Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 62 of 320
Found at i:18629846 original size:92 final size:93
Alignment explanation
Indices: 18629688--18629858 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
18629678 CGCCCATAAG
* *
18629688 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18629753 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18629781 CGAACTCGGACTCAACTCAACGAG-TTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18629845 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18629859 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 51 0.68
93 24 0.32
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18634783 original size:24 final size:23
Alignment explanation
Indices: 18634755--18634799 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18634745 ATATTACCTT
*
18634755 GCTTCAGCTCAATAAATTCTTTAC
1 GCTTCAGATCAATAAA-TCTTTAC
*
18634779 GCTTCTGATCAATAAATCTTT
1 GCTTCAGATCAATAAATCTTT
18634800 CACTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (23 bp):
GCTTCAGATCAATAAATCTTTAC
Found at i:18636840 original size:46 final size:46
Alignment explanation
Indices: 18636773--18636947 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
18636763 TGTAACCCGC
*
18636773 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
18636819 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
18636869 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
18636912 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
18636948 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:18636893 original size:93 final size:93
Alignment explanation
Indices: 18636780--18636951 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
18636770 CGCCCATAAG
* *
18636780 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
18636845 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
18636873 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
18636938 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18636952 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18642243 original size:27 final size:27
Alignment explanation
Indices: 18642209--18642265 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
18642199 ATTGAACACA
18642209 TTACTCAAAGAATTTCCTCATGAAACT
1 TTACTCAAAGAATTTCCTCATGAAACT
* * *
18642236 TTACTCAAATAATTTCTTTATGAAACT
1 TTACTCAAAGAATTTCCTCATGAAACT
18642263 TTA
1 TTA
18642266 ACACATGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (27 bp):
TTACTCAAAGAATTTCCTCATGAAACT
Found at i:18643393 original size:21 final size:21
Alignment explanation
Indices: 18643364--18643410 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18643354 TAAGACATTA
*
18643364 TCATTTCATCTCATAATTCTC
1 TCATCTCATCTCATAATTCTC
18643385 TCATCTCATCTCATAATTCTC
1 TCATCTCATCTCATAATTCTC
18643406 TCATC
1 TCATC
18643411 ATGCCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (21 bp):
TCATCTCATCTCATAATTCTC
Found at i:18645692 original size:12 final size:12
Alignment explanation
Indices: 18645675--18645701 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18645665 ATTCCGAAGT
18645675 ATATATATATAC
1 ATATATATATAC
18645687 ATATATATATAC
1 ATATATATATAC
18645699 ATA
1 ATA
18645702 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:18646218 original size:27 final size:28
Alignment explanation
Indices: 18646184--18646361 Score: 170
Period size: 27 Copynumber: 6.5 Consensus size: 28
18646174 TAAATTGTAC
*
18646184 AGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGAATATGAT
*
18646212 -GCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGAATATGAT
* ** *
18646239 -GCACTAAGTCTGCGAATTGACCATG-C
1 AGCACTAAGTGTGCGAATTGAATATGAT
* * *
18646265 GGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
18646293 AGCACTAAGTGTGCGATTTGATTACG-T
1 AGCACTAAGTGTGCGAATTGAATATGAT
* *
18646320 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGAATTGAATATGAT
*
18646347 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18646362 GACTCAATAT
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
27 109 0.83
28 23 0.17
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTGAATATGAT
Found at i:18646325 original size:82 final size:81
Alignment explanation
Indices: 18646185--18646340 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
18646175 AAATTGTACA
*
18646185 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTCT
1 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTCT
18646250 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * ** *
18646266 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-AATGAATATGAT-GCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* *
18646329 TGTGCGAGTTGA
63 TCTGCGAATTGA
18646341 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTCT
GCGAATTGACCATGCG
Found at i:18653800 original size:12 final size:12
Alignment explanation
Indices: 18653783--18653809 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18653773 ATTCCGAAGT
18653783 ATATATATATAC
1 ATATATATATAC
18653795 ATATATATATAC
1 ATATATATATAC
18653807 ATA
1 ATA
18653810 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:18654323 original size:27 final size:27
Alignment explanation
Indices: 18654292--18654469 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18654282 TAAATTGTAC
18654292 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18654319 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18654345 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18654373 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18654401 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18654428 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18654455 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18654470 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18654406 original size:82 final size:81
Alignment explanation
Indices: 18654293--18654448 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18654283 AAATTGTACA
* *
18654293 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18654357 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18654374 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18654439 TGCGAGTTGA
65 TGCGAATTGA
18654449 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18654460 original size:82 final size:81
Alignment explanation
Indices: 18654289--18654469 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18654279 GATTAAATTG
* *
18654289 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18654354 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18654370 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18654434 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18654452 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18654470 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18665459 original size:65 final size:66
Alignment explanation
Indices: 18665316--18665478 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 66
18665306 TTCTTTCTGA
* * * **
18665316 GTGGTATACACAAAGTATACATTTCCTTTTCAAATGGTATACACAAAGTATACCTTTCCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAAATGGTACACACAAAGTATACATAACCTTTTCA
18665381 T
66 T
* * * * *
18665382 ATGGTATACACAAAGTAGACCTTTCCTTTTCAAGT-GTACATACAAAGTGTACATAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAAATGGTACACACAAAGTATACATAACCTTTTCA
18665446 T
66 T
**
18665447 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCA
18665479 CATTCGATAG
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
65 52 0.63
66 31 0.37
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
GTGGTATACACAAAGTATACCTTTCCTTTTCAAATGGTACACACAAAGTATACATAACCTTTTCA
T
Found at i:18665472 original size:33 final size:33
Alignment explanation
Indices: 18665315--18665478 Score: 197
Period size: 33 Copynumber: 5.0 Consensus size: 33
18665305 TTTCTTTCTG
*
18665315 AGTGGTATACACAAAGTATACATTTCCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
*
18665348 AATGGTATACACAAAGTATACCTTTCCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
*
18665381 TA-TGGTATACACAAAGTAGACCTTTCCTTTTCA
1 -AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* * * * **
18665414 AGT-GTACATACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
* **
18665446 TGTGGTATACACAAAGTATACCTAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTTTCCTTTTCA
18665479 CATTCGATAG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
32 25 0.22
33 87 0.77
34 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (33 bp):
AGTGGTATACACAAAGTATACCTTTCCTTTTCA
Found at i:18665513 original size:29 final size:29
Alignment explanation
Indices: 18665471--18665597 Score: 227
Period size: 29 Copynumber: 4.4 Consensus size: 29
18665461 GTATACCTAA
*
18665471 CCTTTTCACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
18665500 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
18665529 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
18665558 CCTTTTCACATTCGGTAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
18665587 CCTTTTCACAT
1 CCTTTTCACAT
18665598 GGTACACACA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:18671105 original size:40 final size:40
Alignment explanation
Indices: 18671061--18671247 Score: 275
Period size: 40 Copynumber: 4.7 Consensus size: 40
18671051 CCAACCCAAT
* * ** *
18671061 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* * *
18671101 TGCCTTCAGGACTTAACCTGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
18671141 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
18671181 TGCCTTTGGGACTTAACCCGGAAATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
18671221 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
18671248 TCCTCAATTG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:18681346 original size:27 final size:27
Alignment explanation
Indices: 18681298--18681402 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
18681288 GCGAGGCTGC
* *
18681298 CAGATATTGTGACGA-AGTCACCAGATA
1 CAGATATTGTGGC-ATAGCCACCAGATA
18681325 CAGATATTGTGGCATAGCCACCAGA-A
1 CAGATATTGTGGCATAGCCACCAGATA
*
18681351 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
*
18681378 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
18681403 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 9 0.13
