Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
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: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 16 of 18
Found at i:7141353 original size:21 final size:21
Alignment explanation
Indices: 7141329--7141375 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
7141319 AGGGTTTCAA
7141329 TAGTTAAGCATATAAGTTCTC
1 TAGTTAAGCATATAAGTTCTC
*
7141350 TAGTTAAGCATATAAGTTTTC
1 TAGTTAAGCATATAAGTTCTC
7141371 TAGTT
1 TAGTT
7141376 GATACACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (21 bp):
TAGTTAAGCATATAAGTTCTC
Found at i:7141665 original size:71 final size:72
Alignment explanation
Indices: 7141513--7141665 Score: 177
Period size: 71 Copynumber: 2.1 Consensus size: 72
7141503 ACCTTTTTGG
* * * * *
7141513 TAGTCAACTATGCTAGTTCTTCAAGCTGATTTTCTTGATCTTTTTGGAATAAGGTTTACTATGCT
1 TAGTCGACTATGCTAGTTCTTCAAGCTGATTTTCTTGATCTTTTTAGAACAAGGTTAACTATACT
* *
7141578 TCATTTT
66 TCATCTC
* *
7141585 TAGTTGACTATGGCTA-TT-TTCAA-CTTGATTTTCTTGATCTTTTTAGAACATGGTTAACTATA
1 TAGTCGACTAT-GCTAGTTCTTCAAGC-TGATTTTCTTGATCTTTTTAGAACAAGGTTAACTATA
*
7141647 CTTCCTCTC
64 CTTCATCTC
7141656 TAGTCGACTA
1 TAGTCGACTA
7141666 GGGTTTTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
70 1 0.01
71 52 0.76
72 11 0.16
73 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (72 bp):
TAGTCGACTATGCTAGTTCTTCAAGCTGATTTTCTTGATCTTTTTAGAACAAGGTTAACTATACT
TCATCTC
Found at i:7145699 original size:35 final size:35
Alignment explanation
Indices: 7145625--7145817 Score: 185
Period size: 35 Copynumber: 5.8 Consensus size: 35
7145615 CCTCAAGCAC
7145625 TTGATTAAATTGTTTAATTAAGTTA-T--GCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* *
7145657 TTCATTAAATTGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* *** *
7145692 TTAATTAAATTAAATAATTAAGTTATTGGACCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
7145727 TTGATTAAA-----T--TT-A-TTATTGGACCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
7145753 TTGATTAAATTGTTTAATGAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
***
7145788 TTGATTAAATTAAATAATTAAGTTAATTGG
1 TTGATTAAATTGTTTAATTAAGTT-ATTGG
7145818 ACTTTATAAG
Statistics
Matches: 133, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
26 22 0.17
27 1 0.01
28 2 0.02
30 1 0.01
31 1 0.01
32 23 0.17
33 2 0.02
34 1 0.01
35 75 0.56
36 5 0.04
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:7145743 original size:26 final size:26
Alignment explanation
Indices: 7145714--7145763 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
7145704 AATAATTAAG
7145714 TTATTGGACCTAATTGATTAAATTTA
1 TTATTGGACCTAATTGATTAAATTTA
7145740 TTATTGGACCTAATTGATTAAATT
1 TTATTGGACCTAATTGATTAAATT
7145764 GTTTAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (26 bp):
TTATTGGACCTAATTGATTAAATTTA
Found at i:7145746 original size:61 final size:61
Alignment explanation
Indices: 7145681--7145798 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
7145671 TAATTAAGTC
* *
7145681 ATTGGGCCTAATTAATTAAATTAAATAATTAAGTTATTGGACCTAATTGATTAAATTTATT
1 ATTGGACCTAATTAATTAAATTAAATAATGAAGTTATTGGACCTAATTGATTAAATTTATT
* *** *
7145742 ATTGGACCTAATTGATTAAATTGTTTAATGAAGTTATTGGGCCTAATTGATTAAATT
1 ATTGGACCTAATTAATTAAATTAAATAATGAAGTTATTGGACCTAATTGATTAAATT
7145799 AAATAATTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.42
Consensus pattern (61 bp):
ATTGGACCTAATTAATTAAATTAAATAATGAAGTTATTGGACCTAATTGATTAAATTTATT
Found at i:7153194 original size:11 final size:11
Alignment explanation
Indices: 7153178--7153202 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7153168 CTCAATAAGA
7153178 TATTATTATTT
1 TATTATTATTT
7153189 TATTATTATTT
1 TATTATTATTT
7153200 TAT
1 TAT
7153203 CACATACAAA
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:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:7153536 original size:15 final size:15
Alignment explanation
Indices: 7153518--7153546 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7153508 GCTACGGCAT
7153518 TAGTTAAAAAGGGTC
1 TAGTTAAAAAGGGTC
7153533 TAGTTAAAAAGGGT
1 TAGTTAAAAAGGGT
7153547 TGTAATCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (15 bp):
TAGTTAAAAAGGGTC
Found at i:7160657 original size:15 final size:15
Alignment explanation
Indices: 7160634--7160663 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7160624 ACTTAATATC
7160634 TCAAGTCAATTCATA
1 TCAAGTCAATTCATA
*
7160649 TCAATTCAATTCATA
1 TCAAGTCAATTCATA
7160664 CTCTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (15 bp):
TCAAGTCAATTCATA
Found at i:7173626 original size:14 final size:14
Alignment explanation
Indices: 7173602--7173645 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7173592 ATAACCAAGA
*
7173602 AGAAAAGAGAAAGG
1 AGAAAAAAGAAAGG
* *
7173616 GGAAAAAAGAAAGA
1 AGAAAAAAGAAAGG
7173630 AGAAAAAGAGAAAGG
1 AGAAAAA-AGAAAGG
7173645 A
1 A
7173646 AGGAAGGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AGAAAAAAGAAAGG
Found at i:7205878 original size:49 final size:49
Alignment explanation
Indices: 7205821--7205970 Score: 282
Period size: 49 Copynumber: 3.1 Consensus size: 49
7205811 AATCTTTAAA
* *
7205821 CTAAATTTAGAATTTTAGAAGTTTTTTGATCTTTCCTTAAGGAAAAATT
1 CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
7205870 CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
1 CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
7205919 CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
1 CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
7205968 CTA
1 CTA
7205971 GGTTACACTT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 99 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (49 bp):
CTAAATTTAGAATTTTAGAAGTTGTTTGATCTTTCCTTAAGGCAAAATT
Found at i:7227703 original size:36 final size:36
Alignment explanation
Indices: 7227656--7227728 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7227646 GCTCTCTAAA
7227656 ATACATTTTCACCCCAAATCATCATTTTGGAACATT
1 ATACATTTTCACCCCAAATCATCATTTTGGAACATT
7227692 ATACATTTTCACCCCAAATCATCATTTTGGAACATT
1 ATACATTTTCACCCCAAATCATCATTTTGGAACATT
7227728 A
1 A
7227729 GAGGCTTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (36 bp):
ATACATTTTCACCCCAAATCATCATTTTGGAACATT
Found at i:7228495 original size:68 final size:68
Alignment explanation
Indices: 7228363--7228577 Score: 225
Period size: 68 Copynumber: 3.2 Consensus size: 68
7228353 GTTTGGTATG
*
7228363 ATGAGATGATTAAGTATGCATGATGTATACTATAAGATTATGTATATGATGTAAATTCCATATAC
1 ATGAGATGATTAAGTATGCATGATGCATACTATAAGATTATGTATATGATGTAAATTCCATATAC
*
7228428 CTT
66 CGT
* * * * * ***
7228431 GTGAGATGATTAAGTATACATGATGCATACTATATGGTTGTGCT-TATGATGTAAATTTTGTATA
1 ATGAGATGATTAAGTATGCATGATGCATACTATAAGATTATG-TATATGATGTAAATTCCATATA
7228495 CCGT
65 CCGT
* * ** * ** * *
7228499 ATAAGGTGATTAAGTATGCATGATAAATGCTAGGAGATTATGCATATGATGTATATTCCATATAC
1 ATGAGATGATTAAGTATGCATGATGCATACTATAAGATTATGTATATGATGTAAATTCCATATAC
* *
7228564 TGC
66 CGT
7228567 ATGAGATGATT
1 ATGAGATGATT
7228578 GAAAAAGCCT
Statistics
Matches: 114, Mismatches: 31, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
68 113 0.99
69 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (68 bp):
ATGAGATGATTAAGTATGCATGATGCATACTATAAGATTATGTATATGATGTAAATTCCATATAC
CGT
Found at i:7229075 original size:21 final size:21
Alignment explanation
Indices: 7229049--7229125 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
7229039 GATAGGATGA
*
7229049 AAGTATCGATACATATGGGTT
1 AAGTATCAATACATATGGGTT
7229070 AAGTATCAATACATATGGGTT
1 AAGTATCAATACATATGGGTT
7229091 AAGTATCAATACATATGGGTT
1 AAGTATCAATACATATGGGTT
*
7229112 AAGTATCGATACAT
1 AAGTATCAATACAT
7229126 TCTAAACAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (21 bp):
AAGTATCAATACATATGGGTT
Found at i:7243691 original size:42 final size:43
Alignment explanation
Indices: 7243645--7243756 Score: 183
Period size: 42 Copynumber: 2.6 Consensus size: 43
7243635 GATATTATGC
*
7243645 TTAAATTTAAACAAATTAAATTTAAATATAATTA-AT-CCTTAT
1 TTAAATTTAAACAAATTAAATTTAAATATAA-TAGATACATTAT
*
7243687 TTAAATTTAAACAAATTAAATTTAAATATAATAGATAGATTAT
1 TTAAATTTAAACAAATTAAATTTAAATATAATAGATACATTAT
7243730 TTAAATTTAAACAAATTAAATTTAAAT
1 TTAAATTTAAACAAATTAAATTTAAAT
7243757 TTATATGTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 2 0.03
42 33 0.50
43 31 0.47
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (43 bp):
TTAAATTTAAACAAATTAAATTTAAATATAATAGATACATTAT
Found at i:7243707 original size:15 final size:15
Alignment explanation
Indices: 7243687--7243755 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
7243677 TAATCCTTAT
7243687 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
*
7243702 TTAAATTTAAATATAA
1 TTAAATTTAAACA-AA
* * ** *
7243718 -TAGA--TAGATTAT
1 TTAAATTTAAACAAA
7243730 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
7243745 TTAAATTTAAA
1 TTAAATTTAAA
7243756 TTTATATGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
15 30 0.75
16 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
TTAAATTTAAACAAA
Found at i:7244857 original size:23 final size:22
Alignment explanation
Indices: 7244831--7244873 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7244821 TCTATAAAGC
7244831 TATGTGACAATAATTACTTTAGA
1 TATGTG-CAATAATTACTTTAGA
**
7244854 TATGTGCCCTAATTACTTTA
1 TATGTGCAATAATTACTTTA
7244874 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (22 bp):
TATGTGCAATAATTACTTTAGA
Found at i:7251106 original size:15 final size:15
Alignment explanation
Indices: 7251086--7251148 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 15
7251076 AGTATATAAA
7251086 TTTAAATTTAATTTG
1 TTTAAATTTAATTTG
*
7251101 TTTAAATTATCTATCAATTATA
1 TTT-AA--AT-T-T-AATT-TG
7251123 TTTAAATTTAATTTG
1 TTTAAATTTAATTTG
7251138 TTTAAATTTAA
1 TTTAAATTTAA
7251149 ACATAATATC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 15 0.38
16 6 0.15
17 1 0.03
18 3 0.08
19 3 0.08
20 1 0.03
21 6 0.15
22 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
TTTAAATTTAATTTG
Found at i:7251148 original size:21 final size:21
Alignment explanation
Indices: 7251082--7251149 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
7251072 AGATAGTATA
7251082 TAAATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
* ***
7251103 TAAA-TT--ATCT-A-TCAAT
1 TAAATTTAAATTTAATTTGTT
*
7251119 TATATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
7251140 TAAATTTAAA
1 TAAATTTAAA
7251150 CATAATATCC
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
16 5 0.16
17 3 0.09
18 3 0.09
19 3 0.09
20 3 0.09
21 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTGTT
Found at i:7257178 original size:82 final size:82
Alignment explanation
Indices: 7257041--7257209 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
7257031 TAGGTCACAC
7257041 ACATTAGGTGTCATGATTGAGATTAAATAAGGATATTTTAATTAAGTTGGACTTAATTGAAAGAG
1 ACATTAGGTGTCATGATTGAGATTAAATAAGGATATTTTAATTAAGTTGGACTTAATTGAAAGAG
7257106 ACCAAAATAAAGTAAAA
66 ACCAAAATAAAGTAAAA
7257123 ACATTAGGTGTCATGATTGAGATTAAATAAGGATATTTTAATTAAGTTGGACTTAATTGAAAGAG
1 ACATTAGGTGTCATGATTGAGATTAAATAAGGATATTTTAATTAAGTTGGACTTAATTGAAAGAG
7257188 ACCAAAATAAAGTAAAA
66 ACCAAAATAAAGTAAAA
7257205 A-ATTA
1 ACATTA
7257210 ATTAAGTTCT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 4 0.05
82 83 0.95
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.31
Consensus pattern (82 bp):
ACATTAGGTGTCATGATTGAGATTAAATAAGGATATTTTAATTAAGTTGGACTTAATTGAAAGAG
ACCAAAATAAAGTAAAA
Found at i:7258549 original size:76 final size:76
Alignment explanation
Indices: 7258435--7258576 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 76
7258425 TGGGTGACCA
* * * *
