Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 51 of 402
Found at i:9791715 original size:24 final size:24
Alignment explanation
Indices: 9791686--9791732 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9791676 AATAGATAAT
9791686 TAAGCAAATATA-AGCAATGAAAAA
1 TAAGCAAATATACA-CAATGAAAAA
**
9791710 TAAGCAGGTATACACAATGAAAA
1 TAAGCAAATATACACAATGAAAA
9791733 GGAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (24 bp):
TAAGCAAATATACACAATGAAAAA
Found at i:9792360 original size:13 final size:13
Alignment explanation
Indices: 9792342--9792366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9792332 TAGAAATAAA
9792342 ATAAAATAAAATC
1 ATAAAATAAAATC
9792355 ATAAAATAAAAT
1 ATAAAATAAAAT
9792367 AAAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAAATAAAATC
Found at i:9792616 original size:51 final size:52
Alignment explanation
Indices: 9792561--9792659 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
9792551 AGAAAACCCA
*
9792561 TCAAAAAGTTCAATCGAAAACT-AAAAACCCTACCGATTTCT-GAAAACTTCG
1 TCAAAAAATTCAATCGAAAACTAAAAAACCC-ACCGATTTCTGGAAAACTTCG
* *
9792612 TCAAAAAATTCAATCGAAAATTAAAAAACCCATCGATTTCTGGAAAAC
1 TCAAAAAATTCAATCGAAAACTAAAAAACCCACCGATTTCTGGAAAAC
9792660 CTATCAGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 29 0.67
52 14 0.33
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.23
Consensus pattern (52 bp):
TCAAAAAATTCAATCGAAAACTAAAAAACCCACCGATTTCTGGAAAACTTCG
Found at i:9792658 original size:19 final size:19
Alignment explanation
Indices: 9792636--9792676 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9792626 CGAAAATTAA
9792636 AAAACCCATC-GATTTCTGG
1 AAAACCCATCAGA-TTCTGG
*
9792655 AAAACCTATCAGATTCTGG
1 AAAACCCATCAGATTCTGG
9792674 AAA
1 AAA
9792677 TCTCGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (19 bp):
AAAACCCATCAGATTCTGG
Found at i:9793201 original size:10 final size:10
Alignment explanation
Indices: 9793184--9793212 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9793174 GTAGAAAAGG
9793184 AAAT-AAAAA
1 AAATAAAAAA
9793193 AAATAAAAAA
1 AAATAAAAAA
9793203 AAATAAAAAA
1 AAATAAAAAA
9793213 TAACAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:9793223 original size:3 final size:3
Alignment explanation
Indices: 9793211--9793263 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
9793201 AAAAATAAAA
* *
9793211 AAT AAC AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9793259 AAT AA
1 AAT AA
9793264 AAGTATCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9793710 original size:21 final size:21
Alignment explanation
Indices: 9793685--9793742 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9793675 TTCAATGTTG
*
9793685 TAAGTCATTGTTGTTGCTCAT
1 TAAGTCGTTGTTGTTGCTCAT
*
9793706 TAAGTCGTT-TTGTTTACTCAT
1 TAAGTCGTTGTTG-TTGCTCAT
* *
9793727 CATGTCGTTGTTGTTG
1 TAAGTCGTTGTTGTTG
9793743 TTGTCTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.50
Consensus pattern (21 bp):
TAAGTCGTTGTTGTTGCTCAT
Found at i:9795978 original size:144 final size:145
Alignment explanation
Indices: 9795628--9795978 Score: 383
Period size: 144 Copynumber: 2.4 Consensus size: 145
9795618 TCTTTTTTAA
* * * * *
9795628 GATTTTAAA-GCATAAAAAATCATAAAATATTATAAAATTGAGATTTGAAAAGTTTCATG-AAAA
1 GATTTCAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAA
* * ** * * *
9795691 TCCGAGCTCGAAAAGGCCAAATTACGAAAATAACCCTAAGAGGTATTTTGGTAATTTTACACCTT
66 TCCGAGCTAGAAAAGGCCAAATTACAAAAATAACCCTAAGAGGTATTCCGATAATTTCACACCTC
* ** *
9795756 TCGGGATACTACTAT
131 CCAAGATACAACTAT
* * *
9795771 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTGAGATCTGAAAGGTTTCAT-AAAAA
1 GATTTCAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAA
** * * *
9795835 TTTGAGCTTAG-GAAGGCCAAATTACAAAAAT-ACTCTTAAGGGGTATTCCGATAATTTCACACC
66 TCCGAGC-TAGAAAAGGCCAAATTACAAAAATAAC-CCTAAGAGGTATTCCGATAATTTCACACC
*
9795898 TCCCAA-AGTACAACTTT
129 TCCCAAGA-TACAACTAT
* *
9795915 G-TTTCAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAATTTTCATGAAAAA
1 GATTTCAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAA
9795979 AAAATGACCC
Statistics
Matches: 174, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
143 64 0.37
144 108 0.62
145 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (145 bp):
GATTTCAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAA
TCCGAGCTAGAAAAGGCCAAATTACAAAAATAACCCTAAGAGGTATTCCGATAATTTCACACCTC
CCAAGATACAACTAT
Found at i:9796197 original size:20 final size:19
Alignment explanation
Indices: 9796174--9796211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9796164 AAGTTTTGTG
*
9796174 TAATTTTGACTTTGTTTGAC
1 TAATTTTAACTTT-TTTGAC
9796194 TAATTTTAACTTTTTTGA
1 TAATTTTAACTTTTTTGA
9796212 TCAAGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (19 bp):
TAATTTTAACTTTTTTGAC
Found at i:9798117 original size:62 final size:61
Alignment explanation
Indices: 9797948--9798205 Score: 195
Period size: 62 Copynumber: 4.2 Consensus size: 61
9797938 TAAAACATCG
* * * ** * ***
9797948 TAATTGA-TGATTTTAAATTTTTAAATGCAAGTAATTAC-GACGTTTTGGTTAATTAAATGTTG
1 TAATTGAGT-ATTTTCAATTCTTAAATGCAAGCAATTACAG-C-TTTTCTTTAATTAAACGCCA
* * * * *
9798010 TAATTGAGTATATTCAATT-TCT-AATGCAAGCAATTA-TGGTATTTCTTTCAACTAAACACCA
1 TAATTGAGTATTTTCAATTCT-TAAATGCAAGCAATTACAGCT-TTTCTTT-AATTAAACGCCA
* * *
9798071 TAATTGGGTATTTTCAATTCTTAAATGCAAGCAATTACAGCTTTTCTTTATTTTAAATGCCGA
1 TAATTGAGTATTTTCAATTCTTAAATGCAAGCAATTACAGCTTTTCTTTA-ATTAAACGCC-A
* * * * *
9798134 -AATTGAATATTTTCAATTCTTATATGCAAGCAATTACATCGTTTCTTTTAATTAAACGTCA
1 TAATTGAGTATTTTCAATTCTTAAATGCAAGCAATTACAGCTTTTC-TTTAATTAAACGCCA
9798195 TAATTGAGTAT
1 TAATTGAGTAT
9798206 AGTTATTTTT
Statistics
Matches: 155, Mismatches: 29, Indels: 24
0.75 0.14 0.12
Matches are distributed among these distances:
59 1 0.01
60 5 0.03
61 41 0.26
62 100 0.65
63 8 0.05
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (61 bp):
TAATTGAGTATTTTCAATTCTTAAATGCAAGCAATTACAGCTTTTCTTTAATTAAACGCCA
Found at i:9799885 original size:17 final size:18
Alignment explanation
Indices: 9799849--9799890 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9799839 TATCTTTCAG
9799849 TTTTT-TTATTAACTCATT
1 TTTTTCTTATTAACT-ATT
9799867 TTTTTCTTATTAACT-TT
1 TTTTTCTTATTAACTATT
9799884 TTTTTCT
1 TTTTTCT
9799891 CTACCTCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 5 0.22
19 9 0.39
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTCTTATTAACTATT
Found at i:9800134 original size:34 final size:33
Alignment explanation
Indices: 9800078--9800187 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 33
9800068 TGAAGCTTTC
* *
9800078 ATATTTGCATTCTTGAACACTTTTAAAAGTTTTT
1 ATATTTACATTTTTGAA-ACTTTTAAAAGTTTTT
*
9800112 ATATTTACATTTTTGAGAACTTTTAAAAGCTTTCGT
1 ATATTTACATTTTTGA-AACTTTTAAAAG-TTT-TT
* **
9800148 ATTTGTTTTA-TTTTGAAACTTTTAAAAGTTTTT
1 ATAT-TTACATTTTTGAAACTTTTAAAAGTTTTT
*
9800181 AAATTTA
1 ATATTTA
9800188 TATATTCAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
32 2 0.03
33 3 0.05
34 28 0.45
35 16 0.26
36 10 0.16
37 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (33 bp):
ATATTTACATTTTTGAAACTTTTAAAAGTTTTT
Found at i:9800239 original size:34 final size:34
Alignment explanation
Indices: 9800166--9800239 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 34
9800156 TATTTTGAAA
* *
9800166 CTTTTAAAAGTTTTTAAATTTATATATTCAAAAT
1 CTTTTAAAAGTTTTTAAATTTACATATTCAAAAG
* * * *
9800200 TTTTTAAAATTTTTTAAATTTGCATATGT-AGAAG
1 CTTTTAAAAGTTTTTAAATTTACATAT-TCAAAAG
9800234 CTTTTA
1 CTTTTA
9800240 TATGTTCCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (34 bp):
CTTTTAAAAGTTTTTAAATTTACATATTCAAAAG
Found at i:9806695 original size:20 final size:21
Alignment explanation
Indices: 9806672--9806715 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
9806662 ATTAACATAG
9806672 TAAAAATAT-ATTAAAATAA-A
1 TAAAAAT-TCATTAAAATAATA
9806692 TAAAAATTCATTAAAATAATA
1 TAAAAATTCATTAAAATAATA
9806713 TAA
1 TAA
9806716 CTAAAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 17 0.77
21 4 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAATTCATTAAAATAATA
Found at i:9814554 original size:22 final size:22
Alignment explanation
Indices: 9814529--9814580 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
9814519 TTCAAGTGGT
9814529 TCATCATTTGTACTCAAATGTA
1 TCATCATTTGTACTCAAATGTA
9814551 TCATCATTTGTACTCAAATGTA
1 TCATCATTTGTACTCAAATGTA
9814573 TCATCATT
1 TCATCATT
9814581 AAAGGTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
TCATCATTTGTACTCAAATGTA
Found at i:9819405 original size:14 final size:15
Alignment explanation
Indices: 9819386--9819414 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9819376 TAATCTTGTA
9819386 TTCAC-AAACATATT
1 TTCACAAAACATATT
9819400 TTCACAAAACATATT
1 TTCACAAAACATATT
9819415 CTCAAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (15 bp):
TTCACAAAACATATT
Found at i:9819911 original size:23 final size:24
Alignment explanation
Indices: 9819885--9819935 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
9819875 TTTTTTAAAA
9819885 CATAATC-TATACAAAGTAAA-TTT
