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 22 of 59
Found at i:7964758 original size:23 final size:22
Alignment explanation
Indices: 7964720--7964771 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7964710 AAACCTTAGG
* *
7964720 AGAGAGAAAAAAAAAAGAAGAA
1 AGAGAAAAAAAAAAAAAAAGAA
*
7964742 AG-GAAAAAAAAAGAAAAAAGGA
1 AGAGAAAAAAAAA-AAAAAAGAA
7964764 AGAGAAAA
1 AGAGAAAA
7964772 GCTCGGAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
AGAGAAAAAAAAAAAAAAAGAA
Found at i:7964772 original size:18 final size:18
Alignment explanation
Indices: 7964727--7964764 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7964717 AGGAGAGAGA
*
7964727 AAAAAAAAAGAAGAAAGG
1 AAAAAAAAAGAAAAAAGG
7964745 AAAAAAAAAGAAAAAAGG
1 AAAAAAAAAGAAAAAAGG
7964763 AA
1 AA
7964765 GAGAAAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAGG
Found at i:7966667 original size:43 final size:42
Alignment explanation
Indices: 7966576--7966727 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
7966566 CCACACTCAG
* * *
7966576 CTCATGTGCGCTCCCTACACGCACA-ATG-CA-AT-ATCATCA
1 CTCATGTGCACTCCCTACTCGCACATA-GACAGGTCATCATCA
*
7966615 -TCATGTGCACTCCCTACTCGCGCATAGACAGGTCATCATCA
1 CTCATGTGCACTCCCTACTCGCACATAGACAGGTCATCATCA
* * * * *
7966656 GCTCATGTGCACTCCTTACTAGCAAATAGTCGGGTCATCATCAA
1 -CTCATGTGCACTCCCTACTCGCACATAGACAGGTCATCATC-A
7966700 CTCATGTGCACTCCCATAC-CGCACATAG
1 CTCATGTGCACTCCC-TACTCGCACATAG
7966728 CTGGGTCATC
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 22 0.24
39 3 0.03
40 1 0.01
41 7 0.08
43 55 0.60
44 4 0.04
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (42 bp):
CTCATGTGCACTCCCTACTCGCACATAGACAGGTCATCATCA
Found at i:7966734 original size:43 final size:43
Alignment explanation
Indices: 7966608--7966739 Score: 148
Period size: 43 Copynumber: 3.1 Consensus size: 43
7966598 ACAATGCAAT
* *
7966608 ATCATC-A-TCATGTGCACTCCCTACTCGCGCATAGAC-AGGTC
1 ATCATCAACTCATGTGCACTCCCTACTCGCACATAG-CTGGGTC
* * * *
7966649 ATCATCAGCTCATGTGCACTCCTTACTAGCAAATAG-TCGGGTC
1 ATCATCAACTCATGTGCACTCCCTACTCGCACATAGCT-GGGTC
7966692 ATCATCAACTCATGTGCACTCCCATAC-CGCACATAGCTGGGTC
1 ATCATCAACTCATGTGCACTCCC-TACTCGCACATAGCTGGGTC
7966735 ATCAT
1 ATCAT
7966740 TATTACAGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
41 6 0.08
43 65 0.87
44 4 0.05
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCATCAACTCATGTGCACTCCCTACTCGCACATAGCTGGGTC
Found at i:7976943 original size:43 final size:43
Alignment explanation
Indices: 7976889--7977051 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
7976879 TATTATCATT
* *
7976889 ATGTACACTCCCTAC-TCGCACATAG-TCGAGTCATTATCAACTC
1 ATGTGCACTCCC-ACATCGCACATAGCT-GAGTCATTATCAGCTC
* *
7976932 ATGTGCACTCCCTAC-TCGCAAATAGCTGAGTCATCATCAGCTC
1 ATGTGCACTCCC-ACATCGCACATAGCTGAGTCATTATCAGCTC
* * * * *
7976975 ATGTGCGCTTCCACGTCACACATAGCTGGGTCATTATCAGCTC
1 ATGTGCACTCCCACATCGCACATAGCTGAGTCATTATCAGCTC
* * *
7977018 ATGTGCACTCCCACACCGCACATAGTTGGGTCAT
1 ATGTGCACTCCCACATCGCACATAGCTGAGTCAT
7977052 CATTATCACA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 2 0.02
43 99 0.97
44 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGTGCACTCCCACATCGCACATAGCTGAGTCATTATCAGCTC
Found at i:7978871 original size:36 final size:39
Alignment explanation
Indices: 7978785--7978888 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
7978775 GCACACGCCG
* * *
7978785 ATATGCCATGTGCGGTGTGGGAGAGTACATGATGATGAT
1 ATATGCCATGTGCGGTGTGGGAGTGCACATGAGGATGAT
7978824 ATATGCCATGTGCGGTGTGGGAGTGCACATGAGGAT-AT
1 ATATGCCATGTGCGGTGTGGGAGTGCACATGAGGATGAT
* *
7978862 -TA-GCTATGTGCGGTGCGGGAGTGCACA
1 ATATGCCATGTGCGGTGTGGGAGTGCACA
7978889 CGTGCTTAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
36 23 0.38
37 2 0.03
38 2 0.03
39 33 0.55
ACGTcount: A:0.23, C:0.13, G:0.38, T:0.26
Consensus pattern (39 bp):
ATATGCCATGTGCGGTGTGGGAGTGCACATGAGGATGAT
Found at i:7980458 original size:54 final size:55
Alignment explanation
Indices: 7980302--7980459 Score: 250
Period size: 54 Copynumber: 2.9 Consensus size: 55
7980292 ATTCGTATAC
* *
7980302 CACCCCATC-TCACCCAGCTCATGTGTATCCCCCCACATCGTGCACATAACCGGA
1 CACCCCATCTTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
*
7980356 CACCCCATCTTCA-CCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGGA
1 CACCCCATCTTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
* *
7980410 CACCTCGT-TTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGC
1 CACCCCATCTTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGC
7980460 TAGAGTCATC
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
53 4 0.04
54 89 0.93
55 3 0.03
ACGTcount: A:0.22, C:0.44, G:0.14, T:0.20
Consensus pattern (55 bp):
CACCCCATCTTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
Found at i:7989322 original size:54 final size:54
Alignment explanation
Indices: 7989246--7989348 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
7989236 TCATCATGTA
7989246 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
* *
7989300 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCATATAGCCGAA
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAA
7989349 TAATATCAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.41, G:0.13, T:0.19
Consensus pattern (54 bp):
CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
Found at i:7996906 original size:25 final size:25
Alignment explanation
Indices: 7996829--7996909 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
7996819 TCATCATGTG
7996829 CATCTCACCTAGCTCATGTGCATCC
1 CATCTCACCTAGCTCATGTGCATCC
* * * * *
7996854 CACCACATCGT-GCACATAGCCGGACATCC
1 CATCTCA-CCTAGCTCAT-G--TG-CATCC
7996883 CATCTCACCTAGCTCATGTGCATCC
1 CATCTCACCTAGCTCATGTGCATCC
7996908 CA
1 CA
7996910 CCATATCATG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 17 0.43
26 4 0.10
28 4 0.10
29 15 0.38
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.22
Consensus pattern (25 bp):
CATCTCACCTAGCTCATGTGCATCC
Found at i:7996911 original size:54 final size:54
Alignment explanation
Indices: 7996829--7996979 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
7996819 TCATCATGTG
* **
7996829 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCATATCGTGCACATAGCCAAACATCC
*
7996883 CATCTCACCTAGCTCATGTGCATCCCACCATATCATGCACATAGCCAAACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCATATCGTGCACATAGCCAAACATCC
* * * *
7996937 CATTTCACCTAGCCCATGTACATTCCACCATATCGTGCACATA
1 CATCTCACCTAGCTCATGTGCATCCCACCATATCGTGCACATA
7996980 ACCAGATAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.27, C:0.38, G:0.11, T:0.23
Consensus pattern (54 bp):
CATCTCACCTAGCTCATGTGCATCCCACCATATCGTGCACATAGCCAAACATCC
Found at i:8005161 original size:44 final size:44
Alignment explanation
Indices: 8005101--8005184 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
8005091 TATTTGATAC
* *
8005101 ATTAATAGTGTATAATTTCTATTTATTGTTTGATTATGATAAAT
1 ATTAATAGAGTATAATTTCTATTTATTGTTTAATTATGATAAAT
*
8005145 ATTAATAGAGTGTAATTTCTATTTATTGTTTAATTATGAT
1 ATTAATAGAGTATAATTTCTATTTATTGTTTAATTATGAT
8005185 GAACTATCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (44 bp):
ATTAATAGAGTATAATTTCTATTTATTGTTTAATTATGATAAAT
Found at i:8009770 original size:23 final size:22
Alignment explanation
Indices: 8009750--8009804 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
8009740 ATCTAATCAA
8009750 TAATT-AACTGATTTATGAATC
1 TAATTAAACTGATTTATGAATC
*
8009771 TAATTGAAACTGATTTGTGAATC
1 TAATT-AAACTGATTTATGAATC
8009794 TAATTGAAACT
1 TAATT-AAACT
8009805 CAACAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 5 0.16
23 26 0.84
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
TAATTAAACTGATTTATGAATC
Found at i:8021724 original size:89 final size:88
Alignment explanation
Indices: 8021573--8021749 Score: 336
Period size: 89 Copynumber: 2.0 Consensus size: 88
8021563 GGATAGGAAG
8021573 GAGAAGAAGAAGAAGTGCTGAAAATTTGAAGAACATCCTAGAAACTTAGATTTTTATGGCTTAAG
1 GAGAAGAAGAAGAAGTGCTGAAAATTTGAAGAACATCCTAGAAACTTAGATTTTTATGGCTTAAG
8021638 TTTATCCATTTCTAGCAAAATTA
66 TTTATCCATTTCTAGCAAAATTA
8021661 NGAGAAGAAGAAGAAGTGCTGAAAATTTGAAGAACATCCTAGAAACTTAGATTTTTATGGCTTAA
1 -GAGAAGAAGAAGAAGTGCTGAAAATTTGAAGAACATCCTAGAAACTTAGATTTTTATGGCTTAA
*
8021726 GTTTATCCGTTTCTAGCAAAATTA
65 GTTTATCCATTTCTAGCAAAATTA
8021750 CCAAAATGCC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (88 bp):
GAGAAGAAGAAGAAGTGCTGAAAATTTGAAGAACATCCTAGAAACTTAGATTTTTATGGCTTAAG
TTTATCCATTTCTAGCAAAATTA
Found at i:8024924 original size:32 final size:32
Alignment explanation
Indices: 8024880--8024940 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
8024870 GATGAGACCT
8024880 TAACTAACTCAAAAACTAAGAAAATACCTAGA
1 TAACTAACTCAAAAACTAAGAAAATACCTAGA
* *
8024912 TAACTAAGTCAAAAATTAAGAAAATACCT
1 TAACTAACTCAAAAACTAAGAAAATACCT
8024941 CGGTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (32 bp):
TAACTAACTCAAAAACTAAGAAAATACCTAGA
Found at i:8030591 original size:21 final size:20
Alignment explanation
Indices: 8030550--8030606 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
8030540 ATGGTCTATG
8030550 AAATTGAATTAATTAATTTA
1 AAATTGAATTAATTAATTTA
* *
8030570 AAATTGAATATGATTCATTT-
1 AAATTGAAT-TAATTAATTTA
8030590 AAATT-AATTAATTAATT
1 AAATTGAATTAATTAATT
8030607 AATAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.22
19 3 0.09
20 14 0.44
21 8 0.25
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
AAATTGAATTAATTAATTTA
Found at i:8035057 original size:11 final size:11
