Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 27 of 295
Found at i:7247962 original size:48 final size:48
Alignment explanation
Indices: 7247891--7247990 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
7247881 AAACCCATAC
7247891 TTGTTGGTGAGTGGTTCCTAGATTTGATGTATTGACAAGCATCAATTT
1 TTGTTGGTGAGTGGTTCCTAGATTTGATGTATTGACAAGCATCAATTT
7247939 TTGTTGGTGAGTGGTTCCTAGATTTGATGTATTGACAAGCATCAATTT
1 TTGTTGGTGAGTGGTTCCTAGATTTGATGTATTGACAAGCATCAATTT
7247987 TTGT
1 TTGT
7247991 GAGATAACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (48 bp):
TTGTTGGTGAGTGGTTCCTAGATTTGATGTATTGACAAGCATCAATTT
Found at i:7249612 original size:20 final size:20
Alignment explanation
Indices: 7249576--7249613 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7249566 AAATATTAAA
*
7249576 AATATATTTTTATATTTTGT
1 AATATATTTTAATATTTTGT
7249596 AATA-ATTTTAATAATTTT
1 AATATATTTTAAT-ATTTT
7249614 TATGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
AATATATTTTAATATTTTGT
Found at i:7249635 original size:30 final size:30
Alignment explanation
Indices: 7249599--7249655 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7249589 ATTTTGTAAT
* *
7249599 AATTTTA-ATAATTTTTATGTTTAAAAATAC
1 AATTTTAGAAAATTTTAAT-TTTAAAAATAC
7249629 AATTTTAGAAAATTTTAATTTTAAAAA
1 AATTTTAGAAAATTTTAATTTTAAAAA
7249656 ATTAAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (30 bp):
AATTTTAGAAAATTTTAATTTTAAAAATAC
Found at i:7258932 original size:42 final size:42
Alignment explanation
Indices: 7258886--7258968 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
7258876 ATGGAGTTGA
**
7258886 TATGAGATTTCATGTAAGACCATGTCTAGGACATGGCATCGT
1 TATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATCGT
* * *
7258928 TATGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCATCG
1 TATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATCG
7258969 GTACCGACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATCGT
Found at i:7258981 original size:90 final size:90
Alignment explanation
Indices: 7258887--7259054 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
7258877 TGGAGTTGAT
* * * * * * *
7258887 ATGAGATTTCATGTAAGACCATGTCTAGGACATGGCATCGTTATG-AGGTCCCGTGTAAGACCAT
1 ATGAGACTTCATATAAGACAATATCTAGGACATGGCATCGATATGTAGG-CCCATATAAGACCAT
* *
7258951 GTCTGGGACATGGCATCGGTACCGAC
65 GTCAGCGACATGGCATCGGTACCGAC
* *
7258977 ATGAGACTTCATATAAGACAATATCTGGGATATGGCATCGATATGTAGGCCCATATAAGACCATG
1 ATGAGACTTCATATAAGACAATATCTAGGACATGGCATCGATATGTAGGCCCATATAAGACCATG
7259042 TCAGCGACATGGC
66 TCAGCGACATGGC
7259055 TTTAGCAGTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
90 63 0.95
91 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (90 bp):
ATGAGACTTCATATAAGACAATATCTAGGACATGGCATCGATATGTAGGCCCATATAAGACCATG
TCAGCGACATGGCATCGGTACCGAC
Found at i:7259054 original size:42 final size:42
Alignment explanation
Indices: 7258900--7259054 Score: 107
Period size: 42 Copynumber: 3.5 Consensus size: 42
7258890 AGATTTCATG
* * *
7258900 TAAGACCATGTCTA-GGACATGGCATCGTTATG-AGGTCCCGTG
1 TAAGACCATGTC-AGGGACATGGCATCGATATGTAGG-CCCATA
* * * * *
7258942 TAAGACCATGTCTGGGACATGGCATCGGTACCGACATGAGACTTCATA
1 TAAGACCATGTCAGGGACATGGCATCGATA-TG---T-AGGC-CCATA
* * * *
7258990 TAAGACAATATCTGGGATATGGCATCGATATGTAGGCCCATA
1 TAAGACCATGTCAGGGACATGGCATCGATATGTAGGCCCATA
*
7259032 TAAGACCATGTCAGCGACATGGC
1 TAAGACCATGTCAGGGACATGGC
7259055 TTTAGCAGTC
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
42 49 0.57
43 4 0.05
44 1 0.01
47 2 0.02
48 30 0.35
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (42 bp):
TAAGACCATGTCAGGGACATGGCATCGATATGTAGGCCCATA
Found at i:7260680 original size:18 final size:17
Alignment explanation
Indices: 7260657--7260690 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
7260647 AGTGATTGCC
7260657 TTCAACCAATCTACTATT
1 TTCAACCAATCT-CTATT
7260675 TTCAACCAATCTCTAT
1 TTCAACCAATCTCTAT
7260691 ATTTGCAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (17 bp):
TTCAACCAATCTCTATT
Found at i:7261900 original size:40 final size:40
Alignment explanation
Indices: 7261852--7261984 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
7261842 CTTTTCAGGT
* *
7261852 CAAATCCTATCCGCCTT-AAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACCTTGAA-TTACCATAGTGAATCAGGAA
* * *
7261892 TAAATCCTATTCACTTTGAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACCTTGAATTACCATAGTGAATCAGGAA
** ** ** *
7261932 CAAATCCTATCCATTTTGAGGTATTATAGTGAATCAAGAA
1 CAAATCCTATCCACCTTGAATTACCATAGTGAATCAGGAA
*
7261972 CGAATCCTATCCA
1 CAAATCCTATCCA
7261985 TTTTATATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 76 0.97
41 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (40 bp):
CAAATCCTATCCACCTTGAATTACCATAGTGAATCAGGAA
Found at i:7265382 original size:16 final size:15
Alignment explanation
Indices: 7265346--7265384 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7265336 GACCTAAATA
*
7265346 TATTCAAAAATAACT
1 TATTCAATAATAACT
*
7265361 TATTCAATAATATCT
1 TATTCAATAATAACT
7265376 CTATTCAAT
1 -TATTCAAT
7265385 TTAGTCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTCAATAATAACT
Found at i:7266433 original size:21 final size:21
Alignment explanation
Indices: 7266409--7266480 Score: 119
Period size: 21 Copynumber: 3.4 Consensus size: 21
7266399 GAATCGAGTC
7266409 GAGTGAAATGAAATTCGAATT
1 GAGTGAAATGAAATTCGAATT
7266430 GAGTGAAATGAAATTCGAATT
1 GAGTGAAATGAAATTCGAATT
*
7266451 GAGTGAAATGAAATGT-GAATC
1 GAGTGAAATGAAAT-TCGAATT
7266472 GAGTGAAAT
1 GAGTGAAAT
7266481 TAAAAATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 48 0.98
22 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.26
Consensus pattern (21 bp):
GAGTGAAATGAAATTCGAATT
Found at i:7266756 original size:18 final size:19
Alignment explanation
Indices: 7266718--7266758 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7266708 ATTTAGAATT
* *
7266718 TTTTTTAAAATTATTATAA
1 TTTTTTAAAAATATTAAAA
7266737 TTTTTTAAAAATA-TAAAA
1 TTTTTTAAAAATATTAAAA
7266755 TTTT
1 TTTT
7266759 GAATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTTAAAAATATTAAAA
Found at i:7266809 original size:20 final size:19
Alignment explanation
Indices: 7266754--7266818 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
7266744 AAAATATAAA
7266754 ATTTTGAATTTTTATAAA-T
1 ATTTTGAATTTTTA-AAATT
*
7266773 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
7266792 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
7266812 ATTTTGA
1 ATTTTGA
7266819 TTATTTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 3 0.07
19 26 0.62
20 13 0.31
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:7270034 original size:44 final size:44
Alignment explanation
Indices: 7269984--7270073 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
7269974 TCCTGTGAGC
7269984 TCAGCCTGTGACATCAATGTACGAGCTCAATGGAAACCGGCTCA
1 TCAGCCTGTGACATCAATGTACGAGCTCAATGGAAACCGGCTCA
*
7270028 TCAGCCTGTGACATCAATGTACGAGTTCAATGGAAACCGGCTCA
1 TCAGCCTGTGACATCAATGTACGAGCTCAATGGAAACCGGCTCA
7270072 TC
1 TC
7270074 CAATCCGAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (44 bp):
TCAGCCTGTGACATCAATGTACGAGCTCAATGGAAACCGGCTCA
Found at i:7270140 original size:11 final size:11
Alignment explanation
Indices: 7270124--7270148 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7270114 TATCATAACA
7270124 CACTTCAATTC
1 CACTTCAATTC
7270135 CACTTCAATTC
1 CACTTCAATTC
7270146 CAC
1 CAC
7270149 ATCATGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (11 bp):
CACTTCAATTC
Found at i:7270946 original size:12 final size:12
Alignment explanation
Indices: 7270929--7270953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7270919 ATGAGAAAAC
7270929 CTGTTAATACCA
1 CTGTTAATACCA
7270941 CTGTTAATACCA
1 CTGTTAATACCA
7270953 C
1 C
7270954 ACAATTGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CTGTTAATACCA
Found at i:7272767 original size:27 final size:27
Alignment explanation
Indices: 7272729--7272781 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
7272719 TTGGCAAGCC
7272729 ATCCACAAGTTGTAATCTAAGTGGTTG
1 ATCCACAAGTTGTAATCTAAGTGGTTG
*
7272756 ATCCACAAGTTGTAATTTAAGTGGTT
1 ATCCACAAGTTGTAATCTAAGTGGTT
7272782 TACTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
ATCCACAAGTTGTAATCTAAGTGGTTG
Found at i:7273786 original size:120 final size:121
Alignment explanation
Indices: 7273549--7273790 Score: 441
Period size: 120 Copynumber: 2.0 Consensus size: 121
7273539 TTCATCTTCA
7273549 TCTTCCTTCTAGTTGAACCTCCTTATTTACAGTAAGTGCCTTTGATTCCTTTTTTTTTTCTCTGA
1 TCTTCCTTCTAGTTGAACCTCCTTATTTACAGTAAGTGCCTTTGATTCCTTTTTTTTTTCTCTGA
* *
7273614 TTTTTTTAGTTAAAGTTCTTTCACTTCTTTTAACTTTTCTTTTCCCCTTTCGTATT
66 TTTTTTTAGTTAAAGTTCTTTCACTTCTTTCAACTTTTCTTTTCCCATTTCGTATT
*
7273670 TCTTCCTTCTAGTTGAACCTCCTTATTTACAGTAAGTGCCTTTGATTCC-TTTTTTTTTCTTTGA
1 TCTTCCTTCTAGTTGAACCTCCTTATTTACAGTAAGTGCCTTTGATTCCTTTTTTTTTTCTCTGA
*
7273734 TTTTTTTAGTTAAAGTTCTTTCACTTCTTTCAACTTTTCTTTTCCTATTTCGTATT
66 TTTTTTTAGTTAAAGTTCTTTCACTTCTTTCAACTTTTCTTTTCCCATTTCGTATT
7273790 T
1 T
7273791 GGATATAAAC
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 68 0.58
121 49 0.42
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (121 bp):