1 CATAATCAT-TACAAAGTAAATTTT
*
9819908 CATAATCATTCCAAAGTAAATTTT
1 CATAATCATTACAAAGTAAATTTT
9819932 CATA
1 CATA
9819936 TTCCAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (24 bp):
CATAATCATTACAAAGTAAATTTT
Found at i:9821433 original size:93 final size:95
Alignment explanation
Indices: 9821274--9821468 Score: 358
Period size: 93 Copynumber: 2.1 Consensus size: 95
9821264 AAATTTCAAG
9821274 AGTTTTAAGCAAAATCTTACCTTAAGTAGTAATTTCTAGGATTTATTTACTATACCTCTT-CC-C
1 AGTTTTAAGCAAAATCTTACCTTAAGTAGTAATTTCTAGGATTTATTTACTATACCTCTTCCCTC
9821337 TTCTTCTTCTTCTCTTCAAGCGTTTTTTAA
66 TTCTTCTTCTTCTCTTCAAGCGTTTTTTAA
*
9821367 AGTTTTAAGCAAAATCTTACCTTAAGTAGTAATTTCTAGGATTTATTTACTATATCTCTTCCCTT
1 AGTTTTAAGCAAAATCTTACCTTAAGTAGTAATTTCTAGGATTTATTTACTATACCTCTTCCC-T
9821432 CTTCTTCTTCTTCTCTTCAAGCGTTTTTTAA
65 CTTCTTCTTCTTCTCTTCAAGCGTTTTTTAA
9821463 AGTTTT
1 AGTTTT
9821469 CTTTTTTTCT
Statistics
Matches: 98, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
93 59 0.60
94 2 0.02
96 37 0.38
ACGTcount: A:0.24, C:0.19, G:0.09, T:0.48
Consensus pattern (95 bp):
AGTTTTAAGCAAAATCTTACCTTAAGTAGTAATTTCTAGGATTTATTTACTATACCTCTTCCCTC
TTCTTCTTCTTCTCTTCAAGCGTTTTTTAA
Found at i:9837556 original size:1 final size:1
Alignment explanation
Indices: 9837550--9837574 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9837540 ATGCGACGTT
9837550 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9837575 CATCAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9839103 original size:6 final size:6
Alignment explanation
Indices: 9839092--9839121 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9839082 TGAATTAGTT
*
9839092 GAAGCA GAAGCA GAAGCA GAAGCA AAAGCA
1 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA
9839122 TTTGAAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.53, C:0.17, G:0.30, T:0.00
Consensus pattern (6 bp):
GAAGCA
Found at i:9840893 original size:2 final size:2
Alignment explanation
Indices: 9840886--9840938 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
9840876 AAACTCCCAA
*
9840886 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9840928 AT AT AT TT AT A
1 AT AT AT AT AT A
9840939 AAAAGCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9841471 original size:38 final size:36
Alignment explanation
Indices: 9841424--9841497 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
9841414 GTTGTGAACA
*
9841424 CAAAATCATTACTATTTAATACTCTTTATGTACTTTC
1 CAAAATCATTACTATTTAATACTC-TTATATACTTTC
**
9841461 CAAAGATCATTGGTATTTAATACTCTTATATACTTTC
1 CAAA-ATCATTACTATTTAATACTCTTATATACTTTC
9841498 TATCATATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (36 bp):
CAAAATCATTACTATTTAATACTCTTATATACTTTC
Found at i:9843694 original size:14 final size:14
Alignment explanation
Indices: 9843647--9843696 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9843637 AACTTCAAAC
9843647 TAAAAATTCAAGTG
1 TAAAAATTCAAGTG
* *
9843661 TATCAAATATCAA--C
1 TA-AAAAT-TCAAGTG
9843675 TAAAAATTCAAGTG
1 TAAAAATTCAAGTG
9843689 TAAAAATT
1 TAAAAATT
9843697 GGATGACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 12 0.43
15 4 0.14
16 4 0.14
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (14 bp):
TAAAAATTCAAGTG
Found at i:9847821 original size:25 final size:25
Alignment explanation
Indices: 9847766--9847818 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
9847756 TTCAATTTTG
*
9847766 AAAATAAAAGAATATTTTTAATATA
1 AAAATAAAAGAATATTTTTAAAATA
9847791 AAAATAAAAG-ATATTTTTAAAATA
1 AAAATAAAAGAATATTTTTAAAATA
9847815 AAAA
1 AAAA
9847819 ATATACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAATAAAAGAATATTTTTAAAATA
Found at i:9849004 original size:21 final size:21
Alignment explanation
Indices: 9848897--9849004 Score: 74
Period size: 21 Copynumber: 5.1 Consensus size: 21
9848887 TATAATGTCA
* *
9848897 ATCTCAAACTGATCTTTAATA
1 ATCTCAAACTGATCTCTAATG
* *
9848918 ATCCCAAACTAATCTCTAAAT-
1 ATCTCAAACTGATCTCT-AATG
* * *
9848939 ATTTTAATCTGATCTCTAATG
1 ATCTCAAACTGATCTCTAATG
* ** * * *
9848960 ATCTTAAACAAATTTTTAACG
1 ATCTCAAACTGATCTCTAATG
*
9848981 ATCTCAAATTGATCTCTAATG
1 ATCTCAAACTGATCTCTAATG
9849002 ATC
1 ATC
9849005 CCAATCTAGT
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.90
22 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (21 bp):
ATCTCAAACTGATCTCTAATG
Found at i:9849860 original size:21 final size:21
Alignment explanation
Indices: 9849835--9849896 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
9849825 CGTCCCCAAT
*
9849835 ATGATCTATAACAATCTTAAA
1 ATGATCTATAACAATCCTAAA
* *
9849856 TTGATCTCTAACAATCCTAAA
1 ATGATCTATAACAATCCTAAA
* *
9849877 ATGATCTTTAACGATCCTAA
1 ATGATCTATAACAATCCTAA
9849897 TCCAATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.34
Consensus pattern (21 bp):
ATGATCTATAACAATCCTAAA
Found at i:9849881 original size:42 final size:42
Alignment explanation
Indices: 9849807--9849888 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
9849797 ACAATCTCAT
* *
9849807 TCTTAAACTGATCTCTAACGTCCCCAATATGATCTATAACAA
1 TCTTAAACTGATCTCTAACATCCCCAAAATGATCTATAACAA
* * *
9849849 TCTTAAATTGATCTCTAACAAT-CCTAAAATGATCTTTAAC
1 TCTTAAACTGATCTCTAAC-ATCCCCAAAATGATCTATAAC
9849889 GATCCTAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (42 bp):
TCTTAAACTGATCTCTAACATCCCCAAAATGATCTATAACAA
Found at i:9858656 original size:27 final size:29
Alignment explanation
Indices: 9858597--9858656 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
9858587 ATTGCATGTG
*
9858597 AAAATAGACAAATAGATAATAAATAAATT
1 AAAATAAACAAATAGATAATAAATAAATT
9858626 --AATAAACAAA-A-AT-ATAAATGAAATT
1 AAAATAAACAAATAGATAATAAAT-AAATT
9858651 AAAATA
1 AAAATA
9858657 TACCTTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
24 6 0.22
25 7 0.26
26 1 0.04
27 13 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (29 bp):
AAAATAAACAAATAGATAATAAATAAATT
Found at i:9862474 original size:2 final size:2
Alignment explanation
Indices: 9862461--9862498 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9862451 TTAACTCCCA
*
9862461 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9862499 TGCTGCTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9867168 original size:4 final size:4
Alignment explanation
Indices: 9867159--9867184 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9867149 TTTAAAACCA
9867159 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
9867185 CTTTGTTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:9870655 original size:2 final size:2
Alignment explanation
Indices: 9870650--9870675 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9870640 TGTGTGTCTT
9870650 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9870676 CACACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9871574 original size:19 final size:18
Alignment explanation
Indices: 9871523--9871612 Score: 58
Period size: 20 Copynumber: 4.7 Consensus size: 18
9871513 TTTAAAAATC
* *
9871523 TTTTGAAATTTTATTTTAA
1 TTTTTAAATTTT-TTTGAA
*
9871542 TTTTTCAA-TTTTTTGAGA
1 TTTTTAAATTTTTTTGA-A
*
9871560 TTTTTAAATTTTTTT-ATTT
1 TTTTTAAATTTTTTTGA--A
*
9871579 TTCTTTAAATTGTTTTGAA
1 TT-TTTAAATTTTTTTGAA
9871598 TTTTTTAAAATTTTT
1 -TTTTT-AAATTTTT
9871613 AATTTTCTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.07
18 12 0.22
19 17 0.31
20 21 0.38
21 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTAAATTTTTTTGAA
Found at i:9871585 original size:20 final size:19
Alignment explanation
Indices: 9871562--9871633 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
9871552 TTTTGAGATT
9871562 TTTAAATTTTTTTATTTTTC
1 TTTAAATTTTTTTA-TTTTC
* *
9871582 TTTAAATTGTTTTGAATTT-
1 TTTAAATT-TTTTTATTTTC
* *
9871601 TTTAAAATTTTTAATTTTC
1 TTTAAATTTTTTTATTTTC
*
9871620 TTTTAATTTTTTTA
1 TTTAAATTTTTTTA
9871634 AAAAACTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 8 0.19
19 18 0.43
20 11 0.26
21 5 0.12
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTAAATTTTTTTATTTTC
Found at i:9871611 original size:48 final size:48
Alignment explanation
Indices: 9871543--9871635 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
9871533 TTATTTTAAT
* * *
9871543 TTTTCAATTTTTTGAGATTTTTAAATTT-TTTTATTTTTCTTTAAATTG
1 TTTTCAATTTTTTAAAATTTTTAAATTTCTTTTAATTTT-TTTAAATTG
* *
9871591 TTTTGAATTTTTTAAAATTTTTAATTTTCTTTTAATTTTTTTAAA
1 TTTTCAATTTTTTAAAATTTTTAAATTTCTTTTAATTTTTTTAAA
9871636 AAACTTTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 30 0.77
49 9 0.23
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (48 bp):
TTTTCAATTTTTTAAAATTTTTAAATTTCTTTTAATTTTTTTAAATTG
Found at i:9871612 original size:38 final size:38
Alignment explanation
Indices: 9871548--9871631 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
9871538 TTAATTTTTC
* *
9871548 AATTTTTTGAGATTTTTAAATTTTTTTATTTTTCTTTA
1 AATTTTTTGAGATTTTTAAATATTTTTAATTTTCTTTA
*
9871586 AATTGTTTTGA-ATTTTTTAAA-ATTTTTAATTTTCTTTT
1 AATT-TTTTGAGA-TTTTTAAATATTTTTAATTTTCTTTA
9871624 AATTTTTT
1 AATTTTTT
9871632 TAAAAAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 4 0.10
38 23 0.56
