Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 30 of 59
Found at i:11075627 original size:19 final size:18
Alignment explanation
Indices: 11075597--11075655 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
11075587 CCGACATGTG
11075597 AAGAGAAAAAGAGAAGGAAA
1 AAGA-AAAAAGAGAA-GAAA
*
11075617 AAGACAAAAGAGAAGAGAA
1 AAGAAAAAAGAGAAGA-AA
11075636 AAGAAAAAAGAAGAAGAAA
1 AAGAAAAAAG-AGAAGAAA
11075655 A
1 A
11075656 TGGGGGCCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 2 0.06
19 23 0.66
20 10 0.29
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAGAGAAGAAA
Found at i:11075761 original size:6 final size:6
Alignment explanation
Indices: 11075750--11075803 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
11075740 AAAAGACAGG
* * * * *
11075750 AAAGAA AAAGAA AGAGAA AAACAA GAAGAA AGAGAA AAAGAA AGAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
11075798 GAAAGA
1 -AAAGA
11075804 GAGTGGGGAC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:11075778 original size:24 final size:26
Alignment explanation
Indices: 11075729--11075803 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 26
11075719 AAAAGGGTAG
*
11075729 GAAAAAG--AGAGAAAAGACAGGAAA
1 GAAAAAGAAAGAGAAAAGACAAGAAA
11075753 GAAAAAGAAAGAGAAAA-ACAAG-AA
1 GAAAAAGAAAGAGAAAAGACAAGAAA
* * *
11075777 GAAAGAGAAAAAG-AAAGAGAAGAAA
1 GAAAAAGAAAGAGAAAAGACAAGAAA
11075802 GA
1 GA
11075804 GAGTGGGGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
23 3 0.07
24 24 0.56
25 8 0.19
26 8 0.19
ACGTcount: A:0.71, C:0.03, G:0.27, T:0.00
Consensus pattern (26 bp):
GAAAAAGAAAGAGAAAAGACAAGAAA
Found at i:11075797 original size:18 final size:18
Alignment explanation
Indices: 11075750--11075797 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11075740 AAAAGACAGG
*
11075750 AAAGAAAAAGAAAGAGAA
1 AAAGAAAGAGAAAGAGAA
*
11075768 AAA-CAAGAAGAAAGAGAA
1 AAAGAAAG-AGAAAGAGAA
11075786 AAAGAAAGAGAA
1 AAAGAAAGAGAA
11075798 GAAAGAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAGAAAGAGAA
Found at i:11075851 original size:17 final size:17
Alignment explanation
Indices: 11075820--11075858 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11075810 GGACCCGAGT
11075820 GAAAGAAAGGAGAAA-G
1 GAAAGAAAGGAGAAAGG
*
11075836 GAAAGAAAATGAGAAAGG
1 GAAAG-AAAGGAGAAAGG
11075854 GAAAG
1 GAAAG
11075859 CGGTGTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (17 bp):
GAAAGAAAGGAGAAAGG
Found at i:11075897 original size:11 final size:13
Alignment explanation
Indices: 11075872--11075903 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11075862 TGTCTCGAGG
11075872 AGAAGAAAAAGAA
1 AGAAGAAAAAGAA
11075885 AG-AGAAAAA-AA
1 AGAAGAAAAAGAA
11075896 AGAAGAAA
1 AGAAGAAA
11075904 GAGAGAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAGAA
Found at i:11075969 original size:16 final size:15
Alignment explanation
Indices: 11075944--11075974 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11075934 AATGAGAGGG
11075944 AAAAAAGAAGAAAGA
1 AAAAAAGAAGAAAGA
11075959 AAAAGAAGAAGAAAGA
1 AAAA-AAGAAGAAAGA
11075975 GAGAGGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAGAAAGA
Found at i:11077828 original size:37 final size:37
Alignment explanation
Indices: 11077787--11077892 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
11077777 GGTGATGTTG
* * *
11077787 AAGTGTGCGAGTAGAGAGTGAACACATGATGATAATA
1 AAGTGTGTGAGTAGGGAGTGCACACATGATGATAATA
11077824 AAGTGTGTGAGTAGGGAGTGCACACATGATGATAATA
1 AAGTGTGTGAGTAGGGAGTGCACACATGATGATAATA
*
11077861 GAGTGTGTGAGTAGGGAGTGCACACATGATGA
1 AAGTGTGTGAGTAGGGAGTGCACACATGATGA
11077893 CGATGTATGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.23
Consensus pattern (37 bp):
AAGTGTGTGAGTAGGGAGTGCACACATGATGATAATA
Found at i:11078031 original size:23 final size:23
Alignment explanation
Indices: 11078005--11078048 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11077995 CATTTTCTTG
* *
11078005 CAAATTGATTTTTATTGCAAAAC
1 CAAATGGATTTTTAGTGCAAAAC
11078028 CAAATGGATTTTTAGTGCAAA
1 CAAATGGATTTTTAGTGCAAA
11078049 GGAGGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (23 bp):
CAAATGGATTTTTAGTGCAAAAC
Found at i:11079356 original size:60 final size:60
Alignment explanation
Indices: 11079254--11079487 Score: 289
Period size: 60 Copynumber: 4.0 Consensus size: 60
11079244 ATTGTAAAAT
* * * *
11079254 GGGG-ACCTAAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACAAGTAGGTTAA
1 GGGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCACAAGTAGGTAAA
* * * * *
11079313 GGGGAACTTGAAGCCTCGATTTATATTGGGTGACGTGGATAGTTCCCACTAGAAGGTAAA
1 GGGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCACAAGTAGGTAAA
*
11079373 GGGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCACGAA-TAGATAAA
1 GGGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCAC-AAGTAGGTAAA
* * **
11079433 GAGGG-ACCTGAAACCCCGATTCATA-T-GGTGGCGTGGGCAGTTCCCACAAGTAGGT
1 G-GGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCACAAGTAGGT
11079488 GATGATGTCT
Statistics
Matches: 151, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
57 2 0.01
58 23 0.15
59 5 0.03
60 117 0.77
61 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (60 bp):
GGGGAACCTGAAGCCCCGATTTATATTGGGTGGCGTGGATAGTTCCCACAAGTAGGTAAA
Found at i:11081324 original size:16 final size:17
Alignment explanation
Indices: 11081298--11081335 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11081288 TCATATTTAA
*
11081298 ATATTATAAAACAATTT
1 ATATTAAAAAACAATTT
*
11081315 -TATTAAAAAATAATTT
1 ATATTAAAAAACAATTT
11081331 ATATT
1 ATATT
11081336 TTAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTAAAAAACAATTT
Found at i:11081541 original size:35 final size:35
Alignment explanation
Indices: 11081491--11081624 Score: 162
Period size: 35 Copynumber: 3.8 Consensus size: 35
11081481 TATTGTACAA
* * *
11081491 AGAACAACTAAAACAAGTGAAGCGTTATTTCACGC
1 AGAACAACTAGAACAAGTGAAGCGCTACTTCACGC
* *
11081526 AGAACAACTAGAACAAATGAAGCGCTACTTCATGC
1 AGAACAACTAGAACAAGTGAAGCGCTACTTCACGC
** * *
11081561 AGAACAACTAGAACAAGTGAAGTACTACTTAAAGC
1 AGAACAACTAGAACAAGTGAAGCGCTACTTCACGC
*
11081596 AGAACAACTAGAATAAGTTG-AGCGCTACT
1 AGAACAACTAGAACAAG-TGAAGCGCTACT
11081625 CCATATGGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
35 83 0.98
36 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (35 bp):
AGAACAACTAGAACAAGTGAAGCGCTACTTCACGC
Found at i:11081620 original size:70 final size:70
Alignment explanation
Indices: 11081491--11081648 Score: 174
Period size: 70 Copynumber: 2.3 Consensus size: 70
11081481 TATTGTACAA
** * * *
11081491 AGAACAACTAAAACAAGTGAAGCGTTATTTCACGCAGAACAACTAGAACAAATGAAGCGCTACTT
1 AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAAATGAAGCGCTACTT
11081556 CATGC
66 CATGC
* * * *
11081561 AGAACAACTAGAACAAGTGAAGTACTACTTAAAGCAGAACAACTAGAATAAGTTG-AGCGCTACT
1 AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAA-ATGAAGCGCTACT
* **
11081625 CCATAT
65 TCATGC
* *
11081631 GGAACAACTAATACAAGT
1 AGAACAACTAAAACAAGT
11081649 AGAATAGCTA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
70 70 0.97
71 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (70 bp):
AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAAATGAAGCGCTACTT
CATGC
Found at i:11082820 original size:35 final size:36
Alignment explanation
Indices: 11082742--11082823 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
11082732 TCTTAGCAGC
*
11082742 TCATGTGTACTTCCACACCTCACATAGCTAGAATCA
1 TCATGTGCACTTCCACACCTCACATAGCTAGAATCA
* *
11082778 TCTTGTGCACTTCCACACCGT-ACA-AGGTA-ATATCA
1 TCATGTGCACTTCCACACC-TCACATAGCTAGA-ATCA
11082813 TCATGTGCACT
1 TCATGTGCACT
11082824 CCCCCTAGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 1 0.03
35 18 0.45
36 20 0.50
37 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (36 bp):
TCATGTGCACTTCCACACCTCACATAGCTAGAATCA
Found at i:11082909 original size:52 final size:52
Alignment explanation
Indices: 11082831--11082933 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
11082821 ACTCCCCCTA
*
11082831 GCACATGGCATATATGATCAGTGTGTGCACTCACAC-GACACACCACTATCAT
1 GCACATGGCATATATCATCAGTGTGTGCACTCACACAG-CACACCACTATCAT
11082883 GCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCA
1 GCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCA
11082934 CCGTCATGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (52 bp):
GCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCAT
Found at i:11083763 original size:14 final size:15
Alignment explanation
Indices: 11083740--11083784 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11083730 GAGAAGGAGT
11083740 AAGAAAAGAAAAAGA
1 AAGAAAAGAAAAAGA
*
11083755 AAG-AAAG-AAAACA
1 AAGAAAAGAAAAAGA
*
11083768 AAGAAAAGAAAATGA
1 AAGAAAAGAAAAAGA
11083783 AA
1 AA
11083785 ATCTTGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 8 0.32
14 8 0.32
15 9 0.36
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAAAAGA
Found at i:11084721 original size:29 final size:29
Alignment explanation
Indices: 11084682--11084779 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 29
11084672 ATGCACCTTT
* * *
11084682 TTCTTTTGTACTTGATCTCATATAGCTTC
1 TTCTCTTGTACTTGTTCTCGTATAGCTTC
*
11084711 TTCTCTTGTACTTGTTCTCGTATAGCTTA
1 TTCTCTTGTACTTGTTCTCGTATAGCTTC
* *
11084740 TACTCTTGTACTTGTTCACGTATAGCTTC
1 TTCTCTTGTACTTGTTCTCGTATAGCTTC
11084769 TTCTCTTGTAC
1 TTCTCTTGTAC
11084780 CTTTTCACGT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.50
Consensus pattern (29 bp):
TTCTCTTGTACTTGTTCTCGTATAGCTTC
Found at i:11084727 original size:58 final size:58
Alignment explanation
Indices: 11084649--11084787 Score: 136
Period size: 58 Copynumber: 2.4 Consensus size: 58
11084639 GCTCTTCTAC
* * * * * * * *
11084649 CTTCTTCTCATATACCTGTTCACATGCACCTTTTTCTTTTGTACTTGATCTCATATAG
1 CTTCTTCTCTTGTACTTGTTCACATACACCTTATACTCTTGTACTTGATCACATATAG
* * * * * *
11084707 CTTCTTCTCTTGTACTTGTTCTCGTATAGCTTATACTCTTGTACTTGTTCACGTATAG
1 CTTCTTCTCTTGTACTTGTTCACATACACCTTATACTCTTGTACTTGATCACATATAG
11084765 CTTCTTCTCTTGTACCTT-TTCAC
1 CTTCTTCTCTTGTA-CTTGTTCAC
11084788 GTGTACCTAT
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
58 62 0.95
59 3 0.05
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (58 bp):
CTTCTTCTCTTGTACTTGTTCACATACACCTTATACTCTTGTACTTGATCACATATAG
Found at i:11089599 original size:102 final size:102
Alignment explanation
Indices: 11089320--11089595 Score: 322
Period size: 102 Copynumber: 2.7 Consensus size: 102
11089310 AATTATATTT
* * *
11089320 AGCAGCTAGCTTTATCGCTTATATTTTGGCTGTAATTATATTATACTATTGGTCGCAAGCTTTAT
1 AGCAGCTAGCTTTATCACTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTAT
* * *
11089385 TACTCATTCTTTGACCATAGTTCATCATTCTTGCTTC
66 TGCTCATTCTTTGACCATAGTTCATCATTCATGATTC
* * * * * * *
11089422 AGCCGCAAGCTTTACCACTCATATTTTGGTTGCAATGATATTTTTCTATTGGTCGCAAGCTTTAT
1 AGCAGCTAGCTTTATCACTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTAT
* * * *
11089487 CGCTTATTCTTTGACCATAGTTTATTATTCAT-ATTCC