Alignment explanation
Indices: 8035041--8035073 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8035031 CATACGTGAG
8035041 AAAATAATATT
1 AAAATAATATT
*
8035052 AAAATAATA-A
1 AAAATAATATT
8035062 AAAATAATATT
1 AAAATAATATT
8035073 A
1 A
8035074 CTATATTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATATT
Found at i:8077283 original size:30 final size:31
Alignment explanation
Indices: 8077211--8077287 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
8077201 TGCTCCCAAG
*
8077211 AGTGCTCCCCTCCCTTAGGGAGCACCAGATC
1 AGTGCTCCCCTCCCTTAGGGACCACCAGATC
* * * *
8077242 AATGCTCCCCTCCCTTA-GGACCACTATATT
1 AGTGCTCCCCTCCCTTAGGGACCACCAGATC
*
8077272 AGTGTTCCCCTCCCTT
1 AGTGCTCCCCTCCCTT
8077288 GTGGAGCACC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.18, C:0.39, G:0.16, T:0.27
Consensus pattern (31 bp):
AGTGCTCCCCTCCCTTAGGGACCACCAGATC
Found at i:8078468 original size:2 final size:2
Alignment explanation
Indices: 8078457--8078486 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8078447 CTATTACTAC
8078457 TA TA -A 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 T
8078487 CCTTATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8082005 original size:58 final size:58
Alignment explanation
Indices: 8081941--8082054 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
8081931 TTTTTCAAGT
*
8081941 AATGAAACTATTTTTCACCAACAAACATTCGATAATTAGTTCAAACTAACCTGTAATC
1 AATGAAACTATCTTTCACCAACAAACATTCGATAATTAGTTCAAACTAACCTGTAATC
*
8081999 AATGAAACTATCTTTCACCAACAAACATTCGTTAATTAGTTCAAACTAACCTGTAA
1 AATGAAACTATCTTTCACCAACAAACATTCGATAATTAGTTCAAACTAACCTGTAA
8082055 CCTTGCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (58 bp):
AATGAAACTATCTTTCACCAACAAACATTCGATAATTAGTTCAAACTAACCTGTAATC
Found at i:8087097 original size:37 final size:36
Alignment explanation
Indices: 8087047--8087137 Score: 114
Period size: 35 Copynumber: 2.5 Consensus size: 36
8087037 AAGGAAATGT
*
8087047 GCTTTTTAACGAGATTAAGCATTA-AACCCTTACAATC
1 GCTTTTTAACGAGATCAAGC--TACAACCCTTACAATC
8087084 GCTTTTTAACGAGATCAAGCTACAACCCTTACAA-C
1 GCTTTTTAACGAGATCAAGCTACAACCCTTACAATC
** *
8087119 ATTTTTTCACGAGATCAAG
1 GCTTTTTAACGAGATCAAG
8087138 TAGAATCACT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 19 0.39
36 11 0.22
37 19 0.39
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (36 bp):
GCTTTTTAACGAGATCAAGCTACAACCCTTACAATC
Found at i:8088479 original size:20 final size:20
Alignment explanation
Indices: 8088454--8088505 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
8088444 TTTATGTTTA
8088454 AATGTTTATTTTAGGTTAAT
1 AATGTTTATTTTAGGTTAAT
* *
8088474 AATG-TTAGTTTTATGTTATT
1 AATGTTTA-TTTTAGGTTAAT
*
8088494 TATGTTTATTTT
1 AATGTTTATTTT
8088506 TAAGTTTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.13, T:0.62
Consensus pattern (20 bp):
AATGTTTATTTTAGGTTAAT
Found at i:8089650 original size:16 final size:16
Alignment explanation
Indices: 8089613--8089659 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
8089603 TTTTGTTTTT
*
8089613 TTTTCTAATTAGTTTAG
1 TTTT-TAATTAATTTAG
8089630 TTTTTAATCTAATTTAG
1 TTTTTAAT-TAATTTAG
8089647 -TTTTAATTAATTT
1 TTTTTAATTAATTT
8089660 TCTACAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
17 11 0.39
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTAATTAATTTAG
Found at i:8090630 original size:37 final size:36
Alignment explanation
Indices: 8090589--8090702 Score: 92
Period size: 37 Copynumber: 3.1 Consensus size: 36
8090579 GGCAAAATGC
8090589 CCACAAGCATAAATTATGAGAGTGGATGAGTAAGTCT
1 CCACAA-CATAAATTATGAGAGTGGATGAGTAAGTCT
** * * * *
8090626 CCACAAC-TTGATTGTTATATGTGGAT-AGTAAAATGC-
1 CCACAACATAAATTATGAGA-GTGGATGAGT-AAGT-CT
8090662 CCACAA-ATATACATTATGAGAGTGGATGAGTAAGTCT
1 CCACAACATA-A-ATTATGAGAGTGGATGAGTAAGTCT
8090699 CCAC
1 CCAC
8090703 CACTTGATTG
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
35 10 0.18
36 18 0.32
37 20 0.35
38 9 0.16
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (36 bp):
CCACAACATAAATTATGAGAGTGGATGAGTAAGTCT
Found at i:8090693 original size:73 final size:73
Alignment explanation
Indices: 8090582--8090738 Score: 244
Period size: 73 Copynumber: 2.2 Consensus size: 73
8090572 TATGGATGGC
* *
8090582 AAAATGCCCACAAGCATAAATTATGAGAGTGGATGAGTAAGTCTCCACAACTTGATTGTTATATG
1 AAAATGCCCACAAACATAAATTATGAGAGTGGATGAGTAAGTCTCCACAACTTGATTGATATATG
*
8090647 TGGATAGT-
66 TGAATA-TA
* * *
8090655 AAAATGCCCACAAATATACATTATGAGAGTGGATGAGTAAGTCTCCACCACTTGATTGATATATG
1 AAAATGCCCACAAACATAAATTATGAGAGTGGATGAGTAAGTCTCCACAACTTGATTGATATATG
8090720 TGAATATA
66 TGAATATA
8090728 AAAATGCCCAC
1 AAAATGCCCAC
8090739 TGATGAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.01
73 76 0.99
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (73 bp):
AAAATGCCCACAAACATAAATTATGAGAGTGGATGAGTAAGTCTCCACAACTTGATTGATATATG
TGAATATA
Found at i:8090985 original size:35 final size:35
Alignment explanation
Indices: 8090889--8090988 Score: 114
Period size: 36 Copynumber: 2.8 Consensus size: 35
8090879 CCTTGAGTGC
*
8090889 ATAAAGGCCAAATGTGGGGCGTCATACCACATGTG
1 ATAAAGGCCAAATGTGGGGCGTTATACCACATGTG
* * *
8090924 -TAAGAGGGCTAGATGTGGGGCGTTATACCATACTG-G
1 ATAA-A-GGCCAAATGTGGGGCGTTATACCACA-TGTG
*
8090960 ATAAAGGCCAAATGTGGGGCATTATACCA
1 ATAAAGGCCAAATGTGGGGCGTTATACCA
8090989 AACAATTACC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
34 3 0.06
35 22 0.41
36 24 0.44
37 5 0.09
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (35 bp):
ATAAAGGCCAAATGTGGGGCGTTATACCACATGTG
Found at i:8104609 original size:19 final size:18
Alignment explanation
Indices: 8104576--8104611 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8104566 TATATTGAAT
8104576 TTGGGTATTTATGAAAAG
1 TTGGGTATTTATGAAAAG
*
8104594 TTGGGATATTTTTGAAAA
1 TTGGG-TATTTATGAAAA
8104612 CTAGGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (18 bp):
TTGGGTATTTATGAAAAG
Found at i:8104873 original size:2 final size:2
Alignment explanation
Indices: 8104866--8104898 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8104856 TTGATATGTA
8104866 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8104899 TTACCTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8108564 original size:21 final size:19
Alignment explanation
Indices: 8108538--8108578 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
8108528 AATTTAAAAC
8108538 AAAATAACATAAAATCTAACT
1 AAAATAAC-TAAAAT-TAACT
*
8108559 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
8108578 A
1 A
8108579 CTCGACGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:8114673 original size:21 final size:21
Alignment explanation
Indices: 8114647--8114687 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8114637 TAAAAACTAA
* *
8114647 TAAATAATAATCAAATTAAAT
1 TAAATAAAAATAAAATTAAAT
8114668 TAAATAAAAATAAAATTAAA
1 TAAATAAAAATAAAATTAAA
8114688 ATAACTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATAAAAATAAAATTAAAT
Found at i:8125504 original size:21 final size:19
Alignment explanation
Indices: 8125478--8125518 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
8125468 AATTTAAAAC
8125478 AAAATAACATAAAATCTAACT
1 AAAATAAC-TAAAAT-TAACT
*
8125499 AAAATAACTCAAATTAACT
1 AAAATAACTAAAATTAACT
8125518 A
1 A
8125519 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:8129434 original size:29 final size:31
Alignment explanation
Indices: 8129358--8129436 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 31
8129348 CTTTATGGAA
8129358 TTGGAATTCGATATTTGTTTCGACTTTGGACT
1 TTGGAATT-GATATTTGTTTCGACTTTGGACT
* *
8129390 TTGGAATTGATA-TTGTTT-GATTTTGGATT
1 TTGGAATTGATATTTGTTTCGACTTTGGACT
* *
8129419 TTGG-TTTGGTATTTGTTT
1 TTGGAATTGATATTTGTTT
8129437 AGAATCTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.12
29 19 0.45
30 6 0.14
31 4 0.10
32 8 0.19
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.54
Consensus pattern (31 bp):
TTGGAATTGATATTTGTTTCGACTTTGGACT
Found at i:8130507 original size:15 final size:15
Alignment explanation
Indices: 8130480--8130512 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8130470 CATGAATGTT
8130480 TGATGTATGGTCCCA
1 TGATGTATGGTCCCA
8130495 TGATG-ATGAGTCCCA
1 TGATGTATG-GTCCCA
8130510 TGA
1 TGA
8130513 GGTAATTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (15 bp):
TGATGTATGGTCCCA
Found at i:8134163 original size:21 final size:22
Alignment explanation
Indices: 8134122--8134163 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8134112 CGAGTGGTAC
*
8134122 AACTAAGTTAAATCGAGACTTG
1 AACTAAGTTAAATAGAGACTTG
8134144 AACT-AGTTCAAATAGA-ACTT
1 AACTAAGTT-AAATAGAGACTT
8134164 CTAAGAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (22 bp):
AACTAAGTTAAATAGAGACTTG
Found at i:8135113 original size:11 final size:11
Alignment explanation
Indices: 8135097--8135126 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8135087 AACCAGCAAC
8135097 AAGAACAAAGG
1 AAGAACAAAGG
8135108 AAGAACAAAGG
1 AAGAACAAAGG
*
8135119 AAAAACAA
1 AAGAACAA
8135127 GAAAACCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.10, G:0.20, T:0.00
Consensus pattern (11 bp):
AAGAACAAAGG
Found at i:8135141 original size:247 final size:246
Alignment explanation
Indices: 8134674--8135166 Score: 916
Period size: 248 Copynumber: 2.0 Consensus size: 246
8134664 TGGTAGGATT
*
8134674 GGATAAGTACCAGAATATTTGTGGTGGAAAATTAAGAAGAAAAAGTAAAAAATTAAAAAATTAGG
1 GGATAAGTACCAGAATATTTGTGGGGGAAAATTAAGAAGAAAAAGTAAAAAATTAAAAAATTAGG
* * *