39 14 0.34
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (38 bp):
AATTTTTTGAGATTTTTAAATATTTTTAATTTTCTTTA
Found at i:9871634 original size:20 final size:20
Alignment explanation
Indices: 9871561--9871634 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
9871551 TTTTTGAGAT
*
9871561 TTTTAAATTTTTTTATTTTTC
1 TTTT-AATTTTTTTAATTTTC
* *
9871582 TTTAAATTGTTTTGAA--TT-
1 TTTTAATT-TTTTTAATTTTC
**
9871600 TTTTAAAATTTTTAATTTTC
1 TTTTAATTTTTTTAATTTTC
9871620 TTTTAATTTTTTTAA
1 TTTTAATTTTTTTAA
9871635 AAAACTTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
17 6 0.15
18 5 0.12
19 4 0.10
20 17 0.43
21 8 0.20
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTAATTTTTTTAATTTTC
Found at i:9873625 original size:2 final size:2
Alignment explanation
Indices: 9873618--9873647 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9873608 TGAAAAGCAA
9873618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9873648 CCATTACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9873728 original size:2 final size:2
Alignment explanation
Indices: 9873723--9873752 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9873713 AAAAGCTAAG
*
9873723 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9873753 CCATTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9873792 original size:105 final size:105
Alignment explanation
Indices: 9873610--9873827 Score: 395
Period size: 105 Copynumber: 2.1 Consensus size: 105
9873600 TGTTTGGGTG
*
9873610 AAAAGC-AA-ATATATATATATATATATATATATATATATCCATTACTTACACCTTGCTTTAATC
1 AAAAGCTAAGATATATATATAGATATATATATATATATATCCATTACTTACACCTTGCTTTAATC
*
9873673 CAAACCTCTAGTGTAAATGAACCTTGGTTTTATGAATCAA
66 CAAACCTCTAGTGTAAATGAACCTTCGTTTTATGAATCAA
9873713 AAAAGCTAAGATATATATATAGATATATATATATATATATCCATTACTTACACCTTGCTTTAATC
1 AAAAGCTAAGATATATATATAGATATATATATATATATATCCATTACTTACACCTTGCTTTAATC
*
9873778 CAAACCTCTGGTGTAAATGAACCTTCGTTTTATGAATCAA
66 CAAACCTCTAGTGTAAATGAACCTTCGTTTTATGAATCAA
9873818 AAAAGCTAAG
1 AAAAGCTAAG
9873828 CAAAGTAGAA
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 6 0.05
104 2 0.02
105 102 0.93
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (105 bp):
AAAAGCTAAGATATATATATAGATATATATATATATATATCCATTACTTACACCTTGCTTTAATC
CAAACCTCTAGTGTAAATGAACCTTCGTTTTATGAATCAA
Found at i:9878356 original size:42 final size:42
Alignment explanation
Indices: 9878292--9878376 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
9878282 TGCAGGACAA
9878292 ATTCCACATTCAGCAAGGTTGGAAAAGTTAACTTTTAATTGT
1 ATTCCACATTCAGCAAGGTTGGAAAAGTTAACTTTTAATTGT
*
9878334 ATTCCACATTCAGCAAGTTTGGAAAAGTTAACTTTTAATTGT
1 ATTCCACATTCAGCAAGGTTGGAAAAGTTAACTTTTAATTGT
9878376 A
1 A
9878377 GACAAAGCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (42 bp):
ATTCCACATTCAGCAAGGTTGGAAAAGTTAACTTTTAATTGT
Found at i:9880150 original size:12 final size:12
Alignment explanation
Indices: 9880115--9880142 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9880105 ATTACTTACC
9880115 TTATATATATAT
1 TTATATATATAT
9880127 TTATATATATAT
1 TTATATATATAT
9880139 TTAT
1 TTAT
9880143 GTGTATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATATATAT
Found at i:9881389 original size:2 final size:2
Alignment explanation
Indices: 9881382--9881416 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9881372 GTTTGCGATT
9881382 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9881417 TTTTTCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9882398 original size:2 final size:2
Alignment explanation
Indices: 9882391--9882423 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9882381 TTTTACTTCA
*
9882391 AT AT AT AT AT AT AT AT AT A- AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9882424 GCGTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9884350 original size:22 final size:22
Alignment explanation
Indices: 9884318--9884376 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
9884308 TAAATTAGAA
9884318 TATAATGTAATTAGAATTTAAT-T
1 TATAAT-TAATTA-AATTTAATAT
*
9884341 TGAT-ATTAATTAAATATAATAT
1 T-ATAATTAATTAAATTTAATAT
9884363 TATAATTAATTAAA
1 TATAATTAATTAAA
9884377 ATTTGATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 9 0.28
22 18 0.56
23 3 0.09
24 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TATAATTAATTAAATTTAATAT
Found at i:9884427 original size:6 final size:6
Alignment explanation
Indices: 9884416--9884454 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
9884406 TGGTAAAAGA
9884416 AAATAT AAATAT AAATAT AAATAT AAATAAT AAAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAAT-AT -AAATAT A
9884455 TATTTTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.74
7 4 0.13
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:9884430 original size:18 final size:18
Alignment explanation
Indices: 9884409--9884450 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9884399 AAGTCTTTGG
9884409 TAAAAGAAAATATAAAT-A
1 TAAAA-AAAATATAAATAA
*
9884427 TAAATATAAATATAAATAA
1 TAAA-AAAAATATAAATAA
9884446 TAAAA
1 TAAAA
9884451 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAAAAATATAAATAA
Found at i:9885317 original size:24 final size:24
Alignment explanation
Indices: 9885287--9885347 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
9885277 AATCATAAAA
9885287 AAAAAAAAGAAAGTTTTTTG-TTT
1 AAAAAAAAGAAAGTTTTTTGTTTT
*
9885310 AAAGAAAAGTAAAAG-TTTTTGTTTT
1 AAAAAAAAG--AAAGTTTTTTGTTTT
9885335 AAAAAAAA-AAAGT
1 AAAAAAAAGAAAGT
9885348 CAATTACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 6 0.19
25 14 0.44
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (24 bp):
AAAAAAAAGAAAGTTTTTTGTTTT
Found at i:9892715 original size:21 final size:22
Alignment explanation
Indices: 9892682--9892723 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9892672 ATATATCACC
9892682 ATTGAACAAGAAATAAGGGAAA
1 ATTGAACAAGAAATAAGGGAAA
*
9892704 ATTGAA-AAGAAATGAGGGAA
1 ATTGAACAAGAAATAAGGGAA
9892724 CATTTGTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.14
Consensus pattern (22 bp):
ATTGAACAAGAAATAAGGGAAA
Found at i:9896246 original size:14 final size:14
Alignment explanation
Indices: 9896229--9896255 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9896219 TTTAAAAAAA
9896229 TAAATAGTAAAAGG
1 TAAATAGTAAAAGG
9896243 TAAATAGTAAAAG
1 TAAATAGTAAAAG
9896256 TATAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAATAGTAAAAGG
Found at i:9899922 original size:23 final size:24
Alignment explanation
Indices: 9899882--9899931 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
9899872 AAATTAATTA
9899882 AATAAAAAAACTAGTAAAATAAAAT
1 AATAAAAAAACTA-TAAAATAAAAT
9899907 AATAAAAAAACT-TAAAATAAAAT
1 AATAAAAAAACTATAAAATAAAAT
9899930 AA
1 AA
9899932 AACGTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (24 bp):
AATAAAAAAACTATAAAATAAAAT
Found at i:9899939 original size:17 final size:18
Alignment explanation
Indices: 9899901--9899942 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9899891 ACTAGTAAAA
*
9899901 TAAAATAATAAAAAAACT
1 TAAAATAATAAAAAAACG
*
9899919 TAAAATAA-AATAAAACG
1 TAAAATAATAAAAAAACG
9899936 TAAAATA
1 TAAAATA
9899943 TGAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
TAAAATAATAAAAAAACG
Found at i:9899966 original size:18 final size:19
Alignment explanation
Indices: 9899945--9899984 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9899935 GTAAAATATG
9899945 AAAAT-AAATGAAAATCAA
1 AAAATAAAATGAAAATCAA
*
9899963 AAAATAAAATGAAAATGAA
1 AAAATAAAATGAAAATCAA
9899982 AAA
1 AAA
9899985 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAATAAAATGAAAATCAA
Found at i:9900803 original size:3 final size:3
Alignment explanation
Indices: 9900777--9900871 Score: 120
Period size: 3 Copynumber: 32.0 Consensus size: 3
9900767 AGCAAAGAAA
* * *
9900777 AAT AAA AAT AAC ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
9900824 AAC AGT AAT AAT AAC AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9900872 TTTATAAATA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9902694 original size:10 final size:9
Alignment explanation
Indices: 9902675--9902711 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
9902665 TAACTTAAAC
9902675 TTTTTTTTA
1 TTTTTTTTA
9902684 TTTTTTATTA
1 TTTTTT-TTA
9902694 TTTTATTTTA
1 TTTT-TTTTA
9902704 TTTTTTTT
1 TTTTTTTT
9902712 GGGTCATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9907953 original size:19 final size:19
Alignment explanation
Indices: 9907931--9907993 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
9907921 TTGAAAAAAT
9907931 AAAAAAATGAAAAAAATGA
1 AAAAAAATGAAAAAAATGA
9907950 AAAAAAATGAAAAAAATGA
1 AAAAAAATGAAAAAAATGA
**
9907969 AAAATGATG-AAAAAATGA
1 AAAAAAATGAAAAAAATGA
9907987 AAAAAAA
1 AAAAAAA
9907994 AGTGAATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
18 14 0.35
19 26 0.65
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAAATGAAAAAAATGA
Found at i:9907993 original size:10 final size:9
Alignment explanation
Indices: 9907924--9907992 Score: 97
Period size: 9 Copynumber: 7.7 Consensus size: 9