66 TGCTCATTCTTTGACCATAGTTCATCATTCATGATT-C
* * * * * *
11089524 AGCAGCTACCTTTATCACTCATAATTT-GCTGTAATGATGTTATGCTATTGGTTGCTAGCTTTAT
1 AGCAGCTAGCTTTATCACTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTAT
11089588 TGCTCATT
66 TGCTCATT
11089596 TCTTGGCCCT
Statistics
Matches: 142, Mismatches: 31, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
101 38 0.27
102 104 0.73
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (102 bp):
AGCAGCTAGCTTTATCACTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTAT
TGCTCATTCTTTGACCATAGTTCATCATTCATGATTC
Found at i:11091887 original size:21 final size:22
Alignment explanation
Indices: 11091862--11091902 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11091852 CCTAGGTGGA
*
11091862 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
11091883 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
11091903 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:11091903 original size:20 final size:21
Alignment explanation
Indices: 11091862--11091906 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11091852 CCTAGGTGGA
*
11091862 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
11091883 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
11091903 AAAA
1 AAAA
11091907 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:11091907 original size:21 final size:20
Alignment explanation
Indices: 11091860--11091907 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11091850 ACCCTAGGTG
*
11091860 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
11091880 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
11091902 GAAAAA
1 GAAAAA
11091908 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:11096722 original size:72 final size:72
Alignment explanation
Indices: 11096640--11096783 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 72
11096630 TGTTTTATAA
11096640 GAAAATAGAA-TATTTTATTGAATATTTTTATTATATTCAAATAGTCATAATTTCATTTTAAATG
1 GAAAATAGAATTATTTTATTGAATATTTTTATTATATTCAAATAGTCATAATTTCATTTTAAATG
11096704 AAGGTTT
66 AAGGTTT
11096711 NGAAAATAGAATTATTTTATTGAATATTTTTATTATATTCAAATAGTCATAATTTCATTTTAAAT
1 -GAAAATAGAATTATTTTATTGAATATTTTTATTATATTCAAATAGTCATAATTTCATTTTAAAT
11096776 GAAGGTTT
65 GAAGGTTT
11096784 TAGACTTTTA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 10 0.14
73 61 0.86
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (72 bp):
GAAAATAGAATTATTTTATTGAATATTTTTATTATATTCAAATAGTCATAATTTCATTTTAAATG
AAGGTTT
Found at i:11097220 original size:2 final size:2
Alignment explanation
Indices: 11097207--11097237 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11097197 GTCTGTTCAA
*
11097207 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11097238 CATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11097220 original size:8 final size:8
Alignment explanation
Indices: 11097207--11097241 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
11097197 GTCTGTTCAA
11097207 ATATATAC
1 ATATATAC
*
11097215 ATATATAT
1 ATATATAC
*
11097223 ATATATAT
1 ATATATAC
11097231 ATATATAC
1 ATATATAC
11097239 ATA
1 ATA
11097242 AAAAAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:11098019 original size:35 final size:35
Alignment explanation
Indices: 11097907--11097999 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 35
11097897 TATTGTACAA
*
11097907 AGAACAACCAAAACAAGTGAAGTGTTACTTCACGC
1 AGAACAACCAGAACAAGTGAAGTGTTACTTCACGC
* * *
11097942 AGAACAACTAGAACAATTGAAGCGTTACTTCACGC
1 AGAACAACCAGAACAAGTGAAGTGTTACTTCACGC
11097977 AGAACAACCAGAACAAGTGAAGT
1 AGAACAACCAGAACAAGTGAAGT
11098000 ACTACTTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (35 bp):
AGAACAACCAGAACAAGTGAAGTGTTACTTCACGC
Found at i:11098398 original size:29 final size:29
Alignment explanation
Indices: 11098298--11098413 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
11098288 CACATGCACT
* * * *
11098298 TTTTTCTCTTGTACCTATTCATGTACA-G
1 TTTTTCTCTTGTACCTGTTCACGTATACC
* * * *
11098326 TTTTTTTTTTGTACCTGTTCTCGTATAGC
1 TTTTTCTCTTGTACCTGTTCACGTATACC
* *
11098355 TTCTTCTCTTGTACTTGTTCACGTATACC
1 TTTTTCTCTTGTACCTGTTCACGTATACC
* * *
11098384 TTTTTCTCTTGTACTTTTTCACGTGTACC
1 TTTTTCTCTTGTACCTGTTCACGTATACC
11098413 T
1 T
11098414 ATATTTTATT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 21 0.30
29 50 0.70
ACGTcount: A:0.13, C:0.22, G:0.11, T:0.53
Consensus pattern (29 bp):
TTTTTCTCTTGTACCTGTTCACGTATACC
Found at i:11098410 original size:14 final size:14
Alignment explanation
Indices: 11098364--11098411 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11098354 CTTCTTCTCT
*
11098364 TGTACTTGTTCACG
1 TGTACTTTTTCACG
* * *
11098378 TATACCTTTTTCTCT
1 TGTA-CTTTTTCACG
11098393 TGTACTTTTTCACG
1 TGTACTTTTTCACG
11098407 TGTAC
1 TGTAC
11098412 CTATATTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.50
Consensus pattern (14 bp):
TGTACTTTTTCACG
Found at i:11100336 original size:3 final size:3
Alignment explanation
Indices: 11100328--11100353 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11100318 TTTATGGTTT
11100328 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11100354 TTCAGGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11103477 original size:21 final size:21
Alignment explanation
Indices: 11103453--11103505 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
11103443 AACATATGAG
*
11103453 TAAATAGAAT-AGAAAATGAAA
1 TAAATA-AATAAGAAAATAAAA
*
11103474 TAAATAAATAAGTAAATAAAA
1 TAAATAAATAAGAAAATAAAA
11103495 T-AATAATATAA
1 TAAATAA-ATAA
11103506 ATTGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
TAAATAAATAAGAAAATAAAA
Found at i:11112906 original size:2 final size:2
Alignment explanation
Indices: 11112899--11112932 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11112889 TAAAGCTTTT
11112899 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11112933 CAAAGGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11113320 original size:20 final size:21
Alignment explanation
Indices: 11113288--11113331 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11113278 TGAAGTTGTT
*
11113288 AGAAATATTTGAGAGGAAAAA
1 AGAAATATTTGAGAAGAAAAA
*
11113309 AGAAAT-TTTGAGAAGAAACA
1 AGAAATATTTGAGAAGAAAAA
11113329 AGA
1 AGA
11113332 GTATGACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.23, T:0.18
Consensus pattern (21 bp):
AGAAATATTTGAGAAGAAAAA
Found at i:11113529 original size:33 final size:32
Alignment explanation
Indices: 11113492--11113558 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
11113482 ATAAAAAGAT
* *
11113492 TTGTTTCCTTTCATAATATAACTTTTCAAATAG
1 TTGTTTCCTTTCATAATACAACTATTCAAA-AG
*
11113525 TTGTTTCCTTTCATGATACAACTATTCAAAAG
1 TTGTTTCCTTTCATAATACAACTATTCAAAAG
11113557 TT
1 TT
11113559 ATATCTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.46
Consensus pattern (32 bp):
TTGTTTCCTTTCATAATACAACTATTCAAAAG
Found at i:11113587 original size:39 final size:39
Alignment explanation
Indices: 11113533--11113608 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
11113523 AGTTGTTTCC
* *
11113533 TTTCATGATACAACTATTCAAAAGTTATATCTAATAATA
1 TTTCATAATACAACTATTAAAAAGTTATATCTAATAATA
*
11113572 TTTCATAATATAACTATTAAAAAGTTATATCTAATAA
1 TTTCATAATACAACTATTAAAAAGTTATATCTAATAA
11113609 GATAATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (39 bp):
TTTCATAATACAACTATTAAAAAGTTATATCTAATAATA
Found at i:11116269 original size:43 final size:43
Alignment explanation
Indices: 11116192--11116306 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
11116182 GTAATGATAT
* ** * *
11116192 TGACTCAGCTATGTGCGAGTAGGGAGTGTGCATAAGCCAATGA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAACCCAATAA
* * *
11116235 TGACCCGGTTATGTGCGAGTAGGGAGTGCACATAACCCGATAA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAACCCAATAA
* * *
11116278 TGACCCAGCCATGTGTGAGTAAGGAGTGC
1 TGACCCAGCTATGTGCGAGTAGGGAGTGC
11116307 GCATGAGCTG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (43 bp):
TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAACCCAATAA
Found at i:11116345 original size:23 final size:23
Alignment explanation
Indices: 11116315--11116374 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
11116305 GCGCATGAGC
*
11116315 TGATGATGATGGTATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
11116338 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
*
11116361 TGATGATGTTGGGA
1 TGATGATGATGGGA
11116375 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.22, C:0.03, G:0.42, T:0.33
Consensus pattern (23 bp):
TGATGATGATGGGATGGTGTGCA
Found at i:11116382 original size:2 final size:2
Alignment explanation
Indices: 11116375--11116423 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11116365 GATGTTGGGA
11116375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11116417 AT AT AT A
1 AT AT AT A
11116424 GTGTAGTAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11116434 original size:3 final size:3
Alignment explanation
Indices: 11116422--11116458 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11116412 TATATATATA
11116422 TAG T-G TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
11116459 AACTAGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:11119199 original size:69 final size:72
Alignment explanation
Indices: 11119119--11119272 Score: 192
Period size: 71 Copynumber: 2.2 Consensus size: 72
11119109 AAACCTTAAA
* *
11119119 TAGCTAATGGATGTTAGGCATCAACCC-CTT-TACTAGGGGTTAATCCCTCATA-GACAATA-AG
1 TAGCTACTGGATGTTAGGCATCAACCCTCTTGTACTAAGGGTTAATCCCTC-TAGGAC-ATAGAG
11119180 CTTT-CAAT
64 CTTTCCAAT
* * *
11119188 TAGCTACTGGATGTTAGGGATCAACCCTTTTGTACTAAGGGTTAATCCTTCTAGGACATAGAGCT
1 TAGCTACTGGATGTTAGGCATCAACCCTCTTGTACTAAGGGTTAATCCCTCTAGGACATAGAGCT
*
11119253 TTCCAGT
66 TTCCAAT
*
11119260 TAGCTACTAGATG
1 TAGCTACTGGATG
11119273 ACAGGGATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
69 25 0.34
70 7 0.10
71 26 0.36
72 15 0.21
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (72 bp):
TAGCTACTGGATGTTAGGCATCAACCCTCTTGTACTAAGGGTTAATCCCTCTAGGACATAGAGCT
TTCCAAT
Found at i:11120099 original size:58 final size:57
Alignment explanation
Indices: 11119997--11120117 Score: 131
Period size: 58 Copynumber: 2.1 Consensus size: 57
11119987 GTTAGTTTAG
* * * *
11119997 AAGAACAAGCATGTGTCTTACTTATTGCACATGTCTCATACCATAGCCCTT-G-CTAGAT
1 AAGAACAAACATGTGCCGTACTTATT-CACATATCTCATACCATAG--CTTCGACTAGAT
*
11120055 AAGAACAAACATGTGCCGTACTTATT-ACATATCTCTAGTGCCATAGCTTCGACTAGAT
1 AAGAACAAACATGTGCCGTACTTATTCACATATCTC-A-TACCATAGCTTCGACTAGAT
11120113 AAGAA
1 AAGAA
11120118 TAACAAGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
56 11 0.20
57 2 0.04
58 41 0.76
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (57 bp):
AAGAACAAACATGTGCCGTACTTATTCACATATCTCATACCATAGCTTCGACTAGAT
Found at i:11120144 original size:61 final size:59
Alignment explanation
Indices: 11119942--11120153 Score: 157
Period size: 61 Copynumber: 3.6 Consensus size: 59