27 58 0.84
28 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCATAGCCACCAGATA
Found at i:18683046 original size:26 final size:26
Alignment explanation
Indices: 18683016--18683123 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
18683006 TGAAATTCCC
18683016 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18683042 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
*
18683068 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18683094 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18683120 ATCA
1 ATCA
18683124 ATTTGTATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18691767 original size:13 final size:13
Alignment explanation
Indices: 18691749--18691773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18691739 TAATGGTATA
18691749 TTGAATCCATGAC
1 TTGAATCCATGAC
18691762 TTGAATCCATGA
1 TTGAATCCATGA
18691774 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18692355 original size:27 final size:27
Alignment explanation
Indices: 18692320--18692498 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
18692310 TTAAATTGTA
18692320 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18692347 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
18692374 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
18692401 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
18692429 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18692456 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
18692483 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
18692499 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:18692436 original size:82 final size:81
Alignment explanation
Indices: 18692322--18692472 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
18692312 AAATTGTATA
* *
18692322 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18692386 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18692403 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
18692468 TGCGA
65 TGCGA
18692473 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18692489 original size:82 final size:81
Alignment explanation
Indices: 18692318--18692498 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
18692308 GATTAAATTG
* *
18692318 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18692383 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
18692399 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
18692463 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
18692481 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
18692499 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18699184 original size:13 final size:13
Alignment explanation
Indices: 18699166--18699190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18699156 TAATGGTATA
18699166 TTGAATCCATGAC
1 TTGAATCCATGAC
18699179 TTGAATCCATGA
1 TTGAATCCATGA
18699191 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18699771 original size:27 final size:27
Alignment explanation
Indices: 18699736--18699914 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
18699726 TTAAATTGTA
18699736 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18699763 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
18699790 -ATGTACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
18699817 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
18699845 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * * *
18699872 TAGCACTAAGTGTGCAAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
18699899 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
18699915 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:18699905 original size:82 final size:81
Alignment explanation
Indices: 18699734--18699914 Score: 195
Period size: 82 Copynumber: 2.2 Consensus size: 81
18699724 GATTAAATTG
* * *
18699734 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGTACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
18699799 GTGTGCGAATTGACCA
66 GTGTGCGAAATGACCA
*** * ** *
18699815 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
18699879 AAGTGTGC-AAGATGATTA
64 AAGTGTGCGAA-ATGACCA
*
18699897 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
18699915 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
81 19 0.24
82 61 0.76
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAAATGACCA
Found at i:18709645 original size:143 final size:143
Alignment explanation
Indices: 18709384--18709659 Score: 482
Period size: 143 Copynumber: 1.9 Consensus size: 143
18709374 TTGATAGAAA
* * *
18709384 AGTGTAGGGAAACCATCTAGGCCAGAAGCTTTCAGAGGCACCATATCTTTCATTGCCACCTATAT
1 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATAT
* *
18709449 TTCTTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTTATACTCATTCGAACAT
66 TTCCTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACAT
18709514 TCTTATTTGTGAT
131 TCTTATTTGTGAT
*
18709527 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCA-CTCGTA
1 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCT-ATA
18709591 TTTCCTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACA
65 TTTCCTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACA
18709656 TTCT
130 TTCT
18709660 CAAATATTAC
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
142 2 0.02
143 124 0.98
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (143 bp):
AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATAT
TTCCTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACAT
TCTTATTTGTGAT
Found at i:18716511 original size:20 final size:20
Alignment explanation
Indices: 18716474--18716511 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18716464 TTAATGGTTA
*
18716474 TAGTTTTATTTATTATTTAT
1 TAGTTTTATTTATAATTTAT
18716494 TAGTTTTCATTTA-AATTT
1 TAGTTTT-ATTTATAATTT
18716512 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TAGTTTTATTTATAATTTAT
Found at i:18730575 original size:26 final size:27
Alignment explanation
Indices: 18730504--18730583 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
18730494 TAAAACTGAT
* **
18730504 AAAATTACTGAAATACCTTTATAGGTGA
1 AAAATTACTGATATACCCCTAT-GGTGA
* * *
18730532 AAAATTTACAGATTTACCCCTATGG-GC
1 AAAA-TTACTGATATACCCCTATGGTGA
18730559 AAAATTACTGATATACCCCTATGGT
1 AAAATTACTGATATACCCCTATGGT
18730584 TAAGGTTGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 18 0.43
27 5 0.12
28 6 0.14
29 13 0.31
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAATTACTGATATACCCCTATGGTGA
Found at i:18730688 original size:65 final size:65
Alignment explanation
Indices: 18730584--18730714 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
18730574 CCCCTATGGT
* *
18730584 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
*
18730649 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCTTGCAATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
18730714 T
1 T
18730715 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
Found at i:18732497 original size:46 final size:44
Alignment explanation
Indices: 18732447--18732620 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
18732437 TATCTCGTAA
*
18732447 CCGATGCATGTCCCAGATATGTCTTACACTAGCTTACATCTCAGGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTT-C-TCTCAGGG
* * **
18732493 CCGATGCATGTCCCAGATATGTCTTACACTAGCACTCGTCTCATTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTC-TCTCAGGG
* * *
18732539 CCGATGCCATGTCCCGGACATGGTCTTACACTGGC-TCTCGTAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCTC-TCA-G-GG
*
18732587 CCTATGCATGTCCCAGACATGTCTTACACTAGCT
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCT
18732621 CACACAAGTG
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 62 0.57
47 26 0.24
48 18 0.17
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTTCTCTCAGGG
Found at i:18732566 original size:94 final size:92
Alignment explanation
Indices: 18732358--18732619 Score: 239
Period size: 94 Copynumber: 2.8 Consensus size: 92
18732348 ACATCGACGC
* * * * *
18732358 CATGTCCCAAACATGGTCTTACACAAGTTCTAGTATATCTGTGCCGATGCCATGTCCCAGATATT
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTA-ATGTG-GCCGATG-CATGTCCCAGATA-T
* *
18732423 GCCTTACACT-G-ACATATCTCGTAACCGATG
61 GTCTTACACTAGCACATATCTCATAACCGATG
* *
18732453 CATGTCCCAGATATGTCTTACACTAGCTTACATC-TCA-G-GGCCGATGCATGTCCCAGATATGT
1 CATGTCCCAGACATGTCTTACACTAGC-T-C-TCGTAATGTGGCCGATGCATGTCCCAGATATGT
* **
18732515 CTTACACTAGCAC-TCGTCTCATTGCCGATG
63 CTTACACTAGCACAT-ATCTCATAACCGATG
* * * *
18732545 CCATGTCCCGGACATGGTCTTACACTGGCTCTCGTAATGTGGCCTATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGATATGTC
18732610 TTACACTAGC
64 TTACACTAGC
18732620 TCACACAAGT
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
90 10 0.07
91 17 0.12
92 23 0.17
93 15 0.11
94 56 0.41
95 14 0.10
96 2 0.01
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGATATGTCTT
ACACTAGCACATATCTCATAACCGATG
Found at i:18738835 original size:43 final size:44
Alignment explanation
Indices: 18738715--18738871 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 44
18738705 AGCTCGTACA
** *
18738715 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* ** *
18738758 ATGCC-ACTATCTTAGACAGGGTCTTACATG-AAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * *
18738800 ATACCAATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATC-AAATATCG
* **
18738844 ATGCCAACGTCCTAGATTTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
18738872 AAAAATGAAA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 24 0.27
43 37 0.42
44 28 0.31
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:18749916 original size:26 final size:27
Alignment explanation
Indices: 18749880--18749946 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
18749870 CTTAGCTTTT
18749880 ATGAGCATCCCGATTAAA-GGCTCTTC
1 ATGAGCATCCCGATTAAATGGCTCTTC
*
18749906 ATGAGCATCCCG-TTAAATTGGCTCTTT
1 ATGAGCATCCCGATTAAA-TGGCTCTTC
* *
18749933 GTGAGCTTCCCGAT
1 ATGAGCATCCCGAT
18749947 AGTGCTTGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 17 0.49
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
ATGAGCATCCCGATTAAATGGCTCTTC
Found at i:18761241 original size:40 final size:40
Alignment explanation
Indices: 18761152--18761414 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