9907914 ACTATGCTTG
9907924 AAAAAAT-A
1 AAAAAATGA
9907932 AAAAAATGA
1 AAAAAATGA
9907941 AAAAAATGAA
1 AAAAAATG-A
9907951 AAAAAATGA
1 AAAAAATGA
9907960 AAAAAATGA
1 AAAAAATGA
*
9907969 AAAATGATG-
1 AAAA-AATGA
9907978 AAAAAATGA
1 AAAAAATGA
9907987 AAAAAA
1 AAAAAA
9907993 AAGTGAATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
8 10 0.18
9 33 0.60
10 12 0.22
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:9909038 original size:41 final size:41
Alignment explanation
Indices: 9908993--9909286 Score: 403
Period size: 41 Copynumber: 7.1 Consensus size: 41
9908983 ATGATTGTCA
* * *
9908993 AGGAGTAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
9909034 AGGAGCAATTTACTTTTCAAAGTCGTTGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
9909075 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
9909116 AGGAGC-ATTTAC-TTTCAAAGTAGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
9909155 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
9909196 AGGAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
9909238 AGGAGCCATTTACGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
9909281 AGGAGC
1 AGGAGC
9909287 TTTGATCAAA
Statistics
Matches: 226, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 32 0.14
40 12 0.05
41 116 0.51
42 36 0.16
43 30 0.13
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:9909176 original size:80 final size:81
Alignment explanation
Indices: 9908993--9909286 Score: 392
Period size: 80 Copynumber: 3.6 Consensus size: 81
9908983 ATGATTGTCA
* * *
9908993 AGGAGTAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTC
*
9909058 GTTGTGCCTCTGTTTAA
65 GTTGTGCCTCTGTTTAG
* * *
9909075 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC-ATTTACTTTCAAAGTAG
1 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTCG
*
9909139 TGGTGCCTCTGTTTAG
66 TTGTGCCTCTGTTTAG
* *
9909155 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTTCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA--CTTTCAAAGT
* *
9909220 CGTTGAGCCTCTGATTAG
64 CGTTGTGCCTCTGTTTAG
* * * *
9909238 AGGAGCCATTTACGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAC-TTTC-CAAAGTCATGGTGCCTCTGTTTAGAGGAGC
9909287 TTTGATCAAA
Statistics
Matches: 188, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
80 68 0.36
81 11 0.06
82 44 0.23
83 35 0.19
84 4 0.02
85 26 0.14
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (81 bp):
AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTCG
TTGTGCCTCTGTTTAG
Found at i:9909534 original size:7 final size:6
Alignment explanation
Indices: 9909493--9909556 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
9909483 TTTCTCTTCA
* *
9909493 TTTTAT TTTTAT TTTTTT TAATTTAT TTTTAT TTTGTAT TTTACAT TTTTA-
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
*
9909544 TTTTAT TATTAT T
1 TTTTAT TTTTAT T
9909557 ATTTTATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 5 0.10
6 27 0.56
7 11 0.23
8 5 0.10
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:9909560 original size:20 final size:19
Alignment explanation
Indices: 9909495--9909561 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
9909485 TCTCTTCATT
9909495 TTATTTTTATTTT-TTTTAA
1 TTATTTTTATTTTATTTT-A
9909514 TTTATTTTTATTTTGTATTTTA
1 -TTATTTTTA-TTT-TATTTTA
*
9909536 -CATTTTTATTTTATTATTA
1 TTATTTTTATTTTATT-TTA
9909555 TTATTTT
1 TTATTTT
9909562 ATATATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 21 0.52
21 3 0.08
22 2 0.05
23 4 0.10
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (19 bp):
TTATTTTTATTTTATTTTA
Found at i:9909662 original size:20 final size:17
Alignment explanation
Indices: 9909637--9909679 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
9909627 GATTTATGTA
9909637 TTTATTAATATGTATATAT
1 TTTATTAATAT-TAT-TAT
*
9909656 CTTTATTATTATTATTAT
1 -TTTATTAATATTATTAT
9909674 TTTATT
1 TTTATT
9909680 TTTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 3 0.14
20 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTATTAATATTATTAT
Found at i:9910235 original size:12 final size:12
Alignment explanation
Indices: 9910218--9910246 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9910208 GAAACCGACC
9910218 AACTTTTCGGTG
1 AACTTTTCGGTG
9910230 AAC-TTTCGGTG
1 AACTTTTCGGTG
9910241 AACTTT
1 AACTTT
9910247 CGACGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (12 bp):
AACTTTTCGGTG
Found at i:9910238 original size:11 final size:11
Alignment explanation
Indices: 9910222--9910248 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9910212 CCGACCAACT
9910222 TTTCGGTGAAC
1 TTTCGGTGAAC
9910233 TTTCGGTGAAC
1 TTTCGGTGAAC
9910244 TTTCG
1 TTTCG
9910249 ACGAAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (11 bp):
TTTCGGTGAAC
Found at i:9910679 original size:11 final size:11
Alignment explanation
Indices: 9910651--9910687 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
9910641 TTTTTGAATT
*
9910651 TTATTTATTATT
1 TTATTTATT-TA
9910663 TTATTTATTTA
1 TTATTTATTTA
9910674 TTATTTATTTA
1 TTATTTATTTA
9910685 TTA
1 TTA
9910688 GATTAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:9910702 original size:4 final size:4
Alignment explanation
Indices: 9910650--9910686 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
9910640 TTTTTTGAAT
9910650 TTTA TTTA -TTA TTTTA TTTA TTTA -TTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT
9910687 AGATTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.20
4 21 0.70
5 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9910727 original size:5 final size:5
Alignment explanation
Indices: 9910717--9910801 Score: 74
Period size: 5 Copynumber: 17.6 Consensus size: 5
9910707 CCTTTTTACC
* *
9910717 TTTAT TTTA- TTT-T TTTATT TTTGT TTTAC TTT-T TTTAT TTTAT TTT-T
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
9910764 TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9910802 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 13 0.20
5 39 0.60
6 6 0.09
7 4 0.06
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:9910743 original size:14 final size:13
Alignment explanation
Indices: 9910721--9910771 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
9910711 TTTACCTTTA
9910721 TTTTATTTTTTTAT
1 TTTTATTTTTTT-T
* *
9910735 TTTTGTTTTACTTT
1 TTTTATTTT-TTTT
9910749 TTTTATTTTATTTT
1 TTTTATTTT-TTTT
9910763 TTTTATTTT
1 TTTTATTTT
9910772 CACTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 30 0.94
15 2 0.06
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTT
Found at i:9910877 original size:58 final size:59
Alignment explanation
Indices: 9910815--9911215 Score: 537
Period size: 58 Copynumber: 6.7 Consensus size: 59
9910805 TAAATAAAAA
*
9910815 TCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTT
* *
9910873 TCAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTT
* *
9910931 TCAAAAAAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
1 TC-AAAAAAATA----TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA--TT
9910996 T
59 T
* *
9910997 TC--AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTT
* *
9911054 TC-CAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTT
* * *
9911113 CCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCT--AAATTAAAGTT
1 TC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCAAATTT
* *
9911172 TCAAAAGAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9911216 CTGCACAAAA
Statistics
Matches: 309, Mismatches: 21, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
57 4 0.01
58 144 0.47
59 63 0.20
60 4 0.01
61 40 0.13
62 1 0.00
63 45 0.15
64 3 0.01
66 5 0.02
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (59 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTT
Found at i:9911121 original size:180 final size:176
Alignment explanation
Indices: 9910818--9911215 Score: 561
Period size: 180 Copynumber: 2.2 Consensus size: 176
9910808 ATAAAAATCA
*
9910818 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCAAAAAAAG
* * *
9910883 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGGGT
66 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAA--GAT
9910948 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCAAAGTTTTTC
129 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCT--AAATCAAAG--TTTC
* * *
9910999 -AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC-CAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTCAAAAAAA
* * * *
9911062 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC-CAAAAAAAATAT
65 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAAAAAGAT
* *
9911126 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCTAAATTAAAGTTTC
129 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCTAAATCAAAGTTTC
*
9911174 AAAAGAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAA-AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9911216 CTGCACAAAA
Statistics
Matches: 197, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
175 4 0.02
176 3 0.02
177 43 0.22
178 33 0.17
179 1 0.01
180 99 0.50
