Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 29 of 444
Found at i:7252036 original size:48 final size:46
Alignment explanation
Indices: 7251962--7252089 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 46
7251952 TAAACCCTTA
* * *
7251962 AACCCCTAAACCTTAAACCCCTAAAAAATCATAGACACTAGTCTATAT
1 AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATC--TAT
* * * *
7252010 AACCCCTAAACCCCTAAA-CCCAAAAAAACCCTAAACATTAATCTAT
1 AACCCCTAAA-CCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
*
7252056 AACCCCTAAACCTTAAATCCCAAAAAACATCATA
1 AACCCCTAAACCTTAAACCCCAAAAAA-ATCATA
7252090 TGGATGTTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
45 6 0.09
46 22 0.33
47 4 0.06
48 29 0.43
49 6 0.09
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.20
Consensus pattern (46 bp):
AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
Found at i:7252684 original size:19 final size:20
Alignment explanation
Indices: 7252637--7252684 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
7252627 ATATTAGATT
7252637 TAAA-AAAAACATTGATAAA
1 TAAATAAAAACATTGATAAA
7252656 TAAATAAAAACATTGAT-AA
1 TAAATAAAAACATTGATAAA
7252675 TAAATAAAAA
1 TAAATAAAAA
7252685 TAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAATAAAAACATTGATAAA
Found at i:7252687 original size:6 final size:6
Alignment explanation
Indices: 7252671--7252704 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
7252661 AAAAACATTG
7252671 ATAATAA ATAAAA ATAAAA TATAAAA ATAAAA AT
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT
7252705 GTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:7252694 original size:13 final size:13
Alignment explanation
Indices: 7252678--7252702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7252668 TTGATAATAA
7252678 ATAAAAATAAAAT
1 ATAAAAATAAAAT
7252691 ATAAAAATAAAA
1 ATAAAAATAAAA
7252703 ATGTATAAAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:7252714 original size:15 final size:14
Alignment explanation
Indices: 7252678--7252719 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
7252668 TTGATAATAA
7252678 ATAAAAAT-AAAAT
1 ATAAAAATAAAAAT
7252691 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
* *
7252705 GTATAAAATAGAAAT
1 ATA-AAAATAAAAAT
7252720 TAGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 7 0.28
15 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:7252937 original size:6 final size:6
Alignment explanation
Indices: 7252925--7252967 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
7252915 ACCCATACGA
* *
7252925 TCCCTT CCCCTT CCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
7252968 GGTTTTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCCTT
Found at i:7254630 original size:76 final size:75
Alignment explanation
Indices: 7254490--7254661 Score: 196
Period size: 76 Copynumber: 2.4 Consensus size: 75
7254480 CATGGAAAAG
* *** *
7254490 TGTGAAATGTAGGTAT--T-GTATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATC
*
7254550 CATACTGAGC
66 CATACCGAGC
7254560 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAAATGTAGGTATGGCATT-T
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAAATGTAGGTATGGCATTAT
*
7254624 CCCATACCGAGT
65 -CCATACCGAGC
**
7254636 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
7254662 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 16 0.19
72 1 0.01
73 4 0.05
75 19 0.22
76 46 0.53
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATC
CATACCGAGC
Found at i:7254649 original size:35 final size:36
Alignment explanation
Indices: 7254494--7254657 Score: 172
Period size: 35 Copynumber: 4.5 Consensus size: 36
7254484 GAAAAGTGTG
* * **
7254494 AAATGTAGGTATTGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTATTATCCCATACTGAGTTGAA
* **
7254529 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATTATCCCATACTGAGTTGAA
*
7254564 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAA
1 AAATGTAGGTATGGTATTATC----CCATACTGAGTT-GAA
* *
7254605 AAATGTAGGTATGGCATT-TCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTATCCCATACTGAGTTGAA
7254640 AAATGTAGGTATGGTATT
1 AAATGTAGGTATGGTATT
7254658 TCAATGAGGA
Statistics
Matches: 112, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
35 71 0.63
36 11 0.10
40 13 0.12
41 17 0.15
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (36 bp):
AAATGTAGGTATGGTATTATCCCATACTGAGTTGAA
Found at i:7259526 original size:43 final size:43
Alignment explanation
Indices: 7259457--7259558 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
7259447 TTTAAATTTA
*
7259457 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
7259500 ATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
7259543 ATGACTTTTAGTGGCG
1 ATGACTTTTAGCGGCG
7259559 ATTTTTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
Found at i:7264338 original size:25 final size:26
Alignment explanation
Indices: 7264301--7264353 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
7264291 TCAAACATGC
7264301 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
7264327 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
7264353 A
1 A
7264354 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:7265872 original size:26 final size:26
Alignment explanation
Indices: 7265836--7265945 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
7265826 CATGAAATTC
7265836 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7265862 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7265888 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
7265914 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7265940 TTATCA
1 TTATCA
7265946 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7267982 original size:40 final size:39
Alignment explanation
Indices: 7267906--7268000 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
7267896 CCATCTTCGA
* * * *
7267906 CCAACCCAACACACC-ATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAATATGGGGACAAAATCAACCCAC
* *
7267944 CCAACCCTACACACCAAGTATGGGGACATAATCAACCCAT
1 CCAACCCTACACACCAA-TATGGGGACAAAATCAACCCAC
*
7267984 CCAGCCCTACACACCAA
1 CCAACCCTACACACCAA
7268001 AAGGTACCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 14 0.29
39 1 0.02
40 33 0.69
ACGTcount: A:0.37, C:0.39, G:0.13, T:0.12
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGGGACAAAATCAACCCAC
Found at i:7268384 original size:17 final size:19
Alignment explanation
Indices: 7268349--7268389 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7268339 CGTATGCCCA
*
7268349 GCCCATGTGGGTCCACAC-
1 GCCCATGTGGGTACACACG
7268367 GCCCATGTGGG-ACACACG
1 GCCCATGTGGGTACACACG
7268385 GCCCA
1 GCCCA
7268390 AACTGCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (19 bp):
GCCCATGTGGGTACACACG
Found at i:7269717 original size:18 final size:18
Alignment explanation
Indices: 7269650--7269718 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
7269640 AATCGGTTAA
* *
7269650 TCAGTTACAATCATTTAT
1 TCAGTAACAATCAATTAT
* * * **
7269668 ACAGTATCAGTCGTTTAT
1 TCAGTAACAATCAATTAT
*
7269686 TCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
7269704 TCAGTAACAATCAAT
1 TCAGTAACAATCAAT
7269719 CTTTAATACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:7275462 original size:18 final size:18
Alignment explanation
Indices: 7275422--7275466 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7275412 TAAAACCCAG
* *
7275422 TATTCAGTATCATTCAAA
1 TATTCAGTAGCAGTCAAA
* *
7275440 CATTCAGTAGCAGTCCAA
1 TATTCAGTAGCAGTCAAA
7275458 TATTCAGTA
1 TATTCAGTA
7275467 ACAATTAGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (18 bp):
TATTCAGTAGCAGTCAAA
Found at i:7275658 original size:18 final size:18
Alignment explanation
Indices: 7275637--7275696 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
7275627 AATCGGTTAA
7275637 TCAGTAACAATCATTTAT
1 TCAGTAACAATCATTTAT
* * **
7275655 TCAGTATCAGTTGTTTAT
1 TCAGTAACAATCATTTAT
*
7275673 TCAGTAACAATCAATTAT
1 TCAGTAACAATCATTTAT
*
7275691 TTAGTA
1 TCAGTA
7275697 GCAGTCAGTC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (18 bp):
TCAGTAACAATCATTTAT
Found at i:7275837 original size:6 final size:6
Alignment explanation
Indices: 7275820--7275854 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7275810 TACACTGTAT
* *
7275820 CAGTAA CGGTAA CAGTAA CAGTAA TAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
7275855 GCGGTACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:7276507 original size:2 final size:2
Alignment explanation
Indices: 7276500--7276533 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7276490 TTATTTCCTT
7276500 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
7276534 CACTTAAATA
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:7277429 original size:14 final size:14
Alignment explanation
Indices: 7277407--7277436 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7277397 TACACTTATC
*
7277407 TGATCAGTGACAAG
1 TGATAAGTGACAAG
7277421 TGATAAGTGACAAG
1 TGATAAGTGACAAG
7277435 TG
1 TG
7277437 GTAGCTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.23
Consensus pattern (14 bp):
TGATAAGTGACAAG
Found at i:7278365 original size:46 final size:46
Alignment explanation
Indices: 7278304--7278668 Score: 475
Period size: 46 Copynumber: 7.9 Consensus size: 46
7278294 TTTGACATGA
* * * * * *
7278304 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