11119932 ATAGGATGAT
* * * * * * * * *
11119942 CAAGCATGTGTTTTACTT-TTGCACATGTCTAGCACCGTAGCCCTTGTTAGTTTAGAAGAA
1 CAAGCATGTGTCTTACTTATTACATATCTCTAGTACCATAG-CCTTGCTAGATAAGAA-AA
*
11120002 CAAGCATGTGTCTTACTTATTGCACATGTCTC-A-TACCATAGCCCTTGCTAGATAAG--AA
1 CAAGCATGTGTCTTACTTATT--ACATATCTCTAGTACCATAG-CCTTGCTAGATAAGAAAA
* * * *
11120060 CAAACATGTGCCGTACTTATTACATATCTCTAGTGCCATAG-CTTCGACTAGATAAGAATAA
1 CAAGCATGTGTCTTACTTATTACATATCTCTAGTACCATAGCCTT-G-CTAGATAAGAA-AA
* * *
11120121 CAAGCATGTGTCTTACATATTACACATATCTAG
1 CAAGCATGTGTCTTACTTATTACATATCTCTAG
11120154 CAGCATGCCT
Statistics
Matches: 121, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
56 11 0.09
57 2 0.02
58 36 0.30
60 17 0.14
61 49 0.40
62 1 0.01
63 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (59 bp):
CAAGCATGTGTCTTACTTATTACATATCTCTAGTACCATAGCCTTGCTAGATAAGAAAA
Found at i:11121057 original size:21 final size:21
Alignment explanation
Indices: 11121030--11121083 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11121020 TTCTGTCTCA
*
11121030 AATGTATCGATAGATGTTCAT
1 AATGTATCGATAAATGTTCAT
* *
11121051 GATGTATCAATAAATGTTCAT
1 AATGTATCGATAAATGTTCAT
*
11121072 AATGAATCGATA
1 AATGTATCGATA
11121084 CTATATTTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATAAATGTTCAT
Found at i:11121899 original size:48 final size:48
Alignment explanation
Indices: 11121828--11121924 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
11121818 TTCAAGAATC
* * * *
11121828 AAAATGATTTTTTAAGAAAATAAATTGTTAGTGATTGTAATATGATTG
1 AAAATAATTTTCTAAGAAAATAAATTGTTAGTGAATGCAATATGATTG
*
11121876 AAAATAATTTTCTAAGAAAATAAATTGTTAGTGAATGCGATATGATTG
1 AAAATAATTTTCTAAGAAAATAAATTGTTAGTGAATGCAATATGATTG
11121924 A
1 A
11121925 GACAATAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.38
Consensus pattern (48 bp):
AAAATAATTTTCTAAGAAAATAAATTGTTAGTGAATGCAATATGATTG
Found at i:11122221 original size:68 final size:68
Alignment explanation
Indices: 11122109--11122307 Score: 222
Period size: 68 Copynumber: 2.9 Consensus size: 68
11122099 CATGTTTAGT
* * * * * * *
11122109 ATGATGAATGCCTA-AAAATTATATATATGATATAAATTCTATATACCATATGAGATGATTAAGT
1 ATGATGAATG-CTATGAGATTATGTATATGATGTATATTCCATATACCATATGAGATGATTAAGA
**
11122173 ACGC
65 AAAC
* * *
11122177 ATGATGAATGCTATGAGATTATGTACATGATGTATATTCCATATACTACATGAGATGATTAAGAA
1 ATGATGAATGCTATGAGATTATGTATATGATGTATATTCCATATACCATATGAGATGATTAAGAA
11122242 AAC
66 AAC
* * * *
11122245 ATGCTGAATG-TGATGAGATTATGTATATGATGTATTTTCCATATACCTTATGAGATGAATAAG
1 ATGATGAATGCT-ATGAGATTATGTATATGATGTATATTCCATATACCATATGAGATGATTAAG
11122308 CATGTATGTG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 4 0.04
68 106 0.96
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (68 bp):
ATGATGAATGCTATGAGATTATGTATATGATGTATATTCCATATACCATATGAGATGATTAAGAA
AAC
Found at i:11123586 original size:19 final size:18
Alignment explanation
Indices: 11123555--11123610 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
11123545 AGTCGATAGC
*
11123555 AAGAAAAAGAGAGAAATAA
1 AAGAAAAA-AGAGAAAGAA
11123574 AAGAGAAAAAGAGAAAGAA
1 AAGA-AAAAAGAGAAAGAA
11123593 AAGAAAGAAAAGAGAAAG
1 AAG-AA-AAAAGAGAAAG
11123611 GGAAAGGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAGAGAAAGAA
Found at i:11123601 original size:21 final size:21
Alignment explanation
Indices: 11123559--11123633 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 21
11123549 GATAGCAAGA
*
11123559 AAAAGAGAGAAATAAAAG--AG
1 AAAA-AGAGAAAGAAAAGAAAG
11123579 AAAAAGAGAAAGAAAAGAAAG
1 AAAAAGAGAAAGAAAAGAAAG
* *
11123600 -AAAAGAGAAAGGGAAAGGAAGG
1 AAAAAGAGAAA--GAAAAGAAAG
11123622 AAAAAGAAGAAA
1 AAAAAG-AGAAA
11123634 ACCTTGGAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.26
20 14 0.30
21 2 0.04
22 8 0.17
23 5 0.11
24 5 0.11
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (21 bp):
AAAAAGAGAAAGAAAAGAAAG
Found at i:11123610 original size:11 final size:11
Alignment explanation
Indices: 11123564--11123610 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
11123554 CAAGAAAAAG
*
11123564 AGAGAAATAAA
1 AGAGAAAGAAA
11123575 AGAG--A-AAA
1 AGAGAAAGAAA
11123583 AGAGAAAG-AA
1 AGAGAAAGAAA
11123593 A-AGAAAGAAA
1 AGAGAAAGAAA
11123603 AGAGAAAG
1 AGAGAAAG
11123611 GGAAAGGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.23
9 7 0.23
10 7 0.23
11 10 0.32
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (11 bp):
AGAGAAAGAAA
Found at i:11123631 original size:26 final size:26
Alignment explanation
Indices: 11123572--11123634 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
11123562 AGAGAGAAAT
11123572 AAAAG-AGAAAAAGAGAAAGAAAAGA
1 AAAAGAAGAAAAAGAGAAAGAAAAGA
* * * *
11123597 AAGAA-AAGAGAAAGGGAAAGGAAGGA
1 AA-AAGAAGAAAAAGAGAAAGAAAAGA
11123623 AAAAGAAGAAAA
1 AAAAGAAGAAAA
11123635 CCTTGGAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (26 bp):
AAAAGAAGAAAAAGAGAAAGAAAAGA
Found at i:11128545 original size:20 final size:20
Alignment explanation
Indices: 11128520--11128565 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11128510 CTTCTAAACC
11128520 TCAAATCATACTCCATTAAG
1 TCAAATCATACTCCATTAAG
*
11128540 TCAAATTATACTCCATTAAG
1 TCAAATCATACTCCATTAAG
11128560 TCAAAT
1 TCAAAT
11128566 GGGGCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCCATTAAG
Found at i:11132674 original size:20 final size:20
Alignment explanation
Indices: 11132649--11132692 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
11132639 AATGTATAAG
*
11132649 ATTCTTGAAAGTATCAATAC
1 ATTCTTGAAAGCATCAATAC
* *
11132669 ATTCTTGAATGCATCAATAG
1 ATTCTTGAAAGCATCAATAC
11132689 ATTC
1 ATTC
11132693 ATTGCAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
ATTCTTGAAAGCATCAATAC
Found at i:11145564 original size:2 final size:2
Alignment explanation
Indices: 11145525--11145551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11145515 ATACCTCTAC
11145525 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11145552 CTCTGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11146765 original size:86 final size:86
Alignment explanation
Indices: 11146662--11147601 Score: 822
Period size: 86 Copynumber: 10.8 Consensus size: 86
11146652 AACTTATGGC
* * * * *
11146662 GTGACACACTGAGTGCATGGAGACTTCTGGTGTGACACAGTGACTTGTTGCAGTTTTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
* *
11146727 ACACGACATGGCCTAATTGTG
66 ACACGGCATGGCCCAATTGTG
* * * *
11146748 GTGACACGCTGAATGCATACAGACTTATGGCGTGACACTGTGACTTGTTGCAGTCTTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
* *
11146813 ACACAGCACGGCCCAATTGTG
66 ACACGGCATGGCCCAATTGTG
* * * *
11146834 GTGACACGCTAAGTGCATGGAGACTTCTGGCGTGATACGGTGACTTGTTGCAGTCTTGTGGAGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
11146899 ACACGGCACT-GCCCAATTGTG
66 ACACGGCA-TGGCCCAATTGTG
** *
11146920 GTGACACGCTGAGTAAATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGAGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
11146985 ACACGGCACT-GCCCAATTGTG
66 ACACGGCA-TGGCCCAATTGTG
* * * * *
11147006 GTGACACGCTGAGTGAATGTAGACTTCTGGCGTGACACGCTGACTTGTTGTAGGCTTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
* * * *
11147071 ACATGGCAAGGGCCAATTATG
66 ACACGGCATGGCCCAATTGTG
* * *
11147092 GTGACATGCTGAGTGCATGCAGACTTATGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGATG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
*
11147157 ACACGGCAAGAG-CCAATTGTG
66 ACACGGCATG-GCCCAATTGTG
* * * * * * * * ** * * * *
11147178 GTGACATGTTGAGTGCAAGCAGACTTATGGCGTGACATGCTAAGTTAATGCAGACTTATAGCGTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
* * * *
11147243 ACACGTTGACTTGTTGCAGTC-TTATGGG
66 ACACG--G-CATG--GC--CCAAT-TGTG
* * * * * * * * *
11147271 GTGACACGGTAAGGGCTAAT-TATG-GTGANCTGACGTGACACGATGACTTGTTGTAGTCTTGTG
1 GTGACACGCTGAGTGC--ATGCA-GACT--TCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTG
* * * **
11147334 AGGTGACACAGCGTCACCCAATTGTG
61 GGGTGACACGGCATGGCCCAATTGTG
* * * * ** * * * *
11147360 GTGACATGCTGAGTGAATGTAGACTTCTGGCATGACACACTGACTTGTTACAGTATTATGGGCTG
1 GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
* * *
11147425 ACATGGCAAGGCCCAATTATG
66 ACACGGCATGGCCCAATTGTG
* * *
11147446 GTGACACGCT-AGGTGCATGGAGACTTCTGGCATGACACGCTGACTTGTTGCAGTCTTGTGGGGT
1 GTGACACGCTGA-GTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGT
* *
11147510 GACACGGCACGGCCAAATTGTG
65 GACACGGCATGGCCCAATTGTG
* * * *** *
11147532 GTGACAC-ATCGAGTGCATGCAGAC-T-TGGCATGACATGCCAAATTGTTGCAGTCTTGT-GGGT
1 GTGACACGCT-GAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGT
*
11147593 GACATGGCA
65 GACACGGCA
11147602 CAAAATTAAT
Statistics
Matches: 694, Mismatches: 138, Indels: 47
0.79 0.16 0.05
Matches are distributed among these distances:
83 12 0.02
84 28 0.04
85 3 0.00
86 569 0.82
87 5 0.01
88 4 0.01
89 17 0.02
90 2 0.00
91 1 0.00
92 1 0.00
93 18 0.03
94 3 0.00
95 2 0.00
96 29 0.04
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (86 bp):
GTGACACGCTGAGTGCATGCAGACTTCTGGCGTGACACGGTGACTTGTTGCAGTCTTGTGGGGTG
ACACGGCATGGCCCAATTGTG
Found at i:11147213 original size:31 final size:31
Alignment explanation
Indices: 11147178--11147251 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
11147168 GCCAATTGTG
*
11147178 GTGACATGTTGAGTGCAA-GCAGACTTATGGC
1 GTGACATGTTGAGT-CAATGCAGACTTATAGC
* * *
11147209 GTGACATGCTAAGTTAATGCAGACTTATAGC
1 GTGACATGTTGAGTCAATGCAGACTTATAGC
*
11147240 GTGACACGTTGA
1 GTGACATGTTGA
11147252 CTTGTTGCAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGACATGTTGAGTCAATGCAGACTTATAGC
Found at i:11147362 original size:65 final size:63
Alignment explanation
Indices: 11147239--11147364 Score: 137
Period size: 65 Copynumber: 2.0 Consensus size: 63
11147229 AGACTTATAG
* * * *
11147239 CGTGACACGTTGACTTGTTGCAGTCTTATGGGGTGACACGGTAAGGGCTAATTATGGTGANCTGA
1 CGTGACACGATGACTTGTTGCAGTCTTATGAGGTGACACGGTAA-GCCCAATTATGGTGA-CTGA
* * * *
11147304 CGTGACACGATGACTTGTTGTAGTCTTGTGAGGTGACACAGCGTCA-CCCAATTGTGGTGAC
1 CGTGACACGATGACTTGTTGCAGTCTTATGAGGTGACAC-G-GTAAGCCCAATTATGGTGAC
11147365 ATGCTGAGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
64 1 0.02
65 46 0.90
66 1 0.02
67 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (63 bp):
CGTGACACGATGACTTGTTGCAGTCTTATGAGGTGACACGGTAAGCCCAATTATGGTGACTGA
Found at i:11149083 original size:80 final size:80
Alignment explanation
Indices: 11148989--11149154 Score: 203
Period size: 81 Copynumber: 2.1 Consensus size: 80
11148979 GAAGATGCTG
* * *
11148989 TCCTTCAACCACGAGCGACTGAAGGT-CCTTCTCCCCTCC-CGTGATGCATAGATAACCGAATCA
1 TCCTTCAACCACGAGCAACTGAAGGTCCCCT-TCCCCTCCAC-AGATGCATAGATAACCGAATCA
11149052 GCCTTAA-GAACATGGAC
64 GCC-TAAGGAACATGGAC
* * * *
11149069 TCCTTCAGCCACGAGCAAGTGAAGGTCCCCTTCCCCTCCTACAGATGCATTGATAACTGAATCAG
1 TCCTTCAACCACGAGCAACTGAAGGTCCCCTTCCCCTCC-ACAGATGCATAGATAACCGAATCAG
*
11149134 TCTAAGGAACATGGAC
65 CCTAAGGAACATGGAC
11149150 TCCTT
1 TCCTT
11149155 TAGCATCATC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
80 34 0.46
81 39 0.53