181 14 0.07
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (176 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCAAAAAAAG
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAAGATTT
TTGAGGAAAAGTTGAAAGTATCAATTTTCCTCTAAATCAAAGTTTC
Found at i:9913661 original size:95 final size:95
Alignment explanation
Indices: 9913493--9913688 Score: 374
Period size: 95 Copynumber: 2.1 Consensus size: 95
9913483 TAGATGCATA
* *
9913493 CCTATTAAAGTTGAATACCTTTCTATCATTGGCACAAAATTAACCTTATTAAAGATAAAGCAATG
1 CCTAATAAAGTTGAATACCCTTCTATCATTGGCACAAAATTAACCTTATTAAAGATAAAGCAATG
9913558 ATAGGAAGGATCCCATAATTGTACCATTGC
66 ATAGGAAGGATCCCATAATTGTACCATTGC
9913588 CCTAATAAAGTTGAATACCCTTCTATCATTGGCACAAAATTAACCTTATTAAAGATAAAGCAATG
1 CCTAATAAAGTTGAATACCCTTCTATCATTGGCACAAAATTAACCTTATTAAAGATAAAGCAATG
9913653 ATAGGAAGGATCCCATAATTGTACCATTGC
66 ATAGGAAGGATCCCATAATTGTACCATTGC
9913683 CCTAAT
1 CCTAAT
9913689 GAGGGAGTTA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (95 bp):
CCTAATAAAGTTGAATACCCTTCTATCATTGGCACAAAATTAACCTTATTAAAGATAAAGCAATG
ATAGGAAGGATCCCATAATTGTACCATTGC
Found at i:9916361 original size:18 final size:18
Alignment explanation
Indices: 9916340--9916378 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9916330 CCAGTAAAAT
9916340 AAAATAATAA-AAAAATTA
1 AAAATAA-AATAAAAATTA
*
9916358 AAAATAAAATAAAACTTA
1 AAAATAAAATAAAAATTA
9916376 AAA
1 AAA
9916379 TATGGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAAAATAAAAATTA
Found at i:9916405 original size:18 final size:20
Alignment explanation
Indices: 9916384--9916422 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9916374 TAAAATATGG
9916384 AAAT-AAATGAAAAT-AAAA
1 AAATAAAATGAAAATGAAAA
9916402 AAATAAAATGAAAATGAAAA
1 AAATAAAATGAAAATGAAAA
9916422 A
1 A
9916423 GGAAACCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
AAATAAAATGAAAATGAAAA
Found at i:9917267 original size:15 final size:15
Alignment explanation
Indices: 9917256--9917286 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9917246 AGTATACATA
9917256 AATACAAAATACTAT
1 AATACAAAATACTAT
*
9917271 AATATAAAATACTAT
1 AATACAAAATACTAT
9917286 A
1 A
9917287 CTATATACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (15 bp):
AATACAAAATACTAT
Found at i:9917291 original size:15 final size:15
Alignment explanation
Indices: 9917261--9917303 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
9917251 ACATAAATAC
*
9917261 AAAATACTATAATAT
1 AAAATACTATACTAT
9917276 AAAATACTATACTAT
1 AAAATACTATACTAT
9917291 ---ATACTATACTAT
1 AAAATACTATACTAT
9917303 A
1 A
9917304 TAATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.46
15 14 0.54
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATACTATACTAT
Found at i:9917296 original size:12 final size:12
Alignment explanation
Indices: 9917279--9917305 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9917269 ATAATATAAA
9917279 ATACTATACTAT
1 ATACTATACTAT
9917291 ATACTATACTAT
1 ATACTATACTAT
9917303 ATA
1 ATA
9917306 ATGCTAATAA
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (12 bp):
ATACTATACTAT
Found at i:9917321 original size:27 final size:26
Alignment explanation
Indices: 9917263--9917321 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
9917253 ATAAATACAA
*
9917263 AATACTATAATATAAAATACTATACT
1 AATACTATAATATAAAATACTATAAT
* * *
9917289 ATATACTATACTATATAATGCTAATAAT
1 A-ATACTATAATATAAAATACT-ATAAT
9917317 AATAC
1 AATAC
9917322 ATTATGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 21 0.78
28 5 0.19
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.36
Consensus pattern (26 bp):
AATACTATAATATAAAATACTATAAT
Found at i:9918531 original size:26 final size:26
Alignment explanation
Indices: 9918502--9918556 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9918492 AATATTTGAT
*
9918502 AATTACCCAATGAT-AAGTTTCTTAGA
1 AATT-CCCAATGATAAAGTTTCTAAGA
* *
9918528 AATTTCCAATGGTAAAGTTTCTAAGA
1 AATTCCCAATGATAAAGTTTCTAAGA
9918554 AAT
1 AAT
9918557 CTCTAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AATTCCCAATGATAAAGTTTCTAAGA
Found at i:9918536 original size:25 final size:26
Alignment explanation
Indices: 9918508--9918556 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9918498 TGATAATTAC
*
9918508 CCAATGAT-AAGTTTCTTAGAAATTT
1 CCAATGATAAAGTTTCTAAGAAATTT
*
9918533 CCAATGGTAAAGTTTCTAAGAAAT
1 CCAATGATAAAGTTTCTAAGAAAT
9918557 CTCTAGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (26 bp):
CCAATGATAAAGTTTCTAAGAAATTT
Found at i:9922700 original size:22 final size:22
Alignment explanation
Indices: 9922675--9922718 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9922665 GTGTGGGGGA
*
9922675 AAAATGAAAAAAATAAAAAAAT
1 AAAATAAAAAAAATAAAAAAAT
*
9922697 AAAATAAAAAAAATGAAAAAAT
1 AAAATAAAAAAAATAAAAAAAT
9922719 GTGAAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAATAAAAAAAATAAAAAAAT
Found at i:9922702 original size:13 final size:13
Alignment explanation
Indices: 9922684--9922708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9922674 AAAAATGAAA
9922684 AAAATAAAAAAAT
1 AAAATAAAAAAAT
9922697 AAAATAAAAAAA
1 AAAATAAAAAAA
9922709 ATGAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:9924530 original size:44 final size:44
Alignment explanation
Indices: 9924142--9924517 Score: 452
Period size: 44 Copynumber: 8.5 Consensus size: 44
9924132 AAGATTGTTA
*
9924142 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAACCTCTGATTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * *
9924186 AGAAGTCTTATTTACTTTTTCAAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
9924230 AAGAGCTTTATTTACCTTTTTCAAAGTCATTGAGCCTCTGATTAA
1 AGGAGCCTTATTTA-CTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * *
9924275 AGGAGCATTATTTACTTTTCCAAAGTCATTGAGCCTCT-AGTTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
* * * *
9924319 AGGTGCCTTATTTATTTTTTCAAAGTCGTTGGGCCTATGATTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
9924363 AGGAGCCTTATTTGCTTTTTTAAAGTTGTTGAGTCTCTGATTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
9924407 AAGAGCCTTATTTACTTTTTTAAAATCGTTGAGCCTCTAATTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * *
9924451 AAGAGCCTTATTTACTTTTTCAAAGTCATGGAGCCTCT-ACTTAG
1 AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
* *
9924495 AGGAGCTTTATTTA-TTTCTCAAA
1 AGGAGCCTTATTTACTTTTTCAAA
9924518 AGTTGTGGAG
Statistics
Matches: 285, Mismatches: 43, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
43 10 0.04
44 235 0.82
45 40 0.14
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (44 bp):
AGGAGCCTTATTTACTTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:9927119 original size:24 final size:23
Alignment explanation
Indices: 9927060--9927119 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
9927050 AATACCCTCA
*
9927060 TATCATAATTATTGAAATGCCCC
1 TATCATAATTATAGAAATGCCCC
9927083 TACATCATAATTATAGAAATGCCCCC
1 T--ATCATAATTATAGAAATG-CCCC
*
9927109 TATCATGATTA
1 TATCATAATTA
9927120 GTTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.03
24 9 0.28
25 17 0.53
26 5 0.16
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (23 bp):
TATCATAATTATAGAAATGCCCC
Found at i:9928028 original size:26 final size:26
Alignment explanation
Indices: 9928009--9928057 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
9927999 ATTACATTCA
9928009 TATAAT-TAATTAAATAATTAATTAT
1 TATAATGTAATTAAATAATTAATTAT
* *
9928034 TATATTGTAATTAAATTA-TAATTA
1 TATAATGTAATTAAATAATTAATTA
9928058 CTGATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TATAATGTAATTAAATAATTAATTAT
Found at i:9932676 original size:1 final size:1
Alignment explanation
Indices: 9932672--9932709 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
9932662 TCTTCTTCCG
*
9932672 CCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9932710 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:9933998 original size:18 final size:19
Alignment explanation
Indices: 9933975--9934012 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9933965 TGTATTTATA
9933975 TATTTAATAA-ACAAAATT
1 TATTTAATAATACAAAATT
*
9933993 TATTTAATAATATAAAATT
1 TATTTAATAATACAAAATT
9934012 T
1 T
9934013 GTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTTAATAATACAAAATT
Found at i:9938657 original size:5 final size:5
Alignment explanation
Indices: 9938625--9938649 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9938615 TATTAAAATA
9938625 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
9938650 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:9944040 original size:137 final size:138
Alignment explanation
Indices: 9943775--9944045 Score: 338
Period size: 138 Copynumber: 2.0 Consensus size: 138
9943765 AATCATTGTA
* * * * *
9943775 CAAGTTTAATATCATATATTTAAGCTATCTAAATTGTTAAAATAAAACTATAGCTGTAAATTTAC
1 CAAGTTTAATATCATATATTAAAACTATCTAAACTGTTAAAATAAAACAATAGATGTAAATTTAC
* * * *
9943840 ATATTTGTCCCTTAACAGCATAATAAGTGCTAAATAGACATAAACAACGAGTTTTTCACACATAT
66 ATATTTGTCCCTTAACAGCACAATAAGTGCTAAATAAACATAAACAACAACTTTTTCACACATAT
9943905 CAAGCGAG
131 CAAGCGAG
* *
