA-ATAAATT-A-GG
* * **
18946646 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTAATTAATTTAGGTTAGGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTA-G-TTT-T--TTAA-ATAAATTA--GG
* * *
18946705 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTA-GTTTTTTAAATAAATTAGG
18946757 TTAGGGTT
1 TTAGGGTT
18946765 AGGGTTTTTA
Statistics
Matches: 244, Mismatches: 17, Indels: 46
0.79 0.06 0.15
Matches are distributed among these distances:
46 25 0.10
47 1 0.00
48 1 0.00
49 1 0.00
51 23 0.09
52 36 0.15
53 1 0.00
54 7 0.03
55 9 0.04
56 3 0.01
57 4 0.02
58 47 0.19
59 84 0.34
60 2 0.01
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.45
Consensus pattern (51 bp):
TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGTTTTTTAAATAAATTAGG
Found at i:18946508 original size:29 final size:29
Alignment explanation
Indices: 18946427--18947117 Score: 497
Period size: 29 Copynumber: 24.7 Consensus size: 29
18946417 TTTTAAGTTA
18946427 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
18946457 A--G-T---GTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18946475 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
18946503 AAGGTTAGGTTTTTTAAATAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18946532 AGGGTTAAGGTTTTTAATTAAATTAGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18946561 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
* **
18946589 AGGGTT----TTTAATTCAAATAGGTTAGG--
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* *
18946615 ---GTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18946641 AAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
18946671 AGGGTTAGGCTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18946700 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
18946730 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
********
18946759 AGGGTTAGGGTTTTTAATTAANNNNNNNNN
1 AGGGTTAGGGTTTTTAATTAA-ATTAGGTT
****
18946789 NNNNTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18946818 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
18946846 AGGGTT----TTTAATTAAATT--A-C--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
18946869 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18946898 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
18946926 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* * *
18946949 AGGGTTAGAGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
18946978 AGGGGTTATGGTTTTTAATTAAATTTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAA-TTAGGTT
* *
18947009 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18947038 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
18947068 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18947097 AGGGTTAGGGTTTTTAATTAA
1 AGGGTTAGGGTTTTTAATTAA
18947118 NNNNNNNNNN
Statistics
Matches: 527, Mismatches: 70, Indels: 129
0.73 0.10 0.18
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
20 2 0.00
22 2 0.00
23 39 0.07
24 30 0.06
25 6 0.01
26 14 0.03
27 20 0.04
28 25 0.05
29 241 0.46
30 136 0.26
31 8 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:18946671 original size:59 final size:59
Alignment explanation
Indices: 18946578--18947117 Score: 611
Period size: 59 Copynumber: 9.4 Consensus size: 59
18946568 GGGTTTTTAA
* *
18946578 GTTAAGGGTTTAGGGTTTTTAATTCAAA-TAGGTTAGGGTTAGGGTTTGTAATTAATTTAG
1 GTTAAGGG-TTAGGGTTTTTAATT-AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
* * *
18946638 GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTAATTAATTTAG
1 GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
*
18946697 GTTAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