82 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (80 bp):
TCCTTCAACCACGAGCAACTGAAGGTCCCCTTCCCCTCCACAGATGCATAGATAACCGAATCAGC
CTAAGGAACATGGAC
Found at i:11149151 original size:81 final size:80
Alignment explanation
Indices: 11148989--11149154 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
11148979 GAAGATGCTG
* * *
11148989 TCCTTCAACCACGAGCGACTGAAGGTCCTTCTCCCCTCCCGTGATGCATAGATAACCGAATCAGC
1 TCCTTCAACCACGAGCAACTGAAGGTCCCTCTCCCCTCCCGAGATGCATAGATAACCGAATCAGC
11149054 CTTAAGAACATGGAC
66 CTTAAGAACATGGAC
* * * *
11149069 TCCTTCAGCCACGAGCAAGTGAAGGTCCC-CTTCCCCTCCTAC-AGATGCATTGATAACTGAATC
1 TCCTTCAACCACGAGCAACTGAAGGTCCCTC-TCCCCTCC--CGAGATGCATAGATAACCGAATC
*
11149132 AGTC-TAAGGAACATGGAC
63 AGCCTTAA-GAACATGGAC
11149150 TCCTT
1 TCCTT
11149155 TAGCATCATC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
79 1 0.01
80 36 0.49
81 36 0.49
82 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (80 bp):
TCCTTCAACCACGAGCAACTGAAGGTCCCTCTCCCCTCCCGAGATGCATAGATAACCGAATCAGC
CTTAAGAACATGGAC
Found at i:11152361 original size:13 final size:13
Alignment explanation
Indices: 11152343--11152367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11152333 TTCCAAAAAA
11152343 TTTATAAAATCAT
1 TTTATAAAATCAT
11152356 TTTATAAAATCA
1 TTTATAAAATCA
11152368 CAATTTCTTC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11155680 original size:55 final size:55
Alignment explanation
Indices: 11155613--11155775 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 55
11155603 TCCTTACACC
* * *
11155613 AACAGCCATGACACGCTAAAAACCTAATAAACCAGTTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGG
* * **
11155668 AACAGCCGTGACACGCCAAAAACCCAAAAAATCAGTTAACCCATTACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGG
** *
11155723 AACAGTAGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCA
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCA
11155776 TATGCAGACG
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 94 1.00
ACGTcount: A:0.44, C:0.32, G:0.13, T:0.11
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGG
Found at i:11157226 original size:37 final size:38
Alignment explanation
Indices: 11157173--11157376 Score: 175
Period size: 37 Copynumber: 5.3 Consensus size: 38
11157163 TAATGTTGTG
* *
11157173 TGATGATG-TTGAAGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
*
11157210 TGATGATGATAG-AGTGTGCGAGTAGGGAGTACACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
11157247 TGATAATG-TTGAAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* * * * * *
11157284 TGATGATGATATTGCATTGAGT-TGGGTGTGGTGGAATGGTATACA
1 TGATGATGATA--G-A---AGTGTGCGAGTAG-GGAGT-GCACACA
* *
11157329 TGATGATGCT-GAAGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
11157366 TGATGATGATA
1 TGATGATGATA
11157377 TTGCATTGAG
Statistics
Matches: 130, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
36 2 0.02
37 82 0.63
38 10 0.08
39 6 0.05
40 1 0.01
41 2 0.02
42 1 0.01
43 5 0.04
44 7 0.05
45 14 0.11
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.27
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:11157331 original size:45 final size:45
Alignment explanation
Indices: 11157281--11157418 Score: 121
Period size: 45 Copynumber: 3.2 Consensus size: 45
11157271 GGGAGTGCAC
*
11157281 ACATGATGATGATATTGCATTGAGTTGGGTGTGGTGGAATGGTAT
1 ACATGATGATGATATTGCATTGAGTTGAGTGTGGTGGAATGGTAT
* * * * * * * *
11157326 ACATGATGATG---CTGAAGTGTG-TGA--GTAG-GGAGT-GCAC
1 ACATGATGATGATATTGCATTGAGTTGAGTGTGGTGGAATGGTAT
*
11157363 ACATGATGATGATATTGCATTGAGTTGAGTGTGGTGGAATGGTCT
1 ACATGATGATGATATTGCATTGAGTTGAGTGTGGTGGAATGGTAT
*
11157408 GCATGATGATG
1 ACATGATGATG
11157419 TATGTATATA
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
37 13 0.20
38 4 0.06
39 3 0.05
40 6 0.09
41 5 0.08
42 6 0.09
43 3 0.05
44 4 0.06
45 22 0.33
ACGTcount: A:0.25, C:0.07, G:0.36, T:0.32
Consensus pattern (45 bp):
ACATGATGATGATATTGCATTGAGTTGAGTGTGGTGGAATGGTAT
Found at i:11157342 original size:82 final size:82
Alignment explanation
Indices: 11157244--11157418 Score: 287
Period size: 82 Copynumber: 2.1 Consensus size: 82
11157234 GGGAGTACAC
* * *
11157244 ACATGATAATGTTGAAGTGTGCAAGTAGGGAGTGCACACATGATGATGATATTGCATTGAGTTGG
1 ACATGATGATGCTGAAGTGTGCAAGTAGGGAGTGCACACATGATGATGATATTGCATTGAGTTGA
11157309 GTGTGGTGGAATGGTAT
66 GTGTGGTGGAATGGTAT
**
11157326 ACATGATGATGCTGAAGTGTGTGAGTAGGGAGTGCACACATGATGATGATATTGCATTGAGTTGA
1 ACATGATGATGCTGAAGTGTGCAAGTAGGGAGTGCACACATGATGATGATATTGCATTGAGTTGA
*
11157391 GTGTGGTGGAATGGTCT
66 GTGTGGTGGAATGGTAT
*
11157408 GCATGATGATG
1 ACATGATGATG
11157419 TATGTATATA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.30
Consensus pattern (82 bp):
ACATGATGATGCTGAAGTGTGCAAGTAGGGAGTGCACACATGATGATGATATTGCATTGAGTTGA
GTGTGGTGGAATGGTAT
Found at i:11159196 original size:104 final size:103
Alignment explanation
Indices: 11159039--11159570 Score: 428
Period size: 104 Copynumber: 5.1 Consensus size: 103
11159029 GTTCAAGTAA
* * ** * * *
11159039 TGCCGTGTCACATG-TCTGACCATGGTGTGTCCCACACTCTAAACACTACCGTGTCACACCCGTC
1 TGCCGTGTCACACGTTCT-TCCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGTC
* * *
11159103 CCACATATTCTCACCGTGCTGTCTCACACATTTTCACCT
65 TCACATATTCTCACCGTGCTGTCTCACACATTATCACCC
* * * * * *
11159142 TGGCGTGTCACA-GATTCCTTCCATGGCTTGTCAAACACTCTAAACCCGGTCGTGTCACACCTGT
1 TGCCGTGTCACACG-TT-CTTCCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGT
* * * * ** * *
11159206 GTCACACATTATCACTGTGCCATTTCACACATTATGACCC
64 CTCACATATTCTCACCGTGCTGTCTCACACATTATCACCC
* * ** *
11159246 TGCCGTGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGTTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTCT-TCCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGTC
* * * * * *
11159311 CCACATATTCTCACCGTACCGTCTCCCACATTTTCACCT
65 TCACATATTCTCACCGTGCTGTCTCACACATTATCACCC
** * * * *
11159350 TGGTGTGCCACA-GATTCCCTCCATGGCATGTCACACACTCTAAACCCTGCCATGTCACACTCGT
1 TGCCGTGTCACACG-TT-CTTCCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGT
* * * * * * * *
11159414 GTCATACATTATCACTGT-ATCGTTTCACACATTATGACCC
64 CTCACATATTCTCACCGTGCT-GTCTCACACATTATCACCC
* * * ** * *
11159454 TGCCATGTCACACGTT-TTGACCATGGCGTGTCAGACACTCTAAACGTTGCCATGTCACACCTGT
1 TGCCGTGTCACACGTTCTT--CCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGT
11159518 CTCACATATTCTCACCGTG-TCGTCTCACACATTATCACCC
64 CTCACATATTCTCACCGTGCT-GTCTCACACATTATCACCC
11159558 TGCCGTGTCACAC
1 TGCCGTGTCACAC
11159571 ACTCTAAACC
Statistics
Matches: 331, Mismatches: 86, Indels: 23
0.75 0.20 0.05
Matches are distributed among these distances:
102 2 0.01
103 14 0.04
104 310 0.94
105 5 0.02
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (103 bp):
TGCCGTGTCACACGTTCTTCCATGGCATGTCACACACTCTAAACCCTGCCGTGTCACACCCGTCT
CACATATTCTCACCGTGCTGTCTCACACATTATCACCC
Found at i:11159249 original size:23 final size:23
Alignment explanation
Indices: 11159205--11159282 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
11159195 GTCACACCTG
* **
11159205 TGTCACACATTATCACTGTGCCA
1 TGTCACACATTATGACCATGCCA
* * *
11159228 TTTCACACATTATGACCCTGCCG
1 TGTCACACATTATGACCATGCCA
* * *
11159251 TGTCACACGTTCTGACCATGACA
1 TGTCACACATTATGACCATGCCA
11159274 TGTCACACA
1 TGTCACACA
11159283 CTCTAAACGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (23 bp):
TGTCACACATTATGACCATGCCA
Found at i:11159425 original size:208 final size:207
Alignment explanation
Indices: 11159039--11159556 Score: 716
Period size: 208 Copynumber: 2.5 Consensus size: 207
11159029 GTTCAAGTAA
* * * ** *
11159039 TGCCGTGTCACATG-TCTGACCATGGTGTGTCCCACACTCTAAACACTACCGTGTCACACCCGTC
1 TGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACA-CCGTC
* * *
11159103 CCACATATTCTCACCGTGCTGTCTCACACATTTTCACCTTGGCGTGTCACAGATTCCTTCCATGG
65 CCACATATTCTCACCGTGCCGTCTCACACATTTTCACCTTGGCGTGCCACAGATTCCCTCCATGG
* * * *
11159168 CTTGTCAAACACTCTAAACCCGGTCGTGTCACACCTGTGTCACACATTATCACTGTGCCATTTCA
130 CATGTCAAACACTCTAAACCCGGCCATGTCACACCTGTGTCACACATTATCACTGTACCATTTCA
11159233 CACATTATGACCC
195 CACATTATGACCC
* *
11159246 TGCCGTGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGTTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACAC-CGTC
* * *
11159311 CCACATATTCTCACCGTACCGTCTCCCACATTTTCACCTTGGTGTGCCACAGATTCCCTCCATGG
65 CCACATATTCTCACCGTGCCGTCTCACACATTTTCACCTTGGCGTGCCACAGATTCCCTCCATGG
* * * * *
11159376 CATGTCACACACTCTAAACCCTGCCATGTCACA-CTCGTGTCATACATTATCACTGTATCGTTTC
130 CATGTCAAACACTCTAAACCCGGCCATGTCACACCT-GTGTCACACATTATCACTGTACCATTTC
11159440 ACACATTATGACCC
194 ACACATTATGACCC
* * * *
11159454 TGCCATGTCACACGTTTTGACCATGGCGTGTCAGACACTCTAAACGTTGCCATGTCACACCTGTC
1 TGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACC-GTC
* * *
11159519 TCACATATTCTCACCGTGTCGTCTCACACATTATCACC
65 CCACATATTCTCACCGTGCCGTCTCACACATTTTCACC
11159557 CTGCCGTGTC
Statistics
Matches: 273, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
207 17 0.06
208 256 0.94
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (207 bp):
TGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACCGTCC
CACATATTCTCACCGTGCCGTCTCACACATTTTCACCTTGGCGTGCCACAGATTCCCTCCATGGC
ATGTCAAACACTCTAAACCCGGCCATGTCACACCTGTGTCACACATTATCACTGTACCATTTCAC
ACATTATGACCC
Found at i:11159568 original size:23 final size:23
Alignment explanation
Indices: 11159516--11159571 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11159506 TGTCACACCT
* * * *
11159516 GTCTCACATATTCTCACCGTGTC
1 GTCTCACACATTATCACCCTGCC
11159539 GTCTCACACATTATCACCCTGCC
1 GTCTCACACATTATCACCCTGCC
*
11159562 GTGTCACACA
1 GTCTCACACA
11159572 CTCTAAACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.38, G:0.12, T:0.29
Consensus pattern (23 bp):
GTCTCACACATTATCACCCTGCC
Found at i:11159605 original size:185 final size:185
Alignment explanation
Indices: 11159378--11159754 Score: 529
Period size: 185 Copynumber: 2.0 Consensus size: 185
11159368 CTCCATGGCA
* * * * *
11159378 TGTCACACACTCTAAACCCTGCCATGTCACACTCGTGTCATACATTATCACTGTATCGTTTCACA
1 TGTCACACACTCTAAACCCTACCATGTCACACCCATGTCATACATTATCACTATATCATTTCACA
* * * * * *
11159443 CATTATGACCCTGCCATGTCACACGTTTTGACCATGGCGTGTCAGACACTCTAAACGTTGCCATG
66 CATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCATC
* * *
11159508 TCACACCTGTCTCACATATTCTCACCGTGTCGTCTCACACATTATCACCCTGCCG
131 TCACACCCGTCTCACATATTCTCACCGTGCCATCTCACACATTATCACCCTGCCG
* * * *
11159563 TGTCACACACTCTAAACCCTATCGTTTCACACCCATGTCATACATTATCACTATGTCATTTCACA
1 TGTCACACACTCTAAACCCTACCATGTCACACCCATGTCATACATTATCACTATATCATTTCACA
** * * *
11159628 CATTATGACACTGTTATGTCACATGTTCTGACCATGGCATGTCACACACTCTAAATGCTGCCGTC
66 CATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCATC
* *
11159693 TCACACCCGTCTCACATATTCTCACCTTGCCATCTCACACATTATCACCCTGTCG
131 TCACACCCGTCTCACATATTCTCACCGTGCCATCTCACACATTATCACCCTGCCG
11159748 TGTCACA
1 TGTCACA
11159755 GATTCCCTCC
Statistics
Matches: 167, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
185 167 1.00
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.30