* * *
7278350 TGCCACGGTACCTTTCAACCATGGTCTTATTCACTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
*** *
7278396 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
* * *
7278442 TAG-CATGGTATCTTTCAACTATGGCCTTATCCATTTCATATCACGT
1 T-GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
* *
7278488 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCT-TCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATATCACGT
7278534 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
** *
7278580 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
**
7278626 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
7278669 GAGAGCACAC
Statistics
Matches: 281, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
45 6 0.02
46 272 0.97
47 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
Found at i:7278471 original size:92 final size:92
Alignment explanation
Indices: 7278304--7278668 Score: 525
Period size: 92 Copynumber: 4.0 Consensus size: 92
7278294 TTTGACATGA
* * * * * * *
7278304 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCACGGTACCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*
7278369 CATGGTCTTATTCACTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
*
7278396 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTAG-CATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTT-GCCATGGTATCTTTCAA
* * *
7278460 CTATGGCCTTATCCATTTCATATCACGT
65 CCATGGTCTTATTCATTTCATATCACGT
* *
7278488 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCTTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
7278553 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* *** *
7278580 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
**
7278645 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTATTCATTTCATATCA
7278669 GAGAGCACAC
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
91 1 0.00
92 245 0.99
93 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:7281154 original size:30 final size:30
Alignment explanation
Indices: 7281089--7281157 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
7281079 CCACCCTTAA
* * *
7281089 AATATTTTCACTATTAGTCCTTCAACTTTT
1 AATATTTACACTATTAATCCTTCAAATTTT
* *
7281119 CATATTTACACT-TTAATCTTTCAAATTTT
1 AATATTTACACTATTAATCCTTCAAATTTT
7281148 GAATATTTAC
1 -AATATTTAC
7281158 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.49
Consensus pattern (30 bp):
AATATTTACACTATTAATCCTTCAAATTTT
Found at i:7285697 original size:32 final size:32
Alignment explanation
Indices: 7285643--7285705 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
7285633 TTGAGAATTA
*
7285643 AATTTAAAATTAAAATTAAAATATATTTATAT
1 AATTTAAAATTAAAATTAAAATATAATTATAT
* *
7285675 AATTTAAAATT-AATTTCGAAATATAATTATA
1 AATTTAAAATTAAAATT-AAAATATAATTATA
7285706 CTCTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (32 bp):
AATTTAAAATTAAAATTAAAATATAATTATAT
Found at i:7285973 original size:2 final size:2
Alignment explanation
Indices: 7285966--7285997 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7285956 CAAAAACATA
*
7285966 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7285998 TTTGTTGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7286141 original size:15 final size:15
Alignment explanation
Indices: 7286121--7286151 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7286111 CGTAGATTCT
7286121 ATAAATTATAGTTTA
1 ATAAATTATAGTTTA
7286136 ATAAATTATAGTTTA
1 ATAAATTATAGTTTA
7286151 A
1 A
7286152 GTATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
ATAAATTATAGTTTA
Found at i:7286316 original size:19 final size:19
Alignment explanation
Indices: 7286279--7286316 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7286269 AATTTTTTCT
*
7286279 AAAAATCATTTGGTGATAA
1 AAAAATCATTTGATGATAA
7286298 AAAAATCATTATGAT-ATAA
1 AAAAATCATT-TGATGATAA
7286317 GGTATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAAATCATTTGATGATAA
Found at i:7287302 original size:17 final size:19
Alignment explanation
Indices: 7287267--7287303 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7287257 TTTAATTAGC
7287267 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
7287286 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
7287303 A
1 A
7287304 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:7289671 original size:27 final size:28
Alignment explanation
Indices: 7289619--7289671 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
7289609 TTACTGTAAG
* *
7289619 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
7289647 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
7289672 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:7291834 original size:17 final size:19
Alignment explanation
Indices: 7291799--7291835 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7291789 TTTAATTAGC
7291799 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
7291818 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
7291835 A
1 A
7291836 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:7291904 original size:3 final size:3
Alignment explanation
Indices: 7291898--7291930 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7291888 TTATAATAAA
7291898 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7291931 GTATGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7294198 original size:28 final size:27
Alignment explanation
Indices: 7294107--7294219 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 27
7294097 ACTTGTAATA
*
7294107 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATACTGATAT
** *
7294135 GGGCTAGGCCCAGTATACTCTGTTACTG-TAAG
1 GGGCTAGGCCCAG---A-T-TAATACTGAT-AT
7294167 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTA-GGCCCAGATTAATACTGATAT
* *
7294195 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCT-AGGCCCAGATTAATACTGAT
7294220 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 17 0.25
28 24 0.35
29 3 0.04
30 2 0.03
31 2 0.03
32 14 0.20
33 7 0.10
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATACTGATAT
Found at i:7296378 original size:17 final size:19
Alignment explanation
Indices: 7296343--7296379 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7296333 TTTAATTAGC
7296343 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
7296362 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
7296379 A
1 A
7296380 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:7297857 original size:458 final size:460
Alignment explanation
Indices: 7297000--7297920 Score: 1765
Period size: 458 Copynumber: 2.0 Consensus size: 460
7296990 CAGGAGAAGG
7297000 TATGCTTTAATGTTATATTTTTAAAATGAACGGGACTTCAGCAGGTAACCTTTAAGATAAAATGT
1 TATGCTTTAATGTTATATTTTTAAAATGAACGGGACTTCAGCAGGTAACCTTTAAGATAAAATGT
7297065 GACGGTATATTATTGAAAATAAATGCCCGTCCCAGTGGCCAGCAGCGTGCTGGGCAACCTAGAGG
66 GACGGTATATTATTGAAAATAAATGCCCGTCCCAGTGGCCAGCAGCGTGCTGGGCAACCTAGAGG
7297130 TCCCAGGTTCGATCAGCGCTATGCGCAAAAGAAGAGTTTCTTTTTACTGAACGCGCGTGGGAAGG
131 TCCCAGGTTCGATCAGCGCTATGCGCAAAAGAAGAGTTTCTTTTTACTGAACGCGCGTGGGAAGG
*
7297195 ACCGTATGGGATTGAAACGGTACCAGCTGCAGGAGGAGTCGGCTGAGTGGGGGACTGCTGCTCAG
196 ACCGTATGGGATTGAAACGGTACCAGCTGCAGGAGGAGTCGGCTGAGTGGGGGACTGCTGCACAG
*
7297260 TAGTGGGAGTTTGAATTAAATTCAAACTTTGATTTTGGCCATGAATTTAGGAGAAGGAAGGAATT
261 CAGTGGGAGTTTGAATTAAATTCAAACTTTGATTTTGGCCATGAATTTAGGAGAAGGAAGGAATT
7297325 AAAATTGGAAAAGGATTTTATTTTATTCTAATCTTATCTTATCTCCTTTTTTTTTTCTTTCTCAT
326 AAAATTGGAAAAGGATTTTATTTTATTCTAATCTTATCTTATCTCCTTTTTTTTTTCTTTCTCAT
7297390 ATTCTTTTCTATTTCTTCCCCCAAAGCTGAACAATTCTCTCATTTTTTTATTTTCTTT-C-TCTC
391 ATTCTTTTCTATTTCTTCCCCCAAAGCTGAACAATTCTCTCATTTTTTTATTTTCTTTCCTTCTC
*
7297453 TCTTA
456 TCATA
7297458 TATGCTTTAATGTTATATTTTTAAAATGAACGGGACTTCAGCAGGTAACCTTTAAGATAAAATGT
1 TATGCTTTAATGTTATATTTTTAAAATGAACGGGACTTCAGCAGGTAACCTTTAAGATAAAATGT
*
7297523 GACGGTATATTATTGAAAATAAATGCCCGTCCCAGTGGCCAGCAGCGTGCTGGGCAACCTTGAGG
66 GACGGTATATTATTGAAAATAAATGCCCGTCCCAGTGGCCAGCAGCGTGCTGGGCAACCTAGAGG
* *
7297588 TCCCAGGTTCGATCAGTGCTATGCGCAAAAGAAGAGTTTCTTTTTGCTGAACGCGCGTGGGAAGG
131 TCCCAGGTTCGATCAGCGCTATGCGCAAAAGAAGAGTTTCTTTTTACTGAACGCGCGTGGGAAGG
7297653 ACCGTATGGGATTGAAACGGTACCAGCTGCAGGAGGAGTCGGCTGAGTGGGGGACTGCTGCACAG
196 ACCGTATGGGATTGAAACGGTACCAGCTGCAGGAGGAGTCGGCTGAGTGGGGGACTGCTGCACAG
*
7297718 CAGTGGGAGTTTGAATTAAATTCAAACTTTGATTTTGGCTATGAATTTAGGAGAAGGAAGGAATT
261 CAGTGGGAGTTTGAATTAAATTCAAACTTTGATTTTGGCCATGAATTTAGGAGAAGGAAGGAATT
7297783 AAAATTGGAAAAGGATTTTATTTTATTCTAATCTTATCTTATCTCCTTTTTTTTTTCTTTCTCAT
326 AAAATTGGAAAAGGATTTTATTTTATTCTAATCTTATCTTATCTCCTTTTTTTTTTCTTTCTCAT
7297848 ATTCTTTTCTATTTCTTCCCCCAAAGCTGAACAATTCTCTCATTTTTTTATTTTCTTTCCTTCTC
391 ATTCTTTTCTATTTCTTCCCCCAAAGCTGAACAATTCTCTCATTTTTTTATTTTCTTTCCTTCTC
7297913 TCATA
456 TCATA
7297918 TAT
1 TAT
7297921 TCCCCTCTTC
Statistics
Matches: 454, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
458 442 0.97
459 1 0.00
460 11 0.02
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (460 bp):
TATGCTTTAATGTTATATTTTTAAAATGAACGGGACTTCAGCAGGTAACCTTTAAGATAAAATGT
GACGGTATATTATTGAAAATAAATGCCCGTCCCAGTGGCCAGCAGCGTGCTGGGCAACCTAGAGG
TCCCAGGTTCGATCAGCGCTATGCGCAAAAGAAGAGTTTCTTTTTACTGAACGCGCGTGGGAAGG
ACCGTATGGGATTGAAACGGTACCAGCTGCAGGAGGAGTCGGCTGAGTGGGGGACTGCTGCACAG
CAGTGGGAGTTTGAATTAAATTCAAACTTTGATTTTGGCCATGAATTTAGGAGAAGGAAGGAATT
