Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 51 of 113
Found at i:13302568 original size:26 final size:27
Alignment explanation
Indices: 13302539--13302595 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
13302529 AAATATTTTT
*
13302539 TTGAAAATTTTTA-TTTTCAACAAAAA
1 TTGAAAATTTTAATTTTTCAACAAAAA
* * **
13302565 TTGATACTTTTAATTTTTCCTCAAAAA
1 TTGAAAATTTTAATTTTTCAACAAAAA
13302592 TTGA
1 TTGA
13302596 TTTTTGGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (27 bp):
TTGAAAATTTTAATTTTTCAACAAAAA
Found at i:13302708 original size:119 final size:117
Alignment explanation
Indices: 13302442--13302958 Score: 570
Period size: 119 Copynumber: 4.4 Consensus size: 117
13302432 CTTGTGCAGG
* * * *
13302442 GAAAATTAATACTTTCAATTTTTTTTCAAAAA-TATTCTTTTGAAATTTTAATTTCGAAG-AAAA
1 GAAAATTGATACTTTTAATTTTTCTTCAAAAATTATT-TTTTGAAATTTTATTTTC-AAGAAAAA
* * * *
13302505 TTGATACTTTCAACTTTTTTTTAAAAATATTTTTTTGAAAATTTTTATTTTCAACA
64 TTGATACTTTCAAC-TTTTCTCAAAAATATTTTTTTGAAAACTTTGATTTTCAA-A
* * * *
13302561 -AAAATTGATACTTTTAATTTTTCCTCAAAAATTGATTTTTGGAAACTTTGATTTTCAAGGAAAA
1 GAAAATTGATACTTTTAATTTTTCTTCAAAAATT-ATTTTTTGAAA-TTTTATTTTCAAGAAAAA
* * *
13302625 TTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTG-AAA-TTTTATTTTTAAA
64 TTGATACTTTCAACTTTT-CTC-AAAAATATTTTTTTGAAAACTTTGATTTTCAAA
*
13302679 GAAAATTGATACTTTTAATTTTTCTTCAAAAACTTTCTTTTTTTTGAAATTTT-TTTT-AAGAAA
1 GAAAATTGATACTTTTAATTTTTCTTCAAAAA---T-TATTTTTTGAAATTTTATTTTCAAGAAA
* *
13302742 AATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAAACTTTGATTTTCGAG
62 AATTGATACTTTCAACTTTTC-TCAAAAATATTTTTTTGAAAACTTTGATTTTCAAA
** * *
13302799 GAAAATTGATA-TTTTCAACCTTTCTTCAAAAAAT-TTTTTTGAAATTTTATTTTTAAGAAAAAT
1 GAAAATTGATACTTTT-AATTTTTCTTCAAAAATTATTTTTTGAAATTTTATTTTCAAGAAAAAT
*
13302862 TGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAACTTTGATTTTC-AA
65 TGATACTTTCAACTTTTCT-CAAAAATATTTTTTTGAAAACTTTGATTTTCAAA
*
13302915 GAAAAATTGATACTTTCAACTTTTTCCTT-AAAAATTGATTTTTT
1 G-AAAATTGATACTTTTAA-TTTTT-CTTCAAAAATT-ATTTTTT
13302959 TTTAAATTTA
Statistics
Matches: 344, Mismatches: 30, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
115 14 0.04
116 8 0.02
117 69 0.20
118 55 0.16
119 93 0.27
120 77 0.22
121 17 0.05
122 10 0.03
123 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (117 bp):
GAAAATTGATACTTTTAATTTTTCTTCAAAAATTATTTTTTGAAATTTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCTCAAAAATATTTTTTTGAAAACTTTGATTTTCAAA
Found at i:13302745 original size:179 final size:174
Alignment explanation
Indices: 13302441--13302957 Score: 612
Period size: 179 Copynumber: 2.9 Consensus size: 174
13302431 TCTTGTGCAG
* * * * **
13302441 GGAAAATTAATACTTTCAATTTTTTTTC-AAAAATATTCTTTTGAAATTTTAATTTCGAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCTTCAAAAAAT-TTTTTTTGAAATTTT-ATTTTTAAGAAAA
* * * *
13302505 TTGATACTTTCAACTTTTT-TTTAAAAATATTTTTTTGAAAATTTTTATTTTCAACAAAAATTGA
64 TTGATACTTTCAA-TTTTTCTTCAAAAATTTTTTTTTG-AAACTTTT-TTTT-AAGAAAAATTGA
* *
13302569 TACTTTTAATTTTTCCTCAAAAATTGATTTTTGGAAACTTTGATTTTCAA
125 TACTTTCAATTTTTCCTCAAAAATTGATTTTTGAAAACTTTGATTTTCAA
*
13302619 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAATTTTATTTTTAAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCTTCAAAAAA-TTTTTTTTGAAATTTTATTTTT-AAGAAAA
*
13302684 TTGATACTTTTAATTTTTCTTCAAAAACTTTCTTTTTTTTGAAA-TTTTTTTTAAGAAAAATTGA
64 TTGATACTTTCAATTTTTCTTCAAAAA---T-TTTTTTTTGAAACTTTTTTTTAAGAAAAATTGA
* * * *
13302748 TACTTTCAACTTTTCTTCAAAAATAT-TTTTTTGAAAACTTTGATTTTCGA
125 TACTTTCAATTTTTCCTCAAAAAT-TGATTTTTGAAAACTTTGATTTTCAA
* *
13302798 GGAAAATTGATATTTTCAACCTTTCTTCAAAAAA-TTTTTTTGAAATTTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCTTCAAAAAATTTTTTTTGAAATTTTATTTTTAAG-AAAAT
* * * *
13302862 TGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATA
65 TGATACTTTCAATTTTTCTTCAAAAAT-TTTTTTTTGAAACTTT--TTTTTAAGAAAAATTGATA
*
13302927 CTTTCAACTTTTTCCTTAAAAATTGATTTTT
127 CTTTCAA-TTTTTCCTCAAAAATTGATTTTT
13302958 TTTTAAATTT
Statistics
Matches: 294, Mismatches: 30, Indels: 30
0.83 0.08 0.08
Matches are distributed among these distances:
174 12 0.04
175 3 0.01
176 3 0.01
177 75 0.26
178 50 0.17
179 129 0.44
180 6 0.02
181 4 0.01
182 4 0.01
183 8 0.03
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCTTCAAAAAATTTTTTTTGAAATTTTATTTTTAAGAAAATT
GATACTTTCAATTTTTCTTCAAAAATTTTTTTTTGAAACTTTTTTTTAAGAAAAATTGATACTTT
CAATTTTTCCTCAAAAATTGATTTTTGAAAACTTTGATTTTCAA
Found at i:13303030 original size:18 final size:18
Alignment explanation
Indices: 13302989--13303054 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
13302979 TTTTATTTAA
* *
13302989 AAAAATAAAATAATAAAAT
1 AAAAGTAAAATCA-AAAAT
* *
13303008 GAAAGTGAAAATTAAAAA-
1 AAAAGT-AAAATCAAAAAT
*
13303026 AAAAGTAAAAACAAAAAT
1 AAAAGTAAAATCAAAAAT
13303044 AAAAGTAAAAT
1 AAAAGTAAAAT
13303055 AAAGATGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.24
18 15 0.39
19 8 0.21
20 6 0.16
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (18 bp):
AAAAGTAAAATCAAAAAT
Found at i:13303641 original size:10 final size:10
Alignment explanation
Indices: 13303626--13303650 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13303616 ATTTCCAAAA
13303626 AAAAATCTTC
1 AAAAATCTTC
13303636 AAAAATCTTC
1 AAAAATCTTC
13303646 AAAAA
1 AAAAA
13303651 ATTTTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATCTTC
Found at i:13303969 original size:21 final size:21
Alignment explanation
Indices: 13303900--13304010 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 21
13303890 GATTTTCATC
* *
13303900 CAGATAAATAAAAAAAAATAA
1 CAGATAAATCAAAAAAATTAA
* * *
13303921 -AAAAAAATCAAACGAAAATAAA
1 CAGATAAATCAAA--AAAATTAA
*
13303943 TAAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATTAA
*
13303965 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAATCAAAA--AAATTAA
* *
13303987 CAGAT-AATACATAAACATTAA
1 CAGATAAAT-CAAAAAAATTAA
13304008 CAG
1 CAG
13304011 GAAAAAAAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
20 11 0.16
21 21 0.30
22 24 0.35
23 3 0.04
24 10 0.14
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATTAA
Found at i:13306949 original size:249 final size:248
Alignment explanation
Indices: 13306483--13307099 Score: 769
Period size: 249 Copynumber: 2.5 Consensus size: 248
13306473 AAAAGGAAGG
* * * *
13306483 AAAAAGTTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTAATTTTCGTATTTG-GAATAA
1 AAAAA-TTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCATATTTGAAAAAAA
* * * * *
13306547 TAATGTTGTGTATACACTTCATTTCATTTACAACATTTTTGAATGGTAGTGTCAATTTTGTAAAA
65 TAAAGTTGTATATACACTTCATTTCATGTACAA-ATATTTGAATGGTAGTGTCAATTTCGTAAAA
* * *
13306612 ATTTGATATTAAATGTTATTGTAGCTTTTGTTTTTTATTATTTTTTATATTTGAAACTAATAAAG
129 ATTTGATATTAAATGTTATTGTAGCTTTTGTTTTTTATAATTTTTCACATTTGAAACTAATAAAG
* * * * * *
13306677 TTGTACATACATTTCATTTCATGTACAAATGTTTGAATAGTAGTGTCAGTTTCAT
194 TTATACATAAACTTCATTTCATGTACAAATATTTGAATAGTAATGTCAATTTCAT
* * *
13306732 AAAAATTTTGATTTTGACTG-TATTGTACCTTTTGTATTTCATTATTTTTCATATTTGAAAAAAA
1 AAAAA-TTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCATATTTGAAAAAAA
* * *
13306796 TAAAGTTATACATACACTTCATTTCATGTATAAATATTTGAATGGTAGTGTCAATTTCGTAAAAA
65 TAAAGTTGTATATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCGTAAAAA
* * * * *
13306861 TTTTGATTTTGAATGTTATTTTATCTTTT-TTATTTTATAATTTTTCGCATTTAGAAA-TAATAA
130 -TTTGATATTAAATGTTATTGTAGCTTTTGTT-TTTTATAATTTTTCACATTT-GAAACTAATAA
* *
13306924 GAG-TATACATAAACTTCATTTCATGTACAAATATTTGACTGGTAATGTCAATTTCAT
192 -AGTTATACATAAACTTCATTTCATGTACAAATATTTGAATAGTAATGTCAATTTCAT
*
13306981 AAAAATTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCACATTT-AAAAATAA
1 AAAAATTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCATATTTGAAAAA-AA
* * * * * *
13307045 TAAGGTTGTATATAAATTTCATTTCATGCACAAATGTCTTGAATGGTAATGTCAA
65 TAAAGTTGTATATACACTTCATTTCATGTACAAATAT-TTGAATGGTAGTGTCAA
13307100 ATTCATTAAA
Statistics
Matches: 315, Mismatches: 45, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
248 83 0.26
249 210 0.67
250 22 0.07
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (248 bp):
AAAAATTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCATATTTGAAAAAAAT
AAAGTTGTATATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCGTAAAAAT
TTGATATTAAATGTTATTGTAGCTTTTGTTTTTTATAATTTTTCACATTTGAAACTAATAAAGTT
ATACATAAACTTCATTTCATGTACAAATATTTGAATAGTAATGTCAATTTCAT
Found at i:13307111 original size:124 final size:124
Alignment explanation
Indices: 13306483--13307113 Score: 691
Period size: 124 Copynumber: 5.1 Consensus size: 124
13306473 AAAAGGAAGG
* * * **
13306483 AAAAAGTTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTAATTTTCGTATTT-GGAATAA
1 AAAAA-TTTGATTTTGAATGTTATTGTACTTTTTGTATTTCATTATTTTTCATATTTAAAAATAA
* ** * * **
13306547 TAATGTTGTGTATACACTTCATTTCATTTACAACATTTTTGAATGGTAGTGTCAATTTTGT
65 TAAAGTTGTACATACACTTCATTTCATGTACAA-ATATTTGAATGGTAGTGTCAATTTCAT
* * * * * * *
13306608 AAAAATTTGATATTAAATGTTATTGTAGC-TTTTGTTTTTTATTATTTTTTATATTTGAAACTAA
1 AAAAATTTGATTTTGAATGTTATTGTA-CTTTTTGTATTTCATTATTTTTCATATTTAAAAATAA
* * * *
13306672 TAAAGTTGTACATACATTTCATTTCATGTACAAATGTTTGAATAGTAGTGTCAGTTTCAT
65 TAAAGTTGTACATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCAT
* *
13306732 AAAAATTTTGATTTTGACTG-TATTGTACCTTTTGTATTTCATTATTTTTCATATTTGAAAAA-A
1 AAAAA-TTTGATTTTGAATGTTATTGTACTTTTTGTATTTCATTATTTTTCATATTT-AAAAATA
* * *
13306795 ATAAAGTTATACATACACTTCATTTCATGTATAAATATTTGAATGGTAGTGTCAATTTCGT
64 ATAAAGTTGTACATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCAT
* * * ** *
13306856 AAAAATTTTGATTTTGAATGTTATTTTATCTTTTT-TATTTTATAATTTTTCGCATTTAGAAATA
1 AAAAA-TTTGATTTTGAATGTTATTGTA-CTTTTTGTATTTCATTATTTTTCATATTTAAAAATA
* * * *
13306920 ATAAGAG-TATACATAAACTTCATTTCATGTACAAATATTTGACTGGTAATGTCAATTTCAT
64 ATAA-AGTTGTACATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCAT
* *
13306981 AAAAATTTGATTTTGAATGTTATTGTACTTTTTGCATTTCATTATTTTTCACATTTAAAAATAAT