7258435 ATAAAAATAGGAAATTGTTTCTTACTTTCAAAGCAATTCCTAAAATTAAGGATAGAATTTTAATT
1 ATAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATT
7258500 TTAGATGATTC
66 TTAGATGATTC
* *
7258511 ATAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTCCTACAATTAAGGATAGTATTTTAATT
1 ATAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATT
7258576 T
66 T
7258577 GGGAAATTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (76 bp):
ATAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATT
TTAGATGATTC
Found at i:7266996 original size:21 final size:20
Alignment explanation
Indices: 7266951--7266997 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
7266941 ATCATGATCC
*
7266951 ATAATCAATAAATTAAAATAT
1 ATAATCAATAAA-TAAAATAA
7266972 ATAATGCAATAAA-AAAATAAA
1 ATAAT-CAATAAATAAAAT-AA
7266993 ATAAT
1 ATAAT
7266998 ATTTACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 11 0.48
22 7 0.30
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
ATAATCAATAAATAAAATAA
Found at i:7289307 original size:35 final size:34
Alignment explanation
Indices: 7289259--7289324 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
7289249 TAATTAAACA
7289259 AATTTAATCAATTAAGCTCAATAACTTAATTATTT
1 AATTTAATCAATTAAGCTCAAT-ACTTAATTATTT
* * * *
7289294 AATTTAATTAATTAGGCTTAATATTTAATTA
1 AATTTAATCAATTAAGCTCAATACTTAATTA
7289325 ATTGGGCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 8 0.30
35 19 0.70
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (34 bp):
AATTTAATCAATTAAGCTCAATACTTAATTATTT
Found at i:7306412 original size:32 final size:32
Alignment explanation
Indices: 7306366--7306433 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
7306356 ACTAAGTCAT
* *
7306366 CTCTGTCTCTGAACCCAGTTTCTGGCAATAGG
1 CTCTATCTCTGAACCCAGTTTCTGGCAATAGC
*
7306398 CTCTATCTCTGAACCCAGTTTTTGGCAATAGC
1 CTCTATCTCTGAACCCAGTTTCTGGCAATAGC
7306430 CTCT
1 CTCT
7306434 TAGTCGACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (32 bp):
CTCTATCTCTGAACCCAGTTTCTGGCAATAGC
Found at i:7320902 original size:15 final size:16
Alignment explanation
Indices: 7320864--7320905 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
7320854 TTAGTTTCTA
*
7320864 TTAATTAAATTAGTGT
1 TTAATTAATTTAGTGT
* *
7320880 TGATTTAATTTAGT-T
1 TTAATTAATTTAGTGT
7320895 TTAATTAATTT
1 TTAATTAATTT
7320906 TCTATAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
TTAATTAATTTAGTGT
Found at i:7326312 original size:15 final size:16
Alignment explanation
Indices: 7326270--7326313 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
7326260 TTTTAGTTTT
7326270 TGTT-AATTAATTTAG
1 TGTTCAATTAATTTAG
* *
7326285 TGTTGATTTAATTTAG
1 TGTTCAATTAATTTAG
7326301 T-TTCAATTAATTT
1 TGTTCAATTAATTT
7326314 TCTCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (16 bp):
TGTTCAATTAATTTAG
Found at i:7329307 original size:12 final size:12
Alignment explanation
Indices: 7329290--7329321 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7329280 GAAAAAGAAG
7329290 AAAAGAG-AAAA
1 AAAAGAGAAAAA
7329301 AAAA-AGAAAAA
1 AAAAGAGAAAAA
7329312 AAAAGAGAAA
1 AAAAGAGAAA
7329322 GGAGAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 12 0.63
12 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAAA
Found at i:7329315 original size:10 final size:10
Alignment explanation
Indices: 7329281--7329317 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
7329271 GAAAGTAAAG
*
7329281 AAAAAGAAGA
1 AAAAAGAAAA
*
7329291 AAAGAGAAAA
1 AAAAAGAAAA
7329301 AAAAAGAAAA
1 AAAAAGAAAA
7329311 AAAAAGA
1 AAAAAGA
7329318 GAAAGGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:7347865 original size:35 final size:35
Alignment explanation
Indices: 7347826--7347899 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
7347816 TAAATTGTTT
*
7347826 AATTAAGTCATTGGGTCTAATTAATTAAAATAAAC
1 AATTAAGTCATTGGGCCTAATTAATTAAAATAAAC
* * * * *
7347861 AATTAATTTATTGGGCCTAATTGATTAAATTAAAT
1 AATTAAGTCATTGGGCCTAATTAATTAAAATAAAC
7347896 AATT
1 AATT
7347900 TCGTTAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (35 bp):
AATTAAGTCATTGGGCCTAATTAATTAAAATAAAC
Found at i:7348098 original size:246 final size:246
Alignment explanation
Indices: 7347664--7348137 Score: 795
Period size: 246 Copynumber: 1.9 Consensus size: 246
7347654 GAGTTCATTG
* *
7347664 CCAACATGTTAGAAGCCTAATGGGTCACACACCTAAAATGAATGTTGAAAATAAAATGAGAGAGA
1 CCAACATGTTAGAAGCCTAATGGGTCACACAACTAAAATGAATGTTGAAAATAAAATGAGAAAGA
* *
7347729 TGATTAAGTTGGATTTAATCAAATTAGAAATTATGAGCTTCTCAAGCACTTGATTAAAATTGTTT
66 TGATTAAATTGGACTTAATCAAATTAGAAATTATGAGCTTCTCAAGCACTTGATTAAAATTGTTT
*
7347794 AATCAAGTTATGCCTAATTCATTAAATTGTTTAATTAAGTCATTGGGTCTAATTAATTAAAATAA
131 AATCAAGTTATGCCTAATTCATTAAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATAA
*
7347859 ACAATTAATTTATTGGGCCTAATTGATTAAATTAAATAATTTCGTTAATTT
196 ACAATTAAGTTATTGGGCCTAATTGATTAAATTAAATAATTTCGTTAATTT
* *
7347910 CCAACATGTTAGAAGCCTAATGGGTCACACAACTAAAATGAATGTTGAAAATAAAATGGGAAAGG
1 CCAACATGTTAGAAGCCTAATGGGTCACACAACTAAAATGAATGTTGAAAATAAAATGAGAAAGA
* *
7347975 TGATTAAATTGGACTTAATCAAATTAGAAGTTATGGGCTTCTCAAGCACTTGATTAAAATTGTTT
66 TGATTAAATTGGACTTAATCAAATTAGAAATTATGAGCTTCTCAAGCACTTGATTAAAATTGTTT
* * ** * *
7348040 AATTAAGTTGTGGTTAATTCATTAAATTGTTTAATTACGTCATTGGGCCTAATTAATTAAATTAA
131 AATCAAGTTATGCCTAATTCATTAAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATAA
*
7348105 ACGATTAAGTTATTGGGCCTAATTGATTAAATT
196 ACAATTAAGTTATTGGGCCTAATTGATTAAATT
7348138 TGCTTAATTA
Statistics
Matches: 211, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
246 211 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (246 bp):
CCAACATGTTAGAAGCCTAATGGGTCACACAACTAAAATGAATGTTGAAAATAAAATGAGAAAGA
TGATTAAATTGGACTTAATCAAATTAGAAATTATGAGCTTCTCAAGCACTTGATTAAAATTGTTT
AATCAAGTTATGCCTAATTCATTAAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATAA
ACAATTAAGTTATTGGGCCTAATTGATTAAATTAAATAATTTCGTTAATTT
Found at i:7348100 original size:35 final size:35
Alignment explanation
Indices: 7348054--7348183 Score: 98
Period size: 35 Copynumber: 3.7 Consensus size: 35
7348044 AAGTTGTGGT
* * *
7348054 TAATTCATTAAATTGTTTAATTACGTCATTGGGCC
1 TAATTAATTAAATTGATTAATTAAGTCATTGGGCC
* *** *
7348089 TAATTAATTAAATTAAACGATTAAGTTATTGGGCC
1 TAATTAATTAAATTGATTAATTAAGTCATTGGGCC
* * * * *
7348124 TAATTGATTAAATTTGCTTAATTAAATTATTAGGCC
1 TAATTAATTAAA-TTGATTAATTAAGTCATTGGGCC
* * * *
7348160 GAATTGATTAAATTAAATAATTAA
1 TAATTAATTAAATTGATTAATTAA
7348184 CTTAATTGGG
Statistics
Matches: 74, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
35 47 0.64
36 27 0.36
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.41
Consensus pattern (35 bp):
TAATTAATTAAATTGATTAATTAAGTCATTGGGCC
Found at i:7348171 original size:71 final size:71
Alignment explanation
Indices: 7348054--7348194 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 71
7348044 AAGTTGTGGT
* ** * * * *
7348054 TAATTCATTAAATTGTTTAATTACGTCATTGGGCCTAATTAATTAAATTAAACGATTAAGTT-AT
1 TAATTCATTAAATTGCTTAATTAAATCATTAGGCCGAATTAATTAAATTAAACAATTAACTTAAT
7348118 TGGGCC
66 TGGGCC
* * * *
7348124 TAATTGATTAAATTTGCTTAATTAAATTATTAGGCCGAATTGATTAAATTAAATAATTAACTTAA
1 TAATTCATTAAA-TTGCTTAATTAAATCATTAGGCCGAATTAATTAAATTAAACAATTAACTTAA
7348189 TTGGGC
65 TTGGGC
7348195 TTATTAAAGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 11 0.19
71 40 0.69
72 7 0.12
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (71 bp):
TAATTCATTAAATTGCTTAATTAAATCATTAGGCCGAATTAATTAAATTAAACAATTAACTTAAT
TGGGCC
Found at i:7350159 original size:29 final size:29
Alignment explanation
Indices: 7350118--7350173 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
7350108 AGTAGCTTGT
*
7350118 ACATGTTTGTCTTAATTTA-GACAAGAAA
1 ACATGTTTGTCTTAATTAAGGACAAGAAA
7350146 ACATGTTTTGTCTTAATTAAGGACAAGA
1 ACATG-TTTGTCTTAATTAAGGACAAGA
7350174 GTTGCCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (29 bp):
ACATGTTTGTCTTAATTAAGGACAAGAAA
Found at i:7355661 original size:15 final size:17
Alignment explanation
Indices: 7355631--7355663 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
7355621 TATTTTGCGT
7355631 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
7355648 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
7355663 T
1 T
7355664 TAATTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:7356030 original size:473 final size:470
Alignment explanation
Indices: 7355436--7356536 Score: 1486
Period size: 473 Copynumber: 2.3 Consensus size: 470
7355426 TGCAGTTAAA
* * * * * * * *
7355436 GACAAACTAATATAGTTAATTAAAGTAATTTATTAAACTATGATTATTAATTAACTTGAAATGT-
1 GACAAATTCATATAATTAATTAAATTAA-TTAATAAATTATGATTATTAATTAAATTGTAATGTC
* * * *
7355500 TTTCAAATATATATACATTATATATATTGAGTTCATTTAT-AAGAAATATAATTACTATATTATA
65 TTT-TAATATCTATACTTTATATAAATTGAGTTCATTTATAAAG-AATATAATTACTATATTATA
* * *
7355564 TATATA-TGCTAATACTTTTAGTATATATACACTTTAAATATAAATATATTTACTTTTTATTTTG
128 TATACACT-ATAATACTTTT-G-ATATATACACTTTAAATATAAATATATTTA-TTTTT-TATTG
*
7355628 C-GTTAACATTATAAAAATTATAACTTATAAAATTATTAATTGTA-ATATATATATACACTTTAT
188 CAGCTAACATTATAAAAATTATAACTTATAAAATTATTAATTGTATATATATATATACACTTTAT
* ** * *
7355691 AGGATATAACTTGTAATATCTTTTAACACACACACTTTATATTATATATTATATTCATTTATAAA
253 AGGAAATAACTTGTAATATC-TTTAACACACACACTCCATATTATATATTACAGTCATTTATAAA
*
7355756 TAATATAATTACTATTATATAAATTAATTACT-AAATAATATATATAC-CTTTTATATACAA-TT
317 GAATATAATTACTATTATATAAATTAATTACTCAAA-AATATATATACTCTTTTATATA-AATTT
* * *
7355818 GTAATATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTAGAATAGTTTTTGAAACTTTGCT
380 ATAATATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAG-TTTTGAAACTTAGCT
*
7355883 ATTTTTT-TAAATTTCATCTAACTAAG
444 ATTTTTTCAAAATTTCATCTAACTAAG
*
7355909 TACAAATTCATATAATTAATTAAATTAATTAATACAATTATGATTATTAATTAAATTGTAATGTC
1 GACAAATTCATATAATTAATTAAATTAATTAATA-AATTATGATTATTAATTAAATTGTAATGTC
* * * *
7355974 TTTTAATGTCTATACTTTATATACATTGAGTTCATTTATAAAGAATATAATTACTATTTTGTATA
65 TTTTAATATCTATACTTTATATAAATTGAGTTCATTTATAAAGAATATAATTACTATATTATATA
*
7356039 TACACTATAATACTTTTGATATATATACTTTAAATATAAATATATTTATTTTTTATTGCATGCTA
130 TACACTATAATACTTTTGATATATACACTTTAAATATAAATATATTTATTTTTTATTGCA-GCTA
* *
7356104 ATATTATAAAAATTATAACTTATAAAATTATTAATTGTATTATATATATATACACTTTATAGTAA
194 ACATTATAAAAATTATAACTTATAAAATTATTAATTGTA-TATATATATATACACTTTATAGGAA
* * * *
7356169 ATAACTTGTAATGTCTTTAACACATACACTCCATATTATTTATTACGGTCATTTATAAAGAATAT
258 ATAACTTGTAATATCTTTAACACACACACTCCATATTATATATTACAGTCATTTATAAAGAATAT
* * * * * *
7356234 GATTAGTATTGTATACATTAGTTACTCAAAAATATATATACTTTTTTTATATAAATTTATAATAT
323 AATTACTATTATATAAATTAATTACTCAAAAATATATATAC-TCTTTTATATAAATTTATAATAT
7356299 ATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTGAAACTTAGCTATTTTTTC
387 ATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTGAAACTTAGCTATTTTTTC
* *
7356364 AAAATTTTATGTAACTAAG
452 AAAATTTCATCTAACTAAG
7356383 GACAAATTCATATAATTAATTAAATTAATTAATAAATTTATGATTATTAATTAAATTGTAATGTC
1 GACAAATTCATATAATTAATTAAATTAATTAATAAA-TTATGATTATTAATTAAATTGTAATGTC
* * * *
7356448 TTTTAATATCTATACTTTATATAAATTG-GATTCATTTATAAAAAATATAATTATTATTTTGTAT
65 TTTTAATATCTATACTTTATATAAATTGAG-TTCATTTATAAAGAATATAATTACTATATTATAT
** *
7356512 -TACGTTATAATACTTTTAATATATA
129 ATACACTATAATACTTTTGATATATA
7356537 TTTTATATAT
Statistics
Matches: 560, Mismatches: 53, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
469 5 0.01
470 5 0.01
471 70 0.12
472 80 0.14
473 200 0.36
474 200 0.36
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (470 bp):
GACAAATTCATATAATTAATTAAATTAATTAATAAATTATGATTATTAATTAAATTGTAATGTCT
TTTAATATCTATACTTTATATAAATTGAGTTCATTTATAAAGAATATAATTACTATATTATATAT
ACACTATAATACTTTTGATATATACACTTTAAATATAAATATATTTATTTTTTATTGCAGCTAAC
ATTATAAAAATTATAACTTATAAAATTATTAATTGTATATATATATATACACTTTATAGGAAATA