Consensus pattern (185 bp):
TGTCACACACTCTAAACCCTACCATGTCACACCCATGTCATACATTATCACTATATCATTTCACA
CATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCATC
TCACACCCGTCTCACATATTCTCACCGTGCCATCTCACACATTATCACCCTGCCG
Found at i:11159649 original size:23 final size:23
Alignment explanation
Indices: 11159596--11159650 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
11159586 GTTTCACACC
*
11159596 CATGTCATACATTATCACTATGT
1 CATGTCACACATTATCACTATGT
* *
11159619 CATTTCACACATTATGAC-ACTGT
1 CATGTCACACATTATCACTA-TGT
*
11159642 TATGTCACA
1 CATGTCACA
11159651 TGTTCTGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (23 bp):
CATGTCACACATTATCACTATGT
Found at i:11159650 original size:104 final size:103
Alignment explanation
Indices: 11159542--11160010 Score: 391
Period size: 104 Copynumber: 4.5 Consensus size: 103
11159532 CCGTGTCGTC
* * * * * *
11159542 TCACACATTATCACCCTGCCGTGTCACACACTCTAAACCCTATCGTTTCACACCCATGTCATACA
1 TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACACCCATGTCACACA
* * *
11159607 TTATCACTATGTCATTTCACACATTATGACACTGTTATG
66 TTATCACT-TGCCATTTCACACATTATGACCCTGTCATG
** * * ** * * * * *
11159646 TCACATGTTCTGACCATGGCATGTCACACACTCTAAATGCTGCCGTCTCACACCCGTCTCACATA
1 TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACACCCATGTCACACA
* * * *
11159711 TTCTCACCTTGCCATCTCACACATTATCACCCTGTCGTG
66 TTATCA-CTTGCCATTTCACACATTATGACCCTGTCATG
* * * ** **
11159750 TCACAGATTCCCTCCATGGCGTGTCACACACTCTAAACCCTATTGTGTCACACCTGTGTCACACA
1 TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACACCCATGTCACACA
* *
11159815 TTATCACTGTGCCGTTTCACACATTATGACCCTGCCATG
66 TTATCACT-TGCCATTTCACACATTATGACCCTGTCATG
* * * * * * * *
11159854 TCACACGTTCTGACCATGGTGTGTCACACACTTTAAACGCTGCCGTGTCACACCCATCTCACATA
1 TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACACCCATGTCACACA
* * * * * *
11159919 TTCTCACCATGCTATCTT-ACACATTATCACCCTGCCGTG
66 TTATCA-CTTGCCAT-TTCACACATTATGACCCTGTCATG
* * * * * * * *
11159958 TCAAAGATTCCCTCCATGGAGTGTCACAAACTCTATACCCTGCCGTGTCACAC
1 TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACAC
11160011 TCATTTAACA
Statistics
Matches: 285, Mismatches: 76, Indels: 8
0.77 0.21 0.02
Matches are distributed among these distances:
103 2 0.01
104 278 0.98
105 5 0.02
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (103 bp):
TCACACATTCTCACCATGGCGTGTCACACACTCTAAACCCTACCGTGTCACACCCATGTCACACA
TTATCACTTGCCATTTCACACATTATGACCCTGTCATG
Found at i:11159818 original size:208 final size:208
Alignment explanation
Indices: 11159561--11160010 Score: 648
Period size: 208 Copynumber: 2.2 Consensus size: 208
11159551 ATCACCCTGC
* * *
11159561 CGTGTCACACACTCTAAACCCTATCGTTTCACACCCATGTCATACATTATCACTATGTCATTTCA
1 CGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCA
** * *
11159626 CACATTATGACACTGTTATGTCACATGTTCTGACCATGGCATGTCACACACTCTAAATGCTGCCG
66 CACATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCG
* * * *
11159691 TCTCACACCCGTCTCACATATTCTCACCTTGCCATCTCACACATTATCACCCTGTCGTGTCACAG
131 TCTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAG
11159756 ATTCCCTCCATGG
196 ATTCCCTCCATGG
* ** * *
11159769 CGTGTCACACACTCTAAACCCTATTGTGTCACACCTGTGTCACACATTATCACTGTGCCGTTTCA
1 CGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCA
* ** *
11159834 CACATTATGACCCTGCCATGTCACACGTTCTGACCATGGTGTGTCACACACTTTAAACGCTGCCG
66 CACATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCG
* * *
11159899 TGTCACACCCATCTCACATATTCTCACCATGCTATCTTACACATTATCACCCTGCCGTGTCAAAG
131 TCTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAG
11159964 ATTCCCTCCATGG
196 ATTCCCTCCATGG
* * * **
11159977 AGTGTCACAAACTCTATACCCTGCCGTGTCACAC
1 CGTGTCACACACTCTAAACCCTATCGTGTCACAC
11160011 TCATTTAACA
Statistics
Matches: 213, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
208 213 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (208 bp):
CGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCA
CACATTATGACACTGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCG
TCTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAG
ATTCCCTCCATGG
Found at i:11159846 original size:393 final size:393
Alignment explanation
Indices: 11159170--11159962 Score: 1124
Period size: 393 Copynumber: 2.0 Consensus size: 393
11159160 TTCCATGGCT
* ** *
11159170 TGTCAAACACTCTAAACCCGGTCGTGTCACACCTGTGTCACACATTATCACTGTGCCATTTCACA
1 TGTCAAACACTCTAAACCCGATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCACA
* * * *
11159235 CATTATGACCCTGCCGTGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGTTGCCGTG
66 CATTATGACACTGCCATGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGCTGCCGTC
* * * * *
11159300 TCACACTCGTCCCACATATTCTCACCGTACCGTCTCCCACATTTTCACCTTGGTGTGCCACAGAT
131 TCACACCCGTCCCACATATTCTCACCGTACCATCTCACACATTATCACCCTGGTGTGCCACAGAT
* *
11159365 TCCCTCCATGGCATGTCACACACTCTAAACCCTGCCATGTCACACTCGTGTCATACATTATCACT
196 TCCCTCCATGGCATGTCACACACTCTAAACCCTACCATGTCACACTCGTGTCACACATTATCACT
* * *
11159430 GTATCGTTTCACACATTATGACCCTGCCATGTCACACGTTTTGACCATGGCGTGTCAGACACTCT
261 GTACCGTTTCACACATTATGACCCTGCCATGTCACACGTTCTGACCATGGCGTGTCACACACTCT
* ** * *
11159495 AAACGTTGCCATGTCACACCTGTCTCACATATTCTCACCGTG-TCGTCTCACACATTATCACCCT
326 AAACGCTGCCATGTCACACCCATCTCACATATTCTCACCATGCT-ATCTCACACATTATCACCCT
11159559 GCCG
390 GCCG
* * * * *
11159563 TGTCACACACTCTAAACCCTATCGTTTCACACCCATGTCATACATTATCACTATGTCATTTCACA
1 TGTCAAACACTCTAAACCCGATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCACA
** * * *
11159628 CATTATGACACTGTTATGTCACATGTTCTGACCATGGCATGTCACACACTCTAAATGCTGCCGTC
66 CATTATGACACTGCCATGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGCTGCCGTC
* * * *
11159693 TCACACCCGTCTCACATATTCTCACCTTGCCATCTCACACATTATCACCCT-GTCGTGTCACAGA
131 TCACACCCGTCCCACATATTCTCACCGTACCATCTCACACATTATCACCCTGGT-GTGCCACAGA
* ***
11159757 TTCCCTCCATGGCGTGTCACACACTCTAAACCCTATTGTGTCACAC-CTGTGTCACACATTATCA
195 TTCCCTCCATGGCATGTCACACACTCTAAACCCTACCATGTCACACTC-GTGTCACACATTATCA
* *
11159821 CTGTGCCGTTTCACACATTATGACCCTGCCATGTCACACGTTCTGACCATGGTGTGTCACACACT
259 CTGTACCGTTTCACACATTATGACCCTGCCATGTCACACGTTCTGACCATGGCGTGTCACACACT
* * *
11159886 TTAAACGCTGCCGTGTCACACCCATCTCACATATTCTCACCATGCTATCTTACACATTATCACCC
324 CTAAACGCTGCCATGTCACACCCATCTCACATATTCTCACCATGCTATCTCACACATTATCACCC
11159951 TGCCG
389 TGCCG
11159956 TGTCAAA
1 TGTCAAA
11159963 GATTCCCTCC
Statistics
Matches: 350, Mismatches: 47, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
392 3 0.01
393 346 0.99
394 1 0.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (393 bp):
TGTCAAACACTCTAAACCCGATCGTGTCACACCCATGTCACACATTATCACTATGCCATTTCACA
CATTATGACACTGCCATGTCACACGTTCTGACCATGACATGTCACACACTCTAAACGCTGCCGTC
TCACACCCGTCCCACATATTCTCACCGTACCATCTCACACATTATCACCCTGGTGTGCCACAGAT
TCCCTCCATGGCATGTCACACACTCTAAACCCTACCATGTCACACTCGTGTCACACATTATCACT
GTACCGTTTCACACATTATGACCCTGCCATGTCACACGTTCTGACCATGGCGTGTCACACACTCT
AAACGCTGCCATGTCACACCCATCTCACATATTCTCACCATGCTATCTCACACATTATCACCCTG
CCG
Found at i:11159850 original size:23 final size:23
Alignment explanation
Indices: 11159806--11159868 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
11159796 GTCACACCTG
* ** *
11159806 TGTCACACATTATCACTGTGCCG
1 TGTCACACATTATGACCCTGCCA
*
11159829 TTTCACACATTATGACCCTGCCA
1 TGTCACACATTATGACCCTGCCA
* *
11159852 TGTCACACGTTCTGACC
1 TGTCACACATTATGACC
11159869 ATGGTGTGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (23 bp):
TGTCACACATTATGACCCTGCCA
Found at i:11160045 original size:104 final size:102
Alignment explanation
Indices: 11159659--11160064 Score: 336
Period size: 104 Copynumber: 3.9 Consensus size: 102
11159649 CATGTTCTGA
** * * * * *
11159659 CCATGGCA-TGTCACACACTCTAAATGCTGCCGTCTCACACCCGTCTCACATATTCTCACCTTGC
1 CCATGG-AGTGTCACACACTCTAAACCCTGCCGTGTCACA-CCATTTCACATATTATCACCATG-
* * * *
11159723 CATCTCACACATTATCACCCTGTCGTGTCACAGATTCCCT
63 CGTATCACACATTATCACCCTGCCGTGTCAAAGATTCCCT
* *** * **
11159763 CCATGGCGTGTCACACACTCTAAACCCTATTGTGTCACACC-TGTGTCACACATTATCACTGTGC
1 CCATGGAGTGTCACACACTCTAAACCCTGCCGTGTCACACCAT-T-TCACATATTATCACCATG-
* * * * ***
11159827 CGTTTCACACATTATGACCCTGCCATGTCACACG-TTCTGA
63 CGTATCACACATTATCACCCTGCCGTGTCA-AAGATTCCCT
* * * * *
11159867 CCATGGTGTGTCACACACTTTAAACGCTGCCGTGTCACACCCATCTCACATATTCTCACCATGC-
1 CCATGGAGTGTCACACACTCTAAACCCTGCCGTGTCACA-CCATTTCACATATTATCACCATGCG
11159931 TATCTTACACATTATCACCCTGCCGTGTCAAAGATTCCCT
65 TATC--ACACATTATCACCCTGCCGTGTCAAAGATTCCCT
* * *
11159971 CCATGGAGTGTCACAAACTCTATACCCTGCCGTGTCACACTCATTTAACATAGTT-TCACCATGA
1 CCATGGAGTGTCACACACTCTAAACCCTGCCGTGTCACAC-CATTTCACATA-TTATCACCATG-
** *
11160035 CGTATCACACATTGCCACCATGCCGTGTCA
63 CGTATCACACATTATCACCCTGCCGTGTCA
11160065 CAAACTCTAT
Statistics
Matches: 239, Mismatches: 50, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
102 4 0.02
103 6 0.03
104 218 0.91
105 6 0.03
106 5 0.02
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (102 bp):
CCATGGAGTGTCACACACTCTAAACCCTGCCGTGTCACACCATTTCACATATTATCACCATGCGT
ATCACACATTATCACCCTGCCGTGTCAAAGATTCCCT
Found at i:11160066 original size:208 final size:208
Alignment explanation
Indices: 11159562--11160066 Score: 550
Period size: 208 Copynumber: 2.4 Consensus size: 208
11159552 TCACCCTGCC
* * * ** * * * * * *
11159562 GTGTCACACACTCTAAACCCTATCGTTTCACACCCATGTCATACATTATCACTATGTCATTTCAC
1 GTGTCACAAACTCTAAACCCTACCGTGTCACACCTGTGTAACACATTATCACCATGACGTATCAC
** ** * *
11159627 ACATTATGA-CACTGTTATGTCACATGTTCTGACCATGGCATGTCACACACTCTAAATGCTGCCG
66 ACATTACCACCA-TGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCG
* * * *
11159691 TCTCACACCCGTCTCACATATTCTCACCTTGCCATCTCACACATTATCACCCTGTCGTGTCACAG
130 TCTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAG
*
11159756 ATTCCCTCCATGGC
195 ATTCCCTCCATGGA
* ** * ** * *
11159770 GTGTCACACACTCTAAACCCTATTGTGTCACACCTGTGTCACACATTATCACTGTGCCGTTTCAC
1 GTGTCACAAACTCTAAACCCTACCGTGTCACACCTGTGTAACACATTATCACCATGACGTATCAC
** * ** *
11159835 ACATTATGACCCTGCCATGTCACACGTTCTGACCATGGTGTGTCACACACTTTAAACGCTGCCGT
66 ACATTACCACCATGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCGT
* * *
11159900 GTCACACCCATCTCACATATTCTCACCATGCTATCTTACACATTATCACCCTGCCGTGTCAAAGA
131 CTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAGA
11159965 TTCCCTCCATGGA
196 TTCCCTCCATGGA
* * *
11159978 GTGTCACAAACTCTATACCCTGCCGTGTCACACTCAT-T-TAACATAGTT-TCACCATGACGTAT
1 GTGTCACAAACTCTAAACCCTACCGTGTCACAC-C-TGTGTAACACA-TTATCACCATGACGTAT
* *
11160040 CACACATTGCCACCATGCCGTGTCACA
63 CACACATTACCACCATGCCATGTCACA
11160067 AACTCTATAC
Statistics
Matches: 253, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
208 247 0.98
209 5 0.02
210 1 0.00
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (208 bp):
GTGTCACAAACTCTAAACCCTACCGTGTCACACCTGTGTAACACATTATCACCATGACGTATCAC
ACATTACCACCATGCCATGTCACACGTTCTGACCATGGCATGTCACACACTCTAAACGCTGCCGT
CTCACACCCATCTCACATATTCTCACCATGCCATCTCACACATTATCACCCTGCCGTGTCAAAGA
TTCCCTCCATGGA
Found at i:11160066 original size:393 final size:393
Alignment explanation