1 AAAAATTTGATTTTGAATGTTATTGTACTTTTTGTATTTCATTATTTTTCATATTTAAAAATAAT
* * * * * * * *
13307046 AAGGTTGTATATAAATTTCATTTCATGCACAAATGTCTTGAATGGTAATGTCAAATTCAT
66 AAAGTTGTACATACACTTCATTTCATGTACAAATAT-TTGAATGGTAGTGTCAATTTCAT
*
13307106 -TAAATTTG
1 AAAAATTTG
13307114 CATAGTGCAT
Statistics
Matches: 430, Mismatches: 64, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
123 8 0.02
124 259 0.60
125 156 0.36
126 7 0.02
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (124 bp):
AAAAATTTGATTTTGAATGTTATTGTACTTTTTGTATTTCATTATTTTTCATATTTAAAAATAAT
AAAGTTGTACATACACTTCATTTCATGTACAAATATTTGAATGGTAGTGTCAATTTCAT
Found at i:13307212 original size:22 final size:22
Alignment explanation
Indices: 13307187--13307228 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13307177 TTCATATACG
* *
13307187 TATATTTCATTACTTATGCATT
1 TATATCTCATTACTCATGCATT
*
13307209 TATATCTCATTGCTCATGCA
1 TATATCTCATTACTCATGCA
13307229 GCATGTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (22 bp):
TATATCTCATTACTCATGCATT
Found at i:13308225 original size:26 final size:25
Alignment explanation
Indices: 13308196--13308254 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 25
13308186 TAGATGTGCT
13308196 AATAAAA-GTAAAGAAAAAAAGTAAAA
1 AATAAAAGGT-AAGAAAAAAAG-AAAA
13308222 AATAAAAAGGTAAGAAAAAAAGAAAA
1 AAT-AAAAGGTAAGAAAAAAAGAAAA
13308248 AATAAAA
1 AATAAAA
13308255 AAGACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.13
26 10 0.32
27 15 0.48
28 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (25 bp):
AATAAAAGGTAAGAAAAAAAGAAAA
Found at i:13308256 original size:15 final size:15
Alignment explanation
Indices: 13308237--13308265 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13308227 AAAGGTAAGA
13308237 AAAAAAGA-AAAAAT
1 AAAAAAGACAAAAAT
13308251 AAAAAAGACAAAAAT
1 AAAAAAGACAAAAAT
13308266 TATTAAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAGACAAAAAT
Found at i:13310642 original size:32 final size:32
Alignment explanation
Indices: 13310606--13310698 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
13310596 GTTTAGCAAA
*
13310606 CACCAATTAGATTTCAAGCCCAATTTAGTTAG
1 CACCAATAAGATTTCAAGCCCAATTTAGTTAG
** * * *
13310638 CACCAATAAGATTTTTAGTCCAGTTTAGTTGG
1 CACCAATAAGATTTCAAGCCCAATTTAGTTAG
* *
13310670 CACAAATCAGATTTCAAGCCCAA-TTAGTT
1 CACCAATAAGATTTCAAGCCCAATTTAGTT
13310699 GGCAACAAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 6 0.12
32 43 0.88
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (32 bp):
CACCAATAAGATTTCAAGCCCAATTTAGTTAG
Found at i:13311767 original size:126 final size:126
Alignment explanation
Indices: 13311535--13311861 Score: 381
Period size: 126 Copynumber: 2.6 Consensus size: 126
13311525 CTTCCTGTAA
* * * ** * * * * *
13311535 AATATTTTAAATTTTTAAAGTTTTAAGGCCTCTAATAAGATGAGTATTTATAGATATTGAGATTT
1 AATATTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGTATTCATAGATGTTAAGATTT
* * * * * **
13311600 GTAAAACCTCCGAGCATTATCTCTTAATCATTTGGGCAAGATTTGTAAGC-CTTCTAGGCAT
66 TTAAGACCTCCAAGCATAATCTCTAAATCATTCAGGCAAGATTTGTAAGCTCTT-TAGGCAT
* *
13311661 AATATTTCAAAATTTTAAAGTTTCAATGCCTCTTTTTAGAGGAGTATTCATAGATGTTAAGATTT
1 AATATTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGTATTCATAGATGTTAAGATTT
* * * *
13311726 TTAAGACTTTCAAGTATAATCTCTAAATCATTCAGGTAAGATTTGTAAGCTCTTTAGGCAT
66 TTAAGACCTCCAAGCATAATCTCTAAATCATTCAGGCAAGATTTGTAAGCTCTTTAGGCAT
* * *
13311787 AATATTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTATAGGAGCATTCGTAGATGTTGAA-A-T
1 AATATTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGTATTCATAGATGTT-AAGATT
13311850 TTTAAGACCTCC
65 TTTAAGACCTCC
13311862 GAAAATAGTC
Statistics
Matches: 170, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
125 11 0.06
126 154 0.91
127 5 0.03
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (126 bp):
AATATTTTAAAATTTTAAAGTTTCAAAGCCTCTTTTTAGAGGAGTATTCATAGATGTTAAGATTT
TTAAGACCTCCAAGCATAATCTCTAAATCATTCAGGCAAGATTTGTAAGCTCTTTAGGCAT
Found at i:13313689 original size:29 final size:28
Alignment explanation
Indices: 13313636--13313696 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
13313626 TCCTTATAGG
* * *
13313636 AAAGCCACAAACAGAAAAATTAAAACAA
1 AAAGCAACAAACAGAAAAATAAAAAAAA
13313664 AAAGCAACACAACAAGAAAAA-AAAAAAAA
1 AAAGCAACA-AAC-AGAAAAATAAAAAAAA
13313693 AAAG
1 AAAG
13313697 AGGCAGCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.29
29 13 0.46
30 7 0.25
ACGTcount: A:0.74, C:0.15, G:0.08, T:0.03
Consensus pattern (28 bp):
AAAGCAACAAACAGAAAAATAAAAAAAA
Found at i:13314853 original size:14 final size:14
Alignment explanation
Indices: 13314821--13314863 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
13314811 TCTAAAAAGG
*
13314821 GATAAATAATTAATA
1 GATAAATAAATAA-A
13314836 -ATAAATAAATAAA
1 GATAAATAAATAAA
13314849 GATAAAATAAATAAA
1 GAT-AAATAAATAAA
13314864 ATATAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 13 0.52
15 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (14 bp):
GATAAATAAATAAA
Found at i:13319471 original size:4 final size:4
Alignment explanation
Indices: 13319455--13319488 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
13319445 ATCTCTTCAT
13319455 ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13319489 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:13320268 original size:22 final size:21
Alignment explanation
Indices: 13320243--13320306 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
13320233 AATATTTTAA
13320243 TATATTTATATATTATTATATT
1 TATA-TTATATATTATTATATT
* *
13320265 TATAATTGTAAATT-TTAT-TT
1 TAT-ATTATATATTATTATATT
*
13320285 T-TATTATATATTTATTTTATT
1 TATATTATATA-TTATTATATT
13320306 T
1 T
13320307 TTAATATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 6 0.18
21 7 0.21
22 10 0.30
23 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TATATTATATATTATTATATT
Found at i:13320309 original size:11 final size:11
Alignment explanation
Indices: 13320276--13320309 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13320266 ATAATTGTAA
13320276 ATTTTATTTTT
1 ATTTTATTTTT
* *
13320287 ATTATATATTT
1 ATTTTATTTTT
13320298 ATTTTATTTTT
1 ATTTTATTTTT
13320309 A
1 A
13320310 ATATTAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:13320323 original size:22 final size:22
Alignment explanation
Indices: 13320273--13320323 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13320263 TTTATAATTG
*
13320273 TAAATTTTATTTTTATTATATA
1 TAAATTTTATTTTTAATATATA
**
13320295 TTTATTTTATTTTTAATAT-TAA
1 TAAATTTTATTTTTAATATAT-A
13320317 TAAATTT
1 TAAATTT
13320324 GATATATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TAAATTTTATTTTTAATATATA
Found at i:13321691 original size:17 final size:16
Alignment explanation
Indices: 13321646--13321691 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
13321636 TTTTATTATT
*
13321646 TTTTTTATAATTTTAA
1 TTTTTTATTATTTTAA
13321662 TTTTTTAACTTATTTTAA
1 TTTTTT-A-TTATTTTAA
13321680 TTTTTATATTAT
1 TTTTT-TATTAT
13321692 CTAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 14 0.54
19 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATTATTTTAA
Found at i:13323038 original size:279 final size:280
Alignment explanation
Indices: 13322476--13323039 Score: 916
Period size: 279 Copynumber: 2.0 Consensus size: 280
13322466 ATAATTGATC
13322476 AAAACACCTAAACAAAATATGAAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAA
1 AAAACACCTAAACAAAATATG-AAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAA
*
13322541 TTGATATAAATATTAGTTTTTTATAAAAATAAAATAATAAAACTAATAGCATACCTTTCATAGAA
65 TTGATATAAATATTAGTTTTTTATAAAAATAAAATAATAAAACTAATAGCATACCTTTCAAAGAA
* * *
13322606 AAGTTGTAAACTGAAAAACTAATAATGGTGTAACACACACTATTTATAGATTTATTGCATGACAA
130 AAGTTGTAAACTGAAAAAATAATAATGGCGCAACACACACTATTTATAGATTTATTGCATGACAA
* * *
13322671 TTAGAGTGTATAGATAATTTTTAAATTGATAAATATATTTTGAATTTAAAAAATATAATAAGTAA
195 TTAAAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTAAAAAATATAATAAGTAA
*
13322736 TATTTATCTTTTTAAATTTTA
260 TATTTATCTTCTTAAATTTTA
* * * *
13322757 AAAACTCCTAAACAAAATATG-AAAGAAAAAGAATTAGTAAATGTATGTTGAAAGAAAAATGAAT
1 AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAAT
* * *
13322821 TGATATAAATATTAGTTTTTTATAAAAATAAAATCATAAAAGTAATAGTATACCTTTCAAAGAAA
66 TGATATAAATATTAGTTTTTTATAAAAATAAAATAATAAAACTAATAGCATACCTTTCAAAGAAA
* * * *
13322886 AGTTGTAAATTGAAAAAATAATAATGGCGCAATACACCCTATTTGTAGATTTATTGCATGACAAT
131 AGTTGTAAACTGAAAAAATAATAATGGCGCAACACACACTATTTATAGATTTATTGCATGACAAT
*
13322951 TAAAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTTAAAAAATATAATAAGTGA
196 TAAAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAA-TTTAAAAAATATAATAAGTAA
13323016 TATTTATCTTCTTAAA-TTTA
260 TATTTATCTTCTTAAATTTTA
13323036 AAAA
1 AAAA
13323040 TATTTAAAAA
Statistics
Matches: 262, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
279 207 0.79
280 35 0.13
281 20 0.08
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (280 bp):
AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAAT
TGATATAAATATTAGTTTTTTATAAAAATAAAATAATAAAACTAATAGCATACCTTTCAAAGAAA
AGTTGTAAACTGAAAAAATAATAATGGCGCAACACACACTATTTATAGATTTATTGCATGACAAT
TAAAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTAAAAAATATAATAAGTAAT
ATTTATCTTCTTAAATTTTA
Found at i:13324510 original size:21 final size:21
Alignment explanation
Indices: 13324459--13324521 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
13324449 AAGATTCAGA
*
13324459 TTTT-AGGATTTT-GGGTTAAG
1 TTTTAAGG-TTTTAGGGTTTAG
*
13324479 TTTTGAGGGTTTTAGGGTTTAG
1 TTTT-AAGGTTTTAGGGTTTAG
*
13324501 TTTTAAGGTTTAGAGGGTTTA
1 TTTTAAGGTTT-TAGGGTTTA
13324522 AAGGCTTGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 10 0.29
22 21 0.60
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
TTTTAAGGTTTTAGGGTTTAG
Found at i:13324566 original size:30 final size:30
Alignment explanation