8134739 CCAATAAGCATGTGACACGTGGCATGCTTGATTATTTTATTATTTTCTATAGAAATCAGCCCATT
66 CCAATAAGCATATGACACGTGACATGCTTGATTATTTTATTATTTTCTATAGAAATCAGCCCAGT
8134804 AAATCCCCAATTCTCTCACCATATTCTTCCTAGGCAACCAGCAACAAGAACAAAGGAAGAACAAA
131 AAATCCCCAATTCTCTCACCATATTCTTCCTAGGCAACCAGCAACAAGAACAAAGGAAGAACAAA
*
8134869 GGGAAAAACAAGAAAACCTAGGTGGAAATTCAAAGAAAAAGTGAAGAAATC
196 GGGAAAAACAAGAAAACCTAGGTGGAAAATCAAAGAAAAAGTGAAGAAATC
8134920 NGGATAAGTACCAGAATATTTGTGGGGGAAAATTAAGAAGAAAAAGTAAAAAAATTAAAAAATTA
1 -GGATAAGTACCAGAATATTTGTGGGGGAAAATTAAGAAGAAAAAGT-AAAAAATTAAAAAATTA
8134985 GGCCAATAAGCATATGACACGTGACATGCTTGATTATTTTATTATTTTCTATAGAAATCAGCCCA
64 GGCCAATAAGCATATGACACGTGACATGCTTGATTATTTTATTATTTTCTATAGAAATCAGCCCA
8135050 GTAAATCCCCAATTCTCTCACCATATTCTTCCTAGGCAACCAGCAACAAGAACAAAGGAAGAACA
129 GTAAATCCCCAATTCTCTCACCATATTCTTCCTAGGCAACCAGCAACAAGAACAAAGGAAGAACA
8135115 AA-GGAAAAACAAGAAAACCTAGGTGGAAAATCAAAGAAAAAGTGAAGAAATC
194 AAGGGAAAAACAAGAAAACCTAGGTGGAAAATCAAAGAAAAAGTGAAGAAATC
8135167 AAAGAAACAA
Statistics
Matches: 240, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
247 94 0.39
248 146 0.61
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.22
Consensus pattern (246 bp):
GGATAAGTACCAGAATATTTGTGGGGGAAAATTAAGAAGAAAAAGTAAAAAATTAAAAAATTAGG
CCAATAAGCATATGACACGTGACATGCTTGATTATTTTATTATTTTCTATAGAAATCAGCCCAGT
AAATCCCCAATTCTCTCACCATATTCTTCCTAGGCAACCAGCAACAAGAACAAAGGAAGAACAAA
GGGAAAAACAAGAAAACCTAGGTGGAAAATCAAAGAAAAAGTGAAGAAATC
Found at i:8142686 original size:43 final size:42
Alignment explanation
Indices: 8142638--8142731 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
8142628 CACTCTCCCA
* *
8142638 TCATCATCAACTCATGTGCACTCCCCACTAGCACATGGCTGGG
1 TCATCATCAACTCATGCGCACT-CCCACTAGCACATAGCTGGG
** * * *
8142681 TCATCATCGGCTTATGCGCACTCCCACTTGCACGTAGCTGGG
1 TCATCATCAACTCATGCGCACTCCCACTAGCACATAGCTGGG
8142723 TCAATCATC
1 TC-ATCATC
8142732 GGTGTATGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 19 0.44
43 24 0.56
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (42 bp):
TCATCATCAACTCATGCGCACTCCCACTAGCACATAGCTGGG
Found at i:8142732 original size:43 final size:42
Alignment explanation
Indices: 8142655--8142810 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
8142645 CAACTCATGT
* * *
8142655 GCACTCCCCACTAGCACATGGCTGGGTCATCATCGGCTTATGC
1 GCACT-CCCACTCGCACATAGCCGGGTCATCATCGGCTTATGC
* * *
8142698 GCACTCCCACTTGCACGTAGCTGGGTCAATCATCGG-TGTATGC
1 GCACTCCCACTCGCACATAGCCGGGTC-ATCATCGGCT-TATGC
* ** * * *
8142741 ACACTCTTACTCGCACATAACCGAGTCATCATCGGCGTATGC
1 GCACTCCCACTCGCACATAGCCGGGTCATCATCGGCTTATGC
* *
8142783 TCACTCCTACTCGCACATAGCCGGGTCA
1 GCACTCCCACTCGCACATAGCCGGGTCA
8142811 ATATCATTAC
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 57 0.61
43 37 0.39
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (42 bp):
GCACTCCCACTCGCACATAGCCGGGTCATCATCGGCTTATGC
Found at i:8142840 original size:2 final size:2
Alignment explanation
Indices: 8142833--8142872 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8142823 AACATTATTC
8142833 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
8142873 CAACACAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8145450 original size:35 final size:35
Alignment explanation
Indices: 8145379--8145460 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
8145369 CCCCCCAACC
* *
8145379 TCATGTGCACTCCCACACCGCACATAGCTAGGTCA
1 TCATGTGCACTCCCACACCGCACATAGCAAGATCA
* *
8145414 TCATGTGCACTCCCACACCGTACATTA-CAATATCA
1 TCATGTGCACTCCCACACCGCACA-TAGCAAGATCA
*
8145449 TCATGTGTACTC
1 TCATGTGCACTC
8145461 TCGCGCCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
35 39 0.95
36 2 0.05
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACATAGCAAGATCA
Found at i:8158350 original size:28 final size:28
Alignment explanation
Indices: 8158310--8158382 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
8158300 TGGGTGGTGT
* * *
8158310 AAAATTACAATTTTGCCCCTAGAGTGGC
1 AAAATGACTATTTTGCCCCTAAAGTGGC
8158338 AAAATGACTATTTTGCCCCTAAAGTGGC
1 AAAATGACTATTTTGCCCCTAAAGTGGC
8158366 AAAATGACTATTTTGCC
1 AAAATGACTATTTTGCC
8158383 TTTATGCTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAATGACTATTTTGCCCCTAAAGTGGC
Found at i:8176339 original size:2 final size:2
Alignment explanation
Indices: 8176332--8176379 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8176322 CAATATGATG
8176332 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
8176374 AT AT AT
1 AT AT AT
8176380 GTGTGTGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8176556 original size:19 final size:19
Alignment explanation
Indices: 8176532--8176630 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
8176522 TGTCCGTGTG
*
8176532 CACGATGTGGGGGGATGTA
1 CACGATGTGCGGGGATGTA
***
8176551 CACGATG-GCACTGATTGTA
1 CACGATGTGCGGGGA-TGTA
* *
8176570 CACGATGTGAGGGGATGCA
1 CACGATGTGCGGGGATGTA
** *
8176589 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-CGGGGATGTA
*
8176610 CACGATGTGGGGGGATGTA
1 CACGATGTGCGGGGATGTA
8176629 CA
1 CA
8176631 TGAGCTGGGT
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
18 3 0.05
19 35 0.60
20 9 0.16
21 11 0.19
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.21
Consensus pattern (19 bp):
CACGATGTGCGGGGATGTA
Found at i:8176574 original size:38 final size:40
Alignment explanation
Indices: 8176532--8176630 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
8176522 TGTCCGTGTG
*
8176532 CACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-TGTA
1 CACGATGTGGGGGGATGTACACGATGGTGC-CGGATATGTA
* * * *
8176570 CACGATGTGAGGGGATGCACACGATGGTGCCGGCTATGTG
1 CACGATGTGGGGGGATGTACACGATGGTGCCGGATATGTA
8176610 CACGATGTGGGGGGATGTACA
1 CACGATGTGGGGGGATGTACA
8176631 TGAGCTGGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 23 0.45
39 4 0.08
40 24 0.47
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.21
Consensus pattern (40 bp):
CACGATGTGGGGGGATGTACACGATGGTGCCGGATATGTA
Found at i:8196601 original size:17 final size:18
Alignment explanation
Indices: 8196566--8196607 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
8196556 TAACTCACTT
**
8196566 AAAAATAAACTAATTATA
1 AAAAATAAACTAAAAATA
8196584 AAAAAT-AACTAAAAATA
1 AAAAATAAACTAAAAATA
8196601 AATAAAT
1 AA-AAAT
8196608 TATAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAAACTAAAAATA
Found at i:8199826 original size:42 final size:41
Alignment explanation
Indices: 8199706--8199829 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 41
8199696 TGTTGATTTG
*
8199706 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGCT
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
8199748 GACCCGACTATGTGCGAGTAGGAGTGTATATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
8199790 GACCCAGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
8199830 TTGCCCCCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 71 0.97
43 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (41 bp):
GACCCGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:8200125 original size:26 final size:26
Alignment explanation
Indices: 8200064--8200125 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
8200054 TTGCATATGA
*
8200064 GATGATGATAATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
8200090 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
8200116 GTTGATGATG
1 GATGATGATG
8200126 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:8202024 original size:6 final size:6
Alignment explanation
Indices: 8202010--8202039 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8202000 AGTTATCATG
*
8202010 TTTGAT TTTGGT TTTGGT TTTGGT TTTGGT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT
8202040 ATCTATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.67
Consensus pattern (6 bp):
TTTGGT
Found at i:8223800 original size:19 final size:19
Alignment explanation
Indices: 8223776--8223812 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8223766 TGCCAAACCG
*
8223776 TCAAATTATACTCCAATAC
1 TCAAATCATACTCCAATAC
8223795 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
8223813 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:8229221 original size:16 final size:17
Alignment explanation
Indices: 8229192--8229227 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
8229182 TTCATATTTC
8229192 ATTTATATTATTTAACT
1 ATTTATATTATTTAACT
8229209 ATTTATA-TATTTAACT
1 ATTTATATTATTTAACT
8229225 ATT
1 ATT
8229228 GTGCAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATATTATTTAACT
Found at i:8231247 original size:23 final size:23
Alignment explanation
Indices: 8231215--8231264 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
8231205 TTTGGTGTCT
*
8231215 TGAAAGTGCAAGAAAGAGAAATC
1 TGAAAATGCAAGAAAGAGAAATC
*
8231238 TGAAAATGCAAGAGAGAGAAATC
1 TGAAAATGCAAGAAAGAGAAATC
8231261 -GAAA
1 TGAAA
8231265 GCATAGCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.54, C:0.08, G:0.26, T:0.12
Consensus pattern (23 bp):
TGAAAATGCAAGAAAGAGAAATC
Found at i:8231837 original size:80 final size:81
Alignment explanation
Indices: 8231716--8231924 Score: 210
Period size: 80 Copynumber: 2.6 Consensus size: 81
8231706 TCCAAGCATG
* * * * * *
8231716 GAAGTGCCCAAGGTGTTCCAAGAGCAGAAGCGCCTAGGGGTGTTCCAAATACG-A-AAACTCCCA
1 GAAGCGCCCAAGGTGTTCCAAGTGCAGAAACGCCCAAGGGTGTTCCAAA-ACGCAGAAACGCCCA
* *
8231779 AGGGCGTTCTAAGC-TCA
65 AGGGCGTTCCAAACGT-A
* * * *
8231796 GAAGCGCCCAAGGTGTTCCAAGTGCAAAAACGCCCAAGGGTGTTTC-AAGCGCAGAAGCGCCCAA
1 GAAGCGCCCAAGGTGTTCCAAGTGCAGAAACGCCCAAGGGTGTTCCAAAACGCAGAAACGCCCAA