TCTTCCTTCTAGTTGAACCTCCTTATTTACAGTAAGTGCCTTTGATTCCTTTTTTTTTTCTCTGA
TTTTTTTAGTTAAAGTTCTTTCACTTCTTTCAACTTTTCTTTTCCCATTTCGTATT
Found at i:7273821 original size:21 final size:21
Alignment explanation
Indices: 7273797--7273837 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7273787 ATTTGGATAT
*
7273797 AAACTAGCAAAGCAAATTGTA
1 AAACCAGCAAAGCAAATTGTA
*
7273818 AAACCAGCAAAGTAAATTGT
1 AAACCAGCAAAGCAAATTGT
7273838 GCCTAAATGA
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:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (21 bp):
AAACCAGCAAAGCAAATTGTA
Found at i:7276090 original size:22 final size:22
Alignment explanation
Indices: 7276028--7276131 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 22
7276018 TAGCTCGTAT
* * * *
7276028 GAGCTTACTATTTTAGCTCATTG
1 GAGCTTACT-GTTCAGCTCAATA
7276051 GAGCTTACTGATTCAGCTCGAA-A
1 GAGCTTACTG-TTCAGCTC-AATA
7276074 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
*
7276096 GAGCTTACCATTTTCAGCTCAATA
1 GAGCTTA-C-TGTTCAGCTCAATA
7276120 GAGCTTACTGTT
1 GAGCTTACTGTT
7276132 ATTTAGCTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.03
22 19 0.27
23 28 0.40
24 21 0.30
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:7276116 original size:24 final size:23
Alignment explanation
Indices: 7276028--7276154 Score: 91
Period size: 23 Copynumber: 5.4 Consensus size: 23
7276018 TAGCTCGTAT
* * *
7276028 GAGCTTA-CTATTTTAGCTCATTG
1 GAGCTTACCT-TTTCAGCTCAATA
*
7276051 GAGCTTA-CTGATTCAGCTCGAA-A
1 GAGCTTACCT-TTTCAGCTC-AATA
*
7276074 GAGCTTA-CTGTTCAGCTCAATA
1 GAGCTTACCTTTTCAGCTCAATA
7276096 GAGCTTACCATTTTCAGCTCAATA
1 GAGCTTACC-TTTTCAGCTCAATA
* * *
7276120 GAGCTTACTGTTATTTAGCTCAGTAA
1 GAGCTTAC-CTT-TTCAGCTCAAT-A
7276146 GAGCTTACC
1 GAGCTTACC
7276155 GACCATGACC
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 26 0.30
24 24 0.28
25 9 0.10
26 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (23 bp):
GAGCTTACCTTTTCAGCTCAATA
Found at i:7280151 original size:23 final size:23
Alignment explanation
Indices: 7280122--7280167 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7280112 TGGTTTATAC
7280122 TTTTGTGTCATGCTTCTTAACAT
1 TTTTGTGTCATGCTTCTTAACAT
*
7280145 TTTTGTGTCATGCTTCTTTACAT
1 TTTTGTGTCATGCTTCTTAACAT
7280168 GGGGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.54
Consensus pattern (23 bp):
TTTTGTGTCATGCTTCTTAACAT
Found at i:7283656 original size:59 final size:60
Alignment explanation
Indices: 7283570--7283716 Score: 176
Period size: 59 Copynumber: 2.5 Consensus size: 60
7283560 TCTAATATTA
* * * *
7283570 TATATTATGATTTTTATT-AATTCGTATTTTAAAAATAGTTATACTAAGAATGTTATTAAAT
1 TATATCATTATTTTTATTAAATT-GTATTTTAAAAATAATTATACTAA-AATATTATTAAAT
* **
7283631 TATAT-ATTA-TTTTATTAAATTGTA-TTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATCATTATTTTTATTAAATTGTATTTTAAAAATAATTATACTAAAATATTATTAAAT
*
7283688 TATATCATTATTTTTATTAAATTATATTT
1 TATATCATTATTTTTATTAAATTGTATTT
7283717 AGTAATAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
57 17 0.23
58 20 0.27
59 24 0.32
60 9 0.12
61 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (60 bp):
TATATCATTATTTTTATTAAATTGTATTTTAAAAATAATTATACTAAAATATTATTAAAT
Found at i:7283734 original size:59 final size:57
Alignment explanation
Indices: 7283597--7283736 Score: 174
Period size: 59 Copynumber: 2.4 Consensus size: 57
7283587 TAATTCGTAT
* * * * *
7283597 TTTAAAAATAGTTATACTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTA
1 TTTAATAATAATTATATTAA-AATATTATTAAATTATATATTATTTTATTAAATTATA
*
7283655 TTTAATAATAATTATGTTAAAATATTATTAAATTATATCATTATTTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATTATTAAATTATAT-ATTA-TTTTATTAAATTATA
*
7283714 TTTAGTAATAATCT-TATTAAAAT
1 TTTAATAATAAT-TATATTAAAAT
7283737 TTAATAACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
57 17 0.24
58 20 0.28
59 33 0.46
60 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (57 bp):
TTTAATAATAATTATATTAAAATATTATTAAATTATATATTATTTTATTAAATTATA
Found at i:7283873 original size:39 final size:42
Alignment explanation
Indices: 7283816--7283922 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 42
7283806 TTTCCTTATG
*
7283816 CTATTACAACATCTATTCCATT-C-AACCAAAC-ATAAGAA-TA
1 CTATTACAGC-TCTATTCCATTCCAAACCAAACAAT-AGAATTA
*
7283856 CTATTACAGCTCTATTCCATTCCATTAAACCAAACAATTGAATTA
1 CTATTACAGCTCTATTCCATTCC---AAACCAAACAATAGAATTA
7283901 CTAATTACAGCTCTATTCCATT
1 CT-ATTACAGCTCTATTCCATT
7283923 ACAGCTATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
39 11 0.19
40 10 0.18
44 11 0.19
45 6 0.11
46 19 0.33
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (42 bp):
CTATTACAGCTCTATTCCATTCCAAACCAAACAATAGAATTA
Found at i:7283881 original size:44 final size:46
Alignment explanation
Indices: 7283830--7283922 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
7283820 TACAACATCT
*
7283830 ATTCCATTCAACCAAAC-ATAAGAA-TACT-ATTACAGCTCTATTCC
1 ATTCCATTAAACCAAACAAT-AGAATTACTAATTACAGCTCTATTCC
*
7283874 ATTCCATTAAACCAAACAATTGAATTACTAATTACAGCTCTATTCC
1 ATTCCATTAAACCAAACAATAGAATTACTAATTACAGCTCTATTCC
7283920 ATT
1 ATT
7283923 ACAGCTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 19 0.43
45 6 0.14
46 19 0.43
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (46 bp):
ATTCCATTAAACCAAACAATAGAATTACTAATTACAGCTCTATTCC
Found at i:7283925 original size:16 final size:16
Alignment explanation
Indices: 7283904--7283968 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
7283894 TGAATTACTA
7283904 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
7283920 ATTACAGCTATATTTC
1 ATTACAGCTCTATTCC
* *
7283936 ATTACATCTCTATTCA
1 ATTACAGCTCTATTCC
* *
7283952 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
7283968 A
1 A
7283969 CTCACCCCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:7289260 original size:256 final size:256
Alignment explanation
Indices: 7288805--7289316 Score: 1015
Period size: 256 Copynumber: 2.0 Consensus size: 256
7288795 TGGGCACCGG
7288805 CTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCAATCAGGTGTGTATTTCTCACTACTCTA
1 CTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCAATCAGGTGTGTATTTCTCACTACTCTA
7288870 GCTGTAGGATGGCTACTTTGGGCCGCGATGGGCCGAAAGTGGCCATGTGGCCCATGGGCCTACGG
66 GCTGTAGGATGGCTACTTTGGGCCGCGATGGGCCGAAAGTGGCCATGTGGCCCATGGGCCTACGG
7288935 CCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTCATATC
131 CCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTCATATC
7289000 TGTGGCTAGATTTGGGCTAAAAATGCCACACGAGCGTGTGGGCCCATTTGGGCTGAGAATA
196 TGTGGCTAGATTTGGGCTAAAAATGCCACACGAGCGTGTGGGCCCATTTGGGCTGAGAATA
7289061 CTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCAATCAGGTGTGTATTTCTCACTACTCTA
1 CTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCAATCAGGTGTGTATTTCTCACTACTCTA
7289126 GCTGTAGGATGGCTACTTTGGGCCGCGATGGGCCGAAAGTGGCCATGTGGCCCATGGGCCTACGG
66 GCTGTAGGATGGCTACTTTGGGCCGCGATGGGCCGAAAGTGGCCATGTGGCCCATGGGCCTACGG
*
7289191 GCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTCATATC
131 CCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTCATATC
7289256 TGTGGCTAGATTTGGGCTAAAAATGCCACACGAGCGTGTGGGCCCATTTGGGCTGAGAATA
196 TGTGGCTAGATTTGGGCTAAAAATGCCACACGAGCGTGTGGGCCCATTTGGGCTGAGAATA
7289317 GGCTTTAGGG
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 255 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (256 bp):
CTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCAATCAGGTGTGTATTTCTCACTACTCTA
GCTGTAGGATGGCTACTTTGGGCCGCGATGGGCCGAAAGTGGCCATGTGGCCCATGGGCCTACGG
CCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTCATATC
TGTGGCTAGATTTGGGCTAAAAATGCCACACGAGCGTGTGGGCCCATTTGGGCTGAGAATA
Found at i:7289399 original size:27 final size:27
Alignment explanation
Indices: 7289369--7289573 Score: 261
Period size: 27 Copynumber: 7.6 Consensus size: 27
7289359 TTAGTTTACC
*
7289369 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * * *
7289396 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
7289423 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
7289450 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
7289477 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
*
7289504 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** *
7289531 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*
7289558 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
7289574 ATTGATTTAC
Statistics
Matches: 153, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.03
27 147 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:7289649 original size:27 final size:27
Alignment explanation
Indices: 7289613--7290159 Score: 682
Period size: 27 Copynumber: 20.3 Consensus size: 27
7289603 CAATTTATAA
* *
7289613 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7289640 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7289667 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7289694 AATTACTGAAATACCCCTGTAAGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7289721 AATTATCGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7289748 AGGTTATCGCAATACCCCTGTAGGGTAG
1 A-ATTACCGAAATACCCCTGTAGGGTAG
7289776 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7289803 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7289830 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
