Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 11 of 18
Found at i:1363513 original size:363 final size:366
Alignment explanation
Indices: 1362801--1363588 Score: 1316
Period size: 363 Copynumber: 2.1 Consensus size: 366
1362791 AAGAGCAGGA
* * *
1362801 CGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTC
1362866 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTT
64 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTT
1362931 TTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA
129 TTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA
*
1362996 GCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTTAAAGCCCA
194 GCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCA
1363061 CACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACAC
259 CACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACAC
1363126 AAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
324 AAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
* *
1363169 CGCCTTTTAAAGCCCACACAAGCTGGT-GCACCTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
1363233 TTTAAAGCCCACACAAGCTGGTGGCACC-TTT-AGTCCTCAAAGAGCAGGACGCTTTCGCCTTTT
66 TTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTT
1363296 AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC
131 AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC
1363361 CCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCACA
196 CCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCACA
*
1363426 CAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACGCAA
261 CAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAA
* * *
1363491 GTTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGACGCCTT
326 GCTGGTGGCACCTTTT-CAGTCCTCAAAAAGCAGGACACCTT
** * *
1363532 -TTCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1 CGCCTTTT---AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGA
1363589 TACACTTTAT
Statistics
Matches: 394, Mismatches: 20, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
362 10 0.03
363 254 0.64
364 3 0.01
365 71 0.18
366 7 0.02
367 24 0.06
368 25 0.06
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (366 bp):
CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
TTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTT
AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC
CCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCACA
CAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAA
GCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
Found at i:1364575 original size:50 final size:50
Alignment explanation
Indices: 1364403--1364567 Score: 285
Period size: 50 Copynumber: 3.3 Consensus size: 50
1364393 AATAGAAAAT
*
1364403 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
1364453 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1364503 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1364553 GACATGCATGGGAAA
1 G-CATGCATGGGAAA
1364568 TGAAAAAAGC
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.88
51 13 0.12
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:1366227 original size:53 final size:51
Alignment explanation
Indices: 1366119--1366244 Score: 143
Period size: 53 Copynumber: 2.5 Consensus size: 51
1366109 AATTGCTCGT
*
1366119 AATC-GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
1366170 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG-GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
1366223 AATCGGGGG-TACTCCAACCCCG
1 AATCGGGGGATACTCCAACCCCG
1366245 TTATTTTCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
51 19 0.29
52 8 0.12
53 39 0.59
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (51 bp):
AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:1366390 original size:79 final size:79
Alignment explanation
Indices: 1366173--1366471 Score: 492
Period size: 79 Copynumber: 3.8 Consensus size: 79
1366163 TTCCTTTAAT
* * *
1366173 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
*
1366238 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
1366252 CGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
1366316 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
1366330 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
1366395 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
1366409 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
1366472 TTAATCCCGA
Statistics
Matches: 209, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
78 75 0.36
79 134 0.64
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:1370864 original size:20 final size:20
Alignment explanation
Indices: 1370839--1370912 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1370829 AAAAAAACAG
1370839 AATGTATCGATACATTGAAC
1 AATGTATCGATACATTGAAC
* ** *
1370859 AATGTATTGATATGTTCATAC
1 AATGTATCGATACATTGA-AC
1370880 -ATGTATCGATACATTGAA-
1 AATGTATCGATACATTGAAC
*
1370898 AATGTATCAATACAT
1 AATGTATCGATACAT
1370913 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 14 0.33
20 27 0.63
21 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAC
Found at i:1373589 original size:23 final size:20
Alignment explanation
Indices: 1373559--1373599 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1373549 TACATTAAGT
1373559 ATTTTTACTTTTGAAAACATAG
1 ATTTTTAC--TTGAAAACATAG
1373581 ATTTATTACTTGAAAACAT
1 ATTT-TTACTTGAAAACAT
1373600 TTAAACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATTTTTACTTGAAAACATAG
Found at i:1374833 original size:12 final size:12
Alignment explanation
Indices: 1374816--1374845 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1374806 AGGAATCCCG
1374816 AAGTCACACAAT
1 AAGTCACACAAT
*
1374828 AAGTCACACGAT
1 AAGTCACACAAT
1374840 AAGTCA
1 AAGTCA
1374846 ACTCTACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (12 bp):
AAGTCACACAAT
Found at i:1376600 original size:21 final size:20
Alignment explanation
Indices: 1376558--1376600 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1376548 AAAATAAGGT
*
1376558 TTGGTGAAAATATCAACTAA
1 TTGGTGAAAATATCAACGAA
* *
1376578 TTGGTGCAAAGTATCTACGAA
1 TTGGTG-AAAATATCAACGAA
1376599 TT
1 TT
1376601 CGAGTACAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGGTGAAAATATCAACGAA
Found at i:1382233 original size:20 final size:19
Alignment explanation
Indices: 1382210--1382273 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
1382200 CAATTTATGG
1382210 TGTATCGATACAAAGCAATT
1 TGTATCGATAC-AAGCAATT
*
1382230 TGTATGGAT---A-CAA--
1 TGTATCGATACAAGCAATT
1382243 TGTATCGATACATAGCAATT
1 TGTATCGATACA-AGCAATT
1382263 TGTATCGATAC
1 TGTATCGATAC
1382274 TTAGGGTGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 8 0.23
15 3 0.09
16 1 0.03
17 1 0.03
18 3 0.09
20 19 0.54
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAGCAATT
Found at i:1382252 original size:33 final size:33
Alignment explanation
Indices: 1382210--1382273 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
1382200 CAATTTATGG
*
1382210 TGTATCGATACAAAGCAATTTGTATGGATACAA
1 TGTATCGATACAAAGCAATTTGTATCGATACAA
*
1382243 TGTATCGATACATAGCAATTTGTATCGATAC
1 TGTATCGATACAAAGCAATTTGTATCGATAC
1382274 TTAGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATTTGTATCGATACAA
Found at i:1382403 original size:21 final size:21
Alignment explanation
Indices: 1382370--1382410 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1382360 TACATTAGGT
1382370 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTG-AAAACATTG
1382392 ATTTTTAC-TTGAAAACATT
1 ATTTTTACTTTGAAAACATT
1382411 TAAACTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
ATTTTTACTTTGAAAACATTG
Found at i:1385540 original size:19 final size:20
Alignment explanation
Indices: 1385516--1385555 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1385506 ACTATAGAAC
*
1385516 GAACATGTCA-AAATGCATG
1 GAACATGGCACAAATGCATG
1385535 GAACATGGCACCAAATGCATG
1 GAACATGGCA-CAAATGCATG
1385556 AATATGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (20 bp):
GAACATGGCACAAATGCATG
Found at i:1386644 original size:50 final size:52
Alignment explanation
Indices: 1386444--1386663 Score: 261
Period size: 52 Copynumber: 4.3 Consensus size: 52
1386434 ATTTAACTGG
* * * * *
1386444 ATGTATCGATACAGTGAA-AATTTATCAATACATTTAGGT-AAGAAACCCATA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAA-AAAACCAGA
* * * *
1386495 ATATATCGATATAATGAATAATGTATCAATATATTTGGGTC-AAAAACACAAA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAAAC-CAGA
* * *
1386547 ATGAATCAATACAATGAATAATGTATCAATACATTTGGGTCAAAAAACTAGA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAAACCAGA
* *
1386599 ATGTATCGATACAATGAAT-A-GTGTCAATACATTTTGGTCAAAAAACCAGA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAAACCAGA
1386649 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1386664 AAAAAAGCAT
Statistics
Matches: 145, Mismatches: 20, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
50 42 0.29
51 20 0.14
52 77 0.53
53 6 0.04
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAAACCAGA
Found at i:1386787 original size:21 final size:20
Alignment explanation
Indices: 1386740--1386793 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1386730 CATTTCAGAC
* *
1386740 ATGTATCAATATATTCACTT
1 ATGTATCGATACATTCACTT
1386760 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
1386780 GTTGTATCGATACA
1 -ATGTATCGATACA
1386794 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:1391400 original size:34 final size:35
Alignment explanation
Indices: 1391362--1391427 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1391352 CCTTACAACA
*
1391362 CTATCTTTT-CGAAGGCTAAGATAGAACCTCTTCC
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
1391396 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1391428 CAATCACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
Found at i:1391878 original size:19 final size:20
Alignment explanation
Indices: 1391854--1391903 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1391844 GATAAAATGG
*
1391854 ATCGATACATGTTC-ATTGT
1 ATCGATACATGCTCAATTGT
*
1391873 ATCGATACATACTCAATTGT
1 ATCGATACATGCTCAATTGT
1391893 ATCGATACATG
1 ATCGATACATG
1391904 AAAGTGGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
ATCGATACATGCTCAATTGT
Found at i:1394634 original size:21 final size:20
Alignment explanation
Indices: 1394597--1394643 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1394587 CAAATCCATT
*
1394597 TCAAAATTCTTGATTTTCACA
1 TCAAAATTATTGATTTT-ACA
*
1394618 TCAAAATTATCTG-TTTTTCA
1 TCAAAATTAT-TGATTTTACA
1394638 TCAAAA
1 TCAAAA
1394644 ACATCAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 13 0.57
22 2 0.09
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (20 bp):
TCAAAATTATTGATTTTACA