************
18946756 GTT-AGGGTTAGGGTTTTTAATTAANNNNNNNNNNNNNTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGGTTAGGGTTTTTAATTAA-ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
* *
18946815 GTTAA-GGTTAGGGTTTTTAAGTT--A--A-G---GGTTTAGGGTTTTTAATTAAATTAC
1 GTTAAGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
*
18946866 GTT-AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG--TTT--TT--A--A-
1 GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
* * *
18946915 GTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTGTAATTAATTTAG
1 GTTAAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
* * * *
18946975 GTTAGGGGTTATGGTTTTTAATTAAATTTAGGTTAGGGTTAGGGTTTGTAATTAATTTAG
1 GTTAAGGGTTAGGGTTTTTAATTAAA-TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
*
18947035 GTTAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
18947094 GTT-AGGGTTAGGGTTTTTAATTAA
1 GTTAAGGGTTAGGGTTTTTAATTAA
18947118 NNNNNNNNNN
Statistics
Matches: 417, Mismatches: 38, Indels: 52
0.82 0.07 0.10
Matches are distributed among these distances:
49 3 0.01
50 8 0.02
51 72 0.17
52 2 0.00
53 2 0.00
54 3 0.01
55 3 0.01
56 3 0.01
58 50 0.12
59 196 0.47
60 75 0.18
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.44
Consensus pattern (59 bp):
GTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
Found at i:18946850 original size:22 final size:20
Alignment explanation
Indices: 18946815--18946860 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
18946805 ATTAAATTAG
18946815 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
18946835 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
18946857 -TTAA
1 GTTAA
18946861 ATTACGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:18946853 original size:51 final size:50
Alignment explanation
Indices: 18946793--18946889 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 50
18946783 NNNNNNNNNN
*
18946793 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAATTAAATTACGTTAAGGTTAGGGTTTTTAA-TTAAGGGT
*
18946844 TTAGGGTTTTTAATTAAATTACGTTAGGGTTAGGGTTTTTAATTAA
1 TTAGGGTTTTTAATTAAATTACGTTAAGGTTAGGGTTTTTAATTAA
18946890 ATTAGGTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 4 0.09
51 40 0.91
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (50 bp):
TTAGGGTTTTTAATTAAATTACGTTAAGGTTAGGGTTTTTAATTAAGGGT
Found at i:18946930 original size:22 final size:20
Alignment explanation
Indices: 18946895--18946940 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
18946885 ATTAAATTAG
18946895 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
18946915 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
18946937 -TTAA
1 GTTAA
18946941 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:18947447 original size:43 final size:45
Alignment explanation
Indices: 18947373--18947458 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
18947363 TTTTATTACA
*
18947373 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
18947418 TCAAA-AAATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
18947459 TTTGTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:18947894 original size:18 final size:18
Alignment explanation
Indices: 18947871--18947905 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18947861 CGGAAAAGGA
*
18947871 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
18947889 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
18947906 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:18951930 original size:23 final size:23
Alignment explanation
Indices: 18951900--18951948 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18951890 GGTAGTCTAA
18951900 ATGGGTTTTAAATGCCAACTTGG
1 ATGGGTTTTAAATGCCAACTTGG
18951923 ATGGGTTTTAAATGCCAACTTGG
1 ATGGGTTTTAAATGCCAACTTGG
18951946 ATG
1 ATG