7289857 AATTATCGCAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7289884 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7289911 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7289938 AATTACCGGAATAACCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7289965 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7289992 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7290019 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7290046 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7290073 AATTACCAAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
7290100 AATTACTAAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
7290127 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
7290153 AATTACC
1 AATTACC
7290160 ATTTTGCCCC
Statistics
Matches: 460, Mismatches: 59, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 15 0.03
27 421 0.92
28 24 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:7290731 original size:27 final size:26
Alignment explanation
Indices: 7290701--7290808 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
7290691 ATTCTGTTAA
* *
7290701 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
7290728 GTGGCTATGCCACAAATATCTGTTTTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
7290755 GTGGCTCTGCCAAAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * **
7290782 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
7290808 G
1 G
7290809 CAACCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 14 0.20
27 48 0.70
28 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:7295343 original size:23 final size:23
Alignment explanation
Indices: 7295299--7295372 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
7295289 ACCAGATTTT
**
7295299 TGCCAC-TATGGCATTACCGAATA
1 TGCCACATA-GGCATTATAGAATA
7295322 TGCCACATAGGCATTATAGAATA
1 TGCCACATAGGCATTATAGAATA
** * *
7295345 CACCACATAGGCCTCATAGAATA
1 TGCCACATAGGCATTATAGAATA
7295368 TGCCA
1 TGCCA
7295373 TTCAGGCTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 40 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (23 bp):
TGCCACATAGGCATTATAGAATA
Found at i:7295492 original size:21 final size:24
Alignment explanation
Indices: 7295442--7295493 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
7295432 GATAGACTTT
7295442 CTAAAAAAAAAGTGCTTATTTAGA
1 CTAAAAAAAAAGTGCTTATTTAGA
* *
7295466 CCAAAAAAATAGT-CTT-TTTA-A
1 CTAAAAAAAAAGTGCTTATTTAGA
7295487 CTAAAAA
1 CTAAAAA
7295494 TTCCACTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 3 0.12
24 11 0.44
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (24 bp):
CTAAAAAAAAAGTGCTTATTTAGA
Found at i:7311751 original size:14 final size:14
Alignment explanation
Indices: 7311730--7311798 Score: 84
Period size: 14 Copynumber: 4.9 Consensus size: 14
7311720 CTTACCTAAT
7311730 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
7311744 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
7311758 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
7311772 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
7311786 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
7311799 CAAGTTGCAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.36
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:7311757 original size:7 final size:7
Alignment explanation
Indices: 7311745--7311808 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
7311735 AAGTTGTGAT
7311745 TTGCAAG
1 TTGCAAG
7311752 TTGCAA-
1 TTGCAAG
7311758 TGTGCAAG
1 T-TGCAAG
** *
7311766 TTGTGAT
1 TTGCAAG
7311773 TTGCAAG
1 TTGCAAG
7311780 TTGCAA-
1 TTGCAAG
7311786 TGTGCAAG
1 T-TGCAAG
7311794 TTGTGCAAG
1 -T-TGCAAG
7311803 TTGCAA
1 TTGCAA
7311809 TGAAGCTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.04
7 34 0.74
8 2 0.04
9 8 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (7 bp):
TTGCAAG
Found at i:7311770 original size:28 final size:28
Alignment explanation
Indices: 7311730--7311798 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
7311720 CTTACCTAAT
7311730 TGTGCAAGTTGTGATTTGCAAGTTGCAA
1 TGTGCAAGTTGTGATTTGCAAGTTGCAA
7311758 TGTGCAAGTTGTGATTTGCAAGTTGCAA
1 TGTGCAAGTTGTGATTTGCAAGTTGCAA
7311786 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
7311799 CAAGTTGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.36
Consensus pattern (28 bp):
TGTGCAAGTTGTGATTTGCAAGTTGCAA
Found at i:7352888 original size:12 final size:12
Alignment explanation
Indices: 7352868--7352903 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7352858 TGGTTAGTTC
*
7352868 CCTTTCATGTAA
1 CCTTGCATGTAA
7352880 CCTTGCATGTAA
1 CCTTGCATGTAA
7352892 CCTTGCATGTAA
1 CCTTGCATGTAA
7352904 TTGACCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (12 bp):
CCTTGCATGTAA
Found at i:7356673 original size:29 final size:29
Alignment explanation
Indices: 7356610--7356694 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 29
7356600 AAGCACGACT
** * *
7356610 ATGAATGTGATTTGGGCCTTTTGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGACCAC
*
7356639 ACGAATGTGATTTGGGCCTAATGGACCAC
1 ATGAATGTGATTTGGGCCTAATGGACCAC
* * *
7356668 ATGAATGAGA-TTAGGCCTAGTGGACCA
1 ATGAATGTGATTTGGGCCTAATGGACCA
7356695 TATGCATATA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.32
29 32 0.68
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGACCAC
Found at i:7358428 original size:37 final size:37
Alignment explanation
Indices: 7358387--7358534 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
7358377 TAGTTTTAGC
7358387 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
7358424 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
7358461 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
7358498 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
7358535 AGCCTAGCTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:7365843 original size:37 final size:37
Alignment explanation
Indices: 7365802--7365949 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
7365792 TAGTTTTAGC
7365802 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
7365839 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
7365876 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
7365913 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
7365950 AGCCTAGCTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:7367854 original size:17 final size:18
Alignment explanation
Indices: 7367821--7367854 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7367811 TCCAAGGAAG
7367821 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
7367839 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
7367855 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:7374083 original size:20 final size:20
Alignment explanation
Indices: 7374058--7374095 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7374048 GCTTCTAGTC
7374058 CTATTGTATGTGTTGAAGAG
1 CTATTGTATGTGTTGAAGAG
7374078 CTATTGTATGTGTTGAAG
1 CTATTGTATGTGTTGAAG
7374096 TCCAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (20 bp):
CTATTGTATGTGTTGAAGAG
Found at i:7375229 original size:21 final size:22
Alignment explanation
Indices: 7375201--7375264 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
7375191 TAGAAACAGT
*
7375201 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
7375223 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
7375243 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
7375265 TTGGCAAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:7375299 original size:37 final size:37
Alignment explanation
Indices: 7375252--7375322 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
7375242 AATACGACAC
*
7375252 ATATAGTGCCTGATTGGCAAAGCCGATAAATTCTCAT
1 ATATAGTGCCTGATCGGCAAAGCCGATAAATTCTCAT
7375289 ATATAGTGCCTGATCGGCAAAGCCGATAAATTCT
1 ATATAGTGCCTGATCGGCAAAGCCGATAAATTCT
7375323 AATACTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (37 bp):
ATATAGTGCCTGATCGGCAAAGCCGATAAATTCTCAT
Found at i:7376170 original size:5 final size:5
Alignment explanation
Indices: 7376160--7376192 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
7376150 CTATTTCCCC
7376160 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT
7376193 CTTTCCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:7376644 original size:27 final size:29
Alignment explanation
Indices: 7376603--7376659 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
7376593 ATTATTTTAA
* *
7376603 ATTAACTTATCATAATTTATATCTAAAAT
1 ATTAACTTATCATAATTAAAATCTAAAAT
7376632 ATTAA-TTAT-ATAATTAAAATCTAAAAT
1 ATTAACTTATCATAATTAAAATCTAAAAT
7376659 A
1 A
7376660 AAAATCTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 17 0.65
28 4 0.15
29 5 0.19
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (29 bp):
ATTAACTTATCATAATTAAAATCTAAAAT
Found at i:7383797 original size:29 final size:30
Alignment explanation
Indices: 7383714--7383801 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
7383704 AATGAGCATG
* *
7383714 ATTGAATCAAAATTAAAGTTTCATATATATA
1 ATTGAA-CCAAATTAAAGTTTCATATGTATA
* *
7383745 TTTGAACCATAATCAAAGTTTCATATGTATA
1 ATTGAACCA-AATTAAAGTTTCATATGTATA