* *
8231860 GGGTGTTCCAAACGTG
66 GGGCGTTCCAAACGTA
* * *
8231876 GAAGCACCCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGTTCCAA
1 GAAGCGCCCAA-GGTGTTCCAAGTGCAGAAACGCCCAAGGGTGTTCCAA
8231925 GCGTAGAAGT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.02
79 3 0.03
80 67 0.64
81 32 0.30
82 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.15
Consensus pattern (81 bp):
GAAGCGCCCAAGGTGTTCCAAGTGCAGAAACGCCCAAGGGTGTTCCAAAACGCAGAAACGCCCAA
GGGCGTTCCAAACGTA
Found at i:8231852 original size:107 final size:107
Alignment explanation
Indices: 8231669--8231925 Score: 270
Period size: 107 Copynumber: 2.4 Consensus size: 107
8231659 CGCAGAAGCA
** * * * * **
8231669 CCAAGGGTTTTCCAGGTGCAGAAGCACCCAAAGGTGTTCCAA--GCATGGAAGTGCCCAAGGTGT
1 CCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGTTCCAAGTGCA--AAAACGCCCAAGGTGT
* * * *
8231732 TCCAAGAGCAGAAGCGCCTAGGGGTGTTCCAAATACGAAAACTC
64 TCCAAGAGCAGAAGCGCCCAAGGGTGTTCCAAACACGAAAACAC
* *
8231776 CCAAGGGCGTTCTAAGCT-CAGAAGCGCCC-AAGGTGTTCCAAGTGCAAAAACGCCCAAGGGTGT
1 CCAAGGGCGTTCCAAG-TGCAGAAACGCCCAAAGGTGTTCCAAGTGCAAAAACGCCCAA-GGTGT
* * ** * *
8231839 TTCAAGCGCAGAAGCGCCCAAGGGTGTTCCAAACGTGGAAGCAC
64 TCCAAGAGCAGAAGCGCCCAAGGGTGTTCCAAACACGAAAACAC
8231883 CCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGTTCCAAG
1 CCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGTTCCAAG
8231926 CGTAGAAGTG
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
106 21 0.17
107 86 0.69
108 17 0.14
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (107 bp):
CCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGTTCCAAGTGCAAAAACGCCCAAGGTGTTC
CAAGAGCAGAAGCGCCCAAGGGTGTTCCAAACACGAAAACAC
Found at i:8231932 original size:27 final size:27
Alignment explanation
Indices: 8231647--8231967 Score: 195
Period size: 27 Copynumber: 12.0 Consensus size: 27
8231637 ATTACAATAG
* * *
8231647 GGGTGTTCTAAGCGCAGAAGC-ACCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * * * *
8231673 GGGTTTTCCAGGTGCAGAAGCACCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * * *
8231700 AGGTGTTCCAAGCATGGAAGTGCCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * * *
8231727 -GGTGTTCCAAGAGCAGAAGCGCCTAG
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * *
8231753 GGGTGTTCCAA--ATACGAAAACTCCCAA
1 GGGTGTTCCAAGCGTA-G-AAGCGCCCAA
* *
8231780 GGGCGTTCTAAGC-TCAGAAGCGCCCAA
1 GGGTGTTCCAAGCGT-AGAAGCGCCCAA
* * * *
8231807 -GGTGTTCCAAGTGCAAAAACGCCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* *
8231833 GGGTGTTTCAAGCGCAGAAGCGCCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * *
8231860 GGGTGTTCCAAACGTGGAAGCACCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * * *
8231887 GGGCGTTCCAAGTGCAGAAACGCCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
* * * *
8231914 AGGTGTTCCAAGCGTAGAAGTGCCTAG
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
** * *
8231941 GGGCATTCTAAGCGTAAAAGCGCCCAA
1 GGGTGTTCCAAGCGTAGAAGCGCCCAA
8231968 AGAGCACTAC
Statistics
Matches: 217, Mismatches: 69, Indels: 17
0.72 0.23 0.06
Matches are distributed among these distances:
25 1 0.00
26 56 0.26
27 157 0.72
28 2 0.01
29 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.29, T:0.16
Consensus pattern (27 bp):
GGGTGTTCCAAGCGTAGAAGCGCCCAA
Found at i:8231967 original size:81 final size:80
Alignment explanation
Indices: 8231775--8231967 Score: 226
Period size: 81 Copynumber: 2.4 Consensus size: 80
8231765 TACGAAAACT
* *
8231775 CCCAAGGGCGTTCTAAGC-TCAGAAGCGCCCAAGGTGTTCCAAGTGCAAAAACGCCCAAGGGTGT
1 CCCAAGGGCGTTCTAAGCGT-AGAAGCGCCCAAGGCGTTCCAAGTGCAAAAACGCCCAAAGGTGT
*
8231839 TTCAAGCGCAGAAGCG
65 TCCAAGCGCAGAAGCG
* * * * * *
8231855 CCCAAGGGTGTTCCAAACGTGGAAGCACCCAAGGGCGTTCCAAGTGCAGAAACGCCCAAAGGTGT
1 CCCAAGGGCGTTCTAAGCGTAGAAGCGCCCAA-GGCGTTCCAAGTGCAAAAACGCCCAAAGGTGT
* *
8231920 TCCAAGCGTAGAAGTG
65 TCCAAGCGCAGAAGCG
* * * *
8231936 CCTAGGGGCATTCTAAGCGTAAAAGCGCCCAA
1 CCCAAGGGCGTTCTAAGCGTAGAAGCGCCCAA
8231968 AGAGCACTAC
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
80 25 0.27
81 66 0.73
ACGTcount: A:0.30, C:0.27, G:0.28, T:0.15
Consensus pattern (80 bp):
CCCAAGGGCGTTCTAAGCGTAGAAGCGCCCAAGGCGTTCCAAGTGCAAAAACGCCCAAAGGTGTT
CCAAGCGCAGAAGCG
Found at i:8232933 original size:52 final size:52
Alignment explanation
Indices: 8232849--8233061 Score: 259
Period size: 52 Copynumber: 4.1 Consensus size: 52
8232839 TATCGGTCAT
* * * *
8232849 AGCTTTATCGCTCATTTCTTGGCCATAATTTGCTATTTACATATTGACCGCA
1 AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTGGCCGCA
* * * * *
8232901 AGCTTTATCACTCAGTTCTTGGCCGTAGTTTGCTATTCATATATTGGCCACA
1 AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTGGCCGCA
* * * *
8232953 AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTACTCACAAATTGGCTGTA
1 AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTGGCCGCA
* * **
8233005 AGCTTTATCGCTCACTTCTTGGCCAT-GGTTGCTATTCACAAAAAGGCCGCA
1 AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTGGCCGCA
8233056 A-CTTTA
1 AGCTTTA
8233062 AATGCTCATG
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 5 0.04
51 20 0.14
52 113 0.82
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
AGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTGGCCGCA
Found at i:8233220 original size:95 final size:95
Alignment explanation
Indices: 8233054--8233340 Score: 423
Period size: 95 Copynumber: 3.0 Consensus size: 95
8233044 AAAAAGGCCG
* * *
8233054 CAACTTTAAATGCTCATGTAATATGTCATTTTCCTTCCTATTAGGTTGAAGATTATTCTCCCTAA
1 CAACTTTAAACGCTCATGTAATATGTCATTCTCCTTCCTATTAGGTTGAGGATTATTCTCCCTAA
* ** *
8233119 TAAGAAGTTGAGAATCTTTTTTTTGCCGTA
66 TAAGAAGTTGAGAATCCTTTTTAGGCCGCA
* *
8233149 CATCTTTAAACGCTCATGCAATATGTCATTCTCCTTCCTATTAGGTTGAGGATTATTCTCCCTAA
1 CAACTTTAAACGCTCATGTAATATGTCATTCTCCTTCCTATTAGGTTGAGGATTATTCTCCCTAA
*
8233214 TAAGAAGTTGAGAACCCTTTTTAGGCCGCA
66 TAAGAAGTTGAGAATCCTTTTTAGGCCGCA
* * * *
8233244 CAACTTTAAACACTCATGTAATATGTCATTCTCTTTCTTATTAGGTTGAGGATTATTCTCCCCAA
1 CAACTTTAAACGCTCATGTAATATGTCATTCTCCTTCCTATTAGGTTGAGGATTATTCTCCCTAA
*
8233309 TAAGAAGTTGAGAATTCCTTTTT-GACCGCA
66 TAAGAAGTTGAGAA-TCCTTTTTAGGCCGCA
8233339 CA
1 CA
8233341 CAGTAATATC
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
95 166 0.96
96 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (95 bp):
CAACTTTAAACGCTCATGTAATATGTCATTCTCCTTCCTATTAGGTTGAGGATTATTCTCCCTAA
TAAGAAGTTGAGAATCCTTTTTAGGCCGCA
Found at i:8238627 original size:26 final size:27
Alignment explanation
Indices: 8238552--8238971 Score: 211
Period size: 26 Copynumber: 15.9 Consensus size: 27
8238542 ATTACATCAT
* *
8238552 GGGTGTTCCAAGCGCAGAAACAC-CAG
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* * *
8238578 GGGCGTTCCAAGTGCAAAAGCACTCAA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
*
8238605 GGGTGTTCCAA-CGCAGAAGCACT-AG
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
*
8238630 GGGTGTTCCAAACGCAGAAGCAC-C-A
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* * * *
8238655 GAGGCGTTCCAAGTGCAGAAGCGCCCAA
1 G-GGTGTTCCAAGCGCAGAAGCACTCAA
* ** * *
8238683 GGATGTTCCAAGCGTGGAAGTAC-CCA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* * *
8238709 GGGTGTTCCAAGCGTAGAAGCGCTCAG
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
** *
8238736 GGGTGTTCCAAGTACAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* * ** *
8238763 GGGCGTTCTAAGCGCAGAAGTGCTC-G
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* *
8238789 GGGTGTTCCAAGCACGGAAGTGC-CT-AA
1 GGGTGTTCCAAGCGCAGAA--GCACTCAA
* ** * *
8238816 GGGTGTTCCAAACGTGGAAGCGCCCAA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
** *
8238843 GGGCATTCCAAGCTCAGAAATGC-CT-ACA
1 GGGTGTTCCAAGCGCAG-AA-GCACTCA-A
* *
8238871 -GGTGTTCCAAGCGTAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* * * * * *
8238897 GGGCGTTCTAAGCACAAAAACAC-CTA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
*** * * *
8238923 GAACGTTCCAAGCGCAAAAGTACT-TA
1 GGGTGTTCCAAGCGCAGAAGCACTCAA
* *
8238949 GGGCGTTCCAAGCACAGAAGCAC
1 GGGTGTTCCAAGCGCAGAAGCAC
8238972 CCAAAGAGCG
Statistics
Matches: 293, Mismatches: 82, Indels: 38
0.71 0.20 0.09
Matches are distributed among these distances:
25 17 0.06
26 138 0.47
27 129 0.44
28 7 0.02
29 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.29, T:0.15
Consensus pattern (27 bp):
GGGTGTTCCAAGCGCAGAAGCACTCAA
Found at i:8238684 original size:78 final size:79
Alignment explanation
Indices: 8238552--8238972 Score: 305
Period size: 80 Copynumber: 5.3 Consensus size: 79
8238542 ATTACATCAT
* * *
8238552 GGGTGTTCCAAGCGCAGAAACACCAGGGGCGTTCCAAGTGCAAAAGCACTCAAGGGTGTTCCAA-
1 GGGTGTTCCAAGCGCAGAAGCACCAGGGGCGTTCCAAGTGCAGAAGCACCCAAGGGTGTTCCAAG
*
8238616 CGCAGAAGCACTAG
66 CGCAGAAGTACTAG
* * * *
8238630 GGGTGTTCCAAACGCAGAAGCACCAGAGGCGTTCCAAGTGCAGAAGCGCCCAAGGATGTTCCAAG
1 GGGTGTTCCAAGCGCAGAAGCACCAGGGGCGTTCCAAGTGCAGAAGCACCCAAGGGTGTTCCAAG
** *
8238695 CGTGGAAGTACCCA-
66 CGCAGAAGTA-CTAG
* * * * * *
8238709 GGGTGTTCCAAGCGTAGAAGCGCTCAGGGGTGTTCCAAGTACAGAAGCACCCAAGGGCGTTCTAA
1 GGGTGTTCCAAGCGCAGAAGCAC-CAGGGGCGTTCCAAGTGCAGAAGCACCCAAGGGTGTTCCAA
* *
8238774 GCGCAGAAGTGCTCG
65 GCGCAGAAGTACTAG
* * ** * * * **
8238789 GGGTGTTCCAAGCACGGAAGTGCCTAAGGGTGTTCCAAACGTG--GAAGCGCCCAAGGGCATTCC
1 GGGTGTTCCAAGCGCAGAAGCACC-AGGGGCGTTCC-AA-GTGCAGAAGCACCCAAGGGTGTTCC
* * * *
8238852 AAGCTCAGAAATGCCTAC
63 AAGCGCAGAAGT-ACTAG
* * * * ** * * * ***
8238870 AGGTGTTCCAAGCGTAGAAGCACCCAAGGGCGTTCTAAGCACAAAAACA-CCTAGAACGTTCCAA