18761142 TTGAATGCTG
* *
18761152 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
18761191 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18761231 TCCGGGCTAAG-CCCGAAGGCATTTGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18761270 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18761310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18761350 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18761390 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18761415 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
39 85 0.43
40 107 0.54
41 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18761287 original size:79 final size:79
Alignment explanation
Indices: 18761152--18761414 Score: 331
Period size: 79 Copynumber: 3.3 Consensus size: 79
18761142 TTGAATGCTG
* * **
18761152 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCGAAGGCAT
18761214 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAT
*
18761231 TCCGGGCTAAG-CCCGAAGGCATTTGTGGGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
* * *
18761295 GAGCGAGTTACTAAA
65 GTGCGAGATACTAAT
*
18761310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
18761375 TGCGA-ATTACT-AT
66 TGCGAGA-TACTAAT
* *
18761388 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18761415 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
78 11 0.07
79 104 0.65
80 46 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:18761366 original size:119 final size:119
Alignment explanation
Indices: 18761204--18761420 Score: 337
Period size: 119 Copynumber: 1.8 Consensus size: 119
18761194 GGACTAAGAT
* * *
18761204 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGGGAGTTACTA-
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAT
* *
18761268 AATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTC
66 AA-CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTC
* * *
18761323 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAATTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAT
*
18761388 AACCGGGCTATGTCCCGAAGGCATTTGAACGAG
66 AACCGGGCTAAGTCCCGAAGGCATTTGAACGAG
18761421 GAGCTATATC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 86 0.98
120 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAT
AACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTC
Found at i:18761432 original size:119 final size:118
Alignment explanation
Indices: 18761204--18761447 Score: 330
Period size: 119 Copynumber: 2.1 Consensus size: 118
18761194 GGACTAAGAT
* * *
18761204 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGGGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* * * *
18761269 ATCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* * *
18761323 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAATTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTA-
* * *
18761388 AA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
18761441 CCGAAGG
1 CCGAAGG
18761448 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
118 15 0.14
119 93 0.85
120 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:18761444 original size:79 final size:79
Alignment explanation
Indices: 18761153--18761447 Score: 302
Period size: 79 Copynumber: 3.7 Consensus size: 79
18761143 TGAATGCTGT
* * **
18761153 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAA-ATTCCGAAGGCAT
*
18761214 TTGTGCGAGA-TACTAATT
63 TTGTGCGA-ATTACTAA-A
* * *
18761232 CCGGGCTAAG-CCCGAAGGCATTTGTGGGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTG
* *
18761296 AGCGAGTTACTAAA
66 TGCGAATTACTAAA
* *
18761310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT-AAGTCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTT
18761374 GTGCGAATTACTATAA
65 GTGCGAATTACTA-AA
* ** * *
18761390 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAATTCCGAAGG
18761448 TACGTGATTT
Statistics
Matches: 182, Mismatches: 24, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
78 14 0.08
79 124 0.68
80 44 0.24
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:18763366 original size:57 final size:57
Alignment explanation
Indices: 18763270--18763417 Score: 147
Period size: 57 Copynumber: 2.6 Consensus size: 57
18763260 TGTATACGAG
* * * * * *
18763270 AGGATTACCAGTCCAGGCTAAATCCTTTTTATGATATATGCTCTAAA-GAGCTT-GATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGA-CTTAGATC
* * * * *
18763327 TGGATTACCCGTCCGGGCTAAATCCAATTCATAACATATGCTCGAGAGGATTTATATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGACTTAGATC
*
18763385 AGGATTACCCGTTCGGGCTAAATCCTTTCATAA
1 AGGATTACCCGTCCGGGCTAAATCCTTTCATAA
18763418 ATGAGGTCGA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 46 0.62
58 28 0.38
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
AGGATTACCCGTCCGGGCTAAATCCTTTCATAACATATGCTCGAAAGGACTTAGATC
Found at i:18764418 original size:15 final size:16
Alignment explanation
Indices: 18764379--18764418 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
18764369 ATTGTTTTCT
18764379 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
* *
18764395 TTGTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
18764410 TTTTCATTT
1 TTTTCATTT
18764419 TTTCAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:18788328 original size:55 final size:55
Alignment explanation
Indices: 18788224--18788338 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
18788214 CAAAGTTGTA
* * *
18788224 CACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAATGACAGTGTCGTC
1 CACGGATAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAAAGACAGTGTCGCC
* * *
18788279 CACGGATAGG-CAGCACGGGTGTGTGTCC-TGGCCGTG-TTAATAAGTCAGTGTTGCC
1 CACGGATAGGCCA-CACGGGCGTGTG-CCATGGCCGTGTTTAA-AAGACAGTGTCGCC
18788334 CACGG
1 CACGG
18788339 TTGAAGGGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
54 6 0.12
55 43 0.84
56 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (55 bp):
CACGGATAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAAAGACAGTGTCGCC
Found at i:18788888 original size:34 final size:34
Alignment explanation
Indices: 18788844--18788911 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18788834 GCACGGTTGA
* *
18788844 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
18788879 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
18788912 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:18795578 original size:15 final size:16
Alignment explanation
Indices: 18795558--18795596 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
18795548 AAGATGACAA
18795558 GAAATCCAAAATA-AG
1 GAAATCCAAAATAGAG
*
18795573 GAAATCCGAAATAGAG
1 GAAATCCAAAATAGAG
18795589 G-AATCCAA
1 GAAATCCAA
18795597 GATACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (16 bp):
GAAATCCAAAATAGAG
Found at i:18796021 original size:17 final size:18
Alignment explanation
Indices: 18795999--18796032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18795989 TTGAACTAGT
*
18795999 GAAA-TTATGAATTAAAG
1 GAAATTTATAAATTAAAG
18796016 GAAATTTATAAATTAAA
1 GAAATTTATAAATTAAA
18796033 TGGGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
GAAATTTATAAATTAAAG
Found at i:18797334 original size:53 final size:52
Alignment explanation
Indices: 18797205--18797349 Score: 157
Period size: 52 Copynumber: 2.8 Consensus size: 52
18797195 GAAAAAGATA
** * * *
18797205 TGATATGTGCGCCCGTATAAGACCAGAGCTGGGCCATGGCATCGGTGCAATG
1 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
* * **
18797257 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCGATGGCGTCAGTGTGATG
1 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
* * *
18797309 TGATAATGTGATT-CCGTATAAGACCATGGTAGGGCTATGGC
1 TGAT-ATGTG-TTCCCGTATAAGACCATAGTTGGGCCATGGC
18797350 TTCGATGTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 47 0.59
53 30 0.38
54 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
Found at i:18803945 original size:53 final size:53
Alignment explanation
Indices: 18803875--18804083 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
18803865 CTTTTCTTTT
* * * *
18803875 TAAACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
18803928 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * * *
18803981 TCATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTG
1 T-A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * *
18804036 TAAAACTTACGAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18804084 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:18809656 original size:10 final size:10
Alignment explanation
Indices: 18809641--18809681 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
18809631 ATTGCATGTT
18809641 TGAATAGAAA
1 TGAATAGAAA
18809651 TGAATAG-AA
1 TGAATAGAAA
*
18809660 CGAATAGAAA
1 TGAATAGAAA
18809670 --AATAGAAA
1 TGAATAGAAA
18809678 TGAA
1 TGAA
18809682 AAAAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:18810005 original size:26 final size:26
Alignment explanation
Indices: 18809935--18810009 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
18809925 CATATTTTCT
* *
18809935 CAAAATTTTCCTAGGGGTAAAATCGT
1 CAAAATTTTACTAGGGGTAAAATCGC
* **
18809961 CAAAATTTTACCAAAGGTAAAATCGC
1 CAAAATTTTACTAGGGGTAAAATCGC
* *
18809987 CAAAATTTTGCTGGGGGTAAAAT
1 CAAAATTTTACTAGGGGTAAAAT
18810010 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (26 bp):
CAAAATTTTACTAGGGGTAAAATCGC
Found at i:18815321 original size:12 final size:12
Alignment explanation
Indices: 18815304--18815328 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18815294 TATCAAATTT
18815304 TTTGTTCTAACA
1 TTTGTTCTAACA
18815316 TTTGTTCTAACA
1 TTTGTTCTAACA
18815328 T
1 T
18815329 AATGTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGTTCTAACA
Found at i:18817873 original size:48 final size:48
Alignment explanation
Indices: 18817665--18817979 Score: 311
Period size: 48 Copynumber: 6.6 Consensus size: 48
18817655 GTAAAATGCT
* *
18817665 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTG-GCC
* * * ** *
18817715 GATGCCATGTCCCAAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
* * * * * *
18817761 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATTGAGG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* *
18817808 GATGCCATGTCCTAGACAGGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * *** *