9943913 CAAGTTTAATATCATATATTAAAACTAT-TGAAACTGTTAAAATATAACAATA-ATTTCAAATTT
1 CAAGTTTAATATCATATATTAAAACTATCT-AAACTGTTAAAATAAAACAATAGATGT-AAATTT
* *
9943976 ATA-ATTTTTCCCTTTAA-AGGCACAA-AAG-GTCTAAATAAACATAAACAACAACTTTTTCACA
64 ACATATTTGTCCC-TTAACA-GCACAATAAGTG-CTAAATAAACATAAACAACAACTTTTTCACA
9944037 CATATCAAG
126 CATATCAAG
9944046 GGTGGAAACC
Statistics
Matches: 115, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
136 1 0.01
137 52 0.45
138 62 0.54
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (138 bp):
CAAGTTTAATATCATATATTAAAACTATCTAAACTGTTAAAATAAAACAATAGATGTAAATTTAC
ATATTTGTCCCTTAACAGCACAATAAGTGCTAAATAAACATAAACAACAACTTTTTCACACATAT
CAAGCGAG
Found at i:9944329 original size:161 final size:160
Alignment explanation
Indices: 9944087--9944936 Score: 718
Period size: 160 Copynumber: 5.3 Consensus size: 160
9944077 ATTTAAGGGC
* * * * * * *
9944087 AAAATTCAAATTTGCAGTTATTATTTTTTTTTAA-AGTTTAGATAGCTTTAATACATGATATTAA
1 AAAATTTAAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAACTTCAATACATGATATTAA
* * * * * * *
9944151 ACTTGTTTGATTGATTGAATTTGGTTTTCATGCTTGATATGTGTGAAAAATTTTCTGTTTATGCC
66 ACTTGTCTGATTGATTGAACTTGGTTTTCATCCTTGATATATGTGAAAAAGTTACTGTTTATGTC
*
9944216 TATTTAGCACTTTTTATGCCGTTAAAAGGT
131 TATTTAGCACTTTTTATGCCGTTAAAAGGA
* * * * * *
9944246 AAAATTTCAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAACTTCAATATATTATATTA
1 AAAATTT-AAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAACTTCAATACATGATATTA
** * * * * * *
9944311 AACTTGTCCAAATGATTGAACTTGGTTTCCACCCTTGATATGTGTGAAAAAGTTAATGTTTATAT
65 AACTTGTCTGATTGATTGAACTTGGTTTTCATCCTTGATATATGTGAAAAAGTTACTGTTTATGT
* * * * *
9944376 AT-TTTAAGAACCTTTTATGCCATTAAAGGGCAA
130 CTATTT-AGCACTTTTTATGCCGTTAAAAGG--A
* * * ** * *
9944409 AAAATGTAAATTTGCTA-TTACATT-TT-TGTTTTAAATAGTTTAGATAGTTTAAATGCATGATA
1 AAAATTTAAATTTAC-AGTT--ATTGTTCTATTTT-AATAGTTTAGATAACTTCAATACATGATA
* * * * * * * *
9944471 TTAAACTTGTCTAAATGGTTGATCTTGGTTTTCA-CAATTTAAATATGTGAAAAAGTTACCGTTT
62 TTAAACTTGTCTGATTGATTGAACTTGGTTTTCATC-CTTGATATATGTGAAAAAGTTACTGTTT
*
9944535 ATGTCTATTTATG-ACTTATTGTAT--CGTTAAAAAGA
126 ATGTCTATTTA-GCACTT-TT-TATGCCGTTAAAAGGA
** * *
9944570 AAAATACAAATTTACAGTTATTGTTCTGTTTTAATAGTTTGGATAACTTCAATACATGATATTAA
1 AAAATTTAAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAACTTCAATACATGATATTAA
* * ** * * * *
9944635 ACTTTTCTGATTGACTGAACTTAATTTTCATCCTTGATACATGTGAAAAAATTGCTATGTT-TGT
66 ACTTGTCTGATTGATTGAACTTGGTTTTCATCCTTGATATATGTGAAAAAGTTACTGT-TTATGT
* *
9944699 CTACTTAGCACTTTTTATGCCGTT-AAAGAGC
130 CTATTTAGCACTTTTTATGCCGTTAAAAG-GA
* * * ** *
9944730 AAAATTGTAAATTTGCAATTATTGTTCTATTTTAA-AGTTTGGATAGGTTCAATACATGTTATTA
1 AAAATT-TAAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAACTTCAATACATGATATTA
* * * * *
9944794 AACTTGT-TCGATTGATTAAACTTGGTTTTCATGCTTGATATATGTGAAAAACTCACTGTTTATA
65 AACTTGTCT-GATTGATTGAACTTGGTTTTCATCCTTGATATATGTGAAAAAGTTACTGTTTATG
* * **
9944858 TCTATTTAGCATTTTTTGTGCCGTTAAGTGGCA
129 TCTATTTAGCACTTTTTATGCCGTTAAAAGG-A
* * *
9944891 AAAATGTAAATTTACAGCTATTGTTCTATTTTAATAATTTAGATAA
1 AAAATTTAAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAA
9944937 GACAACTATG
Statistics
Matches: 542, Mismatches: 120, Indels: 56
0.75 0.17 0.08
Matches are distributed among these distances:
158 3 0.01
159 18 0.03
160 240 0.44
161 159 0.29
162 14 0.03
163 96 0.18
164 9 0.02
165 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (160 bp):
AAAATTTAAATTTACAGTTATTGTTCTATTTTAATAGTTTAGATAACTTCAATACATGATATTAA
ACTTGTCTGATTGATTGAACTTGGTTTTCATCCTTGATATATGTGAAAAAGTTACTGTTTATGTC
TATTTAGCACTTTTTATGCCGTTAAAAGGA
Found at i:9944717 original size:323 final size:316
Alignment explanation
Indices: 9944106--9944936 Score: 758
Period size: 323 Copynumber: 2.6 Consensus size: 316
9944096 ATTTGCAGTT
* * *
9944106 ATTATTTTTTTTTAAAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTTGATTGATTGAAT
1 ATTATTTTTTTTTAAAGTTTAGATAG-TTTAATACATGATATTAAACTTGTCTAAATGATTGAAT
*** * * * * *
9944171 TTGGTTTTCATGCTTGATATGTGTGAAAAATTTTCTGTTTATGCCTATTTAGCACTTTTTATGCC
65 TTGGTTTTCACAATTGAAATATGTGAAAAAGTTACCGTTTATGCCTATTTAGCACTTTTTAT-CC
* * *
9944236 GTTAAAAGGTAAAATTTCAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAACTTCAATA
129 GTTAAAAAGTAAAAATACAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAACTTCAATA
* * * ** ** *
9944301 TATTATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACCCTTGATATGTGTGAAAAAGTTA
194 CATGATATTAAACTTGTCCAAATGACTGAACTTAATTTCCACCCTTGATACATGTGAAAAAATTA
* * *
9944366 ATGTTTATATATTTTAAGAACCTTTTATGCCATTAAAGGGCAAAAAATGTAAATTTGCT
259 ATGTTTATATATCTTAAGAACCTTTTATGCCATTAAAGAGC-AAAAATGTAAATTTGCA
* *
9944425 ATTACATTTTTGTTTTAAATAGTTTAGATAGTTTAAATGCATGATATTAAACTTGTCTAAATGGT
1 ATT--ATTTTT-TTTT-AA-AGTTTAGATAGTTT-AATACATGATATTAAACTTGTCTAAATGAT
* *
9944490 TG-ATCTTGGTTTTCACAATTTAAATATGTGAAAAAGTTACCGTTTATGTCTATTTATG-ACTTA
60 TGAAT-TTGGTTTTCACAATTGAAATATGTGAAAAAGTTACCGTTTATGCCTATTTA-GCACTT-
* * * *
9944553 TTGTAT-CGTTAAAAAG-AAAAATACAAATTTACAGTTATTGTTCTGTTTTAATAGTTTGGATAA
122 TT-TATCCGTTAAAAAGTAAAAATACAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAA
* ** * * *
9944616 CTTCAATACATGATATTAAACTTTTCTGATTGACTGAACTTAATTTTCATCCTTGATACATGTGA
186 CTTCAATACATGATATTAAACTTGTCCAAATGACTGAACTTAATTTCCACCCTTGATACATGTGA
* * * * * * *
9944681 AAAAATTGCTATGTTTGTCTA-CTT-AGCACTTTTTATGCCGTTAAAGAGCAAAATTGTAAATTT
251 AAAAATT--AATGTTTATATATCTTAAGAACCTTTTATGCCATTAAAGAGCAAAAATGTAAATTT
9944744 GCA
314 GCA
* * * * *
9944747 ATTATTGTTCTATTTTAAAGTTTGGATAGGTTCAATACATGTTATTAAACTTGT-TCGATTGATT
1 ATTATT-TT-T-TTTTAAAGTTTAGATA-GTTTAATACATGATATTAAACTTGTCT-AAATGATT
* * *** * * * * ** * *
9944811 AAACTTGGTTTTCATGCTTGATATATGTGAAAAACTCACTGTTTATATCTATTTAGCATTTTTTG
61 GAATTTGGTTTTCACAATTGAAATATGTGAAAAAGTTACCGTTTATGCCTATTTAGCACTTTTTA
*** * ** * * * *
9944876 TGCCGTTAAGTGGCAAAAATGTAAATTTACAGCTATTGTTCTATTTTAATAATTTAGATAA
126 T-CCGTTAAAAAGTAAAAATACAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAA
9944937 GACAACTATG
Statistics
Matches: 415, Mismatches: 76, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
318 2 0.00
319 7 0.02
320 88 0.21
321 55 0.13
322 27 0.07
323 127 0.31
324 94 0.23
325 12 0.03
326 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (316 bp):
ATTATTTTTTTTTAAAGTTTAGATAGTTTAATACATGATATTAAACTTGTCTAAATGATTGAATT
TGGTTTTCACAATTGAAATATGTGAAAAAGTTACCGTTTATGCCTATTTAGCACTTTTTATCCGT
TAAAAAGTAAAAATACAAATTTACAGTTATTGTTCTATTATAACAATTTGGATAACTTCAATACA
TGATATTAAACTTGTCCAAATGACTGAACTTAATTTCCACCCTTGATACATGTGAAAAAATTAAT
GTTTATATATCTTAAGAACCTTTTATGCCATTAAAGAGCAAAAATGTAAATTTGCA
Found at i:9948492 original size:302 final size:302
Alignment explanation
Indices: 9947870--9949073 Score: 1883
Period size: 302 Copynumber: 4.0 Consensus size: 302
9947860 ACATTAGCAT
* * *
9947870 GACATCTTACTATCATGACCTATACAAGCCAAGAATCAAATTTAGGGATGGGATCAATATACATA
1 GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
*
9947935 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATG-AGCCATGAGCAGTTATC
66 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATGTA-CCATAAGCAGTTATC
* * *
9947999 ATGCAGCAGAAAAAGCTTGTCATGCAACAAAAAG-GATCATATCCAATAAGTCTCGATATGTGTT
130 ATGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTCGATATGTGTT
9948063 AACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCAC
195 AACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCAC
* * **
9948128 TCAGTCCTAACTAGTATTCTTTAAAAGAAGAATGAGGGTAGGG
260 TCAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTAGGG
9948171 GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
1 GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
* * ** *
9948236 AATTTTAGTAGAAATTTTTAAGTTTCAAATGAAAATACATAATAATGTACCATAAACAGTTATCA
66 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATGTACCATAAGCAGTTATCA
*
9948301 TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTTGATATGTGTTA
131 TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTCGATATGTGTTA
* * * *
9948366 ACAAATGGGAGATGTCAAACTAGAATATAAGAAAATCAGAGGTCTAATTACCTAAAACAATCATT
196 ACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCACT
*
9948431 TAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTAGGG
261 CAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTAGGG
* * ** *
9948473 GACATCTTACTATCATGACCTGTACATGCCAAGTATTAAATTTAAAGATGGCATCAATAAACATA
1 GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
* * * *
9948538 AATTTTACTAAAAATGTTTAAATTTCAAATGAAAATATGCAATAATGTGCCATAAGCAGTTATCA
66 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATGTACCATAAGCAGTTATCA
* * * * * *
9948603 TGCTCCAAAAAAAGTTTGTCATGCAATAGAAAGTGATCATATCTAACAAGTCTCGATATGTGTTA
131 TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTCGATATGTGTTA
*
9948668 ACAAATGGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCACT
196 ACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCACT
* * * *
9948733 CAGTCCTAAGCAATATTCTTT-GAAAGAAGGGTAAGGGTAGAG
261 CAGTCCTAACCAGTATTCTTTAG-AAGAAGGGTGAGGGTAGGG
* *
9948775 GACATCTTACTATCATGACCTGTACATACCAAGAATCAAATTTAGGGATGGCATCAATATACACA