7383776 ATTGTAA-CAAATTAAAG-TTCATATGT
1 ATTG-AACCAAATTAAAGTTTCATATGT
7383802 CAAATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.18
30 9 0.18
31 29 0.59
32 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (30 bp):
ATTGAACCAAATTAAAGTTTCATATGTATA
Found at i:7400879 original size:12 final size:12
Alignment explanation
Indices: 7400862--7400907 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
7400852 AACACACAGA
7400862 ATTTTTTTTTTT
1 ATTTTTTTTTTT
*
7400874 ATTTTTTTTTGT
1 ATTTTTTTTTTT
7400886 ATTTTATTTTTTGT
1 ATTTT-TTTTTT-T
7400900 ACTTTTTT
1 A-TTTTTT
7400908 ATCACTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 16 0.55
13 5 0.17
14 4 0.14
15 4 0.14
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (12 bp):
ATTTTTTTTTTT
Found at i:7400898 original size:14 final size:13
Alignment explanation
Indices: 7400862--7400907 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
7400852 AACACACAGA
7400862 ATTTTTTTTTT-T
1 ATTTTTTTTTTGT
7400874 A-TTTTTTTTTGT
1 ATTTTTTTTTTGT
7400886 ATTTTATTTTTTGT
1 ATTTT-TTTTTTGT
7400900 ACTTTTTT
1 A-TTTTTT
7400908 ATCACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.30
12 3 0.10
13 3 0.10
14 11 0.37
15 4 0.13
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (13 bp):
ATTTTTTTTTTGT
Found at i:7400905 original size:15 final size:14
Alignment explanation
Indices: 7400862--7400905 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 14
7400852 AACACACAGA
7400862 ATTTT-TTTTTT-T
1 ATTTTATTTTTTGT
7400874 A-TTT-TTTTTTGT
1 ATTTTATTTTTTGT
7400886 ATTTTATTTTTTGT
1 ATTTTATTTTTTGT
7400900 ACTTTT
1 A-TTTT
7400906 TTATCACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.32
12 3 0.11
13 3 0.11
14 9 0.32
15 4 0.14
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (14 bp):
ATTTTATTTTTTGT
Found at i:7407357 original size:15 final size:15
Alignment explanation
Indices: 7407337--7407368 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7407327 ATAGGTTATA
7407337 GTGATAAGACAGGTG
1 GTGATAAGACAGGTG
*
7407352 GTGATAAGGCAGGTG
1 GTGATAAGACAGGTG
7407367 GT
1 GT
7407369 TAGGCAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.44, T:0.22
Consensus pattern (15 bp):
GTGATAAGACAGGTG
Found at i:7407655 original size:20 final size:19
Alignment explanation
Indices: 7407631--7407710 Score: 101
Period size: 20 Copynumber: 4.2 Consensus size: 19
7407621 ATCTTTTAAG
7407631 GATATGCAATATTAGATAT
1 GATATGCAATATTAGATAT
7407650 GGATATGCAATATTAGATAT
1 -GATATGCAATATTAGATAT
*
7407670 GATA--CAATCTTAGATAT
1 GATATGCAATATTAGATAT
*
7407687 GATATGCAATCTTGAAGATAT
1 GATATGCAATATT--AGATAT
7407708 GAT
1 GAT
7407711 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
17 16 0.29
19 11 0.20
20 19 0.35
21 9 0.16
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATATTAGATAT
Found at i:7413371 original size:10 final size:9
Alignment explanation
Indices: 7413356--7413418 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
7413346 CTTCTATTTC
7413356 AAAAAAAAG
1 AAAAAAAAG
*
7413365 GAAAAAAAG
1 AAAAAAAAG
7413374 AAAAGAAAAG
1 AAAA-AAAAG
*
7413384 AAAAATAAAT
1 AAAAA-AAAG
7413394 AAATAAAAAG
1 AAA-AAAAAG
7413404 --AAAAAAG
1 AAAAAAAAG
7413411 AAAAAAAA
1 AAAAAAAA
7413419 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
9 18 0.40
10 18 0.40
11 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:7414512 original size:40 final size:41
Alignment explanation
Indices: 7414366--7414637 Score: 200
Period size: 41 Copynumber: 6.6 Consensus size: 41
7414356 CAAAATTCAA
*
7414366 CGCCTTAATCCCCTAAGCAATAGTGGAGCAGATCGAAGACT
1 CGCCTTAATCCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
* * * *
7414407 CGCCTTAATCCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTT
1 CGCCTTAATCCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT
* *
7414447 GCAGATCTT-ATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACT
1 -C-G-CCTTAATC-CCCTAAGCAGTAGTGGAGCAGATCGAAGACT
*
7414491 CGCCTTAAT-CCCTAAACAGTAGTGGAGCAGATCGAAGACT
1 CGCCTTAATCCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
** *** ** * * *
7414531 CGCCTTAATGTCCTAAGCAGTAGAATAATAGGT-TAA-ATTT
1 CGCCTTAATCCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CT
* *
7414571 ACAGATCTT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACT
1 -C-G-CCTTAATC-CCCTAAGCAGTAGTGGAGCAGATCGAAGACT
*
7414615 CGCCTTAATCCCCTAAGCGGTAG
1 CGCCTTAATCCCCTAAGCAGTAG
7414638 GGTAACAGGT
Statistics
Matches: 177, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
39 2 0.01
40 46 0.26
41 62 0.35
42 14 0.08
43 42 0.24
44 9 0.05
45 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
CGCCTTAATCCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
Found at i:7414596 original size:124 final size:124
Alignment explanation
Indices: 7414366--7414626 Score: 423
Period size: 124 Copynumber: 2.1 Consensus size: 124
7414356 CAAAATTCAA
* *
7414366 CGCCTTAATCCCCTAAGCAATAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGG
1 CGCCTTAAT-CCCTAAACAATAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGA
* * * *
7414431 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACT
65 ATAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACT
* **
7414491 CGCCTTAATCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAATGTCCTAAGCAGTAGAA
1 CGCCTTAATCCCTAAACAATAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGAA
*
7414556 TAATAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACT
66 TAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACT
7414615 CGCCTTAATCCC
1 CGCCTTAATCCC
7414627 CTAAGCGGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 117 0.93
125 9 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (124 bp):
CGCCTTAATCCCTAAACAATAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGAA
TAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACT
Found at i:7414602 original size:84 final size:84
Alignment explanation
Indices: 7414499--7414972 Score: 567
Period size: 84 Copynumber: 5.7 Consensus size: 84
7414489 CTCGCCTTAA
* ** ** *
7414499 TCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAATGTCCTAAGCAGTAGAATAATAGGT
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
*
7414564 TAAATTTACAGATCTTATC
66 TAAATTTGCAGATCTTATC
* *
7414583 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACTCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGT
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
7414648 TAAATTTGCAGATCTTATC
66 TAAATTTGCAGATCTTATC
* * *
7414667 TCCCTAAGC---AGTGGAGCAAATCGAAGAGTCGCCTTAATCCCTTAAGCAGTAGGGTAACAGG-
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
*
7414728 ----TTCGCAGATCTTATC
66 TAAATTTGCAGATCTTATC
* * * *
7414743 TACCTAAGCAATAGCGGAGCAGATCGACGACTACTCGCCTTAATCCCCTAAGCAGTAGGGTAACA
1 TCCCTAAGCAGTAGTGGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACA
7414808 GGTTAAATTTGCAGATCTTATC
63 GGTTAAATTTGCAGATCTTATC
* * *
7414830 TCCCTAAGCAGTAGTGAAGCAGATTGAAGA-TCCACCTTAATCCCCTAAGCAGTAGGGTAACAGG
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACT-CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG
7414894 TTAAATTTGCAGATCTTA--
65 TTAAATTTGCAGATCTTATC
* *** *
7414912 TCCCTAAGTAGTAGCAAAGCAGATCGAAGACGAT-GCAGCTTAACCCCCTAAGCAGTAGGGT
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGAC--TCGC--CTTAATCCCCTAAGCAGTAGGGT
7414973 CCAAGATGAT
Statistics
Matches: 338, Mismatches: 35, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
76 22 0.07
79 13 0.04
81 48 0.14
82 59 0.17
83 2 0.01
84 134 0.40
85 24 0.07
87 36 0.11
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
TAAATTTGCAGATCTTATC
Found at i:7414812 original size:163 final size:163
Alignment explanation
Indices: 7414572--7414895 Score: 503
Period size: 163 Copynumber: 2.0 Consensus size: 163
7414562 GTTAAATTTA
* * * *
7414572 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACTCGCCTTAATCCCCTAAGCGGTA
1 CAGATCTTATCTACCTAAGCAATAGCGGAGCAGATCGAAAACTCGCCTTAATCCCCTAAGCAGTA
*
7414637 GGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT-G-G-AGCAAATCGAAGAGT-CG
66 GGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCGAAGA-TCCA
*
7414698 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTCG
130 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCG
*
7414732 CAGATCTTATCTACCTAAGCAATAGCGGAGCAGATCGACGACTACTCGCCTTAATCCCCTAAGCA
1 CAGATCTTATCTACCTAAGCAATAGCGGAGCAGATCGA--A-AACTCGCCTTAATCCCCTAAGCA
* *
7414797 GTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATC
63 GTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCGAAGATC
7414862 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
128 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
7414896 AAATTTGCAG
Statistics
Matches: 148, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
160 35 0.24
162 1 0.01
163 66 0.45
164 1 0.01
165 2 0.01
166 43 0.29
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (163 bp):
CAGATCTTATCTACCTAAGCAATAGCGGAGCAGATCGAAAACTCGCCTTAATCCCCTAAGCAGTA
GGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCGAAGATCCAC
CTTAATCCCCTAAGCAGTAGGGTAACAGGTTCG
Found at i:7414838 original size:43 final size:43
Alignment explanation
Indices: 7414788--7414925 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 43