18817856 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACAT-ATCAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
18817904 GATGCCATGTCCCAGACATGGTCTTACACAT-GCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-TGGCTCTCATAATGTGGCC
18817952 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
18817980 GTAGCACACA
Statistics
Matches: 214, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 32 0.15
47 41 0.19
48 107 0.50
49 4 0.02
50 30 0.14
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:18817908 original size:143 final size:144
Alignment explanation
Indices: 18817665--18817979 Score: 408
Period size: 143 Copynumber: 2.2 Consensus size: 144
18817655 GTAAAATGCT
* *
18817665 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCGGTGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
* * * *
18817730 ACATGGTCTTACACTGACATATAACAATGCTGATGCCATGTTCCAAACATGGTCTTATAC-TGGC
66 ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACAT-GC
*
18817794 TCACATATTGAGG-C
130 TCACATAATGAGGCC
* * *
18817808 GATGCCATGTCCTAGACAGGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATGCCATGTCTCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGT-GCCGATGCCATGTCCCA
* * *
18817870 GACATGGTCTTACACTAGCACACATATCAACG-TCGATGCCATGTCCCAGACATGGTCTTACACA
65 AACATGGTCTTACACT-G-ACACATAACAACGCT-GATGCCATGTCCCAAACATGGTCTTACACA
* *
18817934 TGCTCTCATAATGTGGCC
127 TGCTCACATAATGAGGCC
18817952 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
18817980 GTAGCACACA
Statistics
Matches: 149, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
140 2 0.01
141 31 0.21
142 4 0.03
143 84 0.56
144 28 0.19
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACATGCT
CACATAATGAGGCC
Found at i:18817932 original size:96 final size:96
Alignment explanation
Indices: 18817665--18817996 Score: 363
Period size: 96 Copynumber: 3.5 Consensus size: 96
18817655 GTAAAATGCT
* * * *
18817665 GATGCCATGTCCCGGACATGGTCTTACACT-GTCTCTCATA-CATCGGTGCCGATGCCATGTCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACACATATCAAC-GT--CGATGCCATGTCCC
* * * ** *
18817728 AAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
62 AGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
* * * * * ** * *
18817761 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATTGA-GGCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
*
18817825 AGGGTCTTACACTGGCTCTCATAATGTGGCC
66 ATGGTCTTACACTGGCTCTCATAATGTGGCC
*
18817856 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
18817921 ATGGTCTTACACAT-GCTCTCATAATGTGGCC
66 ATGGTCTTACAC-TGGCTCTCATAATGTGGCC
*
18817952 GATGCCATGTCCCAGACATGGTCTTACAGTAGCACACATATCAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
18817997 CAAATGTCTT
Statistics
Matches: 199, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
93 30 0.15
94 2 0.01
95 43 0.22
96 122 0.61
97 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:18819894 original size:21 final size:21
Alignment explanation
Indices: 18819855--18819894 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18819845 GGACTAAACC
* *
18819855 GAAAACTTTGAGAAGTTTCAA
1 GAAAACTTAGAAAAGTTTCAA
*
18819876 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
18819895 CCATGGAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAA
Found at i:18838770 original size:20 final size:18
Alignment explanation
Indices: 18838740--18838782 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
18838730 TTTGTAAAGT
*
18838740 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
18838759 TATGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
18838777 TTGTGA
1 TTGTGA
18838783 GTTGCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:18839488 original size:46 final size:48
Alignment explanation
Indices: 18839432--18839695 Score: 206
Period size: 46 Copynumber: 5.6 Consensus size: 48
18839422 TGATATGTGT
*
18839432 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA-GG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGACGA
* * * * * *
18839478 GCCAGTGTAAGACAAGTATGGGACATGCATCGACCTCTAGA-TAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--GATTATGACGA
* * * *
18839526 GCTAGTGTAAGACATGTATGGGACATGCATCGG-CATTGA-GACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CGATTATGACGA
* * * *
18839572 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TTATGACGA
* * * *
18839620 GCTAGTGTAAGACCTGTCTGGGACATGGCAT-TGACACCGATAGATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CGAT-TATGACGA
* *
18839669 GCCAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
18839696 GAGTCAGTCT
Statistics
Matches: 174, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
46 69 0.40
47 5 0.03
48 63 0.36
49 36 0.21
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGACGA
Found at i:18839545 original size:48 final size:48
Alignment explanation
Indices: 18839432--18839800 Score: 233
Period size: 48 Copynumber: 7.7 Consensus size: 48
18839422 TGATATGTGT
* * **
18839432 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGA-GG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATAT-ACAA
* * * *
18839478 GCCAGTGTAAGACAAGTATGGGACATGCATCGACCTCTAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
* * *
18839526 GCTAGTGTAAGACATGTATGGGACATGCATCGGCAT-T-G--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATAC-A-A
* *
18839572 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
* * * * *
18839620 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTC--TAGATATACAA
* * * * * * *
18839669 GCCAGTGTAAGACCTGTCTGGGACATGGAGTCAGTCTCGAGATATGAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGGCCTCTAGATAT-ACAA
* * * * * * *
18839719 TC-AGTGTAAGACCTGTCTGGGACATGGCATC-GACT-TTGATGTGCTA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCTAGATATACAA
* *
18839765 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
18839801 ATCGTATCCC
Statistics
Matches: 256, Mismatches: 45, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
44 3 0.01
45 1 0.00
46 69 0.27
47 19 0.07
48 87 0.34
49 64 0.25
50 9 0.04
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATACAA
Found at i:18839679 original size:49 final size:50
Alignment explanation
Indices: 18839575--18839796 Score: 199
Period size: 49 Copynumber: 4.6 Consensus size: 50
18839565 GACGAGAGCT
* * * *
18839575 AGTGTAAGACATGTCTGGGACAT-GCATTGGC-CTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGA-AAGCC
* * *
18839623 AGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
* * * * **
18839672 AGTGTAAGACCTGTCTGGGACATGG-AGTCAGTCTCGAGATATGAAAATC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
* * * **
18839721 AGTGTAAGACCTGTCTGGGACATGGCATCGACT-TTGA-TG-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
*
18839768 AATGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
18839797 CGGCATCGTA
Statistics
Matches: 141, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
47 14 0.10
48 43 0.30
49 79 0.56
50 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGACTCTCGAGAGATGAAAGCC
Found at i:18839739 original size:98 final size:95
Alignment explanation
Indices: 18839432--18839793 Score: 315
Period size: 94 Copynumber: 3.8 Consensus size: 95
18839422 TGATATGTGT
* * * * **
18839432 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CAC-ATTATGAGGGCCAGTGTAAGACAAG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGA-TGTGAGAGCCAGTGTAAGACCTG
* * * *
18839494 TATGGGACATGCATC-GACCTCTAGATATACAA
64 TCTGGGACATGGATCAG-CCTCGAGATATAAAA
* * * ** * * *
18839526 GCTAGTGTAAGACATGTATGGGACAT-GCATCGGCATTGA-GACGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATG-TGAGAGCCAGTGTAAGACCTGT
* ** *
18839589 CTGGGACATGCATTGGCCTCGAGATATACAA
65 CTGGGACATGGATCAGCCTCGAGATATAAAA
*
18839620 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGCCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGAT-G-TGAGAGCCAGTGTAAGACCTG
*
18839685 TCTGGGACATGGAGTCAGTCTCGAGATATGAAAA
64 TCTGGGACATGGA-TCAGCCTCGAGATAT-AAAA
* *** ** *
18839719 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAATGTAAGACCATGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACC-TGT
18839783 CTGGGACATGG
65 CTGGGACATGG
18839794 CATCGGCATC
Statistics
Matches: 225, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
94 101 0.45
95 11 0.05
96 16 0.07
97 47 0.21
98 46 0.20
99 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCTGTC
TGGGACATGGATCAGCCTCGAGATATAAAA
Found at i:18843277 original size:24 final size:24
Alignment explanation
Indices: 18843232--18843278 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18843222 ATGTGGAGGG
* *
18843232 AATCAAGGAGAGGATTGGGGAGAA
1 AATCAAAGAGAGGATTAGGGAGAA
*
18843256 AATCAAAGAGAGGATTATGGAGA
1 AATCAAAGAGAGGATTAGGGAGA
18843279 GATTTTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.36, T:0.15
Consensus pattern (24 bp):
AATCAAAGAGAGGATTAGGGAGAA
Found at i:18849980 original size:21 final size:19
Alignment explanation
Indices: 18849956--18849994 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
18849946 TTATAACCCA
*
18849956 TAATTATTTTCACACAATTTT
1 TAATGATTTTC-CA-AATTTT
18849977 TAATGATTTTCCAAATTT
1 TAATGATTTTCCAAATTT
18849995 AAGACAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATGATTTTCCAAATTTT
Found at i:18850590 original size:48 final size:48
Alignment explanation
Indices: 18850517--18850896 Score: 373
Period size: 48 Copynumber: 7.9 Consensus size: 48
18850507 AAAAGGGTAA
* * *
18850517 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * ** *
18850565 AATGCTGCTGCCATGTTCCAAACATGGTCTTACATTGGCTTGCATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * *
18850613 GAGGCCGATGCAATGTTCCAAACATGGTCTTACAATAGCTCTCACAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* *
18850661 AATGCCGATGCCATGTTCCATACATGGTCTTACACTGGCTCACATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * * *
18850709 GAGGCCGATGTCATATCCCAAACATGGTCTTACACTAGCTCTCGTAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * *
18850757 AATGCTGGTGCCATATTTCAAACATGGTCTTACACTGGCTCCCTTATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
* * * * * * * *
18850805 GAGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
18850853 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
18850897 CAAAACTTTA
Statistics