Found at i:1396894 original size:20 final size:20
Alignment explanation
Indices: 1396871--1396937 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
1396861 CATATCTAGA
1396871 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
1396891 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
*
1396904 TGTATGGATACATTATGCTT
1 TGTATCGATACATTATGCTT
1396924 TGTATCGATACATT
1 TGTATCGATACATT
1396938 GTATGGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
16 1 0.03
17 1 0.03
20 25 0.66
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:1396908 original size:13 final size:13
Alignment explanation
Indices: 1396890--1396949 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
1396880 ACATTATGCT
1396890 TTGTATCGATACA
1 TTGTATCGATACA
*
1396903 TTGTATGGATACA
1 TTGTATCGATACA
*
1396916 -T-TAT-G---CT
1 TTGTATCGATACA
1396923 TTGTATCGATACA
1 TTGTATCGATACA
*
1396936 TTGTATGGATACA
1 TTGTATCGATACA
1396949 T
1 T
1396950 GTTCATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 26 0.70
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1396914 original size:33 final size:33
Alignment explanation
Indices: 1396871--1396949 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
1396861 CATATCTAGA
*
1396871 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATGGATACATTATGCTTTGTATCGATACAT
1396904 TGTATGGATACATTATGCTTTGTATCGATACAT
1 TGTATGGATACATTATGCTTTGTATCGATACAT
1396937 TGTATGGATACAT
1 TGTATGGATACAT
1396950 GTTCATTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (33 bp):
TGTATGGATACATTATGCTTTGTATCGATACAT
Found at i:1396958 original size:19 final size:19
Alignment explanation
Indices: 1396934--1396989 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
1396924 TGTATCGATA
*
1396934 CATTGTATGGATACATGTT
1 CATTGTATCGATACATGTT
* *
1396953 CATTGTATTGATACATACTT
1 CATTGTATCGATACAT-GTT
*
1396973 AATTGTATCGATACATG
1 CATTGTATCGATACATG
1396990 AAAGTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:1398179 original size:63 final size:63
Alignment explanation
Indices: 1398095--1398216 Score: 167
Period size: 63 Copynumber: 1.9 Consensus size: 63
1398085 ACAACTCATA
*
1398095 ATGTATCAGTACAATGCATTTG-AATTTCTAGCCGTTAGGCTCAATGTATCGATACAATTTACC
1 ATGTATCAGTACAATGCATTTGAAATTT-TAGCCATTAGGCTCAATGTATCGATACAATTTACC
* * * *
1398158 ATGTATC-GATACAATTCATTTGAAATTTTATCTATTAGGCTCAATGTATCGGTACAATT
1 ATGTATCAG-TACAATGCATTTGAAATTTTAGCCATTAGGCTCAATGTATCGATACAATT
1398217 CAATTATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 46 0.88
64 5 0.10
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (63 bp):
ATGTATCAGTACAATGCATTTGAAATTTTAGCCATTAGGCTCAATGTATCGATACAATTTACC
Found at i:1401348 original size:21 final size:20
Alignment explanation
Indices: 1401295--1401349 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1401285 CAAAACCCAG
*
1401295 AATGTATCGATACAATTAAT
1 AATGTATCGATACAAATAAT
* *
1401315 AATGCATCGATACAAATAGT
1 AATGTATCGATACAAATAAT
*
1401335 AAATGTATCAATACA
1 -AATGTATCGATACA
1401350 TTTATTTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAATAAT
Found at i:1402140 original size:61 final size:60
Alignment explanation
Indices: 1402071--1402380 Score: 196
Period size: 61 Copynumber: 5.2 Consensus size: 60
1402061 CTTGCAACAC
* * * *
1402071 TAGACTTAAAGATGATAAGGATGAAAAGAGTGCCAATATGCTGATTCGAGCTCAGTGACAT
1 TAGACTTAAAGATGAGAAGAATGAAAAGAGTGCCAATATGCTGATTCAAGC-CAGTGATAT
* * * * * *
1402132 TAGACTTAAGGATGCGAAGAATGGTAAA-AGTGTCGATATGCTGATTCACAGCCAATGATA-
1 TAGACTTAAAGATGAGAAGAAT-GAAAAGAGTGCCAATATGCTGATTCA-AGCCAGTGATAT
* * * *
1402192 TGGAGCCTGAAGATGAGAAGAATGATAAAG-GTGCCAATATGTTGATTCAAGCCAGTGATAT
1 TAGA-CTTAAAGATGAGAAGAATGA-AAAGAGTGCCAATATGCTGATTCAAGCCAGTGATAT
* * * *** *
1402253 TGGGCTTAAAGAT-----G-A--CAAAG-GTGCCAATATGCTGATTCAAGGCCAACAACAT
1 TAGACTTAAAGATGAGAAGAATGAAAAGAGTGCCAATATGCTGATTCAA-GCCAGTGATAT
**** * * * *
1402305 TAGACTTAAAGATGAGAAGAATGATAAAG-GTATGGATATGCTAATACAAGGCTAGAGATAT
1 TAGACTTAAAGATGAGAAGAATGA-AAAGAGTGCCAATATGCTGATTCAA-GCCAGTGATAT
1402366 TAGACTTAAAGATGA
1 TAGACTTAAAGATGA
1402381 CAAAGGTGCC
Statistics
Matches: 190, Mismatches: 43, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
51 23 0.12
52 18 0.09
54 1 0.01
55 1 0.01
57 1 0.01
58 1 0.01
60 21 0.11
61 117 0.62
62 7 0.04
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (60 bp):
TAGACTTAAAGATGAGAAGAATGAAAAGAGTGCCAATATGCTGATTCAAGCCAGTGATAT
Found at i:1402408 original size:52 final size:52
Alignment explanation
Indices: 1402340--1402477 Score: 152
Period size: 52 Copynumber: 2.7 Consensus size: 52
1402330 AAAGGTATGG
* * * ** *
1402340 ATATGCTAATACAAGGCTAGAGATATTAGACTTAAAGATGACAAAGGTGCCA
1 ATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAAAAAAAAAAGGTGCCA
* * *
1402392 ATATGCTGATTCAAGGCCA-ACGATATTGGGCTTAAAAAAAAAAAAGGTGCCA
1 ATATGCTAATTCAAGGCTAGA-GATATTGGACTTAAAAAAAAAAAAGGTGCCA
* * *
1402444 ATGTGCTAATTCAAGGCTAGCGACATTGGACTTA
1 ATATGCTAATTCAAGGCTAGAGATATTGGACTTA
1402478 GAAATAGATG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (52 bp):
ATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAAAAAAAAAAGGTGCCA
Found at i:1402426 original size:113 final size:112
Alignment explanation
Indices: 1402167--1402427 Score: 319
Period size: 113 Copynumber: 2.3 Consensus size: 112
1402157 AAAAGTGTCG
* * * *
1402167 ATATGCTGATTCACA-GCCAATGATA-TGGAGCCTGAAGATGAGAAGAATGATAAAGGTGCCAAT
1 ATATGCTGATTCA-AGGCCAACGATATTGG-GCTTAAAGATGAGAAGAATGATAAAGGTACCAAT
* * * * * *
1402230 ATGTTGATTCAAGCCAGTGATATTGGGCTTAAAGATGACAAAGGTGCCA
64 ATGCTAATACAAGCCAGAGATATTAGACTTAAAGATGACAAAGGTGCCA
* * * * ***
1402279 ATATGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGAGAAGAATGATAAAGGTATGGATAT
1 ATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAGAATGATAAAGGTACCAATAT
*
1402344 GCTAATACAAGGCTAGAGATATTAGACTTAAAGATGACAAAGGTGCCA
66 GCTAATACAA-GCCAGAGATATTAGACTTAAAGATGACAAAGGTGCCA
1402392 ATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
1 ATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
1402428 AAAAAAAAAG
Statistics
Matches: 124, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
111 1 0.01
112 56 0.45
113 67 0.54
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (112 bp):
ATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAGAATGATAAAGGTACCAATAT
GCTAATACAAGCCAGAGATATTAGACTTAAAGATGACAAAGGTGCCA
Found at i:1402587 original size:32 final size:32
Alignment explanation
Indices: 1402551--1402827 Score: 199
Period size: 32 Copynumber: 8.6 Consensus size: 32
1402541 GAGATTCCAT
*
1402551 CGACTTTTGTGGGCTTTTGAGAAGGTTGCCAC
1 CGACTTGTGTGGGCTTTTGAGAAGGTTGCCAC
* * *
1402583 CGACTTGTGTGTGC-TTT-AGAATAGTTGCCAT
1 CGACTTGTGTGGGCTTTTGAGAA-GGTTGCCAC
* *
1402614 CGACTTGTGTGGGC-TTTAAAAAGGGTTGCCAC
1 CGACTTGTGTGGGCTTTTGAGAA-GGTTGCCAC
* ** *
1402646 TGACTTGTGTGGGCTTTAAAG-GGGTTG-CAC
1 CGACTTGTGTGGGCTTTTGAGAAGGTTGCCAC
* * * *
1402676 TGACTTGTATGGGC-TTTAAGAAGGGTTGCCAT
1 CGACTTGTGTGGGCTTTTGAGAA-GGTTGCCAC
* *
1402708 CGACTTGTGTGGGC-TTTGAGAAGGTTCCCAT
1 CGACTTGTGTGGGCTTTTGAGAAGGTTGCCAC
* * * *
1402739 CGACTTGTGTGGGCTTTGGAAAAAGATTACCAC
1 CGACTTGTGTGGGCTTTTG-AGAAGGTTGCCAC
* * *
1402772 CAACTTGTATGGGCTTTTGAAGGAAAAAGTTGCCAC
1 CGACTTGTGTGGGCTTTTG-A-G--AAGGTTGCCAC
* * *
1402808 CAACTTTTATGGGCTTTTGA
1 CGACTTGTGTGGGCTTTTGA
1402828 AGGAAAAGGA
Statistics
Matches: 200, Mismatches: 34, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
29 5 0.03
30 20 0.10
31 58 0.29
32 59 0.29
33 31 0.16
35 1 0.00
36 26 0.13
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (32 bp):
CGACTTGTGTGGGCTTTTGAGAAGGTTGCCAC
Found at i:1402618 original size:31 final size:31
Alignment explanation
Indices: 1402547--1402756 Score: 225
Period size: 31 Copynumber: 6.7 Consensus size: 31
1402537 GAAAGAGATT
*
1402547 CCATCGACTTTTGTGGGCTTTTGAGAAGGTTG
1 CCATCGACTTGTGTGGGC-TTTGAGAAGGTTG
* * *
1402579 CCACCGACTTGTGTGTGCTTT-AGAATAGTTG
1 CCATCGACTTGTGTGGGCTTTGAGAA-GGTTG
* *
1402610 CCATCGACTTGTGTGGGCTTTAAAAAGGGTTG
1 CCATCGACTTGTGTGGGCTTTGAGAA-GGTTG
1402642 CCA-CTGACTTGTGTGGGCTTT-A-AAGGGGTTG
1 CCATC-GACTTGTGTGGGCTTTGAGAA--GGTTG
* *
1402673 -CA-CTGACTTGTATGGGCTTTAAGAAGGGTTG
1 CCATC-GACTTGTGTGGGCTTTGAGAA-GGTTG
*
1402704 CCATCGACTTGTGTGGGCTTTGAGAAGGTTC
1 CCATCGACTTGTGTGGGCTTTGAGAAGGTTG
1402735 CCATCGACTTGTGTGGGCTTTG
1 CCATCGACTTGTGTGGGCTTTG
1402757 GAAAAAGATT
Statistics
Matches: 157, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
30 25 0.16
31 67 0.43
32 64 0.41
33 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (31 bp):
CCATCGACTTGTGTGGGCTTTGAGAAGGTTG
Found at i:1402651 original size:63 final size:62
Alignment explanation
Indices: 1402547--1402755 Score: 248
Period size: 63 Copynumber: 3.3 Consensus size: 62
1402537 GAAAGAGATT
* * * * *
1402547 CCATCGACTTTTGTGGGCTTTTGAGAA-GGTTGCCACCGACTTGTGTGTGCTTTAGAATAGTTG
1 CCATCGACTTGTGTGGGC-TTTAAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAA-GGTTG
*
1402610 CCATCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACTGACTTGTGTGGGCTTTA-AAGGGGTTG
1 CCATCGACTTGTGTGGGCTTTAAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAA--GGTTG
* *
1402673 -CA-CTGACTTGTATGGGCTTTAAGAAGGGTTGCCA-TCGACTTGTGTGGGCTTTGAGAAGGTTC
1 CCATC-GACTTGTGTGGGCTTTAAGAAGGGTTGCCACT-GACTTGTGTGGGCTTT-AGAAGGTTG
1402735 CCATCGACTTGTGTGGGCTTT
1 CCATCGACTTGTGTGGGCTTT
1402756 GGAAAAAGAT
Statistics
Matches: 127, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
61 2 0.02
62 58 0.46
63 64 0.50
64 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (62 bp):
CCATCGACTTGTGTGGGCTTTAAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGTTG
Found at i:1402785 original size:33 final size:33
Alignment explanation
Indices: 1402741--1402824 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 33
1402731 GTTCCCATCG
*
1402741 ACTTGTGTGGGCTTT-GGAAAAAGATTACCACCA
1 ACTTGTATGGGCTTTAGGAAAAAG-TTACCACCA
*
1402774 ACTTGTATGGGCTTTTGAAGGAAAAAGTTGCCACCA
1 ACTTGTATGGGC-TTT--AGGAAAAAGTTACCACCA
*
1402810 ACTTTTATGGGCTTT
1 ACTTGTATGGGCTTT
1402825 TGAAGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 11 0.25
34 3 0.07
35 3 0.07
36 19 0.43
37 8 0.18
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (33 bp):
ACTTGTATGGGCTTTAGGAAAAAGTTACCACCA
Found at i:1402794 original size:63 final size:61
Alignment explanation
Indices: 1402545--1402794 Score: 245
Period size: 63 Copynumber: 4.0 Consensus size: 61
1402535 TAGAAAGAGA
* * * * **
1402545 TTCCATCGACTTTTGTGGGCTTTTGAGAAGGTTGCCACCGACTTGTGTGTGCTTTAGAATAG
1 TTCCATCGACTTGTGTGGGC-TTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG
*
1402607 TTGCCATCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACTGACTTGTGTGGGCTTTA-AAGGGG
1 TT-CCATCGACTTGTGTGGGCTTTAAAAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAA-GGG
* * * *