Indices: 13324530--13324596 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13324520 TAAAGGCTTG
*
13324530 GATTTTAGGGTATGGA-AGGTTTAGAATTTT
1 GATTTTAGAGTATGGAGA-GTTTAGAATTTT
* * *
13324560 GATTTTAGAGTTTGGAGATTTTAGGATTTT
1 GATTTTAGAGTATGGAGAGTTTAGAATTTT
13324590 GATTTTA
1 GATTTTA
13324597 AAATTTGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (30 bp):
GATTTTAGAGTATGGAGAGTTTAGAATTTT
Found at i:13324568 original size:14 final size:14
Alignment explanation
Indices: 13324549--13324647 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
13324539 GTATGGAAGG
13324549 TTTAGAATTTTGAT
1 TTTAGAATTTTGAT
* *
13324563 TTTAGAGTTTGGAGAT
1 TTTAGAATTT--TGAT
*
13324579 TTTAGGATTTTGAT
1 TTTAGAATTTTGAT
* *
13324593 TTTA-AAATTTGAGG
1 TTTAGAATTTTGA-T
* **
13324607 TTTGGGGTTTTGAT
1 TTTAGAATTTTGAT
* **
13324621 TTAAGGGTTTTGAT
1 TTTAGAATTTTGAT
13324635 TTTAGGAATTTTG
1 TTTA-GAATTTTG
13324648 GGTTTTGGGG
Statistics
Matches: 62, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
13 6 0.10
14 34 0.55
15 11 0.18
16 11 0.18
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (14 bp):
TTTAGAATTTTGAT
Found at i:13325101 original size:5 final size:6
Alignment explanation
Indices: 13325084--13325108 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13325074 TTTATCATGC
13325084 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
13325109 AATTACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:13327070 original size:18 final size:17
Alignment explanation
Indices: 13327044--13327077 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13327034 AAGATTCAAA
13327044 ATTTGATTTTATAAAAAG
1 ATTTGATTTT-TAAAAAG
*
13327062 ATTTTATTTTTAAAAA
1 ATTTGATTTTTAAAAA
13327078 TATCTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTGATTTTTAAAAAG
Found at i:13327507 original size:4 final size:4
Alignment explanation
Indices: 13327471--13327561 Score: 64
Period size: 4 Copynumber: 22.8 Consensus size: 4
13327461 AAATATTTAC
* *
13327471 AAAT ATAT AAAT ACAT AAAT -AAT CAAAT AAAAT AAAT -AA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT
* * * *
13327518 AAAAT ATAC AAAT AAAT AAA- AAAT AAAA AACAT AAAA AAAT AAA
1 -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAA
13327562 AATAAAAATA
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
3 10 0.15
4 43 0.64
5 14 0.21
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:13327507 original size:17 final size:16
Alignment explanation
Indices: 13327479--13327537 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
13327469 ACAAATATAT
*
13327479 AAATACATAAATAATC
1 AAATAAATAAATAATC
13327495 AAATAAAATAAATAA--
1 AAAT-AAATAAATAATC
13327510 AAATAAATAAA-ATATAC
1 AAATAAATAAATA-AT-C
13327527 AAATAAATAAA
1 AAATAAATAAA
13327538 AAATAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 1 0.03
14 8 0.22
15 4 0.11
16 4 0.11
17 20 0.54
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAAATAATC
Found at i:13327509 original size:9 final size:9
Alignment explanation
Indices: 13327495--13327567 Score: 68
Period size: 9 Copynumber: 8.3 Consensus size: 9
13327485 ATAAATAATC
13327495 AAATAAAAT
1 AAATAAAAT
13327504 AAATAAAAAT
1 AAAT-AAAAT
13327514 AAATAAAAT
1 AAATAAAAT
13327523 --ATACAAAT
1 AAATA-AAAT
13327531 AAAT-AAA-
1 AAATAAAAT
13327538 AAATAAAA-
1 AAATAAAAT
13327546 AACATAAAA-
1 AA-ATAAAAT
13327555 AAATAAAAAT
1 AAAT-AAAAT
13327565 AAA
1 AAA
13327568 AATATACAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.12
8 14 0.25
9 21 0.38
10 14 0.25
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:13327530 original size:23 final size:23
Alignment explanation
Indices: 13327504--13327583 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
13327494 CAAATAAAAT
13327504 AAATAAAAATAAATAAAATATAC
1 AAATAAAAATAAATAAAATATAC
*
13327527 AAATAAATAAAAAATAAAA-A-AC
1 AAATAAA-AATAAATAAAATATAC
13327549 ATAA-AAAAATAAAAATAAAAATATAC
1 A-AATAAAAAT--AAAT-AAAATATAC
*
13327575 AAAAAAAAA
1 AAATAAAAA
13327584 GCTCAGCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.04
22 6 0.13
23 14 0.30
24 14 0.30
25 3 0.06
26 8 0.17
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (23 bp):
AAATAAAAATAAATAAAATATAC
Found at i:13327531 original size:48 final size:48
Alignment explanation
Indices: 13327471--13327577 Score: 130
Period size: 48 Copynumber: 2.2 Consensus size: 48
13327461 AAATATTTAC
* * * *
13327471 AAATATATAAATACATAAATAATCAAATAAA-ATAAATAAAA-ATAAAT-A
1 AAATATACAAATAAATAAAAAAT-AAA-AAACATAAA-AAAATAAAAATAA
13327519 AAATATACAAATAAATAAAAAATAAAAAACATAAAAAAATAAAAATAA
1 AAATATACAAATAAATAAAAAATAAAAAACATAAAAAAATAAAAATAA
13327567 AAATATACAAA
1 AAATATACAAA
13327578 AAAAAAGCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
46 7 0.13
47 13 0.25
48 32 0.62
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.21
Consensus pattern (48 bp):
AAATATACAAATAAATAAAAAATAAAAAACATAAAAAAATAAAAATAA
Found at i:13327558 original size:28 final size:28
Alignment explanation
Indices: 13327499--13327571 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
13327489 ATAATCAAAT
*
13327499 AAAATAAAT-AAAAATAAATAAAATATA
1 AAAATAAATAAAAAATAAATAAAATAAA
*
13327526 CAAATAAATAAAAAATAAA-AAACATAAA
1 AAAATAAATAAAAAATAAATAAA-ATAAA
*
13327554 AAAATAAAAATAAAAATA
1 AAAATAAATA-AAAAATA
13327572 TACAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 11 0.28
28 21 0.54
29 7 0.18
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (28 bp):
AAAATAAATAAAAAATAAATAAAATAAA
Found at i:13327578 original size:24 final size:24
Alignment explanation
Indices: 13327499--13327581 Score: 87
Period size: 24 Copynumber: 3.3 Consensus size: 24
13327489 ATAATCAAAT
13327499 AAAATAAATAAAAATAAATAAAATATAC
1 AAAA-AAATAAAAAT--A-AAAATATAC
* * *
13327527 AAATAAATAAAAAATAAAAA-ACAT
1 AAAAAAAT-AAAAATAAAAATATAC
13327551 AAAAAAATAAAAATAAAAATATAC
1 AAAAAAATAAAAATAAAAATATAC
13327575 AAAAAAA
1 AAAAAAA
13327582 AAGCTCAGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 11 0.23
24 18 0.38
25 4 0.09
26 1 0.02
27 4 0.09
28 9 0.19
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAAAATAAAAATAAAAATATAC
Found at i:13327579 original size:17 final size:15
Alignment explanation
Indices: 13327485--13327580 Score: 70
Period size: 17 Copynumber: 6.1 Consensus size: 15
13327475 ATATAAATAC
*
13327485 ATAAATAATCAAATAAA
1 ATAAAAAAT-AAA-AAA
* *
13327502 ATAAATAA-AAATAA
1 ATAAAAAATAAAAAA
*
13327516 ATAAAATATACAAATAA
1 ATAAAAAATA-AAA-AA
13327533 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
*
13327548 CATAAAAAA-ATAAAA
1 -ATAAAAAATAAAAAA
13327563 ATAAAAATATACAAAAA
1 ATAAAAA-ATA-AAAAA
13327580 A
1 A
13327581 AAAGCTCAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.23
15 12 0.18
16 14 0.22
17 24 0.37
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Found at i:13327582 original size:14 final size:12
Alignment explanation
Indices: 13327499--13327583 Score: 53
Period size: 14 Copynumber: 6.3 Consensus size: 12
13327489 ATAATCAAAT
13327499 AAAATAAATAAAA
1 AAAATAAA-AAAA
*
13327512 ATAAATAAAATATA
1 A-AAATAAAA-AAA
*
13327526 CAAATAAATAAAA
1 AAAATAAA-AAAA
*
13327539 AATAAAAAACATAAA
1 AA-AATAAA-A-AAA
13327554 AAAATAAAAATAA
1 AAAATAAAAA-AA
*
13327567 AAATATACAAAAA
1 AAA-ATAAAAAAA
13327580 AAAA
1 AAAA
13327584 GCTCAGCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
12 2 0.04
13 23 0.40
14 27 0.47
15 5 0.09
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:13328623 original size:2 final size:2
Alignment explanation
Indices: 13328611--13328646 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13328601 TTAACCCAAC
*
13328611 AT AT AT CT 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
13328647 GCAGATAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13329070 original size:4 final size:4
Alignment explanation
Indices: 13329063--13329091 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13329053 GTGAGTGGTG
13329063 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
13329092 ATGCGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:13330099 original size:19 final size:19
Alignment explanation
Indices: 13330077--13330114 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13330067 CTATATATTT
13330077 ATATTGGATATATAGTTAC
1 ATATTGGATATATAGTTAC
13330096 ATATTGGATATATAGTTAC
1 ATATTGGATATATAGTTAC
13330115 GAAACTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
ATATTGGATATATAGTTAC
Found at i:13332039 original size:32 final size:31
Alignment explanation
Indices: 13331974--13332044 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
13331964 TTGTTTATGA
13331974 GTTTCTTGATTTTATAGTACAAAAAGAAGTGG
1 GTTT-TTGATTTTATAGTACAAAAAGAAGTGG
* * *
13332006 GTCTTTTGATTTTCTAGTGCAAAGA-AAGATGG
1 GT-TTTTGATTTTATAGTACAAAAAGAAG-TGG
13332038 GTTTTTG
1 GTTTTTG
13332045 GTTCAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 8 0.24
32 24 0.71
33 2 0.06
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (31 bp):
GTTTTTGATTTTATAGTACAAAAAGAAGTGG
Found at i:13336480 original size:32 final size:32
Alignment explanation
Indices: 13336418--13336480 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
13336408 TGCTTAATGT
*
13336418 ATAAAATTATGATAAAATTAGAATCCAATAAA
1 ATAAAATTATGATAAAATTAGAATCAAATAAA
* * *
13336450 ATAATATTATGAATAATATTAG-ATTAAATAA
1 ATAAAATTATG-ATAAAATTAGAATCAAATAA
13336481 TATTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (32 bp):
ATAAAATTATGATAAAATTAGAATCAAATAAA
Found at i:13345767 original size:59 final size:57
Alignment explanation
Indices: 13345699--13346212 Score: 397
Period size: 56 Copynumber: 8.8 Consensus size: 57
13345689 AAATAAAATT
* *
13345699 TTTCAAAAAAAAAAATTTTTAGGGAAAAGTTG-AAGTATCAATTTTCCTTGAAA-TAAG
1 TTTC-AAAAAAAAGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAG
*
13345756 CTTTCCAAAAAAAAGATTTTGCCGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTTAAG
1 -TTT-CAAAAAAAAGATTTT--TG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAA-TTAAG