Matches: 256, Mismatches: 76, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 256 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAT
Found at i:18850686 original size:96 final size:96
Alignment explanation
Indices: 18850520--18850896 Score: 520
Period size: 96 Copynumber: 3.9 Consensus size: 96
18850510 AGGGTAAAAT
* * * * *
18850520 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGCTGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
* **
18850585 AACATGGTCTTACATTGGCTTGCATATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * *
18850616 GCCGATGCAATGTTCCAAACATGGTCTTACAATAGCTCTCACAACAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
*
18850681 TACATGGTCTTACACTGGCTCACATATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * * * * *
18850712 GCCGATGTCATATCCCAAACATGGTCTTACACTAGCTCTCGTAACAATGCTGGTGCCATATTTCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
* *
18850777 AACATGGTCTTACACTGGCTCCCTTATTGAG
66 AACATGGTCTTACACTGGCTCACATATTGAG
* * * *
18850808 GCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
18850873 AACATGGTCTTACACTGGCTCACA
66 AACATGGTCTTACACTGGCTCACA
18850897 CAAAACTTTA
Statistics
Matches: 241, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 241 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATTGAG
Found at i:18850779 original size:144 final size:145
Alignment explanation
Indices: 18850517--18850893 Score: 416
Period size: 144 Copynumber: 2.6 Consensus size: 145
18850507 AAAAGGGTAA
* * *
18850517 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGCTGCCATGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
* *** *
18850582 CCAAACATGGTCTTACATTGGCT-TGCATATTGAGGCCGATGCAATGTTCCAAACATGGTCTTAC
66 CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
*
18850646 AATAGCTCTCACAAC
131 AATAGCTCCCACAAC
* * * * * * * *
18850661 AATGCCGATGCCATGTTCCATACATGGTCTTACACTGGCTCACATATTGAGGCCGATGTCATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
* * * * * * *
18850726 CCAAACATGGTCTTACACTAGCTCT-CGTAACAATGCTGGTGCCATATTTCAAACATGGTCTTAC
66 CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
* * ** **
18850790 ACTGGCTCCCTTATT
131 AATAGCTCCCACAAC
* * * * * *
18850805 GAGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
18850870 CCAAACATGGTCTTACACTGGCTC
66 CCAAACATGGTCTTACACTGGCTC
18850894 ACACAAAACT
Statistics
Matches: 187, Mismatches: 45, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
144 186 0.99
145 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (145 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTT
CCAAACATGGTCTTACACTGGCTCTGCATAACAAGGCCGATGCAATATTCCAAACATGGTCTTAC
AATAGCTCCCACAAC
Found at i:18856144 original size:29 final size:29
Alignment explanation
Indices: 18856111--18856169 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18856101 GATCTAGAGT
*
18856111 ATGCTCAGGATTTGAAAATCTGTATTACA
1 ATGCTCAGCATTTGAAAATCTGTATTACA
18856140 ATGCTCAGCATTTGAAAATCTGTATTACA
1 ATGCTCAGCATTTGAAAATCTGTATTACA
18856169 A
1 A
18856170 ATGATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (29 bp):
ATGCTCAGCATTTGAAAATCTGTATTACA
Found at i:18860053 original size:51 final size:51
Alignment explanation
Indices: 18859977--18860087 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
18859967 TAATTTTTGT
*
18859977 ACTTTTGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
1 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
18860028 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
1 ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
18860079 ACTTTAGGG
1 ACTTTAGGG
18860088 TTTTGCCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (51 bp):
ACTTTAGGGACCCTTGTAGGAATGGGAGAGTTATTTTTGCAAATGGTTGAA
Found at i:18860779 original size:48 final size:48
Alignment explanation
Indices: 18860721--18861052 Score: 355
Period size: 48 Copynumber: 6.9 Consensus size: 48
18860711 ATATTAGGGT
* * *
18860721 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATCGCATCGGCATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * * *
18860769 TATGAGAGCTAGTGTAAGACCATGTCTAGTACATGGCATCGGCCTTGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * *
18860817 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATCGACCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
*
18860865 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * * *
18860913 TATGAGAGCTAGTGTAAGACCATGTCTGGTACATGGGATCGACCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * *
18860961 TACGTGAGCCAGT-TAAGACCATGTTTGGAACATGACATTGGA-ATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCA-TCGACATTGA
* * * * *
18861008 TAAGAGAGCTAGTGTAAGACTATGTCTAGG-ACATGGCATCAACAT
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGACAT
18861053 CTTGCCCTTT
Statistics
Matches: 234, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 34 0.15
48 197 0.84
49 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
Found at i:18863854 original size:49 final size:49
Alignment explanation
Indices: 18863782--18864026 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
18863772 TACCCAAAGC
* * * *
18863782 TATCTAGTACGCATAGTACCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
18863831 TAT-TCGGTAAACGTAGTAGCCTGCACTTAGTACTACACACGTGGCCTAAC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * ** *
18863881 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* ** * *
18863932 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
18863981 TATCTGGTACACATAGTAGCCTGTACTTAGTACTACACATGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
18864027 TCAAAATAGA
Statistics
Matches: 157, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 77 0.49
50 43 0.27
51 36 0.23
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:18869007 original size:49 final size:49
Alignment explanation
Indices: 18868949--18869187 Score: 309
Period size: 49 Copynumber: 4.8 Consensus size: 49
18868939 TAGCCAATGC
* * *
18868949 TATCTGGTACGCATAGTAGCCTGCACTTAGTAGTACACAAGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
18868998 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
18869048 CATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* *
18869099 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
18869148 TAT-TCGGTACACGTAGTAGCCTGCAGTTAGTACTACACAC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACAC
18869188 ATGACCTCAC
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 77 0.47
50 48 0.29
51 40 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:18869131 original size:101 final size:98
Alignment explanation
Indices: 18868950--18869187 Score: 307
Period size: 101 Copynumber: 2.4 Consensus size: 98
18868940 AGCCAATGCT
* * * * *
18868950 ATCTGGTACGCATAGTAGCCTGCACTTAGTAGTACACAAGCGACCAATTATCTGGTACACGTAGT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
*
18869015 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACC-AACC
* * *
18869049 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATA
* **
18869114 GTAGCCTGCACTTAGTACTACACATGCGACCAATT
64 GTAGCCTGCACTTAGTACTACACACGCGACCAACC
* *
18869149 AT-TCGGTACACGTAGTAGCCTGCAGTTAGTACTACACAC
1 ATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACAC
18869188 ATGACCTCAC
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 39 0.32
100 39 0.32
101 43 0.36
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCAACC
Found at i:18872867 original size:27 final size:26
Alignment explanation
Indices: 18872819--18872878 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
18872809 GCGAGGCTGC
*
18872819 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
18872846 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
18872872 CAGATAT
1 CAGATAT
18872879 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18872967 original size:27 final size:26
Alignment explanation
Indices: 18872919--18872970 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18872909 GCGAGGCTGC
*
18872919 CAGATATTGTGACAAAGTCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
* *
18872945 CAGATATATGTGGCAAGGCCACCAGA
1 CAGATAT-TGTGACAAAGCCACCAGA
18872971 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:18880401 original size:70 final size:65
Alignment explanation
Indices: 18880303--18880438 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 65
18880293 GTCACAGATA
* *
18880303 CAGATATTGTGCTAGGCCACCAGAACAGATATATATATATGGAGAAGCCACCAGATTGCAGCGAG
1 CAGATATTGTGCGAAGCCACCAGAACAG----ATATATATGGAGAAGCCACCAGATTGCAGCGAG
18880368 GCTG
62 GCTG
* * * * *
18880372 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTG-CGAAGCCACCAGAACAGATATATATGGAGAAGCCACCAGATTGCAGCGAGGCT
18880437 G
65 G
18880438 C
1 C
18880439 CAGAATGCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
66 34 0.58
69 11 0.19
70 14 0.24
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (65 bp):
CAGATATTGTGCGAAGCCACCAGAACAGATATATATGGAGAAGCCACCAGATTGCAGCGAGGCTG
Found at i:18880420 original size:27 final size:26
Alignment explanation
Indices: 18880372--18880423 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18880362 AGCGAGGCTG
*
18880372 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
18880398 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
18880424 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18887643 original size:43 final size:43
Alignment explanation
Indices: 18887596--18887690 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
18887586 TCCCAGATGT
* *
18887596 GGTCTTACATGTAAA-GAAATATCGATGCC-ACTGTCCTAAACAA
1 GGTCTTACATGAAAATCAAATA-CGATGCCGA-TGTCCTAAACAA
* *
18887639 GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAGACAT
1 GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAAACAA
*
18887682 GTTCTTACA
1 GGTCTTACA
18887691 CATAAATCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 39 0.87
44 6 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAAACAA
Found at i:18887698 original size:43 final size:42
Alignment explanation
Indices: 18887595--18887735 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 42
18887585 GTCCCAGATG
** * *
18887595 TGGTCTTACATGTAAA-GAAATATCGATGCCACTGTCCTAAACA
1 TGGTCTTACATCAAAATCAAATA-CGATGCCA-TGTCCTAGACA
* *
18887638 AGGTCTTACATGAAAATCAAATACGATGCCGATGTCCTAGACA
1 TGGTCTTACATCAAAATCAAATACGATGCC-ATGTCCTAGACA
* *