1402670 TTGCA-CTGACTTGTATGGGCTTTAAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAGAA-GG
1 TTCCATC-GACTTGTGTGGGCTTTAA-AAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGG
* * * * *
1402732 TTCCCATCGACTTGTGTGGGCTTTGGAAAAAGATTACCACCAACTTGTATGGGCTTTTGAAGG
1 TT-CCATCGACTTGTGTGGGCTTT--AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
1402795 AAAAAGTTGC
Statistics
Matches: 155, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
61 1 0.01
62 57 0.37
63 68 0.44
64 27 0.17
65 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (61 bp):
TTCCATCGACTTGTGTGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG
Found at i:1402812 original size:36 final size:37
Alignment explanation
Indices: 1402756--1402834 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 37
1402746 TGTGGGCTTT
1402756 GGAAAAAGATTACCACCAACTTGTATGGGCTTTTGAA
1 GGAAAAAGATTACCACCAACTTGTATGGGCTTTTGAA
* *
1402793 GGAAAAAG-TTGCCACCAACTTTTATGGGCTTTTGAA
1 GGAAAAAGATTACCACCAACTTGTATGGGCTTTTGAA
1402829 GGAAAA
1 GGAAAA
1402835 GGATGCCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (37 bp):
GGAAAAAGATTACCACCAACTTGTATGGGCTTTTGAA
Found at i:1402965 original size:28 final size:28
Alignment explanation
Indices: 1402920--1402978 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1402910 TCACTAATTA
* * * *
1402920 TGGACTTTGAAAATGTGCCATTTACTTG
1 TGGACTTCGAAAAGGTGCCATTGACTAG
*
1402948 TGGACTTCGAAGAGGTGCCATTGACTAG
1 TGGACTTCGAAAAGGTGCCATTGACTAG
1402976 TGG
1 TGG
1402979 GTTTTGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (28 bp):
TGGACTTCGAAAAGGTGCCATTGACTAG
Found at i:1404685 original size:51 final size:50
Alignment explanation
Indices: 1404622--1404740 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 50
1404612 TCGGAAATAA
* *
1404622 CAGAGTTGGAGTATCCCTGATTATAGAAAA-TTGGTGTTTTGA-AAATAAAAT
1 CAGAGTTTGAGTATCCC-GATTAT-GAAAATTTGGTATTTT-ATAAATAAAAT
*
1404673 CAGAGTTTGAGTATTCCCGATTGTGAAAATTTGGTATTTTATAAATAAAAT
1 CAGAGTTTGAGTA-TCCCGATTATGAAAATTTGGTATTTTATAAATAAAAT
* *
1404724 CGGGGTTTGAGTATCCC
1 CAGAGTTTGAGTATCCC
1404741 CTTGAAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
50 10 0.17
51 46 0.77
52 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (50 bp):
CAGAGTTTGAGTATCCCGATTATGAAAATTTGGTATTTTATAAATAAAAT
Found at i:1404686 original size:79 final size:79
Alignment explanation
Indices: 1404470--1404673 Score: 311
Period size: 79 Copynumber: 2.6 Consensus size: 79
1404460 ACAATGGGGC
* * * *
1404470 TGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTGGAAGTAAAATCGGGGTTGGAGTATCCTCT
1 TGGAGTATCCCTGATTATAG-AAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCTCT
*
1404534 CGGAAATAACAGGGT
65 CGGAAATAACAGAGT
** * *
1404549 TGGAGTATCCCTGATTATAGAAAATCAGTATTTTGAAACTAAAATCGGGGTTGGAGTATCCTCTC
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCTCTC
1404614 GGAAATAACAGAGT
66 GGAAATAACAGAGT
1404628 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATC
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATC
1404674 AGAGTTTGAG
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 111 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCTCTC
GGAAATAACAGAGT
Found at i:1407352 original size:20 final size:21
Alignment explanation
Indices: 1407327--1407385 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
1407317 AAAATGCCTG
*
1407327 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATGTAGA
* * *
1407347 AATGTATTGATACAGT-TAGC
1 AATGTATCGATACAATGTAGA
1407367 AATGTATCGATACAATGTA
1 AATGTATCGATACAATGTA
1407386 TCGATACAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACAATGTAGA
Found at i:1407384 original size:13 final size:13
Alignment explanation
Indices: 1407366--1407427 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
1407356 ATACAGTTAG
1407366 CAATGTATCGATA
1 CAATGTATCGATA
1407379 CAATGTATCGATA
1 CAATGTATCGATA
1407392 CAATG-A--G---
1 CAATGTATCGATA
1407399 CAATGTATCGATA
1 CAATGTATCGATA
*
1407412 CAATGTAGCGATA
1 CAATGTATCGATA
1407425 CAA
1 CAA
1407428 ATTGTGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
10 2 0.05
12 1 0.02
13 33 0.79
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1407392 original size:33 final size:33
Alignment explanation
Indices: 1407347--1407427 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
1407337 TACATTGTAA
* * *
1407347 AATGTATTGATACAGTTAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1407380 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
1407413 AATGTAGCGATACAA
1 AATGTATCGATACAA
1407428 ATTGTGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:1407404 original size:20 final size:20
Alignment explanation
Indices: 1407379--1407416 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1407369 TGTATCGATA
1407379 CAATGTATCGATACAATGAG
1 CAATGTATCGATACAATGAG
1407399 CAATGTATCGATACAATG
1 CAATGTATCGATACAATG
1407417 TAGCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
CAATGTATCGATACAATGAG
Found at i:1408589 original size:23 final size:24
Alignment explanation
Indices: 1408545--1408589 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
1408535 AGATCCTTTC
* **
1408545 TTTCTTTTTTTTTATTGTTGTTGT
1 TTTCTTTTTTTTGATTAATGTTGT
1408569 TTTC-TTTTTTTGATTAATGTT
1 TTTCTTTTTTTTGATTAATGTT
1408590 TTTGATTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTTTTGATTAATGTTGT
Found at i:1420327 original size:16 final size:15
Alignment explanation
Indices: 1420294--1420340 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
1420284 ATAACAAGTG
* *
1420294 AAATAATATTATATA
1 AAATAATAATATAAA
1420309 AAATAATCAATATAAA
1 AAATAAT-AATATAAA
*
1420325 AAACAATAA-ATAAA
1 AAATAATAATATAAA
1420339 AA
1 AA
1420341 GAGGGACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 9 0.32
16 12 0.43
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAATATAAA
Found at i:1422979 original size:20 final size:20
Alignment explanation
Indices: 1422954--1423007 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1422944 AAAAACCCAG
*
1422954 AATGTATCGATACAGTGAAT-
1 AATGTATCGATACAAT-AATA
* *
1422974 AATGTATCGATAAAATAGTA
1 AATGTATCGATACAATAATA
1422994 AATGTATCGATACA
1 AATGTATCGATACA
1423008 TTTATTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATAATA
Found at i:1435930 original size:20 final size:20
Alignment explanation
Indices: 1435901--1435955 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1435891 AAAAAGACAT
*
1435901 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
1435921 CATTTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1435941 AATGTATCGATACAT
1 AATGTATCGATACAT
1435956 CTAGGTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1435980 original size:71 final size:71
Alignment explanation
Indices: 1435864--1436037 Score: 276
Period size: 71 Copynumber: 2.5 Consensus size: 71
1435854 GTATTGATAT
* * * * *
1435864 TTGAAAAATGTATTGATACATCTGGGAAAAAAGACATAATGTATCGATACATTCATACATTTATC
1 TTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACATTCATACATGTATC
1435929 GATACA
66 GATACA
* * *
1435935 TTGAAAAATGTATCGATACATCTAGGTAAAAAGATAGAATATATCGATATATTCATACATGTATC
1 TTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACATTCATACATGTATC
1436000 GATACA
66 GATACA
1436006 TTGAAAAATGTATCGATACATCTGGGTAAAAA
1 TTGAAAAATGTATCGATACATCTGGGTAAAAA
1436038 TGTGACTCTT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 94 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (71 bp):
TTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACATTCATACATGTATC
GATACA
Found at i:1436001 original size:20 final size:20
Alignment explanation
Indices: 1435976--1436026 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1435966 AGATAGAATA
* * *
1435976 TATCGATATATTCATACATG
1 TATCGATACATTCAAAAATG
*
1435996 TATCGATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
1436016 TATCGATACAT
1 TATCGATACAT
1436027 CTGGGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:1438255 original size:3 final size:3
Alignment explanation
Indices: 1438247--1438296 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
1438237 AACTATCAAG
* *
1438247 GAT GAT GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1438295 GA
1 GA
1438297 CTCAAATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:1439318 original size:13 final size:13
Alignment explanation
Indices: 1439300--1439325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1439290 CTATTTATGA
1439300 TGTATCGATACAC
1 TGTATCGATACAC
1439313 TGTATCGATACAC
1 TGTATCGATACAC
1439326 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1439463 original size:22 final size:22
Alignment explanation
Indices: 1439408--1439463 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1439398 ACAGTGATCT
1439408 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1439430 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1439451 ATGAACAGTGATG
1 ATGAACAGTGATG
1439464 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1439470 original size:10 final size:10
Alignment explanation
Indices: 1439451--1439481 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1439441 GTATCGATAC
1439451 ATGAACAGTG
1 ATGAACAGTG
*
1439461 ATGAATAGTG
1 ATGAACAGTG
1439471 ATGAACAGTG
1 ATGAACAGTG
1439481 A
1 A
1439482 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1439579 original size:53 final size:53
Alignment explanation
Indices: 1439505--1439641 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1439495 CTACTTCCAA
*
1439505 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGGTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
1439558 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1439611 TGTATCGATACATATTTTTGTGTATCGATAC
1 TGTATCGATACATA-TTTTGTGTATCGATAC
1439642 TATGCAATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 63 0.81
54 15 0.19
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1439636 original size:20 final size:20
Alignment explanation
Indices: 1439611--1439681 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
1439601 GCCAATGTCT
1439611 TGTATCGATACATATTTTTG
1 TGTATCGATACATATTTTTG
**
1439631 TGTATCGATAC-TATGCAATT-
1 TGTATCGATACATAT--TTTTG
*
1439651 TGTATCGATACAT-TTATATG
1 TGTATCGATACATATT-TTTG
1439671 TGTATCGATAC
1 TGTATCGATAC
1439682 TTTTCAGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 4 0.10
20 34 0.83
21 3 0.07
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATATTTTTG
Found at i:1439747 original size:21 final size:21
Alignment explanation
Indices: 1439721--1439761 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1439711 GTCAACCTTG
1439721 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1439742 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1439762 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1445010 original size:13 final size:13