18951949 TCTAGTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (23 bp):
ATGGGTTTTAAATGCCAACTTGG
Found at i:18956319 original size:20 final size:20
Alignment explanation
Indices: 18956291--18956341 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18956281 TGGAATTTTA
18956291 GGTCAAATTTTTTTTTGATAG
1 GGTC-AATTTTTTTTTGATAG
18956312 GGTCAATTTTTTTTTGATAG
1 GGTCAATTTTTTTTTGATAG
*
18956332 CGTCCAATTT
1 GGT-CAATTT
18956342 CACCCGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (20 bp):
GGTCAATTTTTTTTTGATAG
Found at i:18971995 original size:29 final size:29
Alignment explanation
Indices: 18971963--18972071 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
18971953 ATGGTCAAAG
* * *
18971963 CCATCCTTTTTTATATTCGATGGTCGTCT
1 CCATCCCTTTTCATATTCGATGGTCGTCA
18971992 CCATCCCTTTTCATATTCGATGGTCGTCA
1 CCATCCCTTTTCATATTCGATGGTCGTCA
* **
18972021 CCATCCCTTTTCATATTTGAT-GTCGAAA
1 CCATCCCTTTTCATATTCGATGGTCGTCA
18972049 CCATCCCTTTTCATATTCGATGG
1 CCATCCCTTTTCATATTCGATGG
18972072 GCATCAATAC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 25 0.35
29 47 0.65
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (29 bp):
CCATCCCTTTTCATATTCGATGGTCGTCA
Found at i:19014084 original size:25 final size:25
Alignment explanation
Indices: 19014054--19014121 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
19014044 CTATAAATGA
19014054 TAAGCTCATTCGAGCTGAATATCAG
1 TAAGCTCATTCGAGCTGAATATCAG
* *
19014079 TAAGCTCATGCGAGCTAAATATCAG
1 TAAGCTCATTCGAGCTGAATATCAG
19014104 TAAGCTC-TCTCGAGCTGA
1 TAAGCTCAT-TCGAGCTGA
19014122 GAATCGGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
TAAGCTCATTCGAGCTGAATATCAG
Found at i:19023852 original size:53 final size:53
Alignment explanation
Indices: 19023772--19023877 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
19023762 ATGCAAAAGT
19023772 ATCATATGGACAAGTGAAAGTTGTCTTCTCTTGGTCGTTGGGAGCTTTAGTAG
1 ATCATATGGACAAGTGAAAGTTGTCTTCTCTTGGTCGTTGGGAGCTTTAGTAG
19023825 ATCATATGGACAAGTGAAAGTTGTCTTCTCTTGGTCGTTGGGAGCTTTAGTAG
1 ATCATATGGACAAGTGAAAGTTGTCTTCTCTTGGTCGTTGGGAGCTTTAGTAG
19023878 TCTTATTATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (53 bp):
ATCATATGGACAAGTGAAAGTTGTCTTCTCTTGGTCGTTGGGAGCTTTAGTAG
Found at i:19033880 original size:14 final size:14
Alignment explanation
Indices: 19033861--19033892 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
19033851 CCGGATATCG
19033861 AGTACATACCCCTA
1 AGTACATACCCCTA
19033875 AGTACATACCCCTA
1 AGTACATACCCCTA
19033889 AGTA
1 AGTA
19033893 AATCATATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (14 bp):
AGTACATACCCCTA
Found at i:19036051 original size:27 final size:28
Alignment explanation
Indices: 19036021--19036088 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
19036011 CAAGTTCATT
* *
19036021 ACCACAAAGGCTTCCTTTT-CGTAAATC
1 ACCACAAAGGCTTCATTTTACATAAATC
** *
19036048 ACCACAAACTCTTCATTTTACATAGATC
1 ACCACAAAGGCTTCATTTTACATAAATC
*
19036076 ACCACACAGGCTT
1 ACCACAAAGGCTT
19036089 TTTTTCTGGC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.28
Consensus pattern (28 bp):
ACCACAAAGGCTTCATTTTACATAAATC
Found at i:19038762 original size:25 final size:25
Alignment explanation
Indices: 19038703--19038820 Score: 98
Period size: 25 Copynumber: 4.7 Consensus size: 25
19038693 TCCTGTACAT
19038703 GTATGCTCACACGAG-TATGAAA-CG
1 GTATGCTCACACGAGCTAT-AAATCG
* *
19038727 ATATGCTCACACGAGCTATAAATTG
1 GTATGCTCACACGAGCTATAAATCG
* *
19038752 GTATGCTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTATAAATCG
* * *
19038777 GT-TAGCTCACATGAGCTGTGGAAATGG
1 GTAT-GCTCACACGAGCTAT--AAATCG
**
19038804 GCCTGCTCACACGAGCT
1 GTATGCTCACACGAGCT
19038821 GAGGGTCAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