18887681 TGTTCTTACA-CATAAATCATAAGT-CGATGCCAATGTTCC-AGACG
1 TGGTCTTACATCA-AAATCA-AA-TACGATGCC-ATG-TCCTAGACA
18887725 TGGTCTTACAT
1 TGGTCTTACAT
18887736 GAAAGCACAT
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 45 0.56
44 31 0.38
45 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGTCTTACATCAAAATCAAATACGATGCCATGTCCTAGACA
Found at i:18893088 original size:35 final size:35
Alignment explanation
Indices: 18893038--18893198 Score: 137
Period size: 35 Copynumber: 4.6 Consensus size: 35
18893028 CATAGGTAAG
* *
18893038 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * * **
18893073 TGCATGTGAGGTTATATTGAATTTGAATATTCGAT
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * *
18893108 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-
1 TACATGTGAGGTTATATTGAACTTGTATATTCGGC
* * * *
18893142 TCATATGTAAGGTTA-ACTTGAACGTGCATATTCGGC
1 T-ACATGTGAGGTTATA-TTGAACTTGTATATTCGGC
* * *
18893178 TATATGTGATGTTCTATTGAA
1 TACATGTGAGGTTATATTGAA
18893199 TTTGAACTAT
Statistics
Matches: 100, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.02
35 96 0.96
36 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (35 bp):
TACATGTGAGGTTATATTGAACTTGTATATTCGGC
Found at i:18893173 original size:70 final size:69
Alignment explanation
Indices: 18893038--18893202 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 69
18893028 CATAGGTAAG
* * * * **
18893038 TACATGTAAGCTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAATTTGAATAT
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCT-CATGTAAGGTTATATTGAACGTGAATAT
*
18893103 TCGAT
65 TCGAC
* *
18893108 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-TCATATGTAAGGTTA-ACTTGAACGTGCAT
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCTC--ATGTAAGGTTATA-TTGAACGTGAAT
*
18893171 ATTCGGC
63 ATTCGAC
* *
18893178 TATATGTGA-TGTTCTATTGAATTTG
1 TACATGTGAGT-TTATATTGAATTTG
18893203 AACTATAGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
68 1 0.01
69 3 0.04
70 75 0.95
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (69 bp):
TACATGTGAGTTTATATTGAATTTGTATATTCGGCTCATGTAAGGTTATATTGAACGTGAATATT
CGAC
Found at i:18899060 original size:15 final size:15
Alignment explanation
Indices: 18899037--18899066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18899027 GACAGAAATC
*
18899037 CTACGCAGATTTGAA
1 CTACACAGATTTGAA
18899052 CTACACAGATTTGAA
1 CTACACAGATTTGAA
18899067 ACAAAAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (15 bp):
CTACACAGATTTGAA
Found at i:18903654 original size:48 final size:48
Alignment explanation
Indices: 18903596--18903928 Score: 393
Period size: 48 Copynumber: 6.9 Consensus size: 48
18903586 AGGGTGATGT
*
18903596 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
** * *
18903644 GAGCCAGTGTAAGACCATGTCAAGG-ACATGGCATCTG-ACTTTATATGT
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCA-TTTATATGA
* * * ** *
18903692 GAGCCAATATAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
*
18903740 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
** * * * ** *
18903788 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
18903836 GAGCCAATGTAAGACCATGTTTGGAACATGGCATAGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
18903884 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACATCTTAT
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAT-TTAT
18903929 CCTTTTGTAT
Statistics
Matches: 236, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.01
48 224 0.95
49 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
Found at i:18903756 original size:96 final size:96
Alignment explanation
Indices: 18903596--18903919 Score: 438
Period size: 96 Copynumber: 3.4 Consensus size: 96
18903586 AGGGTGATGT
* * ** *
18903596 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
** *
18903661 TGTCAAGG-ACATGGCATCTGAC-TTTATATGT
66 TGT-TTGGAACATGGCATC-GACATTTATATGA
* *
18903692 GAGCCAATATAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
18903757 TGTTTGGAACATGGCATCGACATTTATATGA
66 TGTTTGGAACATGGCATCGACATTTATATGA
** * * *
18903788 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
* *
18903853 TGTTTGGAACATGGCATAGGCATTTATATGA
66 TGTTTGGAACATGGCATCGACATTTATATGA
*
18903884 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCG
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCG
18903920 ACATCTTATC
Statistics
Matches: 202, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
95 5 0.02
96 195 0.97
97 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGACCA
TGTTTGGAACATGGCATCGACATTTATATGA
Found at i:18903852 original size:144 final size:144
Alignment explanation
Indices: 18903592--18903928 Score: 496
Period size: 144 Copynumber: 2.3 Consensus size: 144
18903582 TGCTAGGGTG
* *
18903592 ATGTGAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
* **
18903657 ACCATGTCAAGGACATGGCATCTGACTTTATATGTGAGCCAATATAAGACCATGTTTGGAACATG
66 ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
* *
18903722 GCATCGGCCTCGAT
131 GCATAGGCATCGAT
**
18903736 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGTTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
** * *
18903801 ACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGTAAGACCATGTTTGGAACATG
66 ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
**
18903866 GCATAGGCATTTAT
131 GCATAGGCATCGAT
* *
18903880 ATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACATCTTAT
1 ATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGACAT-TTAT
18903929 CCTTTTGTAT
Statistics
Matches: 174, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
144 167 0.96
145 7 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (144 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCCAGTGTAAG
ACCATGTCAAGGACATGGCATCGGACTCGATATGTGAGCCAATATAAGACCATGTTTGGAACATG
GCATAGGCATCGAT
Found at i:18907701 original size:20 final size:21
Alignment explanation
Indices: 18907662--18907701 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18907652 GTTAAGAAGA
*
18907662 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCATGTCGCCCTTC
*
18907683 CACATGGGCATGT-GCCCTT
1 CACACGGGCATGTCGCCCTT
18907702 ATCTGCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTCGCCCTTC
Found at i:18908807 original size:42 final size:43
Alignment explanation
Indices: 18908760--18908873 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
18908750 GTGTGTTTTT
*
18908760 GTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
* ** *
18908802 GTGTAAGACC-CTTTCTGGGACAATAGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATTAC
*
18908845 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
18908874 TGTACAAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 33 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:18909769 original size:43 final size:43
Alignment explanation
Indices: 18909614--18909770 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
18909604 TGTGTTATCG
* * *
18909614 TGTAAGACCACATCTGGGACGTTGGCATCTGCTTATGTT--TTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-G-GTAT-TTGATTACA
* * * * * *
18909658 TGTAAGACCATGTTTGGGACATTGGTAT-TGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGGTATTTGATTACA
*
18909700 TGTAAGACTC-TGTCTGGGACAG-TGGCATCGGTATTTGATTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCGGTATTTGATTACA
*
18909743 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18909771 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.30
43 35 0.39
44 23 0.26
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGGTATTTGATTACA
Found at i:18914569 original size:47 final size:45
Alignment explanation
Indices: 18914459--18914583 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 45
18914449 TGATTTGTGC
* **
18914459 GCCAGTGTAAGACATGTCTGGGACATGCTATGACCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGC-ATCACCACAAAATGAGA
* * * *
18914505 GCCAGTGTAAGCCCATGTCTGGGACATGGCATCAGCATAGAAATGAGT
1 GCCAGTGTAAG-ACATGTCTGGGACAT-GCATCACCACA-AAATGAGA
* *
18914553 GCCAGAGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
18914584 GGCCTCGACA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
46 16 0.24
47 33 0.50
48 17 0.26
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCACCACAAAATGAGA
Found at i:18918300 original size:38 final size:38
Alignment explanation
Indices: 18918257--18918333 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
18918247 TTTCAAATTA
18918257 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
18918295 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
18918333 A
1 A
18918334 ATAAATCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:18918356 original size:85 final size:85
Alignment explanation
Indices: 18918264--18918480 Score: 299
Period size: 95 Copynumber: 2.4 Consensus size: 85
18918254 TTAACATGTA
*
18918264 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
*
18918329 CGTTAATAAATCAATATATG
66 CATTAATAAATCAATATATG
*
18918349 TAACCGTGGCATATCCACTTAGCACCACTTAGCACCACGTTGCATGTTTAACCGTGATATATCCA
1 TAACCGTGGC--AT--A--T----CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCA
*
18918414 CTTAGCACCACATTAATGAATCAATATATG
56 CTTAGCACCACATTAATAAATCAATATATG
*
18918444 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
18918481 ATCATTATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
85 31 0.27
87 2 0.02
89 2 0.02
91 2 0.02
93 2 0.02
95 77 0.66
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
CATTAATAAATCAATATATG
Found at i:18918441 original size:95 final size:95
Alignment explanation
Indices: 18918278--18918470 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 95
18918268 CGTGGCATAT
* *
18918278 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
18918343 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
* *
18918373 CCACTTAGCACCACGTTGCATGTTTAACCGTGATATATCCACTTAGCACCACATTAATGAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
18918438 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
18918468 CCA
1 CCA
18918471 TGTTACATGT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (95 bp):
CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
TATATGTAACCGTGGCATATCCACTTAGCA
Found at i:18918508 original size:48 final size:48
Alignment explanation
Indices: 18918297--18918525 Score: 243