1 GGGTGTTCCAAGCGCAGAAGCA-CCAGGGGCGTTCCAAGTGCAGAAGCACCCAAGGGTGTTCCAA
*
8238934 GCGCAAAAGTACTTA-
65 GCGCAGAAGTAC-TAG
* *
8238949 GGGCGTTCCAAGCACAGAAGCACC
1 GGGTGTTCCAAGCGCAGAAGCACC
8238973 CAAAGAGCGC
Statistics
Matches: 266, Mismatches: 65, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
78 59 0.22
79 49 0.18
80 122 0.46
81 32 0.12
82 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.29, T:0.15
Consensus pattern (79 bp):
GGGTGTTCCAAGCGCAGAAGCACCAGGGGCGTTCCAAGTGCAGAAGCACCCAAGGGTGTTCCAAG
CGCAGAAGTACTAG
Found at i:8238761 original size:53 final size:53
Alignment explanation
Indices: 8238552--8238801 Score: 240
Period size: 53 Copynumber: 4.8 Consensus size: 53
8238542 ATTACATCAT
* * * * * *
8238552 GGGTGTTCCAAGCGCAGAAACAC-CAGGGGCGTTCCAAGTGCAAAAGCACTCAA
1 GGGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGCGCAGAAGCAC-CCA
* *
8238605 GGGTGTTCCAA-CGCAGAAGCACT-AGGGGTGTTCCAAACGCAGAAGCA-CCA
1 GGGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGCGCAGAAGCACCCA
* * * * * ** *
8238655 GAGGCGTTCCAAGTGCAGAAGCGCCCAAGGATGTTCCAAGCGTGGAAGTACCCA
1 G-GGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGCGCAGAAGCACCCA
* **
8238709 GGGTGTTCCAAGCGTAGAAGCGCTCAGGGGTGTTCCAAGTACAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGCGCAGAAGCACCC-A
* * *
8238763 GGGCGTTCTAAGCGCAGAAGTGCTC-GGGGTGTTCCAAGC
1 GGGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGC
8238802 ACGGAAGTGC
Statistics
Matches: 159, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
50 3 0.02
51 9 0.06
52 39 0.25
53 82 0.52
54 26 0.16
ACGTcount: A:0.28, C:0.25, G:0.32, T:0.16
Consensus pattern (53 bp):
GGGTGTTCCAAGCGCAGAAGCGCTCAGGGGTGTTCCAAGCGCAGAAGCACCCA
Found at i:8238780 original size:27 final size:27
Alignment explanation
Indices: 8238552--8238975 Score: 220
Period size: 27 Copynumber: 16.0 Consensus size: 27
8238542 ATTACATCAT
* *
8238552 GGGTGTTCCAAGCGCAGAAACA-CCAG
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * * *
8238578 GGGCGTTCCAAGTGCAAAAGCACTCAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* *
8238605 GGGTGTTCCAA-CGCAGAAGCA-CTAG
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
*
8238630 GGGTGTTCCAAACGCAGAAGCA-CC-A
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * *
8238655 GAGGCGTTCCAAGTGCAGAAGCGCCCAA
1 G-GGTGTTCCAAGCGCAGAAGCACCCAA
* ** *
8238683 GGATGTTCCAAGCGTGGAAGTACCC-A
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * * *
8238709 GGGTGTTCCAAGCGTAGAAGCGCTCAG
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
**
8238736 GGGTGTTCCAAGTACAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * ** * *
8238763 GGGCGTTCTAAGCGCAGAAGTGCTC-G
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * ** *
8238789 GGGTGTTCCAAGCACGGAAGTGCCTAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* ** *
8238816 GGGTGTTCCAAACGTGGAAGCGCCCAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
** * *** *
8238843 GGGCATTCCAAGCTCAGAAATGCCTACA
1 GGGTGTTCCAAGCGCAGAAGCACCCA-A
*
8238871 -GGTGTTCCAAGCGTAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* * * * * *
8238897 GGGCGTTCTAAGCACAAAAACA-CCTA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
*** * * **
8238923 GAACGTTCCAAGCGCAAAAGTA-CTTA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
* *
8238949 GGGCGTTCCAAGCACAGAAGCACCCAA
1 GGGTGTTCCAAGCGCAGAAGCACCCAA
8238976 AGAGCGCTAC
Statistics
Matches: 293, Mismatches: 95, Indels: 19
0.72 0.23 0.05
Matches are distributed among these distances:
25 13 0.04
26 134 0.46
27 143 0.49
28 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.29, T:0.15
Consensus pattern (27 bp):
GGGTGTTCCAAGCGCAGAAGCACCCAA
Found at i:8242208 original size:30 final size:29
Alignment explanation
Indices: 8242172--8242243 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
8242162 AATAATTAAT
*
8242172 TATAAAAATTTA-TATAATTTAAAATAAAAA
1 TATAAAAATTTATTA-AATCTAAAA-AAAAA
8242202 TAT-AAAATTTGATTAAATCTAAAAAAAAA
1 TATAAAAATTT-ATTAAATCTAAAAAAAAA
*
8242231 TTTAAAAAATTTA
1 TAT-AAAAATTTA
8242244 AATTGTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
29 14 0.39
30 13 0.36
31 9 0.25
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
TATAAAAATTTATTAAATCTAAAAAAAAA
Found at i:8242255 original size:19 final size:18
Alignment explanation
Indices: 8242231--8242275 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8242221 TAAAAAAAAA
*
8242231 TTTAAAAAATTTAAATTGT
1 TTTAAAAAATTCAAATT-T
* *
8242250 TTTAAATAGTTCAAATTT
1 TTTAAAAAATTCAAATTT
8242268 TTTAAAAA
1 TTTAAAAA
8242276 TATTATACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTCAAATTT
Found at i:8243505 original size:45 final size:45
Alignment explanation
Indices: 8243442--8243546 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
8243432 TCTTTCTTTC
* * * *
8243442 ATGTGGGATTCATAGCTCCCCA-TTGAGACCATAACATCCTCCTCG
1 ATGTGAGATTAATGGCTCCCCACTTG-GACCATAACATCCTCATCG
* * * *
8243487 GTGTGGGGTTAATGGCTCCTCACTTGGACCATAACATCCTCATCG
1 ATGTGAGATTAATGGCTCCCCACTTGGACCATAACATCCTCATCG
8243532 ATGTGAGATTAATGG
1 ATGTGAGATTAATGG
8243547 TTCACCGCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 47 0.94
46 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (45 bp):
ATGTGAGATTAATGGCTCCCCACTTGGACCATAACATCCTCATCG
Found at i:8243562 original size:45 final size:45
Alignment explanation
Indices: 8243467--8243569 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
8243457 CTCCCCATTG
* * * * *
8243467 AGACCATAACATCCTCCTCGGTGTGGGGTTAATGGCTCCTCACTT
1 AGACCATAACATCCTCATCGATGTGAGATTAATGGCTCCTCACTA
* * *
8243512 GGACCATAACATCCTCATCGATGTGAGATTAATGGTTCAC-CGCTA
1 AGACCATAACATCCTCATCGATGTGAGATTAATGGCTC-CTCACTA
*
8243557 AGACCATGACATC
1 AGACCATAACATC
8243570 TTCCATCACT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (45 bp):
AGACCATAACATCCTCATCGATGTGAGATTAATGGCTCCTCACTA
Found at i:8244228 original size:2 final size:2
Alignment explanation
Indices: 8244221--8244312 Score: 96
Period size: 2 Copynumber: 45.5 Consensus size: 2
8244211 CTACATCCAA
*
8244221 AT AT AT AT AT AT AT AT AA AT -T AT AT CAT 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
* * * * *
8244263 AT GGT AT AC AC AA AN 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
*
8244306 AT GT AT A
1 AT AT AT A
8244313 ATCAAATCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
1 1 0.01
2 73 0.95
3 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8251135 original size:30 final size:32
Alignment explanation
Indices: 8251099--8251170 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
8251089 ACCTCCACAT
*
8251099 AAAAGGTAGTG-TAAAGTTTATACCTCCT-TG-
1 AAAAGGTAGTGCTAAAG-CTATACCTCCTCTGA
* *
8251129 AAAAGGTAATGCTAAAGCTATACTTCCTCTGA
1 AAAAGGTAGTGCTAAAGCTATACCTCCTCTGA
8251161 AAAAGGTAGT
1 AAAAGGTAGT
8251171 ATTGGTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 19 0.54
31 7 0.20
32 9 0.26
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (32 bp):
AAAAGGTAGTGCTAAAGCTATACCTCCTCTGA
Found at i:8261686 original size:43 final size:43
Alignment explanation
Indices: 8261568--8261689 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
8261558 TGACTCGACT
** * **
8261568 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAAGATAACCCAGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
8261611 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* * *
8261654 ATGTGCAAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
8261690 TGATGATGGG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:8261716 original size:23 final size:23
Alignment explanation
Indices: 8261686--8261745 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
8261676 TGAGCTGGTG
8261686 ATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGGGATGGTGTGC
*
8261709 ATGATGATGATGGGATTGTGTGC
1 ATGATGATGATGGGATGGTGTGC
*
8261732 ATGATGGTGATGGG
1 ATGATGATGATGGG
8261746 TATATGTATA
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:0.43, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGGTGTGC
Found at i:8268497 original size:31 final size:30
Alignment explanation
Indices: 8268459--8268534 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
8268449 ACTACTTTTG
8268459 GTTATACCTCATCGT-AAAAAGTAATGTAAAA
1 GTTATACCTC--CGTCAAAAAGTAATGTAAAA
* * * *
8268490 GTTATACCTCCTTCAAAAGGTAATGTTAAG
1 GTTATACCTCCGTCAAAAAGTAATGTAAAA
8268520 GTTATACCTCC-TCAA
1 GTTATACCTCCGTCAA
8268535 GAAAAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.15
30 24 0.60
31 10 0.25
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (30 bp):
GTTATACCTCCGTCAAAAAGTAATGTAAAA
Found at i:8268515 original size:30 final size:30
Alignment explanation
Indices: 8268474--8268531 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8268464 ACCTCATCGT
8268474 AAAAAGTAATGTAAAAGTTATACCTCCTTC
1 AAAAAGTAATGTAAAAGTTATACCTCCTTC
* * *
8268504 AAAAGGTAATGTTAAGGTTATACCTCCT
1 AAAAAGTAATGTAAAAGTTATACCTCCT
8268532 CAAGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (30 bp):
AAAAAGTAATGTAAAAGTTATACCTCCTTC
Found at i:8268640 original size:37 final size:41
Alignment explanation
Indices: 8268576--8268673 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 41
8268566 AAAGGTAGAG
* * * *
8268576 AGGTTGTGCTTGATCCTT-GAAAGGTAGTG-GC-TTGTA-A
1 AGGTTGTGCTTAATCCTTCAAAAAGTAGTGACCTTTGTATA
8268613 AGGTTGTGCTTAAT-CTTCAAAAAGTAGTGACCTTTGTATA
1 AGGTTGTGCTTAATCCTTCAAAAAGTAGTGACCTTTGTATA
*
8268653 A-GTTATGCTTAATCCTTCAAA
1 AGGTTGTGCTTAATCCTTCAAA