ACTTGTAATATCTTTAACACACACACTCCATATTATATATTACAGTCATTTATAAAGAATATAAT
TACTATTATATAAATTAATTACTCAAAAATATATATACTCTTTTATATAAATTTATAATATATAA
ACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTGAAACTTAGCTATTTTTTCAAAA
TTTCATCTAACTAAG
Found at i:7356435 original size:474 final size:469
Alignment explanation
Indices: 7355436--7356601 Score: 1536
Period size: 474 Copynumber: 2.5 Consensus size: 469
7355426 TGCAGTTAAA
* * * * * * * *
7355436 GACAAACTAATATAGTTAATTAAAGTAATTTATTAAACTATGATTATTAATTAACTTGAAATGT-
1 GACAAATTCATATAATTAATTAAATTAA-TTAATAAATTATGATTATTAATTAAATTGTAATGTC
* * * * * *
7355500 TTTCAAATATATATACATTATATATATTGAGTTCATTTAT-AAGAAATATAATTACTATATTATA
65 TTT-TAATATCTATACTTTATATAAATTGAGTTCATTTATAAAG-AATATAATTACTATTTTGTA
* * * *
7355564 TATATATGCTAATACTTTTAGTATATATACACTTTAAATATAAATATATTTACTTTTTATTTTGC
128 TATACAT-ATAATACTTTT-G-ATATATATACTTTAAATATAAATATATTTA-TTTTT-TATTGC
*
7355629 --GTTAACATTATAAAAATTATAACTTATAAAATTATTAATTGTAATATATATATACACTTTATA
188 ATGTTAATATTATAAAAATTATAACTTATAAAATTATTAATTGTAATATATATATACACTTTATA
* ** * * *
7355692 GGATATAACTTGTAATATCTTTTAACACACACACTTTATATTATATATTATATTCATTTATAAAT
253 GGAAATAACTTGTAATATCTTTTAACACACACACTCCATATTATATATTACAGTCATTTATAAAG
*
7355757 AATATAATTACTATTATATAAATTAATTACTAAATAATATATATACCTTTTATATACAATTGTAA
318 AATATAATTACTATTATATAAATTAATTACTAAATAATATATATACCTTTTATATACAATTATAA
* *
7355822 TATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTAGAATAGTTTTTGAAACTTTGCTATTT
383 TATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTTGAAACTTAGCTATTT
*
7355887 TTTTAAATTTCATCTAACTAAG
448 TTTAAAATTTCATCTAACTAAG
*
7355909 TACAAATTCATATAATTAATTAAATTAATTAATACAATTATGATTATTAATTAAATTGTAATGTC
1 GACAAATTCATATAATTAATTAAATTAATTAATA-AATTATGATTATTAATTAAATTGTAATGTC
* *
7355974 TTTTAATGTCTATACTTTATATACATTGAGTTCATTTATAAAGAATATAATTACTATTTTGTATA
65 TTTTAATATCTATACTTTATATAAATTGAGTTCATTTATAAAGAATATAATTACTATTTTGTATA
*
7356039 TACACTATAATACTTTTGATATATATACTTTAAATATAAATATATTTATTTTTTATTGCATGCTA
130 TACA-TATAATACTTTTGATATATATACTTTAAATATAAATATATTTATTTTTTATTGCATGTTA
*
7356104 ATATTATAAAAATTATAACTTATAAAATTATTAATTGTATTATATATATATACACTTTATAGTAA
194 ATATTATAAAAATTATAACTTATAAAATTATTAATTGTA--ATATATATATACACTTTATAGGAA
* * * *
7356169 ATAACTTGTAATGTC-TTTAACACATACACTCCATATTATTTATTACGGTCATTTATAAAGAATA
257 ATAACTTGTAATATCTTTTAACACACACACTCCATATTATATATTACAGTCATTTATAAAGAATA
* * * * * *
7356233 TGATTAGTATTGTATACATTAGTTACTCAAA-AATATATATACTTTTTTTATATA-AATTTATAA
322 TAATTACTATTATATAAATTAATTACT-AAATAATATATATAC--CTTTTATATACAA-TTATAA
7356296 TATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAG-TTTTGAAACTTAGCTATTT
383 TATATAAACTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTTGAAACTTAGCTATTT
* *
7356360 TTTCAAAATTTTATGTAACTAAG
448 TTT-AAAATTTCATCTAACTAAG
7356383 GACAAATTCATATAATTAATTAAATTAATTAATAAATTTATGATTATTAATTAAATTGTAATGTC
1 GACAAATTCATATAATTAATTAAATTAATTAATAAA-TTATGATTATTAATTAAATTGTAATGTC
* *
7356448 TTTTAATATCTATACTTTATATAAATTG-GATTCATTTATAAAAAATATAATTATTATTTTGTAT
65 TTTTAATATCTATACTTTATATAAATTGAG-TTCATTTATAAAGAATATAATTACTATTTTGTAT
* * * **
7356512 -TACGTTATAATACTTTT-A-ATATATA-TTT---TATATATTTATTTATTTTTTATTTAATGTT
129 ATAC-ATATAATACTTTTGATATATATACTTTAAATATAAATATATTTATTTTTTATTGCATGTT
* **
7356570 AATATTATGAAAATTATAGTTTATAAAATTAT
193 AATATTATAAAAATTATAACTTATAAAATTAT
7356602 AAAATTCATG
Statistics
Matches: 618, Mismatches: 59, Indels: 38
0.86 0.08 0.05
Matches are distributed among these distances:
467 54 0.09
469 5 0.01
470 8 0.01
471 77 0.12
472 81 0.13
473 193 0.31
474 200 0.32
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.45
Consensus pattern (469 bp):
GACAAATTCATATAATTAATTAAATTAATTAATAAATTATGATTATTAATTAAATTGTAATGTCT
TTTAATATCTATACTTTATATAAATTGAGTTCATTTATAAAGAATATAATTACTATTTTGTATAT
ACATATAATACTTTTGATATATATACTTTAAATATAAATATATTTATTTTTTATTGCATGTTAAT
ATTATAAAAATTATAACTTATAAAATTATTAATTGTAATATATATATACACTTTATAGGAAATAA
CTTGTAATATCTTTTAACACACACACTCCATATTATATATTACAGTCATTTATAAAGAATATAAT
TACTATTATATAAATTAATTACTAAATAATATATATACCTTTTATATACAATTATAATATATAAA
CTTAATTATCTAAAAAGAAGTTGTGAGATTACAATAGTTTTTGAAACTTAGCTATTTTTTAAAAT
TTCATCTAACTAAG
Found at i:7356902 original size:77 final size:75
Alignment explanation
Indices: 7356821--7357007 Score: 211
Period size: 75 Copynumber: 2.5 Consensus size: 75
7356811 TCCCCAACTG
* * * *
7356821 CCATGCTCCATTTTTTTTCTTTTCTCCCTAG-AGCCCAGCCCCAGCCAACCCCCGCCTCGT-TAC
1 CCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGCCCAACCACAGCCAACCCCCGCC-C-TAT-C
7356884 CCAATC-CCTAGCTA
63 CC-ATCTCC-AGCTA
* **
7356898 CCATGCTCCATCTTCTTACTTTTCT-CCTCAGTAGCCCAACCACAGCCATGCCCCGCCCTATCCC
1 CCATGCTCCATCTTCTTTCTTTTCTCCCT-AGTAGCCCAACCACAGCCAACCCCCGCCCTATCCC
*
7356962 ATCTCCAGCTG
65 ATCTCCAGCTA
*
7356973 CCATGTTCCATCTTCTTTCTTTTCTCCCTAGTAGC
1 CCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGC
7357008 ATAACCATAG
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
75 36 0.38
76 12 0.13
77 26 0.27
78 21 0.22
ACGTcount: A:0.16, C:0.43, G:0.10, T:0.31
Consensus pattern (75 bp):
CCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGCCCAACCACAGCCAACCCCCGCCCTATCCCA
TCTCCAGCTA
Found at i:7357074 original size:78 final size:77
Alignment explanation
Indices: 7356811--7357078 Score: 265
Period size: 78 Copynumber: 3.5 Consensus size: 77
7356801 TCTTCTGGCT
* * * * **
7356811 TCCCCAACTGCCATGCTCCATTTTTTTTCTTTTCTCCCTAG-AGCCCAGCCCCAGCCAACCCCCG
1 TCCCCAACTGCCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGCCCAACCACAGCCATGCCCCG
* *
7356875 CCTCGTTACCCAA
66 CCTTGTT-CCCCA
* * * *
7356888 TCCCTAGCTACCATGCTCCATCTTCTTACTTTTCT-CCTCAGTAGCCCAACCACAGCCATGCCCC
1 TCCCCAACTGCCATGCTCCATCTTCTTTCTTTTCTCCCT-AGTAGCCCAACCACAGCCATGCCCC
* *
7356952 GCCCT-AT-CCCA
65 GCCTTGTTCCCCA
* * * ** * ***
7356963 TCTCCAGCTGCCATGTTCCATCTTCTTTCTTTTCTCCCTAGTAGCATAACCATAGCCATGCCTTA
1 TCCCCAACTGCCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGCCCAACCACAGCCATGCCCCG
7357028 CCTTGTTGCCCCA
66 CCTTGTT-CCCCA
*
7357041 TCCCCAACTGCCATGCTCCATCTTTTTTCTTTTCTCCC
1 TCCCCAACTGCCATGCTCCATCTTCTTTCTTTTCTCCC
7357079 ACAGTGGCTC
Statistics
Matches: 154, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
75 56 0.36
76 7 0.05
77 32 0.21
78 59 0.38
ACGTcount: A:0.16, C:0.42, G:0.10, T:0.32
Consensus pattern (77 bp):
TCCCCAACTGCCATGCTCCATCTTCTTTCTTTTCTCCCTAGTAGCCCAACCACAGCCATGCCCCG
CCTTGTTCCCCA
Found at i:7360140 original size:40 final size:40
Alignment explanation
Indices: 7359993--7360195 Score: 185
Period size: 40 Copynumber: 5.0 Consensus size: 40
7359983 TGTTTAACTA
* * * *
7359993 GTTGTTAGGATATTTAT-TTTAGTTATTAAAGTTTATGTT
1 GTTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTATGTT
* * * ** *
7360032 GTTCTTGTTTGGATATATGTCCTTGGTTATTTAAGTTTATGGTAT
1 G---TTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTAT-GT-T
* *
7360077 -TTGTTTGGATTTTTGTGTTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTATGTT
* *
7360116 GTTGTTTGGATTTTTCTATATAGTTATTTAAGTTTATATT
1 GTTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTATGTT
* * * *
7360156 GTTGTATAGATATTTCTTTTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTATGTT
7360196 TAAGATATTT
Statistics
Matches: 136, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.01
40 71 0.52
41 31 0.23
42 13 0.10
43 16 0.12
44 2 0.01
45 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.18, T:0.59
Consensus pattern (40 bp):
GTTGTTTGGATTTTTCTATTTAGTTATTTAAGTTTATGTT
Found at i:7360211 original size:35 final size:39
Alignment explanation
Indices: 7360094--7360226 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 39
7360084 GATTTTTGTG
* * * *
7360094 TTTAGTTATTTAAGTTTATGTTGTTGTTTGGATTTTTC-TA
1 TTTAGTTATTTAAGTTTA--TTGTTGTATAGATATTTCTTT
*
7360134 TATAGTTATTTAAGTTTATATTGTTGTATAGATATTTC-TT
1 TTTAGTTATTTAAG-TT-TATTGTTGTATAGATATTTCTTT
*
7360174 TTTAGTTATTTAAGTTTA-TGTT-TA-AGATATTTGTTT
1 TTTAGTTATTTAAGTTTATTGTTGTATAGATATTTCTTT
*
7360210 TTTA-TTATTTAAATTTA
1 TTTAGTTATTTAAGTTTA
7360227 AAATTTATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
35 20 0.24
36 8 0.10
37 4 0.05
38 2 0.02
39 2 0.02
40 42 0.51
41 2 0.02
42 2 0.02
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (39 bp):
TTTAGTTATTTAAGTTTATTGTTGTATAGATATTTCTTT
Found at i:7365520 original size:14 final size:13
Alignment explanation
Indices: 7365486--7365516 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7365476 TTAATCGAAT
*
7365486 AATTTGATTAAAC
1 AATTTAATTAAAC
7365499 AATTTAATTAAAC
1 AATTTAATTAAAC
7365512 AATTT
1 AATTT
7365517 TAATCAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (13 bp):
AATTTAATTAAAC
Found at i:7365544 original size:36 final size:35
Alignment explanation
Indices: 7365502--7365628 Score: 145
Period size: 37 Copynumber: 3.6 Consensus size: 35
7365492 ATTAAACAAT
7365502 TTAATTAAACAATTTTAATCAATTAGGCCCAATGGC
1 TTAATTAAACAATTTTAATCAATTAGGCCCAAT-GC
* *
7365538 ATAATTAAACAATTTTTAATCAACTAGGCCCAATGAC
1 TTAATTAAACAA-TTTTAATCAATTAGGCCCAATG-C
* *
7365575 TTAATTAAGCAA-TTTAATTAATTA-GCCACAA--C
1 TTAATTAAACAATTTTAATCAATTAGGCC-CAATGC
*
7365607 TTAATTAAAAAATTTTAATCAA
1 TTAATTAAACAATTTTAATCAA
7365629 GTGCTTGAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
32 11 0.14
33 8 0.10
34 3 0.04
35 13 0.17
36 12 0.15
37 31 0.40
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (35 bp):
TTAATTAAACAATTTTAATCAATTAGGCCCAATGC
Found at i:7377954 original size:20 final size:20
Alignment explanation
Indices: 7377929--7377969 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7377919 ATAGATGGTG
7377929 TAGCTATATATTGATATGTT
1 TAGCTATATATTGATATGTT
7377949 TAGCTATATATTGATATGTT
1 TAGCTATATATTGATATGTT
7377969 T
1 T
7377970 CACAGATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (20 bp):
TAGCTATATATTGATATGTT
Found at i:7378053 original size:21 final size:21
Alignment explanation
Indices: 7378024--7378063 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7378014 TAGTGTAGCC
7378024 ATTTATTGATAGATTCCATGG
1 ATTTATTGATAGATTCCATGG
* *
7378045 ATTTGTTGATAGTTTCCAT
1 ATTTATTGATAGATTCCAT
7378064 CGCACATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
ATTTATTGATAGATTCCATGG
Found at i:7380834 original size:22 final size:21
Alignment explanation
Indices: 7380795--7380838 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
7380785 CAGAGAATCG
*
7380795 ATTCTTCTATTTTGAGGTGTCA
1 ATTCTTCTATATTGAGGT-TCA
7380817 ATTCTTCTATAATT-AGGTTCA
1 ATTCTTCTAT-ATTGAGGTTCA
7380838 A
1 A
7380839 AGGTGACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (21 bp):
ATTCTTCTATATTGAGGTTCA
Found at i:7381355 original size:19 final size:19
Alignment explanation
Indices: 7381327--7381367 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
7381317 GCACATTGAA
*
7381327 TTTTGAAAAT-AAGAGATT
1 TTTTGAAAATAAAAAGATT
7381345 TTTTAGAAAATAAAAAGATT
1 TTTT-GAAAATAAAAAGATT
7381365 TTT
1 TTT
7381368 CTTTAAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (19 bp):
TTTTGAAAATAAAAAGATT
Found at i:7386059 original size:80 final size:80
Alignment explanation
Indices: 7385939--7386311 Score: 421
Period size: 80 Copynumber: 4.7 Consensus size: 80
7385929 CATCATCATA
* * * * * *
7385939 CTTAGCCCATAGAGTGTATA--ACCATTTCAACACATACATCTCATGACATACATTTCATTGTCT
1 CTTAGCCCATA-A-TGTATATGACTATCTCAACACATACATCTCAGGGCATACATTTCATAGCCT
7386002 CATAAATCACTTACATG
64 CATAAATCACTTACATG
* * *
7386019 CTTAGCCCATAATGTATATGACTATCTCAACACA-ATCATCTGAGGGCTTACATTTCATAGCCTT
1 CTTAGCCCATAATGTATATGACTATCTCAACACATA-CATCTCAGGGCATACATTTCATAGCCTC
*
7386083 ATAAATCACATACATG
65 ATAAATCACTTACATG
* * *
7386099 CTTAGCCCAGAATGTATATGACTATCTCAACACGTACATCTCAGGGCATACATTTCATAGTCTCA