24 18 0.23
25 41 0.53
27 17 0.22
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCG
Found at i:19040062 original size:25 final size:25
Alignment explanation
Indices: 19040031--19040088 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
19040021 GCTGTAAACA
*
19040031 GTAAGCTCATACGAGCTAAATATCG
1 GTAAGCTCATACAAGCTAAATATCG
* *
19040056 GTAAGCTCATGCAAGCTGAATATCG
1 GTAAGCTCATACAAGCTAAATATCG
*
19040081 ATAAGCTC
1 GTAAGCTC
19040089 TCTCGAGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
GTAAGCTCATACAAGCTAAATATCG
Found at i:19042757 original size:21 final size:20
Alignment explanation
Indices: 19042720--19042758 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19042710 TAGAGCTTAT
*
19042720 TTTAGCTCATTTGAGCTCAA
1 TTTAGCTCATTTCAGCTCAA
*
19042740 TTTAGCTTACTTTCAGCTC
1 TTTAGCTCA-TTTCAGCTC
19042759 GTCCCTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTAGCTCATTTCAGCTCAA
Found at i:19049742 original size:14 final size:14
Alignment explanation
Indices: 19049721--19049756 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
19049711 TCCAACAAAG
19049721 AACA-TCCTACAAT
1 AACATTCCTACAAT
*
19049734 AACATTCCTCCAAT
1 AACATTCCTACAAT
19049748 AACATTCCT
1 AACATTCCT
19049757 GGGCACCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (14 bp):
AACATTCCTACAAT
Found at i:19053397 original size:39 final size:38
Alignment explanation
Indices: 19053348--19053447 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 38
19053338 CGAATATAAT
* *
19053348 AATTATAATTACCATAATTATAATAATGCTT-GACCGAAA
1 AATTATAATTACAATAATTATAATAAT-ATTCGACCG-AA
* * *
19053387 AATTACAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGACCGAA
19053425 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
19053448 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 25 0.46
39 29 0.54
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGACCGAA
Found at i:19058299 original size:20 final size:20
Alignment explanation
Indices: 19058271--19058325 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
19058261 ATGGGATTGG
*
19058271 ACTTCGGTGCCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
*
19058291 ACTTTGGTGTCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
19058311 ACTTTGGTGCCTCTG
1 ACTTTGGTGCCTCTG
19058326 ATTGCACTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.05, C:0.25, G:0.22, T:0.47
Consensus pattern (20 bp):
ACTTTGGTGCCTCTGTTTTC
Found at i:19058333 original size:20 final size:20
Alignment explanation
Indices: 19058265--19058333 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
19058255 GCATGTATGG
* *
19058265 GATTGGACTTCGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
* * *
19058285 GTTTTCACTTTGGTGTCTCT
1 GATTGCACTTTGGTGCCTCT
* *
19058305 GTTTTCACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
19058325 GATTGCACT
1 GATTGCACT
19058334 ACCGTGCCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (20 bp):
GATTGCACTTTGGTGCCTCT
Found at i:19067211 original size:72 final size:72
Alignment explanation
Indices: 19067094--19067238 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
19067084 TTTATTGCAC
*
19067094 TGTATGATTGAAATATCTAATGTGCTCCTACAGTAGCAATATTGTGAAAATGACTTTAACAGTAT
1 TGTATGATTGAAATATCTAATGTGCTCCTACAATAGCAATATTGTGAAAATGACTTTAACAGTAT
19067159 TTTCGAA
66 TTTCGAA
19067166 TGTATGATTGAAATATCTAATGTGCTCCTACAATAGCAATATTGTGAAAATGACTTTAACAGTAT
1 TGTATGATTGAAATATCTAATGTGCTCCTACAATAGCAATATTGTGAAAATGACTTTAACAGTAT
19067231 TTTCGAA
66 TTTCGAA
19067238 T
1 T
19067239 TATCTCATAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (72 bp):
TGTATGATTGAAATATCTAATGTGCTCCTACAATAGCAATATTGTGAAAATGACTTTAACAGTAT
TTTCGAA
Found at i:19076819 original size:19 final size:19