Indices: 11159265--11160154 Score: 945
Period size: 393 Copynumber: 2.3 Consensus size: 393
11159255 ACACGTTCTG
* * * * *
11159265 ACCATGACATGTCACACACTCTAAACGTTGCCGTGTCACACTCGTCCCACATATTCTCACCGTAC
1 ACCATGACATGTCACACACTCTAAACGCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGC
* * *
11159330 CGTCTCCCACATTTTCACCTTGGT-GTGCCACAGATTCCCTCCATGGCATGTCACACACTCTAAA
66 CGTCTCACACATTATCACCAT-GTCGTGCCACAGATTCCCTCCATGGCATGTCACACACTCTAAA
* * *
11159394 CCCTGCCATGTCACACTCGTGTCATACATTATCACTGTATCGTTTCACACATTATGACCCTGCCA
130 CCCTACCATGTCACACTCGTGTCACACATTATCACTGTACCGTTTCACACATTATGACCCTGCCA
* * * **
11159459 TGTCACACGTTTTGACCATGGCGTGTCAGACACTCTAAACGTTGCCATGTCACACCTGTCTCACA
195 TGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCATGTCACACCCATCTCACA
* * * * ** *
11159524 TATTCTCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACACACTCTAAACCCTATCGTT
260 TATTCTCACCATGTCATCTCACACATTATCACCCTGCCGTGTCAAACACTCTAAACCATAGAGTG
** * * * * * **
11159589 TCACACCCATGTCATACATTATCACTATGTCATTTCACACATTATGACACTGTTATGTCACATGT
325 TCACACCCATACCATACAGTATCACTATCTCATTTAACACATTATCACACTGGTATCACACATGT
* *
11159654 TCTG
390 GCTC
* * * *
11159658 ACCATGGCATGTCACACACTCTAAATGCTGCCGTCTCACACCCGTCTCACATATTCTCACCTTGC
1 ACCATGACATGTCACACACTCTAAACGCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGC
* * * *
11159723 CATCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACACACTCTAAAC
66 CGTCTCACACATTATCACCATGTCGTGCCACAGATTCCCTCCATGGCATGTCACACACTCTAAAC
*** *
11159788 CCTATTGTGTCACAC-CTGTGTCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCA
131 CCTACCATGTCACACTC-GTGTCACACATTATCACTGTACCGTTTCACACATTATGACCCTGCCA
* * *
11159852 TGTCACACGTTCTGACCATGGTGTGTCACACACTTTAAACGCTGCCGTGTCACACCCATCTCACA
195 TGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCATGTCACACCCATCTCACA
* * * *** *
11159917 TATTCTCACCATG-CTATCTTACACATTATCACCCTGCCGTGTCAAAGATTC-CCTCCATGGAGT
260 TATTCTCACCATGTC-ATCTCACACATTATCACCCTGCCGTGTCAAACACTCTAAACCATAGAGT
* * * * * *
11159980 GTCACAAACTCTATACCCTGCCGTGTCAC-A-CTCATTTAACATAGTT-TCAC-CATGACGTATC
324 GTCAC--AC-CCATACCATACAGTATCACTATCTCATTTAACACA-TTATCACAC-TG--GTATC
11160041 ACACAT-TGC-C
382 ACACATGTGCTC
* * * * * * * * *
11160051 ACCATGCCGTGTCACAAACTCTATACCCTGCTGTGTAACACCCATGTCACATATTCTCACCATGC
1 ACCATGACATGTCACACACTCTAAACGCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGC
* ** *
11160116 CGTGTCACACATTCCCACCATGTCGTGCCACACATTCCC
66 CGTCTCACACATTATCACCATGTCGTGCCACAGATTCCC
11160155 ACTATTCCGT
Statistics
Matches: 408, Mismatches: 79, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
392 14 0.03
393 368 0.90
394 7 0.02
395 19 0.05
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (393 bp):
ACCATGACATGTCACACACTCTAAACGCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGC
CGTCTCACACATTATCACCATGTCGTGCCACAGATTCCCTCCATGGCATGTCACACACTCTAAAC
CCTACCATGTCACACTCGTGTCACACATTATCACTGTACCGTTTCACACATTATGACCCTGCCAT
GTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCATGTCACACCCATCTCACAT
ATTCTCACCATGTCATCTCACACATTATCACCCTGCCGTGTCAAACACTCTAAACCATAGAGTGT
CACACCCATACCATACAGTATCACTATCTCATTTAACACATTATCACACTGGTATCACACATGTG
CTC
Found at i:11160080 original size:81 final size:81
Alignment explanation
Indices: 11159964--11160147 Score: 235
Period size: 81 Copynumber: 2.3 Consensus size: 81
11159954 CGTGTCAAAG
* ** * * *
11159964 ATTCCCTCCATGGAGTGTCACAAACTCTATACCCTGCCGTGTCACACTCATTTAACATAGTT-TC
1 ATTCCCACCATGCCGTGTCACAAACTCTATACCCTGCCGTGTAACACCCATGTAACATA-TTCTC
11160028 ACCATGACGTATCACAC
65 ACCATGACGTATCACAC
* * *
11160045 ATTGCCACCATGCCGTGTCACAAACTCTATACCCTGCTGTGTAACACCCATGTCACATATTCTCA
1 ATTCCCACCATGCCGTGTCACAAACTCTATACCCTGCCGTGTAACACCCATGTAACATATTCTCA
* *
11160110 CCATGCCGTGTCACAC
66 CCATGACGTATCACAC
* *
11160126 ATTCCCACCATGTCGTGCCACA
1 ATTCCCACCATGCCGTGTCACA
11160148 CATTCCCACT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.02
81 86 0.98
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.27
Consensus pattern (81 bp):
ATTCCCACCATGCCGTGTCACAAACTCTATACCCTGCCGTGTAACACCCATGTAACATATTCTCA
CCATGACGTATCACAC
Found at i:11160129 original size:23 final size:23
Alignment explanation
Indices: 11160095--11160170 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
11160085 GTAACACCCA
* *
11160095 TGTCACATATTCTCACCATGCCG
1 TGTCACACATTCCCACCATGCCG
*
11160118 TGTCACACATTCCCACCATGTCG
1 TGTCACACATTCCCACCATGCCG
* * *
11160141 TGCCACACATTCCCACTATTCCG
1 TGTCACACATTCCCACCATGCCG
*
11160164 TTTCACA
1 TGTCACA
11160171 AACTCTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.38, G:0.11, T:0.29
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGCCG
Found at i:11173674 original size:38 final size:39
Alignment explanation
Indices: 11173623--11173725 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 39
11173613 ATATTGCCCG
* *
11173623 TGTGCACGATGTGGGGGGATGTACACGACGGCAT-TAG-A
1 TGTGCACGATGTGGGGGGATGCACACGACGAC-TCTAGTA
*
11173661 TGTGCACGATGTGGGGGGATGCACACGATGACTCTAGTTA
1 TGTGCACGATGTGGGGGGATGCACACGACGACTCTAG-TA
11173701 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
11173726 TGAGCTGGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
37 1 0.02
38 32 0.54
40 26 0.44
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACGACGACTCTAGTA
Found at i:11176970 original size:43 final size:43
Alignment explanation
Indices: 11176909--11177006 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
11176899 GGCTATGTGC
* * **
11176909 GAGTAGGGAGTGCACATAAGCCGAG-GATGACCCGGTTATCTGT
1 GAGTAGGGAGTGCACATAACCCG-GTGATGACCCAGCCATCTGT
* *
11176952 GAGTAGGGAGTGCACATAACCCGGTGATGATCCAGCCATGTGT
1 GAGTAGGGAGTGCACATAACCCGGTGATGACCCAGCCATCTGT
11176995 GAGTAGGGAGTG
1 GAGTAGGGAGTG
11177007 TGCATGAGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.26, C:0.17, G:0.37, T:0.20
Consensus pattern (43 bp):
GAGTAGGGAGTGCACATAACCCGGTGATGACCCAGCCATCTGT
Found at i:11183503 original size:20 final size:21
Alignment explanation
Indices: 11183465--11183503 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11183455 TTAAGTGAGA
*
11183465 TTTATTTAATTTTAGTTTTAG
1 TTTATTTAATTTTACTTTTAG
*
11183486 TTTA-TTAATTTTTCTTTT
1 TTTATTTAATTTTACTTTT
11183504 TTATTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTAATTTTACTTTTAG
Found at i:11185206 original size:42 final size:42
Alignment explanation
Indices: 11185148--11185279 Score: 221
Period size: 42 Copynumber: 3.1 Consensus size: 42
11185138 ACCATCCCAC
*
11185148 CATCATCAGCTCATGTGCACT-CCACACCACACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCACA-CGCACATAGTTGGGT
11185190 CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
* *
11185232 CATCATCAGCTCATGTGCATTCCCACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
11185274 CATCAT
1 CATCAT
11185280 TATCACATAA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 81 0.94
43 5 0.06
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACACGCACATAGTTGGGT
Found at i:11186310 original size:26 final size:26
Alignment explanation
Indices: 11186281--11186331 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11186271 ACTCAAGTTT
11186281 ATGAAAAATTAAAATTTTGACCCTAG
1 ATGAAAAATTAAAATTTTGACCCTAG
** *
11186307 ATGAAAAATTACCATTTTGCCCCTA
1 ATGAAAAATTAAAATTTTGACCCTA
11186332 CTTTGGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (26 bp):
ATGAAAAATTAAAATTTTGACCCTAG
Found at i:11202681 original size:268 final size:267
Alignment explanation
Indices: 11202185--11202720 Score: 777
Period size: 268 Copynumber: 2.0 Consensus size: 267
11202175 TCATTGAATC
* *
11202185 TTAAAACCAAACTTAAAATCATTAAAAAGAATATGTTTGCTCAAAAATGAGTTGAGAGGGTTTTA
1 TTAAAACCAAACTTAAAATCATTAAAAAGAATATGTTTGCTCAAAAATGAGTCGAGAGGATTTTA
* **
11202250 GATGAGGCTTACCATGTAAAAATGCAGCTGAAGGTTGCTAACCCTTGAAGAATGTGCCATATTCA
66 GAAGAGGCTTACCATGTAAAAAAACAGCTGAAGGTTGCTAACCCTTGAAGAATGTGCCATATTCA
* * **
11202315 TCATTTTAAATGAGAAAATACCATTTTGCCCTTTTTAATTTTCTTAAAACAACATTATCTATTGA
131 TCATTTTAAATGAGAAAATACCATTTTGCCCTTCTTAATGTTCTTAAAACAACATTATCTATCAA
* * * *
11202380 TAGATCGAGGGAATCTATCGATAAGTGAGCTCTAAAACCATTTTAATAACACTATCGAGTGTCTG
196 TAGATCGAGGGAATCTATCGATAAGTAAGCTCTAAAACCA-TTTAAAAACACTATCAAGTGTCTA
11202445 TCTATCGA
260 TCTATCGA
* * * *
11202453 TTAAAACCAATCTTACAATCATTAAAAGGAATATTTTTGCTCAAAAATGAGTCGAGAGGATTTTA
1 TTAAAACCAAACTTAAAATCATTAAAAAGAATATGTTTGCTCAAAAATGAGTCGAGAGGATTTTA
*** * * * *
11202518 GAAGAGGCTTATTGTGTAAAAAAACGGCTTAAGGTTGTTAACCCTTGAAGAATGTGCCATGTTCA
66 GAAGAGGCTTACCATGTAAAAAAACAGCTGAAGGTTGCTAACCCTTGAAGAATGTGCCATATTCA
* *
11202583 TCTTTTTAAATGAGAAAATACCATTTTG-CCTTGCTTAATGTTCTTAAAACAACATTATTTATCA
131 TCATTTTAAATGAGAAAATACCATTTTGCCCTT-CTTAATGTTCTTAAAACAACATTATCTATCA
* * * *
11202647 ATAGATCGAGGGCATCTATTGATAGGTAAGCTCTAAAACCATTTAAAAACACTATCAAGTGTTTA
195 ATAGATCGAGGGAATCTATCGATAAGTAAGCTCTAAAACCATTTAAAAACACTATCAAGTGTCTA
11202712 TCTATCGA
260 TCTATCGA
11202720 T
1 T
11202721 GGATGCCATA
Statistics
Matches: 237, Mismatches: 30, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
267 33 0.14
268 204 0.86
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (267 bp):
TTAAAACCAAACTTAAAATCATTAAAAAGAATATGTTTGCTCAAAAATGAGTCGAGAGGATTTTA
GAAGAGGCTTACCATGTAAAAAAACAGCTGAAGGTTGCTAACCCTTGAAGAATGTGCCATATTCA
TCATTTTAAATGAGAAAATACCATTTTGCCCTTCTTAATGTTCTTAAAACAACATTATCTATCAA
TAGATCGAGGGAATCTATCGATAAGTAAGCTCTAAAACCATTTAAAAACACTATCAAGTGTCTAT
CTATCGA
Found at i:11205163 original size:73 final size:72
Alignment explanation
Indices: 11205063--11205231 Score: 193
Period size: 72 Copynumber: 2.3 Consensus size: 72
11205053 GCTAACTTTC
* ** *
11205063 TTCTTGGTCGACTAAGTTGGTTTTGTCTTCTGGTCATAGATTCTGGCAAAG-AGCATTC-AGTCG
1 TTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTC-CAGATTCTGG--AAGTAGC-TTCTAGTCG
11205126 ACTAACTCA-A
62 ACTAACTCACA
* * *
11205136 TTCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTGGTAGTAGCTTCTTAGTCGACT
1 TTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAGATTCTGGAAGTAGCTTC-TAGTCGACT
11205201 AACTCACA
65 AACTCACA
*
11205209 -TCTTAGTCGACTAAGTTGGTTCT
1 TTCTTGGTCGACTAAGTTGGTTCT
11205232 ATTTCTCAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
70 5 0.06
71 3 0.04
72 44 0.52
73 32 0.38
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (72 bp):
TTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAGATTCTGGAAGTAGCTTCTAGTCGACTA
ACTCACA
Found at i:11207069 original size:24 final size:23
Alignment explanation
Indices: 11207029--11207074 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
11207019 AAATGAAAGT
* *
11207029 AAGAAGGCTTGTTTGGGCCTAGC
1 AAGAAGGCTCGTCTGGGCCTAGC
*
11207052 AAGATAGGCTCGTCTGGGTCTAG
1 AAGA-AGGCTCGTCTGGGCCTAG
11207075 GTGCCTATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (23 bp):
AAGAAGGCTCGTCTGGGCCTAGC
Found at i:11231894 original size:18 final size:18
Alignment explanation
Indices: 11231854--11231911 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
11231844 TATATTTTTA
* *
11231854 ATATTTATAAGTTTATATT