7414778 CGCCTTAATC
7414788 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * ** * *
7414831 CCCTAAGCAGTAGTG-AAGCAGATTGAAGAT-C-CACCTTAATC-
1 CCCTAAGCAGTAGGGTAA-CAGGTTAAATTTGCAGATCTT-ATCT
7414872 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--T
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
*
7414913 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
7414926 CAAAGCAGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
41 38 0.51
42 10 0.14
43 26 0.35
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:7415743 original size:19 final size:19
Alignment explanation
Indices: 7415719--7415871 Score: 242
Period size: 19 Copynumber: 8.2 Consensus size: 19
7415709 AATCTTTAAG
7415719 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7415738 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
7415757 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7415774 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7415793 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
7415812 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7415829 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7415848 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
7415869 GAT
1 GAT
7415872 CTTGTAATCT
Statistics
Matches: 124, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
17 32 0.26
19 83 0.67
21 9 0.07
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7415766 original size:36 final size:37
Alignment explanation
Indices: 7415719--7415871 Score: 222
Period size: 36 Copynumber: 4.1 Consensus size: 37
7415709 AATCTTTAAG
*
7415719 GATATGCAATCTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
7415757 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
*
7415793 GATATGCAATATTAGATATGATA--CAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
7415829 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTT--AGATAT
7415869 GAT
1 GAT
7415872 CTTGTAATCT
Statistics
Matches: 106, Mismatches: 3, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
36 70 0.66
38 27 0.25
40 9 0.08
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:7415779 original size:55 final size:55
Alignment explanation
Indices: 7415719--7415871 Score: 279
Period size: 55 Copynumber: 2.7 Consensus size: 55
7415709 AATCTTTAAG
7415719 GATATGCAATCTTAGATATGATATGCAATATTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATATTAGATATGATACAATCTTAGATAT
7415774 GATATGCAATCTTAGATATGATATGCAATATTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATATTAGATATGATACAATCTTAGATAT
*
7415829 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTTAGATATGATATGCAATATT--AGATATGAT
7415872 CTTGTAATCT
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
55 86 0.91
57 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATATGCAATATTAGATATGATACAATCTTAGATAT
Found at i:7419595 original size:18 final size:19
Alignment explanation
Indices: 7419548--7419596 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
7419538 TCCCGTGAAA
* *
7419548 CTGCGAGCTC-ACCTAAAG
1 CTGCAAGCTCAACCAAAAG
7419566 CTGCAAGCTCAACCAAAAG
1 CTGCAAGCTCAACCAAAAG
7419585 -TGCAAGCTCAAC
1 CTGCAAGCTCAAC
7419597 TCAAGTTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.14
Consensus pattern (19 bp):
CTGCAAGCTCAACCAAAAG
Found at i:7421920 original size:22 final size:24
Alignment explanation
Indices: 7421892--7421938 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
7421882 GAATGCCAAG
7421892 TGTGTGATAAA-AATA-AAATACA
1 TGTGTGATAAATAATATAAATACA
*
7421914 TGTGTGATAAATAATATACATACA
1 TGTGTGATAAATAATATAAATACA
7421938 T
1 T
7421939 TTGTAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (24 bp):
TGTGTGATAAATAATATAAATACA
Found at i:7421925 original size:20 final size:21
Alignment explanation
Indices: 7421892--7421934 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
7421882 GAATGCCAAG
7421892 TGTGTGATAAAAATAAAATACA
1 TGTGTGAT-AAAATAAAATACA
*
7421914 TGTGTGAT-AAATAATATACA
1 TGTGTGATAAAATAAAATACA
7421934 T
1 T
7421935 ACATTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TGTGTGATAAAATAAAATACA
Found at i:7423056 original size:6 final size:6
Alignment explanation
Indices: 7423045--7423069 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7423035 TGTCGGATAT
7423045 TGTTAC TGTTAC TGTTAC TGTTAC T
1 TGTTAC TGTTAC TGTTAC TGTTAC T
7423070 ATTTCAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TGTTAC
Found at i:7423162 original size:53 final size:53
Alignment explanation
Indices: 7423054--7423174 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 53
7423044 TTGTTACTGT
* * *
7423054 TACTGTTACTGTTACTATTTCAGATTTGTTCTGATGAGGTACTCCGTGTACCG
1 TACTGTTACTGTTACCATTCCAGATTTGTTCTGATGAGGTACTCCATGTACCG
* * ** *
7423107 TACTGTTACTGTTACCGTTCCGGATTTGTTCTGATGAGGTACTTTATGTATCG
1 TACTGTTACTGTTACCATTCCAGATTTGTTCTGATGAGGTACTCCATGTACCG
* *
7423160 TACTGCTGCTGTTAC
1 TACTGTTACTGTTAC
7423175 TGTTACTGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
TACTGTTACTGTTACCATTCCAGATTTGTTCTGATGAGGTACTCCATGTACCG
Found at i:7423410 original size:18 final size:18
Alignment explanation
Indices: 7423384--7423491 Score: 101
Period size: 18 Copynumber: 5.9 Consensus size: 18
7423374 AATTGACTAA
*
7423384 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTGT
* *
7423402 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
* *
7423420 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTGT
* *
7423438 TACTGAATAAATAATTGT
1 TACTGAATAACTGATTGT
* *
7423456 T-CTGATTGACTGATTGT
1 TACTGAATAACTGATTGT
*
7423473 TAATGAATATTACTGATTG
1 TACTGAATA--ACTGATTG
7423492 ATTAATTGCT
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
17 13 0.19
18 48 0.70
20 8 0.12
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:7435928 original size:28 final size:27
Alignment explanation
Indices: 7435887--7435988 Score: 78
Period size: 28 Copynumber: 3.6 Consensus size: 27
7435877 TCTCGAAGTT
*
7435887 TCGCACACTGAGTGCCTTCACGGATGTA
1 TCGCACACTAAGTGCCTTC-CGGATGTA
* * *
7435915 TCGCACACTAAGTGCCATCCTAGATGTC
1 TCGCACACTAAGTGCCTTCC-GGATGTA
* * ** *
7435943 TCGAACACTAAGTGTTCATTTTTGGATGTT
1 TCGCACACTAAGTG--C-CTTCCGGATGTA
7435973 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
7435989 ATCCTCAATA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
27 1 0.02
28 36 0.63
30 19 0.33
31 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (27 bp):
TCGCACACTAAGTGCCTTCCGGATGTA
Found at i:7435981 original size:30 final size:29
Alignment explanation
Indices: 7435908--7436049 Score: 126
Period size: 28 Copynumber: 4.9 Consensus size: 29
7435898 GTGCCTTCAC
* * *
7435908 GGATGTATCGCACACTAAGTGCCA-TCCT
1 GGATGTTTCGCACACTAAGTGTCATTTCT
* * * *
7435936 AGATGTCTCGAACACTAAGTGTTCATTTTT
1 GGATGTTTCGCACACTAAGTG-TCATTTCT
* *
7435966 GGATGTTTCGCACACTAAGTGCCA-TCCT
1 GGATGTTTCGCACACTAAGTGTCATTTCT
** ** *
7435994 CAATAATTCACACACTAAGTGTCATTTCT
1 GGATGTTTCGCACACTAAGTGTCATTTCT
*
7436023 GGATGTTTCGCACACTAAGTGCCATTT
1 GGATGTTTCGCACACTAAGTGTCATTT
7436050 TCACAATCGA
Statistics
Matches: 86, Mismatches: 25, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
28 38 0.44
29 28 0.33
30 20 0.23
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (29 bp):
GGATGTTTCGCACACTAAGTGTCATTTCT
Found at i:7436046 original size:57 final size:58
Alignment explanation
Indices: 7435908--7436047 Score: 198
Period size: 58 Copynumber: 2.4 Consensus size: 58
7435898 GTGCCTTCAC
* * *
7435908 GGATGTATCGCACACTAAGTGCCATCCTAGATGTCTCGAACACTAAGTGTTCATTTTT
1 GGATGTTTCGCACACTAAGTGCCATCCTAGATATCTCGAACACTAAGTGTTCATTTCT
7435966 GGATGTTTCGCACACTAAGTGCCATCCTCA-ATAAT-TC-ACACACTAAGTG-TCATTTCT
1 GGATGTTTCGCACACTAAGTGCCATCCT-AGAT-ATCTCGA-ACACTAAGTGTTCATTTCT
7436023 GGATGTTTCGCACACTAAGTGCCAT
1 GGATGTTTCGCACACTAAGTGCCAT
7436048 TTTCACAATC
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
57 33 0.43
58 41 0.54
59 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (58 bp):
GGATGTTTCGCACACTAAGTGCCATCCTAGATATCTCGAACACTAAGTGTTCATTTCT
Found at i:7438196 original size:18 final size:18
Alignment explanation
Indices: 7438173--7438210 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7438163 TTGAATTAGT
7438173 GAAATTATG-AAATTAAAA
1 GAAATT-TGTAAATTAAAA
*
7438191 GAAATTTGTAGATTAAAA
1 GAAATTTGTAAATTAAAA
7438209 GA
1 GA
7438211 GATAAATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (18 bp):
GAAATTTGTAAATTAAAA
Found at i:7439436 original size:53 final size:50
Alignment explanation
Indices: 7439357--7439498 Score: 143
Period size: 53 Copynumber: 2.9 Consensus size: 50
7439347 GATGGAAAAG
*
7439357 ATGTGAT-ATGT-ACTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATAATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
** *
7439406 ACAATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGGT
1 ---ATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
* * *
7439459 A--TGA-AATGTGA-TCTGTATAAGACCATGGCAGGGCTATGGC
1 ATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGC
7439499 TTCGATGTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
46 23 0.29
47 7 0.09
48 3 0.04
50 1 0.01
52 7 0.09
53 36 0.46
54 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
ATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
Found at i:7444918 original size:16 final size:16
Alignment explanation
Indices: 7444899--7444933 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7444889 TTCTTTGTTC
7444899 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
7444915 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
7444931 TTT
1 TTT
7444934 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:7445007 original size:28 final size:29
Alignment explanation
Indices: 7444936--7444999 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
7444926 TTTCTTTTAT
*
7444936 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
7444967 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
7444995 ATATA
1 ATATA
7445000 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:7447224 original size:47 final size:47
Alignment explanation
Indices: 7447115--7447225 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
7447105 CCGGGATAAG
*
7447115 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTATAGTA
* * *
7447162 CACAAAGTACTTCATCGGAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTA-TAGTA
7447209 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
7447226 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTATAGTA
Found at i:7458247 original size:20 final size:20
Alignment explanation
Indices: 7458222--7458261 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7458212 AATATTTTCT
*
7458222 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7458242 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7458262 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7458264 original size:34 final size:35
Alignment explanation
Indices: 7458210--7458276 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7458200 CAAACACCAG
* *
7458210 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7458245 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7458277 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7462812 original size:13 final size:12
Alignment explanation
Indices: 7462769--7462811 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
7462759 CAATAAGAAC
7462769 AAAAATTAACAT
1 AAAAATTAACAT
* *
7462781 AAAAATATAAAAGG
1 AAAAAT-TAACA-T
7462795 AAAAATTAACAT
1 AAAAATTAACAT
7462807 AAAAA
1 AAAAA
7462812 AAATTCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 11 0.44
13 8 0.32
14 6 0.24
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (12 bp):
AAAAATTAACAT
Found at i:7470716 original size:29 final size:30
Alignment explanation
Indices: 7470669--7470736 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
7470659 TGGCCTAAGA
* *
7470669 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
7470699 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
7470729 GCAAATAT
1 GTAAATAT
7470737 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:7472924 original size:46 final size:46
Alignment explanation
Indices: 7472874--7473151 Score: 373
Period size: 46 Copynumber: 6.0 Consensus size: 46
7472864 GTGTGCTCTC
*
7472874 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* * *
7472920 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
7472966 TGATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACA
*
7473012 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
7473058 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
7473104 TGACA-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
7473150 TG
1 TG
7473152 TCAAAGATAA
Statistics
Matches: 213, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 210 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:7473451 original size:16 final size:17
Alignment explanation
Indices: 7473432--7473464 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7473422 ATGATTGAGT
7473432 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
7473448 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
7473465 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:7474242 original size:54 final size:53
Alignment explanation
Indices: 7474160--7474294 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 53
7474150 TTTCTACGCT
* *
7474160 CGTGTGTCCAACCGTATGCTCA-CCCGTGTAACTCACTGACTTAATTCACATGTC
1 CGTGTGT-CAACCGTGTGCT-AGCCCGTGTAACTCACTGACTTAATTCACACGTC
* * * **
7474214 TGTGTGTCAACCTGTGTGCTAGCCCGTGTGACTCATTGACTTGGTTCACACGTC
1 CGTGTGTCAACC-GTGTGCTAGCCCGTGTAACTCACTGACTTAATTCACACGTC
*
7474268 CGTGTATCAACCCGTGTGCTAGCCCGT
1 CGTGTGTCAA-CCGTGTGCTAGCCCGT
7474295 ATGAATCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.09
54 61 0.88
55 2 0.03
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (53 bp):
CGTGTGTCAACCGTGTGCTAGCCCGTGTAACTCACTGACTTAATTCACACGTC
Found at i:7480979 original size:12 final size:12
Alignment explanation
Indices: 7480949--7480998 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
7480939 ACTACAGAAG
* *
7480949 GTACAACATGAT
1 GTACAACAGGGT
7480961 GTACAACAGGGT
1 GTACAACAGGGT
* *
7480973 GTGCAACAGGGG
1 GTACAACAGGGT
7480985 GTACAACAAGGGT
1 GTACAAC-AGGGT
7480998 G
1 G
7480999 GAGGTTGCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
12 26 0.84
13 5 0.16
ACGTcount: A:0.34, C:0.16, G:0.34, T:0.16
Consensus pattern (12 bp):
GTACAACAGGGT
Found at i:7481795 original size:54 final size:53
Alignment explanation
Indices: 7481707--7481835 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 53
7481697 ACCACAGGCT
*
7481707 CGTGTGTCCAA-CCGTATGCTCACCTGTGTAACTCACTGACTTAGTTCACT-CGCC
1 CGTGTGT-CAACCCGTGTGCT-ACCTGTGTAACTCACTGACTTAGTTCA-TACGCC
* * *
7481761 CGTGTGTCAACCCGTGTGCTAGCTCGTGTGACTCACTGACTTGGTTCATACGCC
1 CGTGTGTCAACCCGTGTGCTACCT-GTGTAACTCACTGACTTAGTTCATACGCC
* *
7481815 CGTGTATCAACCCATGTGCTA
1 CGTGTGTCAACCCGTGTGCTA
7481836 ATCCATGTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 7 0.11
54 59 0.89
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (53 bp):
CGTGTGTCAACCCGTGTGCTACCTGTGTAACTCACTGACTTAGTTCATACGCC
Found at i:7489151 original size:10 final size:10
Alignment explanation
Indices: 7489136--7489160 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7489126 TTTTCATTAT
7489136 TTATTATATA
1 TTATTATATA
7489146 TTATTATATA
1 TTATTATATA
7489156 TTATT
1 TTATT
7489161 TTTAAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATA
Found at i:7491816 original size:34 final size:34
Alignment explanation
Indices: 7491778--7491845 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
7491768 ATCATTTGAA
* *
7491778 CCTCAACTATATATGTCTAATTGGTCCTTCCGCT
1 CCTCAACTACATATGTCTAATTGGTCCCTCCGCT
*
7491812 CCTCAGCTACATATGTCTAATTGGTCCCTCCGCT
1 CCTCAACTACATATGTCTAATTGGTCCCTCCGCT
7491846 AACTCGTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (34 bp):
CCTCAACTACATATGTCTAATTGGTCCCTCCGCT
Found at i:7494915 original size:30 final size:29
Alignment explanation
Indices: 7494870--7494929 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
7494860 GAGGGTGAGA
7494870 TGGGAGAGGAGTAAAAGTTTTAGGGGGAAAG
1 TGGGAGAGGAGTAAAAGTTTT--GGGGAAAG
*
7494901 TGGGAG-GGTGTAAAAGTTTTGGGGAAAG
1 TGGGAGAGGAGTAAAAGTTTTGGGGAAAG
7494929 T
1 T
7494930 AAAGAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (29 bp):
TGGGAGAGGAGTAAAAGTTTTGGGGAAAG
Found at i:7508553 original size:45 final size:45
Alignment explanation
Indices: 7508361--7508582 Score: 193
Period size: 45 Copynumber: 5.0 Consensus size: 45
7508351 CAAAGGATAC
* * * * * *
7508361 CATAGCATCTTTCAGCTATGGTCTTAGTCCTATT-TACCATGATGC
1 CATAACATCTTTCAGCTATGGTCTTACTCGT-TTGAATCATGATGT
* * * *
7508406 CATAACAT-TATTCAGCCATGGTCTTACTCACTTTTG--TCACGATGC
1 CATAACATCT-TTCAGCTATGGTCTTACT--CGTTTGAATCATGATGT
*** * * *
7508451 CATAGTGTCTTTCAGCTATGGTCTTACTCATTT-TATCCTGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATCATGATGT
* * *
7508495 TATAGCATCTTTCAGCTATGGTCTTACTTGTTTGAATCATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATCATGATGT
*
7508540 CATAACATCTTTCAACTATGGTCTTACTCGTTTGAATCATGAT
1 CATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATCATGAT
7508583 TAACCTGTTC
Statistics
Matches: 144, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
43 4 0.03
44 35 0.24
45 100 0.69
46 3 0.02
47 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (45 bp):
CATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATCATGATGT
Found at i:7519583 original size:22 final size:23
Alignment explanation
Indices: 7519558--7519606 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
7519548 AAAAAATAAA
* *
7519558 TAAACTTCTTTAAAT-TATTTTT
1 TAAAATTCTTTAAATATATATTT
* *
7519580 TAAAATTTTTTGAATATATATTT
1 TAAAATTCTTTAAATATATATTT
7519603 TAAA
1 TAAA
7519607 TTTTAAAGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
TAAAATTCTTTAAATATATATTT
Found at i:7520152 original size:34 final size:34
Alignment explanation
Indices: 7520109--7520177 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
7520099 AATAAATGAG
7520109 ATAAAATAAAAAAGTTATTAAAATTATTCTTTAT
1 ATAAAATAAAAAAGTTATTAAAATTATTCTTTAT
*
7520143 ATAAAATAAAAAAGTTATTAAATTTATTCTTTAT
1 ATAAAATAAAAAAGTTATTAAAATTATTCTTTAT
7520177 A
1 A
7520178 AAGTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (34 bp):
ATAAAATAAAAAAGTTATTAAAATTATTCTTTAT