Period size: 48 Copynumber: 4.8 Consensus size: 48
18918287 ACCACGTTAC
* *
18918297 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATAAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * ** **
18918344 ATATGTAACCGTGGCATATCCACTTAGCACCAC-TTAGCA-CCA-CGTT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTA-CATGAATCAAT
* * *
18918390 GCATGTTTAACCGTGATATATCCACTTAGCACCACATTA-ATGAATCAAT
1 --ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * * * *
18918439 ATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCATT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
*
18918487 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACA
18918526 CGTATAACCG
Statistics
Matches: 147, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
46 5 0.03
47 63 0.43
48 74 0.50
49 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:18922130 original size:12 final size:12
Alignment explanation
Indices: 18922113--18922140 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18922103 ACAGGTTTGG
18922113 CACGACCTAGCA
1 CACGACCTAGCA
18922125 CACGACCTAGCA
1 CACGACCTAGCA
18922137 CACG
1 CACG
18922141 GGCGTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.43, G:0.18, T:0.07
Consensus pattern (12 bp):
CACGACCTAGCA
Found at i:18923034 original size:24 final size:24
Alignment explanation
Indices: 18922996--18923088 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
18922986 TACCGATATA
* * *
18922996 TCAGCTCATAAGAGCTTAGTGTTC
1 TCAGCTCGTACGAGCTTACTGTTC
18923020 TCAGCTCGTACGAGCTTACTGTT-
1 TCAGCTCGTACGAGCTTACTGTTC
* *
18923043 TCAGATCGT-CAGAGCTTACTGTCC
1 TCAGCTCGTAC-GAGCTTACTGTTC
* *
18923067 ATCAGCTCAGGAGGAGCTTACT
1 -TCAGCTC-GTACGAGCTTACT
18923089 ATTCATAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 19 0.34
24 20 0.36
25 6 0.11
26 10 0.18
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
TCAGCTCGTACGAGCTTACTGTTC
Found at i:18923051 original size:23 final size:24
Alignment explanation
Indices: 18923006--18923064 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
18922996 TCAGCTCATA
* *
18923006 AGAGCTTAGTGTTCTCAGCTCGT-
1 AGAGCTTACTGTTCTCAGATCGTC
18923029 ACGAGCTTACTGTT-TCAGATCGTC
1 A-GAGCTTACTGTTCTCAGATCGTC
18923053 AGAGCTTACTGT
1 AGAGCTTACTGT
18923065 CCATCAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAGATCGTC
Found at i:18925542 original size:26 final size:29
Alignment explanation
Indices: 18925498--18925554 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
18925488 ACGATTGTTA
*
18925498 AAATTCTTCTAAAAG-AAAACTCA-AGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
18925525 AAATTCTT-GAAAAGAAAAACTCATAGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
18925553 AA
1 AA
18925555 TTTATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 16 0.59
28 6 0.22
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (29 bp):
AAATTCTTCGAAAAGAAAAACTCATAGAG
Found at i:18927234 original size:13 final size:13
Alignment explanation
Indices: 18927216--18927240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18927206 TAATGGTATA
18927216 TTGAATCCATGAC
1 TTGAATCCATGAC
18927229 TTGAATCCATGA
1 TTGAATCCATGA
18927241 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18927824 original size:27 final size:27
Alignment explanation
Indices: 18927790--18927967 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
18927780 TAAATTGTAC
18927790 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
18927817 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
18927843 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* * *
18927871 GGCACTAAGTGTGCTAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
18927899 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
18927926 AGCACTAAGTGTGCGAGT-TTATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
18927953 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18927968 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:18927904 original size:82 final size:81
Alignment explanation
Indices: 18927791--18927941 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
18927781 AAATTGTACA
* *
18927791 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18927855 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
18927872 GCACTAAGTGTGCTAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
18927937 TGCGA
65 TGCGA
18927942 GTTTATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 14 0.23
82 46 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18927978 original size:27 final size:27
Alignment explanation
Indices: 18927898--18927978 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 27
18927888 TTTGACTATG
** * * **
18927898 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGAGCTCAATATA
* * *
18927925 TAGCACTAAGTGTGCGAGTTTATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
18927952 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
18927979 CATTCGTGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:18934404 original size:13 final size:13
Alignment explanation
Indices: 18934386--18934410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18934376 TAATGGTATA
18934386 TTGAATCCATGAC
1 TTGAATCCATGAC
18934399 TTGAATCCATGA
1 TTGAATCCATGA
18934411 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18934992 original size:27 final size:27
Alignment explanation
Indices: 18934958--18935135 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
18934948 TAAATTGTAC
18934958 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
18934985 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
18935011 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
18935039 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
18935067 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
18935094 AGCACTAAGTGTGCGAGT-TTATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
18935121 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18935136 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:18935073 original size:82 final size:81
Alignment explanation
Indices: 18934959--18935109 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
18934949 AAATTGTACA
* *
18934959 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18935023 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18935040 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
18935105 TGCGA
65 TGCGA
18935110 GTTTATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18935146 original size:27 final size:27
Alignment explanation
Indices: 18935040--18935146 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
18935030 TGACCATGCG
* * * *
18935040 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
18935068 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
18935095 GCACTAAGTGTGCGAGTTTATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
18935122 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
18935147 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:18938630 original size:12 final size:12
Alignment explanation
Indices: 18938613--18938637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18938603 CCTAGACACA
18938613 CGCCCGTGTGTC
1 CGCCCGTGTGTC
18938625 CGCCCGTGTGTC
1 CGCCCGTGTGTC
18938637 C
1 C
18938638 AACCGTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.44, G:0.32, T:0.24
Consensus pattern (12 bp):
CGCCCGTGTGTC
Found at i:18939476 original size:42 final size:40
Alignment explanation
Indices: 18939430--18939582 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 40
18939420 AATCATACCA
*
18939430 ATGCCATATCCCAGATATGATCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT--GATCTCATATCG
* *
18939472 ATGCCAATAGCCCAGCTATGGTCTTACACT-ATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACA-TGA-TCTCATATCG
* * * *
18939514 ATTCCATGTCCCAAACATGGTCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATG--ATCTCAT-ATCG
** *
18939556 ATGCCATATCCTGGATATAGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
18939583 CGTAAACTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 18 0.20
42 46 0.52
43 22 0.25
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (40 bp):
ATGCCATATCCCAGATATGGTCTTACATGATCTCATATCG
Found at i:18943917 original size:93 final size:93
Alignment explanation
Indices: 18943807--18943977 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18943797 GCCCCTAAGT
* * *
18943807 GAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGTACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
18943872 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
18943900 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
18943965 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18943978 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18943967 original size:46 final size:46
Alignment explanation
Indices: 18943802--18943974 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
18943792 AACCCGCCCC
* * * * *
18943802 TAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
18943848 TAAATGAACTC-GTACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
18943896 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
18943941 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
18943975 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 56 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:18943993 original size:46 final size:45
Alignment explanation
Indices: 18943852--18943993 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
18943842 CATCCATAAA
*
18943852 TGAACTCGTACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
18943899 CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
18943945 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
18943991 TGA
1 TGA
18943994 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:18946966 original size:26 final size:26
Alignment explanation
Indices: 18946918--18946971 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
18946908 AATCTCATAT
* ** *
18946918 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
18946944 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
18946970 CT
1 CT
18946972 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:18946989 original size:27 final size:27
Alignment explanation
Indices: 18946955--18947139 Score: 171