* * * * * * ** *
13345819 GTTCCAAACAAA-ATATTTTGGAAAAATAGTTGGAAAATATCAATTTTCTTAAAAATTACAA
1 TTTCAAAAAAAAGAT-TTTTGG-GAAA-AGTT-GAAAGTATCAATTTTCCTCGAAATTA-AG
* * * *
13345880 TTTTAAAAAAAGGGTTTTTTGAGGAAAAGTTGAAA-TATCAATTTTCCATCGAATTTAAAG
1 TTTCAAAAAAA-AGATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC-TCGAAATT-AAG
*
13345940 TTTTCAAAAAAACAG-TTTTTGGGAAAAGTT-AAAGTATCAATTTTCCTTGGAAATTAAG
1 -TTTCAAAAAAA-AGATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC-TCGAAATTAAG
* * * ** * *
13345998 GTTC-AAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAA-TTTCCTTAAAAATAAATT
1 TTTCAAAAAAAAGATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC-TCGAAATTAA-G
* * *
13346055 TTTCAAAAAAAAGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG
1 TTTCAAAAAAAAGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAG
* * *
13346114 TTTC--AAAAAATA-TTTTGGGAAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAA
1 TTTCAAAAAAAAGATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAG
** *
13346170 TTT-TTAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAAAGATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
13346213 TCCTGCATAA
Statistics
Matches: 371, Mismatches: 55, Indels: 61
0.76 0.11 0.13
Matches are distributed among these distances:
55 3 0.01
56 73 0.20
57 57 0.15
58 35 0.09
59 73 0.20
60 41 0.11
61 73 0.20
62 10 0.03
63 6 0.02
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
TTTCAAAAAAAAGATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAG
Found at i:13347692 original size:9 final size:9
Alignment explanation
Indices: 13347672--13347722 Score: 61
Period size: 8 Copynumber: 5.7 Consensus size: 9
13347662 ACTATGCTTG
13347672 AAAAAATG-
1 AAAAAATGA
13347680 AAAAAATG-
1 AAAAAATGA
13347688 AAAAAATGGGA
1 AAAAAAT--GA
*
13347699 AAAAAATAA
1 AAAAAATGA
13347708 AAAAAATGA
1 AAAAAATGA
13347717 AAAAAA
1 AAAAAA
13347723 AAGTGAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
8 15 0.39
9 15 0.39
10 1 0.03
11 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:13348785 original size:41 final size:41
Alignment explanation
Indices: 13348740--13349036 Score: 269
Period size: 41 Copynumber: 7.1 Consensus size: 41
13348730 ATAATTGTCA
* * *
13348740 AGGAGCAATTTATTTTCCAAAGTTTC-T-TTGCTTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAG--TCGTGGTGCCTCTGTTTAG
13348781 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
13348822 AGGAGCAATTTACTTTCCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
* * * *
13348864 AGGAGTAATTTACTTTT-CAAAGTTGTGATGCCTTTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
13348905 AGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* ** * * * **
13348946 AGGAGCAAATTATTTTTTTAAAGTTGTTGAGCCTCTAATTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
13348988 AGGAACCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTAT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
13349031 AGGAGC
1 AGGAGC
13349037 TTTGGTCAAA
Statistics
Matches: 210, Mismatches: 36, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
39 2 0.01
40 7 0.03
41 103 0.49
42 71 0.34
43 27 0.13
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13348880 original size:83 final size:82
Alignment explanation
Indices: 13348740--13349036 Score: 319
Period size: 83 Copynumber: 3.6 Consensus size: 82
13348730 ATAATTGTCA
* * * *
13348740 AGGAGCAATTTATTTTCCAAAGTTTC-T-TTGCTTCTATTTAGAGGAGCAATTTACTTTTCAAAG
1 AGGAGCAATTTACTTTCCAAAG--TCATAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
*
13348803 TCGTGGTGCCTCTGTTTAG
64 TTGTGGTGCCTCTGTTTAG
* *
13348822 AGGAGCAATTTACTTTCCAAAAGTCATGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTCC-AAAGTCATAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
* *
13348887 TGTGATGCCTTTGTTTAG
65 TGTGGTGCCTCTGTTTAG
* * * *
13348905 AGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAAATTATTTTTTTAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCATAGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGT
* * **
13348970 TGTTGAGCCTCTAATTAG
65 TGTGGTGCCTCTGTTTAG
* * * * * *
13348988 AGGAACCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAGAGGAGC
1 AGGAGCAATTTA-CTTTC-CAAAGTCATAGTGCCTCTGTTTAGAGGAGC
13349037 TTTGGTCAAA
Statistics
Matches: 182, Mismatches: 27, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
81 2 0.01
82 49 0.27
83 101 0.55
84 4 0.02
85 26 0.14
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCCAAAGTCATAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
GTGGTGCCTCTGTTTAG
Found at i:13348988 original size:42 final size:43
Alignment explanation
Indices: 13348901--13349036 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 43
13348891 ATGCCTTTGT
* * * * * **
13348901 TTAGAGGAGCAATTTA-CTTTC-CAAAGTCGTAGTGCCTCTGT
1 TTAGAGGAGCAAATTATGTTTCTCAAAGTCATTGAGCCTCTAA
* * **
13348942 TTAGAGGAGCAAATTAT-TTTTTTAAAGTTGTTGAGCCTCTAA
1 TTAGAGGAGCAAATTATGTTTCTCAAAGTCATTGAGCCTCTAA
* * * **
13348984 TTAGAGGAACCATTTATGTTTCTCAAAGTCATTGAGCCTCTGC
1 TTAGAGGAGCAAATTATGTTTCTCAAAGTCATTGAGCCTCTAA
13349027 TTAGAGGAGC
1 TTAGAGGAGC
13349037 TTTGGTCAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
41 18 0.24
42 28 0.38
43 28 0.38
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
TTAGAGGAGCAAATTATGTTTCTCAAAGTCATTGAGCCTCTAA
Found at i:13348999 original size:124 final size:124
Alignment explanation
Indices: 13348776--13348999 Score: 304
Period size: 124 Copynumber: 1.8 Consensus size: 124
13348766 TTTGCTTCTA
* * *
13348776 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCA
1 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAAATTACTTTCCA
* ** **
13348841 AAAGTCATGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTTGTGATGCCTTTG
66 AAAGTCATGGAGCCTCTAATTAGAGGAACAATTTACTTTTCAAAGTTGTGATGCCTTTG
* ***
13348900 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAAATTATTTTTTT
1 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAAATTACTTTCCA
** * *
13348965 AAAGTTGTTGAGCCTCTAATTAGAGGAACCATTTA
66 AAAGTCATGGAGCCTCTAATTAGAGGAACAATTTA
13349000 TGTTTCTCAA
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
124 84 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (124 bp):
TTTAGAGGAGCAATTTACTTTCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAAATTACTTTCCA
AAAGTCATGGAGCCTCTAATTAGAGGAACAATTTACTTTTCAAAGTTGTGATGCCTTTG
Found at i:13349255 original size:11 final size:11
Alignment explanation
Indices: 13349224--13349308 Score: 63
Period size: 11 Copynumber: 8.0 Consensus size: 11
13349214 AGGTATATGT
13349224 TTTTTATTTTA
1 TTTTTATTTTA
13349235 -TTTTA--TTA
1 TTTTTATTTTA
*
13349243 TTTTTATTGTA
1 TTTTTATTTTA
*
13349254 TTTCTATTTTA
1 TTTTTATTTTA
13349265 TTTTTATTATTA
1 TTTTTATT-TTA
* *
13349277 TATATA-TTT-
1 TTTTTATTTTA
* *
13349286 TTCTTCTTTTA
1 TTTTTATTTTA
13349297 TTTTTTATTTTA
1 -TTTTTATTTTA
13349309 GCTATTTACT
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
8 3 0.05
9 7 0.13
10 10 0.18
11 19 0.35
12 16 0.29
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:13349262 original size:25 final size:24
Alignment explanation
Indices: 13349228--13349275 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
13349218 ATATGTTTTT
13349228 TATTTTATTTTATTATTT-TTATTG
1 TATTTTATTTTATT-TTTATTATTG
13349252 TATTTCTATTTTATTTTTATTATT
1 TATTT-TATTTTATTTTTATTATT
13349276 ATATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (24 bp):
TATTTTATTTTATTTTTATTATTG
Found at i:13349308 original size:5 final size:5
Alignment explanation
Indices: 13349225--13349300 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
13349215 GGTATATGTT
* *
13349225 TTTTA TTTTA TTTTA TTAT- TTTTA TTGTA TTTCTA TTTTA TTTTTA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA -TTTTA TT-TTA
* * *
13349277 TATATA TTTT- TCTTC TTTTA TTTT
1 T-TTTA TTTTA TTTTA TTTTA TTTT
13349301 TTATTTTAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
4 6 0.11
5 32 0.57
6 17 0.30
7 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:13350303 original size:25 final size:25
Alignment explanation
Indices: 13350247--13350306 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
13350237 TTGAATTTAT
**
13350247 TTATTTATTTGTTTATTTATTTATT
1 TTATTTATTTGTTTATTTATTTAGA
13350272 TTATTTATTT-TTTATTTA-TTAGA
1 TTATTTATTTGTTTATTTATTTAGA
13350295 TTAGGTTTATTT
1 TTA--TTTATTT
13350307 AATATTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.19
24 8 0.26
25 17 0.55
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (25 bp):
TTATTTATTTGTTTATTTATTTAGA
Found at i:13350307 original size:4 final size:4
Alignment explanation
Indices: 13350241--13350291 Score: 77
Period size: 4 Copynumber: 12.8 Consensus size: 4
13350231 TTTTTTTTGA
*
13350241 ATTT ATTT ATTT ATTT GTTT ATTT ATTT ATTTT ATTT ATTT -TTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT
13350289 ATT
1 ATT
13350292 AGATTAGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
5 4 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:13350354 original size:19 final size:18
Alignment explanation
Indices: 13350326--13350373 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
13350316 TTTATCTTTA
*
13350326 TTTTATTTTTGTTTTACCTT
1 TTTTA-TTTTATTTTA-CTT
*
13350346 TTTTATTTTATTTTATTT
1 TTTTATTTTATTTTACTT
13350364 TATTTATTTT
1 T-TTTATTTT
13350374 CACATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTATTTTATTTTACTT
Found at i:13350371 original size:4 final size:5
Alignment explanation
Indices: 13350315--13350393 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
13350305 TTAATATTCT
* **
13350315 TTTTA TCTTTA TTTTA TTTTTG TTTTA CCTT- TTTTA TTTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
13350366 -TTTA TTTTCA CATTTA TTTTG TTTTA TT
1 TTTTA TTTT-A -TTTTA TTTTA TTTTA TT
13350394 ATTCTATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
4 6 0.10
5 38 0.66
6 11 0.19
7 3 0.05