1 GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
* * * *
9948840 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATATGCAATAATGTGCCATGAGTAGTTATCA
66 AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATGTACCATAAGCAGTTATCA
* *
9948905 TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAATAAGTCTCAATATGTGTTA
131 TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTCGATATGTGTTA
* * *
9948970 ACAAATAGGAAATGTCAAACTAGAATATAATAAAATTAAAGGTTTAATTACCTAAAACAATCACT
196 ACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCACT
*
9949035 TAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTA
261 CAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTA
9949074 ATGAGAGAAA
Statistics
Matches: 821, Mismatches: 78, Indels: 7
0.91 0.09 0.01
Matches are distributed among these distances:
301 151 0.18
302 669 0.81
303 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (302 bp):
GACATCTTACTATCATGACCTGTACATGCCAAGAATCAAATTTAGGGATGGCATCAATATACATA
AATTTTACTAGAAATGTTTAAGTTTCAAATGAAAATACGCAATAATGTACCATAAGCAGTTATCA
TGCACCAGAAAAAGCTTGTCATGCAACATAAAGTGATCATATCCAACAAGTCTCGATATGTGTTA
ACAAATAGGAGATGTCAAACTAGAATATAATAAAATCAAAGGTCTAATTACCTAAAACAATCACT
CAGTCCTAACCAGTATTCTTTAGAAGAAGGGTGAGGGTAGGG
Found at i:9949626 original size:108 final size:108
Alignment explanation
Indices: 9949482--9949697 Score: 369
Period size: 108 Copynumber: 2.0 Consensus size: 108
9949472 TGAAAAGTAA
* * *
9949482 GGTCAAACTCTAGTCTTTCTCTGGTACCTATACATGTTCCATCACACCAAAAACTCTGCCTATTT
1 GGTCAAACTCTAGTCTTTCTCTAGTACCTATACATGTTCCATCACACCAAAAACCCTACCTATTT
*
9949547 TTGGTCTTTCTATAGTACCTAAAGAACAATGTACCAATCTATT
66 TTGATCTTTCTATAGTACCTAAAGAACAATGTACCAATCTATT
* *
9949590 GGTCAAACTCTAGTCTTTCTCTAGTACCTATGCATGTTCCATCACACCAAAAACCCTACCTGTTT
1 GGTCAAACTCTAGTCTTTCTCTAGTACCTATACATGTTCCATCACACCAAAAACCCTACCTATTT
*
9949655 TTGATCTTTCTCTAGTACCTAAAGAACAATGTACCAATCTATT
66 TTGATCTTTCTATAGTACCTAAAGAACAATGTACCAATCTATT
9949698 CTCTAATGTT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (108 bp):
GGTCAAACTCTAGTCTTTCTCTAGTACCTATACATGTTCCATCACACCAAAAACCCTACCTATTT
TTGATCTTTCTATAGTACCTAAAGAACAATGTACCAATCTATT
Found at i:9949792 original size:107 final size:107
Alignment explanation
Indices: 9949659--9949861 Score: 307
Period size: 107 Copynumber: 1.9 Consensus size: 107
9949649 CTGTTTTTGA
* * * * *
9949659 TCTTTCTCTAGTACCTAAAGAACAATGTACCAATCTATTCTCTAATGTTGATGGGAGTTTTAGGT
1 TCTTTCTCTAGTACCTAAAGAACAATGTACCAATCCATTCCCTAATGTTGATGAGAGTCTTACGT
*
9949724 CTTTATCCTTTCAAATTTTGCCTTGTAGCATCCTTTTTTTAG
66 CTTCATCCTTTCAAATTTTGCCTTGTAGCATCCTTTTTTTAG
* *
9949766 TCTTTCTCTAGTACTTAAAGAACAATGTATCAATCCATTCCCTAATGTTGATGAGAGTCTTACGT
1 TCTTTCTCTAGTACCTAAAGAACAATGTACCAATCCATTCCCTAATGTTGATGAGAGTCTTACGT
* * *
9949831 CTTCATCTTTTCTAGTTTTGCCTTGTAGCAT
66 CTTCATCCTTTCAAATTTTGCCTTGTAGCAT
9949862 AATTTATATC
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (107 bp):
TCTTTCTCTAGTACCTAAAGAACAATGTACCAATCCATTCCCTAATGTTGATGAGAGTCTTACGT
CTTCATCCTTTCAAATTTTGCCTTGTAGCATCCTTTTTTTAG
Found at i:9951719 original size:17 final size:18
Alignment explanation
Indices: 9951697--9951730 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9951687 TGTTGGTCAG
9951697 TTTTGTA-TTTTTCTTTC
1 TTTTGTATTTTTTCTTTC
9951714 TTTTGTATTTTTTCTTT
1 TTTTGTATTTTTTCTTT
9951731 TATTTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTGTATTTTTTCTTTC
Found at i:9956127 original size:28 final size:28
Alignment explanation
Indices: 9956087--9956141 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
9956077 CCTTTCTCAA
*
9956087 AAGATTATGGTCACTCGGTAATGCACCG
1 AAGATTAAGGTCACTCGGTAATGCACCG
9956115 AAGATTAAGGTCACTCGGTAATGCACC
1 AAGATTAAGGTCACTCGGTAATGCACC
9956142 CACGAGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
AAGATTAAGGTCACTCGGTAATGCACCG
Found at i:9978307 original size:22 final size:22
Alignment explanation
Indices: 9978280--9978324 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9978270 TGAGACACTT
*
9978280 TTTCTTCAACCATCTCAAGGCC
1 TTTCTTCAACCAACTCAAGGCC
*
9978302 TTTCTTCATCCAACTCAAGGCC
1 TTTCTTCAACCAACTCAAGGCC
9978324 T
1 T
9978325 AGTGACCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.36, G:0.09, T:0.33
Consensus pattern (22 bp):
TTTCTTCAACCAACTCAAGGCC
Found at i:9993177 original size:33 final size:33
Alignment explanation
Indices: 9993140--9993208 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
9993130 AAATAAGGGA
9993140 TTACACATTAGTACATAGATTACACCCTGATTC
1 TTACACATTAGTACATAGATTACACCCTGATTC
*
9993173 TTACACATTAGTACATTGATTACACCCTGATTC
1 TTACACATTAGTACATAGATTACACCCTGATTC
9993206 TTA
1 TTA
9993209 GGATCCCCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (33 bp):
TTACACATTAGTACATAGATTACACCCTGATTC
Found at i:9994320 original size:18 final size:17
Alignment explanation
Indices: 9994288--9994350 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
9994278 AAATATTCAG
*
9994288 TAAAAA-TAAATAAATTA
1 TAAAAATTAAA-AAATAA
9994305 TAAAAATTAGAAAAATAA
1 TAAAAATTA-AAAAATAA
*
9994323 TAGAAATT-AAAAATAA
1 TAAAAATTAAAAAATAA
9994339 -AATAAATTAAAA
1 TAA-AAATTAAAA
9994351 TAAAATTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.03
16 13 0.33
17 9 0.23
18 14 0.36
19 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAAAATTAAAAAATAA
Found at i:9994336 original size:16 final size:16
Alignment explanation
Indices: 9994315--9994355 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9994305 TAAAAATTAG
*
9994315 AAAAATAATAGAAATT
1 AAAAATAAAAGAAATT
*
9994331 AAAAATAAAATAAATT
1 AAAAATAAAAGAAATT
9994347 -AAAATAAAA
1 AAAAATAAAA
9994356 TTGTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAATAAAAGAAATT
Found at i:9995232 original size:3 final size:3
Alignment explanation
Indices: 9995208--9995271 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
9995198 AAAAAGGAAA
* *
9995208 AAT AA- AAT AA- AA- AAT TAT AAT AAT AAT -AT AAT GAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
9995250 AAT AAT AAT AA- CAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
9995272 CATTAATAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 9 0.18
3 38 0.76
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9995244 original size:27 final size:27
Alignment explanation
Indices: 9995209--9995271 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
9995199 AAAAGGAAAA
* *
9995209 ATAA-AATAAAAAATTATAATAATAAT
1 ATAATAATAAAAAATAATAATAATAAC
* * *
9995235 ATAATGATAATAAGTAATAATAATAAC
1 ATAATAATAAAAAATAATAATAATAAC
9995262 ATAATAATAA
1 ATAATAATAA
9995272 CATTAATAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATAATAAAAAATAATAATAATAAC
Found at i:9995268 original size:24 final size:24
Alignment explanation
Indices: 9995225--9995271 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9995215 TAAAAAATTA
*
9995225 TAATAATAATATAATGATAATAAG
1 TAATAATAATATAATAATAATAAG
9995249 TAATAATAATA-ACATAATAATAA
1 TAATAATAATATA-ATAATAATAA
9995272 CATTAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
TAATAATAATATAATAATAATAAG
Found at i:9995348 original size:35 final size:35
Alignment explanation
Indices: 9995304--9995385 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
9995294 ATACAATAAT
*
9995304 ATAAT-ATACTATACCAT-ATACTATAATAATACTA
1 ATAATAATACTATACCATAATACTATAATAA-AATA
* * *
9995338 ATAGTAATACTATACTATAATACTATACTAAAATA
1 ATAATAATACTATACCATAATACTATAATAAAATA
9995373 ATAATAATA-TATA
1 ATAATAATACTATA
9995386 ACACACTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 8 0.20
35 22 0.54
36 11 0.27
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.35
Consensus pattern (35 bp):
ATAATAATACTATACCATAATACTATAATAAAATA
Found at i:9995360 original size:13 final size:13
Alignment explanation
Indices: 9995309--9995372 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
9995299 ATAATATAAT
*
9995309 ATACTATACCAT-
1 ATACTATACTATA
9995321 ATACTATA--ATA
1 ATACTATACTATA
9995332 ATACTA-A-TAGTA
1 ATACTATACTA-TA
9995344 ATACTATACTATA
1 ATACTATACTATA
*
9995357 ATACTATACTAAA
1 ATACTATACTATA
9995370 ATA
1 ATA
9995373 ATAATAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
10 3 0.07
11 7 0.15
12 16 0.35
13 18 0.39
14 2 0.04
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (13 bp):
ATACTATACTATA
Found at i:9996346 original size:86 final size:86
Alignment explanation
Indices: 9996193--9996403 Score: 250
Period size: 86 Copynumber: 2.5 Consensus size: 86
9996183 ACAAAATTGC
* *
9996193 AAAGA-TTCAAGATTTGCAAAGG--TTTTCAGATTCACAAGAATGGAAGATTCATAAAATCCCAA
1 AAAGATTTC-AGATTTGC-AAGGACTTTT-AGATTCACAAGAAAGAAAGATTCATAAAATCCCAA
* * **
9996255 GTTTCGCAGAGGTTCTGGATTC-G
63 ATTTCGCAAAGGTTCTAAATTCAG
* * *
9996278 TAAAGATTTCAGGTTTGCAAGGACTTTTAGATTCACAAGAAAGAAAGATTCATAAGATTCCAAAT
1 -AAAGATTTCAGATTTGCAAGGACTTTTAGATTCACAAGAAAGAAAGATTCATAAAATCCCAAAT
*
9996343 TTCGTAAAGGTTCTAAATTCAG
65 TTCGCAAAGGTTCTAAATTCAG
* *
9996365 AAAGATTTCAGATTTGCAAGGACTTTCAAATTCACAAGA
1 AAAGATTTCAGATTTGCAAGGACTTTTAGATTCACAAGA
9996404 CTCTAAGTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 4 0.04
86 96 0.89