8268674 GACAATTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 3 0.06
37 22 0.43
38 1 0.02
39 16 0.31
40 9 0.18
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGTTGTGCTTAATCCTTCAAAAAGTAGTGACCTTTGTATA
Found at i:8272063 original size:6 final size:6
Alignment explanation
Indices: 8272054--8272140 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
8272044 GTGTGTGTAA
* ** *
8272054 ATATGT ATATGT AT-T-T ATATGT ATATGT ATGCATAT ATATAC ATTATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT--ATGT ATATGT A-TATGT
* * *
8272103 ATATGT ATATG- -TATGT GTATGT GTATGT ATATCT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
8272141 ATGTGTGTGT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
4 7 0.10
5 2 0.03
6 49 0.72
7 5 0.07
8 5 0.07
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:8272075 original size:16 final size:16
Alignment explanation
Indices: 8272054--8272134 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
8272044 GTGTGTGTAA
*
8272054 ATATGTATATGTATTT
1 ATATGTATATGTATAT
8272070 ATATGTATATGTATGCAT
1 ATATGTATATGTAT--AT
* *
8272088 ATATATACAT-TATAT
1 ATATGTATATGTATAT
*
8272103 ATATGTATATGTATGT
1 ATATGTATATGTATAT
* *
8272119 GTATGTGTATGTATAT
1 ATATGTATATGTATAT
8272135 CTATATATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
15 10 0.19
16 31 0.58
17 3 0.06
18 9 0.17
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.49
Consensus pattern (16 bp):
ATATGTATATGTATAT
Found at i:8272145 original size:20 final size:18
Alignment explanation
Indices: 8272120--8272164 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
8272110 TATGTATGTG
8272120 TATGTGTATGTATATCTATA
1 TATGTGTATGTAT-T-TATA
*
8272140 TATGTGTGTGTATTTATA
1 TATGTGTATGTATTTATA
8272158 TATGTGT
1 TATGTGT
8272165 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 12 0.50
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (18 bp):
TATGTGTATGTATTTATA
Found at i:8272157 original size:24 final size:24
Alignment explanation
Indices: 8272108--8272183 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
8272098 TATATATATG
* * *
8272108 TATATGTATGTGTATGTGTATGTA
1 TATATATATATGTGTGTGTATGTA
* *
8272132 TATCTATATATGTGTGTGTATTTA
1 TATATATATATGTGTGTGTATGTA
* * *
8272156 TATATGTGTGTGTGTGTGTATGTA
1 TATATATATATGTGTGTGTATGTA
8272180 TATA
1 TATA
8272184 ATGTTACTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.51
Consensus pattern (24 bp):
TATATATATATGTGTGTGTATGTA
Found at i:8272159 original size:18 final size:20
Alignment explanation
Indices: 8272120--8272168 Score: 75
Period size: 18 Copynumber: 2.5 Consensus size: 20
8272110 TATGTATGTG
*
8272120 TATGTGTATGTATATCTATA
1 TATGTGTGTGTATATCTATA
8272140 TATGTGTGTGTAT-T-TATA
1 TATGTGTGTGTATATCTATA
8272158 TATGTGTGTGT
1 TATGTGTGTGT
8272169 GTGTGTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
20 12 0.43
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.53
Consensus pattern (20 bp):
TATGTGTGTGTATATCTATA
Found at i:8275351 original size:11 final size:11
Alignment explanation
Indices: 8275324--8275367 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
8275314 CCTAGGGTTC
8275324 TTGTTCTT-C-
1 TTGTTCTTCCT
8275333 TT-TTCTTCCT
1 TTGTTCTTCCT
8275343 TTGTTCTTCCTT
1 TTGTTCTTCC-T
8275355 TTGTT-TTCCT
1 TTGTTCTTCCT
8275365 TTG
1 TTG
8275368 GCCGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 3 0.10
10 6 0.19
11 11 0.35
12 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:8276650 original size:19 final size:20
Alignment explanation
Indices: 8276617--8276670 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
8276607 GTACAATCCT
*
8276617 CATAATGCACATGTTATT-A
1 CATAATGAACATGTTATTCA
* *
8276636 CATAATGAACGTGTTCTTCA
1 CATAATGAACATGTTATTCA
* *
8276656 CATTATGAATATGTT
1 CATAATGAACATGTT
8276671 CGTCTATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
CATAATGAACATGTTATTCA
Found at i:8279433 original size:121 final size:120
Alignment explanation
Indices: 8279219--8279451 Score: 430
Period size: 121 Copynumber: 1.9 Consensus size: 120
8279209 TCCACTCACA
* *
8279219 GTTCTAGGAGTCGACGTACTCCTAATCCCAGTCTTCAAGCACAATTTTTGTACTTTTACCAGTGT
1 GTTCTAGGAGTCGACGTACTCCTAATCCCAGTCTTCAAGCACAATCTCTGTACTTTTACCAGTGT
8279284 AATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACAGCAATGNCT
66 AATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACAGCAATG-CT
*
8279340 GTTCTAGGAGTCGATGTACTCCTAATCCCAGTCTTCAAGCACAATCTCTGTACTTTTACCAGTGT
1 GTTCTAGGAGTCGACGTACTCCTAATCCCAGTCTTCAAGCACAATCTCTGTACTTTTACCAGTGT
8279405 AATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACA
66 AATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACA
8279452 TTAATGCTTG
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 109 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (120 bp):
GTTCTAGGAGTCGACGTACTCCTAATCCCAGTCTTCAAGCACAATCTCTGTACTTTTACCAGTGT
AATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACAGCAATGCT
Found at i:8286875 original size:2 final size:2
Alignment explanation
Indices: 8286837--8286867 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8286827 TTGTACTTGT
8286837 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 T
8286868 TGTATATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8287861 original size:29 final size:27
Alignment explanation
Indices: 8287803--8287892 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
8287793 TATTTTAATT
*
8287803 AATAAAAA-TTAATCAATT--AATAAT
1 AATAAAAATTTAATCAATTAAAATAAA
* * *
8287827 CATAAAAATTTATTGAATTTAAAATAAA
1 AATAAAAATTTAATCAA-TTAAAATAAA
* *
8287855 ATATAAATATTTAATCAATTATAATAAA
1 A-ATAAAAATTTAATCAATTAAAATAAA
8287883 AATAAAAATT
1 AATAAAAATT
8287893 ATTTAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.14
25 6 0.12
26 2 0.04
27 8 0.16
28 15 0.29
29 13 0.25
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
AATAAAAATTTAATCAATTAAAATAAA
Found at i:8301869 original size:26 final size:26
Alignment explanation
Indices: 8301840--8301916 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
8301830 ATTAAAAGTT
8301840 TTATATATTTACAAATTAAAAAAATG
1 TTATATATTTACAAATTAAAAAAATG
* * *
8301866 ---T-TA-TTA-ATATTAANAAAAGTT
1 TTATATATTTACAAATTAA-AAAAATG
8301887 TTATATATTTACAAATTAAAAAAATG
1 TTATATATTTACAAATTAAAAAAATG
8301913 TTAT
1 TTAT
8301917 TAATATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 6 0.16
21 8 0.21
22 2 0.05
23 1 0.03
24 1 0.03
25 2 0.05
26 12 0.32
27 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (26 bp):
TTATATATTTACAAATTAAAAAAATG
Found at i:8301883 original size:20 final size:19
Alignment explanation
Indices: 8301854--8301895 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
8301844 ATATTTACAA
8301854 ATTAAAAAAATGTTATTA-AT
1 ATTAAAAAAA-GTT-TTATAT
*
8301874 ATTAANAAAAGTTTTATAT
1 ATTAAAAAAAGTTTTATAT
8301893 ATT
1 ATT
8301896 TACAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 8 0.40
20 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
ATTAAAAAAAGTTTTATAT
Found at i:8301885 original size:47 final size:47
Alignment explanation
Indices: 8301832--8301930 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
8301822 TTGATGCAAT
8301832 TAAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAA
1 TAAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAA
*
8301879 NAAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAA
1 TAAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAA
8301926 TAAAA
1 TAAAA
8301931 AATATTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (47 bp):
TAAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAA
Found at i:8301953 original size:47 final size:47
Alignment explanation
Indices: 8301833--8301958 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 47
8301823 TGATGCAATT
* * * *
8301833 AAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAAN
1 AAAAATTTTATATAATGACAAATTAAAAAAATGTTATTAATATTAAA
* * *
8301880 AAAAGTTTTATATATTTACAAATTAAAAAAATGTTATTAATATTAATA
1 AAAAATTTTATATAATGACAAATTAAAAAAATGTTATTAATATTAA-A
8301928 AAAAATATTTA-A-AATGA-AAATTTAAAAAAAT
1 AAAAAT-TTTATATAATGACAAA-TTAAAAAAAT
8301959 AATGAACAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
46 3 0.04
47 59 0.82
48 6 0.08
49 4 0.06
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (47 bp):
AAAAATTTTATATAATGACAAATTAAAAAAATGTTATTAATATTAAA
Found at i:8311944 original size:139 final size:136
Alignment explanation
Indices: 8311695--8311965 Score: 332
Period size: 139 Copynumber: 2.0 Consensus size: 136
8311685 ATTTAAATTT
* * *
8311695 TTTATTCTTTATTCATATCTTATGTCTTTTTTTCATGTGTTTTGTTGTTAATTTCTATTTGATTT
1 TTTATTCTTTATTCATATCTTATATATTTTTTTCATGTGTTTTGTTGTTAATTGCTATTTGATTT
* * * *
8311760 TTATTATGCAACAAAGTTTACTAAATAGATTACTTACTCATGTATGATTAACTTTT-GAATTACA
66 TTATTATACAACAAAATTTACTAAATAGATTACTTACTCAGGTATGATTAA-TTTTCCAATTACA
8311824 TTTTTTC
130 TTTTTTC
* **
8311831 TTTATTCTTTATTCATATTTAATATATATTTTTTGTTTTGTGTTTTGTTGTTAATTGCTATTTTG
1 TTTATTCTTTATTCATATCT--TATATATTTTTT-TCATGTGTTTTGTTGTTAATTGCTA-TTTG
* * * * *
8311896 -TTTTTATTCTACAATAAAATTTGCTAAATCA-ATTGCTTACTCAGGTATGCTTAATTTTCCAAT
62 ATTTTTATTATACAACAAAATTTACTAAAT-AGATTACTTACTCAGGTATGATTAATTTTCCAAT
8311959 TACATTT
126 TACATTT
8311966 CCTACAGAGT
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
136 19 0.17
138 14 0.12
139 76 0.67
140 5 0.04
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (136 bp):
TTTATTCTTTATTCATATCTTATATATTTTTTTCATGTGTTTTGTTGTTAATTGCTATTTGATTT