Alignment explanation
Indices: 19076795--19076832 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19076785 AAAGTTAATA
19076795 AAAAATTTGATTACGGTGG
1 AAAAATTTGATTACGGTGG
*
19076814 AAAAATTTTATTACGGTGG
1 AAAAATTTGATTACGGTGG
19076833 GTGATAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (19 bp):
AAAAATTTGATTACGGTGG
Found at i:19077869 original size:18 final size:16
Alignment explanation
Indices: 19077846--19077880 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
19077836 AATTTATCAT
19077846 TTTAAATTTTAATAAAAA
1 TTTAAA-TTT-ATAAAAA
19077864 TTTAAATTTATAAAAA
1 TTTAAATTTATAAAAA
19077880 T
1 T
19077881 AAAAAGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTAAATTTATAAAAA
Found at i:19082167 original size:14 final size:14
Alignment explanation
Indices: 19082148--19082175 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19082138 TATTCATATT
19082148 ATTATATAAAAATA
1 ATTATATAAAAATA
19082162 ATTATATAAAAATA
1 ATTATATAAAAATA
19082176 TTGTGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTATATAAAAATA
Found at i:19087780 original size:55 final size:55
Alignment explanation
Indices: 19087691--19087805 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
19087681 GCTCATAACC
*
19087691 GTTATGACTCAAGGCTGATATAAATTAAATAAAGTGGCTGTTCAAGTCATTTTCA
1 GTTACGACTCAAGGCTGATATAAATTAAATAAAGTGGCTGTTCAAGTCATTTTCA
19087746 GTTACGACTCAAGGCTGATATAAATTAAATAAAGTGGCTGTTCAAGTCATTTTCA
1 GTTACGACTCAAGGCTGATATAAATTAAATAAAGTGGCTGTTCAAGTCATTTTCA
19087801 GTTAC
1 GTTAC
19087806 AAAGTAAAGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (55 bp):
GTTACGACTCAAGGCTGATATAAATTAAATAAAGTGGCTGTTCAAGTCATTTTCA
Found at i:19091457 original size:41 final size:41
Alignment explanation
Indices: 19091397--19091479 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
19091387 TTGCTCAGAT
* *
19091397 AATGGATAGGTGCTTGAATTAATTAACAACAAGTCAACAAA
1 AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
19091438 AATGGATAGGT-ATTAGAATTAATTAACAACAAATCAACAAA
1 AATGGATAGGTGATT-GAATTAATTAACAACAAATCAACAAA
19091479 A
1 A
19091480 TAAAAAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (41 bp):
AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
Found at i:19096435 original size:18 final size:18
Alignment explanation
Indices: 19096412--19096637 Score: 359
Period size: 18 Copynumber: 12.6 Consensus size: 18
19096402 TTCATTGCAA
19096412 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096430 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
*
19096448 AAATTTTCCTAT-TATTA-
1 AAATTTTCCT-TGCATTAG
** *
19096465 TTATTATT-ATTAGCATTAG
1 AAATT-TTCCTT-GCATTAG
19096484 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096502 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096520 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096538 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096556 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096574 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096592 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
19096610 AAATTTTCCTTGCATTAG
1 AAATTTTCCTTGCATTAG
*
19096628 AAATTCTCCT
1 AAATTTTCCT
19096638 CCTCCTCTCC
Statistics
Matches: 193, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
16 1 0.01
17 4 0.02
18 182 0.94
19 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (18 bp):
AAATTTTCCTTGCATTAG
Found at i:19097645 original size:7 final size:7
Alignment explanation
Indices: 19097633--19097662 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19097623 TATAATATAA
19097633 AAAATTC
1 AAAATTC
19097640 AAAATTC
1 AAAATTC
19097647 AAAATTC
1 AAAATTC
19097654 AAAATTC
1 AAAATTC
19097661 AA
1 AA