1 ATATATATATGTTTAT-TT
11231873 ATATCATATAT-TTTATTT
1 ATAT-ATATATGTTTATTT
*
11231891 ATATATATATGTTTATAT
1 ATATATATATGTTTATTT
11231909 ATA
1 ATA
11231912 CCTATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 6 0.18
18 15 0.44
19 9 0.26
20 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATATATATGTTTATTT
Found at i:11231917 original size:18 final size:18
Alignment explanation
Indices: 11231859--11231918 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
11231849 TTTTAATATT
*
11231859 TATAAGTTTATATTATATCA
1 TATATGTTTATA-TATA-CA
* *
11231879 TATAT-TTTATTTATATA
1 TATATGTTTATATATACA
*
11231896 TATATGTTTATATATACC
1 TATATGTTTATATATACA
11231914 TATAT
1 TATAT
11231919 AAACTTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 6 0.18
18 18 0.55
19 5 0.15
20 4 0.12
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (18 bp):
TATATGTTTATATATACA
Found at i:11233085 original size:62 final size:62
Alignment explanation
Indices: 11232983--11233115 Score: 203
Period size: 62 Copynumber: 2.1 Consensus size: 62
11232973 AGTTGAGAGT
* * *
11232983 TTCTTGCTGCAACGAGTTTTCTATTGCCAAAACAGAATGTTTCCCACTGCAGCGAGAAAGCA
1 TTCTCGCTGCAACGAGTTTTCTACTGCCAAAACAGAATGTTTCCCACTACAGCGAGAAAGCA
* * * *
11233045 TTCTCGCTGCAGCGAGTTTTCTACTGCCAAAACAGAATGTTTCTCACTACAGCGAGAATGCT
1 TTCTCGCTGCAACGAGTTTTCTACTGCCAAAACAGAATGTTTCCCACTACAGCGAGAAAGCA
11233107 TTCTCGCTG
1 TTCTCGCTG
11233116 TAGTGAGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (62 bp):
TTCTCGCTGCAACGAGTTTTCTACTGCCAAAACAGAATGTTTCCCACTACAGCGAGAAAGCA
Found at i:11233393 original size:43 final size:43
Alignment explanation
Indices: 11233346--11233468 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
11233336 CACCATCCCA
* * * * * *
11233346 TCATCATCAGCTCATGCGCACACCCTACTCACACAT-GCTTGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAAC-CGGG
* *
11233389 TCATCATCGGGTTATGCGAACTCCCTACTCGCACATAACCGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
11233432 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATA
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATA
11233469 GTCGAGTCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 68 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.24
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:11233513 original size:2 final size:2
Alignment explanation
Indices: 11233506--11233530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11233496 AATTCATACG
11233506 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11233531 CAACATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11237434 original size:19 final size:19
Alignment explanation
Indices: 11237406--11237444 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11237396 AGAAGAAGAC
11237406 AAGCTATTGGAAATTCAAG
1 AAGCTATTGGAAATTCAAG
*
11237425 AAGCTGTTGGAAATTCAAG
1 AAGCTATTGGAAATTCAAG
11237444 A
1 A
11237445 TATTTATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (19 bp):
AAGCTATTGGAAATTCAAG
Found at i:11240841 original size:43 final size:43
Alignment explanation
Indices: 11240806--11240924 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
11240796 TCATCAACTC
* * *
11240806 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCATCGGCTT
* * * * *
11240849 ATGCACACTCCTTACTCACACATAACCGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCATCGGCTT
* *
11240892 ATGCGCACTCCCTACTTGCACATAGCTGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCA
11240925 ATATCATTAC
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCATCGGCTT
Found at i:11240959 original size:2 final size:2
Alignment explanation
Indices: 11240949--11240985 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11240939 CAATATATTC
*
11240949 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11240986 CACATAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11241197 original size:124 final size:123
Alignment explanation
Indices: 11240975--11241223 Score: 473
Period size: 124 Copynumber: 2.0 Consensus size: 123
11240965 ATATATATAT
11240975 ATATATATATACACATAATGTAGCAGTATATGAATCCATAATAGCCACATATCATAACACAAAGA
1 ATATATATATACACATAATGTAGCAGTATATGAATCCATAATAGCCACATATCATAACACAAAGA
11241040 TAATTTATCAAGGGCTTGTTCGCAAGGCACCCATTTTTAAGAAAAGTTTGATAAAATC
66 TAATTTATCAAGGGCTTGTTCGCAAGGCACCCATTTTTAAGAAAAGTTTGATAAAATC
11241098 ATNATATATAT-CAACATAATGTAGCAGTATATGAATCCATAATAGCCACATATCATAACACAAA
1 AT-ATATATATAC-ACATAATGTAGCAGTATATGAATCCATAATAGCCACATATCATAACACAAA
11241162 GATAATTTATCAAGGGCTTGTTCGCAAGGCACCCATTTTTAAGAAAAGTTTGATAAAATC
64 GATAATTTATCAAGGGCTTGTTCGCAAGGCACCCATTTTTAAGAAAAGTTTGATAAAATC
11241222 AT
1 AT
11241224 TTAATGTCTT
Statistics
Matches: 124, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
123 3 0.02
124 121 0.98
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (123 bp):
ATATATATATACACATAATGTAGCAGTATATGAATCCATAATAGCCACATATCATAACACAAAGA
TAATTTATCAAGGGCTTGTTCGCAAGGCACCCATTTTTAAGAAAAGTTTGATAAAATC
Found at i:11243803 original size:2 final size:2
Alignment explanation
Indices: 11243798--11243881 Score: 159
Period size: 2 Copynumber: 41.5 Consensus size: 2
11243788 ACATATTTAC
11243798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
11243841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11243882 AACACATATA
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 79 0.98
3 2 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11244070 original size:43 final size:43
Alignment explanation
Indices: 11244022--11244126 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 43
11244012 CGTATCTTCN
** *
11244022 CACTCCCTACTCGCACATGGCTGGGTCATCAC-CAAG-TTATGCG
1 CACTCCCTACTCGCACATAACCGGGTCATC-CTC-AGCTTATGCG
*
11244065 CACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCG
1 CACTCCCTACTCGCACATAACCGGGTCATCCTCAGCTTATGCG
11244108 CACTCCCTACTCGCACATA
1 CACTCCCTACTCGCACATA
11244127 GTCGAGTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.04
43 54 0.96
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (43 bp):
CACTCCCTACTCGCACATAACCGGGTCATCCTCAGCTTATGCG
Found at i:11251847 original size:2 final size:2
Alignment explanation
Indices: 11251803--11251839 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11251793 ACATATTTAC
*
11251803 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11251840 CGTATATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11251898 original size:20 final size:20
Alignment explanation
Indices: 11251850--11251918 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
11251840 CGTATATACC
* * *
11251850 CATCATCATCATCTCCCAACC
1 CATCATCATCATC-ACCAGCT
*
11251871 CTTCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
11251891 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
*
11251911 CATGATCA
1 CATCATCA
11251919 CTCCCTACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 30 0.71
21 12 0.29
ACGTcount: A:0.29, C:0.41, G:0.04, T:0.26
Consensus pattern (20 bp):
CATCATCATCATCACCAGCT
Found at i:11251986 original size:43 final size:43
Alignment explanation
Indices: 11251917--11252014 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
11251907 AGCTCATGAT
** * *
11251917 CACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTTATGCG
1 CACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTTATGCG
* *
11251960 CACTCCCTACTTGCACATAACCGGGTCATCCTTGGCTTATGCG
1 CACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCG
11252003 CACTCCCTACTC
1 CACTCCCTACTC
11252015 ACACGTAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.17, C:0.38, G:0.19, T:0.26
Consensus pattern (43 bp):
CACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCG
Found at i:11253146 original size:590 final size:589
Alignment explanation
Indices: 11252026--11253190 Score: 1993
Period size: 590 Copynumber: 2.0 Consensus size: 589
11252016 CACGTAGCCA
*
11252026 AGTCAACATAATTACACAACATTATATTCAAGCATATATGTATATCAATATAAAGCAGCCACATA
1 AGTCAACATAATTACACAACATTATATTCAAGCATATATGTATATCAACATAAAGCAGCCACATA
11252091 GAAATCCATAATAACCACATTTCATAACATAAACCTTTTCTCAAAAGCTTGTTCCCAAGGCATTC
66 GAAATCCATAATAACCACATTTCATAACATAAACCTTTTCTCAAAAGCTTGTTCCCAAGGCATTC
*
11252156 ATTTTCATGAAAAATTGCATAAAATCATTCAAACACTTTGTTCAAAACAATTATATTCCCAAAAC
131 ATTTTCATGAAAAATTGCATAAAATCATTCAAACACTTTGTTCAAAACAATCATATTCCCAAAAC
*
11252221 AATTTTGATAGGCAGTCCACTCACAAGTGTCGAAAATCTGGATTCGGGTGAACTCAGACTAATAG
196 AATTTTGATAGGCAGTCCACTCACAAGTGTCGAAAATCTAGATTCGGGTGAACTCAGACTAATAG
* *
11252286 TCCTCAAGCGCAATTCATTTGCCTTTTTCGAACGTCTCACCACCTTGACAAATAACAAAGTCGAA
261 TCCTCAAGCGCAATTCATTTGCCTCTTCCGAACGTCTCACCACCTTGACAAATAACAAAGTCGAA
*
11252351 GAATTTACTATATTGTCCCTAAATTGATATAAATTAATTTAAATTACTAATGCTTGATATGTAAA
326 GAATTTACTATATTGTCCCTAAATTGATATAAATTAATTTAAA-TACT-ATGCTTCATATGTAAA
*
11252416 TGCAAAAATATGTCCGATAATCGCTTAATCACGGTATCGATTAAATTCGACCGATCACCCGATTA
389 TGCAAAAATACGTCCGATAATCGCTTAATCACGGTATCGATTAAATTCGACCGATCACCCGATTA
*
11252481 ATCGGTGATTGTGTCCAAATCACCTTCAAATTAATTCATTTCTCCTCTAATACCTTAATTTACCA
454 ATCGGCGATTGTGTCCAAATCACCTTCAAATTAATTCATTTCTCCTCTAATACCTTAATTTACCA
*
11252546 CATACATTTAAATAAAGCCAAATTCAGCATTAGAACCCTCACAGTTTCTTATAGANTACTCGCAC
519 CATACATTTAAATAAAGCCAAATTCAGCATTAGAACCCTCACAGTTCCTTATAGA-TACTCGCAC
11252611 ATAGTCG
583 ATAGTCG
*
11252618 AGTCAACATAATTACACAACATTATATTCAAGCATATATGTATATCAACATAATGCAGCCACATA
1 AGTCAACATAATTACACAACATTATATTCAAGCATATATGTATATCAACATAAAGCAGCCACATA
**
11252683 GAAATCCATAATAACCACATTTCATAACATAAATTTTTTTCTCAAAAGCTTGTTCCCAAGGCATT
66 GAAATCCATAATAACCACATTTCATAACATAAA-CCTTTTCTCAAAAGCTTGTTCCCAAGGCATT
* *
11252748 CATTTTCATGAAAATAATTTCATAAAATCATTCAAACACTTTGTTCAAAACAGTCATATTCCCAA
130 CATTTTCATG-AAA-AATTGCATAAAATCATTCAAACACTTTGTTCAAAACAATCATATTCCCAA
* *
11252813 AACAATTTTGATAGGCAGTCCACTCACAGGTGTCGAAAAT-TCAGATTTCGGGTGAACTCGGACT
193 AACAATTTTGATAGGCAGTCCACTCACAAGTGTCGAAAATCT-AGA-TTCGGGTGAACTCAGACT
* * * *
11252877 AATAGTTCTCAAGCGCAATTCCTTTGCCTCTTCCGGATGTCTCACCACCTTGACAAATAACAAAG
256 AATAGTCCTCAAGCGCAATTCATTTGCCTCTTCCGAACGTCTCACCACCTTGACAAATAACAAAG
*
11252942 TCGAGGAATTTACTATATTGTCCCTAAATTGATATAAATTAATTT-AA-A-T-TGCTTCATATGT
321 TCGAAGAATTTACTATATTGTCCCTAAATTGATATAAATTAATTTAAATACTATGCTTCATATGT
*
11253003 AAATGCAAAAATACGTCCGATTA-CTGCTTAATCACGGTATCGATTAAATTCGACCGATCACCCG
386 AAATGCAAAAATACGTCCGATAATC-GCTTAATCACGGTATCGATTAAATTCGACCGATCACCCG
11253067 ATTAATCGGCGATTGTGTCCAAATCACC-TCTAAATTAATTCATTTCTCCTCTAATACCTTAATT
450 ATTAATCGGCGATTGTGTCCAAATCACCTTC-AAATTAATTCATTTCTCCTCTAATACCTTAATT
11253131 TACCACATACATTTAAATAAAGCCAAATTCAGCATTAGAACCCTCACAGTTCCTTATAGA
514 TACCACATACATTTAAATAAAGCCAAATTCAGCATTAGAACCCTCACAGTTCCTTATAGA
11253191 AAAATTTGGT
Statistics
Matches: 544, Mismatches: 22, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
589 3 0.01
590 190 0.35
592 97 0.18
593 40 0.07
594 4 0.01
595 90 0.17
596 120 0.22
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (589 bp):
AGTCAACATAATTACACAACATTATATTCAAGCATATATGTATATCAACATAAAGCAGCCACATA