Found at i:7526179 original size:33 final size:33
Alignment explanation
Indices: 7526061--7526251 Score: 122
Period size: 33 Copynumber: 5.8 Consensus size: 33
7526051 CATTTTCTTT
* *
7526061 GTGCCATAGTCCAACTATGGTCTTACA-TATGCA
1 GTGCCATAGCCCAGCTATGGTCTTACATTA-GCA
* ** * *
7526094 TTGCCACGGCCCAGCTATGGTCTTACATTTGTA
1 GTGCCATAGCCCAGCTATGGTCTTACATTAGCA
* *
7526127 ATG-CATAACCCAG-TCATGGTCTTATCATTAG-A
1 GTGCCATAGCCCAGCT-ATGGTCTTA-CATTAGCA
*
7526159 GTGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 GTGCCATAGCCCAGCTATGGTCTTACAT-T-AGCA
* * * * * * *
7526194 CTGCCATGGTCCAACCATGGTATTACATTCA-TA
1 GTGCCATAGCCCAGCTATGGTCTTACATT-AGCA
* *
7526227 GTGCCATAACCCAGTTATGGTCTTA
1 GTGCCATAGCCCAGCTATGGTCTTA
7526252 TTCGTCAATT
Statistics
Matches: 119, Mismatches: 31, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
31 1 0.01
32 22 0.18
33 68 0.57
34 5 0.04
35 23 0.19
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (33 bp):
GTGCCATAGCCCAGCTATGGTCTTACATTAGCA
Found at i:7526447 original size:19 final size:20
Alignment explanation
Indices: 7526409--7526449 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7526399 CATTCATTTC
*
7526409 AATTTTATATTTTAACAATA
1 AATTTTATATTTCAACAATA
*
7526429 AATTTTA-ATTTCAATAATA
1 AATTTTATATTTCAACAATA
7526448 AA
1 AA
7526450 AATATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTATATTTCAACAATA
Found at i:7531646 original size:31 final size:31
Alignment explanation
Indices: 7531608--7531725 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
7531598 ACAAATGACA
* *
7531608 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
7531639 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
7531670 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
7531701 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
7531726 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:7531820 original size:47 final size:46
Alignment explanation
Indices: 7531750--7531914 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
7531740 AAGTGATTTC
* * *
7531750 CGTATAAGACCATATATGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
7531796 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
7531843 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
7531885 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
7531915 ATTATGTGAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 27 0.26
47 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:7531902 original size:42 final size:43
Alignment explanation
Indices: 7531844--7531958 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
7531834 TATGTGATTC
*
7531844 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
7531886 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
7531928 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
7531959 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:7538997 original size:41 final size:40
Alignment explanation
Indices: 7538936--7539042 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 40
7538926 GAATCAGTGT
* * * *
7538936 GGGCATTAGCCAACTCAGATATAGAACCA-TATATATATTA
1 GGGCCTTAGCCCACTCAGATACAGAACCAGGA-ATATATTA
**
7538976 GGGCCTTAGCCCAGCTCAGATACAGAGTCAGGAATATATTA
1 GGGCCTTAGCCCA-CTCAGATACAGAACCAGGAATATATTA
* *
7539017 GGGCCTCAGCCCAATCAGATACAGAA
1 GGGCCTTAGCCCACTCAGATACAGAA
7539043 TGCAGATCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 22 0.39
41 33 0.59
42 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
GGGCCTTAGCCCACTCAGATACAGAACCAGGAATATATTA
Found at i:7542996 original size:22 final size:21
Alignment explanation
Indices: 7542954--7543011 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
7542944 AAATAGTAAT
* *
7542954 AACATAATAGT-G-AAATGAC
1 AACAAAATAGTGGAAAATAAC
7542973 AACAAAATAGTGGGAAAATAAC
1 AACAAAATAGT-GGAAAATAAC
*
7542995 AACCAAATAGTGGAAAA
1 AACAAAATAGTGGAAAA
7543012 CAGCAGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.30
21 7 0.21
22 16 0.48
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (21 bp):
AACAAAATAGTGGAAAATAAC
Found at i:7543023 original size:21 final size:22
Alignment explanation
Indices: 7542971--7543024 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
7542961 TAGTGAAATG
*
7542971 ACAACAAAATAGTGGGAAAATA
1 ACAACAAAATAGTGGGAAAACA
*
7542993 ACAACCAAATAGT-GGAAAACA
1 ACAACAAAATAGTGGGAAAACA
* *
7543014 GCAGCAAAATA
1 ACAACAAAATA
7543025 ACAATTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (22 bp):
ACAACAAAATAGTGGGAAAACA
Found at i:7551898 original size:11 final size:11
Alignment explanation
Indices: 7551882--7551915 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7551872 ATATAAATTT
*
7551882 TAATATATTAA
1 TAATATATAAA
7551893 TAATATATAAA
1 TAATATATAAA
7551904 TAAATATATAAA
1 T-AATATATAAA
7551916 GAAAATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATATAAA
Found at i:7553335 original size:10 final size:9
Alignment explanation
Indices: 7553257--7553337 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
7553247 TTTCTATATA
*
7553257 TTTTATGAT
1 TTTTATAAT
* *
7553266 TTATATAAA
1 TTTTATAAT
*
7553275 TTTTACAAT
1 TTTTATAAT
7553284 TTTTATAAT
1 TTTTATAAT
7553293 TTTTA-ATAT
1 TTTTATA-AT
*
7553302 TTTATATTAAAA
1 TTT-TA-T-AAT
* *
7553314 TATAATAAT
1 TTTTATAAT
7553323 TTTTATAAT
1 TTTTATAAT
7553332 TTTTAT
1 TTTTAT
7553338 TTTTTCATCA
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
8 1 0.02
9 45 0.83
10 3 0.06
11 1 0.02
12 3 0.06
13 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7561089 original size:11 final size:11
Alignment explanation
Indices: 7561070--7561098 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7561060 ATATAATTTC
7561070 TATAA-CTAGG
1 TATAACCTAGG
7561080 TATAACCTAGG
1 TATAACCTAGG
7561091 TATAACCT
1 TATAACCT
7561099 CTTCAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (11 bp):
TATAACCTAGG
Found at i:7561519 original size:17 final size:17
Alignment explanation
Indices: 7561481--7561523 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7561471 AAAATATTTT
7561481 TAAAAAA-TAAAAATTA
1 TAAAAAATTAAAAATTA
*
7561497 TTAAAAATTACAAAATTA
1 TAAAAAATTA-AAAATTA
7561515 -AAAAAATTA
1 TAAAAAATTA
7561524 TCTTTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAATTAAAAATTA
Found at i:7565260 original size:11 final size:12
Alignment explanation
Indices: 7565233--7565259 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7565223 CAAAACAGAC
7565233 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7565245 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7565257 TTT
1 TTT
7565260 AAAAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:7565530 original size:114 final size:112
Alignment explanation
Indices: 7565338--7565577 Score: 266
Period size: 114 Copynumber: 2.1 Consensus size: 112
7565328 AGGTCGACCT
** * **
7565338 TTAGCGGCATTTTACCAAAACGACGCTAAAAGGTTAAGCAAAACGACATCGTTTTACATGAGCTT
1 TTAGCGGCATTTTAAAAAAACGACGCTAAAACGTTAAGCAAAAAAACATCGTTTTACATGAGCTT
* * ** * *
7565403 CATTTGCAGTAGCGGCGTTTTTGGGAAAACGCCGCAATAGATCAAACC
66 CATATGCAGTAGCGGCGCTTTCCGAAAAACGCCACAATAGATC-AACC
* ** *
7565451 TTAGCGGCATTTTAGAAAAAACGCCGCTAAAACGTTAAGCAAAAAAATGTCGTTTTATATGAGCT
1 TTAGCGGCATTTTA-AAAAAACGACGCTAAAACGTTAAGCAAAAAAACATCGTTTTACATGAGCT
* * *
7565516 TCA-ATGACATTAGCGGCGCTTTCCTAAAAACGCCACAATAGCTCAACC
65 TCATATG-CAGTAGCGGCGCTTTCCGAAAAACGCCACAATAGATCAACC
*
7565564 TATAGCGGCGTTTT
1 T-TAGCGGCATTTT
7565578 TAACACCGCT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
113 21 0.20
114 84 0.80
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (112 bp):
TTAGCGGCATTTTAAAAAAACGACGCTAAAACGTTAAGCAAAAAAACATCGTTTTACATGAGCTT
CATATGCAGTAGCGGCGCTTTCCGAAAAACGCCACAATAGATCAACC
Found at i:7565808 original size:263 final size:263
Alignment explanation
Indices: 7565338--7565818 Score: 635
Period size: 263 Copynumber: 1.8 Consensus size: 263
7565328 AGGTCGACCT
*
7565338 TTAGCGGCATTTTACCAAAACGACGCTAAAAGGTTAAGCAAAACGACATCGTTTTACATGAGCTT
1 TTAGCGGCATTTTACCAAAACGACGCTAAAAGGTTAAGCAAAACGACATCGTTTTAAATGAGCTT
* * * ** * *
7565403 CATTTGCAGTAGCGGCGTTTTTGGGAAAACGCCGCAATAGATCAAACCTTAGCGGCATTTTAGAA
66 CAATGGCAGTAGCGGCGCTTTACGAAAAACGCCGCAATAGATCAAACCTTAACGGCATTTTAGAA
*
7565468 AAAACGCCGCTAAAACGTTAAGCAAAAAAATGTCGTTTTATATGAGCTTCAATGACATTAGCGGC
131 AAAACGCCGCTAAAACGTTAAGCAAAAAAATGTCGTTTTAAATGAGCTTCAATGACATTAGCGGC
*
7565533 GCTTTCCTAAAAACGCCACAATAGCTCAACCTATAGCGGCGTTTTTAACACCGCTATAGGTTGCT
196 GCTTTACTAAAAACGCCACAATAGCTCAACCTATAGCGGCGTTTTTAACACCGCTATAGGTTGCT
7565598 CCA
261 CCA
* * * * *
7565601 TTAGCGGCGTTTT-CCAAAAAC-ACCGCTAGAAGGTTAAGCAGAACGACATTGTTTTAAATTAGC
1 TTAGCGGCATTTTACC-AAAACGA-CGCTAAAAGGTTAAGCAAAACGACATCGTTTTAAATGAGC
* * * * * * * *
7565664 TTCAATGGCATTAGCGGTGCTTTACTAAAAACGCCGCAATATG-TCAATCTTTAATGGCGTTTTT
64 TTCAATGGCAGTAGCGGCGCTTTACGAAAAACGCCGCAATA-GATCAAACCTTAACGGCATTTTA
* * * ** * *
7565728 GTAAAAACGCCGCTAAAAGGTTAAGCAGAACGATGTCGTTTTAAATTAGCTTCAATGGCATTAGC
128 GAAAAAACGCCGCTAAAACGTTAAGCAAAAAAATGTCGTTTTAAATGAGCTTCAATGACATTAGC
*
7565793 GGCGCTTTACTAAAAACGCCGCAATA
193 GGCGCTTTACTAAAAACGCCACAATA
7565819 TATCAATCTT
Statistics
Matches: 184, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
262 3 0.02