Alignment explanation
Indices: 1444992--1445017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1444982 CTATTTATGA
1444992 TGTATCGATACAC
1 TGTATCGATACAC
1445005 TGTATCGATACAC
1 TGTATCGATACAC
1445018 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1445155 original size:22 final size:22
Alignment explanation
Indices: 1445100--1445155 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1445090 ACAGTGATCT
1445100 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1445122 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1445143 ATGAACAGTGATG
1 ATGAACAGTGATG
1445156 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1445162 original size:10 final size:10
Alignment explanation
Indices: 1445143--1445173 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1445133 GTATCGATAC
1445143 ATGAACAGTG
1 ATGAACAGTG
*
1445153 ATGAATAGTG
1 ATGAACAGTG
1445163 ATGAACAGTG
1 ATGAACAGTG
1445173 A
1 A
1445174 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1445271 original size:53 final size:53
Alignment explanation
Indices: 1445197--1445333 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1445187 CTACTTCCAA
*
1445197 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGGTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
1445250 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1445303 TGTATCGATACATATTTTTGTGTATCGATAC
1 TGTATCGATACATA-TTTTGTGTATCGATAC
1445334 TATGCAATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 63 0.81
54 15 0.19
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1445328 original size:20 final size:20
Alignment explanation
Indices: 1445303--1445373 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
1445293 GCCAATGTCT
1445303 TGTATCGATACATATTTTTG
1 TGTATCGATACATATTTTTG
**
1445323 TGTATCGATAC-TATGCAATT-
1 TGTATCGATACATAT--TTTTG
*
1445343 TGTATCGATACAT-TTATATG
1 TGTATCGATACATATT-TTTG
1445363 TGTATCGATAC
1 TGTATCGATAC
1445374 TTTTCAGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 4 0.10
20 34 0.83
21 3 0.07
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATATTTTTG
Found at i:1445439 original size:21 final size:21
Alignment explanation
Indices: 1445413--1445453 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1445403 GTCAACCTTG
1445413 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1445434 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1445454 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1449875 original size:13 final size:13
Alignment explanation
Indices: 1449857--1449892 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1449847 ATGTTCTAAG
1449857 TATCGATACATTA
1 TATCGATACATTA
*
1449870 TATCGATACATTG
1 TATCGATACATTA
1449883 TATCGATACA
1 TATCGATACA
1449893 AGGCTACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1450940 original size:23 final size:23
Alignment explanation
Indices: 1450908--1450961 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1450898 CTACTCCCTC
*
1450908 CTTATGACTGCTATCTTCATCTT
1 CTTATAACTGCTATCTTCATCTT
1450931 CTTATAACTGCTATCTTCATCTT
1 CTTATAACTGCTATCTTCATCTT
1450954 CTTATAAC
1 CTTATAAC
1450962 CATATCCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.46
Consensus pattern (23 bp):
CTTATAACTGCTATCTTCATCTT
Found at i:1452828 original size:30 final size:29
Alignment explanation
Indices: 1452794--1452890 Score: 95
Period size: 30 Copynumber: 3.6 Consensus size: 29
1452784 ATATTTTTCA
1452794 ATGTATCGATACATTCTGTCTTTTACCCAG
1 ATGTATCGATACATT-TGTCTTTTACCCAG
1452824 ATGTATCGATACA--T-TC--TT---CA-
1 ATGTATCGATACATTTGTCTTTTACCCAG
1452844 ATGTATCGATACATTATGTCTTTTTACCCAG
1 ATGTATCGATACATT-TGTC-TTTTACCCAG
*
1452875 ATATATCGATACATTT
1 ATGTATCGATACATTT
1452891 TTCAATGTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 22
0.71 0.01 0.28
Matches are distributed among these distances:
20 13 0.24
21 2 0.04
23 1 0.02
24 4 0.07
26 2 0.04
27 3 0.05
30 16 0.29
31 14 0.25
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (29 bp):
ATGTATCGATACATTTGTCTTTTACCCAG
Found at i:1452895 original size:51 final size:51
Alignment explanation
Indices: 1452763--1452908 Score: 240
Period size: 50 Copynumber: 2.9 Consensus size: 51
1452753 AAAAGTCACA
* *
1452763 TTTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTATGTC
*
1452814 -TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTATGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTATGTC
* *
1452864 TTTTTACCCAGATATATCGATACATTTTTCAATGTATTGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1452909 CTAGTTAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 47 0.53
51 41 0.47
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTATGTC
Found at i:1465731 original size:8 final size:8
Alignment explanation
Indices: 1465718--1465764 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
1465708 GTATGAAATT
1465718 AAAAAAAC
1 AAAAAAAC
1465726 AAAAAAAC
1 AAAAAAAC
1465734 AAAAAGAAAC
1 -AAAA-AAAC
*
1465744 CAAAAAAC
1 AAAAAAAC
*
1465752 AAACAAAC
1 AAAAAAAC
1465760 AAAAA
1 AAAAA
1465765 TAGAAAAGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 22 0.67
9 7 0.21
10 4 0.12
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1465748 original size:18 final size:17
Alignment explanation
Indices: 1465718--1465764 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
1465708 GTATGAAATT
1465718 AAAAAAACAAAAAAACA
1 AAAAAAACAAAAAAACA
*
1465735 AAAAGAAACCAAAAAAC-
1 AAAA-AAACAAAAAAACA
*
1465752 AAACAAACAAAAA
1 AAAAAAACAAAAA
1465765 TAGAAAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 8 0.31
17 7 0.27
18 11 0.42
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAAAACA
Found at i:1467034 original size:29 final size:28
Alignment explanation
Indices: 1466965--1467501 Score: 531
Period size: 28 Copynumber: 18.5 Consensus size: 28
1466955 CGTTCATCTC
*
1466965 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1466993 TTTAAAGCCCACAAGTTAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* **
1467022 TTAAAAAACCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** * *
1467050 TTCAAAGCTTACAAGTTAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1467078 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
1467107 TCTCAAAGCCCATAAGTCAGTGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
1467136 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1467164 TTCAACA-CCCACAAGTCAGTGGCATCCT
1 TTCAA-AGCCCACAAGTCAGTGGCATCCT
*
1467192 TTCAAAGCCCACAAGTTAGTGGCA-CACT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* *
1467220 TTCAAAGCCCATAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * * * *
1467249 TTTAAAGCCCACAAGCCAATGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* *
1467279 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
*
1467309 TTCAAAGTCCACACAAGTC-GATGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAG-TGGC-A-TCCT
* * *
1467341 TTCAAAGCCCACATAAATCGGTGGCACCCT
1 TTCAAAGCCCAC--AAGTCAGTGGCATCCT
* * *
1467371 TCCAAATCCCACAAGTCAGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1467399 TTCAAAGCCCACAAGCCAGTGGCATAGCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
1467429 TTCAAAGCCCACAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1467457 TTCAAAGCCCACAGAAGTCAATGGTAACTCTT
1 TTCAAAGCCCAC--AAGTCAGTGG-CA-TCCT
1467489 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1467502 TAAGTTAGTG
Statistics
Matches: 431, Mismatches: 56, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.00
28 193 0.45
29 96 0.22
30 85 0.20
31 8 0.02
32 46 0.11
33 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1467046 original size:57 final size:57
Alignment explanation
Indices: 1466959--1467501 Score: 530
Period size: 57 Copynumber: 9.4 Consensus size: 57
1466949 CTAGAACGTT
* * *
1466959 CATCTC-TTCAAAGCCCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* ** ** *
1467015 CATCTCTTTAAAAAACCACAAGTCAGTGGCATCCTTTCAAAGCTTACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1467072 CATCAT-TCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGG
1 CATC-TCTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGG
1467130 CATCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAACA-CCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA-AGCCCACAAGTCAGTGG
* *
1467186 CATC-CTTTCAAAGCCCACAAGTTAGTGGCA-CACTTTCAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGG
* * * * * *
1467242 CA-CCCTTTTTAAAGCCCACAAGCCAATGGTAACTCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG-CA-TCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
1467301 TAACTCTTTTCAAAGTCCACACAAGTC-GATGGCAACTCTTTTCAAAGCCCACATAAATCGGTGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAG-TGGC-A-TCCTTTCAAAGCCCAC--AAGTCAGTGG
* * * * *
1467365 CA-CCCTTCCAAATCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGCCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
1467421 CATAGC-CTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAGAAGTCAATGG
1 CAT--CTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC--AAGTCAGTGG
* *
1467481 TAACTCTTTTCAAAGCCCACA
1 CATCTC-TTTCAAAGCCCACA
1467502 TAAGTTAGTG
Statistics
Matches: 409, Mismatches: 51, Indels: 50
0.80 0.10 0.10
Matches are distributed among these distances:
55 3 0.01
56 85 0.21
57 123 0.30
58 76 0.19
59 26 0.06
60 46 0.11
61 5 0.01
62 34 0.08
63 2 0.00
64 9 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (57 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:1467528 original size:32 final size:32
Alignment explanation
Indices: 1467246--1467558 Score: 133
Period size: 32 Copynumber: 10.3 Consensus size: 32
1467236 CAGTGGCACC
* * *
1467246 CTTTTTAAAGCCCAC--AAGCCAATGGTAACT
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* *
1467276 CTTTTCAAAGCCCAC--AAGTCAGTGGTAACT
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * * *
1467306 CTTTTCAAAGTCCACACAAGTCGATGGCAACT
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * ** *
1467338 CTTTTCAAAGCCCACATAAATCGGT-GGCAC-
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * * * *
1467368 CCTTCCAAATCCCAC--AAGTCAGTGGCAAC-
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * *
1467397 C-TTTCAAAGCCCAC--AAGCCAGTGGCATAGC-
1 CTTTTCAAAGCCCACAGAAGTCAATGGGA-A-CT
** *
1467427 C-TTTCAAAGCCCAC--AAGTCGGT-GGCAC-
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* *
1467454 CCTTTCAAAGCCCACAGAAGTCAATGGTAACT
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * * *
1467486 CTTTTCAAAGCCCACATAAGTTAGTGGGACCT
1 CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
* * * * * *
1467518 TTTTTTAAAGCCCA-TGCAAGTCAGTGGCAACC
1 CTTTTCAAAGCCCACAG-AAGTCAATGGGAACT
1467550 CTTTTCAAA
1 CTTTTCAAA