AAAATTGGAAAAGGATTTTATTTTATTCTAATCTTATCTTATCTCCTTTTTTTTTTCTTTCTCAT
ATTCTTTTCTATTTCTTCCCCCAAAGCTGAACAATTCTCTCATTTTTTTATTTTCTTTCCTTCTC
TCATA
Found at i:7299235 original size:61 final size:61
Alignment explanation
Indices: 7299095--7299236 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 61
7299085 TATCTCGACT
* * *
7299095 TGTAATAGGGCTACGGCCCAAATTGATACTGATATGGGCTAGGCCCAGTATACTCTGTTAC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAGGCCCAGTATACACTGTTAC
* * * *
7299156 TGTAA-GGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCTAGTA-ACACTGATTTC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCT-AGGCCCAGTATACACTG-TTAC
7299217 TG-AATAGGGCTTA-GGCCCAG
1 TGTAATAGGGC-TACGGCCCAG
7299237 TAAAGCTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
60 37 0.54
61 30 0.43
62 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
TGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAGGCCCAGTATACACTGTTAC
Found at i:7307483 original size:14 final size:14
Alignment explanation
Indices: 7307464--7307491 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7307454 TAACAACTTC
7307464 TTAACAGATTGATA
1 TTAACAGATTGATA
7307478 TTAACAGATTGATA
1 TTAACAGATTGATA
7307492 ACTGCTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TTAACAGATTGATA
Found at i:7309123 original size:55 final size:56
Alignment explanation
Indices: 7309058--7309171 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 56
7309048 AGCATGGCTG
** *
7309058 CCAGATACAGA-AAATGTGACAGAGTTACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
7309114 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
7309169 CCA
1 CCA
7309172 AGACGCTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:7309135 original size:27 final size:27
Alignment explanation
Indices: 7309084--7309171 Score: 115
Period size: 27 Copynumber: 3.1 Consensus size: 27
7309074 TGACAGAGTT
7309084 ACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGA-ACAGATA-TTTGTGGCAGTGCC
* *
7309113 ACCAGAACAGATATATGTGGCAGGGCC
1 ACCAGAACAGATATTTGTGGCAGTGCC
7309140 ACCAGAACAGATAATTTGTGGCA-TAGCC
1 ACCAGAACAGAT-ATTTGTGGCAGT-GCC
7309168 ACCA
1 ACCA
7309172 AGACGCTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 24 0.45
28 23 0.43
29 6 0.11
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGTGCC
Found at i:7315311 original size:14 final size:14
Alignment explanation
Indices: 7315292--7315319 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7315282 TAACAACTTC
7315292 TTAACAGATTGATA
1 TTAACAGATTGATA
7315306 TTAACAGATTGATA
1 TTAACAGATTGATA
7315320 ACTATTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TTAACAGATTGATA
Found at i:7316675 original size:29 final size:29
Alignment explanation
Indices: 7316643--7316736 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
7316633 TTTAATTTAA
7316643 AAAATTTAAAAAATATAAAAATTATTTTT
1 AAAATTTAAAAAATATAAAAATTATTTTT
* * * * *
7316672 AAAAATTAAAAACTATTAAAGTTATTTTA
1 AAAATTTAAAAAATATAAAAATTATTTTT
* * *
7316701 AAAAGTATAAAAATTATAAAAAATA-TTTT
1 AAAA-TTTAAAAAATATAAAAATTATTTTT
7316730 AAAATTT
1 AAAATTT
7316737 TTAAAAAAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
28 2 0.04
29 35 0.69
30 14 0.27
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTTAAAAAATATAAAAATTATTTTT
Found at i:7316678 original size:30 final size:29
Alignment explanation
Indices: 7316637--7316744 Score: 110
Period size: 30 Copynumber: 3.7 Consensus size: 29
7316627 TTATTTTTTA
*
7316637 ATTTAAAAAATTTAAAAAATATAAAAATT
1 ATTTTAAAAATTTAAAAAATATAAAAATT
* * *
7316666 ATTTTTAAAAA-TTAAAAACTATTAAAGTT
1 A-TTTTAAAAATTTAAAAAATATAAAAATT
* * *
7316695 ATTTTAAAAAGTATAAAAATTATAAAAAAT
1 ATTTTAAAAA-TTTAAAAAATATAAAAATT
*
7316725 ATTTTAAAATTTTTAAAAAA
1 ATTTTAAAA-ATTTAAAAAA
7316745 ATTAAGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
28 9 0.14
29 17 0.27
30 37 0.59
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTAAAAATTTAAAAAATATAAAAATT
Found at i:7316717 original size:21 final size:21
Alignment explanation
Indices: 7316677--7316717 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7316667 TTTTTAAAAA
* *
7316677 TTAAAAACTATTAAAGTTATT
1 TTAAAAACTATAAAAATTATT
*
7316698 TTAAAAAGTATAAAAATTAT
1 TTAAAAACTATAAAAATTAT
7316718 AAAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TTAAAAACTATAAAAATTATT
Found at i:7319067 original size:73 final size:73
Alignment explanation
Indices: 7318966--7319118 Score: 184
Period size: 73 Copynumber: 2.1 Consensus size: 73
7318956 AAGCACTTTG
* * *
7318966 TAAGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCAATATTGGCTCGCTTGAACCTTCCTG-ATA
1 TAAGCTTCCTCATTAATGGCTCTCCGGAGCTACCCAATATTGGCTCGCATG-ACCTTCCTGAATA
7319030 TTGGCTCATA
65 -TGGCTCATA
* * ** *
7319040 TAAGCTTCC-CATTAATGGCTCTTCGGAGCTACTCGTTATTGGCTCGCATGAGCTTCCTGAATAT
1 TAAGCTTCCTCATTAATGGCTCTCCGGAGCTACCCAATATTGGCTCGCATGACCTTCCTGAATAT
*
7319104 GGCTCTTA
66 GGCTCATA
*
7319112 TGAGCTT
1 TAAGCTT
7319119 TACGTAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
72 22 0.32
73 37 0.54
74 9 0.13
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (73 bp):
TAAGCTTCCTCATTAATGGCTCTCCGGAGCTACCCAATATTGGCTCGCATGACCTTCCTGAATAT
GGCTCATA
Found at i:7320465 original size:15 final size:15
Alignment explanation
Indices: 7320445--7320474 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7320435 CATTTTATTT
*
7320445 ATATTAGGATAATTA
1 ATATTAAGATAATTA
7320460 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7320475 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:7320502 original size:27 final size:26
Alignment explanation
Indices: 7320441--7320503 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
7320431 ACTCCATTTT
7320441 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
7320468 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
7320496 ATTTTATT
1 ATTTTATT
7320504 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:7323613 original size:14 final size:14
Alignment explanation
Indices: 7323594--7323624 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7323584 TAATAAGTGA
7323594 AATGACGTAAACAT
1 AATGACGTAAACAT
7323608 AATGACGTAAACAT
1 AATGACGTAAACAT
7323622 AAT
1 AAT
7323625 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.23
Consensus pattern (14 bp):
AATGACGTAAACAT
Found at i:7323769 original size:31 final size:31
Alignment explanation
Indices: 7323734--7323815 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 31
7323724 ATATAAGATG
7323734 AACATATACAATATATATTATAAATACTA-AT
1 AACATATACAATATATATTA-AAATACTACAT
7323765 AACATA-A-AA-A-ATATTAATAATACTACAT
1 AACATATACAATATATATTAA-AATACTACAT
7323793 AA-ATATGTAC-ATATATATTAAAA
1 AACATA--TACAATATATATTAAAA
7323816 ATAAATACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
26 1 0.02
27 16 0.37
28 5 0.12
29 2 0.05
30 3 0.07
31 9 0.21
32 7 0.16
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (31 bp):
AACATATACAATATATATTAAAATACTACAT
Found at i:7323818 original size:21 final size:23
Alignment explanation
Indices: 7323800--7323842 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
7323790 CATAAATATG
7323800 TACATA-T-ATATTAAAAATAAA
1 TACATATTAATATTAAAAATAAA
7323821 TACATATTAATATT-AAAATAAA
1 TACATATTAATATTAAAAATAAA
7323843 ATAATAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (23 bp):
TACATATTAATATTAAAAATAAA
Found at i:7323955 original size:22 final size:25
Alignment explanation
Indices: 7323923--7323974 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
7323913 TATAAAAAGT
*
7323923 ATATATATACTCATA-TAAT-A-AA
1 ATATATATACTAATATTAATGATAA
*
7323945 ATATATGTACTAATATTAATGATAA
1 ATATATATACTAATATTAATGATAA
7323970 ATATA
1 ATATA
7323975 ATAGGGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 4 0.16
24 1 0.04
25 7 0.28
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATATATACTAATATTAATGATAA
Found at i:7324034 original size:2 final size:2
Alignment explanation
Indices: 7324027--7324057 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7324017 ATGGTATTAA
7324027 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 A
7324058 ACATAGTGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7324147 original size:23 final size:24
Alignment explanation
Indices: 7324118--7324174 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
7324108 ATAGTATAAG
*
7324118 AAATATATACATGATAACAT-TA-A
1 AAATATATACATAAT-ACATGTATA
*
7324141 AAATATATACATAATATATGTATA
1 AAATATATACATAATACATGTATA
7324165 AAATATATAC
1 AAATATATAC
7324175 CTATATACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 3 0.10
23 16 0.53
24 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATATATACATAATACATGTATA
Found at i:7324361 original size:3 final size:3
Alignment explanation
Indices: 7324347--7324530 Score: 101
Period size: 3 Copynumber: 59.7 Consensus size: 3
7324337 ATATATACAC
7324347 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
7324393 T-A TAA TAA GAA TAT TAA -AA TAA -AG TAA TTAA -AA TAA TAC T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * *
7324434 TATA TAA AAA TATA TAA -ACA TACA TATA TAA TAA AACA TACA CTAA CAT
1 TA-A TAA TAA TA-A TAA TA-A TA-A TA-A TAA TAA TA-A TA-A -TAA TAA
* * * * * *
7324483 TAA TAA TAA CAA CAA TAC TAG CAA TAA TAA TAA TTAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
7324529 TA
1 TA
7324531 CATTAAGAAA
Statistics
Matches: 141, Mismatches: 26, Indels: 28