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:13350490 original size:59 final size:58
Alignment explanation
Indices: 13350417--13350865 Score: 500
Period size: 59 Copynumber: 7.7 Consensus size: 58
13350407 AAATAAAAAT
* *
13350417 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAA-GTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * **
13350476 AAAAAAAAGGTTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAACCAAAGTTTTC
1 AAAAAAAA-GTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTTC
* * * *
13350537 AAAAAATA-TTTTTGTGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAAAGTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13350594 AAAAAAAAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAA-GTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * * ** *
13350653 AAAAAAAGGTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCGAAAATCAAAGTTTC
1 AAAAAAAAGTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* * * *
13350712 -CAAAGAATTTTTTGGGAAAAAGTGGAAAGTATCAATTTTCCTT--AAATAAATTTTC
1 AAAAAAAAGTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * ** * *
13350767 AAAAAATAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 AAAAAA-AAGTTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13350826 --AAAAAA-TTTTTACGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAAGTTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCC
13350866 CTGCACAAAA
Statistics
Matches: 331, Mismatches: 47, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
55 14 0.04
56 32 0.10
57 46 0.14
58 79 0.24
59 141 0.43
60 7 0.02
61 12 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAAAGTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:13353445 original size:60 final size:58
Alignment explanation
Indices: 13353316--13353734 Score: 463
Period size: 60 Copynumber: 7.1 Consensus size: 58
13353306 TTTGTGCAAG
***
13353316 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAA-CCCTTTTTTGAAATTTTATTATTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATTTTTTTTTTGAAATTTTATT-TTAA
*
13353374 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTGAAATTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTTTTGAAATTTTATTT-TAA
* *
13353434 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGAAA-TTTTATTTT-AA
* * * * * *
13353495 GGAAAATTAATACTTTCAACTTTTTCTCGAAAATTCTTTTTTTCAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTTA-TTTTAA
* * * * *
13353554 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTTATTT-TAA
* * *
13353611 GGAAGATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTG-AAA-TT-TTATTTTAA
* * * *
13353672 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTTA-TTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTTATTTTAA
*
13353728 AGAAAAT
1 GGAAAAT
13353735 AGAACAAAAT
Statistics
Matches: 309, Mismatches: 38, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
56 13 0.04
57 48 0.16
58 31 0.10
59 44 0.14
60 86 0.28
61 82 0.27
62 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTTATTTTAA
Found at i:13353626 original size:177 final size:177
Alignment explanation
Indices: 13353316--13353704 Score: 534
Period size: 177 Copynumber: 2.2 Consensus size: 177
13353306 TTTGTGCAAG
* * *
13353316 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAACCCTTTTTTGAAATTTTATTATTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCGAAAAACCCTTTTTTCAAAATTTATTATTAAGAAAAA
* * *
13353380 TTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTGAAATTTTATTTCTAAGGAAAATTGAT
66 TTGATACTTTCAACTTTTCCCCAAAAA--TTATTTTTTGAAAATTTATTTCTAAGGAAAATTGAT
* *
13353445 ACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAACTTTGA-TTTTCAA
129 ACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAAATTT-ATTTTTCAA
* * ** * *
13353495 GGAAAATTAATACTTTCAACTTTTTCTCGAAAATTCTTTTTTTCAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCGAAAAACCCTTTTTTCAAAATTTATTATTAAGAAAAA
* *
13353560 TTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTCTGAGGAAGATTGATAC
66 TTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAAATTTATTTCTAAGGAAAATTGATAC
*
13353624 TTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTTTAA
131 TTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTA-TTTTTCAA
* *
13353672 GAAAAATTGATACTTTCAAC-TTTTCCCCAAAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCGAAAAA
13353705 TATTTTTTTG
Statistics
Matches: 185, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
175 1 0.01
176 25 0.14
177 78 0.42
179 19 0.10
180 62 0.34
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (177 bp):
GGAAAATTGATACTTTCAACTTTTTCCCGAAAAACCCTTTTTTCAAAATTTATTATTAAGAAAAA
TTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAAATTTATTTCTAAGGAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTCAA
Found at i:13353754 original size:22 final size:22
Alignment explanation
Indices: 13353729--13353770 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13353719 TTTATTTAAA
13353729 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
13353751 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
13353771 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:13353774 original size:40 final size:43
Alignment explanation
Indices: 13353725--13353821 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 43
13353715 GAAATTTATT
* * *
13353725 TAAAGAAAATAG-AA-CAAAATAAAAGTGAAAATAA-ATAAAGA
1 TAAA-AAAATAGAAAGCAAAACAAAAATAAAAATAAGATAAAGA
*
13353766 TAAAAAAATAAAGAAAAGTAAAACAAAAATAAAAATAAGATAAAGA
1 TAAAAAAAT--AG-AAAGCAAAACAAAAATAAAAATAAGATAAAGA
13353812 TAAAAAAATA
1 TAAAAAAATA
13353822 TTAAATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
40 5 0.11
41 4 0.09
42 2 0.04
44 3 0.07
45 16 0.35
46 16 0.35
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (43 bp):
TAAAAAAATAGAAAGCAAAACAAAAATAAAAATAAGATAAAGA
Found at i:13353775 original size:18 final size:17
Alignment explanation
Indices: 13353752--13353879 Score: 61
Period size: 17 Copynumber: 7.2 Consensus size: 17
13353742 AATAAAAGTG
13353752 AAAATAAATAAAGATAAA-
1 AAAATAAA-AAA-ATAAAT
13353770 AAAATAAAGAAAAGTAAA-
1 AAAATAAA-AAAA-TAAAT
13353788 ACAAA-AATAAAAATAAGAT
1 A-AAATAA-AAAAATAA-AT
13353807 AAAGATAAAAAAAT--AT
1 AAA-ATAAAAAAATAAAT
* * *
13353823 TAAATAAAACCTAATCTAAT
1 AAAATAAAA--AAAT-AAAT
* *
13353843 -AAATATAAAAACAAAT
1 AAAATAAAAAAATAAAT
*
13353859 AAAATAAACAAATAAAT
1 AAAATAAAAAAATAAAT
13353876 AAAA
1 AAAA
13353880 AAATTCAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
15 6 0.07
16 7 0.08
17 26 0.30
18 25 0.29
19 19 0.22
20 4 0.05
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAAATAAAT
Found at i:13353816 original size:22 final size:21
Alignment explanation
Indices: 13353730--13353830 Score: 55
Period size: 22 Copynumber: 4.6 Consensus size: 21
13353720 TTATTTAAAG
* *
13353730 AAAATAGAACAAA-ATAAAAGTG
1 AAAATA-AATAAAGATAAAA-TA
*
13353752 AAAATAAATAAAGATAAAAAA
1 AAAATAAATAAAGATAAAATA
* *
13353773 ATAAAGAAAAGTAAA-ACAAAAATA
1 A-AAA-TAAA-TAAAGA-TAAAATA
13353797 AAAATAAGATAAAGATAAAA-A
1 AAAATAA-ATAAAGATAAAATA
*
13353818 AATATTAAATAAA
1 AA-AATAAATAAA
13353831 ACCTAATCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
21 14 0.23
22 29 0.47
23 9 0.15
24 10 0.16
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (21 bp):
AAAATAAATAAAGATAAAATA
Found at i:13354765 original size:18 final size:17
Alignment explanation
Indices: 13354696--13354769 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 17
13354686 AATCAACTAA
13354696 AATAAAAAA-AATAGAT
1 AATAAAAAAGAATAGAT
*
13354712 AATTAGAAAAG-ATAGGAT
1 AA-TAAAAAAGAATA-GAT
* *
13354730 AAAAAAAATAATAATCAGAT
1 -AATAAAA-AAGAAT-AGAT
13354750 AATAAAAAAGAATCAGAT
1 AATAAAAAAGAAT-AGAT
13354768 AA
1 AA
13354770 AATTAACAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.04
17 9 0.20
18 18 0.40
19 10 0.22
20 5 0.11
21 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.11, T:0.19
Consensus pattern (17 bp):
AATAAAAAAGAATAGAT
Found at i:13354834 original size:3 final size:3
Alignment explanation
Indices: 13354821--13354853 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
13354811 AAAATATATT
*
13354821 ATA AAA ATA ATA ATA ATA AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13354854 ATATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13354861 original size:14 final size:14
Alignment explanation
Indices: 13354812--13354861 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
13354802 ATAAACCCAA
*
13354812 AAATATATTATAA-
1 AAATATATAATAAT
13354825 AAATA-ATAATAAT
1 AAATATATAATAAT
13354838 -AATATAATAATAAT
1 AAATAT-ATAATAAT
13354852 AAATATATAA
1 AAATATATAA
13354862 CTATATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 10 0.31
13 5 0.16
14 12 0.38
15 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATATAATAAT
Found at i:13360049 original size:11 final size:11
Alignment explanation
Indices: 13360028--13360064 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13360018 AGTTTTAAAT
13360028 AATAATCATAA
1 AATAATCATAA
13360039 AATAAGT-AT-A
1 AATAA-TCATAA
13360049 AATAATCATAA
1 AATAATCATAA
13360060 AATAA
1 AATAA
13360065 ATTAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 13 0.57
12 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (11 bp):
AATAATCATAA
Found at i:13360366 original size:21 final size:18
Alignment explanation
Indices: 13360341--13360384 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
13360331 CATGTTTTTA
13360341 AAAAATATATAATAGAATAAT
1 AAAAATA-ATAAT--AATAAT
*
13360362 AAAAATAATGATAATAAT
1 AAAAATAATAATAATAAT
13360380 AAAAA
1 AAAAA
13360385 CCAAAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
20 4 0.18
21 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAATAATAATAATAAT
Found at i:13360415 original size:30 final size:30
Alignment explanation
Indices: 13360381--13360445 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