1 CTTAGCCCATAATGTATATGACTATCTCAACACATACATCTCAGGGCATACATTTCATAGCCTCA
**
7386164 TAAATCACTTACACA
66 TAAATCACTTACATG
* * * * * * * *
7386179 CTTAGACTATAGTGTCTATGACTATCTCAACAAATACATTTCAAGGCATGCATTTCATAGCCTCA
1 CTTAGCCCATAATGTATATGACTATCTCAACACATACATCTCAGGGCATACATTTCATAGCCTCA
*
7386244 TAAATCACTTATATG
66 TAAATCACTTACATG
* * * * *
7386259 CTTAGCCCACAATATATATG-GTATGCTAAACACATACATCTCATGGCATACAT
1 CTTAGCCCATAATGTATATGACTAT-CTCAACACATACATCTCAGGGCATACAT
7386312 GTTACAATCT
Statistics
Matches: 243, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
78 6 0.02
79 5 0.02
80 231 0.95
81 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (80 bp):
CTTAGCCCATAATGTATATGACTATCTCAACACATACATCTCAGGGCATACATTTCATAGCCTCA
TAAATCACTTACATG
Found at i:7386203 original size:160 final size:160
Alignment explanation
Indices: 7385965--7386311 Score: 464
Period size: 160 Copynumber: 2.2 Consensus size: 160
7385955 TATAACCATT
* * ** *
7385965 TCAACACATACATCTCATGACATACATTTCATTGTCTCATAAATCACTTACATGCTTAGCCCATA
1 TCAACACATACATCTCATGGCATACATTTCATAGTCTCATAAATCACTTACACACTTAGACCATA
* * * *
7386030 ATGTATATGACTATCTCAACACAAT-CATCTGAGGGCTTACATTTCATAGCCTTATAAATCACAT
66 ATGTATATGACTATCTCAACA-AATACATCTCAAGGCATACATTTCATAGCCTCATAAATCACAT
* *
7386094 ACATGCTTAGCCCAGAATGTATATGACTAT-C
130 ACATGCTTAGCCCACAATATATATG-CTATGC
* * *
7386125 TCAACACGTACATCTCAGGGCATACATTTCATAGTCTCATAAATCACTTACACACTTAGACTATA
1 TCAACACATACATCTCATGGCATACATTTCATAGTCTCATAAATCACTTACACACTTAGACCATA
* * * * *
7386190 GTGTCTATGACTATCTCAACAAATACATTTCAAGGCATGCATTTCATAGCCTCATAAATCACTTA
66 ATGTATATGACTATCTCAACAAATACATCTCAAGGCATACATTTCATAGCCTCATAAATCACATA
* *
7386255 TATGCTTAGCCCACAATATATATGGTATGC
131 CATGCTTAGCCCACAATATATATGCTATGC
*
7386285 TAAACACATACATCTCATGGCATACAT
1 TCAACACATACATCTCATGGCATACAT
7386312 GTTACAATCT
Statistics
Matches: 161, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
159 6 0.04
160 155 0.96
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (160 bp):
TCAACACATACATCTCATGGCATACATTTCATAGTCTCATAAATCACTTACACACTTAGACCATA
ATGTATATGACTATCTCAACAAATACATCTCAAGGCATACATTTCATAGCCTCATAAATCACATA
CATGCTTAGCCCACAATATATATGCTATGC
Found at i:7387636 original size:16 final size:16
Alignment explanation
Indices: 7387615--7387645 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7387605 ATAAAACTAT
*
7387615 CAAAAAAGTCAAAATC
1 CAAAAAAATCAAAATC
7387631 CAAAAAAATCAAAAT
1 CAAAAAAATCAAAAT
7387646 TTAATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
CAAAAAAATCAAAATC
Found at i:7388664 original size:57 final size:57
Alignment explanation
Indices: 7388542--7388674 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
7388532 ACTTAAACGC
* * * * * *
7388542 TATATGAATGCCTAAATGAGTATGCCTAGACTAGAGAACTATTTATATAGGTGTATGA
1 TATATGATTACCTAGATGAGTATGCCTAGACTAGAGAACGATGTATATA-GTATATGA
* *
7388600 -ATCTGATTACCTAGATGAGTATGCCTAGGCTAGAGAACGATGTATAT-GTATATGTA
1 TATATGATTACCTAGATGAGTATGCCTAGACTAGAGAACGATGTATATAGTATATG-A
*
7388656 TATATGATTACTTAGATGA
1 TATATGATTACCTAGATGA
7388675 ATGTACGTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
55 6 0.10
56 1 0.02
57 56 0.89
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (57 bp):
TATATGATTACCTAGATGAGTATGCCTAGACTAGAGAACGATGTATATAGTATATGA
Found at i:7401623 original size:35 final size:35
Alignment explanation
Indices: 7401542--7401841 Score: 257
Period size: 35 Copynumber: 8.6 Consensus size: 35
7401532 TTACAAAATG
* * * * * *
7401542 TGTGGTGTGATGCCCCACATCTACCTTATTCTT-A
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
* *
7401576 AGTGGTATAATGCCACACATCTAACTGAGTATTCA
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
* ** ** * *
7401611 TGTGGTATAATGCCCCACATTTGGCGTTTGTCTT-G
1 TGTGGTATAATGCCCCACATCTAAC-TGAGTATTCA
* * * * * *
7401646 TATGGTATAATGCCTCACATCTACCTTATTCTT-A
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
* *
7401680 AGTGGTATAATGCCACACATCTAACTGAGTATTCA
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
* ** ** * *
7401715 TGTGGTATAATGCCCCACATTTGGCCTTTGTCTT-G
1 TGTGGTATAATGCCCCACATCT-AACTGAGTATTCA
* *
7401750 TATGGTATAATGCCCCACATCTAATTGAGTATTCA
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
7401785 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
1 TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
*
7401820 TATGGTATAATGCCCCACATCT
1 TGTGGTATAATGCCCCACATCT
7401842 GGCCTTTGTC
Statistics
Matches: 208, Mismatches: 53, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
34 62 0.30
35 135 0.65
36 11 0.05
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (35 bp):
TGTGGTATAATGCCCCACATCTAACTGAGTATTCA
Found at i:7401665 original size:70 final size:69
Alignment explanation
Indices: 7401578--7401874 Score: 235
Period size: 70 Copynumber: 4.3 Consensus size: 69
7401568 TATTCTTAAG
* * *
7401578 TGGTATAATGCCACACATCTAACTGAGTATTCATGTGGTATAATGCCCCACATTTGGCGTTTGTC
1 TGGTATAATGCCCCACATCTAACTGAGTATT-ATATGGTATAATGCCCCACATCTGGCGTTTGTC
7401643 TTGTA
65 TTGTA
* * * * * * ** ** *
7401648 TGGTATAATGCCTCACATCTACCTTATTCTTA-AGTGGTATAATGCCACACATCTAAC-TGAGTA
1 TGGTATAATGCCCCACATCTAACTGAGTATTATA-TGGTATAATGCCCCACATCTGGCGTTTGTC
* *
7401711 TTCATG
65 TT-GTA
* ** ** * * * * *
7401717 TGGTATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATAATGCCCCACATCTAATTGAGTAT
1 TGGTATAATGCCCCACATCT-AACTGAGTATTATATGGTATAATGCCCCACATC---TGGCGTTT
*
7401782 -TCATG--
62 GTCTTGTA
*
7401787 TGGTATAATGCCCCACATCTAACTGAGTATTCATATGGTATAATGCCCCACATCTGGCCTTTGTC
1 TGGTATAATGCCCCACATCTAACTGAGTATT-ATATGGTATAATGCCCCACATCTGGCGTTTGTC
7401852 TTGTA
65 TTGTA
7401857 TGGTATAATGCCCCACAT
1 TGGTATAATGCCCCACAT
7401875 TTGGCCTTCT
Statistics
Matches: 173, Mismatches: 42, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
67 4 0.02
68 9 0.05
69 45 0.26
70 110 0.64
71 1 0.01
73 3 0.02
74 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (69 bp):
TGGTATAATGCCCCACATCTAACTGAGTATTATATGGTATAATGCCCCACATCTGGCGTTTGTCT
TGTA
Found at i:7401686 original size:104 final size:104
Alignment explanation
Indices: 7401551--7401874 Score: 542
Period size: 104 Copynumber: 3.1 Consensus size: 104
7401541 GTGTGGTGTG
7401551 ATGCCCCACATCTACCTTATTCTTAAGTGGTATAATGCCACACATCTAACTGAGTATTCATGTGG
1 ATGCCCCACATCTACCTTATTCTTAAGTGGTATAATGCCACACATCTAACTGAGTATTCATGTGG
*
7401616 TATAATGCCCCACATTTGGCGTTTGTCTTGTATGGTATA
66 TATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
*
7401655 ATGCCTCACATCTACCTTATTCTTAAGTGGTATAATGCCACACATCTAACTGAGTATTCATGTGG
1 ATGCCCCACATCTACCTTATTCTTAAGTGGTATAATGCCACACATCTAACTGAGTATTCATGTGG
7401720 TATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
66 TATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
* * * * * *
7401759 ATGCCCCACATCTA-ATTGAGTATTCATGTGGTATAATGCCCCACATCTAACTGAGTATTCATAT
1 ATGCCCCACATCTACCTT-ATTCTT-AAGTGGTATAATGCCACACATCTAACTGAGTATTCATGT
*
7401823 GGTATAATGCCCCACATCTGGCCTTTGTCTTGTATGGTATA
64 GGTATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
7401864 ATGCCCCACAT
1 ATGCCCCACAT
7401875 TTGGCCTTCT
Statistics
Matches: 208, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
103 2 0.01
104 119 0.57
105 87 0.42
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (104 bp):
ATGCCCCACATCTACCTTATTCTTAAGTGGTATAATGCCACACATCTAACTGAGTATTCATGTGG
TATAATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
Found at i:7401859 original size:35 final size:34
Alignment explanation
Indices: 7401551--7401874 Score: 208
Period size: 35 Copynumber: 9.3 Consensus size: 34
7401541 GTGTGGTGTG
*
7401551 ATGCCCCACATCTACCTTAT-TCTTA-AGTGGTATA
1 ATGCCCCACATCTGCCTT-TGTCTTATA-TGGTATA
* ** ** * *
7401585 ATGCCACACATCTAACTGAGTATTCATGTGGTATA
1 ATGCCCCACATCTGCCTTTGTCTT-ATATGGTATA
* * *
7401620 ATGCCCCACATTTGGCGTTTGTCTTGTATGGTATA
1 ATGCCCCACATCT-GCCTTTGTCTTATATGGTATA
* *
7401655 ATGCCTCACATCTACCTTAT-TCTTA-AGTGGTATA
1 ATGCCCCACATCTGCCTT-TGTCTTATA-TGGTATA
* ** ** * *
7401689 ATGCCACACATCTAACTGAGTATTCATGTGGTATA
1 ATGCCCCACATCTGCCTTTGTCTT-ATATGGTATA
* *
7401724 ATGCCCCACATTTGGCCTTTGTCTTGTATGGTATA
1 ATGCCCCACATCT-GCCTTTGTCTTATATGGTATA
** * * *
7401759 ATGCCCCACATCT-AATTGAGTATTCATGTGGTATA
1 ATGCCCCACATCTGCCTT-TGTCTT-ATATGGTATA
** ** *
7401794 ATGCCCCACATCTAACTGAGTATTCATATGGTATA
1 ATGCCCCACATCTGCCTTTGTCTT-ATATGGTATA
*
7401829 ATGCCCCACATCTGGCCTTTGTCTTGTATGGTATA
1 ATGCCCCACATCT-GCCTTTGTCTTATATGGTATA
7401864 ATGCCCCACAT
1 ATGCCCCACAT
7401875 TTGGCCTTCT
Statistics
Matches: 224, Mismatches: 52, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
33 3 0.01
34 54 0.24
35 148 0.66
36 19 0.08
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (34 bp):
ATGCCCCACATCTGCCTTTGTCTTATATGGTATA
Found at i:7408792 original size:18 final size:19
Alignment explanation
Indices: 7408756--7408793 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7408746 ACTTGATTTC
*
7408756 AAATGATTAATTGAACTAA
1 AAATAATTAATTGAACTAA
7408775 AAATAATTAATT-AACTAA
1 AAATAATTAATTGAACTAA
7408793 A
1 A
7408794 TAATTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATAATTAATTGAACTAA
Found at i:7421172 original size:22 final size:22
Alignment explanation
Indices: 7421142--7421204 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
7421132 CATCCTATTC
*
7421142 GTACTAGGGATTCTATCAATTG
1 GTACAAGGGATTCTATCAATTG
7421164 GTACAAGGGATTCTATCAATTG
1 GTACAAGGGATTCTATCAATTG
*
7421186 GCACAAGGGATTCTATCAA
1 GTACAAGGGATTCTATCAA
7421205 GCATTTGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (22 bp):
GTACAAGGGATTCTATCAATTG
Found at i:7423034 original size:59 final size:56
Alignment explanation
Indices: 7422910--7423179 Score: 269
Period size: 59 Copynumber: 4.7 Consensus size: 56
7422900 TATTGTCTTT
* * * * *
7422910 AATTAAGATAAA-ATATGTTATCTTATCTAAATTGAGACAAACATGTTTTCTTGT-GA
1 AATTAAGACAAACATAT-TT-TCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTA
* * *
7422966 AGATCAAGACAAAACATATTTTTCTTGTTTTAAATTAAGACAAACATATTTTCTTATCTA
1 A-ATTAAGAC-AAACATA-TTTTCTTG-TCTAAATTAAGACAAACATATTTTCTTGTCTA
*
7423026 AATTAAGACAAAACATATTTTCTTGTCTAAATTAAGATAAAACATATTTTCTTGTCTA
1 AATTAAGAC-AAACATATTTTCTTGTCTAAATTAAGA-CAAACATATTTTCTTGTCTA
* * * * * * *
7423084 AATTAAGACAAACTTGTTTTCTTATGTAAGTTAAGAGATAACAT-GTTTCTTGTCTA
1 AATTAAGACAAACATATTTTCTTGTCTAAATTAAGACA-AACATATTTTCTTGTCTA
*
7423140 AATTAAGACAAACATGA-TTTCTTGTCCAAATTAAGACAAA
1 AATTAAGACAAACAT-ATTTTCTTGTCTAAATTAAGACAAA
7423180 ACATGTTAAC
Statistics
Matches: 179, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
55 2 0.01
56 43 0.24
57 44 0.25
58 42 0.23
59 45 0.25
60 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (56 bp):
AATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTA
Found at i:7423039 original size:29 final size:29
Alignment explanation
Indices: 7422910--7423183 Score: 274
Period size: 28 Copynumber: 9.6 Consensus size: 29
7422900 TATTGTCTTT
* * * * *
7422910 AATTAAGATAAAATATGTTATCTTATCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * *
7422939 AATTGAGAC-AAACATGTTTTCTTGT-GA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* *
7422966 AGATCAAGACAAAACATATTTTTCTTGTTTTA
1 A-ATTAAGACAAAACATA-TTTTCTTG-TCTA
*
7422998 AATTAAGAC-AAACATATTTTCTTATCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
7423026 AATTAAGACAAAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
*
7423055 AATTAAGATAAAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * * *
7423084 AATTAAGAC-AAACTTGTTTTCTTATGTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * * *
7423112 AGTTAAGAGATAACAT-GTTTCTTGTCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
*
7423140 AATTAAGAC-AAACATGA-TTTCTTGTCCA
1 AATTAAGACAAAACAT-ATTTTCTTGTCTA
7423168 AATTAAGACAAAACAT
1 AATTAAGACAAAACAT
7423184 GTTAACACAG