0.72 0.13 0.14
Matches are distributed among these distances:
2 9 0.06
3 103 0.73
4 27 0.19
5 2 0.01
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7326290 original size:87 final size:89
Alignment explanation
Indices: 7326109--7326406 Score: 297
Period size: 87 Copynumber: 3.4 Consensus size: 89
7326099 GTGATCCTGA
** * * * * * *
7326109 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAAAAGACATT--AAAAACAAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAACAGAAATT
* * *
7326171 GAAAATAGCTCAGCACGTGATCCAAG
65 GAAAATACCTCAGCA-GTGACCCGAG
* * * * * **
7326197 GCTCAACTCACCTCTCACAATATGAGTTGGTTTTTG-AAACT-TAATTTG-AAAAGCAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTG
7326259 AAAATACCTC-GACATGTGACCCGAG
66 AAAATACCTCAG-CA-GTGACCCGAG
*
7326284 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTG
* * *
7326349 AAAATACCTCAGC-GTGTCCTGAA
66 AAAATACCTCAGCAGTGACCCGAG
*
7326372 GCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7326407 TTGAAAAGCA
Statistics
Matches: 172, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
86 4 0.02
87 70 0.41
88 70 0.41
89 6 0.03
90 21 0.12
91 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTG
AAAATACCTCAGCAGTGACCCGAG
Found at i:7326340 original size:15 final size:15
Alignment explanation
Indices: 7326320--7326352 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7326310 TTGATTTTTG
*
7326320 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
7326335 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
7326350 AAA
1 AAA
7326353 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:7326387 original size:175 final size:165
Alignment explanation
Indices: 7326091--7326935 Score: 492
Period size: 148 Copynumber: 5.4 Consensus size: 165
7326081 TTATTCTTTA
* * ** * * *
7326091 CTCGGCATGTGATCCTGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAAAAGA
1 CTCGACATGTGA-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAA
* *
7326154 CATT-AAAAACAAAAATTGAAAATAGCTCAGCACGTGATCCAAGGCTCAACTCACCTCTCACAAT
65 AATTGAAAAACAAAAATTGAAAATACCTCAG-ACGTGATCCAAGGCTCAACTCACCTCTCACAAT
* * **
7326218 ATGAGTTGGTTTTTGAAACTTAATTTGAAAAGCAGATTTTGAAAATAC
129 ATGAG-T--TTATT-----TT--TTTGAAAAGCAAAAATTG-AAATAC
* *
7326266 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAA
1 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAAA
*
7326330 ATTGAAAAA-ATAGAAATTGAAAATACCTCAG-CGTG-TCCTGAA-GCTCAACTCACCTCTCGCA
66 ATTGAAAAACA-A-AAATTGAAAATACCTCAGACGTGATCC--AAGGCTCAACTCACCTCTCACA
7326391 ATATGAGTTTATTTTTTTGAAAAGCAAAAATTGAAATAC
127 ATATGAGTTTATTTTTTTGAAAAGCAAAAATTGAAATAC
* *
7326430 CTCGACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-----------
1 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAAA
* * * *
7326482 -TTGAAAAGCAAAAATTGAAAATACCTCAG-CGTG-CCCTGAGGCTCAACTCACCTCTCGCAATA
66 ATTGAAAAACAAAAATTGAAAATACCTCAGACGTGATCC-AAGGCTCAACTCACCTCTCACAATA
* * *
7326544 TGAGTTGA--TTTTTGACAAA-CAGAAACTGAAATTAC
130 TGAGTTTATTTTTTTGA-AAAGCAAAAATTGAAA-TAC
* * *
7326579 CTC-AGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTTT----------
1 CTCGA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAA
* * * * * *
7326630 --TTGAAAGACAGAAATTGAAAATACCTCA-ACGTGAGACCTGAGGCTCAACTCACATCTCGCAA
65 AATTGAAAAACAAAAATTGAAAATACCTCAGACGTGA-TCC-AAGGCTCAACTCACCTCTCACAA
* *
7326692 TATGAGTTGATTTTTTTTTAAAAGCAAAAATTGAAAATAC
128 TATGAGTTTA-TTTTTTTGAAAAGCAAAAATTG-AAATAC
* *
7326732 CTC-A-GTGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG----ACAAA
1 CTCGACATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAA
* * * * *
7326789 CA--G--AAAC------TGAAATTACCTCA-TCGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
65 AATTGAAAAACAAAAATTGAAAATACCTCAGACGTGATCC-AAGGCTCAACTCACCTCTCACAAT
* * * *
7326842 ATAAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAC
129 ATGAGTTTATTTTTTTGAAAAGCAAAAATTG-AAATAC
* * ** * *
7326880 CTC-A-ACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGAAAA
1 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAA
7326936 CAGAAATAAA
Statistics
Matches: 580, Mismatches: 52, Indels: 99
0.79 0.07 0.14
Matches are distributed among these distances:
147 37 0.06
148 120 0.21
149 46 0.08
150 88 0.15
151 24 0.04
152 6 0.01
153 60 0.10
154 3 0.01
157 3 0.01
159 1 0.00
163 4 0.01
164 52 0.09
165 15 0.03
167 2 0.00
172 4 0.01
174 12 0.02
175 78 0.13
176 8 0.01
177 17 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (165 bp):
CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAAAAAAA
ATTGAAAAACAAAAATTGAAAATACCTCAGACGTGATCCAAGGCTCAACTCACCTCTCACAATAT
GAGTTTATTTTTTTGAAAAGCAAAAATTGAAATAC
Found at i:7326392 original size:88 final size:88
Alignment explanation
Indices: 7326103--7326406 Score: 286
Period size: 88 Copynumber: 3.5 Consensus size: 88
7326093 CGGCATGTGA
** * * * * *
7326103 TCCTG-AGCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAAAAGACATT-AAAAACA
1 TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAA-A
*
7326165 A-AAATTGAAAATAGCTCAGCACGTG
64 AGAAATTGAAAATACCTCAG-ACGTG
* * * * **
7326190 ATCC--AAGGCTCAACTCACCTCTCACAATATGAGTTGGTTTTTG-AAACT-TAATTTGAAAAGC
1 -TCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAA
**
7326251 AGATTTTGAAAATACCTC-GACATGTG
64 AGAAATTGAAAATACCTCAGAC--GTG
* * *
7326277 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATA
1 TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAA-A
7326342 GAAATTGAAAATACCTCAG-CGTG
65 GAAATTGAAAATACCTCAGACGTG
*
7326365 TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
1 TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7326407 TTGAAAAGCA
Statistics
Matches: 173, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
85 2 0.01
86 7 0.04
87 62 0.36
88 74 0.43
89 10 0.06
90 17 0.10
91 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (88 bp):
TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAG
AAATTGAAAATACCTCAGACGTG
Found at i:7326598 original size:73 final size:73
Alignment explanation
Indices: 7326336--7326942 Score: 792
Period size: 73 Copynumber: 8.2 Consensus size: 73
7326326 ATAAATTGAA
* * *
7326336 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
7326401 ATTTTTTTG
66 A-TTTTTTG
* * *
7326410 AAAAGCAAAAATTG-AAATACCTC-GACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAA-CAGAAATTGAAAATACCTCAG-CGT--GTCCTGAGGCTCAACTCACCTCTCGCAATATGA
7326473 GTTGATTTTTTG
62 GTTGATTTTTTG
* *
7326485 AAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
7326550 GA-TTTTTG
65 GATTTTTTG
* * *
7326558 ACAAACAGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
7326623 GATTTTTTTG
65 GA-TTTTTTG
* * *
7326633 AAAGACAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACATCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATACCTCAGCGT--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
7326698 TTGATTTTTTTTT
63 TTGA--TTTTTTG
* * *
7326711 AAAAGCAAAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
7326776 GA-TTTTTG
65 GATTTTTTG
* * * *
7326784 ACAAACAGAAACTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
7326849 GATTTTTTTG
65 GA-TTTTTTG
* * *
7326859 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
7326924 -AATTTTTG
65 GATTTTTTG
7326932 AAAACAGAAAT
1 AAAACAGAAAT
7326943 AAAAACATCA
Statistics
Matches: 475, Mismatches: 40, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
72 11 0.02
73 132 0.28
74 61 0.13
75 120 0.25
76 83 0.17
77 37 0.08
78 31 0.07
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:7326772 original size:226 final size:225
Alignment explanation
Indices: 7326341--7326930 Score: 965
Period size: 226 Copynumber: 2.6 Consensus size: 225
7326331 TTGAAAAAAT
* * * *
7326341 AGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
1 AGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
7326406 TTTGAAAAGCAAAAATTG-AAATACCTCGACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATA
66 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACCTCTCGCAATA
7326470 TGAGTTGA--TTTTTTGAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
130 TGAGTTGATTTTTTTTGAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
7326533 CTCTCGCAATATGAGTTGATTTTTGACAAAC
195 CTCTCGCAATATGAGTTGATTTTTGACAAAC
*
7326564 AGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
1 AGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
7326629 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACATCTCGCAATA
66 TTTGAAA-ACAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
7326694 TGAGTTGATTTTTTTTTAAAAGCAAAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCAC
130 TGAGTTGATTTTTTTTGAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
7326759 CTCTCGCAATATGAGTTGATTTTTGACAAAC
195 CTCTCGCAATATGAGTTGATTTTTGACAAAC
* *
7326790 AGAAACTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
1 AGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
7326855 TTTGAAAAACAGAAATTGAAAATACCTCAACGT--GTCTTGAAGCTCAACTCACCTCTCGCAATA
66 TTTG-AAAACAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACCTCTCGCAATA
*
7326918 TGAGTTAATTTTT
130 TGAGTTGATTTTT
7326931 GAAAACAGAA
Statistics
Matches: 343, Mismatches: 19, Indels: 9
0.92 0.05 0.02
Matches are distributed among these distances:
223 75 0.22
224 90 0.26
226 175 0.51
227 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (225 bp):
AGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAACAGAAATTGAAAATACCTCAACGTGAGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTTGAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGACAAAC
Found at i:7327996 original size:32 final size:32
Alignment explanation
Indices: 7327960--7328056 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
7327950 TGTATGGATT
7327960 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7327992 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7328024 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7328056 T
1 T
7328057 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:7329874 original size:12 final size:12
Alignment explanation
Indices: 7329854--7329884 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7329844 ACTTGAGGAA
*
7329854 GAGGTCGTGGTC
1 GAGGCCGTGGTC
7329866 GAGGCCGTGGTC
1 GAGGCCGTGGTC
7329878 GAGGCCG
1 GAGGCCG
7329885 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:7336060 original size:32 final size:32
Alignment explanation
Indices: 7336024--7336120 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
7336014 TGTATGCATT
7336024 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7336056 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7336088 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7336120 T
1 T
7336121 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:7337932 original size:12 final size:12
Alignment explanation
Indices: 7337915--7337945 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
7337905 ACTTGGGGAA
7337915 GAGGCCGTGGTC
1 GAGGCCGTGGTC
7337927 GAGGCCGTGGTC
1 GAGGCCGTGGTC
7337939 GAGGCCG
1 GAGGCCG
7337946 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:7342808 original size:32 final size:32
Alignment explanation
Indices: 7342772--7342868 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
7342762 TGTATGCATT
7342772 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7342804 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7342836 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7342868 T
1 T
7342869 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:7344882 original size:18 final size:18
Alignment explanation
Indices: 7344848--7344955 Score: 110
Period size: 18 Copynumber: 6.1 Consensus size: 18
7344838 TCATTAACTC
* *
7344848 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
7344865 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* **
7344883 TCGGTAACAATCAAATAT
1 TCAGTAACAATCAGTTAT
* *
7344901 TCAGTAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
7344919 TCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
7344937 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
7344955 T
1 T
7344956 TTATACCTTA
Statistics
Matches: 71, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
17 4 0.06
18 67 0.94
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:7344902 original size:36 final size:36
Alignment explanation
Indices: 7344862--7344955 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
7344852 AACAATTATT
* * *
7344862 TATTCAGTAACAGTCAGTTATTCGGTAACAATCAAA
1 TATTCAGTAATAATCAGTTATTCAGTAACAATCAAA
* * *
7344898 TATTCAGTAATAACCAGTTATTCAGTAACAGTCAAT
1 TATTCAGTAATAATCAGTTATTCAGTAACAATCAAA
7344934 TATTCAGTAATAATCAGTTATT
1 TATTCAGTAATAATCAGTTATT
7344956 TTATACCTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TATTCAGTAATAATCAGTTATTCAGTAACAATCAAA
Found at i:7345457 original size:23 final size:21
Alignment explanation
Indices: 7345405--7345492 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
7345395 CCTGATCAGT
** *
7345405 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAAGTGCCTG
*
7345426 AAACGACACACGAAGTGCCTG
1 ATACGACACACGAAGTGCCTG
*
7345447 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
**
7345468 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACGAAGTGCCTG
7345491 AT
1 AT
7345493 CCATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 38 0.68
23 18 0.32
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAAGTGCCTG
Found at i:7345489 original size:44 final size:42
Alignment explanation
Indices: 7345405--7345492 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
7345395 CCTGATCAGT
* *
7345405 ATACGACACATAAAGTGCCTAAAACGACACACGAAGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACAAAGTGCCTG
* * *
7345447 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCT-AAA-ACGACACACAAAGTGCCTG
7345491 AT
1 AT
7345493 CCATAAAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 17 0.44
43 3 0.08
44 19 0.49
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACACAAAGTGCCTG
Found at i:7345921 original size:15 final size:15
Alignment explanation
Indices: 7345863--7345924 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
7345853 TCATATATAT
*
7345863 TATATAATTCAATCAA
1 TATA-AATTCAATAAA
7345879 TATAAATTCAATCAAA
1 TATAAATTCAAT-AAA
*
7345895 -ATAATTTCAATAAA
1 TATAAATTCAATAAA
7345909 TATAAATTCAATAAA
1 TATAAATTCAATAAA
7345924 T
1 T
7345925 TCATCGCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.07
15 32 0.78
16 6 0.15
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAATTCAATAAA
Found at i:7347199 original size:2 final size:2
Alignment explanation
Indices: 7347188--7347241 Score: 59
Period size: 2 Copynumber: 30.5 Consensus size: 2
7347178 TTTACTTATT
7347188 TA TA TA -A TA TA TA -A TA TA TA -A TA TA -A TA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7347224 TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
7347242 TTTAACACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
1 7 0.16
2 38 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:7347200 original size:7 final size:7
Alignment explanation
Indices: 7347188--7347240 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
7347178 TTTACTTATT
7347188 TATATAA
1 TATATAA
7347195 TATATAA
1 TATATAA
7347202 TATAT-A
1 TATATAA
7347208 -ATATAA
1 TATATAA
7347214 TATA-ATA
1 TATATA-A
7347221 TAATATAA
1 T-ATATAA
7347229 TATAT-A
1 TATATAA
7347235 TATATA
1 TATATA
7347241 TTTTAACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 4 0.10
6 9 0.22
7 21 0.52
8 5 0.12
9 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:7347204 original size:5 final size:5
Alignment explanation
Indices: 7347189--7347238 Score: 68
Period size: 5 Copynumber: 10.0 Consensus size: 5
7347179 TTACTTATTT
7347189 ATATA ATAT- ATA-A TATATA ATATA ATATA ATATA ATATA ATATA TATATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA -ATATA
7347239 TATTTTAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.07
5 32 0.78
6 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:7347241 original size:10 final size:10
Alignment explanation
Indices: 7347188--7347241 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 10
7347178 TTTACTTATT
7347188 TATATA-ATA
1 TATATATATA
7347197 TATA-ATATA
1 TATATATATA
7347206 TA-ATATA-A
1 TATATATATA
7347214 TATA-ATATA
1 TATATATATA
7347223 -ATATA-ATA
1 TATATATATA
7347231 TATATATATA
1 TATATATATA
7347241 T
1 T
7347242 TTTAACACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
8 14 0.37
9 20 0.53
10 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATATATA
Found at i:7355071 original size:22 final size:22
Alignment explanation
Indices: 7355022--7355077 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7355012 TACATGCAAT
* *
7355022 GAATGAATGAATGAATGAATAAC
1 GAATGAATG-TTGAATAAATAAC
* *
7355045 AAATGAATGTTGAATAAATGAC
1 GAATGAATGTTGAATAAATAAC
7355067 GAATGAATGTT
1 GAATGAATGTT
7355078 AGTCATGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (22 bp):
GAATGAATGTTGAATAAATAAC
Found at i:7358929 original size:13 final size:15
Alignment explanation
Indices: 7358894--7358945 Score: 79
Period size: 15 Copynumber: 3.4 Consensus size: 15
7358884 ATGAAAAGTG
7358894 TATATATAGTAC-TAAA
1 TATATATA-TACAT-AA
7358910 TATATATATACATAA
1 TATATATATACATAA
7358925 TATATATATACATAA
1 TATATATATACATAA
7358940 TATATA
1 TATATA
7358946 AGATGAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
15 26 0.74
16 9 0.26
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (15 bp):
TATATATATACATAA
Found at i:7358976 original size:13 final size:12
Alignment explanation
Indices: 7358895--7358976 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 12
7358885 TGAAAAGTGT
7358895 ATATATAGTACTAA
1 ATATATA-TA-TAA
7358909 ATATATATATACATA
1 ATATATATAT--A-A
*
7358924 ATATATATATAC
1 ATATATATATAA
7358936 ATA-ATATATAA
1 ATATATATATAA
*
7358947 GATGA-ACATATACA
1 -AT-ATATATATA-A
7358961 ATATATATTATAA
1 ATATATA-TATAA
7358974 ATA
1 ATA
7358977 CTAATAACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
11 7 0.12
12 7 0.12
13 18 0.32
14 13 0.23
15 11 0.20
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (12 bp):
ATATATATATAA
Found at i:7359358 original size:2 final size:2
Alignment explanation
Indices: 7359342--7359392 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
7359332 AACATTAAAA
*
7359342 AT AT AT AC AT A- 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
7359383 AT A- AT AT AT A
1 AT AT AT AT AT A
7359393 CCATATACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7359581 original size:3 final size:3
Alignment explanation
Indices: 7359567--7359723 Score: 67
Period size: 3 Copynumber: 50.7 Consensus size: 3