Period size: 27 Copynumber: 6.9 Consensus size: 27
18946945 TGTAGGGTAG
* *
18946955 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
18946982 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
18947009 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
18947036 AATTATCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * **
18947063 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
18947090 AATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
18947117 AATTACCAAAGTA-CCTTCGATTT
1 AATTACCAAAATACCCTT-GATTT
18947140 ACAGAATTAT
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.04
27 125 0.93
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:18947158 original size:27 final size:26
Alignment explanation
Indices: 18947128--18947510 Score: 397
Period size: 27 Copynumber: 14.2 Consensus size: 26
18947118 ATTACCAAAG
* *
18947128 TACCTTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * *
18947155 TACCCTCAATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
18947182 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
18947209 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
18947236 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * * * *
18947263 TAGCGTTGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
18947290 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
18947317 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
18947344 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
18947371 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
18947398 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* * * *
18947425 TATCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * *
18947452 TACCCTCGATTTATAGAATAACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* *
18947479 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
18947506 TACCC
1 TACCC
18947511 CTAGGTGTTA
Statistics
Matches: 307, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 299 0.97
28 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:18947172 original size:81 final size:80
Alignment explanation
Indices: 18947101--18947510 Score: 451
Period size: 81 Copynumber: 5.1 Consensus size: 80
18947091 ATTACTAAAA
* * **** *
18947101 TACCCTCGACTTGTAAAATTACCAAAGTACCTTCGATTTACAGAATTATCATTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
* *
18947166 TATAAAATTACTGTTT
65 TACAAAATTACTATTT
* * * *
18947182 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-ATTTTACCCTCAATT
**
18947247 TACAAAATTACCGTTT
65 TACAAAATTACTATTT
* * * * * * *
18947263 TAGCGTTGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-ATTTTACCCTCAATT
18947328 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* * ** *
18947344 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
18947409 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* * * * * * *
18947425 TATCTTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATAACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAATT
* *
18947490 TATAAAATTACCATTT
65 TACAAAATTACTATTT
18947506 TACCC
1 TACCC
18947511 CTAGGTGTTA
Statistics
Matches: 282, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.00
81 280 0.99
82 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACATTTTACCCTCAATTT
ACAAAATTACTATTT
Found at i:18948024 original size:6 final size:6
Alignment explanation
Indices: 18948015--18948158 Score: 127
Period size: 6 Copynumber: 23.8 Consensus size: 6
18948005 TTACATTCAC
* * * *
18948015 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
18948064 -TTACTA ATACTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
18948112 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
18948159 CATTTTGGTT
Statistics
Matches: 115, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.07
6 99 0.86
7 6 0.05
8 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18948143 original size:42 final size:42
Alignment explanation
Indices: 18948040--18948147 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
18948030 CTGTCACGTA
* *
18948040 ATTCTAATTCTGATTCTAATTCTGTTACTAATACTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
* *
18948082 ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
18948124 ATTCTGATTCTG-TTACTGATTCTG
1 ATTCTGATTCTGATT-CTGATTCTG
18948148 ATTCTGATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (42 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTCTG
Found at i:18949804 original size:27 final size:27
Alignment explanation
Indices: 18949770--18949939 Score: 175
Period size: 27 Copynumber: 6.3 Consensus size: 27
18949760 TGAAGGGTAG
* * *
18949770 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
18949797 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
18949824 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
18949851 AATTACCAAAATACCTCT-GATTTGTGA
1 AATTACCAAAATACCCCTAG-TTTGTAA
** ***
18949878 AATTATTAAAATA-CCCTCAACCTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* * *
18949905 AATTACTAAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
18949932 AATTACCA
1 AATTACCA
18949940 CAGTACCTTC
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.03
27 118 0.97
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:18949973 original size:27 final size:27
Alignment explanation
Indices: 18949943--18950325 Score: 451
Period size: 27 Copynumber: 14.2 Consensus size: 27
18949933 ATTACCACAG
* *
18949943 TACCTTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
18949970 TACCCTCAATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
18949997 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
**
18950024 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
18950051 TACCCTCGATTTACAAAATTGCCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
18950078 TATCATCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* **
18950105 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
18950132 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* **
18950159 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
18950186 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * **
18950213 TACCTTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
18950240 TATCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
18950267 TACCCTCGATTTATAGAATAACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
18950294 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
18950321 TACCC
1 TACCC
18950326 CTAGGTGTTA
Statistics
Matches: 302, Mismatches: 54, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 302 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:18950599 original size:27 final size:26
Alignment explanation
Indices: 18950559--18950610 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
18950549 CTCGTTGCAA
*
18950559 TCTGGTGGCCTCGCCACATATATCTGC
1 TCTGGTGACCTCGCCACA-ATATCTGC
*
18950586 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
18950611 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGC
Found at i:18950641 original size:40 final size:40
Alignment explanation
Indices: 18950586--18950719 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 40
18950576 ATATATCTGC
* *
18950586 TCTGGTGACTTCGCCACA-ATATCTGGCAGCCTCGCTGCAA
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCT-CAA
* *
18950626 TCTGGTGGCCTCGCCACATATATAT---A---T--CT-AT
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCTCAA
* **
18950657 TCTAGTGGCCTAACCACA-ATATCTGGCAGCCTCGCTACAA
1 TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCT-CAA
18950697 TCTGGTGGCCTCGCCACATATAT
1 TCTGGTGGCCTCGCCACATATAT
18950720 ATATCTGTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 23
0.67 0.11 0.22
Matches are distributed among these distances:
30 5 0.07
31 16 0.23
33 3 0.04
35 1 0.01
36 1 0.01
38 3 0.04
40 32 0.46
41 9 0.13
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (40 bp):
TCTGGTGGCCTCGCCACATATATCTGGCAGCCTCGCTCAA
Found at i:18950689 original size:71 final size:71
Alignment explanation
Indices: 18950540--18950768 Score: 349
Period size: 71 Copynumber: 3.3 Consensus size: 71
18950530 GAGGAAGCAT
* * * * * **
18950540 TCTGGCAGCCTCGTTGCAATCTGGTGGCCTCGCCAC----ATATATCTGCTCTGGTGACTTCGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
18950601 ACAATA
66 ACAATA
*
18950607 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTATTCTAGTGGCCTAACC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
18950672 ACAATA
66 ACAATA
*
18950678 TCTGGCAGCCTCGCTACAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
18950743 ACAATA
66 ACAATA
18950749 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
18950769 TTCTGTGGTG
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
67 35 0.24
71 112 0.76
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (71 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATCTGTTCTAGTGGCCTAACC
ACAATA
Found at i:18950880 original size:6 final size:6
Alignment explanation
Indices: 18950871--18951026 Score: 155
Period size: 6 Copynumber: 25.8 Consensus size: 6
18950861 TTGCATTCAC
* *
18950871 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
18950920 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT- ATTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
*
18950968 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG
18951016 ATTCTG ATTCT
1 ATTCTG ATTCT
18951027 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 8, Indels: 30
0.77 0.05 0.18
Matches are distributed among these distances:
5 12 0.09
6 103 0.81
7 9 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18950963 original size:54 final size:54
Alignment explanation
Indices: 18950896--18951026 Score: 230
Period size: 54 Copynumber: 2.4 Consensus size: 54
18950886 CTGTCACGTA
18950896 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
18950950 ATTCT-ATTACTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
1 ATTCTGATT-CTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
18951004 -TTACTGATTCTGATTCTGATTCT
1 ATT-CTGATTCTGATTCTGATTCT
18951027 CATTTTGGTT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
53 5 0.07
54 66 0.89
55 3 0.04
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (54 bp):
ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
Done.