13360371 GATAATAATA
*
13360381 AAAACCAAAAAACCCTCCGAAC-CTAAAATC
1 AAAACC-AAAAACCCTCCAAACTCTAAAATC
** *
13360411 AAAACCCTAAATCCTCCAAACTCTAAAATC
1 AAAACCAAAAACCCTCCAAACTCTAAAATC
13360441 AAAAC
1 AAAAC
13360446 TTCAAACCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.14
Consensus pattern (30 bp):
AAAACCAAAAACCCTCCAAACTCTAAAATC
Found at i:13360552 original size:28 final size:28
Alignment explanation
Indices: 13360402--13360566 Score: 102
Period size: 28 Copynumber: 5.8 Consensus size: 28
13360392 ACCCTCCGAA
*
13360402 CCTAAAATCAAAACCCTAAATCCTCCAAAC
1 CCTAAAATCAAAACCCCAAA--CTCCAAAC
* ** * *
13360432 TCTAAAATCAAAACTTCAAAC-CTAAAAT
1 CCTAAAATCAAAACCCCAAACTC-CAAAC
* * *
13360460 CTTAAGATCGAAACCCCAAAC-CTCAAAC
1 CCTAAAATCAAAACCCCAAACTC-CAAAC
* * ** *
13360488 CCTAATATCGAAACCATAAACTTTTCAAAC
1 CCTAAAATCAAAACCCCAAAC--TCCAAAC
*
13360518 CCTAAAA-CTAAAACCCTAAACTCCAAAC
1 CCTAAAATC-AAAACCCCAAACTCCAAAC
*
13360546 CTTAAAATCAAAACCCCAAAC
1 CCTAAAATCAAAACCCCAAAC
13360567 ACTTGAAACC
Statistics
Matches: 104, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.01
28 64 0.62
29 2 0.02
30 37 0.36
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (28 bp):
CCTAAAATCAAAACCCCAAACTCCAAAC
Found at i:13360703 original size:15 final size:15
Alignment explanation
Indices: 13360661--13360703 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13360651 ACCTTAAAAT
13360661 CTAAAATCTC-AAACC
1 CTAAAATC-CAAAACC
*
13360676 CTAAAATTCAAAACC
1 CTAAAATCCAAAACC
*
13360691 TTAAAATCCAAAA
1 CTAAAATCCAAAA
13360704 ATCTAAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAAAATCCAAAACC
Found at i:13360711 original size:15 final size:14
Alignment explanation
Indices: 13360656--13360703 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
13360646 CCTTAACCTT
*
13360656 AAAATCTAAAATCTC
1 AAAACCTAAAATC-C
* *
13360671 AAACCCTAAAATTC
1 AAAACCTAAAATCC
13360685 AAAACCTTAAAATCC
1 AAAACC-TAAAATCC
13360700 AAAA
1 AAAA
13360704 ATCTAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAACCTAAAATCC
Found at i:13362183 original size:19 final size:19
Alignment explanation
Indices: 13362159--13362197 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13362149 AATGAAATGT
13362159 GTAAATCCATTGTCCTAAA
1 GTAAATCCATTGTCCTAAA
*
13362178 GTAAATCTATTGTCCTAAA
1 GTAAATCCATTGTCCTAAA
13362197 G
1 G
13362198 AACCGCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
GTAAATCCATTGTCCTAAA
Found at i:13362608 original size:14 final size:14
Alignment explanation
Indices: 13362569--13362610 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13362559 TTTTTATTTA
13362569 TATATATTTATATAAT
1 TATATATTT-TA-AAT
13362585 TATATA-TTTAAAT
1 TATATATTTTAAAT
*
13362598 TTTATATTTTAAA
1 TATATATTTTAAA
13362611 AAATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 2 0.08
16 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATATTTTAAAT
Found at i:13362625 original size:22 final size:24
Alignment explanation
Indices: 13362597--13362654 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 24
13362587 TATATTTAAA
13362597 TTTTATATTTTAAAAAA-TA-ATT
1 TTTTATATTTTAAAAAATTATATT
13362619 TTTTATA-TTTAAAAAATTATATT
1 TTTTATATTTTAAAAAATTATATT
13362642 TTATTA-ATTTTAA
1 TT-TTATATTTTAA
13362655 TTTAAATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.28
22 9 0.28
23 6 0.19
24 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATATTTTAAAAAATTATATT
Found at i:13363497 original size:30 final size:30
Alignment explanation
Indices: 13363434--13363526 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
13363424 TTAATGCATT
*
13363434 ATAAA-TATATAAATTTTA-TTTATT-ATTA
1 ATAAATTATAT-AATTTTATTTTATTAATAA
*
13363462 ATAAATTGA-ATGATTTTATTTTATTAATAA
1 ATAAATT-ATATAATTTTATTTTATTAATAA
*
13363492 ATAAATTATATAATATTATTTTATTAATAA
1 ATAAATTATATAATTTTATTTTATTAATAA
13363522 ATAAA
1 ATAAA
13363527 ATTTAAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.20
29 10 0.18
30 35 0.62
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
ATAAATTATATAATTTTATTTTATTAATAA
Found at i:13363854 original size:2 final size:2
Alignment explanation
Indices: 13363847--13363872 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13363837 GAGTCCAAGA
13363847 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
13363873 TCACTCTTTA
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):
AT
Found at i:13367863 original size:29 final size:29
Alignment explanation
Indices: 13367792--13367908 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
13367782 GAACAGTTTA
*
13367792 TATTTAT-T-TATT-ATTTTAATTATG-T
1 TATTTATATATATTCATATTAATTATGTT
* *
13367817 TA-TTATATATATTTATATTAATTATATT
1 TATTTATATATATTCATATTAATTATGTT
* * *
13367845 TATTTGTATACATTCATATTAATTATGTC
1 TATTTATATATATTCATATTAATTATGTT
* * *
13367874 TATTTATATATAATCGTATTATTTATGTT
1 TATTTATATATATTCATATTAATTATGTT
13367903 TATTTA
1 TATTTA
13367909 CTCTTTGGAC
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
24 4 0.05
25 3 0.04
26 4 0.05
27 10 0.14
28 3 0.04
29 50 0.68
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.60
Consensus pattern (29 bp):
TATTTATATATATTCATATTAATTATGTT
Found at i:13368784 original size:134 final size:136
Alignment explanation
Indices: 13368529--13368888 Score: 467
Period size: 136 Copynumber: 2.6 Consensus size: 136
13368519 AGTACTTATC
* * *
13368529 CTTTTAGCTCTTACATGGGCTGCGGTGCCAAAACAAGAATGGATCAGACATGACATAAAACCAAA
1 CTTTTAGCTC-TACATGGGCTGCGGTCCCAAGACAAGAA-GGATCAGACATGACATAAAACAAAA
* * *
13368594 AAAAAAAAAACTAATTAAAGCATGCAACTGTTGGCTAGTTCGGTGGTTCGGCTGATTTTCAATTA
64 AAAAAAAAAAC-AACTAAAGAATGCAACTGTTGGCTAGGTCGGTGGTTCGGCTGATTTTCAATTA
** *
13368659 TTAGTGATG
128 CAACTGATG
*
13368668 CTTTTAGCTCTACATGGGCTGCGGTCCCAAGAC-AGCAA-AATCAGACATGACATAAAACAACAA
1 CTTTTAGCTCTACATGGGCTGCGGTCCCAAGACAAG-AAGGATCAGACATGACATAAAACAA-AA
** *
13368731 AAAAAAAAAACAACTAATTAATGC-A-TGTTGGCTAGGTGGGTGGTTCGGCTGATTTTCAATTAC
64 AAAAAAAAAACAACTAAAGAATGCAACTGTTGGCTAGGTCGGTGGTTCGGCTGATTTTCAATTAC
* *
13368794 AACTTATT
129 AACTGATG
* *
13368802 CTTTTAGCTATTACATGGGCTGCGGTCCCATGACAAGAATGGATCAGACATGACATAAAACAAAA
1 CTTTTAGCT-CTACATGGGCTGCGGTCCCAAGACAAGAA-GGATCAGACATGACATAAAACAAAA
*
13368867 AAAAAAAAAACAACTAACGAAT
64 AAAAAAAAAACAACTAAAGAAT
13368889 CCTTGGGTGG
Statistics
Matches: 195, Mismatches: 20, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
134 48 0.25
135 25 0.13
136 53 0.27
137 36 0.18
138 23 0.12
139 10 0.05
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (136 bp):
CTTTTAGCTCTACATGGGCTGCGGTCCCAAGACAAGAAGGATCAGACATGACATAAAACAAAAAA
AAAAAAAACAACTAAAGAATGCAACTGTTGGCTAGGTCGGTGGTTCGGCTGATTTTCAATTACAA
CTGATG
Found at i:13369073 original size:27 final size:27
Alignment explanation
Indices: 13369028--13369097 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
13369018 ATTTTATTAT
* *
13369028 ATATAA-ATTTGATTGTTTAATTAA-A
1 ATATAATATTTAATTATTTAATTAATA
* * *
13369053 TTATAATTTATTAATTATTTATTTAATA
1 ATATAATAT-TTAATTATTTAATTAATA
13369081 ATATAATATTTAATTAT
1 ATATAATATTTAATTAT
13369098 AATTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 5 0.14
26 1 0.03
27 21 0.60
28 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATAATATTTAATTATTTAATTAATA
Found at i:13369092 original size:19 final size:19
Alignment explanation
Indices: 13369051--13369106 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
13369041 TGTTTAATTA
13369051 AATTATAATTTATTAATTATTT
1 AATTATAA-TTA-TAA-TATTT
*
13369073 ATTTAATAA-TATAATATTT
1 AATT-ATAATTATAATATTT
13369092 AATTATAATTATAAT
1 AATTATAATTATAAT
13369107 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 4 0.13
19 14 0.47
20 3 0.10
21 2 0.07
22 3 0.10
23 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTATAATTATAATATTT
Found at i:13370357 original size:2 final size:2
Alignment explanation
Indices: 13370350--13370376 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13370340 AAATTATTTC
13370350 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13370377 GGTAAGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13372564 original size:16 final size:17
Alignment explanation
Indices: 13372540--13372579 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13372530 TAATCAATTT
*
13372540 AAATAATTTATTAAA-A
1 AAATAATTTAATAAATA
*
13372556 AAATTATTTAATAAATA
1 AAATAATTTAATAAATA
13372573 AAATAAT
1 AAATAAT
13372580 ATAAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATAATTTAATAAATA
Found at i:13377337 original size:15 final size:14
Alignment explanation
Indices: 13377310--13377350 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
13377300 CAATGCACAG
13377310 ATTTTT-TATTATA
1 ATTTTTATATTATA
*
13377323 TTTTTTATAATTATA
1 ATTTTTAT-ATTATA
13377338 ATTTTTATATTAT
1 ATTTTTATATTAT
13377351 CTTAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 13 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTATATTATA
Found at i:13378559 original size:279 final size:276
Alignment explanation
Indices: 13378135--13378693 Score: 888
Period size: 279 Copynumber: 2.0 Consensus size: 276
13378125 ATAATTGATC
13378135 AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAAT
1 AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAAT
*
13378200 ATAAATATTAGTTTTTTATAAAAATAAAACAATAAAACTAATAGCATACCTTTCATAGAAAAGTT
66 ATAAATATTAGTTTTTTATAAAAATAAAACAATAAAACTAATAGCATACCTTTCAAAGAAAAGTT
* * *
13378265 GCAAACTGAAAAAATAATAATGGTGTAACATACACTATTTATAGATTTATTGCATGACAATTAGA
131 GCAAACTGAAAAAATAATAATGGCGTAACACACACTATTTATAGATTTATTGCATGAAAATTAGA
* * *
13378330 GTGTATAGATAATTTTTAAATTGATAAATATATTTTGAA-TTTAAAAAATATAATAAGTAATATT
196 GTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTTAAAAAAAATAATAAGTAATATT
13378394 TATCTTTTTAAATTTTA
261 TATCTTTTTAAA-TTTA
* * * *
13378411 AAAACTCCTAAACAAAATATG-AAAGAAAAAGAATTAGTAAATGTATGTTGAAAGAAAAATGAAT
1 AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATG-A-