Statistics
Matches: 204, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.03
28 88 0.43
29 84 0.41
30 15 0.07
31 8 0.04
32 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
AATTAAGACAAAACATATTTTCTTGTCTA
Found at i:7423146 original size:56 final size:57
Alignment explanation
Indices: 7422910--7423183 Score: 227
Period size: 57 Copynumber: 4.8 Consensus size: 57
7422900 TATTGTCTTT
* * * *
7422910 AATTAAGATAAAATATGTTATCTTATCTAAATT--GAGACAAACAT-GTTTTCTTGT-GA
1 AATTAAGA-CAAACATGTTTTCTTATCTAAATTAAGAGA-AAACATAG-TTTCTTGTCTA
* * * * * * *
7422966 AGATCAAGACAAAACATATTTTTCTTGTTTTAAATTAAGA-CAAACATATTTTCTTATCTA
1 A-ATTAAGAC-AAACAT-GTTTTCTT-ATCTAAATTAAGAGAAAACATAGTTTCTTGTCTA
* * * *
7423026 AATTAAGACAAAACATATTTTCTTGTCTAAATTAAGATAAAACATATTTTCTTGTCTA
1 AATTAAGAC-AAACATGTTTTCTTATCTAAATTAAGAGAAAACATAGTTTCTTGTCTA
* * * *
7423084 AATTAAGACAAACTTGTTTTCTTATGTAAGTTAAGAGATAACAT-GTTTCTTGTCTA
1 AATTAAGACAAACATGTTTTCTTATCTAAATTAAGAGAAAACATAGTTTCTTGTCTA
* * * *
7423140 AATTAAGACAAACATGATTTCTTGTCCAAATTAAGACAAAACAT
1 AATTAAGACAAACATGTTTTCTTATCTAAATTAAGAGAAAACAT
7423184 GTTAACACAG
Statistics
Matches: 176, Mismatches: 33, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
56 48 0.27
57 50 0.28
58 40 0.23
59 34 0.19
60 2 0.01
61 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (57 bp):
AATTAAGACAAACATGTTTTCTTATCTAAATTAAGAGAAAACATAGTTTCTTGTCTA
Found at i:7432072 original size:13 final size:13
Alignment explanation
Indices: 7432054--7432082 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7432044 GGATAGCATA
7432054 TGATCATATTACC
1 TGATCATATTACC
7432067 TGATCATATTACC
1 TGATCATATTACC
7432080 TGA
1 TGA
7432083 ACTTAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (13 bp):
TGATCATATTACC
Found at i:7436979 original size:73 final size:73
Alignment explanation
Indices: 7436866--7437028 Score: 177
Period size: 73 Copynumber: 2.2 Consensus size: 73
7436856 GAAGAGAGAG
* * *
7436866 TGTTAGTCAACTAAGAG-CTTACGGCCAAAAACTGAGTTTAGAGACAGAAACGACTTAATCGACT
1 TGTTAGTCGACTAAGAGTC-TACTGTCAAAAACTGAGTTTAGAGACAGAAACGACTTAATCGACT
***
7436930 AAGGAGTTT
65 AAGGAGCAA
* * ** * *
7436939 TGTTCGTCGACTAAGAGTCTACTGTCAAAAACTG-GTTTTAGGGACATCAACGGCTTAATTGACT
1 TGTTAGTCGACTAAGAGTCTACTGTCAAAAACTGAG-TTTAGAGACAGAAACGACTTAATCGACT
*
7437003 AAGTAGCAA
65 AAGGAGCAA
7437012 TGTTAGTCGACTAAGAG
1 TGTTAGTCGACTAAGAG
7437029 CAATCTATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
72 1 0.01
73 72 0.97
74 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (73 bp):
TGTTAGTCGACTAAGAGTCTACTGTCAAAAACTGAGTTTAGAGACAGAAACGACTTAATCGACTA
AGGAGCAA
Found at i:7438315 original size:21 final size:22
Alignment explanation
Indices: 7438290--7438333 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7438280 AAGTGATTAA
*
7438290 TTTAAGTTGTTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
7438311 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
7438333 T
1 T
7438334 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:7445490 original size:59 final size:58
Alignment explanation
Indices: 7445393--7445550 Score: 144
Period size: 59 Copynumber: 2.7 Consensus size: 58
7445383 TGTCTTTAAC
* * * * * *
7445393 TAAGGCAAAAAAATTTTATCTTGTCTAAATTGAGACAAATATGTTCTTTTGTTTAGAT
1 TAAGGCAAAAAAATTTTATCTTGTCTAAATTAAAACAAACATATTCTTTTATTTAAAT
*
7445451 TAAGGCAAAAAATATTTT-TCTT-TGCTTAAATTAAAACAAACATATTTTTTTATTTAAAT
1 TAAGGCAAAAAA-ATTTTATCTTGT-C-TAAATTAAAACAAACATATTCTTTTATTTAAAT
* * * * *
7445510 TAAGAC-TAAACATGTTT-TCTGGTCTAAATTAAGACAAACAT
1 TAAGGCAAAAAAAT-TTTATCTTGTCTAAATTAAAACAAACAT
7445551 GTTAAAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
57 19 0.23
58 27 0.33
59 37 0.45
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (58 bp):
TAAGGCAAAAAAATTTTATCTTGTCTAAATTAAAACAAACATATTCTTTTATTTAAAT
Found at i:7445527 original size:28 final size:28
Alignment explanation
Indices: 7445476--7445553 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 28
7445466 TTTTCTTTGC
* * * *
7445476 TTAAATTAAAACAAACATATTTTTTTAT
1 TTAAATTAAGACAAACATGTTTTCTGAT
*
7445504 TTAAATTAAGACTAAACATGTTTTCTGGT
1 TTAAATTAAGAC-AAACATGTTTTCTGAT
*
7445533 CTAAATTAAGACAAACATGTT
1 TTAAATTAAGACAAACATGTT
7445554 AAAATTTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 20 0.47
29 23 0.53
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (28 bp):
TTAAATTAAGACAAACATGTTTTCTGAT
Found at i:7447673 original size:29 final size:29
Alignment explanation
Indices: 7447625--7447884 Score: 260
Period size: 28 Copynumber: 9.0 Consensus size: 29
7447615 TTTACAACAA
*
7447625 TTCTTGTCTTCAATTAAGACAAAACATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
* * *
7447655 ATCTTGTCTAAATTGAGAC-AAACATATT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* * *
7447683 TTCTTGCCTAAATTAAGACAAAAGATATTT
1 TTCTTGTCTAAATTAAGACAAAACAT-GTT
*
7447713 TTCTTGTCTTAAAGTAAGAC-AAACATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATGTT
* * *
7447742 TTCTTCTCTAAATTAAGACAAAATATGCT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* * *
7447771 TTCTTGTCTAAATTTAGA-AAATCGTGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* * * *
7447799 TT-TCTATCTAAATTAAGGCATAATATGTT
1 TTCT-TGTCTAAATTAAGACAAAACATGTT
*
7447828 TTCTTGTCTAAATTAAGAC-AAACAAGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
* *
7447856 TTCTTGTATAAATTAAGACAAAGCATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
7447885 AATGCTACCA
Statistics
Matches: 184, Mismatches: 38, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
27 1 0.01
28 77 0.42
29 74 0.40
30 22 0.12
31 10 0.05
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (29 bp):
TTCTTGTCTAAATTAAGACAAAACATGTT
Found at i:7447884 original size:57 final size:57
Alignment explanation
Indices: 7447625--7447884 Score: 265
Period size: 57 Copynumber: 4.5 Consensus size: 57
7447615 TTTACAACAA
* * *
7447625 TTCTTGTCTTCAATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATA-TT
1 TTCTTGTC-TAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACA-AGTT
* * * * *
7447683 TTCTTGCCTAAATTAAGACAAAAGATATTTTTCTTGTCTTAAAGTAAGACAAACATGTT
1 TTCTTGTCTAAATTAAGACAAAACAT-GTTTTCTTGTC-TAAATTAAGACAAACAAGTT
* * * * **
7447742 TTCTTCTCTAAATTAAGACAAAATATGCTTTCTTGTCTAAATTTAGA-AAATCGTGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAA-CAAGTT
* * * *
7447799 TT-TCTATCTAAATTAAGGCATAATATGTTTTCTTGTCTAAATTAAGACAAACAAGTT
1 TTCT-TGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGTT
* *
7447856 TTCTTGTATAAATTAAGACAAAGCATGTT
1 TTCTTGTCTAAATTAAGACAAAACATGTT
7447885 AATGCTACCA
Statistics
Matches: 166, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
56 4 0.02
57 94 0.57
58 29 0.17
59 39 0.23
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (57 bp):
TTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGTT
Found at i:7453469 original size:11 final size:11
Alignment explanation
Indices: 7453450--7453484 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7453440 TAATGTAGCC
*
7453450 AAATAAAAATA
1 AAATTAAAATA
*
7453461 AAATTAAAATG
1 AAATTAAAATA
7453472 AAATTAAAATA
1 AAATTAAAATA
7453483 AA
1 AA
7453485 TAAAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAATTAAAATA
Found at i:7476825 original size:21 final size:22
Alignment explanation
Indices: 7476800--7476843 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7476790 AAGTGATTAA
7476800 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
7476821 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
7476843 T
1 T
7476844 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:7481252 original size:20 final size:22
Alignment explanation
Indices: 7481219--7481261 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7481209 AAGTGATTAA
*
7481219 TTTAAGTTATTTTAG-TTAAAT
1 TTTAAGCTATTTTAGTTTAAAT
7481240 TTTAAGCTA-TTTAGTTTAAAT
1 TTTAAGCTATTTTAGTTTAAAT
7481261 T
1 T
7481262 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (22 bp):
TTTAAGCTATTTTAGTTTAAAT
Found at i:7493133 original size:21 final size:20
Alignment explanation
Indices: 7493098--7493152 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
7493088 ACCTTTTTTT
7493098 TTTCT-TCCTCCTTTCTTCC
1 TTTCTCTCCTCCTTTCTTCC
7493117 TTTCTCTCCTCTCTTTCTTCC
1 TTTCTCTCCTC-CTTTCTTCC
7493138 TTTC-CT-CTCCTTTCT
1 TTTCTCTCCTCCTTTCT
7493153 CTTTTTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 7 0.21
21 13 0.38
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTCTCTCCTCCTTTCTTCC
Found at i:7493162 original size:17 final size:18
Alignment explanation
Indices: 7493105--7493162 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 18
7493095 TTTTTTCTTC
*
7493105 CTCCTTTCTTCCTTTCTCT
1 CTCCTTTCTT-CTTTTTCT
* *
7493124 CCTCTCTTTCTTCCTTTCCT
1 -CTC-CTTTCTTCTTTTTCT
7493144 CTCCTTTC-TCTTTTTCT
1 CTCCTTTCTTCTTTTTCT
7493161 CT
1 CT
7493163 TGGTAGTGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 3 0.09
20 8 0.25
21 7 0.22
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
CTCCTTTCTTCTTTTTCT
Found at i:7496130 original size:28 final size:28
Alignment explanation
Indices: 7496076--7496211 Score: 128
Period size: 30 Copynumber: 4.6 Consensus size: 28
7496066 TTAAGACAAC
* *
7496076 TCTTGTCTATAATTAAGAAAAAAATATTTT
1 TCTTGTCTA-AATTAAGACAAATATA-TTT
* * *
7496106 ATCTTGTTTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAATATATTT
** *
7496135 TCTTGTCTAGGTTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGAC-AAATATA-TTT
*
7496165 TCTTGTCTTAAATTAAGACAAATGTATTT
1 TCTTGTC-TAAATTAAGACAAATATATTT
*
7496194 TCTTGTCTAAATGAAGAC
1 TCTTGTCTAAATTAAGAC
7496212 CAAACATGTT
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
28 24 0.28
29 18 0.21
30 27 0.31
31 17 0.20
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAATATATTT
Found at i:7496168 original size:30 final size:29
Alignment explanation
Indices: 7496076--7496218 Score: 130
Period size: 28 Copynumber: 4.8 Consensus size: 29
7496066 TTAAGACAAC
* *
7496076 TCTTGTCTATAATTAAGAAAAAAATATTTT
1 TCTTGTCTA-AATTAAGACAAACATATTTT
* *
7496106 ATCTTGTTTAAATTGAGAC-AA-ATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATAT-TTT
**
7496135 TCTTGTCTAGGTTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATATTTT
**
7496165 TCTTGTCTTAAATTAAGACAAATGTA-TTT
1 TCTTGTC-TAAATTAAGACAAACATATTTT
*
7496194 TCTTGTCTAAATGAAGACCAAACAT
1 TCTTGTCTAAATTAAGA-CAAACAT
7496219 GTTAAAGCTG
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
28 27 0.29
29 20 0.22
30 24 0.26
31 21 0.23
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAAACATATTTT
Found at i:7496217 original size:59 final size:59
Alignment explanation
Indices: 7496076--7496218 Score: 182
Period size: 59 Copynumber: 2.4 Consensus size: 59
7496066 TTAAGACAAC
* * *
7496076 TCTTGTCTATAATTAAGA-AAAAAATATTTTATCTTGTTTAAATTGAGACAAATATGTTT
1 TCTTGTCTA-AATTAAGACAAAACATATTTTATCTTGTTTAAATTAAGACAAATATATTT
** *
7496135 TCTTGTCTAGGTTAAGACAAAACATATTTT-TCTTGTCTTAAATTAAGACAAATGTATTT
1 TCTTGTCTAAATTAAGACAAAACATATTTTATCTTGT-TTAAATTAAGACAAATATATTT
* *
7496194 TCTTGTCTAAATGAAGACCAAACAT
1 TCTTGTCTAAATTAAGACAAAACAT
7496219 GTTAAAGCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
58 12 0.17
59 60 0.83
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (59 bp):
TCTTGTCTAAATTAAGACAAAACATATTTTATCTTGTTTAAATTAAGACAAATATATTT
Found at i:7497174 original size:73 final size:73
Alignment explanation
Indices: 7497060--7497202 Score: 198
Period size: 73 Copynumber: 2.0 Consensus size: 73
7497050 TTAATCAATT
* * * * *
7497060 AAGAAGTTTTGTTAGTCGACTAAGAGCTTATTGCCAAAAACTGAGTTCAGAGACAGAAATGACTT
1 AAGAAGTATTGTTAGTCAACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGACAGAAACGACTT
7497125 AATCGACA
66 AATCGACA
* * *
7497133 AAGAAGTATTGTTAGTCAACTAAGAGCTCACT-CCTAGAAACTGGGTTCAGAGACATAAACGACT
1 AAGAAGTATTGTTAGTCAACTAAGAGCTCACTGCC-AAAAACTGAGTTCAGAGACAGAAACGACT
7497197 TAATCG
65 TAATCG
7497203 GCTAAGTACC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 2 0.03
73 59 0.97
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (73 bp):
AAGAAGTATTGTTAGTCAACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGACAGAAACGACTT
AATCGACA
Found at i:7497228 original size:73 final size:73
Alignment explanation
Indices: 7497069--7497232 Score: 186
Period size: 73 Copynumber: 2.2 Consensus size: 73
7497059 TAAGAAGTTT
* * *
7497069 TGTTAGTCGACTAAGAGCTTATTGCCAAAAACTGAGTTCAGAGACAGAAATGACTTAATCGACAA
1 TGTTAGTCGACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGACAGAAACGACTTAATCGACAA
** *
7497134 AGAAGTAT
66 AGAACCAA
* * * * * *
7497142 TGTTAGTCAACTAAGAGCTCACT-CCTAGAAACTGGGTTCAGAGACATAAACGACTTAATCGGCT
1 TGTTAGTCGACTAAGAGCTCACTGCC-AAAAACTGAGTTCAGAGACAGAAACGACTTAATCGACA
*
7497206 AAGTACCAA
65 AAGAACCAA
*
7497215 TGTTGGTCGACTAAGAGC
1 TGTTAGTCGACTAAGAGC
7497233 ATTATGTTTG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 2 0.03
73 73 0.97
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (73 bp):
TGTTAGTCGACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGACAGAAACGACTTAATCGACAA
AGAACCAA
Found at i:7503444 original size:22 final size:22
Alignment explanation
Indices: 7503419--7503460 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
7503409 GCAAAGAAAC
7503419 AGAG-AAAAAAAGAACAAAAGTT
1 AGAGAAAAAAAAGAA-AAAAGTT
7503441 AGAGAAAAAAAAGAAAAAAG
1 AGAGAAAAAAAAGAAAAAAG
7503461 GGACATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (22 bp):
AGAGAAAAAAAAGAAAAAAGTT
Found at i:7506007 original size:73 final size:73
Alignment explanation
Indices: 7505899--7506059 Score: 180
Period size: 73 Copynumber: 2.2 Consensus size: 73
7505889 GACAGAGAAC
* * * * * *
7505899 ACTTAATCAACTAAGAAGTTTTGTTCCTCGACTAAGAGCTTATTGTCAAAAACTGAGTTTAGAGA
1 ACTTAATCGACTAAGAAGTATTGTTCCTCGACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGA
*
7505964 CAAAAATG
66 CAAAAACG
* * * * *
7505972 ACTTAATCGATTAAGAAGTATTG-TCACTTGGCTAAGAGCTCACTGCCAGAAACTGGGTTCAGAG
1 ACTTAATCGACTAAGAAGTATTGTTC-CTCGACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAG
*
7506036 ACATAAACG
65 ACAAAAACG
*
7506045 ACTGAATCGACTAAG
1 ACTTAATCGACTAAG
7506060 TAGCAATGTT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 2 0.03
73 70 0.97
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (73 bp):
ACTTAATCGACTAAGAAGTATTGTTCCTCGACTAAGAGCTCACTGCCAAAAACTGAGTTCAGAGA
CAAAAACG
Found at i:7510255 original size:21 final size:22
Alignment explanation
Indices: 7510220--7510263 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7510210 CTCTTAAAGT
7510220 AATTTAAAATAAAATAACCTAA
1 AATTTAAAATAAAATAACCTAA
* *
7510242 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACCTAA
7510263 A
1 A
7510264 TTAATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACCTAA
Found at i:7511626 original size:12 final size:12
Alignment explanation
Indices: 7511609--7511640 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
7511599 GTCTTATTCA
7511609 ATCACTGTGTGG
1 ATCACTGTGTGG
7511621 ATCACTGTGTGG
1 ATCACTGTGTGG
*
7511633 ATCGCTGT
1 ATCACTGT
7511641 TAGATGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (12 bp):
ATCACTGTGTGG
Found at i:7514375 original size:119 final size:119
Alignment explanation
Indices: 7514230--7514467 Score: 467
Period size: 119 Copynumber: 2.0 Consensus size: 119
7514220 AACTATCTTA
7514230 TTTTTACCTCTGTGTTTGGGCTTAGAAGTGGAAATTGCATGTTATTCGGGCTTTTTTTTCAAATC
1 TTTTTACCTCTGTGTTTGGGCTTAGAAGTGGAAATTGCATGTTATTCGGGCTTTTTTTTCAAATC
7514295 AAGAACCTCGTCCACATTTTAAAGATCATTCATTAGCCCATTTAGAGTGTAATC
66 AAGAACCTCGTCCACATTTTAAAGATCATTCATTAGCCCATTTAGAGTGTAATC
*
7514349 TTTTTACCTCTGTGTTTGGGCTTAGAAGTGGAAATTGCATGTTCTTCGGGCTTTTTTTTCAAATC
1 TTTTTACCTCTGTGTTTGGGCTTAGAAGTGGAAATTGCATGTTATTCGGGCTTTTTTTTCAAATC
7514414 AAGAACCTCGTCCACATTTTAAAGATCATTCATTAGCCCATTTAGAGTGTAATC
66 AAGAACCTCGTCCACATTTTAAAGATCATTCATTAGCCCATTTAGAGTGTAATC
7514468 CCTAATGTGC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (119 bp):
TTTTTACCTCTGTGTTTGGGCTTAGAAGTGGAAATTGCATGTTATTCGGGCTTTTTTTTCAAATC
AAGAACCTCGTCCACATTTTAAAGATCATTCATTAGCCCATTTAGAGTGTAATC
Found at i:7517873 original size:9 final size:9
Alignment explanation
Indices: 7517859--7517883 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7517849 GATGGAAAGA
7517859 GATGATTTT
1 GATGATTTT
7517868 GATGATTTT
1 GATGATTTT
7517877 GATGATT
1 GATGATT
7517884 GAAATTTATT
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (9 bp):
GATGATTTT
Found at i:7518737 original size:22 final size:22
Alignment explanation
Indices: 7518695--7518737 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7518685 NNNGGTCCAA
*
7518695 TAAGAAACTAAAGAAACAAAAC
1 TAAGAAACTAAAAAAACAAAAC
*
7518717 TAAGAAA-TAACAAAAAGAAAA
1 TAAGAAACTAA-AAAAACAAAA
7518738 AGGAAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.09
Consensus pattern (22 bp):
TAAGAAACTAAAAAAACAAAAC
Found at i:7524679 original size:26 final size:27
Alignment explanation
Indices: 7524643--7524701 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
7524633 ACAACTTCTA
7524643 AGATAGGAGATGATTTAAGCCAT-TTT
1 AGATAGGAGATGATTTAAGCCATCTTT
*
7524669 AGATAGGAGATGATTTAGGCCATCTTT
1 AGATAGGAGATGATTTAAGCCATCTTT
*
7524696 GGATAG
1 AGATAG
7524702 TTTGAGCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (27 bp):
AGATAGGAGATGATTTAAGCCATCTTT
Found at i:7541435 original size:13 final size:13
Alignment explanation
Indices: 7541417--7541445 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7541407 CAAACAATCA
7541417 AAATTAATTAACT
1 AAATTAATTAACT
7541430 AAATTAATTAACT
1 AAATTAATTAACT
7541443 AAA
1 AAA
7541446 AATAATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTAATTAACT
Found at i:7546300 original size:13 final size:12
Alignment explanation
Indices: 7546276--7546320 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
7546266 ACTTTGACCC
*
7546276 TTTTTGTAATTT
1 TTTTTTTAATTT
7546288 TTTTCTTTAATTT
1 TTTT-TTTAATTT
*
7546301 CTTTTTTCAATTT
1 -TTTTTTTAATTT
7546314 TTTTTTT
1 TTTTTTT
7546321 GAAACCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.36
13 14 0.50
14 4 0.14
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTAATTT
Found at i:7551879 original size:13 final size:14
Alignment explanation
Indices: 7551861--7551896 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
7551851 CAAACAATCA
7551861 AAATTAATTAACT-
1 AAATTAATTAACTG
7551874 AAATTAATTAACTG
1 AAATTAATTAACTG
*
7551888 AAAATAATT
1 AAATTAATT
7551897 GATCAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (14 bp):
AAATTAATTAACTG
Found at i:7556159 original size:35 final size:35
Alignment explanation
Indices: 7556110--7556217 Score: 153
Period size: 35 Copynumber: 3.1 Consensus size: 35
7556100 NNNNNNNNNT
* *
7556110 TTGTTTAATCAAGTTGTTGGGCCTAATTGATTAAA
1 TTGTTTAATTAAGTTATTGGGCCTAATTGATTAAA
**
7556145 TTGTTTAATTAAGTTATTACGCCTAATTGATTAAAA
1 TTGTTTAATTAAGTTATTGGGCCTAATTGATT-AAA
* *
7556181 ATGTTTAATTAAGTTATTGGGCTTAATTGATTAAA
1 TTGTTTAATTAAGTTATTGGGCCTAATTGATTAAA
7556216 TT
1 TT
7556218 AAACAATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 32 0.51
36 31 0.49
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (35 bp):
TTGTTTAATTAAGTTATTGGGCCTAATTGATTAAA
Found at i:7556193 original size:36 final size:36
Alignment explanation
Indices: 7556111--7556215 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
7556101 NNNNNNNNTT
* * *
7556111 TGTTTAATCAAGTTGTTGGGCCTAATTGATT-AAAT
1 TGTTTAATTAAGTTATTGGGCCTAATTGATTAAAAA
**
7556146 TGTTTAATTAAGTTATTACGCCTAATTGATTAAAAA
1 TGTTTAATTAAGTTATTGGGCCTAATTGATTAAAAA
*
7556182 TGTTTAATTAAGTTATTGGGCTTAATTGATTAAA
1 TGTTTAATTAAGTTATTGGGCCTAATTGATTAAA
7556216 TTAAACAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 27 0.44
36 34 0.56
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (36 bp):
TGTTTAATTAAGTTATTGGGCCTAATTGATTAAAAA
Found at i:7559275 original size:35 final size:35
Alignment explanation
Indices: 7559231--7559447 Score: 269
Period size: 35 Copynumber: 6.2 Consensus size: 35
7559221 AATTGTTTAA
7559231 TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
*
7559266 TTAATCAATTAGGCCCAATAACTTGATTAAACAAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAAC-AAT
*
7559302 TTAATCAATTAGGCCCAATAACTTGATTAAACAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
****
7559337 TTAATCAATTAGGCCCAATAACTTAATTTTTTAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * * * *
7559372 TTAATTAATTAGGTCTAATGACTTAATTAAATAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * *
7559407 TTAATGAATTAGG--C-ACAACTTAATCAAACAATT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAA-T
7559440 TTAATCAA
1 TTAATCAA
7559448 GTGCTTGAGA
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.08
33 8 0.05
35 104 0.65
36 35 0.22
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (35 bp):
TTAATCAATTAGGCCCAATAACTTAATTAAACAAT
Found at i:7559320 original size:71 final size:70
Alignment explanation
Indices: 7559231--7559420 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 70
7559221 AATTGTTTAA
*
7559231 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATT-A
7559296 ACAAAT
65 ACAAAT
* **
7559302 TTAATCAATTAGGCCCAATAACTTGATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTTT
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTAA
**
7559367 TTAAT
66 CAAAT
* * * * * *
7559372 TTAATTAATTAGGTCTAATGACTTAATTAAATAATTTAATGAATTAGGC
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGC
7559421 ACAACTTAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 45 0.42
71 61 0.58
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (70 bp):
TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTAA
CAAAT
Found at i:7559349 original size:106 final size:105
Alignment explanation
Indices: 7559231--7559420 Score: 272
Period size: 106 Copynumber: 1.8 Consensus size: 105
7559221 AATTGTTTAA
*
7559231 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTAA
7559296 ACAAATTTAATCAATTAGGCCCAATAACTTGATTAAACAAT
66 A-AAATTTAATCAATTAGGCCCAATAACTTGATTAAACAAT
**** * * * *
7559337 TTAATCAATTAGGCCCAATAACTTAATTTTTTAATTTAATTAATTAGGTCTAATGACTTAATTAA
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTAA
* *
7559402 ATAATTTAATGAATTAGGC
66 AAAATTTAATCAATTAGGC
7559421 ACAACTTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
105 16 0.22
106 57 0.78
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (105 bp):
TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAATTAA
AAAATTTAATCAATTAGGCCCAATAACTTGATTAAACAAT
Found at i:7561104 original size:6 final size:6
Alignment explanation
Indices: 7561095--7561138 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
7561085 TTTAAGTTTA
7561095 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TT
7561139 TTGGATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:7562580 original size:21 final size:21
Alignment explanation
Indices: 7562554--7562594 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7562544 TCATGCAATT
*
7562554 CATGACAAAGACTAATACCTA
1 CATGACAAAGAATAATACCTA
*
7562575 CATGACAAAGAATGATACCT
1 CATGACAAAGAATAATACCT
7562595 TTAATGCAAA
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:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (21 bp):
CATGACAAAGAATAATACCTA
Found at i:7565626 original size:56 final size:55
Alignment explanation
Indices: 7565566--7565690 Score: 175