GAAATCCATAATAACCACATTTCATAACATAAACCTTTTCTCAAAAGCTTGTTCCCAAGGCATTC
ATTTTCATGAAAAATTGCATAAAATCATTCAAACACTTTGTTCAAAACAATCATATTCCCAAAAC
AATTTTGATAGGCAGTCCACTCACAAGTGTCGAAAATCTAGATTCGGGTGAACTCAGACTAATAG
TCCTCAAGCGCAATTCATTTGCCTCTTCCGAACGTCTCACCACCTTGACAAATAACAAAGTCGAA
GAATTTACTATATTGTCCCTAAATTGATATAAATTAATTTAAATACTATGCTTCATATGTAAATG
CAAAAATACGTCCGATAATCGCTTAATCACGGTATCGATTAAATTCGACCGATCACCCGATTAAT
CGGCGATTGTGTCCAAATCACCTTCAAATTAATTCATTTCTCCTCTAATACCTTAATTTACCACA
TACATTTAAATAAAGCCAAATTCAGCATTAGAACCCTCACAGTTCCTTATAGATACTCGCACATA
GTCG
Found at i:11253909 original size:26 final size:28
Alignment explanation
Indices: 11253865--11253917 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
11253855 ACAAGTGCTG
*
11253865 GGACGAAAAATTTACCGA-TTTGCCCCC
1 GGACGAAAAAATTACCGATTTTGCCCCC
11253892 GGACGAAAAAATTA-CGATTTTGCCCC
1 GGACGAAAAAATTACCGATTTTGCCCC
11253918 TATACTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (28 bp):
GGACGAAAAAATTACCGATTTTGCCCCC
Found at i:11255353 original size:21 final size:21
Alignment explanation
Indices: 11255276--11255364 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
11255266 TTGACTTTGA
* * *
11255276 ATGATGGCATCAGTTTTTACC
1 ATGAAGGCATCAGTCTTTGCC
** * **
11255297 ATGAAGATATCATTCTTTATC
1 ATGAAGGCATCAGTCTTTGCC
11255318 ATGAAGGCATCAGTCTTTGCC
1 ATGAAGGCATCAGTCTTTGCC
* *
11255339 ATGAAGGCATTAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGCC
11255360 ATGAA
1 ATGAA
11255365 TTGCATGAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGCC
Found at i:11255356 original size:42 final size:42
Alignment explanation
Indices: 11255276--11255364 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
11255266 TTGACTTTGA
* * * *
11255276 ATGATGGCATCAGTTTTTACCATGAAGATATCATTCTTTATC
1 ATGAAGGCATCAGTCTTTACCATGAAGACATCAGTCTTTATC
* * * *
11255318 ATGAAGGCATCAGTCTTTGCCATGAAGGCATTAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTACCATGAAGACATCAGTCTTTATC
11255360 ATGAA
1 ATGAA
11255365 TTGCATGAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (42 bp):
ATGAAGGCATCAGTCTTTACCATGAAGACATCAGTCTTTATC
Found at i:11256921 original size:2 final size:2
Alignment explanation
Indices: 11256914--11256944 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11256904 TTGAATATTG
11256914 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11256945 TAACTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11258073 original size:20 final size:22
Alignment explanation
Indices: 11258029--11258073 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11258019 ATAAATTAAT
*
11258029 CAATAATAACATATCTTAGGCA
1 CAATAATAACATATCTTAAGCA
*
11258051 CAATAATACCA-AT-TTAAGCA
1 CAATAATAACATATCTTAAGCA
11258071 CAA
1 CAA
11258074 AATTAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (22 bp):
CAATAATAACATATCTTAAGCA
Found at i:11264883 original size:17 final size:18
Alignment explanation
Indices: 11264849--11264884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11264839 GACACTTTCG
*
11264849 GATATGAGGTTGGATGAT
1 GATATGAAGTTGGATGAT
11264867 GATATGAAGTT-GATGAT
1 GATATGAAGTTGGATGAT
11264884 G
1 G
11264885 GCCACAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (18 bp):
GATATGAAGTTGGATGAT
Found at i:11274183 original size:53 final size:51
Alignment explanation
Indices: 11274056--11274196 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 51
11274046 ACAAGTGTAC
* * * * * * *
11274056 ATAAGTAAACATCTTAAAATTATACTTTGGTCATAATCATCACAAGTATGT
1 ATAAGTAAACATCTTACAATTATACTATGATAATAATAATCACAAATATAT
*
11274107 ATAAGTAGACATCTTACAATTATACTATGATAATAATAATCACAAATATAT
1 ATAAGTAAACATCTTACAATTATACTATGATAATAATAATCACAAATATAT
* *
11274158 ATACAAGTAAACATCTTACAATTATACCATGACAATAAT
1 AT--AAGTAAACATCTTACAATTATACTATGATAATAAT
11274197 GCCTTCCATT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 45 0.58
53 32 0.42
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (51 bp):
ATAAGTAAACATCTTACAATTATACTATGATAATAATAATCACAAATATAT
Found at i:11284997 original size:2 final size:2
Alignment explanation
Indices: 11284992--11285020 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11284982 AAGTAGTGTG
11284992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11285021 GTACATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11286649 original size:28 final size:29
Alignment explanation
Indices: 11286608--11286667 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11286598 GTCTATGGGC
*
11286608 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11286636 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11286666 AA
1 AA
11286668 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11294988 original size:29 final size:29
Alignment explanation
Indices: 11294914--11294990 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 29
11294904 GCTCAATTTA
*
11294914 TTATTTATCTTC-TTTAATTTTATTTCTAAC
1 TTATTTATTTTCATTT--TTTTATTTCTAAC
* *
11294944 TTATTTCTTTTGATTTTTTTA-TTCTAA-
1 TTATTTATTTTCATTTTTTTATTTCTAAC
11294971 TTAATTTATGTTTCATTTTT
1 TT-ATTTAT-TTTCATTTTT
11294991 GCAGGTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.05
28 11 0.28
29 14 0.36
30 9 0.23
31 3 0.08
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.68
Consensus pattern (29 bp):
TTATTTATTTTCATTTTTTTATTTCTAAC
Found at i:11298522 original size:13 final size:13
Alignment explanation
Indices: 11298504--11298528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11298494 AGCAGAGAGC
11298504 ACTTAGTCGACTG
1 ACTTAGTCGACTG
11298517 ACTTAGTCGACT
1 ACTTAGTCGACT
11298529 AAGTTGGTTC
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:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
ACTTAGTCGACTG
Found at i:11300077 original size:2 final size:2
Alignment explanation
Indices: 11300064--11300102 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
11300054 TATTGGTGGT
*
11300064 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11300103 TATTAGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11304593 original size:23 final size:23
Alignment explanation
Indices: 11304563--11304618 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
11304553 CAAAAATTTG
11304563 CCATGTGTCACCATTCCATTGGT
1 CCATGTGTCACCATTCCATTGGT
* *
11304586 CCATGTGTCACTATTCCATTTGT
1 CCATGTGTCACCATTCCATTGGT
11304609 CCATGTGTCA
1 CCATGTGTCA
11304619 TACTTACCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.38
Consensus pattern (23 bp):
CCATGTGTCACCATTCCATTGGT
Found at i:11308059 original size:43 final size:42
Alignment explanation
Indices: 11308012--11308167 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
11308002 CAGCTCATGT
* *
11308012 GCACTCCATACTCGCACATAGCTGGGTCAGCAGCGGCTTATGC
1 GCACTCC-TACTCGCACATAGCCGGGTCAGCATCGGCTTATGC
* * * *
11308055 GCACTCCCTACTCGCACATAGCCGGGTCAACATCGACTGATGA
1 GCACT-CCTACTCGCACATAGCCGGGTCAGCATCGGCTTATGC
* * * *
11308098 GTACTCCCACTCGCACATAGCCGGGTTAGTATCGGCTTATGC
1 GCACTCCTACTCGCACATAGCCGGGTCAGCATCGGCTTATGC
11308140 GCACTCCTACTCGCACATAGCCGGGTCA
1 GCACTCCTACTCGCACATAGCCGGGTCA
11308168 ATATCATCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 55 0.58
43 38 0.40
44 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.21
Consensus pattern (42 bp):
GCACTCCTACTCGCACATAGCCGGGTCAGCATCGGCTTATGC
Found at i:11308889 original size:23 final size:23
Alignment explanation
Indices: 11308858--11308914 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
11308848 TGAGAAAGTG
*
11308858 AAAGAGCACAAGGGTTTTAGTCA
1 AAAGGGCACAAGGGTTTTAGTCA
11308881 AAAGGGCACAAGGGTTTTAGTCA
1 AAAGGGCACAAGGGTTTTAGTCA
11308904 AAAGGGCACAA
1 AAAGGGCACAA
11308915 AGGTATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (23 bp):
AAAGGGCACAAGGGTTTTAGTCA
Found at i:11315090 original size:10 final size:11
Alignment explanation
Indices: 11315055--11315091 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
11315045 TGCCCACTTA
11315055 TTTTCTATTTC-
1 TTTTCT-TTTCT
11315066 TTTTCTTTTCT
1 TTTTCTTTTCT
11315077 TTTTC-TTTCT
1 TTTTCTTTTCT
11315087 TTTTC
1 TTTTC
11315092 CCTCTTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.56
11 11 0.44
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:11315091 original size:16 final size:16
Alignment explanation
Indices: 11315055--11315089 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11315045 TGCCCACTTA
11315055 TTTTCTATTTCTTTTC
1 TTTTCTATTTCTTTTC
*
11315071 TTTTCTTTTTC-TTTC
1 TTTTCTATTTCTTTTC
11315086 TTTT
1 TTTT
11315090 TCCCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATTTCTTTTC
Found at i:11315291 original size:24 final size:25
Alignment explanation
Indices: 11315259--11315305 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
11315249 CTCAAATTTC
11315259 CAGCAACAAAACT-TCTCAATTTTGG
1 CAGCAACAAAACTGTC-CAATTTTGG
*
11315284 CAGC-ACAAAGCTGTCCAATTTT
1 CAGCAACAAAACTGTCCAATTTT
11315306 CTTGTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (25 bp):
CAGCAACAAAACTGTCCAATTTTGG
Found at i:11319096 original size:43 final size:43
Alignment explanation
Indices: 11319036--11319204 Score: 189
Period size: 43 Copynumber: 4.0 Consensus size: 43
11319026 CTCCCATCAT
* * * **
11319036 CATCAGCTCATGTGCACTCCCTACTCACACATAGCTTGGTCAG
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGCCCGGTCAG
* * * *
11319079 CAGCAGCTTATGCGCACTCCCTACTCGCATATAGCCCGATCAA
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGCCCGGTCAG
* * * *
11319122 CATCGGCTGATGCGTACTCCCT-CTCGCACATAGCCGGGTCAG
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGCCCGGTCAG
* *
11319164 CATCGGCTTATGCGCACT-CCTACTCGCACATAGCCAGGTCA
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGCCCGGTCA
11319205 ATATCATCAT
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
41 3 0.03
42 50 0.48
43 52 0.50
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (43 bp):
CATCAGCTTATGCGCACTCCCTACTCGCACATAGCCCGGTCAG
Found at i:11319204 original size:42 final size:43
Alignment explanation
Indices: 11319049--11319204 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 43
11319039 CAGCTCATGT
* ** * *
11319049 GCACTCCCTACTCACACATAGCTTGGTCAGCAGCAGCTTATGC
1 GCACTCCCTACTCGCACATAGCCAGGTCAGCATCGGCTTATGC
* * * * *
11319092 GCACTCCCTACTCGCATATAGCCCGATCAACATCGGCTGATGC
1 GCACTCCCTACTCGCACATAGCCAGGTCAGCATCGGCTTATGC
* *
11319135 GTACTCCCT-CTCGCACATAGCCGGGTCAGCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAGCCAGGTCAGCATCGGCTTATGC
11319177 GCACT-CCTACTCGCACATAGCCAGGTCA
1 GCACTCCCTACTCGCACATAGCCAGGTCA
11319205 ATATCATCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
41 3 0.03
42 50 0.53
43 42 0.44
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAGCCAGGTCAGCATCGGCTTATGC
Found at i:11319254 original size:2 final size:2
Alignment explanation
Indices: 11319249--11319290 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11319239 CATATATTCG
11319249 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11319291 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.