** * *
13378475 TGATATAAATATTAGTTTTTTATAAAAATAAAATTATAAAAGTAATAGTATACCTTTCAAAGAAA
64 --ATATAAATATTAGTTTTTTATAAAAATAAAACAATAAAACTAATAGCATACCTTTCAAAGAAA
* * *
13378540 AGTTGTAAACTGAAAAAATAATAATGGCGTAATACACCCTATTTATAGATTTATTGCATGAAAAT
127 AGTTGCAAACTGAAAAAATAATAATGGCGTAACACACACTATTTATAGATTTATTGCATGAAAAT
*
13378605 TAGAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTTAAAAAAAATAATAAGTGA
192 TAGAGTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTTAAAAAAAATAATAAGTAA
13378670 TATTTATCTTTTTAAATTTA
257 TATTTATCTTTTTAAATTTA
13378690 AAAA
1 AAAA
13378694 TATTTAAAAA
Statistics
Matches: 259, Mismatches: 19, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
275 37 0.14
276 21 0.08
279 166 0.64
280 35 0.14
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (276 bp):
AAAACACCTAAACAAAATATGAAAAAAAAAAGAATTAGTAAATGAATGTTAAAAGAAAAATGAAT
ATAAATATTAGTTTTTTATAAAAATAAAACAATAAAACTAATAGCATACCTTTCAAAGAAAAGTT
GCAAACTGAAAAAATAATAATGGCGTAACACACACTATTTATAGATTTATTGCATGAAAATTAGA
GTGCATAGATAATTTTCAAATTGATAAATATATTTTGAATTTTAAAAAAAATAATAAGTAATATT
TATCTTTTTAAATTTA
Found at i:13380346 original size:4 final size:4
Alignment explanation
Indices: 13380316--13380451 Score: 86
Period size: 4 Copynumber: 34.2 Consensus size: 4
13380306 AAATATTTAC
* * * *
13380316 AAAT ATAT AAAT ACAT AAAT AATT AAAT AAAAT AAAT AAGAAT AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -A-AAT AAAT AAAT
* ** * * *
13380367 AAAT TAAT AAAT -AA- AAAT AAGC AAAT TAAT AAAT AAAAT ATAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
*
13380414 AAAT AAA- AAAT AAAT AACA- AAAA AAAT AAA- AAA- AAAT A
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT A
13380452 TACAAAAAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
3 14 0.14
4 73 0.72
5 11 0.11
6 3 0.03
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:13380365 original size:23 final size:22
Alignment explanation
Indices: 13380316--13380444 Score: 67
Period size: 21 Copynumber: 6.0 Consensus size: 22
13380306 AAATATTTAC
* *
13380316 AAATATAT-AAATACAT-AAAT
1 AAATAAATAAAATAAATAAAAT
*
13380336 AATTAAATAAAATAAATAAGAAT
1 AAATAAATAAAATAAATAA-AAT
*
13380359 AAATAAACAAATTAATAAATAAAAAT
1 AAATAAA-TAA--AATAAAT-AAAAT
** *
13380385 AAGCAAAT-TAATAAATAAAAT
1 AAATAAATAAAATAAATAAAAT
* *
13380406 ATACAAAT-AAAT-AA-AAAAT
1 AAATAAATAAAATAAATAAAAT
13380425 AAATAACA-AAAA-AAATAAAA
1 AAATAA-ATAAAATAAATAAAA
13380445 AAAAATATAC
Statistics
Matches: 84, Mismatches: 14, Indels: 21
0.71 0.12 0.18
Matches are distributed among these distances:
19 9 0.11
20 14 0.17
21 25 0.30
22 8 0.10
23 9 0.11
24 2 0.02
26 15 0.18
27 2 0.02
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATAAATAAAATAAATAAAAT
Found at i:13380375 original size:22 final size:21
Alignment explanation
Indices: 13380345--13380444 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 21
13380335 TAATTAAATA
13380345 AAATAAATAAGAATAAATAAAC
1 AAATAAATAA-AATAAATAAAC
* * *
13380367 AAATTAATAAATAAAAATAAGC
1 AAATAAATAAA-ATAAATAAAC
* *
13380389 AAATTAAT-AAATAAAATATAC
1 AAATAAATAAAAT-AAATAAAC
13380410 AAATAAATAAAAAATAAAT-AAC
1 AAATAAAT--AAAATAAATAAAC
*
13380432 AAAAAAAATAAAA
1 -AAATAAATAAAA
13380445 AAAAATATAC
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 20 0.32
22 27 0.43
23 11 0.17
24 4 0.06
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAATAAATAAAC
Found at i:13380417 original size:12 final size:12
Alignment explanation
Indices: 13380397--13380457 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 12
13380387 GCAAATTAAT
13380397 AAATAAAATATAC
1 AAAT-AAATATAC
*
13380410 AAATAAATA-AA
1 AAATAAATATAC
13380421 AAATAAATA-AC
1 AAATAAATATAC
* *
13380432 AAA-AAAAATAA
1 AAATAAATATAC
*
13380443 AAAAAAATATAC
1 AAATAAATATAC
13380455 AAA
1 AAA
13380458 AAAAATAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 4 0.10
11 18 0.45
12 14 0.35
13 4 0.10
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAATATAC
Found at i:13380445 original size:22 final size:22
Alignment explanation
Indices: 13380340--13380466 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 22
13380330 ATAAATAATT
*
13380340 AAAT-AAAATAAATAAGAATAAA
1 AAATAAAAATAAATAACAA-AAA
*
13380362 TAAACAAATTAATAAATAA-AAATAA
1 -AAATAAA--AATAAATAACAAA-AA
*
13380387 GCAAATTAATAAATAAAATATAC-AAAT
1 --AAA-TAA-AAAT-AAATA-ACAAAAA
13380414 AAATAAAAAATAAATAACAAAAA
1 AAAT-AAAAATAAATAACAAAAA
*
13380437 AAATAAAAAAAAATATACAAAAA
1 AAATAAAAATAAATA-ACAAAAA
13380460 AAATAAA
1 AAATAAA
13380467 GCTCAGCTTA
Statistics
Matches: 85, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
22 12 0.14
23 29 0.34
24 8 0.09
25 9 0.11
26 15 0.18
27 8 0.09
28 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAAATAAATAACAAAAA
Found at i:13380458 original size:12 final size:12
Alignment explanation
Indices: 13380401--13380461 Score: 67
Period size: 12 Copynumber: 5.3 Consensus size: 12
13380391 ATTAATAAAT
13380401 AAAATATACAAA
1 AAAATATACAAA
*
13380413 TAAATA-A-AAA
1 AAAATATACAAA
13380423 ATAAATA-ACAAA
1 A-AAATATACAAA
*
13380435 AAAA-ATAAAAA
1 AAAATATACAAA
13380446 AAAATATACAAA
1 AAAATATACAAA
13380458 AAAA
1 AAAA
13380462 ATAAAGCTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 4 0.10
11 18 0.44
12 19 0.46
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATATACAAA
Found at i:13380465 original size:23 final size:23
Alignment explanation
Indices: 13380401--13380466 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
13380391 ATTAATAAAT
*
13380401 AAAATATAC-AAATAAATAAAAA
1 AAAATATACAAAAAAAATAAAAA
13380423 ATAAATA-ACAAAAAAAATAAAAA
1 A-AAATATACAAAAAAAATAAAAA
13380446 AAAATATACAAAAAAAATAAA
1 AAAATATACAAAAAAAATAAA
13380467 GCTCAGCTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 8 0.20
23 32 0.80
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAATATACAAAAAAAATAAAAA
Found at i:13381497 original size:2 final size:2
Alignment explanation
Indices: 13381484--13381514 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13381474 TTAACCCAAC
*
13381484 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13381515 GAATTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13381939 original size:4 final size:4
Alignment explanation
Indices: 13381932--13381960 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13381922 GTGAGTGGTG
13381932 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
13381961 ATGCGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:13385919 original size:13 final size:13
Alignment explanation
Indices: 13385878--13385920 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
13385868 TGATAATATT
*
13385878 GTGTACGGTGGAG
1 GTGTAAGGTGGAG
* *
13385891 GTGT-AGATGTAG
1 GTGTAAGGTGGAG
13385903 GTGTAAGGTGGAG
1 GTGTAAGGTGGAG
13385916 GTGTA
1 GTGTA
13385921 GAGTTATGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.21, C:0.02, G:0.49, T:0.28
Consensus pattern (13 bp):
GTGTAAGGTGGAG
Found at i:13386997 original size:2 final size:2
Alignment explanation
Indices: 13386990--13387016 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13386980 CATTTATTCT
13386990 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13387017 TGCTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13400178 original size:11 final size:11
Alignment explanation
Indices: 13400157--13400193 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13400147 AGTTTTAAAT
13400157 AATAATCATAA
1 AATAATCATAA
13400168 AATAAGT-AT-A
1 AATAA-TCATAA
13400178 AATAATCATAA
1 AATAATCATAA
13400189 AATAA
1 AATAA
13400194 ATTAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 13 0.57
12 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (11 bp):
AATAATCATAA
Found at i:13400639 original size:28 final size:28
Alignment explanation
Indices: 13400533--13400697 Score: 120
Period size: 28 Copynumber: 5.8 Consensus size: 28
13400523 ACCATCCGAA
*
13400533 CCTAAAATCAAAACCCTAAATCCTCCAAAC
1 CCTAAAATCGAAACCCTAAA-CCT-CAAAC
* * * *
13400563 TCTAAAATCGAAA-CTTCAAACCTAAAAT
1 CCTAAAATCGAAACCCT-AAACCTCAAAC
* * *
13400591 CTTAAGATCGAAACCCCAAACCTCAAAC
1 CCTAAAATCGAAACCCTAAACCTCAAAC
* * *
13400619 CCTAATATCGAAACCATAAACTTTTCAAAC
1 CCTAAAATCGAAACCCTAAAC--CTCAAAC
*
13400649 CCTAAAA-CTAAAACCCTAAA-CTCCAAAC
1 CCTAAAATC-GAAACCCTAAACCT-CAAAC
* *
13400677 CTTAAAATCAAAACCCTAAAC
1 CCTAAAATCGAAACCCTAAAC
13400698 ATTGAAACTC
Statistics
Matches: 105, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.01
28 61 0.58
29 8 0.08
30 35 0.33
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
CCTAAAATCGAAACCCTAAACCTCAAAC
Found at i:13400733 original size:14 final size:14
Alignment explanation
Indices: 13400645--13400735 Score: 69
Period size: 14 Copynumber: 6.4 Consensus size: 14
13400635 TAAACTTTTC
13400645 AAACCCTAAAA-CTA
1 AAACCCTAAAATC-A
* *
13400659 AAACCCTAAACTCC
1 AAACCCTAAAATCA
*
13400673 AAACCTTAAAATCA
1 AAACCCTAAAATCA
**
13400687 AAACCCTAAACATTG
1 AAACCCTAAA-ATCA
**
13400702 AAACTCC-AAAATTG
1 AAAC-CCTAAAATCA
*
13400716 AAACCTTAAAATCA
1 AAACCCTAAAATCA
13400730 AAACCC
1 AAACCC
13400736 CAAACACTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
13 1 0.02
14 48 0.79
15 10 0.16
16 2 0.03
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:13400870 original size:15 final size:15
Alignment explanation
Indices: 13400828--13400870 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13400818 ACCTTAAAAT
13400828 CTAAAATCTC-AAACC
1 CTAAAATC-CAAAACC
*
13400843 CTAAAATTCAAAACC
1 CTAAAATCCAAAACC
*
13400858 TTAAAATCCAAAA
1 CTAAAATCCAAAA
13400871 ATCTAAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAAAATCCAAAACC
Found at i:13400878 original size:15 final size:14
Alignment explanation
Indices: 13400823--13400870 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
13400813 CCTTAACCTT
*
13400823 AAAATCTAAAATCTC
1 AAAACCTAAAATC-C
* *
13400838 AAACCCTAAAATTC
1 AAAACCTAAAATCC
13400852 AAAACCTTAAAATCC