7359557 ATATATACAC
* *
7359567 TAA TATA TAA TAA TAA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
7359610 TAA TTAA -AA TAA TAC T-A TATA TAA AAA T-A TATA TACA TACA TATA
1 TAA -TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TA-A TA-A TA-A
* * * * *
7359655 TAA TAA AACA TACA CTAA GAT TAA TAA TAA TAA CAA TAC T-A TCAA TAA
1 TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
*
7359703 TAA TAA TTAG TAA TAA TAA TA
1 TAA TAA -TAA TAA TAA TAA TA
7359724 CATTAAGAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
2 11 0.09
3 73 0.62
4 31 0.26
5 2 0.02
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7359588 original size:14 final size:14
Alignment explanation
Indices: 7359567--7359723 Score: 84
Period size: 14 Copynumber: 11.6 Consensus size: 14
7359557 ATATATACAC
7359567 TAAT-ATATAATAA
1 TAATAATATAATAA
7359580 TAATAATATAATAA
1 TAATAATATAATAA
* *
7359594 TAATATTAAAATAA
1 TAATAATATAATAA
*
7359608 -AGTAAT-TAA-AA
1 TAATAATATAATAA
*
7359619 TAATACTAT-AT-A
1 TAATAATATAATAA
*
7359631 TAAAAATAT-AT-A
1 TAATAATATAATAA
7359643 TACATACATAT-ATAA
1 TA-ATA-ATATAATAA
*
7359658 TAA-AACATACACTAA
1 TAATAATATA-A-TAA
* *
7359673 GATTAATAATAATAA
1 TAATAAT-ATAATAA
* *
7359688 CAATACTATCAATAA
1 TAATAATAT-AATAA
*
7359703 TAATAAT-TAGTAA
1 TAATAATATAATAA
7359716 TAATAATA
1 TAATAATA
7359724 CATTAAGAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
11 2 0.02
12 23 0.21
13 23 0.21
14 32 0.29
15 24 0.22
16 3 0.03
17 3 0.03
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:7361202 original size:19 final size:19
Alignment explanation
Indices: 7361164--7361199 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7361154 TATGTGATTG
7361164 AATTTTACTATAAATTTTC
1 AATTTTACTATAAATTTTC
*
7361183 AATTTTATTA-AAATTTT
1 AATTTTACTATAAATTTT
7361200 TCACCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTACTATAAATTTTC
Found at i:7364161 original size:26 final size:23
Alignment explanation
Indices: 7364127--7364182 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
7364117 TATATTTTTT
7364127 AAAAATAAAGATAAAGGATAATGGTA
1 AAAAATAAAGATAAA--ATAATGG-A
* *
7364153 AAAAATAAATATAAAATAATTGA
1 AAAAATAAAGATAAAATAATGGA
7364176 AAAAATA
1 AAAAATA
7364183 TTTACGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 6 0.21
26 14 0.50
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (23 bp):
AAAAATAAAGATAAAATAATGGA
Found at i:7364556 original size:2 final size:2
Alignment explanation
Indices: 7364549--7364580 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7364539 AACTAATCCC
7364549 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
7364581 AACAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7369300 original size:20 final size:20
Alignment explanation
Indices: 7369275--7369313 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7369265 TTATGTGCCT
7369275 ATTTGATGAATCATTTTAAA
1 ATTTGATGAATCATTTTAAA
7369295 ATTTGATGAATCATTTTAA
1 ATTTGATGAATCATTTTAA
7369314 GTATTTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTTGATGAATCATTTTAAA
Found at i:7369909 original size:10 final size:10
Alignment explanation
Indices: 7369894--7369956 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
7369884 TATTTCAAGC
7369894 TCAATATCAA
1 TCAATATCAA
***
7369904 TCAATATTTT
1 TCAATATCAA
7369914 TCAATATCAA
1 TCAATATCAA
*
7369924 TCAAT-T-TA
1 TCAATATCAA
*
7369932 TCAATATCAT
1 TCAATATCAA
*
7369942 TCAATAACAA
1 TCAATATCAA
7369952 TCAAT
1 TCAAT
7369957 TATTTAGTAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 32 0.80
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (10 bp):
TCAATATCAA
Found at i:7369935 original size:18 final size:18
Alignment explanation
Indices: 7369894--7369946 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
7369884 TATTTCAAGC
*
7369894 TCAATATCAATCAATATTTT
1 TCAATATCAATC-A-ATTTA
7369914 TCAATATCAATCAATTTA
1 TCAATATCAATCAATTTA
*
7369932 TCAATATCATTCAAT
1 TCAATATCAATCAAT
7369947 AACAATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 18 0.58
19 1 0.03
20 12 0.39
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
TCAATATCAATCAATTTA
Found at i:7369944 original size:28 final size:28
Alignment explanation
Indices: 7369903--7369957 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
7369893 CTCAATATCA
** *
7369903 ATCAATATTTTTCAATATCAATCAATTT
1 ATCAATATCATTCAATAACAATCAATTT
7369931 ATCAATATCATTCAATAACAATCAATT
1 ATCAATATCATTCAATAACAATCAATT
7369958 ATTTAGTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (28 bp):
ATCAATATCATTCAATAACAATCAATTT
Found at i:7369972 original size:18 final size:18
Alignment explanation
Indices: 7369940--7370019 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
7369930 TATCAATATC
*
7369940 ATTCAATAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
7369958 ATTTAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
*
7369976 ACTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
7369994 ATTCAGTAACAATCAGTC
1 ATTCAGTAACAATCAATT
7370012 ATTCAGTA
1 ATTCAGTA
7370020 CCTTTATTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:7369987 original size:36 final size:36
Alignment explanation
Indices: 7369946--7370019 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
7369936 TATCATTCAA
* * *
7369946 TAACAATCAATTATTTAGTAGCAATCAGTTACTCAG
1 TAACAATCAATTATTCAGTAACAATCAGTCACTCAG
*
7369982 TAACAATCAATTATTCAGTAACAATCAGTCATTCAG
1 TAACAATCAATTATTCAGTAACAATCAGTCACTCAG
7370018 TA
1 TA
7370020 CCTTTATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (36 bp):
TAACAATCAATTATTCAGTAACAATCAGTCACTCAG
Found at i:7371333 original size:35 final size:35
Alignment explanation
Indices: 7371294--7371364 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
7371284 TGTCGTGCCC
* *
7371294 AGCGTCATGCCCACGACTCCAGCCTTGACAGAATA
1 AGCGTCATGCCCACGACTCCAACCATGACAGAATA
**
7371329 AGCGTTGTGCCCACGACTCCAACCATGACAGAATA
1 AGCGTCATGCCCACGACTCCAACCATGACAGAATA
7371364 A
1 A
7371365 AAAGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (35 bp):
AGCGTCATGCCCACGACTCCAACCATGACAGAATA
Found at i:7372107 original size:15 final size:15
Alignment explanation
Indices: 7372087--7372125 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
7372077 CAATTCATCA
7372087 AACTTTTTTTTTTTT
1 AACTTTTTTTTTTTT
7372102 AACTTTTCTTTTTTTT
1 AACTTTT-TTTTTTTT
7372118 --CTTTTTTT
1 AACTTTTTTT
7372126 CGAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.13
14 5 0.22
15 7 0.30
16 8 0.35
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (15 bp):
AACTTTTTTTTTTTT
Found at i:7372154 original size:12 final size:11
Alignment explanation
Indices: 7372110--7372171 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
7372100 TTAACTTTTC
7372110 TTTTTTT-TCT
1 TTTTTTTGTCT
* **
7372120 TTTTTTCGAAT
1 TTTTTTTGTCT
*
7372131 TATTTTT-TCT
1 TTTTTTTGTCT
7372141 TTTTTTTGTGCT
1 TTTTTTTGT-CT
7372153 TTTTTTTGTCT
1 TTTTTTTGTCT
7372164 CTTTTTTT
1 -TTTTTTT
7372172 TTGAACATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
10 13 0.32
11 9 0.22
12 18 0.45
ACGTcount: A:0.05, C:0.10, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTTTTTGTCT
Found at i:7379577 original size:35 final size:35
Alignment explanation
Indices: 7379538--7379608 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
7379528 CGTCGTGCCC
* *
7379538 AGCGTCGTGCCCACGACTCCAGCTGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
7379573 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
7379608 A
1 A
7379609 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.15
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:7379855 original size:44 final size:44
Alignment explanation
Indices: 7379772--7379856 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
7379762 CACAGTAGCT
* *
7379772 GTACGACACATATGGTGCCTCATCAACTCGAAGTCGAAGTAACA
1 GTACGACACATATGATGCCTCATCAACTCGAAGTAGAAGTAACA
* * *
7379816 GTACGACACTTATTATGCCTCATCGACTC-AAGGTAGAAGTA
1 GTACGACACATATGATGCCTCATCAACTCGAA-GTAGAAGTA
7379857 TCCCCGGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (44 bp):
GTACGACACATATGATGCCTCATCAACTCGAAGTAGAAGTAACA
Found at i:7381185 original size:14 final size:15
Alignment explanation
Indices: 7381153--7381198 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7381143 ACTTTATTTA
7381153 ATTAATATAAAATAAT
1 ATTAATAT-AAATAAT
7381169 ATTAATAT-AATAAT
1 ATTAATATAAATAAT
*
7381183 ATTTACT-TAAATAAT
1 A-TTAATATAAATAAT
7381198 A
1 A
7381199 AGTAAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAATATAAATAAT
Found at i:7383337 original size:15 final size:15
Alignment explanation
Indices: 7383317--7383345 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7383307 AAATCATATA
7383317 TAAATATATATTTGG
1 TAAATATATATTTGG
7383332 TAAATATATATTTG
1 TAAATATATATTTG
7383346 ATGAACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TAAATATATATTTGG
Found at i:7385967 original size:40 final size:40
Alignment explanation
Indices: 7385922--7386014 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
7385912 AAACAGGTTT
**
7385922 TTAGCGGCG-TTTCCATTCAAACGCCACTAAAGAACGAGCA
1 TTAGCGGCGCTTTCCA-AAAAACGCCACTAAAGAACGAGCA
* *
7385962 TTAGCGGCGCTTTTCAAAAAACGCCACTAAAGAATGAGCA
1 TTAGCGGCGCTTTCCAAAAAACGCCACTAAAGAACGAGCA
*
7386002 TTAGCAGCGCTTT
1 TTAGCGGCGCTTT
7386015 TAAAAAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGCTTTCCAAAAAACGCCACTAAAGAACGAGCA