Period size: 56 Copynumber: 2.3 Consensus size: 55
7565556 GGCAAGATGA
7565566 CCAAATGAAATAAGAAGAATAAGAATGC-ATGTATTGTGATTGGTTTCA-AAGGGTGG
1 CCAAATGAAATAAGAAGAATAAGAATGCAATGT-TTG-GATTGG-TTCATAAGGGTGG
*
7565622 CCAAATGAAATAAGAAGAATAAGAATGCATATGTTTGGATTGGTTCATGAGGGTGG
1 CCAAATGAAATAAGAAGAATAAGAATGCA-ATGTTTGGATTGGTTCATAAGGGTGG
*
7565678 CCAAGT-AAATAAG
1 CCAAATGAAATAAG
7565691 TAAAAGANNN
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
55 11 0.17
56 46 0.72
57 3 0.05
58 4 0.06
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (55 bp):
CCAAATGAAATAAGAAGAATAAGAATGCAATGTTTGGATTGGTTCATAAGGGTGG
Found at i:7572181 original size:84 final size:85
Alignment explanation
Indices: 7572035--7572639 Score: 793
Period size: 84 Copynumber: 7.2 Consensus size: 85
7572025 AATTCAAAAG
* * * * * * **
7572035 ATAAATCTAAATAGTAATTCCCAAATATAATTCTTAATGTTTAATTCAAGCATACTGTCAATCAT
1 ATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCAT
*
7572100 TTTAATTGAA-AATCCAAACA
66 TTTAATT-AATTATCCAAACA
** *
7572120 ATAATTCTAAACATTAATT-CTTAACATAATT-TTATATATTTAATTCTAGCATATTACCAATCA
1 ATAATTCTAAACATTAATTCCCAAACATAATTCTTA-ATGTTTAATTCTAGCATATTACCAATCA
7572183 TTTTAATTAATTATCCAAACA
65 TTTTAATTAATTATCCAAACA
* * * * * * *
7572204 ATAATTTTAAACATTAATTTCCAAACGTAATCCTTAATGTTTAATTCCAACATATTGCCAATCA-
1 ATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCAT
*
7572268 TTTAATTGAA-AATCCAAACA
66 TTTAATT-AATTATCCAAACA
* * * * *
7572288 ATAATTCTAAACATTGATTCCCAAACATAATTTTTGATATTTAATTCTAGCATATTACCAATTAT
1 ATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCAT
7572353 TTTAATTAATTATCCAAACA
66 TTTAATTAATTATCCAAACA
7572373 ATAATTCTAAACATTAA-TCCACAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCA
1 ATAATTCTAAACATTAATTCC-CAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCA
7572437 -TTTAATTAATTATCCAAACA
65 TTTTAATTAATTATCCAAACA
**
7572457 ATAATTCTAAACATTAATTCCCAAACATAATTCTTAACATTTAATTCTAGCATATTACCAATCAT
1 ATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCAT
** *
7572522 TTTAATTAAAAATCCAAATA
66 TTTAATTAATTATCCAAACA
*
7572542 ATAATT-TCAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGC--A-T-CAAATCA
1 ATAATTCT-AAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCA
*
7572602 TTTTAATTAATTATCCAAATA
65 TTTTAATTAATTATCCAAACA
7572623 ATAATTCTAAACATTAA
1 ATAATTCTAAACATTAA
7572640 GCTCTTTGAA
Statistics
Matches: 458, Mismatches: 50, Indels: 28
0.85 0.09 0.05
Matches are distributed among these distances:
81 40 0.09
82 2 0.00
83 6 0.01
84 219 0.48
85 188 0.41
86 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (85 bp):
ATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCAT
TTTAATTAATTATCCAAACA
Found at i:7572268 original size:169 final size:169
Alignment explanation
Indices: 7572049--7572639 Score: 808
Period size: 169 Copynumber: 3.5 Consensus size: 169
7572039 ATCTAAATAG
* * *
7572049 TAATTCCCAAATATAATTCTTAATGTTTAATT-CAAGCATACTGTCAATCATTTTAATTGAA-AA
1 TAATTCCCAAACATAATTCTTAATGTTTAATTCCAA-CATATTGCCAATCA-TTTAATT-AATAA
**
7572112 TCCAAACAATAATTCTAAACATTAATT-CTTAACATAATTTTATATATTTAATTCTAGCATATTA
63 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTTTATATATTTAATTCTAGCATATTA
7572176 CCAATCATTTTAATTAATTATCCAAACAATAATTTTAAACAT
128 CCAATCATTTTAATTAATTATCCAAACAATAATTTTAAACAT
* * *
7572218 TAATTTCCAAACGTAATCCTTAATGTTTAATTCCAACATATTGCCAATCATTTAATTGAA-AATC
1 TAATTCCCAAACATAATTCTTAATGTTTAATTCCAACATATTGCCAATCATTTAATT-AATAATC
*
7572282 CAAACAATAATTCTAAACATTGATTCCCAAACATAATTTT-TGATATTTAATTCTAGCATATTAC
65 CAAACAATAATTCTAAACATTAATTCCCAAACATAATTTTAT-ATATTTAATTCTAGCATATTAC
* *
7572346 CAATTATTTTAATTAATTATCCAAACAATAATTCTAAACAT
129 CAATCATTTTAATTAATTATCCAAACAATAATTTTAAACAT
* * * *
7572387 TAA-TCCACAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATCATTTAATTAATTATC
1 TAATTCC-CAAACATAATTCTTAATGTTTAATTCCAACATATTGCCAATCATTTAATTAATAATC
*
7572451 CAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTA-ACATTTAATTCTAGCATATTAC
65 CAAACAATAATTCTAAACATTAATTCCCAAACATAATT-TTATATATTTAATTCTAGCATATTAC
** * *
7572515 CAATCATTTTAATTAAAAATCCAAATAATAATTTCAAACAT
129 CAATCATTTTAATTAATTATCCAAACAATAATTTTAAACAT
* * * *
7572556 TAATTCCCAAACATAATTCTTAATGTTTAATTCTAGC--A-T-CAAATCATTTTAATTAATTATC
1 TAATTCCCAAACATAATTCTTAATGTTTAATTCCAACATATTGCCAATCA-TTTAATTAATAATC
*
7572617 CAAATAATAATTCTAAACATTAA
65 CAAACAATAATTCTAAACATTAA
7572640 GCTCTTTGAA
Statistics
Matches: 385, Mismatches: 28, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
165 6 0.02
166 37 0.10
167 1 0.00
168 43 0.11
169 290 0.75
170 8 0.02
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.38
Consensus pattern (169 bp):
TAATTCCCAAACATAATTCTTAATGTTTAATTCCAACATATTGCCAATCATTTAATTAATAATCC
AAACAATAATTCTAAACATTAATTCCCAAACATAATTTTATATATTTAATTCTAGCATATTACCA
ATCATTTTAATTAATTATCCAAACAATAATTTTAAACAT
Found at i:7572474 original size:13 final size:13
Alignment explanation
Indices: 7572452--7572505 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
7572442 TTAATTATCC
*
7572452 AAACAATAATTCT
1 AAACATTAATTCT
*
7572465 AAACATTAATTCCC
1 AAACATTAATT-CT
7572479 AAACA-TAATTCT
1 AAACATTAATTCT
*
7572491 TAACATTTAATTCT
1 AAACA-TTAATTCT
7572505 A
1 A
7572506 GCATATTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 5 0.15
13 15 0.45
14 13 0.39
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (13 bp):
AAACATTAATTCT
Found at i:7572489 original size:26 final size:27
Alignment explanation
Indices: 7572441--7572503 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
7572431 CAATCATTTA
*
7572441 ATTAATTATCCAAACAATAATTCTAAAC
1 ATTAATT-CCCAAACAATAATTCTAAAC
*
7572469 ATTAATTCCCAAAC-ATAATTCTTAAC
1 ATTAATTCCCAAACAATAATTCTAAAC
7572495 ATTTAATTC
1 A-TTAATTC
7572504 TAGCATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 12 0.38
27 13 0.41
28 7 0.22
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTAATTCCCAAACAATAATTCTAAAC
Found at i:7573599 original size:20 final size:20
Alignment explanation
Indices: 7573574--7573611 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7573564 AGGTAGAAAG
*
7573574 ATTTTAATAGGTTAAAATCC
1 ATTTTAATAGATTAAAATCC
7573594 ATTTTAATAGATTAAAAT
1 ATTTTAATAGATTAAAAT
7573612 GCCAGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (20 bp):
ATTTTAATAGATTAAAATCC
Found at i:7573825 original size:341 final size:338
Alignment explanation
Indices: 7573192--7575487 Score: 2608
Period size: 341 Copynumber: 6.7 Consensus size: 338
7573182 GATTAGTCTG
* * * * *
7573192 TTTAATCGACTAACCTGAAGCACAAGAAAATAGACAAAAATATCTTAATCGGTTAAAATTCC-TT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAA-TCCATT
* * *
7573256 TTAATAGATTAAAAGGTTAGACAGATTTGAATTCAAAGCCTCTAAAAGACAAAATAATAGCCAAA
65 TTAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAA
* * * **
7573321 TTCTTCCCAAACTATCTGCAATGATTAAGTTT-ACCTCTCTAAGTATAAATGCAA-GTTCAAATA
130 TTCTTCCCAAACTGTCTACAATGATTAAGTTTCA-CTCTCCAAGTATAAAT--AAGGTTCAAACG
* *
7573384 ATCATAAATGTAAAAGAGAACCATCCAAGAGCAAGACTAAGCCAAAAAGAGCCAAAAAATTCTCT
192 ATCATAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATTCTCT
* * * * * * * *
7573449 TCTCTAATTTGTTAAAGGCAAGTTTCATTGATTAACCTAGGGCGATGGAGATAAATAAAATAAAT
257 TTTCTAA-TAGTTAAAGACAAGTTTCATCGATTAACCT-GGGCAATGGAGACAAATAGAATAATT
*
7573514 TTGATCGATTAAAGCCAAC
320 TTAATCGATTAAAGCCAAC
* ** **
7573533 TTTAATCAATTAAGTTGAAGCACAAGAAAATAGGTAGAAAGATTTTAATAGGTTAAAATCCATTT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAATCCATTT
* * * * *
7573598 TAATAGATTAAAATGCCAGATAAATTTGAATTCAAAACCACTAGAAA-ATAAAATAATAGCCAAA
66 TAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTA-AAAGACAAAATAATAGCCAAA
* * * ** *
7573662 TTCTTCCCAAATTGTCTATAATGATTAAGTTTCACTCTCTAAGTATAAATAAGGATTTGAGCGAT
130 TTCTTCCCAAACTGTCTACAATGATTAAGTTTCACTCTCCAAGTATAAATAAGG-TTCAAACGAT
* * *
7573727 CATAAATGTAAAAAAAAAAACATCCAAGAGCAAGATTGAGCCTAAAAA-AGCCAAAAAATTCTCT
194 CATAAATGT-AAAAGAGAACCATCCAAGAGCAAGATTGAGCC-AAAAAGAGCCAAAAAATTCTCT
* * * * * * *
7573791 TTTATAATAGTTAAAGATAAATTTCATCGATTAACCTAGAGCAATAGAGATAGATAGAATAATTT
257 TTTCTAATAGTTAAAGACAAGTTTCATCGATTAACCT-GGGCAATGGAGACAAATAGAATAATTT
*
7573856 TAATTGATTAAAGCCAAC
321 TAATCGATTAAAGCCAAC
* ** * *
7573874 TTTAATCAATTAACCTGAAGCACAAGAAAATAGACAGATCGATTTTAATAAGTTAAAATCAATTT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAATCCATTT
* * *
7573939 TAATAGA-TAAAAGGTCAGATAGATTTGAATTCAAAACTACTAAAAGACAAAGTAATAGCCAAAT
66 TAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAAT
* * ** * * **
7574003 TCCTCCTAAGTTGTCTACAAAGATTAAGTTTTGA-TCTCCAAGTATAAATAAGGGTTCAATTGAT
131 TCTTCCCAAACTGTCTACAATGATTAAG-TTTCACTCTCCAAGTATAAATAA-GGTTCAAACGAT
* * * * * * * *
7574067 TATAAATGTAAAAGAGAACTATCCAAAACCAAGATTGAGCCAAAAAGATCTAAATAATTTTCTTT
194 CATAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATTCTCTTT
* * * * *
7574132 TTTAAGAGGTTAAAGACAAGTTTCATCAATTAACCTGGACTAATGAAGACAAATAGAATAATTTT
259 TCTAATA-GTTAAAGACAAGTTTCATCGATTAACCTGGGC-AATGGAGACAAATAGAATAATTTT
7574197 AATCGATTAAAGCCAAC
322 AATCGATTAAAGCCAAC
* * ** *
7574214 TTTAATCGATTAACTTGAAGCATAAGAAAATAGACTCAAAGATTTTAATCGGTTAAAATCCATTT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAATCCATTT
* * * * * *
7574279 TGATAGATGAAAAGATTAGACAGATTTGAATTCAAAGCCACTAAAAGACGAAATAATAGCCAAAT
66 TAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAAT
* * *
7574344 TCTTCCTAAACTGTCTGA-AATGATTAAGTTTCACTCTCCAAGTATCAATAAGGGCTCAAACGAT
131 TCTTCCCAAACTGTCT-ACAATGATTAAGTTTCACTCTCCAAGTATAAATAA-GGTTCAAACGAT
* * * *
7574408 TATAAATATAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCTAAACATTCTCTTT
194 CATAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATTCTCTTT
* * * * **** *
7574473 TGTAATCGTTCAAAGATAAGTTTCATTGATTAACCAAAAACAATGGAGATAGAA-AGAATAATTT
259 TCTAATAGTT-AAAGACAAGTTTCATCGATTAACC-TGGGCAATGGAGACA-AATAGAATAATTT
*
7574537 TAATCGATTAAAGCTAAC
321 TAATCGATTAAAGCCAAC
* * * *
7574555 TTTAATCGATTAACCTGAAGCACAAGAAAACAAACAGAAATATTTTAATCA-TTTAAAATCCATT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAAT-AGGTTAAAATCCATT
* * *
7574619 TTAATAGATTAAAAGTTCAGACAGATTTGAATTCAAAACCACTAGAAGAAAAAATAATAGCCAAA
65 TTAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAA
* * * *
7574684 TTCTTCCCAAACTGTCTATAATGATTAACTATCACTCTCCAAGTATAAATAAGGATTCAATCGAT
130 TTCTTCCCAAACTGTCTACAATGATTAAGTTTCACTCTCCAAGTATAAATAAGG-TTCAAACGAT
* * * *
7574749 CATAAATGCGAGAA-AGAACCATCCAAAAGCAAGATTGAGCCAAGAAGAGCCAAAAAATTCTCTT
194 CATAAATG-TAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATTCTCTT
* * * * **
7574813 TTCTTATCAATTAAAGACTAGTTTCATCGATTAACCTGGAGTAATGGAGACGGATAGAATAATTT
258 TTCTAAT-AGTTAAAGACAAGTTTCATCGATTAACCTGG-GCAATGGAGACAAATAGAATAATTT
*
7574878 TAATCAATTAAAGCCAAC
321 TAATCGATTAAAGCCAAC
* * * ** * *
7574896 TTTAATTGATTAGCCTGAGGCATGAGAAAACAGACA-AAACAATTTTAATCA-GTTAAAATCCAT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAA-GATTTTAAT-AGGTTAAAATCCAT
* * * *
7574959 TTTAATAGATTAAAAGGTCAGAAAGGTTTGAATTCAAAACCACTAAAAGATAAAATAATAGCTAA
64 TTTAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAA
* * * * * *
7575024 ATTCTTCCTAAACTATTTGCAATGATTAAGTTTCACTCTCCAAGTATAAATAAAGGTTCAATCAA
129 ATTCTTCCCAAACTGTCTACAATGATTAAGTTTCACTCTCCAAGTATAAAT-AAGGTTCAAACGA
* * * * **
7575089 TTATAAATGTAAAAGAGAACCATCCAA-AACTAAGATTAAGCTAAGAAA-AGAAAAAAAATTCTC
193 TCATAAATGTAAAAGAGAACCATCCAAGAGC-AAGATTGAGCCAA-AAAGAGCCAAAAAATTCTC
* * * * *
7575152 TTTTCTAATTGGTTAAAGACAAGTTTAATCAATTAACCTGGAGCAATGAAGACAGATAGAATAAT
256 TTTTCTAA-TAGTTAAAGACAAGTTTCATCGATTAACCTGG-GCAATGGAGACAAATAGAATAAT
7575217 TTTAATCGATTAAAGCCAAC
319 TTTAATCGATTAAAGCCAAC
* * * * *
7575237 TTTAATCGATTAACCTAAAGTACAAGAAAACAGACATAAAGATTTTAATTGGTTAAAATCCATTT