1467559 TCACCACTTT
Statistics
Matches: 225, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
27 2 0.01
28 42 0.19
29 6 0.03
30 80 0.36
31 6 0.03
32 89 0.40
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (32 bp):
CTTTTCAAAGCCCACAGAAGTCAATGGGAACT
Found at i:1468686 original size:20 final size:20
Alignment explanation
Indices: 1468661--1468735 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1468651 TTTTACCTAG
*
1468661 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * * *
1468681 ATGTATCAATGCATGTATGA
1 ATGTATCGATACATTTTTCA
*
1468701 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1468721 ATGTATCGATACATT
1 ATGTATCGATACATT
1468736 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1469664 original size:108 final size:108
Alignment explanation
Indices: 1469475--1469685 Score: 404
Period size: 108 Copynumber: 2.0 Consensus size: 108
1469465 TCACTTTCAC
* *
1469475 TTGCTATTTTTGTTATTCTCATCATTTTAGTGAGCTTATCATGCTTCCGTGGCCCTTTTAAGAAC
1 TTGCTATTTTTGTTATTCTCATCATTTTAGTGAGCTTATCATGCTTCCATGACCCTTTTAAGAAC
1469540 ATCATGCATTATTGTGGCCTTGGATGTGGTAGTTTTAGCGTTA
66 ATCATGCATTATTGTGGCCTTGGATGTGGTAGTTTTAGCGTTA
1469583 TTGCTATTTTTGTTATTCTCATCATTTTAGTGAGCTTATCATGCTTCCATGACCCTTTTAAGAAC
1 TTGCTATTTTTGTTATTCTCATCATTTTAGTGAGCTTATCATGCTTCCATGACCCTTTTAAGAAC
1469648 ATCATGCATTATTGTGGCCTTGGATGTGGTAGTTTTAG
66 ATCATGCATTATTGTGGCCTTGGATGTGGTAGTTTTAG
1469686 GATTGTCTTG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (108 bp):
TTGCTATTTTTGTTATTCTCATCATTTTAGTGAGCTTATCATGCTTCCATGACCCTTTTAAGAAC
ATCATGCATTATTGTGGCCTTGGATGTGGTAGTTTTAGCGTTA
Found at i:1473211 original size:20 final size:20
Alignment explanation
Indices: 1473186--1473224 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1473176 CTACCACTGT
*
1473186 TTGTATCGATACATGGTATA
1 TTGTATCAATACATGGTATA
*
1473206 TTGTATCAATACATTGTAT
1 TTGTATCAATACATGGTAT
1473225 CGATACATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATCAATACATGGTATA
Found at i:1473245 original size:33 final size:33
Alignment explanation
Indices: 1473186--1473255 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1473176 CTACCACTGT
* **
1473186 TTGTATCGATACATGGTATATTGTATCAATACA
1 TTGTATCGATACATAGTATAAAGTATCAATACA
*
1473219 TTGTATCGATACATAGTGA-AAAGTATCGATACA
1 TTGTATCGATACATAGT-ATAAAGTATCAATACA
1473252 TTGT
1 TTGT
1473256 CCTAACGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATAGTATAAAGTATCAATACA
Found at i:1475113 original size:10 final size:9
Alignment explanation
Indices: 1475090--1475114 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1475080 AAAAACCAAA
1475090 ATTTTTCCT
1 ATTTTTCCT
1475099 ATTTTTCCT
1 ATTTTTCCT
1475108 ATTTTTC
1 ATTTTTC
1475115 TTTTGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTCCT
Found at i:1476785 original size:13 final size:13
Alignment explanation
Indices: 1476767--1476791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1476757 ACATTATGCT
1476767 TTGTATCGATACG
1 TTGTATCGATACG
1476780 TTGTATCGATAC
1 TTGTATCGATAC
1476792 ATGAAACTGG
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:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:1476869 original size:20 final size:19
Alignment explanation
Indices: 1476823--1476875 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1476813 CTACCACTAT
1476823 TTGTATCGATACATGTACA
1 TTGTATCGATACATGTACA
*
1476842 TCGTATCGATACATGATGA-A
1 TTGTATCGATACATG-T-ACA
1476862 TTGTATCGATACAT
1 TTGTATCGATACAT
1476876 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 15 0.50
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGTACA
Found at i:1480033 original size:81 final size:79
Alignment explanation
Indices: 1479898--1480098 Score: 197
Period size: 81 Copynumber: 2.5 Consensus size: 79
1479888 AATAGCGGGG
* * * * ** * * *
1479898 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTTAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
1479962 AAAAAAAAAAATCAGGA
65 --AAAAAAAAACCAGGA
* *
1479979 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * * * *
1480044 GAATAAAGCCGGGG
66 AAAAAAAACCAGGA
* *
1480058 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1480099 GATGAAATAA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
79 47 0.47
80 1 0.01
81 52 0.52
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAACCAGGA
Found at i:1480109 original size:28 final size:28
Alignment explanation
Indices: 1480053--1480124 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1480043 GGAATAAAGC
** *
1480053 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1480081 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
1480109 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1480125 TCGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1480202 original size:52 final size:52
Alignment explanation
Indices: 1480146--1480282 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 52
1480136 AAATTGGTAT
* * *
1480146 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* ** *
1480198 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
1480250 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
1480283 TCGAAAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 5 0.07
52 63 0.89
53 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:1480301 original size:28 final size:28
Alignment explanation
Indices: 1480256--1480335 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
1480246 AGTGTTTTAG
* *
1480256 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1480283 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
1480310 CGATGATTAACGGGGTTGGAGTATCC
1 CGATAAATAACGGGGTTGGAGTATCC
1480336 TCGATTGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.07
27 24 0.53
28 18 0.40
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:1480352 original size:107 final size:105
Alignment explanation
Indices: 1479999--1480391 Score: 296
Period size: 107 Copynumber: 3.7 Consensus size: 105
1479989 CCCTCGAAAA
* * * * * * * * *
1479999 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGGAATAAAACCGGAGTTGGAG
* *
1480064 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * * * *
1480106 TAACAAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGG-AATAAAACCGGAGTTGGA
* * ** * ** **
1480171 GTAT-CCCT-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * *
1480208 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CAGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTAG-GAATAAAACCGGAGTT
1480272 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * * * *
1480317 TAACGGGGTTGGAGTATCCTCGATTGTGAAGAAATTGGTGTTTTTTAGAAATAAAATCGGAGTTA
1 TAACAGGGTTGGAGTATCCCCGATTGTGAA-AAATT--AGTATTTTAGGAATAAAACCGGAGTTG
1480382 GAGTATCCCC
63 GAGTATCCCC
1480392 GATTATAGAA
Statistics
Matches: 217, Mismatches: 51, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 46 0.21
105 21 0.10
106 17 0.08
107 66 0.30
108 27 0.12
109 35 0.16
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (105 bp):
TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGGAATAAAACCGGAGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:1480405 original size:212 final size:212
Alignment explanation
Indices: 1480046--1480451 Score: 611
Period size: 212 Copynumber: 1.9 Consensus size: 212
1480036 TATTTTGGGA
* * * *
1480046 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACA
1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
* *
1480111 AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATC
* * *
1480176 CCTGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
1480240 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
* *
1480258 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
* * *
1480322 GGGTTGGAGTATCCTCGATTGTGAAGAAATTGGTGTTTTTTAGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCTCGACTGTGAA-AAATTGGT-ATTTTTAGAAATAAAATCGGAGTTAGAGTA
* * *
1480387 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
1480451 A
194 A
1480452 GAATTGATAA
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 31 0.18
212 106 0.61
213 37 0.21
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:1482842 original size:13 final size:13
Alignment explanation
Indices: 1482824--1482849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1482814 ACATTGATCC
1482824 ATGTATCGATACA
1 ATGTATCGATACA
1482837 ATGTATCGATACA
1 ATGTATCGATACA
1482850 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1482913 original size:19 final size:18
Alignment explanation
Indices: 1482889--1482956 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1482879 CAGTAGCTAA
1482889 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1482908 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1482923 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1482940 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1482957 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1482929 original size:13 final size:13
Alignment explanation
Indices: 1482911--1482935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1482901 ACAATACTTA
1482911 TGTATCGATACAT
1 TGTATCGATACAT
1482924 TGTATCGATACA
1 TGTATCGATACA
1482936 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1482933 original size:32 final size:32
Alignment explanation
Indices: 1482892--1482954 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1482882 TAGCTAATTA
*
1482892 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1482924 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1482955 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1483806 original size:55 final size:55
Alignment explanation
Indices: 1483723--1485082 Score: 1643
Period size: 55 Copynumber: 23.9 Consensus size: 55
1483713 ATAAAGTGTA
* * ** * ** *
1483723 TCCTGCTCATTGAGGAGTAAAAAATGCCACAAACACGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * **
1483778 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1483833 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1483888 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
** ** * *
1483948 TCCCACTCTTTGAGGACTGG-AGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
1484007 TCCTACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1484062 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1484117 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1484172 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
*
1484233 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1484288 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT------G
* * * *
1484349 TCCTGCTCTTTGAAGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* *
1484410 TCCTGCTCTTTGGGGAC---AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1484464 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** *