Found at i:7386015 original size:40 final size:40
Alignment explanation
Indices: 7385940--7386022 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
7385930 GTTTCCATTC
* *
7385940 AAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTCAAA
1 AAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTAAAA
*
7385980 AAACGCCACTAAAGAATGAGCATTAGCAGCGCTTTTAAAA
1 AAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTAAAA
7386020 AAA
1 AAA
7386023 AGGCCACAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (40 bp):
AAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTAAAA
Found at i:7386167 original size:40 final size:41
Alignment explanation
Indices: 7386073--7386167 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
7386063 GCTTCAGCAG
*
7386073 CTTTAGCGGCG-TTTTTTGAAAAGCGCCGCTAAAGGTTGAGT
1 CTTTAGCGGCGCTTTTTTGAAAA-CGCCGCTAAAGCTTGAGT
* * *
7386114 ATTT-GCGGTGCTTTTTTAGAAAA-GCCGCTAATGCTTGA-T
1 CTTTAGCGGCGCTTTTTT-GAAAACGCCGCTAAAGCTTGAGT
7386153 CTTTAGCGGCGCTTT
1 CTTTAGCGGCGCTTT
7386168 CGAAAAACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
39 4 0.09
40 27 0.60
41 9 0.20
42 5 0.11
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTTTGAAAACGCCGCTAAAGCTTGAGT
Found at i:7386463 original size:40 final size:40
Alignment explanation
Indices: 7386418--7386512 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
7386408 TTTAGCGACA
* *
7386418 CTTTTGTAAAAACGCCGCTATAGGTCAAGTTTTAGTGGCG
1 CTTTTGTAAAAACGCCGCTATAGGTCAAGTATTAGAGGCG
** *
7386458 CTTTTGTAAAAACGTTGCTATAGGTCGAGTATTAGAGGCG
1 CTTTTGTAAAAACGCCGCTATAGGTCAAGTATTAGAGGCG
7386498 CTTTT-TGAAAAACGC
1 CTTTTGT-AAAAACGC
7386513 TGCAAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
CTTTTGTAAAAACGCCGCTATAGGTCAAGTATTAGAGGCG
Found at i:7386992 original size:14 final size:14
Alignment explanation
Indices: 7386975--7387026 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
7386965 GAGTTTTGAT
7386975 TTTATAGTTTATGG
1 TTTATAGTTTATGG
* *
7386989 TTTAGAGTTTAGGG
1 TTTATAGTTTATGG
*
7387003 TTTAT-GATTTATTGT
1 TTTATAG-TTTA-TGG
7387018 TTTATAGTT
1 TTTATAGTT
7387027 AAGGTCTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 1 0.03
14 20 0.67
15 8 0.27
16 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTATAGTTTATGG
Found at i:7387513 original size:25 final size:25
Alignment explanation
Indices: 7387466--7387513 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
7387456 ACAATTATTG
* *
7387466 ATATAAAAATATTTATATTTATTCA
1 ATATAAAAATATTTAGATGTATTCA
7387491 ATATAAAAATATATT-GATGTATT
1 ATATAAAAATAT-TTAGATGTATT
7387514 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATAAAAATATTTAGATGTATTCA
Found at i:7387883 original size:27 final size:27
Alignment explanation
Indices: 7387863--7387923 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
7387853 GCCTTTCTCT
*
7387863 GAGGCGCAAATGATTGTGCCTACCTCA
1 GAGGCACAAATGATTGTGCCTACCTCA
*
7387890 GAGGCACAAATGGTTGTGCCTATCC-CA
1 GAGGCACAAATGATTGTGCCTA-CCTCA
7387917 GAGGCAC
1 GAGGCAC
7387924 CCCACACGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (27 bp):
GAGGCACAAATGATTGTGCCTACCTCA
Found at i:7391429 original size:33 final size:32
Alignment explanation
Indices: 7391353--7391434 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 32
7391343 ATGAACTTGA
* *
7391353 GCCGGGAGGAGTGGAGTACGACGATTGATAAG
1 GCCGGAAGGAGTGGAGTACGACGATGGATAAG
* * *
7391385 GCCCGAGAGGAGTGGAGTACGGC-AGTGGATACGG
1 GCCGGA-AGGAGTGGAGTACGACGA-TGGATA-AG
*
7391419 GCCGGAAGGAGCGGAG
1 GCCGGAAGGAGTGGAG
7391435 CACTAAGGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
32 5 0.12
33 29 0.73
34 6 0.15
ACGTcount: A:0.26, C:0.16, G:0.48, T:0.11
Consensus pattern (32 bp):
GCCGGAAGGAGTGGAGTACGACGATGGATAAG
Found at i:7394734 original size:60 final size:62
Alignment explanation
Indices: 7394655--7394778 Score: 189
Period size: 60 Copynumber: 2.0 Consensus size: 62
7394645 TAAATACAAC
* * * *
7394655 AATTTATAACTTAATCCTAAATAACTAATAAATTAATTTTAAAATAATTA-CAAACACAAAA
1 AATTTATAACATAATCCTAAATAACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAA
*
7394716 AATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAA
1 AATTTATAACATAATCCTAAATAACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAA
7394777 AA
1 AA
7394779 AAATTACATT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 41 0.72
61 16 0.28
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.32
Consensus pattern (62 bp):
AATTTATAACATAATCCTAAATAACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAA
Found at i:7395193 original size:27 final size:28
Alignment explanation
Indices: 7395155--7395222 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
7395145 GGGGCACTGT
7395155 TACCAGGCGCGATTAATTGCGCCTAT-C
1 TACCAGGCGCGATTAATTGCGCCTATCC
*
7395182 TACCAGGCGCGATTAGTTGCGCCTATCC
1 TACCAGGCGCGATTAATTGCGCCTATCC
*
7395210 GA-CAGGCGCGATT
1 TACCAGGCGCGATT
7395223 CATTTTTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (28 bp):
TACCAGGCGCGATTAATTGCGCCTATCC
Found at i:7395674 original size:8 final size:8
Alignment explanation
Indices: 7395663--7395736 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
7395653 TTTATATGGT
7395663 AATTTAAA
1 AATTTAAA
7395671 AATTATAAA
1 AATT-TAAA
7395680 AATCTTAAAAA
1 AAT-TT--AAA
7395691 AATTTTAAA
1 AA-TTTAAA
7395700 AA-TT-AA
1 AATTTAAA
7395706 AATTTAAA
1 AATTTAAA
* *
7395714 AAATAAAA
1 AATTTAAA
*
7395722 AACTTAAA
1 AATTTAAA
*
7395730 AACTTAA
1 AATTTAA
7395737 TATTTTAGTC
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
6 4 0.07
7 4 0.07
8 25 0.45
9 13 0.24
10 1 0.02
11 7 0.13
12 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (8 bp):
AATTTAAA
Found at i:7395709 original size:15 final size:15
Alignment explanation
Indices: 7395689--7395743 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7395679 AAATCTTAAA
7395689 AAAATTTTAAAAATT
1 AAAATTTTAAAAATT
* *
7395704 AAAATTTAAAAAATA
1 AAAATTTTAAAAATT
**
7395719 AAAAACTTAAAAACTT
1 AAAATTTTAAAAA-TT
*
7395735 AATATTTTA
1 AAAATTTTA
7395744 GTCCATATTT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATTTTAAAAATT
Found at i:7395713 original size:14 final size:15
Alignment explanation
Indices: 7395689--7395721 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7395679 AAATCTTAAA
*
7395689 AAAATTTTAAAAATT
1 AAAATTTTAAAAAAT
7395704 AAAA-TTTAAAAAAT
1 AAAATTTTAAAAAAT
7395718 AAAA
1 AAAA
7395722 AACTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTTTAAAAAAT
Found at i:7399921 original size:23 final size:23
Alignment explanation
Indices: 7399887--7400562 Score: 526
Period size: 23 Copynumber: 29.5 Consensus size: 23
7399877 AAATGTTGTT
**
7399887 AATTG-AGATGTTAAAGTGCAACA
1 AATTGAAG-TGTTAAAGTGCTGCA
7399910 AATTGAAGTGTTTAAA-TGCTGCA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
7399933 AATTGAAGTGTT-TAGATGCTGCA
1 AATTGAAGTGTTAAAG-TGCTGCA
7399956 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
*
7399979 AATTGAAGTGTTAAA-TGCTGTA
1 AATTGAAGTGTTAAAGTGCTGCA
*
7400001 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
7400024 AATTGAAGTGCTTAAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* * *
7400047 TATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
7400070 AATTGAAGTGTT-TAGTTGCTGGA
1 AATTGAAGTGTTAAAG-TGCTGCA
** *
7400093 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTAAAGT-GCTGCA
* **
7400115 AATTG-AGATGTATAAA-TGTTGTT
1 AATTGAAG-TGT-TAAAGTGCTGCA
7400138 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
*
7400161 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
7400184 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
7400207 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
*
7400230 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
7400253 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
*
7400276 AATTGAAGTGTT-TAGTTGCTTG-A
1 AATTGAAGTGTTAAAG-TGC-TGCA
7400299 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
* *
7400322 AATTGAAGTGTTTAAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
7400345 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* * *
7400368 AATTGAAGTGTTTGAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
7400391 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
7400414 AATTGAAGTGTT-TAGTTGCTGGA
1 AATTGAAGTGTTAAAG-TGCTGCA
* * *
7400437 AATTG-AGATGTTTTAA-CGCTG-T
1 AATTGAAG-TG-TTAAAGTGCTGCA
* * **
7400459 AATTGAGGAGTATAAACGT--TGTT
1 AATTGAAGTGT-TAAA-GTGCTGCA
7400482 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
* *
7400505 AATTGAAGTGTTTAAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* * *
7400528 AATTGAAGTTTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
*
7400551 AATTGAATTGTT
1 AATTGAAGTGTT
7400563 TAGTTGCTGA
Statistics
Matches: 543, Mismatches: 66, Indels: 88
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.01
22 93 0.17
23 398 0.73
24 47 0.09
25 1 0.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:7399958 original size:46 final size:47
Alignment explanation
Indices: 7399897--7400564 Score: 620
Period size: 46 Copynumber: 14.6 Consensus size: 47
7399887 AATTGAGATG
** *
7399897 TTAAAGTGCAACAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* *
7399944 TTAGA-TGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGT
* *
7399989 TTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGC
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* * * * * *
7400035 TTAAA-TGTTGTATATTGAAGTGTTTAAGTACTGCAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* *
7400081 TT--AGTTGCTGGAAATTG-AGATGTTT-TATCGCTGT-AATTG-AGATGT
1 TTAAAG-TGCTGCAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAG-TGT
* * ** *
7400126 ATAAA-TGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGT
* *
7400172 TTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGT
7400217 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* **
7400264 TT-AAGTACTGCAAATTGAAGTGTTTAGTTGCT-TGAAATTG-AGATG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGT-AAATTGAAG-TGT
*
7400309 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* *
7400355 TTAAAGTGCTGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* ** *
7400402 TT-AAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGT
* * * * * * * * *
7400448 TTTAA-CGCTG-TAATTGAGGAGTATAAACGTTGTTAATTG-AGATG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGT
*
7400492 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGT-T
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* * *
7400538 TTTAAGTACTGCAAATTGAATTGTTTA
1 TTAAAGTGCTGCAAATTGAAGTGTTTA
7400565 GTTGCTGAAA
Statistics
Matches: 524, Mismatches: 67, Indels: 61
0.80 0.10 0.09
Matches are distributed among these distances:
44 9 0.02
45 112 0.21
46 378 0.72
47 25 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (47 bp):
TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
Found at i:7400571 original size:69 final size:68
Alignment explanation
Indices: 7399909--7400576 Score: 653
Period size: 69 Copynumber: 9.7 Consensus size: 68
7399899 AAAGTGCAAC
*
7399909 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGATGCTGCAAATTGAAGTG-TTAAAGT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATTGAAGTGTTTAAA-T
*
7399973 GCTGC
64 GCTGT
* * * * *
7399978 AAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTGCTGCAAATTGAAGTGTTTAAATG
*
7400042 TTGT
65 CTGT
* * * *
7400046 ATATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTT-TAT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATTGAAG-TGTTTAAAT
7400109 CGCTGT
64 -GCTGT
* * * ** *
7400115 -AATTG-AGATGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAA
1 AAATTGAAG-TGTTTAAGTGCTGCAAATTGAAG-TGTT-TAGTGCTGCAAATTGAAGTGTTTAAA
7400177 TGCTGT
63 TGCTGT
* *
7400183 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT-TAGTGCTGCAAATTGAAGTGTTTAAATG
7400248 CTGT
65 CTGT
*
7400252 AAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTTG-AAATTG-AGATG-TTAAA
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-TGC-TGCAAATTGAAG-TGTTTAAA
*
7400314 GTGCTGC
63 -TGCTGT
* * * * *
7400321 AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT-TAGTGCTGCAAATTGAAGTGTTTAAATG
*
7400386 TTGT
65 CTGT
* * * *
7400390 AAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTAAC
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATTGAAG-TGTTTAAAT
7400454 GCTGT
64 GCTGT
* * * ** * ** *
7400459 -AATTGAGGAGTATAAACGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAG-TGTT-TAGTGCTGCAAATTGAAGTGTTTAAAT
*
7400522 GTTGT
64 GCTGT
* * *
7400527 AAATTGAAGTTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTG-AAATT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATT
7400577 TAGTTTTTGT
Statistics
Matches: 492, Mismatches: 77, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
67 6 0.01
68 169 0.34
69 302 0.61
70 15 0.03
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (68 bp):
AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTGCTGCAAATTGAAGTGTTTAAATGC
TGT
Found at i:7401213 original size:43 final size:43
Alignment explanation
Indices: 7401147--7401314 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
7401137 GGGAAAAACG
* * *
7401147 TCGCTAAAAGTCAGATTCTTTAGCAGCGTTTGTGGAGAAAGCA
1 TCGCTAAAGGTCATATTCTTTAGCAGCGTTTGTGGAGAAAGTA
* * * * * * *
7401190 TCGGTAAATGTTATATTCGTTAGCGGTGTTTTTAGGA-AAAGTA
1 TCGCTAAAGGTCATATTCTTTAGCAGCGTTTGT-GGAGAAAGTA
* * * * * *
7401233 TCGTTAAAGGTGATGTTTTTTAGCAGCGTTTGTGGGGAAAGTG
1 TCGCTAAAGGTCATATTCTTTAGCAGCGTTTGTGGAGAAAGTA
* *
7401276 TCGCTAAAGGTCATACTCTTTAGCAGCATTTGTGG-GAAA
1 TCGCTAAAGGTCATATTCTTTAGCAGCGTTTGTGGAGAAA
7401315 AGCCCCGCTA
Statistics
Matches: 97, Mismatches: 26, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
42 6 0.06
43 88 0.91
44 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (43 bp):
TCGCTAAAGGTCATATTCTTTAGCAGCGTTTGTGGAGAAAGTA
Found at i:7401324 original size:43 final size:43
Alignment explanation
Indices: 7401251--7401332 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
7401241 GGTGATGTTT
* * *** *
7401251 TTTAGCAGCGTTTGTGGGGAAAGTGTCGCTAAAGGTCATACTC
1 TTTAGCAGCATTTGTGGGAAAAGCCCCGCTAAAAGTCATACTC
7401294 TTTAGCAGCATTTGTGGGAAAAGCCCCGCTAAAAGTCAT
1 TTTAGCAGCATTTGTGGGAAAAGCCCCGCTAAAAGTCAT
7401333 GTTTTATAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TTTAGCAGCATTTGTGGGAAAAGCCCCGCTAAAAGTCATACTC
Found at i:7401989 original size:14 final size:14
Alignment explanation
Indices: 7401970--7401998 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7401960 CAATACCACG
7401970 TCTCACTCGTTCCA
1 TCTCACTCGTTCCA
7401984 TCTCACTCGTTCCA
1 TCTCACTCGTTCCA
7401998 T
1 T
7401999 GTTAGTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.41, G:0.07, T:0.38
Consensus pattern (14 bp):
TCTCACTCGTTCCA
Found at i:7409804 original size:19 final size:19
Alignment explanation
Indices: 7409759--7409806 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
7409749 TTTCTTTTTG
*
7409759 TATAT-TATATCATATCTA
1 TATATATATATCATATATA
*
7409777 -ATCTCATATATCATATATA
1 TATAT-ATATATCATATATA
7409796 TATATATATAT
1 TATATATATAT
7409807 GATAAATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TATATATATATCATATATA
Found at i:7411857 original size:8 final size:7
Alignment explanation
Indices: 7411827--7411874 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
7411817 ACTTGAATTC
*
7411827 ATTTCAA
1 ATTTCAT
7411834 ATTTCAT
1 ATTTCAT
*
7411841 ATCTC--
1 ATTTCAT
7411846 ATTTCAT
1 ATTTCAT
7411853 CATTTCAT
1 -ATTTCAT
7411861 ATTTCAT
1 ATTTCAT
7411868 ATTTCAT
1 ATTTCAT
7411875 TTCTAATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
5 4 0.11
7 24 0.69
8 7 0.20
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (7 bp):
ATTTCAT
Found at i:7411859 original size:20 final size:19
Alignment explanation
Indices: 7411825--7411867 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
7411815 CTACTTGAAT
7411825 TCATTTCAAATTTCATATC
1 TCATTTCAAATTTCATATC
* *
7411844 TCATTTCATCATTTCATATT
1 TCATTTCA-AATTTCATATC
7411864 TCAT
1 TCAT
7411868 ATTTCATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (19 bp):
TCATTTCAAATTTCATATC
Found at i:7411859 original size:27 final size:26
Alignment explanation
Indices: 7411825--7411899 Score: 98
Period size: 27 Copynumber: 2.9 Consensus size: 26
7411815 CTACTTGAAT
*
7411825 TCATTTCAAATTTCATATCTCATTTC
1 TCATTTCATATTTCATATCTCATTTC
*
7411851 ATCATTTCATATTTCATATTTCATTTC
1 -TCATTTCATATTTCATATCTCATTTC
* *
7411878 TAATTTCATA-TTCATTTCTCAT
1 TCATTTCATATTTCATATCTCAT
7411900 CTTTTCCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 10 0.23
26 9 0.21
27 24 0.56
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (26 bp):
TCATTTCATATTTCATATCTCATTTC
Found at i:7411876 original size:19 final size:19
Alignment explanation
Indices: 7411834--7411895 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
7411824 TTCATTTCAA
*
7411834 ATTTCATATCTCAT-TTCATC
1 ATTTCATATTTCATATT--TC
7411854 ATTTCATATTTCATATTTC
1 ATTTCATATTTCATATTTC
7411873 ATTTC-TAATTTCATA-TTC
1 ATTTCAT-ATTTCATATTTC
7411891 ATTTC
1 ATTTC
7411896 TCATCTTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 9 0.23
19 15 0.38
20 13 0.33
21 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTCATATTTCATATTTC
Found at i:7413739 original size:19 final size:19
Alignment explanation
Indices: 7413694--7413763 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
7413684 CAAATAACTA
*
7413694 TTAATAGTTA-TTATAAATT
1 TTAATAATTATTTAT-AATT
* *
7413713 TGATTAATTATTTATAATT
1 TTAATAATTATTTATAATT
7413732 TTAATAA-TATTTAATAATAT
1 TTAATAATTATTT-ATAAT-T
*
7413752 TTTAT-ATTATTT
1 TTAATAATTATTT
7413764 TAAAGGGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.12
19 22 0.54
20 14 0.34
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTAATAATTATTTATAATT
Found at i:7413744 original size:10 final size:10
Alignment explanation
Indices: 7413721--7413763 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
7413711 TTTGATTAAT
7413721 TATTT-ATAA
1 TATTTAATAA
7413730 T-TTTAATAA
1 TATTTAATAA
7413739 TATTTAATAA
1 TATTTAATAA
* *
7413749 TATTTTATAT
1 TATTTAATAA
7413759 TATTT
1 TATTT
7413764 TAAAGGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 3 0.10
9 6 0.20
10 21 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTAATAA
Found at i:7414368 original size:21 final size:21
Alignment explanation
Indices: 7414342--7414384 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7414332 CGTAACTAAG
7414342 AAAAAGTCTTTCTCTAGATCC
1 AAAAAGTCTTTCTCTAGATCC
7414363 AAAAAGTCTTTCTCTAGATCC
1 AAAAAGTCTTTCTCTAGATCC
7414384 A
1 A
7414385 TCAACTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAAAGTCTTTCTCTAGATCC
Done.