1 AAAACC-TAAAATCC
13400867 AAAA
1 AAAA
13400871 ATCTAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAACCTAAAATCC
Found at i:13402349 original size:19 final size:19
Alignment explanation
Indices: 13402325--13402363 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13402315 AATGAAATGT
13402325 GTAAATCCATTGTCCTAAA
1 GTAAATCCATTGTCCTAAA
*
13402344 GTAAATCTATTGTCCTAAA
1 GTAAATCCATTGTCCTAAA
13402363 G
1 G
13402364 AATCGCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
GTAAATCCATTGTCCTAAA
Found at i:13402764 original size:15 final size:14
Alignment explanation
Indices: 13402733--13402761 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13402723 TAATTTATAT
13402733 AATTATATATTTAA
1 AATTATATATTTAA
13402747 AATT-TATATTTAA
1 AATTATATATTTAA
13402760 AA
1 AA
13402762 AATAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTATATATTTAA
Found at i:13402773 original size:28 final size:30
Alignment explanation
Indices: 13402699--13402773 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
13402689 GGTATTATAT
*
13402699 AAAAATAATTTTTTAATTAATTTTTAATTTA
1 AAAAATAATTTTTTAA-TAATTTATAATTTA
* * * *
13402730 TATAATTATATATTTAA-AATTTAT-ATTTA
1 AAAAATAAT-TTTTTAATAATTTATAATTTA
13402759 AAAAATAATTTTTTA
1 AAAAATAATTTTTTA
13402774 TATTTAAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
28 5 0.15
29 11 0.32
30 6 0.18
31 6 0.18
32 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AAAAATAATTTTTTAATAATTTATAATTTA
Found at i:13402792 original size:23 final size:21
Alignment explanation
Indices: 13402749--13402795 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
13402739 ATATTTAAAA
13402749 TTTATATTTAAAAAATAATTT
1 TTTATATTTAAAAAATAATTT
*
13402770 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATTT
13402791 TTTAT
1 TTTAT
13402796 TAATTTTGAG
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATTT
Found at i:13404040 original size:2 final size:2
Alignment explanation
Indices: 13404033--13404062 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13404023 GTGTCCAAGA
13404033 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
13404063 TCACTCTTTA
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:13407404 original size:21 final size:21
Alignment explanation
Indices: 13407374--13407424 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
13407364 GATATGTTTA
13407374 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
13407394 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
13407415 AATATTTTAT
1 AATATTTTAT
13407425 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:13408297 original size:2 final size:2
Alignment explanation
Indices: 13408286--13408327 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
13408276 TTAATATAGT
13408286 TA TA TA -A TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13408325 TA T
1 TA T
13408328 TAAACACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13408305 original size:10 final size:10
Alignment explanation
Indices: 13408275--13408330 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
13408265 GATACTAAAA
13408275 ATTAATATAGTT
1 ATTAATATA--T
13408287 ATATAATATAT
1 AT-TAATATAT
13408298 ATTAATATAT
1 ATTAATATAT
13408308 A-T-ATATAT
1 ATTAATATAT
13408316 A-TATATATAT
1 ATTA-ATATAT
13408326 ATTAA
1 ATTAA
13408331 ACACATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.20
9 1 0.03
10 17 0.43
11 5 0.12
12 2 0.05
13 7 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (10 bp):
ATTAATATAT
Found at i:13408957 original size:11 final size:11
Alignment explanation
Indices: 13408926--13408968 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
13408916 TGAACACATC
13408926 AAAATAAAAAA
1 AAAATAAAAAA
13408937 ATAAA-AAAAAGA
1 A-AAATAAAAA-A
*
13408949 AAACTAAAAAA
1 AAAATAAAAAA
13408960 AAAATAAAA
1 AAAATAAAA
13408969 TTCTTTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.09
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:13413937 original size:16 final size:16
Alignment explanation
Indices: 13413898--13413937 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13413888 ATGAATACAC
13413898 TTTTTGTTATTTTTTG
1 TTTTTGTTATTTTTTG
*
13413914 TTTATGTTAATTTTTT-
1 TTTTTGTT-ATTTTTTG
13413930 TTTTTGTT
1 TTTTTGTT
13413938 TGTGTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTTGTTATTTTTTG
Found at i:13414322 original size:59 final size:59
Alignment explanation
Indices: 13414230--13414341 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
13414220 TGTTAGTTCA
* *
13414230 TGTTTAAGTTTATGTTTATGGACTATTATGGACTGCTAGTGCTAAATAAATTAAGTTTG
1 TGTTTAAGTTTATATTTATGGACTATTATGGACTACTAGTGCTAAATAAATTAAGTTTG
* *
13414289 TGTTTAAGTTTATATTTATGGATTATTATGGACTACTAGTGCTAGATAAATTA
1 TGTTTAAGTTTATATTTATGGACTATTATGGACTACTAGTGCTAAATAAATTA
13414342 TGAACTGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (59 bp):
TGTTTAAGTTTATATTTATGGACTATTATGGACTACTAGTGCTAAATAAATTAAGTTTG
Found at i:13415328 original size:19 final size:18
Alignment explanation
Indices: 13415281--13415330 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
13415271 CAACCTTAAG
*
13415281 ATTTTAATAAAAATAAAA
1 ATTTTAATAAAAAAAAAA
**
13415299 ATTTTTTTAAATAAAAAAA
1 ATTTTAATAAA-AAAAAAA
*
13415318 ATTTTCATAAAAA
1 ATTTTAATAAAAA
13415331 CTTAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTTAATAAAAAAAAAA
Found at i:13415386 original size:28 final size:28
Alignment explanation
Indices: 13415347--13415402 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
13415337 AATAGTCAAA
13415347 ATAAAAATTCTAAAA-TTTTCAAAAAAT
1 ATAAAAATTCTAAAAGTTTTCAAAAAAT
*
13415374 ATAAAAATTTCTAAAAGTTTTTAAAAAAT
1 ATAAAAA-TTCTAAAAGTTTTCAAAAAAT
13415403 TCTAAAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 8 0.31
29 11 0.42
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAAAATTCTAAAAGTTTTCAAAAAAT
Found at i:13415400 original size:20 final size:21
Alignment explanation
Indices: 13415375--13415414 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13415365 TCAAAAAATA
*
13415375 TAAAAATTTCTAAAA-GTTTT
1 TAAAAAATTCTAAAATGTTTT
13415395 TAAAAAATTCTAAAATGTTT
1 TAAAAAATTCTAAAATGTTT
13415415 CCATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAAAATTCTAAAATGTTTT
Found at i:13415480 original size:18 final size:17
Alignment explanation
Indices: 13415439--13415481 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
13415429 CTTACAATTT
*
13415439 TATTTTTATATTTTTTG
1 TATTTTTAAATTTTTTG
* *
13415456 AAATTTTGAAATTTTTTG
1 -TATTTTTAAATTTTTTG
13415474 TATTTTTA
1 TATTTTTA
13415482 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (17 bp):
TATTTTTAAATTTTTTG
Found at i:13415510 original size:17 final size:17
Alignment explanation
Indices: 13415477--13415514 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13415467 TTTTTTGTAT
13415477 TTTTATTAAAATTTTAA
1 TTTTATTAAAATTTTAA
*
13415494 GTTTTATT-AATTTTTAA
1 -TTTTATTAAAATTTTAA
13415511 TTTT
1 TTTT
13415515 TCGAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTATTAAAATTTTAA
Found at i:13415676 original size:23 final size:22
Alignment explanation
Indices: 13415650--13415702 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13415640 AAAATTAAAA
13415650 AAATTT-TTTTTTCTAATTTTTAG
1 AAATTTATTTTTT-T-ATTTTTAG
13415673 AAATTTAATTTTTTTATTTTTA-
1 AAATTT-ATTTTTTTATTTTTAG
*
13415695 AACTTTAT
1 AAATTTAT
13415703 AAAAGTCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 5 0.19
23 13 0.48
24 1 0.04
25 6 0.22
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
AAATTTATTTTTTTATTTTTAG
Found at i:13416066 original size:21 final size:20
Alignment explanation
Indices: 13416042--13416111 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
13416032 TGAAAAATGA
13416042 AAAATTTTTAGATTATTTTTG
1 AAAATTTTTA-ATTATTTTTG
* *
13416063 AAAA-TTTTAA-AATTTTTT
1 AAAATTTTTAATTATTTTTG
* *
13416081 AGAATTTTTTTATTATTTTTG
1 A-AAATTTTTAATTATTTTTG
13416102 AGAAATTTTT
1 A-AAATTTTT
13416112 GTATTTACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 10 0.26
21 19 0.49
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
AAAATTTTTAATTATTTTTG
Found at i:13416089 original size:29 final size:29
Alignment explanation
Indices: 13415999--13416090 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
13415989 AGTTTTTAAC
* ** *
13415999 TTTTTGTAAATTTT-AAATTTTAAATAAT
1 TTTTTGAAAATTTTAAAATTTTTTAGAAT
* * * *
13416027 TTTTATGAAAA-ATGAAAAATTTTTAGATT
1 TTTT-TGAAAATTTTAAAATTTTTTAGAAT
13416056 ATTTTTGAAAATTTTAAAATTTTTTAGAAT
1 -TTTTTGAAAATTTTAAAATTTTTTAGAAT
13416086 TTTTT
1 TTTTT
13416091 TATTATTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
28 5 0.10
29 25 0.52
30 18 0.38
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTTTGAAAATTTTAAAATTTTTTAGAAT
Found at i:13416108 original size:22 final size:21
Alignment explanation
Indices: 13416074--13416116 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
13416064 AAATTTTAAA
* *
13416074 ATTTTTTAGAATTTTTTTATT
1 ATTTTTGAGAATTTTTGTATT
13416095 ATTTTTGAGAAATTTTTGTATT
1 ATTTTTGAG-AATTTTTGTATT
13416117 TACAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (21 bp):
ATTTTTGAGAATTTTTGTATT
Found at i:13416162 original size:20 final size:20
Alignment explanation
Indices: 13416126--13416163 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13416116 TTACAAATAA
*
13416126 TTTTTATAAATTTTTAGAAG
1 TTTTTATAAATTGTTAGAAG
13416146 TTTTTAT-AATTAGTTAGA
1 TTTTTATAAATT-GTTAGA
13416164 TTTTCTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTTATAAATTGTTAGAAG
Found at i:13416203 original size:12 final size:13
Alignment explanation
Indices: 13416186--13416215 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13416176 TTTTTATTAA
13416186 TTTTT-GAAATTT
1 TTTTTGGAAATTT
13416198 TTTTTGGAAATTT
1 TTTTTGGAAATTT
13416211 TTTTT
1 TTTTT
13416216 TTTTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (13 bp):
TTTTTGGAAATTT
Done.