19097663 TACAACTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:19097838 original size:17 final size:18
Alignment explanation
Indices: 19097818--19097851 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19097808 TAATTTAATT
*
19097818 TCATTTATAA-TAATTTC
1 TCATTCATAATTAATTTC
19097835 TCATTCATAATTAATTT
1 TCATTCATAATTAATTT
19097852 AACTATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (18 bp):
TCATTCATAATTAATTTC
Found at i:19101130 original size:20 final size:20
Alignment explanation
Indices: 19101062--19101168 Score: 92
Period size: 20 Copynumber: 5.3 Consensus size: 20
19101052 GCATCATAGA
*
19101062 TGCATAACAGGAGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* *
19101083 TGTAGAA-AGGGGCA-CAAATG
1 TGCA-AACAGGGGCACCGAA-G
* *
19101103 TGTAAACAGGGGCACCGTAG
1 TGCAAACAGGGGCACCGAAG
* *
19101123 TGCGAACAGGGACACCGAAG
1 TGCAAACAGGGGCACCGAAG
* *
19101143 TGCAAAAAGAGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
19101163 TGCAAA
1 TGCAAA
19101169 TCTCGTACAA
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
19 5 0.07
20 57 0.83
21 7 0.10
ACGTcount: A:0.38, C:0.20, G:0.32, T:0.10
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:19103583 original size:21 final size:21
Alignment explanation
Indices: 19103545--19103584 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19103535 TTCCAAGCCA
*
19103545 TTTTAGGGTTTTAGTTAGTAG
1 TTTTAGGGTTTTACTTAGTAG
19103566 TTTTA-GGTTGTTACTTAGT
1 TTTTAGGGTT-TTACTTAGT
19103585 TTAGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.55
Consensus pattern (21 bp):
TTTTAGGGTTTTACTTAGTAG
Found at i:19106630 original size:17 final size:16
Alignment explanation
Indices: 19106608--19106641 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19106598 AGGGATTGTG
19106608 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
19106625 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
19106641 T
1 T
19106642 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:19109118 original size:13 final size:13
Alignment explanation
Indices: 19109100--19109125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19109090 TCAAACTATC
19109100 AAATTTTCACACA
1 AAATTTTCACACA
19109113 AAATTTTCACACA
1 AAATTTTCACACA
19109126 TATAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:19120428 original size:188 final size:189
Alignment explanation
Indices: 19120102--19120482 Score: 746
Period size: 189 Copynumber: 2.0 Consensus size: 189
19120092 GTTCTTCATG
19120102 ATGACATACTTTCACTTAGATAAAATCATCATTCATACTCGTATACAAACTATCTCAGTAACAAA
1 ATGACATACTTTCACTTAGATAAAATCATCATTCATACTCGTATACAAACTATCTCAGTAACAAA
19120167 AAAAAAGATCTCTAAACATTCATTTATTAAAACATACTTATGAAGGAAATAATTGAAGCATACTT
66 AAAAAAGATCTCTAAACATTCATTTATTAAAACATACTTATGAAGGAAATAATTGAAGCATACTT
19120232 GAAAAAAAATTTAAAAGTTTGTGCAATTTATTTGCCTTA-CCCCCTTTAAAAGGAAGCA
131 GAAAAAAAATTTAAAAGTTTGTGCAATTTATTTGCCTTACCCCCCTTTAAAAGGAAGCA
19120290 ATGACATACTTTCACTTAGATAAAATCATCATTCATACTCGTATACAAACTATCTCAGTAACAAA
1 ATGACATACTTTCACTTAGATAAAATCATCATTCATACTCGTATACAAACTATCTCAGTAAC-AA
19120355 AAAAAAAGATCTCTAAACATTCATTTATTAAAACATACTTATGAAGGAAATAATTGAAGCATACT
65 AAAAAAAGATCTCTAAACATTCATTTATTAAAACATACTTATGAAGGAAATAATTGAAGCATACT
19120420 TGAAAAAAAATTTAAAAGTTTGTGCAATTTATTTGCCTTACCCCCCTTTAAAAGGAAGCA
130 TGAAAAAAAATTTAAAAGTTTGTGCAATTTATTTGCCTTACCCCCCTTTAAAAGGAAGCA
19120480 ATG
1 ATG
19120483 TCCTCATTGC
Statistics
Matches: 191, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 62 0.32
189 107 0.56
190 22 0.12
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (189 bp):
ATGACATACTTTCACTTAGATAAAATCATCATTCATACTCGTATACAAACTATCTCAGTAACAAA
AAAAAAGATCTCTAAACATTCATTTATTAAAACATACTTATGAAGGAAATAATTGAAGCATACTT
GAAAAAAAATTTAAAAGTTTGTGCAATTTATTTGCCTTACCCCCCTTTAAAAGGAAGCA
Done.