1 TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAATCCATTT
* * * * ** *
7575302 TAATAGATTAAAAGGTAAGACAAATTTGAATTCAAATCCACCAAAAGATGAAATAGTAGCCAAAT
66 TAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAAT
* * * * *
7575367 TCTTCTC-AATTGTCTACAATGATTAAATTTCACTCTCCAAGTATAAATAAGGGTCCAACGATCA
131 TCTTCCCAAACTGTCTACAATGATTAAGTTTCACTCTCCAAGTATAAATAAGGTTCAAACGATCA
*
7575431 TAAATGTAAAAGAGAACCATCCAATAGCAAGATTGAGCCAAAAAGAGCCAAAAAATT
196 TAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATT
7575488 TTGTTTTCAA
Statistics
Matches: 1650, Mismatches: 269, Indels: 74
0.83 0.13 0.04
Matches are distributed among these distances:
338 8 0.00
339 108 0.07
340 283 0.17
341 1174 0.71
342 72 0.04
343 5 0.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (338 bp):
TTTAATCGATTAACCTGAAGCACAAGAAAATAGACAGAAAGATTTTAATAGGTTAAAATCCATTT
TAATAGATTAAAAGGTCAGACAGATTTGAATTCAAAACCACTAAAAGACAAAATAATAGCCAAAT
TCTTCCCAAACTGTCTACAATGATTAAGTTTCACTCTCCAAGTATAAATAAGGTTCAAACGATCA
TAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAAAAGAGCCAAAAAATTCTCTTTTC
TAATAGTTAAAGACAAGTTTCATCGATTAACCTGGGCAATGGAGACAAATAGAATAATTTTAATC
GATTAAAGCCAAC
Found at i:7575293 original size:63 final size:62
Alignment explanation
Indices: 7575157--7575293 Score: 143
Period size: 62 Copynumber: 2.2 Consensus size: 62
7575147 TTCTCTTTTC
* ** * *
7575157 TAATTGGTTAAAGACAAGTTTAATCAATTAACCTGGAGCAATGAAGACAGATAGAATAATTT
1 TAATTGGTTAAAGACAACTTTAATCAATTAACCTAAAGCAATGAAAACAGACAGAATAATTT
* * * * *
7575219 TAATCGATTAAAGCCAACTTTAATCGATTAACCTAAAGTACAA-GAAAACAGACATAA-AGATTT
1 TAATTGGTTAAAGACAACTTTAATCAATTAACCTAAAG--CAATGAAAACAGACAGAATA-ATTT
7575282 TAATTGGTTAAA
1 TAATTGGTTAAA
7575294 ATCCATTTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
62 32 0.53
63 25 0.42
64 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (62 bp):
TAATTGGTTAAAGACAACTTTAATCAATTAACCTAAAGCAATGAAAACAGACAGAATAATTT
Found at i:7575956 original size:48 final size:47
Alignment explanation
Indices: 7575897--7576035 Score: 132
Period size: 49 Copynumber: 3.0 Consensus size: 47
7575887 GAGTTGCTTC
*
7575897 AAAAATTAAAAATAATTTTTTTAATTTTTAAAAATTCTAAAAAGATTTT
1 AAAAAGTAAAAATAATTTTTTT-ATTTTTAAAAATTCTAAAAAGA-TTT
*
7575946 AAAAA-TAAAAA-AATAATTTTTTATTTTTAAAAAATTCTAGAACA-A--T
1 AAAAAGTAAAAATAAT--TTTTTTATTTTT-AAAAATTCTA-AAAAGATTT
*
7575992 AAAAAGTAAAAATAA--TTTTTATTTTTAAGAAATTAT-AAAAGATT
1 AAAAAGTAAAAATAATTTTTTTATTTTTAA-AAATTCTAAAAAGATT
7576036 AGAAAATCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 24
0.74 0.03 0.23
Matches are distributed among these distances:
42 3 0.04
43 3 0.04
44 17 0.22
46 6 0.08
47 9 0.12
48 14 0.18
49 22 0.29
50 3 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (47 bp):
AAAAAGTAAAAATAATTTTTTTATTTTTAAAAATTCTAAAAAGATTT
Found at i:7577506 original size:31 final size:30
Alignment explanation
Indices: 7577468--7577535 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
7577458 TTAGTTATTA
** *
7577468 TGGATATTTAATGTATCTTGCTTAGCTTCTG
1 TGGATATTT-ATACATCTTGCTTAGCTACTG
*
7577499 TGGATA-TTATACATCTTGTTTAGCTACTG
1 TGGATATTTATACATCTTGCTTAGCTACTG
7577528 TGGATATT
1 TGGATATT
7577536 ATAAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 23 0.72
30 3 0.09
31 6 0.19
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (30 bp):
TGGATATTTATACATCTTGCTTAGCTACTG
Found at i:7577521 original size:29 final size:29
Alignment explanation
Indices: 7577482--7577538 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
7577472 TATTTAATGT
*
7577482 ATCTTGCTTAGCTTCTGTGGATATTATAC
1 ATCTTGCTTAGCTACTGTGGATATTATAC
*
7577511 ATCTTGTTTAGCTACTGTGGATATTATA
1 ATCTTGCTTAGCTACTGTGGATATTATA
7577539 AATATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (29 bp):
ATCTTGCTTAGCTACTGTGGATATTATAC
Found at i:7577553 original size:29 final size:29
Alignment explanation
Indices: 7577489--7577544 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7577479 TGTATCTTGC
* * *
7577489 TTAGCTTCTGTGGATATTATACATCTTGT
1 TTAGCTACTGTGGATATTATAAATATTGT
7577518 TTAGCTACTGTGGATATTATAAATATT
1 TTAGCTACTGTGGATATTATAAATATT
7577545 TTATTGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (29 bp):
TTAGCTACTGTGGATATTATAAATATTGT
Found at i:7578058 original size:41 final size:41
Alignment explanation
Indices: 7577987--7578074 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
7577977 TAACATAAGG
* * * *
7577987 TTTAATTAGTTAAACGAATGCAGGATGCAAAACAAAAGCCT
1 TTTAATTAGTTAAACGAACGCAAGACGCAAAACAAAACCCT
* *
7578028 TTTAATTAGTTAAAC-AGACGCAAGACGCAAAATATAACCCT
1 TTTAATTAGTTAAACGA-ACGCAAGACGCAAAACAAAACCCT
7578069 TTTAAT
1 TTTAAT
7578075 CAATTAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (41 bp):
TTTAATTAGTTAAACGAACGCAAGACGCAAAACAAAACCCT
Found at i:7590213 original size:22 final size:22
Alignment explanation
Indices: 7590163--7590233 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
7590153 AGGGAGGTTT
* * *
7590163 AAAACTTATTTAAAC-AAGTTC
1 AAAACTCATTCAAACAAATTTC
* *
7590184 TAAACTCATTCAAGCAAATTTC
1 AAAACTCATTCAAACAAATTTC
* *
7590206 AAAACTCATTCAAACAACTTTT
1 AAAACTCATTCAAACAAATTTC
7590228 AAAACT
1 AAAACT
7590234 TTTCACAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 11 0.28
22 29 0.73
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAACTCATTCAAACAAATTTC
Found at i:7590360 original size:21 final size:21
Alignment explanation
Indices: 7590300--7590360 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
7590290 TAATAAAATT
*
7590300 AAGTTCAAAGACTCATTCAAAC
1 AAGTTAAAAGA-TCATTCAAAC
* *
7590322 AACTTCAAAA-ATCTTTCAAAC
1 AAGTT-AAAAGATCATTCAAAC
7590343 AAGTTAAAAGATCATTCA
1 AAGTTAAAAGATCATTCA
7590361 TGTAACAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.12
21 20 0.62
22 5 0.16
23 3 0.09
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGATCATTCAAAC
Found at i:7591565 original size:51 final size:51
Alignment explanation
Indices: 7591504--7591600 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
7591494 ACTAATAACC
* * * *
7591504 ATTTTGAAAACAAAATATGACTACCTTTAAAAATTTTGTTCACATAAAATG
1 ATTTTAAAAACAAAATACGACCACCTTTAAAAACTTTGTTCACATAAAATG
* *
7591555 ATTTTAAAAACAAAGTACGACCACTTTTAAAAACTTTGTTCACATA
1 ATTTTAAAAACAAAATACGACCACCTTTAAAAACTTTGTTCACATA
7591601 GAACGTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (51 bp):
ATTTTAAAAACAAAATACGACCACCTTTAAAAACTTTGTTCACATAAAATG
Found at i:7594809 original size:11 final size:12
Alignment explanation
Indices: 7594793--7594821 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
7594783 TTTGAACTTG
7594793 TTTGAATGA-TT
1 TTTGAATGAGTT
7594804 TTTGAATGAGTT
1 TTTGAATGAGTT
7594816 TTTGAA
1 TTTGAA
7594822 CTTTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (12 bp):
TTTGAATGAGTT
Found at i:7594809 original size:21 final size:20
Alignment explanation
Indices: 7594763--7594805 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7594753 TTAAATTATC
* *
7594763 TTTGAAGTTGTTTGATTGAT
1 TTTGAACTTGTTTGAATGAT
7594783 TTTGAACTTGTTTGAATGAT
1 TTTGAACTTGTTTGAATGAT
7594803 TTT
1 TTT
7594806 TGAATGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.21, T:0.56
Consensus pattern (20 bp):
TTTGAACTTGTTTGAATGAT
Found at i:7594826 original size:21 final size:21
Alignment explanation
Indices: 7594812--7594855 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7594802 TTTTTGAATG
*
7594812 AGTTTTTGAACTTTTTCAAAT
1 AGTTTTTAAACTTTTTCAAAT
*
7594833 AGTTTTTAAACTTGTTTTAAAT
1 AGTTTTTAAACTT-TTTCAAAT
7594855 A
1 A
7594856 ATCCTTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (21 bp):
AGTTTTTAAACTTTTTCAAAT
Found at i:7594917 original size:20 final size:21
Alignment explanation
Indices: 7594892--7594934 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7594882 TGTGAAAAGT
7594892 TTCTAAAT-TGCTTAAATGAG
1 TTCTAAATGTGCTTAAATGAG
*
7594912 TTCTAAATGTGCTTGAATGAG
1 TTCTAAATGTGCTTAAATGAG
7594933 TT
1 TT
7594935 TTTGATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (21 bp):
TTCTAAATGTGCTTAAATGAG
Found at i:7594965 original size:20 final size:21
Alignment explanation
Indices: 7594927--7594984 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
7594917 AATGTGCTTG
**
7594927 AATGAGTTTTTGATTTTG-TCA
1 AATGA-TTTTTGAACTTGTTCA
*
7594948 AATGATTTTTGAACTTGTTTA
1 AATGATTTTTGAACTTGTTCA
* *
7594969 AGTGAATTTTGAACTT
1 AATGATTTTTGAACTT
7594985 AAATTATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
AATGATTTTTGAACTTGTTCA
Found at i:7595706 original size:30 final size:30
Alignment explanation
Indices: 7595672--7595764 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
7595662 TAAGGTTGTG
7595672 CTTAATCCATAAAAGGCATAGAGGTTATAA
1 CTTAATCCATAAAAGGCATAGAGGTTATAA
** ** * *
7595702 CTTAAT-GTTGAAAAGTTA-AGAGGGTTGT-G
1 CTTAATCCAT-AAAAGGCATAGA-GGTTATAA
*
7595731 CTTAATCCATAAAAGGCATAGAGGTTCTAA
1 CTTAATCCATAAAAGGCATAGAGGTTATAA
7595761 CTTA
1 CTTA
7595765 CCTTGAAAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
29 21 0.46
30 25 0.54
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (30 bp):
CTTAATCCATAAAAGGCATAGAGGTTATAA
Found at i:7595756 original size:29 final size:29
Alignment explanation
Indices: 7595664--7595756 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
7595654 TATTATTGTA
7595664 AGGTTGTGCTTAATCCATAAAAGGCATAG
1 AGGTTGTGCTTAATCCATAAAAGGCATAG
* * ** **
7595693 AGGTTATAACTTAAT-GTTGAAAAGTTA-AG
1 AGGTTGT-GCTTAATCCAT-AAAAGGCATAG
7595722 AGGGTTGTGCTTAATCCATAAAAGGCATAG
1 A-GGTTGTGCTTAATCCATAAAAGGCATAG
7595752 AGGTT
1 AGGTT
7595757 CTAACTTACC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
29 26 0.55
30 21 0.45
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (29 bp):
AGGTTGTGCTTAATCCATAAAAGGCATAG
Found at i:7600472 original size:2 final size:2
Alignment explanation
Indices: 7600465--7600489 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7600455 GAACTCAAAA
7600465 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7600490 ATGATGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7604124 original size:12 final size:12
Alignment explanation
Indices: 7604107--7604133 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7604097 AAAGGAAAAA
7604107 TGAGATGTATAT
1 TGAGATGTATAT
7604119 TGAGATGTATAT
1 TGAGATGTATAT
7604131 TGA
1 TGA
7604134 TTGATTGAAC
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:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (12 bp):
TGAGATGTATAT
Found at i:7606812 original size:42 final size:43
Alignment explanation
Indices: 7606752--7606890 Score: 156
Period size: 42 Copynumber: 3.2 Consensus size: 43
7606742 ACTAAAGTCA
* * *
7606752 ATCACAATACAATCATGGGAA-GTGGAGACCTTCTTAGTCTAC
1 ATCACAACACAATCATGGGAATGTGGAGACCTTCTTAATCCAC
* *
7606794 TTCACAACACAATCATGGGAATGTGGAGA-CTTCGTAATCCAC
1 ATCACAACACAATCATGGGAATGTGGAGACCTTCTTAATCCAC
* ** *
7606836 ACCATGACACCAATCATGGGAATATGGAGACCTTCTTAATCCAC
1 ATCACAACA-CAATCATGGGAATGTGGAGACCTTCTTAATCCAC
*
7606880 ATTCTCAACAC
1 A-TCACAACAC
7606891 TCAAATGCAA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 34 0.44
43 26 0.33
44 14 0.18
45 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
ATCACAACACAATCATGGGAATGTGGAGACCTTCTTAATCCAC
Found at i:7609991 original size:29 final size:28
Alignment explanation
Indices: 7609942--7610007 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
7609932 AGGAGCTAAT
* **
7609942 AAAGAAAAGTTGTACGTGAACAGATACA
1 AAAGAAAAGCTGTACAAGAACAGATACA
*
7609970 AAAGAAGAAGCTGTACAAGAACAGGTACA
1 AAAGAA-AAGCTGTACAAGAACAGATACA
*
7609999 AGAGAAAAG
1 AAAGAAAAG
7610008 GCTATACGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.53, C:0.11, G:0.24, T:0.12
Consensus pattern (28 bp):
AAAGAAAAGCTGTACAAGAACAGATACA
Done.