263 180 0.98
264 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (263 bp):
TTAGCGGCATTTTACCAAAACGACGCTAAAAGGTTAAGCAAAACGACATCGTTTTAAATGAGCTT
CAATGGCAGTAGCGGCGCTTTACGAAAAACGCCGCAATAGATCAAACCTTAACGGCATTTTAGAA
AAAACGCCGCTAAAACGTTAAGCAAAAAAATGTCGTTTTAAATGAGCTTCAATGACATTAGCGGC
GCTTTACTAAAAACGCCACAATAGCTCAACCTATAGCGGCGTTTTTAACACCGCTATAGGTTGCT
CCA
Found at i:7565816 original size:114 final size:115
Alignment explanation
Indices: 7565616--7565929 Score: 402
Period size: 114 Copynumber: 2.7 Consensus size: 115
7565606 GGCGTTTTCC
* * * *
7565616 AAAAACACCGCTAGAAGGTTAAGCAGAACGACATTGTTTTAAATTAGCTTCAATGGCATTAGCGG
1 AAAAACGCCGCTAAAAGGTTAAGCAGAACGACGTCGTTTTAAATTAGCTTCAATGGCATTAGCGG
* * *
7565681 TGCTTTACTAAAAACGCCGCAATATGTCAATCTTTAATGGCG-TTTTTGT
66 CGCTTTACTAAAAACGCCGCAATATATCAATCTTTAACGGCGTTTTTTGT
*
7565730 AAAAACGCCGCTAAAAGGTTAAGCAGAACGATGTCGTTTTAAATTAGCTTCAATGGCATTAGCGG
1 AAAAACGCCGCTAAAAGGTTAAGCAGAACGACGTCGTTTTAAATTAGCTTCAATGGCATTAGCGG
*
7565795 CGCTTTACTAAAAACGCCGCAATATATCAATCTTTAACGGTGTTTTTTGT
66 CGCTTTACTAAAAACGCCGCAATATATCAATCTTTAACGGCGTTTTTTGT
* * * ** * * ** *
7565845 AAAAATGTCGCGAAAACATTAAACAGATCGACGTCGTTTT-GTTTGAACTTCAATGGCATTAGCG
1 AAAAACGCCGCTAAAAGGTTAAGCAGAACGACGTCGTTTTAAATT-AGCTTCAATGGCATTAGCG
7565909 GCG-TTT-CTTGAAAAACGCCGC
65 GCGCTTTAC-T-AAAAACGCCGC
7565930 TACAGTTTAT
Statistics
Matches: 176, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
113 1 0.01
114 104 0.59
115 71 0.40
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (115 bp):
AAAAACGCCGCTAAAAGGTTAAGCAGAACGACGTCGTTTTAAATTAGCTTCAATGGCATTAGCGG
CGCTTTACTAAAAACGCCGCAATATATCAATCTTTAACGGCGTTTTTTGT
Found at i:7566494 original size:15 final size:14
Alignment explanation
Indices: 7566476--7566518 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
7566466 TTTAATATTT
7566476 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
7566491 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
7566506 TTATGATTTAGGG
1 TTATGGTTTAGGG
7566519 TTGATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:7566923 original size:7 final size:7
Alignment explanation
Indices: 7566913--7566982 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
7566903 TAGGGGTTAA
7566913 TTAGGGT
1 TTAGGGT
7566920 TTAGGGT
1 TTAGGGT
* *
7566927 GTAGTGT
1 TTAGGGT
7566934 TT-GGGAT
1 TTAGGG-T
**
7566941 TTAATGT
1 TTAGGGT
7566948 TTAGGGT
1 TTAGGGT
*
7566955 TTATGGT
1 TTAGGGT
*
7566962 TTAGTGT
1 TTAGGGT
*
7566969 TTATGGT
1 TTAGGGT
*
7566976 ATAGGGT
1 TTAGGGT
7566983 CAGGGTTTTA
Statistics
Matches: 46, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
6 2 0.04
7 43 0.93
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:7567258 original size:21 final size:21
Alignment explanation
Indices: 7567233--7567282 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7567223 GATTTGGGCC
7567233 GGGTTT-GAGATTTAGG-GTTTG
1 GGGTTTAGAG-TTT-GGAGTTTG
7567254 GGGTTTAGAGTTTGGAGTTTG
1 GGGTTTAGAGTTTGGAGTTTG
*
7567275 GGGATTAG
1 GGGTTTAG
7567283 GGTCTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (21 bp):
GGGTTTAGAGTTTGGAGTTTG
Found at i:7568207 original size:35 final size:35
Alignment explanation
Indices: 7568161--7568228 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
7568151 CTATTGCTTG
7568161 TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
1 TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
7568196 TTATGTGAATTCTGTGCATCATGTACGTGACTC
1 TTATGTGAATTCTGTGCATCATGTACGTGACTC
7568229 AATCAATCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (35 bp):
TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
Found at i:7577413 original size:21 final size:21
Alignment explanation
Indices: 7577387--7577427 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7577377 ACTTAGAGCG
*
7577387 GAGGCAGCAGCGCGGGAGGCT
1 GAGGCAGCAGCGAGGGAGGCT
7577408 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
7577428 GGAGTAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.54, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCT
Found at i:7583127 original size:37 final size:37
Alignment explanation
Indices: 7583086--7583160 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
7583076 GCAATAGGAG
7583086 ATTGTGTATTCTTTTTCCTTCATTAGGTTTTTATCCC
1 ATTGTGTATTCTTTTTCCTTCATTAGGTTTTTATCCC
7583123 ATTGTGTATTCTTTTTCCTTCATTAGGTTTTTATCCC
1 ATTGTGTATTCTTTTTCCTTCATTAGGTTTTTATCCC
7583160 A
1 A
7583161 CAGGATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.15, C:0.19, G:0.11, T:0.56
Consensus pattern (37 bp):
ATTGTGTATTCTTTTTCCTTCATTAGGTTTTTATCCC
Found at i:7583146 original size:21 final size:21
Alignment explanation
Indices: 7583086--7583146 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 21
7583076 GCAATAGGAG
7583086 ATTGTGTATTCTTTTTCCTTC
1 ATTGTGTATTCTTTTTCCTTC
*
7583107 ATTAG-G--TT-TTTATCC--C
1 ATT-GTGTATTCTTTTTCCTTC
7583123 ATTGTGTATTCTTTTTCCTTC
1 ATTGTGTATTCTTTTTCCTTC
7583144 ATT
1 ATT
7583147 AGGTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
15 1 0.03
16 5 0.16
18 8 0.26
19 8 0.26
21 8 0.26
22 1 0.03
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.59
Consensus pattern (21 bp):
ATTGTGTATTCTTTTTCCTTC
Found at i:7589060 original size:18 final size:19
Alignment explanation
Indices: 7589023--7589060 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7589013 GAATATAATA
*
7589023 TTATTTAAAAATTATATAT
1 TTATTTAAAAATAATATAT
*
7589042 TTATTT-AAAATAATTTAT
1 TTATTTAAAAATAATATAT
7589060 T
1 T
7589061 GATAGTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTTAAAAATAATATAT
Found at i:7591124 original size:26 final size:26
Alignment explanation
Indices: 7591092--7591209 Score: 146
Period size: 26 Copynumber: 4.5 Consensus size: 26
7591082 CATTCCGACC
* *
7591092 CACAGCTCGTGTGAGTAGGCCCATGT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* * *
7591118 CACAGCTTGTATGAGTAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* *
7591144 CACAGCTTGTGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
*
7591170 CATAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* *
7591196 CACAACTCATGTGA
1 CACAGCTCGTGTGA
7591210 ACATTGATTT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCCCATTT
Found at i:7597377 original size:5 final size:5
Alignment explanation
Indices: 7597364--7597415 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
7597354 ATGCTCGTGA
* * *
7597364 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAAG AACAAA AAAAG AGAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AA-AAG AAAAG AAAAG AAAAG
7597415 A
1 A
7597416 GAGCATATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
4 3 0.08
5 27 0.69
6 9 0.23
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7597382 original size:10 final size:10
Alignment explanation
Indices: 7597364--7597413 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
7597354 ATGCTCGTGA
7597364 AAAAAAAAAG
1 AAAAAAAAAG
*
7597374 AAAAGAAAAG
1 AAAAAAAAAG
7597384 AAAAGAAAAAG
1 AAAA-AAAAAG
7597395 AACAAAAAAAG
1 AA-AAAAAAAG
7597406 AGAAAAAA
1 A-AAAAAA
7597414 GAGAGCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 13 0.37
11 19 0.54
12 3 0.09
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:7597412 original size:11 final size:11
Alignment explanation
Indices: 7597362--7597418 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
7597352 AAATGCTCGT
*
7597362 GAAAAAAAAAA
1 GAAAAAAAAGA
7597373 GAAAAGAAAAGA
1 GAAAA-AAAAGA
7597385 -AAAGAAAAAGA
1 GAAA-AAAAAGA
7597396 -ACAAAAAAAGA
1 GA-AAAAAAAGA
*
7597407 GAAAAAAGAGA
1 GAAAAAAAAGA
7597418 G
1 G
7597419 CATATGTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 31 0.77
12 9 0.22
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAGA
Found at i:7606328 original size:20 final size:20
Alignment explanation
Indices: 7606291--7606347 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
7606281 AATAATGCTT
* *
7606291 TAAAAATAAAAAATAAAAAA
1 TAAAAATAATATATAAAAAA
** * *
7606311 TTGAATTAATATATAAAATA
1 TAAAAATAATATATAAAAAA
7606331 TAAAAATAATATATAAA
1 TAAAAATAATATATAAA
7606348 TTTAGAATTA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAAATAATATATAAAAAA
Found at i:7607876 original size:26 final size:26
Alignment explanation
Indices: 7607840--7607949 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
7607830 TGATACAAAT
7607840 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
7607866 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
7607892 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
7607918 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
7607944 TGATAA
1 TGATAA
7607950 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:7609613 original size:27 final size:26
Alignment explanation
Indices: 7609572--7609651 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
7609562 GGAAGCTTTC
*
7609572 TGGTGGCTCTACCACATATATCTGTTA
1 TGGTGGCTCTGCCACAT-TATCTGTTA
*
7609599 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TA
* *
7609627 TGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTCTGCCACATTATCTGTT
7609652 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.64
28 16 0.34
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTA
Done.