TTATTATACAACAAAATTTACTAAATAGATTACTTACTCAGGTATGATTAATTTTCCAATTACAT
TTTTTC
Found at i:8323623 original size:42 final size:42
Alignment explanation
Indices: 8323545--8323670 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
8323535 GTAATGATAT
* ** ** *
8323545 TGACCTGGCTATGTGTGAGTAGGAGCACGCACAAGCCGTTGC
1 TGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGTTGC
*
8323587 TGACCCTGCTATGTACGAGT-GAGAGTGCGCATAAGCCGTTGC
1 TGACCCGGCTATGTACGAGTAG-GAGTGCGCATAAGCCGTTGC
* *
8323629 TGACCCGGCTATGTGCGAGTAGGAGTGCGCGTAAGCCGTTGC
1 TGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGTTGC
8323671 ATATGAGCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 70 0.97
43 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.22
Consensus pattern (42 bp):
TGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGTTGC
Found at i:8327773 original size:49 final size:47
Alignment explanation
Indices: 8327609--8327916 Score: 382
Period size: 49 Copynumber: 6.6 Consensus size: 47
8327599 TGTTGAACAA
* * * *
8327609 GAAGAATAAGA-AAA-GGA-AAAGACACCAACCATAGAAGAAAATGAG
1 GAAGAAAAAGAGAAATGGAGAAAGA-ACCTACCATAAAAGAGAATGAG
* *
8327654 GAAGAAAAAG-G-AATGGAAAAAGAACCAACCATAAAAGAGAATGAG
1 GAAGAAAAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
8327699 GAAG-AAAA-AGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
1 GAAGAAAAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
*
8327744 GAAGACAGAAAGAGAAATGGAGAAAGAACCTACCACAAAAGAGAATGAG
1 GAAGA-A-AAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
* *
8327793 GAAGACGGAAAGAGAAATGGAGAAAGAACCTACCACAAAAGAGAATGAG
1 GAAGA--AAAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
* *
8327842 GAAGACAGAAAGAGAAATGGAGAAAGAACCTACCATATAAGAGAATAAG
1 GAAGA-A-AAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
*
8327891 GAAG-AAAA-ATAAATGGAGAAAGAACC
1 GAAGAAAAAGAGAAATGGAGAAAGAACC
8327917 CTAAGTGGAA
Statistics
Matches: 238, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
44 7 0.03
45 89 0.37
46 8 0.03
47 2 0.01
48 3 0.01
49 129 0.54
ACGTcount: A:0.57, C:0.10, G:0.25, T:0.07
Consensus pattern (47 bp):
GAAGAAAAAGAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAG
Found at i:8327842 original size:98 final size:94
Alignment explanation
Indices: 8327609--8327916 Score: 428
Period size: 98 Copynumber: 3.3 Consensus size: 94
8327599 TGTTGAACAA
* * * * *
8327609 GAAGAATAAGAAAAGGA-AAAGACACCAACCATAGAAGAAAATGAGGAAGA-A-AAAG-G-AATG
1 GAAGAAAAAGAAATGGAGAAAGA-ACCTACCATAAAAGAGAATGAGGAAGACAGAAAGAGAAATG
* *
8327669 GAAAAAGAACCAACCATAAAAGAGAATGAG
65 GAGAAAGAACCTACCATAAAAGAGAATGAG
8327699 GAAGAAAAAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAGGAAGACAGAAAGAGAAATGG
1 GAAGAAAAAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAGGAAGACAGAAAGAGAAATGG
*
8327764 AGAAAGAACCTACCACAAAAGAGAATGAG
66 AGAAAGAACCTACCATAAAAGAGAATGAG
*
8327793 GAAGACGGAAAGAGAAATGGAGAAAGAACCTACCACAAAAGAGAATGAGGAAGACAGAAAGAGAA
1 GAAGA---AAA-AGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAGGAAGACAGAAAGAGAA
* *
8327858 ATGGAGAAAGAACCTACCATATAAGAGAATAAG
62 ATGGAGAAAGAACCTACCATAAAAGAGAATGAG
*
8327891 GAAGAAAAATAAATGGAGAAAGAACC
1 GAAGAAAAAGAAATGGAGAAAGAACC
8327917 CTAAGTGGAA
Statistics
Matches: 196, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
90 39 0.20
91 6 0.03
92 4 0.02
93 1 0.01
94 53 0.27
95 3 0.02
97 3 0.02
98 87 0.44
ACGTcount: A:0.57, C:0.10, G:0.25, T:0.07
Consensus pattern (94 bp):
GAAGAAAAAGAAATGGAGAAAGAACCTACCATAAAAGAGAATGAGGAAGACAGAAAGAGAAATGG
AGAAAGAACCTACCATAAAAGAGAATGAG
Found at i:8328988 original size:2 final size:2
Alignment explanation
Indices: 8328974--8329008 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
8328964 TGTGTATGTG
8328974 TA TA TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
8329009 GATTACCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.94
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8340282 original size:68 final size:68
Alignment explanation
Indices: 8340119--8340450 Score: 311
Period size: 68 Copynumber: 4.9 Consensus size: 68
8340109 ACATGTTGGT
* * * *
8340119 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
8340184 TGC
66 TGC
* * * *
8340187 ATGATGTATAT--TAT-AGGATGGTGTATATGATGTAAATTCCATATACCATATGAGGTGATTAA
1 ATGAT-TA-ATGCCATGAGAAT-ATGTATATGATGTAAATTCCATATACCATATGAGATGATTAA
*
8340249 GTGTGC
63 GTATGC
* * * * *
8340255 ATGATTAATGCCATGAGAATATATATATGATGTATATTCCATACACTACATGAGATGATTAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
*
8340320 CGC
66 TGC
* * ** * ** * *
8340323 ATGATTAATACCATGAGAATATGCATATGATGTGTATTCCATACATTACATGAGATGATTGAGCT
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAG-T
8340388 A-GC
65 ATGC
* * * *
8340391 AT-A--AATGCCATGAGATTA-GATATATGATGTAAATCCCATATACCTTATGAGATGAGTAAG
1 ATGATTAATGCCATGAGAATATG-TATATGATGTAAATTCCATATACCATATGAGATGATTAAG
8340451 CATGTATGTG
Statistics
Matches: 218, Mismatches: 38, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
64 1 0.00
65 42 0.19
66 2 0.01
67 6 0.03
68 158 0.72
69 7 0.03
70 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (68 bp):
ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
TGC
Found at i:8351363 original size:48 final size:48
Alignment explanation
Indices: 8351309--8351406 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
8351299 TCGATCTCAT
8351309 AAATTGAAGTATATGGGATACTTGAGGATAACATGTAGGCGCTTATTA
1 AAATTGAAGTATATGGGATACTTGAGGATAACATGTAGGCGCTTATTA
*
8351357 AAATTGAAGTATATGGGATACTTGAGGATAACATGTAGGTGCTTATTA
1 AAATTGAAGTATATGGGATACTTGAGGATAACATGTAGGCGCTTATTA
8351405 AA
1 AA
8351407 GAACAAGTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
AAATTGAAGTATATGGGATACTTGAGGATAACATGTAGGCGCTTATTA
Found at i:8352290 original size:19 final size:19
Alignment explanation
Indices: 8352266--8352306 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8352256 GCTCAAATTA
* *
8352266 TCAACTAGTCGATGGTTTC
1 TCAACTAGCCGAGGGTTTC
8352285 TCAACTAGCCGAGGGTTTC
1 TCAACTAGCCGAGGGTTTC
8352304 TCA
1 TCA
8352307 CCAAACCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (19 bp):
TCAACTAGCCGAGGGTTTC
Found at i:8352671 original size:2 final size:2
Alignment explanation
Indices: 8352666--8352717 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
8352656 TTGCATAAAC
*
8352666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8352708 -T AC AT AT AT A
1 AT AT AT AT AT A
8352718 AACACCAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8357936 original size:23 final size:23
Alignment explanation
Indices: 8357884--8357937 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8357874 TATATATATA
*
8357884 TATCAATCATCATGTACACCATCC
1 TATC-ATCATCATGCACACCATCC
** *
8357908 CGTCATCATCATGCACATCATCC
1 TATCATCATCATGCACACCATCC
8357931 TATCATC
1 TATCATC
8357938 CCCAACTCAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.30, C:0.35, G:0.06, T:0.30
Consensus pattern (23 bp):
TATCATCATCATGCACACCATCC
Found at i:8357980 original size:43 final size:43
Alignment explanation
Indices: 8357946--8358055 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 43
8357936 TCCCCAACTC
** **
8357946 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGACTT
* *
8357989 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCATCGACTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGACTT
8358032 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
8358056 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGACTT
Found at i:8358825 original size:3 final size:3
Alignment explanation
Indices: 8358817--8358842 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8358807 ACGTGAGATG
8358817 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
8358843 CAAGCTGCTG
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8359403 original size:14 final size:14
Alignment explanation
Indices: 8359381--8359414 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8359371 AGATGCTATA
*
8359381 TTGTCACCATACTT
1 TTGTGACCATACTT
8359395 TTGTGACCATACTT
1 TTGTGACCATACTT
8359409 TTGTGA
1 TTGTGA
8359415 TAATACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (14 bp):
TTGTGACCATACTT
Found at i:8361341 original size:44 final size:44
Alignment explanation
Indices: 8361287--8361378 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
8361277 ATTCACATCA
* * * * *
8361287 GATGTGGGATGTGGAGTATCATAATCCTACCCATTCAAATCCTT
1 GATGAGGGATGTGGAATATCACAATCCCACCCACTCAAATCCTT
8361331 GATGAGGGATGTGGAATATCACAATCCCACCCACTCAAATCCTT
1 GATGAGGGATGTGGAATATCACAATCCCACCCACTCAAATCCTT
8361375 GATG
1 GATG
8361379 TCCTCATCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
GATGAGGGATGTGGAATATCACAATCCCACCCACTCAAATCCTT
Found at i:8367643 original size:17 final size:17
Alignment explanation
Indices: 8367621--8367659 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8367611 TTTTGAGGAT
* *
8367621 TGCTCCCCTTAAGTATG
1 TGCTCCCCCTAAGTATA
*
8367638 TGCTCCCCCTAATTATA
1 TGCTCCCCCTAAGTATA
8367655 TGCTC
1 TGCTC
8367660 TAATAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (17 bp):
TGCTCCCCCTAAGTATA
Found at i:8372991 original size:43 final size:43
Alignment explanation
Indices: 8372938--8373039 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
8372928 ACTATGTGTG
** * **
8372938 AGTAGGGAGTGCGCATAAGTCGAGGATGACCCGGTTATGTGCA
1 AGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCCATGTGCA
* * * *
8372981 AGTAGAGAGTGCGTATAACCCGATGATGACCCAGCCATGTGCG