87 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (86 bp):
AAAGATTTCAGATTTGCAAGGACTTTTAGATTCACAAGAAAGAAAGATTCATAAAATCCCAAATT
TCGCAAAGGTTCTAAATTCAG
Found at i:9996648 original size:18 final size:18
Alignment explanation
Indices: 9996625--9996662 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9996615 ATGGTGACAA
9996625 AATTCTCAAGACTCCACC
1 AATTCTCAAGACTCCACC
9996643 AATTCTCAAGACTCCACC
1 AATTCTCAAGACTCCACC
9996661 AA
1 AA
9996663 GGTCAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.37, G:0.05, T:0.21
Consensus pattern (18 bp):
AATTCTCAAGACTCCACC
Found at i:9996707 original size:183 final size:183
Alignment explanation
Indices: 9996487--9996831 Score: 647
Period size: 183 Copynumber: 1.9 Consensus size: 183
9996477 GCGAATGAGG
9996487 AAAATGATCTGGACTGAGCCAAAATTGAATGAGTGATAAGTGATAATGCAACACTACAAATGCAT
1 AAAATGATCTGGACTGAGCCAAAATTGAATGAGTGATAAGTGATAATGCAACACTACAAATGCAT
*
9996552 GTCCTATCTAGGATTCAAATG-TAAACATAATGTATATAATGCTACTATCATGAAATTTCACTTA
66 GTCCTATCTAGGATTCAAATGAT-AACATAATGTATATAATGCTAATATCATGAAATTTCACTTA
9996616 TGGTGACAAAATTCTCAAGACTCCACCAATTCTCAAGACTCCACCAAGGTCAGA
130 TGGTGACAAAATTCTCAAGACTCCACCAATTCTCAAGACTCCACCAAGGTCAGA
*
9996670 AAAATGATCTGGACTGAGCCAAAATTGAATGAGTGATAAGTGATAATGCGACACTACAAATGCAT
1 AAAATGATCTGGACTGAGCCAAAATTGAATGAGTGATAAGTGATAATGCAACACTACAAATGCAT
*
9996735 GTCCTATCTAGGATTCAAATGATAACATAATGTATATAATGCTAATGTCATGAAATTTCACTTAT
66 GTCCTATCTAGGATTCAAATGATAACATAATGTATATAATGCTAATATCATGAAATTTCACTTAT
9996800 GGTGACAAAATTCTCAAGACTCCACCAATTCT
131 GGTGACAAAATTCTCAAGACTCCACCAATTCT
9996832 TCTTAGCTTT
Statistics
Matches: 158, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 157 0.99
184 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (183 bp):
AAAATGATCTGGACTGAGCCAAAATTGAATGAGTGATAAGTGATAATGCAACACTACAAATGCAT
GTCCTATCTAGGATTCAAATGATAACATAATGTATATAATGCTAATATCATGAAATTTCACTTAT
GGTGACAAAATTCTCAAGACTCCACCAATTCTCAAGACTCCACCAAGGTCAGA
Found at i:10000699 original size:29 final size:29
Alignment explanation
Indices: 10000666--10000733 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
10000656 GACAAAAATA
* **
10000666 TATAAATAATAAATGGATAATTAAGTAAG
1 TATAAACAATAAATGGATAATTAAACAAG
* * *
10000695 TATAAGCCATAAATGTATAATTAAACAAG
1 TATAAACAATAAATGGATAATTAAACAAG
*
10000724 TATAAGCAAT
1 TATAAACAAT
10000734 GAAAAAGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (29 bp):
TATAAACAATAAATGGATAATTAAACAAG
Found at i:10000770 original size:46 final size:46
Alignment explanation
Indices: 10000703--10000794 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
10000693 AGTATAAGCC
*
10000703 ATAAATGTATAATTAAACAAGTATAAGCAATGAAAAAGAATAAAAA
1 ATAAATGAATAATTAAACAAGTATAAGCAATGAAAAAGAATAAAAA
* * *
10000749 ATAAATGAATAATTAAGCAAGTATAGGCAATGAAAAGGAATAAAAA
1 ATAAATGAATAATTAAACAAGTATAAGCAATGAAAAAGAATAAAAA
10000795 TCTCAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.61, C:0.04, G:0.14, T:0.21
Consensus pattern (46 bp):
ATAAATGAATAATTAAACAAGTATAAGCAATGAAAAAGAATAAAAA
Found at i:10001739 original size:18 final size:16
Alignment explanation
Indices: 10001718--10001767 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
10001708 AATAAATTAT
10001718 AGAAATTAGTAAAATAAA
1 AGAAATT-G-AAAATAAA
10001736 AGAAATTGAAAATAAA
1 AGAAATTGAAAATAAA
* *
10001752 ATAAAAT-AAAATAAA
1 AGAAATTGAAAATAAA
10001767 A
1 A
10001768 AATGCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 9 0.30
16 13 0.43
17 1 0.03
18 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (16 bp):
AGAAATTGAAAATAAA
Found at i:10001752 original size:5 final size:5
Alignment explanation
Indices: 10001727--10001790 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
10001717 TAGAAATTAG
* * ** *
10001727 TAAAA TAAAA GAAAT TGAAAA TAAAA TAAAA TAAAA TAAAA -AATG CAAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
10001777 T-AAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
10001791 AAATCCAGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
4 6 0.13
5 37 0.79
6 4 0.09
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:10001789 original size:28 final size:31
Alignment explanation
Indices: 10001727--10001790 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 31
10001717 TAGAAATTAG
10001727 TAAAATAAAAGAAATTGAAAATAAAATAAAA
1 TAAAATAAAAGAAATTGAAAATAAAATAAAA
10001758 TAAAAT-AAA-AAA-TGCAAAAT-AAATAAAA
1 TAAAATAAAAGAAATTG-AAAATAAAATAAAA
10001786 TAAAA
1 TAAAA
10001791 AAATCCAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 15 0.47
29 8 0.25
30 3 0.09
31 6 0.19
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (31 bp):
TAAAATAAAAGAAATTGAAAATAAAATAAAA
Found at i:10001805 original size:24 final size:22
Alignment explanation
Indices: 10001754--10001797 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
10001744 AAAATAAAAT
*
10001754 AAAATAAAATAAAAAATGCAAA
1 AAAATAAAATAAAAAATCCAAA
10001776 ATAAATAAAATAAAAAAATCCA
1 A-AAATAAAAT-AAAAAATCCA
10001798 GAGAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 9 0.47
24 9 0.47
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAATAAAATAAAAAATCCAAA
Found at i:10002236 original size:21 final size:21
Alignment explanation
Indices: 10002210--10002249 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10002200 AATCCCAACT
*
10002210 CCAAAAACCTAAAACTAAACC
1 CCAAAAACCCAAAACTAAACC
*
10002231 CCAAAAACCCAAATCTAAA
1 CCAAAAACCCAAAACTAAA
10002250 TCCAAAATCC
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:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (21 bp):
CCAAAAACCCAAAACTAAACC
Found at i:10002639 original size:3 final size:3
Alignment explanation
Indices: 10002619--10002682 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
10002609 AAAAAGGAAA
*
10002619 AAT AA- AAT AA- AA- AAT AAT AAT AAT AAT -AT AAT GAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
10002661 AAT AAT AAT AAC AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
10002683 CATTAATAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
2 10 0.19
3 40 0.75
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10002658 original size:30 final size:30
Alignment explanation
Indices: 10002624--10002680 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10002614 GGAAAAATAA
* *
10002624 AATAAAAAATAATAATAATAATATAATGAT
1 AATAAAAAATAATAATAACAAAATAATGAT
**
10002654 AATAAGTAATAATAATAACAAAATAAT
1 AATAAAAAATAATAATAACAAAATAAT
10002681 AACATTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (30 bp):
AATAAAAAATAATAATAACAAAATAATGAT
Found at i:10002967 original size:45 final size:45
Alignment explanation
Indices: 10002907--10003015 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
10002897 ATGTGCTCAC
* * * * * * *
10002907 ACCAAGGGCTGGCTTGTGCCGATGGT-GATCGAGGTAGGTGCTTGT
1 ACCAAAGGCTAGCTTGTGCCAATGGTAG-TCAAGGTAGGTACCTAT
*
10002952 ACGAAAGGCTAGCTTGTGCCAATGGTAGTCAAGGTAGGTACCTAT
1 ACCAAAGGCTAGCTTGTGCCAATGGTAGTCAAGGTAGGTACCTAT
*
10002997 ACCAAAGGCCAGCTTGTGC
1 ACCAAAGGCTAGCTTGTGC
10003016 TGAAGATAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (45 bp):
ACCAAAGGCTAGCTTGTGCCAATGGTAGTCAAGGTAGGTACCTAT
Found at i:10010289 original size:45 final size:44
Alignment explanation
Indices: 10010238--10010334 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 44
10010228 ATGTGCCCAC
* * * *
10010238 ACCAAGGCACAACATGTGGCGATGGTGTTCGAGGTAAGTGCCTAT
1 ACCAAGGC-CAACATGTGACGATGGTGTTCAAGGCAACTGCCTAT
* * * *
10010283 AGCAAGGGCCAGCATGTGATGATGTTGTTCAAGGCAACTGCCTAT
1 ACCAA-GGCCAACATGTGACGATGGTGTTCAAGGCAACTGCCTAT
10010328 ACCAAGG
1 ACCAAGG
10010335 GCCATCTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
44 2 0.05
45 37 0.88
46 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (44 bp):
ACCAAGGCCAACATGTGACGATGGTGTTCAAGGCAACTGCCTAT
Found at i:10010433 original size:23 final size:24
Alignment explanation
Indices: 10010407--10010459 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
10010397 TGATCAAGGT
* *
10010407 ATGTGCTC-ATACTAAGGGCCAGC
1 ATGTGCTCTACACTAAGGGCCAAC
*
10010430 ATGTAC-CTACACTAAGGGCCAAC
1 ATGTGCTCTACACTAAGGGCCAAC
*
10010453 ATATGCT
1 ATGTGCT
10010460 GATGGTGGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (24 bp):
ATGTGCTCTACACTAAGGGCCAAC
Found at i:10012769 original size:22 final size:22
Alignment explanation
Indices: 10012744--10012795 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
10012734 AAAGGGCCAA
*
10012744 CATGTGCCGATGCTAGTCAAAG
1 CATGTGCCGATGCTAATCAAAG
** *
10012766 CATGTGTTGATGCTAATCGAAG
1 CATGTGCCGATGCTAATCAAAG
10012788 CATGTGCC
1 CATGTGCC
10012796 AAGACCAAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (22 bp):
CATGTGCCGATGCTAATCAAAG
Found at i:10013643 original size:25 final size:24
Alignment explanation
Indices: 10013602--10013649 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10013592 CTCAATCGAG
*
10013602 TTTGAATCAAGTTTCGAGCCTCAAA
1 TTTGAATCAAGTCTCGAG-CTCAAA
10013627 TTTGAAATCAAG-CTCGAGCTCAA
1 TTTG-AATCAAGTCTCGAGCTCAA
10013650 GCTTAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
TTTGAATCAAGTCTCGAGCTCAAA
Done.