1484519 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* * * *
1484580 TCCTCCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* * *
1484641 TCCTGCTCTTTGGGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1484695 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1484750 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1484805 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1484860 TCCTGCTCTTTGTGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1484915 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
1484970 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
*
1485031 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1485083 AAAAAGGCAT
Statistics
Matches: 1170, Mismatches: 77, Indels: 111
0.86 0.06 0.08
Matches are distributed among these distances:
53 4 0.00
54 46 0.04
55 693 0.59
56 21 0.02
57 8 0.01
58 2 0.00
59 58 0.05
60 104 0.09
61 228 0.19
66 2 0.00
67 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1484139 original size:27 final size:27
Alignment explanation
Indices: 1484055--1484139 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
1484045 GTGGGCTTTA
1484055 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
* ** * * * *
1484082 AAA-ATG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC-TGG
1484110 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
1484137 AAA
1 AAA
1484140 ATGCCACCAA
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (27 bp):
AAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1484529 original size:231 final size:228
Alignment explanation
Indices: 1483723--1485108 Score: 1752
Period size: 231 Copynumber: 6.1 Consensus size: 228
1483713 ATAAAGTGTA
* * ** * ** * *
1483723 TCCTGCTCATTGAGGAGTAAAAAATGCCACAAACACGTGTGGGCTTTGAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGA-CAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTT
* **
1483788 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCATCCTGCTCTTTGAGGACT
65 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
* *
1483851 -GAAAGGTGCCACCAACTTGTGTGGGCTTT--AA---GAGGTGTCCTGCTCTTTGAGGACTGGAA
128 GGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAGGCGTCCTGCTCTTTGAGGACTGGAA
*
1483910 AATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
192 AATGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGCG
** *** * * *
1483948 TCCCACTCTTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCGTCCTAC
1 TCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AGAGGTGTCCTAC
* *
1484013 TCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGA
61 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
1484078 CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT-----GTCCTGCTCTTTGAGGACTGGA
126 CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAGGCGTCCTGCTCTTTGAGGACTGGA
1484138 AAATGCCACCAACTTGTGTGGGCTTT---GAG-AGGCG
191 AAATGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCG
* *
1484172 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTATC
1 TCCTGCTCTTTGAGGAC---AAAAGGTGCCACCAACTTGTGTGGGCTTTG---AG---AGGTGTC
* *
1484235 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTT
57 CTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTT
* *
1484298 TGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCGTCCTGCTCTTTGAA
120 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG-AGGCGTCCTGCTCTTTGAG
* *
1484363 GACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
184 GACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCG
*
1484410 TCCTGCTCTTTGGGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTTT
1 TCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTTT
1484475 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
66 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
** * * * * *
1484540 GGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTCCTCTTTGAGGACTGGGAAGT
131 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG-AGGCGTCCTGCTCTTTGAGGACTGGAAAAT
1484605 GCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
195 GCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCG
* * *
1484641 TCCTGCTCTTTGGGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTTT
1484706 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
66 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
1484771 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGT-----GTCCTGCTCTTTGAGGACTGGAAAATG
131 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAGGCGTCCTGCTCTTTGAGGACTGGAAAATG
*
1484831 CCACCAACTTGTGTGGGCTTT---GA-AAGGTG
196 CCACCAACTTGTGTGGGCTTTAAAGAGAAGGCG
* * *
1484860 TCCTGCTCTTTGTGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGAC-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTT
*
1484925 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGG
65 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*** * * *
1484990 AAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAA
130 AAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTGAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* *
1485055 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCA
194 TGCCACCAACTTGTGTGGGCTTT-AAAG-AGAAGGCG
* *
1485092 TCTTGCTTTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1485109 TGGGAAGGGC
Statistics
Matches: 1038, Mismatches: 71, Indels: 97
0.86 0.06 0.08
Matches are distributed among these distances:
219 21 0.02
220 139 0.13
221 5 0.00
223 2 0.00
224 40 0.04
225 88 0.08
226 145 0.14
227 1 0.00
228 1 0.00
229 139 0.13
230 11 0.01
231 323 0.31
232 69 0.07
234 2 0.00
235 4 0.00
237 27 0.03
238 21 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (228 bp):
TCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTTT
GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAGGCGTCCTGCTCTTTGAGGACTGGAAAATG
CCACCAACTTGTGTGGGCTTTAAAGAGAAGGCG
Found at i:1484772 original size:27 final size:27
Alignment explanation
Indices: 1484690--1484827 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
1484680 GGGCTTTGAG
1484690 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
1484717 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
1484745 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
1484772 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
1484800 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
1484827 A
1 A
1484828 ATGCCACCAA
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:1484914 original size:29 final size:28
Alignment explanation
Indices: 1484829--1484914 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 28
1484819 GACTGGAAAA
1484829 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAGG
** * * *
1484858 TGTCCTGC-TCTT-TGTGGAC-TAAAAGG
1 TG-CCACCAACTTGTGTGGGCTTTAAAGG
1484884 TGCCACCAACTTGTGTGGGCTTTAAGAGG
1 TGCCACCAACTTGTGTGGGCTTTAA-AGG
1484913 TG
1 TG
1484915 TCCTGCTCTT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
25 3 0.07
26 10 0.24
27 7 0.17
28 9 0.21
29 10 0.24
30 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (28 bp):
TGCCACCAACTTGTGTGGGCTTTAAAGG
Found at i:1491310 original size:80 final size:79
Alignment explanation
Indices: 1491197--1491399 Score: 219
Period size: 80 Copynumber: 2.6 Consensus size: 79
1491187 AATAGCGGGG
* * * * * * *
1491197 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
1491261 AAAAAAAAAATCAGGA
65 -AAAAAAAAACCAGGA
* * *
1491277 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * * *
1491342 GAATAAAGCCGGGG
66 AAAAAAAACCAGGA
* *
1491356 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1491400 GAAATAACAA
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
79 50 0.49
80 53 0.51
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCAGGA
Found at i:1491407 original size:28 final size:28
Alignment explanation
Indices: 1491351--1491422 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1491341 GGAATAAAGC
** *
1491351 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1491379 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
1491407 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1491423 TCGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1491500 original size:52 final size:52
Alignment explanation
Indices: 1491444--1491580 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 52
1491434 AAATTGGTAT
* * *
1491444 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* ** *
1491496 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
1491548 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
1491581 TCGAAAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 5 0.07
52 63 0.89
53 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:1491599 original size:28 final size:28
Alignment explanation
Indices: 1491554--1491634 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
1491544 AGTGTTTTAG
* *
1491554 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1491581 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
1491608 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
1491635 TGATTGTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.07
27 24 0.52
28 19 0.41
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:1491703 original size:212 final size:212
Alignment explanation
Indices: 1491344--1491749 Score: 577
Period size: 212 Copynumber: 1.9 Consensus size: 212
1491334 TATTTTGGGA
* * * *
1491344 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACA
1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
* *
1491409 AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATC
** * *
1491474 CCTGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCAATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
1491538 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
* *
1491556 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
* * *
1491620 GGGTTGGAGTATCC-CTGATTGTGAAGAAATTGGTGTTTTTTAGAAATAAAATCGGAGTTAGAGT
66 AGGTTGGAGTATCCTC-GACTGTGAA-AAATTGGT-ATTTTTAGAAATAAAATCGGAGTTAGAGT
** * *
1491684 ATCCCCAATTTTA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
128 ATCCCCAATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
1491748 GA
193 GA
1491750 GAATTGATAA
Statistics
Matches: 171, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
210 1 0.01
211 29 0.17
212 106 0.62
213 35 0.20
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
AGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATC
CCCAATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:1494148 original size:33 final size:33
Alignment explanation
Indices: 1494103--1494169 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1494093 AAAATTTCCA
* ***
1494103 AATGTATCGATACATTGATCCATGTATCGATAC