1 AGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCCATGTGCA
8373024 AGTAGGGAGTGCGCAT
1 AGTAGGGAGTGCGCAT
8373040 GAGCTGGTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (43 bp):
AGTAGGGAGTGCGCATAACCCGAGGATGACCCAGCCATGTGCA
Found at i:8373051 original size:43 final size:43
Alignment explanation
Indices: 8372931--8373053 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
8372921 TGACTCGACT
* * **
8372931 ATGTGTGAGTAGGGAGTGCGCATAAG-TCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCT-G-GTGATGACCCAGCC
* * * * * *
8372974 ATGTGCAAGTAGAGAGTGCGTATAACCCGATGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAGCC
*
8373017 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGAC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGAC
8373054 GATGGTGTGA
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAGCC
Found at i:8373080 original size:23 final size:23
Alignment explanation
Indices: 8373062--8373108 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8373052 ACGATGGTGT
*
8373062 GATGGTGTGTATGATGATGATGG
1 GATGGTGTGCATGATGATGATGG
8373085 GATGGTGTGCATGATGATGATGG
1 GATGGTGTGCATGATGATGATGG
8373108 G
1 G
8373109 TATACGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.45, T:0.32
Consensus pattern (23 bp):
GATGGTGTGCATGATGATGATGG
Found at i:8373083 original size:26 final size:24
Alignment explanation
Indices: 8373047--8373108 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
8373037 CATGAGCTGG
* *
8373047 TGATGACGATGGTGTGATGGTGTGTA
1 TGATGATGATGG-G-GATGGTGTGCA
8373073 TGATGATGAT-GGGATGGTGTGCA
1 TGATGATGATGGGGATGGTGTGCA
8373096 TGATGATGATGGG
1 TGATGATGATGGG
8373109 TATACGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 20 0.61
24 3 0.09
25 1 0.03
26 9 0.27
ACGTcount: A:0.21, C:0.03, G:0.44, T:0.32
Consensus pattern (24 bp):
TGATGATGATGGGGATGGTGTGCA
Found at i:8377447 original size:4 final size:4
Alignment explanation
Indices: 8377412--8377478 Score: 52
Period size: 4 Copynumber: 17.2 Consensus size: 4
8377402 AACCAATCTT
* * *
8377412 TTTC TTCC TTTC TCTC -TT- TTTC TTTC -TCC TTTC TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC
*
8377458 -TCC TTTC TTTC TTTCC TTTC T
1 TTTC TTTC TTTC TTT-C TTTC T
8377479 CCTTTCTTCC
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
3 7 0.14
4 34 0.69
5 8 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:8377454 original size:20 final size:20
Alignment explanation
Indices: 8377412--8377486 Score: 114
Period size: 20 Copynumber: 3.6 Consensus size: 20
8377402 AACCAATCTT
*
8377412 TTTCTTCCTTTCTCTCTTTTTC
1 TTTC-TCCTTTCTTTC-TTTTC
8377434 TTTCTCCTTTCTTTCTTTTC
1 TTTCTCCTTTCTTTCTTTTC
*
8377454 TTTCTCCTTTCTTTCTTTCC
1 TTTCTCCTTTCTTTCTTTTC
8377474 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
8377487 CCAACTAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 37 0.73
21 10 0.20
22 4 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTCCTTTCTTTCTTTTC
Found at i:8377483 original size:16 final size:15
Alignment explanation
Indices: 8377412--8377486 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
8377402 AACCAATCTT
8377412 TTTC-TTCCTTTCTC
1 TTTCTTTCCTTTCTC
8377426 TCTT-TTT-CTTTCTCC
1 T-TTCTTTCCTTTCT-C
8377441 TTTCTTT-CTTT-TC
1 TTTCTTTCCTTTCTC
8377454 TTTC--TCC-TT-TC
1 TTTCTTTCCTTTCTC
8377465 TTTCTTTCCTTTCTCC
1 TTTCTTTCCTTTCT-C
8377481 TTTCTT
1 TTTCTT
8377487 CCAACTAATC
Statistics
Matches: 51, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
11 9 0.18
12 1 0.02
13 8 0.16
14 12 0.24
15 14 0.27
16 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTCTTTCCTTTCTC
Found at i:8377488 original size:15 final size:15
Alignment explanation
Indices: 8377412--8377488 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 15
8377402 AACCAATCTT
8377412 TTTCTTCCTTTCTCTC
1 TTTCTTCCTTTCTC-C
8377428 TTT-TT-CTTTCTCC
1 TTTCTTCCTTTCTCC
*
8377441 TTTCTTTCTTT-T-C
1 TTTCTTCCTTTCTCC
8377454 TTTC-TCC-TT-T-C
1 TTTCTTCCTTTCTCC
8377465 TTTCTTTCCTTTCTCC
1 TTTC-TTCCTTTCTCC
8377481 TTTCTTCC
1 TTTCTTCC
8377489 AACTAATCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 12 0.23
14 12 0.23
15 11 0.21
16 8 0.15
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCTTCCTTTCTCC
Found at i:8384354 original size:9 final size:9
Alignment explanation
Indices: 8384340--8384364 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8384330 TATAGTTATC
8384340 ATTACTATT
1 ATTACTATT
8384349 ATTACTATT
1 ATTACTATT
8384358 ATTACTA
1 ATTACTA
8384365 CTAATAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTACTATT
Found at i:8385863 original size:8 final size:8
Alignment explanation
Indices: 8385846--8385888 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
8385836 TTAGGTAATA
8385846 GGTAAGTG
1 GGTAAGTG
*
8385854 GGTTAGTG
1 GGTAAGTG
8385862 GGTAAGTG
1 GGTAAGTG
*
8385870 GGTAAATG
1 GGTAAGTG
8385878 GGTAA-TG
1 GGTAAGTG
8385885 GGTA
1 GGTA
8385889 GTCCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (8 bp):
GGTAAGTG
Found at i:8386923 original size:21 final size:21
Alignment explanation
Indices: 8386894--8386961 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
8386884 TTGACTTTGA
* *
8386894 ATGATGGCATCAGTCCTTGTC
1 ATGAAGGCATCAGTCTTTGTC
8386915 ATGAAGGCATCTA-TCTTTGTC
1 ATGAAGGCATC-AGTCTTTGTC
8386936 ATGAAGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
8386957 ATGAA
1 ATGAA
8386962 TTGTATGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:8393298 original size:35 final size:35
Alignment explanation
Indices: 8393269--8393341 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
8393259 GGAGTGCGTG
*
8393269 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
***
8393304 TGATGATATTGCCTTGTGCATGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
8393339 TGA
1 TGA
8393342 GCTAAGTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
Found at i:8405948 original size:35 final size:35
Alignment explanation
Indices: 8405920--8406027 Score: 146
Period size: 35 Copynumber: 3.1 Consensus size: 35
8405910 GGAGTGCGTG
8405920 TGATGATATTGAAATGTGCGTGAAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGAAGGGAGTGCACA
* * *
8405955 TGATGATACTGAAATGTGCGTGTATGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGAAGGGAGTGCACA
***
8405990 TGATGATATTGCCTTGTGCGTGTAA-GGAGTGCACA
1 TGATGATATTGAAATGTGCGTG-AAGGGAGTGCACA
8406025 TGA
1 TGA
8406028 GCTGAGTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 63 0.98
36 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGAAGGGAGTGCACA
Found at i:8407665 original size:29 final size:28
Alignment explanation
Indices: 8407575--8407668 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
8407565 ACCCCCAAAA
*
8407575 TTTTTAAAAATTTTTATTTACTATATAT
1 TTTTTAAAAATTTTTATTTATTATATAT
* * * * *
8407603 AGTTTCAAAATTTTTTATTTTTTATTTAT
1 -TTTTTAAAAATTTTTATTTATTATATAT
* *
8407632 ATTTTTAAAAATTTTTAATTCATTATAAAT
1 -TTTTTAAAAATTTTT-ATTTATTATATAT
8407662 TTTTTAA
1 TTTTTAA
8407669 TTGATCCCCT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 42 0.82
30 9 0.18
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTTAAAAATTTTTATTTATTATATAT
Found at i:8415462 original size:3 final size:3
Alignment explanation
Indices: 8415456--8415481 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8415446 ATAATAATAA
8415456 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
8415482 ATTAACAATG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8417065 original size:30 final size:31
Alignment explanation
Indices: 8417029--8417089 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
8417019 GAATATAAAT
8417029 TATCCACAA-AGTACTAATT-AAAAGAAAAAA
1 TATCCACAATA-TACTAATTGAAAAGAAAAAA
* *
8417059 TATCCACAATATGCTAATTGAGAAGAAAAAA
1 TATCCACAATATACTAATTGAAAAGAAAAAA
8417090 CCTATAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (31 bp):
TATCCACAATATACTAATTGAAAAGAAAAAA
Found at i:8424593 original size:20 final size:20
Alignment explanation
Indices: 8424568--8424613 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
8424558 CTTCTAAACC
8424568 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
8424588 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
8424608 TCAAAT
1 TCAAAT
8424614 GGGACCAAAA
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:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:8428551 original size:19 final size:20
Alignment explanation
Indices: 8428517--8428556 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8428507 GGCTAGAGGA
*
8428517 AATTTTTGGAATAAAATAAT
1 AATTGTTGGAATAAAATAAT
8428537 AATTGTTGG-ATAAAATAAT
1 AATTGTTGGAATAAAATAAT
8428556 A
1 A
8428557 CCAATGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (20 bp):
AATTGTTGGAATAAAATAAT
Found at i:8431354 original size:14 final size:14
Alignment explanation
Indices: 8431335--8431365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8431325 TCCTTATCTT
*
8431335 TTTCTTTTTTCTCC
1 TTTCTTCTTTCTCC
8431349 TTTCTTCTTTCTCC
1 TTTCTTCTTTCTCC
8431363 TTT
1 TTT
8431366 ATTTCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCTTCTTTCTCC
Found at i:8440058 original size:19 final size:19
Alignment explanation
Indices: 8440034--8440070 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8440024 TTAAATTATC
8440034 AACTAGCAGAAGGTTTCTT
1 AACTAGCAGAAGGTTTCTT
* *
8440053 AACTAGCCGAGGGTTTCT
1 AACTAGCAGAAGGTTTCT
8440071 CACCAAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (19 bp):
AACTAGCAGAAGGTTTCTT
Done.