1 AATGTATCGATACATAGAAAAATGTATCGATAC
*
1494136 AATGTATTGATACATAGAAAAATGTATCGATAC
1 AATGTATCGATACATAGAAAAATGTATCGATAC
1494169 A
1 A
1494170 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACATAGAAAAATGTATCGATAC
Found at i:1494235 original size:32 final size:32
Alignment explanation
Indices: 1494194--1494255 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1494184 GCTAATTATG
* *
1494194 TATCGATACAATACTTATGTATCGATACATTC
1 TATCGATACAAAACTCATGTATCGATACATTC
1494226 TATCGATACAAAACTCATGTATCGATACAT
1 TATCGATACAAAACTCATGTATCGATACAT
1494256 ATTGTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (32 bp):
TATCGATACAAAACTCATGTATCGATACATTC
Found at i:1494250 original size:19 final size:17
Alignment explanation
Indices: 1494190--1494254 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 17
1494180 AGTAGCTAAT
1494190 TATGTATCGATACAATAC
1 TATGTATCGATACAA-AC
1494208 TTATGTATCGATAC--A-
1 -TATGTATCGATACAAAC
*
1494223 T-TCTATCGATACAAAAC
1 TATGTATCGATAC-AAAC
1494240 TCATGTATCGATACA
1 T-ATGTATCGATACA
1494255 TATTGTTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 2 0.05
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (17 bp):
TATGTATCGATACAAAC
Found at i:1504770 original size:166 final size:166
Alignment explanation
Indices: 1504468--1504771 Score: 364
Period size: 166 Copynumber: 1.8 Consensus size: 166
1504458 ATAAATGAAT
* * *
1504468 TTTTTAAAAACTGATTTAATATGAATTAAATGATGATATTTGTCAAATTTTAGAAATCATAAACC
1 TTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGTCAAATTTTAAAAATCATAAACC
* ** *
1504533 AAGAAAAATTCCCCCAAAAATATTTACGGAGTAGAAAACTTCATATTTCAAAAATAGAAAAATTT
66 AAGAAAAATTCCCCCAAAAATATTTACGAAAAAGAAAACTTCATATTTCAAAAATAGAAAAATTC
1504598 TAAGGAAACAATGAAAAATCCATGAAATAAAGGGAA
131 TAAGGAAACAATGAAAAATCCATGAAATAAAGGGAA
* * * * * *
1504634 TTTTTCAAAACTGATTTAATTTGAATTAAATAATAATATTTGAT-GAATTTTAAAAAT-TTGAAT
1 TTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTG-TCAAATTTTAAAAATCATAAAC
* ** * * **
1504697 CAATAAAAA-TCCTCTGGAAAAA-ATTTACGAAAAAGAAAACTTCGTATTTCGAAAATATGAGGA
65 CAAGAAAAATTCC-C-CCAAAAATATTTACGAAAAAGAAAACTTCATATTTCAAAAATA-GAAAA
1504760 ATTCTAAGGAAA
127 ATTCTAAGGAAA
1504772 AAAACTCATG
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
164 3 0.03
165 42 0.37
166 68 0.60
167 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (166 bp):
TTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGTCAAATTTTAAAAATCATAAACC
AAGAAAAATTCCCCCAAAAATATTTACGAAAAAGAAAACTTCATATTTCAAAAATAGAAAAATTC
TAAGGAAACAATGAAAAATCCATGAAATAAAGGGAA
Found at i:1505069 original size:21 final size:21
Alignment explanation
Indices: 1505040--1505092 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1505030 ATAATTTTTT
*
1505040 TCAAGTACATATA-TGTGATGTA
1 TCAA-TACATATACTAT-ATGTA
*
1505062 TCAATACATATACTATTTGTA
1 TCAATACATATACTATATGTA
1505083 TCAATACATA
1 TCAATACATA
1505093 AGGTTGACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAATACATATACTATATGTA
Found at i:1505317 original size:52 final size:52
Alignment explanation
Indices: 1505251--1505359 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 52
1505241 GTTCACAAAT
* *
1505251 GAATTGTATCGATACACGGTGAATTGTATTGATACATTAAG-CACAATGGCTA
1 GAATTGTATCGATACACGATGAATTGTATCGATACATTAAGTC-CAATGGCTA
* * * **
1505303 TAATTGTGTTGATACATTATGAATTGTATCGATACATTAAGTCCAATGGCTA
1 GAATTGTATCGATACACGATGAATTGTATCGATACATTAAGTCCAATGGCTA
1505355 GAATT
1 GAATT
1505360 TCAAATGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (52 bp):
GAATTGTATCGATACACGATGAATTGTATCGATACATTAAGTCCAATGGCTA
Found at i:1505861 original size:34 final size:33
Alignment explanation
Indices: 1505783--1505910 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 33
1505773 GATTGAAAGC
*
1505783 TTCTATCTTAGCCTTTGAAAATGATAAAGAGAA-AAG
1 TTCTATCTTAGCC-TTGAAAA-GAT--AGTGAAGAAG
*
1505819 TTCTATCTTAGCCTGTGAAAAGATAGTGAAGATG
1 TTCTATCTTAGCCT-TGAAAAGATAGTGAAGAAG
*
1505853 TTCTATCTTAGCCTATGAAAAGATA-T--AGAGG
1 TTCTATCTTAGCCT-TGAAAAGATAGTGAAGAAG
*
1505884 TTCTATCTTAGCCTTCAAAAGATAGTG
1 TTCTATCTTAGCCTTGAAAAGATAGTG
1505911 TTATAAGGTT
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.11
31 19 0.23
33 6 0.07
34 26 0.31
35 4 0.05
36 19 0.23
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TTCTATCTTAGCCTTGAAAAGATAGTGAAGAAG
Found at i:1507517 original size:21 final size:21
Alignment explanation
Indices: 1507492--1507545 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1507482 TAATATTCTT
*
1507492 GAAAAGAAAATAAATGAGTTG
1 GAAAAGAAAATAAATGAGTTA
* *
1507513 GAAAACAAAATAAGTGAGTTA
1 GAAAAGAAAATAAATGAGTTA
1507534 GAAAATGAAAAT
1 GAAAA-GAAAAT
1507546 GATGTGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.19
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAGTTA
Found at i:1510352 original size:52 final size:52
Alignment explanation
Indices: 1510290--1510398 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 52
1510280 GTTCACAAAT
* *
1510290 GAATTGTATCGATACATGGTAAATTGTATCAATACATTAAGCCCAATGGCTA
1 GAATTGTATCGATACATGATAAATTGTATCAATACATTAAGCCCAACGGCTA
* * * * *
1510342 TAATTGTATCGATACATTATAAATTGTATCCATACATTGAGTCCAACGGCTA
1 GAATTGTATCGATACATGATAAATTGTATCAATACATTAAGCCCAACGGCTA
1510394 GAATT
1 GAATT
1510399 TCAAATGCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (52 bp):
GAATTGTATCGATACATGATAAATTGTATCAATACATTAAGCCCAACGGCTA
Found at i:1510846 original size:36 final size:36
Alignment explanation
Indices: 1510799--1510904 Score: 121
Period size: 36 Copynumber: 3.0 Consensus size: 36
1510789 CGAAGTGATT
1510799 GAAAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAAAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
*
1510835 GAAAGGTTCTATCTTAG-CTTGTGAAAAA-ATAGTGA
1 GAAAGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGA
* * * * *
1510870 -AGAGGTTCTATCTCAACCTATG-AAAAGATAAGGA
1 GAAAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1510904 G
1 G
1510905 GTTCTATCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
33 4 0.07
34 20 0.34
35 11 0.19
36 24 0.41
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (36 bp):
GAAAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
Found at i:1510881 original size:34 final size:34
Alignment explanation
Indices: 1510798--1510917 Score: 117
Period size: 36 Copynumber: 3.6 Consensus size: 34
1510788 TCGAAGTGAT
1510798 TGAAAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 TGAAAGGTTCTATCTTAGCCTTTGAAAAAGATA--G
*
1510834 AGAAAGGTTCTATCTTAG-CTTGTGAAAAA-ATAG
1 TGAAAGGTTCTATCTTAGCCTT-TGAAAAAGATAG
* * *
1510867 TGAAGAGGTTCTATCTCAACCTATG-AAAAGATAAG
1 TGAA-AGGTTCTATCTTAGCCTTTGAAAAAGAT-AG
1510902 -G--AGGTTCTATCTTAGC
1 TGAAAGGTTCTATCTTAGC
1510918 GTTCAAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
31 13 0.18
33 8 0.11
34 17 0.24
35 10 0.14
36 24 0.33
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (34 bp):
TGAAAGGTTCTATCTTAGCCTTTGAAAAAGATAG
Found at i:1512752 original size:13 final size:13
Alignment explanation
Indices: 1512734--1512758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1512724 CATAAAGTGT
1512734 TGTATCGATACAA
1 TGTATCGATACAA
1512747 TGTATCGATACA
1 TGTATCGATACA
1512759 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1512904 original size:52 final size:52
Alignment explanation
Indices: 1512842--1512966 Score: 187
Period size: 52 Copynumber: 2.4 Consensus size: 52
1512832 CACTGATCTT
* *
1512842 TGTATCAATACATGCAGGCAAATTTGCCTAGATGGATCGATACATTATAAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGGATCGATACACTATAAAA
* * *
1512894 TGTATTAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGGATCGATACACTATAAAA
* *
1512946 TTTATCGATACATGCAGGCAA
1 TGTATCAATACATGCAGGCAA
1512967 CTTTTCATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCAATACATGCAGGCAAATTTGCCCAGATGGATCGATACACTATAAAA
Found at i:1516748 original size:14 final size:14
Alignment explanation
Indices: 1516729--1516757 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1516719 TTTTCCAAAG
1516729 AAAAATAACTTTTC
1 AAAAATAACTTTTC
1516743 AAAAATAACTTTTC
1 AAAAATAACTTTTC
1516757 A
1 A
1516758 TTAGTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATAACTTTTC
Found at i:1518316 original size:18 final size:18
Alignment explanation
Indices: 1518289--1518327 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1518279 GCCCAATATG
*
1518289 ATTATCAATGTATGGTTA
1 ATTATCAATGGATGGTTA
* *
1518307 ATTATTAATGGATGTTTA
1 ATTATCAATGGATGGTTA
1518325 ATT
1 ATT
1518328 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTATCAATGGATGGTTA
Found at i:1527467 original size:20 final size:20
Alignment explanation
Indices: 1527442--1527512 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
1527432 AAATAGAATT
*
1527442 TATCGATACAATGAAAAATG
1 TATCGATACATTGAAAAATG
* * *
1527462 TATCGATACATTCATACATG
1 TATCGATACATTGAAAAATG
* *
1527482 TATTGATATATTGAAAAATG
1 TATCGATACATTGAAAAATG
1527502 TATCGATACAT
1 TATCGATACAT
1527513 CTGTGTAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:1528181 original size:15 final size:16
Alignment explanation
Indices: 1528161--1528190 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1528151 AATGCTTGAA
1528161 AAAAAT-GAAAAAAAT
1 AAAAATGGAAAAAAAT
1528176 AAAAATGGAAAAAAA
1 AAAAATGGAAAAAAA
1528191 AGAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAATGGAAAAAAAT
Found at i:1528208 original size:21 final size:20
Alignment explanation
Indices: 1528168--1528231 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
1528158 GAAAAAAATG
*
1528168 AAAAAAATAAAAATGGAAAAA
1 AAAAAAAGAAAAA-GGAAAAA
*
1528189 AAAGAAAGAAAAAGGAAAAA
1 AAAAAAAGAAAAAGGAAAAA
*
1528209 AAGAAAAGAGAAAA-GAAAAA
1 AAAAAAAGA-AAAAGGAAAAA
1528229 AAA
1 AAA
1528232 TCAGATGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAAAGGAAAAA
Found at i:1528221 original size:15 final size:16
Alignment explanation
Indices: 1528188--1528231 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1528178 AAATGGAAAA
1528188 AAAAGAAAGAAAAAGG
1 AAAAGAAAGAAAAAGG
1528204 AAAA-AAAG-AAAAGAG
1 AAAAGAAAGAAAAAG-G
1528219 AAAAGAAA-AAAAA
1 AAAAGAAAGAAAAA
1528232 TCAGATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAAGG
Found at i:1529300 original size:44 final size:43
Alignment explanation
Indices: 1529225--1529311 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
1529215 CCATTCCTCT
* *
1529225 TTTTGTTTACTTGTCGACTATGTCCCGAGTAAACTTCTTTACCC
1 TTTTGTTTACCTGTCGACAATGTCCCGAGTAAACTTC-TTACCC
1529269 TTTTGTTTACCTGTCGACAATGTTCCC-AGTAAACTTCTTACCC
1 TTTTGTTTACCTGTCGACAATG-TCCCGAGTAAACTTCTTACCC
1529312 CTAAGTCTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 6 0.15
44 30 0.75
45 4 0.10
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (43 bp):
TTTTGTTTACCTGTCGACAATGTCCCGAGTAAACTTCTTACCC
Found at i:1529327 original size:43 final size:44
Alignment explanation
Indices: 1529229--1529327 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
1529219 TCCTCTTTTT
* * **
1529229 GTTTACTTGTCGACTATGTCCCGAGTAAACTTCTTTACCCTTTT
1 GTTTACTTGTCGACAATGTCCCGAGTAAACTTCTTTACCCCTAA
*
1529273 GTTTACCTGTCGACAATGTTCCC-AGTAAACTTC-TTACCCCTAA
1 GTTTACTTGTCGACAATG-TCCCGAGTAAACTTCTTTACCCCTAA
1529316 GTCTT-CTTGTCG
1 GT-TTACTTGTCG
1529328 TCTTTAACCC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
43 15 0.32
44 28 0.60
45 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.39
Consensus pattern (44 bp):
GTTTACTTGTCGACAATGTCCCGAGTAAACTTCTTTACCCCTAA
Found at i:1529516 original size:43 final size:43
Alignment explanation
Indices: 1529463--1530986 Score: 1178
Period size: 43 Copynumber: 35.3 Consensus size: 43
1529453 GTCGACTTTA
* * * *
1529463 ACTTTCTTACCCTTAAGTCTACCTGTTGGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * ** *
1529506 ACTTCCTTACCCTTAAGTCTGCCTATTGGCTTTAACTTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* ** * * * *
1529549 ACTTCCTTAACCTTACTTCTACCTGTCGGCTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
1529592 ACTTCCTTACCGTTTAAGTCTGCCTGTCGGCCTTAACCCTAGAG
1 ACTTCCTTACC-CTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * * * *
1529636 ACTTCTTTACTCTTTAAGTTTGCTTGTCCGCTTTGACCATGGAG
1 ACTTCCTTAC-CCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * ** * * *
1529680 ATTTCCCTACCTTTAAGTTTATCTATCGACTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
1529723 ACTTCCATACCTTTAAGTCTGCCTATCGGCTTTTA-CCTTGAAA
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAG-AG
* * * * * * * * *
1529766 ACTTCTTTACCTTTAAGTTTACTTCTTGGCTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
1529809 ACTTCCTTACCCTTAAGTTTACCTATCGACTTTGACCCTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
** * * *** * *
1529852 ACTTTTTTACCCTTAAGTCTACCTGTTAACTTTGACCGTAAAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * ** * **
1529895 ACTTCCTTACTCTTAAGTTTGTTTGTCAACTTTGACCCT-GAAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAG-AG
** * *
1529938 ACTTTATTACCCTTAAGTTTGCCTATCGGCTTTGACCTTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * * * *
1529981 ACTTCTTTATCCTTAAGACTACTTGTCAGCTTTGACCCTAAAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
1530024 ACTTCTTTACCCCTTAAGTCTACCTGTCAGCTTTGACCATGGAG
1 ACTTCCTTA-CCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* ** *
1530068 ACTTCCTTGCTTTTAAGTTTGCCTATCGGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
** * * * *
1530111 GTTTCTTTACCCTTAAGTCTGCCTATCGGATTTCACCCTAAAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
1530154 ACTTCATTGCCCTTAAGTCTG-CTCATCGGCTTTAACCCTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCT-ATCGGCTTTGACCCTAGAG
* * *
1530197 ACTTCCTTTAACCTTAAGTCTGCCTATAGGCTTTAACCCTAGAG
1 ACTTCC-TTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
1530241 ACTTCCTTTATCCTTAAGTCTACCTGTCGACTTTGACCTTGGAG
1 ACTTCC-TTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
1530285 ACTTCCTTACTCTTAAGTCTGCCTATCAGCTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
1530328 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * ** *
1530371 ACTTTCTTACCCTTAAGTCTGCCTGTCAACTTTGACCCTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
1530414 ACTTCATTACCCTTAAGTCTACTTACCAAG-TTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATC-GGCTTTGACCCTAGAG
* * * * * **
1530457 ACTT-CTTATCCTTAAGACCGCTTGTTAGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * *
1530499 ACTTCTTTACCCTTAAATCTGCCTATCGACTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
1530542 ACTTCATTACCCTTAAGTCTACCTGTCGACTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
1530585 ACTTTCTTATCCTTAAGAT-TACCTATCAGCTTTGACCCTATAG
1 ACTTCCTTACCCTTAAG-TCTGCCTATCGGCTTTGACCCTAGAG
* * *
1530628 ACTT-TTTAACCCTTAAGTCTGCCTGTCGGCTTTGACCCTGGAG
1 ACTTCCTT-ACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * *
1530671 ACTTCTTTTATCCTTAAGTCTGCCTATCGACTTTGACCCTAGAG
1 ACTTC-CTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * ** * *
1530715 ACTACATTACCCTTAAGTTTACCCGTCGGCTTTAACCTTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
1530758 ACTTCATTACCTTTAAATCTAG-CTGTCAGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCT-GCCTATCGGCTTTGACCCTAGAG
* * * * * *
1530801 ACTTCTTTACCTTTGAGTCTGCCTATCGACTTTGACCTTGGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * *
1530844 ACTTCCTTGCCCTCAAGTCTGCTTATCGGCTTTGACCCTAGAG
1 ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
1530887 ACTTTCTTA-CCTTAAAGTTTGCCTATCGACTTTAACCTTGGAG
1 ACTTCCTTACCCTT-AAGTCTGCCTATCGGCTTTGACCCTAGAG
* *
1530930 ACTTCCTTA-CCTTCAAGTCTGCCTATCGACTTTGACCGTAGAG
1 ACTTCCTTACCCTT-AAGTCTGCCTATCGGCTTTGACCCTAGAG
**
1530973 ACTTTTTTACCCTT
1 ACTTCCTTACCCTT
1530987 TTATTTACCT
Statistics
Matches: 1183, Mismatches: 276, Indels: 43
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.00
42 43 0.04
43 915 0.77
44 217 0.18
45 6 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (43 bp):
ACTTCCTTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAG
Found at i:1529539 original size:77 final size:77
Alignment explanation
Indices: 1529397--1529544 Score: 242
Period size: 77 Copynumber: 1.9 Consensus size: 77
1529387 ACTCCATACT
* * *
1529397 CTTAAGTCTGCCTATTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCTTGTCGACTTT
1 CTTAAGTCTACCTATTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCCTATCGACTTT
1529462 AACTTTCTTACC
66 AACTTTCTTACC
* * *
1529474 CTTAAGTCTACCTGTTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCCTATTGGCTTT
1 CTTAAGTCTACCTATTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCCTATCGACTTT
1529539 AACTTT
66 AACTTT
1529545 GGAGACTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.39
Consensus pattern (77 bp):
CTTAAGTCTACCTATTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCCTATCGACTTT
AACTTTCTTACC
Found at i:1529576 original size:120 final size:119
Alignment explanation
Indices: 1529354--1529581 Score: 303
Period size: 120 Copynumber: 1.9 Consensus size: 119
1529344 CTTCCATTAT
* *
1529354 CCTTAAGTCTACTTATTAGCTTTGACCCTACAGACTCCATACTCTTAAGTCTGCCTATTGGCTTT
1 CCTTAAGTCTACCTATTAGCTTTGACCCTACAGACTCCATACCCTTAAGTCTGCCTATTGGCTTT
* * * *
1529419 GACCCTAGAGACTTCCTTACCCTTAAGTCTGCTTGTCGACTTTAACTTTCTTAC
66 AACCCTAGAGACTTCCTTAACCTTAAGTCTACCTGTCGACTTTAACTTTCTTAC
* * * *
1529473 CCTTAAGTCTACCTGTTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAGTCTGCCTATTGGCTT
1 CCTTAAGTCTACCTATTAGCTTTGACCCTACAGAC-TCCATACCCTTAAGTCTGCCTATTGGCTT
** * ** *
1529538 TAACTTTGGAGACTTCCTTAACCTTACTTCTACCTGTCGGCTTT
65 TAACCCTAGAGACTTCCTTAACCTTAAGTCTACCTGTCGACTTT
1529582 GACCTTGGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
119 31 0.34
120 61 0.66
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (119 bp):
CCTTAAGTCTACCTATTAGCTTTGACCCTACAGACTCCATACCCTTAAGTCTGCCTATTGGCTTT
AACCCTAGAGACTTCCTTAACCTTAAGTCTACCTGTCGACTTTAACTTTCTTAC
Found at i:1531079 original size:85 final size:85
Alignment explanation
Indices: 1530974--1531478 Score: 419
Period size: 85 Copynumber: 5.9 Consensus size: 85
1530964 ACCGTAGAGA
* * * * *
1530974 CTTTTTTACCCTTTTATTTACCTGTCGGCTATGTCCTCGGTAAACTTCTAAC-CCTTGGTGACCT
1 CTTTCTTA-CCTTTTGTTTACTTGTCGGCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACCT
*
1531038 ATTAGCTTTGTCCCCAGCCAG
65 ATTAGCTTTGTCCCCAGTCAG
* *
1531059 CTTTCCTTACCTTTTGTTTACTTGTCGACTATGTCCTCGGTAAACTTTTTACTCTTTGGTGACCT
1 CTTT-CTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACCT
* **
1531124 ATTAGGTTTGTCCCTGGTCAG
65 ATTAGCTTTGTCCCCAGTCAG
* * * * * * **
1531145 CCTTTCTTACATTTTGTTTACATAT-GAGCTATGTCCCCGATAAACTTTTTCCTCCTTATTGACC
1 -CTTTCTTACCTTTTGTTTACTTGTCG-GCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACC
** * * *
1531209 TATCGGCTTT-ACCCTCGGTTAG
64 TATTAGCTTTGTCCC-CAGTCAG
* * ** * * * *
1531231 CCTTCTTACCTTTTATTTACTTGTCGGCTATGTTTTTGGAAAACTTCTT-CTCCTTGGTGACCTG
1 CTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACCTA
* * **
1531295 TTGGCTTTATCCTTAGTCAG
66 TTAGCTTTGTCCCCAGTCAG
* * * *
1531315 CATTTCTTACCTTTTGTTTACTTGTCGACTATGTCCCCGATAAACTTTTTGC-CCTTGGTGACCT
1 C-TTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACCT
* * *
1531379 ATCAACTTTGTCCCCAGTTAG
65 ATTAGCTTTGTCCCCAGTCAG
** * * * * *
1531400 CCTTTCTTACAATTTGTTTACCTATCGGCTATGTCC-CTAGTAAATTTTTTACTCCTAGGTGACC
1 -CTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTC-GGTAAACTTTTTACTCCTTGGTGACC
* **
1531464 TGTCGGCTTTGTCCC
64 TATTAGCTTTGTCCC
1531479 AATCAGCCCT
Statistics
Matches: 329, Mismatches: 79, Indels: 23
0.76 0.18 0.05
Matches are distributed among these distances:
84 25 0.08
85 185 0.56
86 115 0.35
87 4 0.01
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (85 bp):
CTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGTAAACTTTTTACTCCTTGGTGACCTA
TTAGCTTTGTCCCCAGTCAG
Found at i:1531409 original size:170 final size:171
Alignment explanation
Indices: 1530983--1531435 Score: 477
Period size: 170 Copynumber: 2.7 Consensus size: 171
1530973 ACTTTTTTAC
* * * * * * * *
1530983 CCTTTTATTTACCTGTCGGCTATGTCCTCGGTAAACTTCTAACCCTTGGTGACCTATTAGCTTTG
1 CCTTTTGTTTACATGTCGACTATGTCCCCGATAAACTTTTTACCCTTGGTGACCTATCAGCTTTG
** * * *
1531048 TCCCCAGCCAG-CTTTCCTTACCTTTTGTTTACTTGTCGACTATGTCCTCGGTAAACTTTTTACT
66 TCCCCAGTTAGCCTTT-CTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGAAAACTTCTTACT
* * * *
1531112 CTTTGGTGACCTATTAGGTTTGTCCCTGGTCAGCCTTTCTTA
130 CCTTGGTGACCTATTAGGTTTATCCCTAGTCAGCATTTCTTA
* * * ** *
1531154 CATTTTGTTTACATAT-GAGCTATGTCCCCGATAAACTTTTTCCTCCTTATTGACCTATCGGCTT
1 CCTTTTGTTTACATGTCGA-CTATGTCCCCGATAAACTTTTTAC-CCTTGGTGACCTATCAGCTT
* * * ** *
1531218 T-ACCCTCGGTTAGCC-TTCTTACCTTTTATTTACTTGTCGGCTATGTTTTTGGAAAACTTCTT-
64 TGTCCC-CAGTTAGCCTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGAAAACTTCTTA
* *
1531280 CTCCTTGGTGACCTGTT-GGCTTTATCCTTAGTCAGCATTTCTTA
128 CTCCTTGGTGACCTATTAGG-TTTATCCCTAGTCAGCATTTCTTA
* * *
1531324 CCTTTTGTTTACTTGTCGACTATGTCCCCGATAAACTTTTTGCCCTTGGTGACCTATCAACTTTG
1 CCTTTTGTTTACATGTCGACTATGTCCCCGATAAACTTTTTACCCTTGGTGACCTATCAGCTTTG
** * *
1531389 TCCCCAGTTAGCCTTTCTTACAATTTGTTTACCTATCGGCTATGTCC
66 TCCCCAGTTAGCCTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCC
1531436 CTAGTAAATT
Statistics
Matches: 226, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
169 27 0.12
170 101 0.45
171 74 0.33
172 23 0.10
173 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.42
Consensus pattern (171 bp):
CCTTTTGTTTACATGTCGACTATGTCCCCGATAAACTTTTTACCCTTGGTGACCTATCAGCTTTG
TCCCCAGTTAGCCTTTCTTACCTTTTGTTTACTTGTCGGCTATGTCCTCGGAAAACTTCTTACTC
CTTGGTGACCTATTAGGTTTATCCCTAGTCAGCATTTCTTA
Done.